Psyllid ID: psy17903

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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-----
Protein Sequence
MEAFLRTGKLGKDAPSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKTAV
Secondary Structure (PSIPRED)
cHHHHcccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccEEEEccccccHHHHHHHHHHHHccccccccEEEEcccccccHHHHHHHHHHHHHHHccccccccccccccEEEEEEccccccHHHHHHHHHHHHHcccccEEEEEcccccccccccccccccEEEccccHHHHHHHHHHHHHHccccccHHHHHHHHHHccccHHHHHHHHHHHHHHccccccccccHHHHcccccHHHHHHHHccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccEEccccccccccccccccccccccccccccccEEEcccccHHHHccHHHHHHHHHHHHHccccccEEEEccccccHHHHHHHHHHHHHcHHHHHHHHHHccccHccHHHHHHHHHHHHHHcccccccccccccccEEEEEccHHHccHHHHHHHHHHHHHHHcccEEEEEEccHHHcccHHHHccEEEEcccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHccHHHHHHHHHHHHHHHcccccccHHHHHHHHccccHHHHHHHHHcccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
meaflrtgklgkdapsssktsvstsgktrnkpvpwvekyrpktiddVIEQQEVVSVLKKClsgadlphflfygppgtgktstMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTAsgfnqdgkpcppfkivILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYvsciiqpltsrcskfrfkplaeNTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCarlkggegivnedvlevtgvipnpwiekllkvDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKTAV
Flexible Loop (DISEMBL)
meaflrtgklgkdapsssktsvstsgktrnkpvpwvekyrpktiddviEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTasgfnqdgkpcpPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVetsggdmrRAITCLQSCArlkggegivnedvlevtgvipnpwiekLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKTAV
Low Complexity Region (SEG)
MEAFLRTGKLGKDAPsssktsvstsgktRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKTAV
Disordered region (IsUnstruct)
*********************************PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA********************STRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK******
Disordered Region (DISOPRED)
**********************************WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQT***********PPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKTAV
Disordered Region (DISEMBL)
*******************************PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKTAV
Disordered Region (DISPRO)
******************************KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKTA*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEAFLRTGKLGKDAPSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKTAV
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	355	2.2.26 [Sep-21-2011]
P35249	363	Replication factor C subu	yes	N/A	0.980	0.958	0.561	1e-109
Q99J62	364	Replication factor C subu	yes	N/A	0.977	0.953	0.555	1e-108
Q09843	340	Replication factor C subu	yes	N/A	0.923	0.964	0.5	5e-88
P40348	353	Replication factor C subu	yes	N/A	0.873	0.878	0.495	4e-84
Q54MD4	347	Probable replication fact	yes	N/A	0.876	0.896	0.461	2e-81
P0C7N7	411	Replication factor C subu	N/A	N/A	0.904	0.781	0.412	1e-76
Q975D3	327	Replication factor C smal	yes	N/A	0.839	0.911	0.424	1e-66
Q9UXF5	330	Replication factor C smal	yes	N/A	0.887	0.954	0.419	5e-65
A3DNV9	329	Replication factor C smal	yes	N/A	0.830	0.896	0.445	1e-64
O28219	319	Replication factor C smal	yes	N/A	0.830	0.924	0.430	1e-64

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

 Score =  396 bits (1017), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 201/358 (56%), Positives = 263/358 (73%), Gaps = 10/358 (2%)

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

Query: 292 YSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK 349
           ++ATQL +Q HD+V+  ++LSDKQK++I EKLAE +  L DGA E++Q++ L + V++
Sbjct: 301 HAATQLVNQLHDVVVE-NNLSDKQKSIITEKLAEVDKCLADGADEHLQLISLCATVMQ 357

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 =  392 bits (1007), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 200/360 (55%), Positives = 262/360 (72%), Gaps = 13/360 (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 RRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLIL 289
           R+AIT LQS  RL GG+ +  + + ++ GVIP   I+ +       SF  LE  +++LI 
Sbjct: 239 RKAITFLQSATRLTGGKEVSEDVITDIAGVIPAATIDGIFTACHSGSFDKLEAVVKNLID 298

Query: 290 EAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK 349
           E ++ATQL +Q HD ++   +LSDK K++I EKLAE +  L DGA E++Q++ L + V++
Sbjct: 299 EGHAATQLVNQLHDAIIENENLSDKHKSIITEKLAEVDKCLADGADEHLQLMSLCATVMQ 358

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 =  324 bits (831), Expect = 5e-88,   Method: Compositional matrix adjust.
 Identities = 169/338 (50%), Positives = 216/338 (63%), Gaps = 10/338 (2%)

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 NEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSAS 309
              V E+ G +P   I  LL      +   +E    D+  E YS   +  Q HD+++   
Sbjct: 239 ISSVEELAGAVPYNIIRSLLDTAYTKNVSNIETLSRDVAAEGYSTGIILSQLHDVLLKEE 298

Query: 310 SLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIV 347
           +LS   K  I  KL+E + RL DGA E +Q+LDL S +
Sbjct: 299 TLSSPVKYKIFMKLSEVDKRLNDGADETLQLLDLLSSI 336

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 =  311 bits (798), Expect = 4e-84,   Method: Compositional matrix adjust.
 Identities = 159/321 (49%), Positives = 216/321 (67%), Gaps = 11/321 (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----LKGGEGIVNEDVLEVTGVIPN 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--FQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEK 322
              IE + KV S  F  ++KY+   +   +SA  + +Q H+  ++  +     K  I   
Sbjct: 266 DILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQISWL 325

Query: 323 LAECNARLQDGASEYIQILDL 343
           L   ++RL +G +E+IQ+L+L
Sbjct: 326 LFTTDSRLNNGTNEHIQLLNL 346

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 =  303 bits (775), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 150/325 (46%), Positives = 217/325 (66%), Gaps = 14/325 (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-EVTGVIPNPW 267
            +QE + C+    + +   S GDMR+AIT LQS  R    +  ++EDV+  + G +P   
Sbjct: 188 SQQEGIKCEESVYQAIQVVSNGDMRKAITYLQSAFRFFANK--ISEDVIYNIAGSLPPQL 245

Query: 268 IEKLL---KVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLA 324
           I++L+   K +SF  L+  ++ +I + Y  +Q+  Q  D V++   L+  QK+ I  K+ 
Sbjct: 246 IKQLVDCCKKNSFDRLQSMVQSIIAQGYPVSQVISQLFDYVLTTKDLNQSQKSHITMKIG 305

Query: 325 ECNARLQDGASEYIQILDLGSIVIK 349
             +  L DG+ E++Q+ DL S ++K
Sbjct: 306 NVDRNLIDGSEEFLQLFDLSSYIMK 330

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 =  286 bits (733), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 156/378 (41%), Positives = 212/378 (56%), Gaps = 57/378 (15%)

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----------------------------EGIVNEDVLEVTGVIPNPWIEKL---- 271
           RL G                               I  E + E+ GVIP P +       
Sbjct: 264 RLVGATQTAGRKKKVVVDDEDEMDIDPPSAPSKTTISLEQIAEIAGVIPAPTLASFSDAL 323

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

Query: 327 NARLQDGASEYIQILDLG 344
           + RL DG  E++ +LDLG
Sbjct: 384 DKRLVDGGDEHLAVLDLG 401

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 =  253 bits (646), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 133/313 (42%), Positives = 196/313 (62%), Gaps = 15/313 (4%)

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 SVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKL- 271
            V  D KALET+ + + GDMR+AI  LQ+ + + G   +  E V +V G+     I ++ 
Sbjct: 180 KVEYDQKALETIYDITQGDMRKAINILQASS-VYG--KVTVEAVYKVLGLAQPKEIREMI 236

Query: 272 ---LKVDSFQVLEKYIEDLILEAYSATQLFDQFH-DIVMSASSLSDKQKALILEKLAECN 327
              L+ +  +  EK  E L+    S   +  Q H ++  +  ++ D  K L+++ + E  
Sbjct: 237 MLALQGNFLKAREKLRELLVNYGLSGEDIIKQIHREVTGNEINIPDDLKVLLVDYIGEVE 296

Query: 328 ARLQDGASEYIQI 340
            R+ +GA + IQ+
Sbjct: 297 YRIMEGADDEIQL 309

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|Q9UXF5|RFCS_SULSO Replication factor C small subunit OS=Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) GN=rfcS PE=1 SV=1

 Score =  248 bits (633), Expect = 5e-65,   Method: Compositional matrix adjust.
 Identities = 139/331 (41%), Positives = 199/331 (60%), Gaps = 16/331 (4%)

Query: 28  TRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAAC 87
           T+ + + W EKYRPKT+DD++ Q+E++  LKK +   ++PH LF GPPGTGKT+  +A  
Sbjct: 3   TKVEEILWAEKYRPKTLDDIVNQREIIDRLKKFVKEKNMPHLLFAGPPGTGKTTAALALV 62

Query: 88  HQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEAD 147
           H L+GD Y E  LELNASD+RGI VIR+KVK FA+    G         PFK+V+LDEAD
Sbjct: 63  HDLYGDNYTEYFLELNASDERGIDVIRNKVKEFARTVIPG-------DIPFKVVLLDEAD 115

Query: 148 SMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQY 207
           +MT  AQ ALRRTME  T++TRF L CNY+S II+P+ SR + FRF PL +  ++ RL Y
Sbjct: 116 NMTADAQQALRRTMELYTENTRFILACNYLSKIIEPIQSRTALFRFYPLKKEDVVNRLIY 175

Query: 208 ICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPW 267
           I + E    D KALET+ + + GDMR++I  LQ+ +       I  E V +V G+     
Sbjct: 176 IAKNEKAEYDQKALETIYDITMGDMRKSINILQAAS---AYGKISVEAVFKVLGLAQPKE 232

Query: 268 IEKLLKV---DSF-QVLEKYIEDLILEAYSATQLFDQFH-DIVMSASSLSDKQKALILEK 322
           + +++ +     F Q  +K    LI    S   +  Q H +I  S   +S++ + L+L+ 
Sbjct: 233 VREMINLALQGKFTQARDKLRTLLITYGLSGEDIVKQIHREITSSEIQISEELRVLLLDY 292

Query: 323 LAECNARLQDGASEYIQILD-LGSIVIKANK 352
           + E   R+ +GA + IQ+   L  + I  NK
Sbjct: 293 IGETEFRIIEGADDEIQLSALLAKMAIYGNK 323

Part of the RFC clamp loader complex which loads the PCNA sliding clamp onto DNA. The complex possesses DNA-dependent ATPase activity.

Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) (taxid: 273057)

>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 =  246 bits (629), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 139/312 (44%), Positives = 191/312 (61%), Gaps = 17/312 (5%)

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 MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNED-VLEVTGVIPNPWIEKLLK 273
             D +ALE + + S GDMRRAI  LQ+ A L    G V  D V +V G+     I ++++
Sbjct: 186 EIDEEALEAIHDLSEGDMRRAINILQAAAAL----GKVTVDSVYKVVGLAHPREIRQMIQ 241

Query: 274 V----DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSAS-SLSDKQKALILEKLAECNA 328
           +    +     EK  E +I    S   +  Q H  + S    + D+ K +I +   E   
Sbjct: 242 LALAGNFNDAREKLRELMINYGLSGVDVIKQVHREIFSTDIKIPDEFKIIIADLAGEIQF 301

Query: 329 RLQDGASEYIQI 340
           RL +GA + IQ+
Sbjct: 302 RLVEGADDEIQL 313

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)

>sp|O28219|RFCS_ARCFU Replication factor C small subunit OS=Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126) GN=rfcS PE=1 SV=1

 Score =  246 bits (629), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 134/311 (43%), Positives = 192/311 (61%), Gaps = 16/311 (5%)

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 MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV 274
                 LE L+  SGGD R+AI  LQ  A +  GE +  + + ++T       + +L++ 
Sbjct: 180 KITEDGLEALIYISGGDFRKAINALQGAAAI--GEVVDADTIYQITATARPEEMTELIQT 237

Query: 275 ---DSFQVLEKYIEDLILE-AYSATQLFDQ-FHDIVMSASSLSDKQKALILEKLAECNAR 329
               +F    + ++ L++E   S   +  Q F +I+  +  + D  K  +++KL E + R
Sbjct: 238 ALKGNFMEARELLDRLMVEYGMSGEDIVAQLFREII--SMPIKDSLKVQLIDKLGEVDFR 295

Query: 330 LQDGASEYIQI 340
           L +GA+E IQ+
Sbjct: 296 LTEGANERIQL 306

Part of the RFC clamp loader complex which loads the PCNA sliding clamp onto DNA. The complex possesses DNA-dependent ATPase activity which is further stimulated by PCNA.

Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126) (taxid: 224325)

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	355
193702269	359	PREDICTED: replication factor C subunit	0.991	0.980	0.617	1e-126
91081833	355	PREDICTED: similar to replication factor	0.977	0.977	0.629	1e-124
195389432	356	GJ23369 [Drosophila virilis] gi|19415146	0.991	0.988	0.598	1e-124
195038153	356	GH18198 [Drosophila grimshawi] gi|193894	0.991	0.988	0.592	1e-124
170030843	355	replication factor C subunit 4 [Culex qu	0.977	0.977	0.604	1e-121
195111460	354	GI10150 [Drosophila mojavensis] gi|19391	0.985	0.988	0.584	1e-121
157167248	358	replication factor C, 37-kDa subunit, pu	0.983	0.974	0.628	1e-120
195163892	354	GL14564 [Drosophila persimilis] gi|19410	0.985	0.988	0.587	1e-118
18859927	353	CG8142 [Drosophila melanogaster] gi|1786	0.983	0.988	0.581	1e-118
357617013	350	replication factor C4 [Danaus plexippus]	0.977	0.991	0.585	1e-118

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

 Score =  457 bits (1175), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 221/358 (61%), Positives = 277/358 (77%), Gaps = 6/358 (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  KCLS-GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV 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 CLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLL---KVDSFQVLEKYIEDLILEAYSA 294
            LQS ARLKG  GI   DVLEV G +P+ W+++++   ++  +Q ++ ++EDLI EAYSA
Sbjct: 241 SLQSTARLKGEVGIEEVDVLEVVGTVPDIWLDRMIDMGRMYDYQKMDGFVEDLIFEAYSA 300

Query: 295 TQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANK 352
           +Q+ +Q HD ++ ++ L D QKA+I + ++ C  RLQ+G SEY+ +L+L   V KA K
Sbjct: 301 SQILEQLHDKIVFSTDLKDNQKAIICKSISICAYRLQEGCSEYVTLLNLLCSVAKALK 358

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 =  451 bits (1160), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 223/354 (62%), Positives = 278/354 (78%), Gaps = 7/354 (1%)

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

Query: 297 LFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA 350
           + +Q +  +++    +D+QKA+I +KL   + +LQDG SE+IQ+LDLG  +I+A
Sbjct: 298 ILEQLNQYIVNFEGFTDQQKAIIGQKLGVVSFKLQDGGSEFIQLLDLGCSIIRA 351

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score =  451 bits (1159), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 213/356 (59%), Positives = 272/356 (76%), Gaps = 4/356 (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-EDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ 296
           SC RLKG E  +N +D+LE++G+IP  ++E  L+V    +++ LE ++ ++   AYS  Q
Sbjct: 241 SCYRLKGAEHTINTDDLLEMSGIIPEHYLEDYLEVCRSGNYERLEHFVREIGYSAYSVGQ 300

Query: 297 LFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANK 352
           + DQF + ++   SL+DKQKA+I +KL EC  RLQDG SEY+QI+DLG  +I A K
Sbjct: 301 MMDQFVEFIVRCGSLTDKQKAIICDKLGECCYRLQDGGSEYLQIMDLGCTIILALK 356

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score =  450 bits (1158), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 211/356 (59%), Positives = 276/356 (77%), Gaps = 4/356 (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-EDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ 296
           SC RLKG E  +N +D+LE++G+IP  +++  L+V    +++ LE ++ ++   AYS  Q
Sbjct: 241 SCYRLKGAEHTINSDDLLEMSGIIPEHYLDDYLEVCRSGNYERLEHFVREIGYSAYSVGQ 300

Query: 297 LFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANK 352
           + +QF + V+   SL+DKQKA+I +KL EC  RLQDG SEY+QI+DLG  +I A K
Sbjct: 301 MMEQFVEYVVRCGSLTDKQKAIICDKLGECCYRLQDGGSEYLQIMDLGCTIILALK 356

Source: Drosophila grimshawi

Species: Drosophila grimshawi

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 =  441 bits (1133), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 214/354 (60%), Positives = 271/354 (76%), Gaps = 7/354 (1%)

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

Query: 297 LFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA 350
           LF+Q  D ++    L+DKQK+ I +K+ +C  RLQ G SEYIQI+DLG + I+A
Sbjct: 298 LFEQLTDFIIMHEGLTDKQKSTICDKIGDCCFRLQGGGSEYIQIMDLGCVTIQA 351

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score =  439 bits (1130), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 208/356 (58%), Positives = 273/356 (76%), Gaps = 6/356 (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-EDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ 296
           SC RLKG +  +N +D+LE++G+IP  ++E  L+V     ++ LE ++ ++   AYS  Q
Sbjct: 239 SCYRLKGSDHTINTDDLLEMSGIIPEHYLEDYLEVCRSGKYERLEHFVREIGYSAYSVGQ 298

Query: 297 LFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANK 352
           + +QF + ++   SL+DKQKA+I +KL EC  RLQDG SEY+QI+DLG  +I A K
Sbjct: 299 MMEQFVEFIVRCGSLTDKQKAIICDKLGECCYRLQDGGSEYLQIMDLGCTIILALK 354

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

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 =  438 bits (1126), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 223/355 (62%), Positives = 279/355 (78%), Gaps = 6/355 (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-IVNEDVLEVTGVIPNPWIEKLL---KVDSFQVLEKYIEDLILEAYSAT 295
           QSC RLKG E  I + D+LE++GV+P  ++E  +   K  ++  LE Y+ +L  +AYS  
Sbjct: 240 QSCHRLKGKEAKIQHTDILEMSGVVPRKYLEDFVSVCKTANYGKLEDYVRNLTYDAYSVG 299

Query: 296 QLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA 350
           QLF+Q  + V+    LSDKQK++I +KL EC  RLQ G SEYIQI+DLG + I+A
Sbjct: 300 QLFEQLTEFVVLHDGLSDKQKSIICDKLGECCFRLQGGGSEYIQIMDLGCVTIQA 354

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195163892|ref|XP_002022783.1| GL14564 [Drosophila persimilis] gi|194104806|gb|EDW26849.1| GL14564 [Drosophila persimilis]

 Score =  431 bits (1108), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 209/356 (58%), Positives = 269/356 (75%), Gaps = 6/356 (1%)

Query: 1   MEAFLRTGKLGKDAPSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKC 60
           M+AFL+TGK G  A S S      + + R  P PWVEKYRP+++DDV+EQ EVV+VL+KC
Sbjct: 1   MQAFLKTGKSG--ASSGSDKPQGGTVERRKPPAPWVEKYRPRSVDDVVEQSEVVAVLRKC 58

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

Query: 121 AQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCI 180
           +Q +AS    DG+P PPFKI+ILDEADSMTHAAQ+ALRRTMEKE+ STRFCLICNYVS I
Sbjct: 119 SQLSASHVRPDGRPVPPFKIIILDEADSMTHAAQSALRRTMEKESSSTRFCLICNYVSRI 178

Query: 181 IQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ 240
           I P+TSRCSKFRFKPL E  ++ RLQ+ICE ESV  D  A +T+V+ SGGD+RRAIT LQ
Sbjct: 179 IVPITSRCSKFRFKPLGEEKIIARLQHICELESVKIDPDAYKTIVKISGGDLRRAITTLQ 238

Query: 241 SCARLKGGEGIVN-EDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ 296
           SC RL+G E  +N  D+ E++GVIP+  ++  + V    +++ LE+++ D+   AYS  Q
Sbjct: 239 SCFRLQGSEHTINTADLFEMSGVIPDYLLDDFMDVCRSGNYERLEQFVRDIGYSAYSVGQ 298

Query: 297 LFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANK 352
           + +Q  + ++   +L+D QKA I EKL EC  RLQDG SEY+QI+DLG  +I A K
Sbjct: 299 MMEQLVEFIVHHPNLTDPQKAKICEKLGECCYRLQDGGSEYLQIMDLGCCIILALK 354

Source: Drosophila persimilis

Species: Drosophila persimilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|18859927|ref|NP_573245.1| CG8142 [Drosophila melanogaster] gi|17862532|gb|AAL39743.1| LD35209p [Drosophila melanogaster] gi|22832754|gb|AAF48768.2| CG8142 [Drosophila melanogaster]

 Score =  431 bits (1108), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 207/356 (58%), Positives = 267/356 (75%), Gaps = 7/356 (1%)

Query: 1   MEAFLRTGKLGKDAPSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKC 60
           M+AFL+TGK       S   S  T    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 SCARLKGGEGIVN-EDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ 296
           SC RLKG E I+N  D+ E++GVIP  ++E  L+V    +++ LE+++ ++   AYS  Q
Sbjct: 238 SCYRLKGPEHIINTADLFEMSGVIPEYYLEDYLEVCRSGNYERLEQFVREIGFSAYSVGQ 297

Query: 297 LFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANK 352
           + +QF + ++    L+D QKA I +KL EC  RLQDG SEY+QI+DLG  +I A K
Sbjct: 298 MMEQFVEFIVHHPGLNDPQKATICDKLGECCFRLQDGGSEYLQIMDLGCCIILALK 353

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357617013|gb|EHJ70534.1| replication factor C4 [Danaus plexippus]

 Score =  431 bits (1107), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 208/355 (58%), Positives = 271/355 (76%), Gaps = 8/355 (2%)

Query: 1   MEAFLRTGKLGKDAPSSSKTSVSTSGKTRNK-PVPWVEKYRPKTIDDVIEQQEVVSVLKK 59
           M+AFL+TGK+     S+ K S S    T+ K P PWVEKYRPKTIDD+++Q EVV VL++
Sbjct: 1   MQAFLKTGKIS----STDKPSTSGVKSTKKKAPAPWVEKYRPKTIDDIVDQGEVVQVLRE 56

Query: 60  CLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT 119
           CL+G DLPH LFYGPPGTGKTS ++AA  QLFGD+ RER+LELNASD+RGIQVIRDKVKT
Sbjct: 57  CLAGGDLPHLLFYGPPGTGKTSAILAAARQLFGDITRERVLELNASDERGIQVIRDKVKT 116

Query: 120 FAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSC 179
           FAQ T S    DG+PCPP+K+VILDEADSMT AAQAALRRTME+ET++TRFCLICNYVS 
Sbjct: 117 FAQLTVSNTRPDGRPCPPYKLVILDEADSMTTAAQAALRRTMERETRTTRFCLICNYVSR 176

Query: 180 IIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESV-MCDFKALETLVETSGGDMRRAITC 238
           II P+TSRCSKFRFKPLA   ++ RLQ +C+ E+V + D + L   V+T GGD+RRA+T 
Sbjct: 177 IIPPITSRCSKFRFKPLARENVIKRLQEVCKSEAVEVGDGEVLHQAVDTCGGDLRRALTA 236

Query: 239 LQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLF 298
           LQ C RL G   I  + ++EVTG++P   +++ L V ++  LE+++E+ +++AYSA+QL 
Sbjct: 237 LQCCQRLLG--KITADGLIEVTGLVPENLVDEFLNVKNYNELERFVENFLMDAYSASQLL 294

Query: 299 DQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKT 353
           +Q  + V++A  L++KQK +I EKLA C+ RL +G +E +Q+ DLG  VI AN  
Sbjct: 295 EQLSERVVNAGHLTNKQKCVISEKLAVCSHRLLEGGAEVMQLTDLGCTVIMANNN 349

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

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	355
FB|FBgn0030871	353	CG8142 [Drosophila melanogaste	0.983	0.988	0.573	3.5e-107
UNIPROTKB|F1NEW1	362	RFC4 "Uncharacterized protein"	0.983	0.964	0.570	1.7e-100
UNIPROTKB|F1NIY0	359	RFC4 "Uncharacterized protein"	0.983	0.972	0.570	1.7e-100
UNIPROTKB|E2R2M6	363	RFC4 "Uncharacterized protein"	0.983	0.961	0.560	3.9e-99
ZFIN|ZDB-GENE-040824-3	358	rfc4 "replication factor C (ac	0.980	0.972	0.541	7.4e-98
UNIPROTKB|P35249	363	RFC4 "Replication factor C sub	0.980	0.958	0.555	1.2e-97
RGD|1310142	364	Rfc4 "replication factor C (ac	0.895	0.873	0.608	2e-97
UNIPROTKB|F1SFI3	366	RFC4 "Uncharacterized protein"	0.983	0.953	0.544	1.1e-96
MGI|MGI:2146571	364	Rfc4 "replication factor C (ac	0.895	0.873	0.598	2.9e-96
UNIPROTKB|Q29RS9	337	RFC4 "Uncharacterized protein"	0.746	0.786	0.586	7.8e-95

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

 Score = 1060 (378.2 bits), Expect = 3.5e-107, P = 3.5e-107
 Identities = 204/356 (57%), Positives = 264/356 (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-DVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ 296
             SC RLKG E I+N  D+ E++GVIP  ++E  L+V    +++ LE+++ ++   AYS  Q
Sbjct:   238 SCYRLKGPEHIINTADLFEMSGVIPEYYLEDYLEVCRSGNYERLEQFVREIGFSAYSVGQ 297

Query:   297 LFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANK 352
             + +QF + ++    L+D QKA I +KL EC  RLQDG SEY+QI+DLG  +I A K
Sbjct:   298 MMEQFVEFIVHHPGLNDPQKATICDKLGECCFRLQDGGSEYLQIMDLGCCIILALK 353

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

 Score = 997 (356.0 bits), Expect = 1.7e-100, P = 1.7e-100
 Identities = 203/356 (57%), Positives = 257/356 (72%)

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

Query:   294 ATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK 349
               QL +Q HDIV+ +   SDKQK++I+EKLAE +  L DGA EY+Q++ L ++V++
Sbjct:   301 VAQLVNQLHDIVVESEDFSDKQKSIIVEKLAEVDKCLADGADEYLQLISLCALVMQ 356

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 = 997 (356.0 bits), Expect = 1.7e-100, P = 1.7e-100
 Identities = 203/356 (57%), Positives = 257/356 (72%)

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

Query:   294 ATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK 349
               QL +Q HDIV+ +   SDKQK++I+EKLAE +  L DGA EY+Q++ L ++V++
Sbjct:   301 VAQLVNQLHDIVVESEDFSDKQKSIIVEKLAEVDKCLADGADEYLQLISLCALVMQ 356

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 = 984 (351.4 bits), Expect = 3.9e-99, P = 3.9e-99
 Identities = 200/357 (56%), Positives = 255/357 (71%)

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

Query:   293 SATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK 349
             +ATQL  QFHD+V+   +LSDKQK++I EKLAE +  L DGA E++Q++ L + V++
Sbjct:   301 AATQLVSQFHDVVVENDNLSDKQKSIITEKLAEADKCLADGADEHLQLISLCATVMQ 357

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

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

 Score = 972 (347.2 bits), Expect = 7.4e-98, P = 7.4e-98
 Identities = 191/353 (54%), Positives = 254/353 (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 QSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ 296
             QS ARL     I  + ++E+ GV+P   I+ LL +    +F+ LE  ++D+I + Y+AT 
Sbjct:   241 QSGARLNSEREITEQTIIEIAGVVPPKVIQSLLHICYKGTFEKLEVAVKDMIDQGYAATN 300

Query:   297 LFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK 349
             L +Q HD+++    LSDKQK++I EK+AE +  L DGA EY+Q+L L S++++
Sbjct:   301 LLNQLHDVIIE-EQLSDKQKSVITEKMAEVDKCLADGADEYLQLLSLCSVIMQ 352

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

 Score = 970 (346.5 bits), Expect = 1.2e-97, P = 1.2e-97
 Identities = 199/358 (55%), Positives = 257/358 (71%)

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

Query:   292 YSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK 349
             ++ATQL +Q HD+V+  ++LSDKQK++I EKLAE +  L DGA E++Q++ L + V++
Sbjct:   301 HAATQLVNQLHDVVVE-NNLSDKQKSIITEKLAEVDKCLADGADEHLQLISLCATVMQ 357

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 = 968 (345.8 bits), Expect = 2.0e-97, P = 2.0e-97
 Identities = 197/324 (60%), Positives = 249/324 (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-EVTGVIPNPWI 268
             E+E+V    + +  LV  S GD+R+AIT LQS  RL GG+ I +EDV+ ++ GVIP   I
Sbjct:   216 EKENVKIGDEEIAYLVRISEGDLRKAITFLQSATRLTGGKEI-SEDVITDIAGVIPAATI 274

Query:   269 EKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAE 325
             E ++      SF  LE  +++LI E ++ATQL +Q HD ++   +LSDKQK++I EKLAE
Sbjct:   275 EGIVTACHSGSFDKLEAVLKNLIDEGHAATQLVNQLHDSIIEDENLSDKQKSIITEKLAE 334

Query:   326 CNARLQDGASEYIQILDLGSIVIK 349
              +  L DGA E++Q++ L + V++
Sbjct:   335 VDKCLADGADEHLQLMSLCATVMQ 358

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

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

 Score = 961 (343.3 bits), Expect = 1.1e-96, P = 1.1e-96
 Identities = 196/360 (54%), Positives = 255/360 (70%)

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

Query:   290 EAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK 349
             E ++ATQ  +Q HD+V+   +LSDKQK++I EKLAE +  L DGA E++Q++ L + V++
Sbjct:   301 EGHAATQFVNQLHDVVVENDNLSDKQKSVITEKLAEADKCLADGADEHLQLISLCATVMQ 360

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

MGI|MGI:2146571 Rfc4 "replication factor C (activator 1) 4" [Mus musculus (taxid:10090)]

 Score = 957 (341.9 bits), Expect = 2.9e-96, P = 2.9e-96
 Identities = 194/324 (59%), Positives = 247/324 (76%)

Query:    31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL 90
             KPVPWVEKYRPK +D+V  Q EVV+VL+K L GADLP+ LFYGPPGTGKTST++AA  +L
Sbjct:    36 KPVPWVEKYRPKCVDEVAFQDEVVAVLRKSLEGADLPNLLFYGPPGTGKTSTILAAAREL 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 TSAAQAALRRTMEKESKTTRFCLICNYVSRIIEPLTSRCSKFRFKPLSDKIQQERLLDIA 215

Query:   210 EQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVL-EVTGVIPNPWI 268
             E+E+V    + +  LV+ S GD+R+AIT LQS  RL GG+  V+EDV+ ++ GVIP   I
Sbjct:   216 EKENVKIGNEEIAYLVKISEGDLRKAITFLQSATRLTGGKE-VSEDVITDIAGVIPAATI 274

Query:   269 EKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAE 325
             + +       SF  LE  +++LI E ++ATQL +Q HD ++   +LSDK K++I EKLAE
Sbjct:   275 DGIFTACHSGSFDKLEAVVKNLIDEGHAATQLVNQLHDAIIENENLSDKHKSIITEKLAE 334

Query:   326 CNARLQDGASEYIQILDLGSIVIK 349
              +  L DGA E++Q++ L + V++
Sbjct:   335 VDKCLADGADEHLQLMSLCATVMQ 358

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

GO:0006260 "DNA replication" evidence=IEA

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

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

 Score = 800 (286.7 bits), Expect = 7.8e-95, Sum P(2) = 7.8e-95
 Identities = 159/271 (58%), Positives = 197/271 (72%)

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 AITCLQSCARLKGGEGIVNEDVLEVTGVIPN 265
             AIT LQS  RL GG+ +  + + ++ G + N
Sbjct:   241 AITFLQSATRLTGGKEVTEKVITDIAGDLIN 271

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)
A3MS28	RFCS_PYRCJ	No assigned EC number	0.3957	0.8338	0.9079	yes	N/A
B0R7H7	RFCS_HALS3	No assigned EC number	0.3645	0.8309	0.9161	yes	N/A
A6US36	RFCS_METVS	No assigned EC number	0.375	0.8112	0.9142	yes	N/A
Q09843	RFC2_SCHPO	No assigned EC number	0.5	0.9239	0.9647	yes	N/A
O26343	RFCS_METTH	No assigned EC number	0.3682	0.8338	0.9221	yes	N/A
Q9HI47	RFCS_THEAC	No assigned EC number	0.3910	0.8253	0.9213	yes	N/A
Q6L1I0	RFCS_PICTO	No assigned EC number	0.4121	0.8225	0.9182	yes	N/A
P40348	RFC2_YEAST	No assigned EC number	0.4953	0.8732	0.8781	yes	N/A
A9A6K6	RFCS_METM6	No assigned EC number	0.3687	0.8112	0.9142	yes	N/A
A1RSA2	RFCS1_PYRIL	No assigned EC number	0.4174	0.8478	0.9148	yes	N/A
Q6M044	RFCS_METMP	No assigned EC number	0.3656	0.8112	0.9142	yes	N/A
Q8TSX5	RFCS_METAC	No assigned EC number	0.3584	0.8422	0.8846	yes	N/A
Q9YBS7	RFCS_AERPE	No assigned EC number	0.4230	0.8309	0.9076	yes	N/A
Q4JAB0	RFCS_SULAC	No assigned EC number	0.4121	0.8394	0.9169	yes	N/A
Q9HN27	RFCS_HALSA	No assigned EC number	0.3645	0.8309	0.9161	yes	N/A
A6VJ61	RFCS_METM7	No assigned EC number	0.3687	0.8112	0.9142	yes	N/A
Q9UXF5	RFCS_SULSO	No assigned EC number	0.4199	0.8873	0.9545	yes	N/A
Q3ITJ2	RFCS_NATPD	No assigned EC number	0.3704	0.8169	0.8923	yes	N/A
Q5UZE5	RFCS_HALMA	No assigned EC number	0.3774	0.8309	0.9076	yes	N/A
Q977Z9	RFCS_THEVO	No assigned EC number	0.3792	0.8309	0.9276	yes	N/A
P53016	RFC4_CAEEL	No assigned EC number	0.3981	0.8760	0.9311	yes	N/A
P35249	RFC4_HUMAN	No assigned EC number	0.5614	0.9802	0.9586	yes	N/A
O28219	RFCS_ARCFU	No assigned EC number	0.4308	0.8309	0.9247	yes	N/A
A4FZ74	RFCS_METM5	No assigned EC number	0.3656	0.8112	0.9142	yes	N/A
Q99J62	RFC4_MOUSE	No assigned EC number	0.5555	0.9774	0.9532	yes	N/A
Q0W037	RFCS_UNCMA	No assigned EC number	0.3801	0.8253	0.9099	yes	N/A
Q54MD4	RFC4_DICDI	No assigned EC number	0.4615	0.8760	0.8962	yes	N/A
A4WGV2	RFCS1_PYRAR	No assigned EC number	0.4071	0.8197	0.8844	yes	N/A
P60374	RFCS_NANEQ	No assigned EC number	0.4018	0.8084	0.8913	yes	N/A
Q8ZYK4	RFCS1_PYRAE	No assigned EC number	0.4083	0.8309	0.8966	yes	N/A
Q46C63	RFCS_METBF	No assigned EC number	0.3781	0.8366	0.8892	yes	N/A
Q8PVY4	RFCS_METMA	No assigned EC number	0.3647	0.8422	0.8846	yes	N/A
Q975D3	RFCS_SULTO	No assigned EC number	0.4249	0.8394	0.9113	yes	N/A
A1RWU7	RFCS_THEPD	No assigned EC number	0.4085	0.8704	0.9507	yes	N/A
A3DNV9	RFCS_STAMF	No assigned EC number	0.4455	0.8309	0.8966	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	355
PRK00440	319	PRK00440, rfc, replication factor C small subunit;	1e-111
PLN03025	319	PLN03025, PLN03025, replication factor C subunit;	3e-80
PRK12402	337	PRK12402, PRK12402, replication factor C small sub	3e-59
PRK04132	846	PRK04132, PRK04132, replication factor C small sub	9e-52
PHA02544	316	PHA02544, 44, clamp loader, small subunit; Provisi	3e-39
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	1e-37
PRK14953	486	PRK14953, PRK14953, DNA polymerase III subunits ga	2e-29
TIGR02397	355	TIGR02397, dnaX_nterm, DNA polymerase III, subunit	3e-29
PRK14962	472	PRK14962, PRK14962, DNA polymerase III subunits ga	2e-27
COG2812	515	COG2812, DnaX, DNA polymerase III, gamma/tau subun	6e-24
PRK07133	725	PRK07133, PRK07133, DNA polymerase III subunits ga	2e-22
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	9e-22
PRK05563	559	PRK05563, PRK05563, DNA polymerase III subunits ga	3e-21
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	1e-20
COG0470	230	COG0470, HolB, ATPase involved in DNA replication	9e-19
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	7e-18
PRK06645	507	PRK06645, PRK06645, DNA polymerase III subunits ga	2e-17
PRK14961	363	PRK14961, PRK14961, DNA polymerase III subunits ga	2e-17
PRK14963	504	PRK14963, PRK14963, DNA polymerase III subunits ga	5e-17
PRK14965	576	PRK14965, PRK14965, DNA polymerase III subunits ga	1e-16
PRK14950	585	PRK14950, PRK14950, DNA polymerase III subunits ga	7e-16
PRK14970	367	PRK14970, PRK14970, DNA polymerase III subunits ga	1e-15
PRK08451	535	PRK08451, PRK08451, DNA polymerase III subunits ga	2e-15
PRK06305	451	PRK06305, PRK06305, DNA polymerase III subunits ga	1e-14
PRK08691	709	PRK08691, PRK08691, DNA polymerase III subunits ga	5e-14
PRK05896	605	PRK05896, PRK05896, DNA polymerase III subunits ga	2e-13
PRK14969	527	PRK14969, PRK14969, DNA polymerase III subunits ga	2e-13
TIGR00678	188	TIGR00678, holB, DNA polymerase III, delta' subuni	3e-13
PRK04132	846	PRK04132, PRK04132, replication factor C small sub	5e-13
PRK14964	491	PRK14964, PRK14964, DNA polymerase III subunits ga	6e-13
pfam08542	89	pfam08542, Rep_fac_C, Replication factor C C-termi	2e-12
PRK14971	614	PRK14971, PRK14971, DNA polymerase III subunits ga	3e-12
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	4e-12
PRK14956	484	PRK14956, PRK14956, DNA polymerase III subunits ga	4e-12
PRK14952	584	PRK14952, PRK14952, DNA polymerase III subunits ga	5e-12
PRK14951	618	PRK14951, PRK14951, DNA polymerase III subunits ga	7e-12
PRK13341	725	PRK13341, PRK13341, recombination factor protein R	4e-11
PRK14955	397	PRK14955, PRK14955, DNA polymerase III subunits ga	4e-11
PRK14954	620	PRK14954, PRK14954, DNA polymerase III subunits ga	5e-11
pfam13177	161	pfam13177, DNA_pol3_delta2, DNA polymerase III, de	8e-11
PRK14959	624	PRK14959, PRK14959, DNA polymerase III subunits ga	3e-10
PRK12323	700	PRK12323, PRK12323, DNA polymerase III subunits ga	5e-10
PRK07399	314	PRK07399, PRK07399, DNA polymerase III subunit del	5e-10
PRK14957	546	PRK14957, PRK14957, DNA polymerase III subunits ga	6e-10
PRK14960	702	PRK14960, PRK14960, DNA polymerase III subunits ga	6e-10
PRK06647	563	PRK06647, PRK06647, DNA polymerase III subunits ga	1e-08
PRK07003	830	PRK07003, PRK07003, DNA polymerase III subunits ga	1e-08
smart00382	148	smart00382, AAA, ATPases associated with a variety	2e-08
PRK14958	509	PRK14958, PRK14958, DNA polymerase III subunits ga	4e-08
PRK14948	620	PRK14948, PRK14948, DNA polymerase III subunits ga	1e-07
TIGR02902	531	TIGR02902, spore_lonB, ATP-dependent protease LonB	1e-07
PRK09112	351	PRK09112, PRK09112, DNA polymerase III subunit del	1e-07
PRK00080	328	PRK00080, ruvB, Holliday junction DNA helicase Ruv	2e-07
TIGR00602	637	TIGR00602, rad24, checkpoint protein rad24	2e-07
pfam03215	490	pfam03215, Rad17, Rad17 cell cycle checkpoint prot	2e-07
pfam05496	231	pfam05496, RuvB_N, Holliday junction DNA helicase	2e-06
COG2255	332	COG2255, RuvB, Holliday junction resolvasome, heli	2e-06
COG1474	366	COG1474, CDC6, Cdc6-related protein, AAA superfami	2e-06
PRK07471	365	PRK07471, PRK07471, DNA polymerase III subunit del	2e-06
pfam13086	220	pfam13086, AAA_11, AAA domain	5e-05
PRK05564	313	PRK05564, PRK05564, DNA polymerase III subunit del	6e-05
PRK05707	328	PRK05707, PRK05707, DNA polymerase III subunit del	1e-04
PRK06871	325	PRK06871, PRK06871, DNA polymerase III subunit del	1e-04
PRK07764	824	PRK07764, PRK07764, DNA polymerase III subunits ga	2e-04
TIGR00635	305	TIGR00635, ruvB, Holliday junction DNA helicase, R	5e-04
pfam01078	207	pfam01078, Mg_chelatase, Magnesium chelatase, subu	6e-04
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	0.001
TIGR00368	499	TIGR00368, TIGR00368, Mg chelatase-related protein	0.001
TIGR02928	365	TIGR02928, TIGR02928, orc1/cdc6 family replication	0.002
PRK07940	394	PRK07940, PRK07940, DNA polymerase III subunit del	0.004
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	0.004

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

 Score =  326 bits (839), Expect = e-111
 Identities = 129/311 (41%), Positives = 188/311 (60%), Gaps = 14/311 (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 VMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLK 273
           +     ALE +   S GDMR+AI  LQ+ A    G+ +  E V ++TG      I ++++
Sbjct: 179 IEITDDALEAIYYVSEGDMRKAINALQAAAAT--GKEVTEEAVYKITGTARPEEIREMIE 236

Query: 274 V---DSFQVLEKYIEDL-ILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNAR 329
           +     F    + + DL I    S   +  Q H  V S   + ++ K  +++ + E + R
Sbjct: 237 LALNGDFTEAREKLRDLMIDYGLSGEDIIKQIHREVWS-LDIPEELKVELIDAIGEADFR 295

Query: 330 LQDGASEYIQI 340
           + +GA+E IQ+
Sbjct: 296 ITEGANERIQL 306

Length = 319

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

 Score =  247 bits (633), Expect = 3e-80
 Identities = 126/327 (38%), Positives = 183/327 (55%), Gaps = 38/327 (11%)

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-EDVLEVTGVIPNPWIE 269
            E V    + LE ++ T+ GDMR+A+  LQ+      G G VN E+V +V    P+P   
Sbjct: 173 AEKVPYVPEGLEAIIFTADGDMRQALNNLQATH---SGFGFVNQENVFKVCDQ-PHPLHV 228

Query: 270 KLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSL----------SDKQKALI 319
           K        ++   ++    +A    +   Q +D+  S + +           D  + L 
Sbjct: 229 K-------NIVRNCLKGKFDDACDGLK---QLYDLGYSPTDIITTLFRVVKNYDMPEFLK 278

Query: 320 LEKLAE---CNARLQDGASEYIQILDL 343
           LE L E    + R+ DG    +Q+  L
Sbjct: 279 LEYLREIGFAHMRICDGVGSLLQLSGL 305

Length = 319

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

 Score =  194 bits (494), Expect = 3e-59
 Identities = 100/333 (30%), Positives = 159/333 (47%), Gaps = 35/333 (10%)

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-NPWIEKLL---KVDSFQVLEKYIEDLIL-EAYSATQLFDQFHDIVMS 307
            E   E  G +  +  IE LL   +   F    K ++DL++ E  S  ++ ++   +   
Sbjct: 239 MEAAYEALGDVGTDEVIESLLDAAEAGDFTDARKTLDDLLIDEGLSGGEVLEELLRVA-- 296

Query: 308 ASSLSDKQKALILEKLAECNARLQDGASEYIQI 340
            S       A +    A+ +ARL DGA++ IQ+
Sbjct: 297 RSRYRGDNLARLHRLAADADARLTDGANDRIQL 329

Length = 337

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

 Score =  183 bits (466), Expect = 9e-52
 Identities = 105/265 (39%), Positives = 152/265 (57%), Gaps = 14/265 (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 TGVIPNPWIEKL----LKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQ 315
                   I ++    LK +  +  EK  E L+ +  S   +  Q H  V +   + + +
Sbjct: 751 ASRARPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHREVFNL-PIDEPK 809

Query: 316 KALILEKLAECNARLQDGASEYIQI 340
           K  + +K+ E N RL +GA+E IQ+
Sbjct: 810 KVELADKIGEYNFRLVEGANEMIQL 834

Length = 846

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

 Score =  141 bits (357), Expect = 3e-39
 Identities = 84/266 (31%), Positives = 120/266 (45%), Gaps = 33/266 (12%)

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-EVTGVIP 264
           + I E E V  D K L  LV+ +  D RR I  LQ  A      G ++  +L EVT    
Sbjct: 177 KGILEAEGVEVDMKVLAALVKKNFPDFRRTINELQRYAS----TGKIDAGILSEVTNSDI 232

Query: 265 NPWIEKLLKVDSF----QVLEKYIED 286
           +  +E  LK   F     +   Y  D
Sbjct: 233 DDVVE-ALKAKDFKAVRALAPNYAND 257

Length = 316

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

 Score =  140 bits (355), Expect = 1e-37
 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 =  117 bits (295), Expect = 2e-29
 Identities = 86/308 (27%), Positives = 136/308 (44%), Gaps = 57/308 (18%)

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-VTGVIPNPWIEKLLK------VDSFQVLEKYIEDLILEAYSATQL 297
              GEG V   V+E   G++    + K L       VD      K++  L  + Y+  + 
Sbjct: 227 Y--GEGKVTIKVVEEFLGIVSQESVRKFLNLLLESDVDEAI---KFLRTLEEKGYNLNKF 281

Query: 298 FDQFHDIV 305
           + Q  + +
Sbjct: 282 WKQLEEEI 289

Length = 486

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

 Score =  114 bits (289), Expect = 3e-29
 Identities = 90/349 (25%), Positives = 160/349 (45%), Gaps = 58/349 (16%)

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 VNEDVLEVTGVIPNPWIEKLLKV----DSFQVLEKYIEDLILEAYS----ATQLFDQFHD 303
             EDV E+ G++ +  + +LL+     D+ + L K +++++            L +   D
Sbjct: 231 TYEDVNELLGLVDDEKLIELLEAILNKDTAEAL-KILDEILESGVDPEKFLEDLIEILRD 289

Query: 304 IVMSASSLSDKQKALILEKLAECNARLQDGASEY--IQILDLGSIVIKA 350
           ++     L  K  + +L  L      L++ A +     +L L  I+++A
Sbjct: 290 LL-----LIKKTPSNLLAVLESEQEFLKELALKLSLEFLLRLLDILLEA 333

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 =  111 bits (280), Expect = 2e-27
 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 NEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQF 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 (255), Expect = 6e-24
 Identities = 81/342 (23%), Positives = 140/342 (40%), Gaps = 55/342 (16%)

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

Query: 305 VMSASSLSDKQKALI-----LEKLAECNARLQDGASEYIQIL 341
           +   +  ++ Q          ++LA   + L        Q+L
Sbjct: 294 LFKQTVPNELQLNTTEIEERTKELASQISVLNL--QRLYQLL 333

Length = 515

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

 Score = 98.4 bits (245), Expect = 2e-22
 Identities = 79/287 (27%), Positives = 139/287 (48%), Gaps = 42/287 (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 GGEGIVNEDVLEVTGVIPNPWIEKLLKV----DSFQVLEKYIEDLIL 289
             + I  ++V E+ G++ N  +  LL +    D  +VL   +  +  
Sbjct: 228 NNK-ITLKNVEELFGLVSNENLINLLNLLYSKDIKEVLNI-LNQIKE 272

Length = 725

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

 Score = 95.2 bits (238), Expect = 9e-22
 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 = 94.6 bits (236), Expect = 3e-21
 Identities = 77/302 (25%), Positives = 133/302 (44%), Gaps = 68/302 (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 KGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIV 305
             G+ +  ED LEVTG +            S + L+  ++ ++       +      +++
Sbjct: 228 GDGK-VTYEDALEVTGSV------------SQEALDDLVDAIV--EGDVAKALKILEELL 272

Query: 306 MS 307
             
Sbjct: 273 DE 274

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 = 86.8 bits (215), Expect = 1e-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|223546 COG0470, HolB, ATPase involved in DNA replication [DNA replication, recombination, and repair]

 Score = 83.5 bits (206), Expect = 9e-19
 Identities = 58/185 (31%), Positives = 88/185 (47%), Gaps = 23/185 (12%)

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

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

Query: 278 QVLEKYIEDLILEAYSATQLFDQFHDIVMS--ASSLSDKQKALILEKLAECNARLQDGAS 335
           + LEK    L+LE      L DQ    ++    + + +++ A +L+ LA+   RL DG  
Sbjct: 148 EALEKLWLLLLLEGLLGEDLLDQLQRELLKLDKALIQEEKAAELLDALAQARRRLLDGLL 207

Query: 336 EYIQI 340
             IQ+
Sbjct: 208 ALIQL 212

Length = 230

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

 Score = 83.8 bits (208), Expect = 7e-18
 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|180643 PRK06645, PRK06645, DNA polymerase III subunits gamma and tau; Validated

 Score = 82.6 bits (204), Expect = 2e-17
 Identities = 71/302 (23%), Positives = 128/302 (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--KGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFD 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|184925 PRK14961, PRK14961, DNA polymerase III subunits gamma and tau; Provisional

 Score = 81.8 bits (202), Expect = 2e-17
 Identities = 80/346 (23%), Positives = 151/346 (43%), Gaps = 57/346 (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-DVLEVTGVIPNPWI----EKLLKVDSFQVLE--KYIEDLILEAYSA-TQLFDQFHDI 304
           N  +V ++ G++         + LLK DS + +     I  + +E  +   ++    H I
Sbjct: 233 NIKNVTDMLGLLNEKQSFLLTDALLKKDSKKTMLLLNKISSIGIEWENILIEMLRFLHHI 292

Query: 305 VMSAS------SLSDKQKALILEKLAECNARLQDGASEYIQILDLG 344
            MS S      ++  K     ++K+A+ N   +       QIL  G
Sbjct: 293 SMSQSFPKIWNTIFIKNYKNQIQKIAQNNK--KTNIQLCYQILLNG 336

Length = 363

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

 Score = 81.8 bits (202), Expect = 5e-17
 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|237871 PRK14965, PRK14965, DNA polymerase III subunits gamma and tau; Provisional

 Score = 80.6 bits (199), Expect = 1e-16
 Identities = 65/252 (25%), Positives = 110/252 (43%), Gaps = 42/252 (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 VNEDVLEVTGVI 263
            ++DV E+ GV+
Sbjct: 233 GDDDVAELLGVV 244

Length = 576

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

 Score = 78.3 bits (193), Expect = 7e-16
 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|184934 PRK14970, PRK14970, DNA polymerase III subunits gamma and tau; Provisional

 Score = 76.8 bits (189), Expect = 1e-15
 Identities = 58/215 (26%), Positives = 92/215 (42%), Gaps = 31/215 (14%)

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 TRLQYICEQESVMCDFKALETLVETSGGDMRRAIT 237
             L  I  +E +  +  AL  + + + G +R A++
Sbjct: 174 EHLAGIAVKEGIKFEDDALHIIAQKADGALRDALS 208

Length = 367

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

 Score = 77.0 bits (190), Expect = 2e-15
 Identities = 93/330 (28%), Positives = 146/330 (44%), Gaps = 78/330 (23%)

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 SRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL 245
           SR   FRFK + +N++++ L+ I E+E V  + +ALE L  +  G +R  +T L   A +
Sbjct: 166 SRTQHFRFKQIPQNSIISHLKTILEKEGVSYEPEALEILARSGNGSLRDTLTLLDQ-AII 224

Query: 246 KGGEGIVNEDVLEVTGVIPNPWIEKLLKV----------DSFQVLEKY-----IEDLIL- 289
                I    V ++ G++    +E   +           +  + LE Y     +++++L 
Sbjct: 225 YCKNAITESKVADMLGLLDPSKLEDFFQAILNQDKEKLFELLKELEDYEAEMVLDEMMLF 284

Query: 290 --EAYSA------TQLFDQFHDIVMSASSL 311
             E + +        L+++F  I+ SA SL
Sbjct: 285 LKEKFLSKDSEFSILLYERFFRILSSAKSL 314

Length = 535

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

 Score = 74.4 bits (183), Expect = 1e-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|236333 PRK08691, PRK08691, DNA polymerase III subunits gamma and tau; Validated

 Score = 72.8 bits (178), Expect = 5e-14
 Identities = 64/256 (25%), Positives = 119/256 (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 LEVTGVIPNPWIEKLL 272
            ++ G +   ++ +LL
Sbjct: 238 RQMIGAVDKQYLYELL 253

Length = 709

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

 Score = 71.4 bits (175), Expect = 2e-13
 Identities = 71/289 (24%), Positives = 125/289 (43%), 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 NEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQF 301
            ED+ +  G++ N     L+++     +E+    LI E  S    F+ F
Sbjct: 234 IEDINKTFGLVDNNKKINLIELIQKNDIEELRN-LINELESKGINFEAF 281

Length = 605

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

 Score = 70.9 bits (174), Expect = 2e-13
 Identities = 72/266 (27%), Positives = 124/266 (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-DVLEVTGVIPNPWIEKLL 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 = 3e-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 = 69.9 bits (171), Expect = 5e-13
 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 = 6e-13
 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 EVTGVIPNPWIEKLLKVDSFQVLEKYIEDLIL-EAYSATQLFDQ 300
               V        LL      +LE  +E ++L +A SA  +F +
Sbjct: 230 SEKSV------RDLLGCVDKHILEDLVEAILLGDAQSALNVFRE 267

Length = 491

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

 Score = 61.8 bits (151), Expect = 2e-12
 Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 4/81 (4%)

Query: 268 IEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLA 324
           I+++L       F    + + +L++E  SA  +  Q H++++    + D  K  I+++LA
Sbjct: 8   IKEILDSILKGDFDEARETLYELLVEGISAEDILKQLHEVLIR-LDIPDSLKLEIIKELA 66

Query: 325 ECNARLQDGASEYIQILDLGS 345
           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|237874 PRK14971, PRK14971, DNA polymerase III subunits gamma and tau; Provisional

 Score = 67.5 bits (165), Expect = 3e-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|215649 pfam00004, AAA, ATPase family associated with various cellular activities (AAA)

 Score = 62.2 bits (152), Expect = 4e-12
 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|184920 PRK14956, PRK14956, DNA polymerase III subunits gamma and tau; Provisional

 Score = 66.5 bits (162), Expect = 4e-12
 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|237866 PRK14952, PRK14952, DNA polymerase III subunits gamma and tau; Provisional

 Score = 66.4 bits (162), Expect = 5e-12
 Identities = 76/328 (23%), Positives = 125/328 (38%), Gaps = 65/328 (19%)

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 GIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLF-------DQFH 302
            +  +  L + G      I+  +                L A  A  LF       D  H
Sbjct: 231 HVTYQRALGLLGATDVALIDDAV--------------DALAADDAAALFGAIESVIDAGH 276

Query: 303 DIVMSASSLSDKQKALI-LEKLAECNAR 329
           D    A+ L ++ + LI L+ + +  AR
Sbjct: 277 DPRRFATDLLERFRDLIVLQAVPDAAAR 304

Length = 584

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

 Score = 66.3 bits (162), Expect = 7e-12
 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|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown domain fusion protein; Reviewed

 Score = 63.9 bits (156), Expect = 4e-11
 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|184919 PRK14955, PRK14955, DNA polymerase III subunits gamma and tau; Provisional

 Score = 63.4 bits (154), Expect = 4e-11
 Identities = 74/312 (23%), Positives = 123/312 (39%), Gaps = 56/312 (17%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAA--------CH 88
           KYRPK   D+  Q+ +   ++  L    + H ++F G  G GKT+   AA        C 
Sbjct: 9   KYRPKKFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTT---AARVFAKAVNCQ 65

Query: 89  QLFGDM-YRERILE----------------LNASD-DRGIQVIRDKVKTFAQQTASGFNQ 130
           ++  D  Y + + E                LN S+ D       D ++   +    G  Q
Sbjct: 66  RMIDDADYLQEVTEPCGECESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYG-PQ 124

Query: 131 DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSK 190
            G+    +++ I+DE   ++ AA  A  +T+E+      F      +  I   + SRC +
Sbjct: 125 KGR----YRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQR 180

Query: 191 FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSC---ARLKG 247
           F FK +    +  +LQ ICE E +  D  AL+ +   + G MR A + L      +    
Sbjct: 181 FNFKRIPLEEIQQQLQGICEAEGISVDADALQLIGRKAQGSMRDAQSILDQVIAFSVESE 240

Query: 248 GEG-------------IVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSA 294
           GEG             I +E    VT  + +     +L V  F +   Y E   LE    
Sbjct: 241 GEGSIRYDKVAELLNYIDDEHFFAVTDAVADGDAVAMLDVAQFVIRNGYDEQDFLE---- 296

Query: 295 TQLFDQFHDIVM 306
            +L +   + ++
Sbjct: 297 -KLIEHLRNFLV 307

Length = 397

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

 Score = 63.8 bits (155), Expect = 5e-11
 Identities = 74/309 (23%), Positives = 125/309 (40%), Gaps = 50/309 (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 -------------IVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQL 297
                        I +E   +VT  I      K+L+V  F +   Y E   LE     +L
Sbjct: 244 VIAYQGVAELLNYIDDEQFFDVTDAIAENDAVKMLEVARFVIDNGYDEQDFLE-----KL 298

Query: 298 FDQFHDIVM 306
            + F + ++
Sbjct: 299 IEHFRNFLV 307

Length = 620

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

 Score = 59.5 bits (145), Expect = 8e-11
 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 = 61.2 bits (148), Expect = 3e-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 = 60.7 bits (147), Expect = 5e-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|236011 PRK07399, PRK07399, DNA polymerase III subunit delta'; Validated

 Score = 59.5 bits (145), Expect = 5e-10
 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 = 60.1 bits (145), Expect = 6e-10
 Identities = 63/291 (21%), Positives = 129/291 (44%), 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 EVTGVIPNP----WIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDI 304
           ++ G+I +      I  ++  D   +L   I++L L   SA  + D+  +I
Sbjct: 239 QMLGIIDSEEVYSIINAIIDNDPKAILPA-IKNLALTESSADAVLDRIAEI 288

Length = 546

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

 Score = 60.1 bits (145), Expect = 6e-10
 Identities = 63/246 (25%), Positives = 111/246 (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 YICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNP 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|235845 PRK06647, PRK06647, DNA polymerase III subunits gamma and tau; Validated

 Score = 56.3 bits (136), Expect = 1e-08
 Identities = 54/258 (20%), Positives = 107/258 (41%), Gaps = 38/258 (14%)

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 ++K            +    PP
Sbjct: 69  TPMPCGECSSCKSIDNDNSLDVIEIDGASNTSVQDVR-QIK------------EEIMFPP 115

Query: 138 ----FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRF 193
               +++ I+DE   ++++A  AL +T+E+      F      V  +   + SRC  F F
Sbjct: 116 ASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRCQHFNF 175

Query: 194 KPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN 253
           + L+   +   L+ +C ++ +  + +AL+ +   S G +R A T             I  
Sbjct: 176 RLLSLEKIYNMLKKVCLEDQIKYEDEALKWIAYKSTGSVRDAYTLFDQVVSFSDS-DITL 234

Query: 254 EDVLEVTGVIPNPWIEKL 271
           E +    G+  + ++EKL
Sbjct: 235 EQIRSKMGLTGDEFLEKL 252

Length = 563

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

 Score = 56.0 bits (135), Expect = 1e-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|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 52.8 bits (126), Expect = 2e-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|184922 PRK14958, PRK14958, DNA polymerase III subunits gamma and tau; Provisional

 Score = 54.4 bits (130), Expect = 4e-08
 Identities = 70/289 (24%), Positives = 116/289 (40%), Gaps = 49/289 (16%)

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 VNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQ 300
            +   +  T       IE LL  D  + L     D +L     T+L +Q
Sbjct: 235 ADVKTMLGT-------IEPLLLFDILEALAAKAGDRLLGC--VTRLVEQ 274

Length = 509

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

 Score = 53.0 bits (128), Expect = 1e-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 = 1e-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 = 52.3 bits (126), Expect = 1e-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|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed

 Score = 52.1 bits (126), Expect = 2e-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|129690 TIGR00602, rad24, checkpoint protein rad24

 Score = 52.7 bits (126), Expect = 2e-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|217429 pfam03215, Rad17, Rad17 cell cycle checkpoint protein

 Score = 52.0 bits (124), Expect = 2e-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 = 2e-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 = 49.1 bits (118), Expect = 2e-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|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

 Score = 48.9 bits (117), Expect = 2e-06
 Identities = 65/316 (20%), Positives = 110/316 (34%), Gaps = 50/316 (15%)

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 EVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSAT---QLFDQFHDIV----MSASS 310
           E    I    +E++LK       +K +   I+E        +L+D +  +      S   
Sbjct: 260 EAQEEIERDVLEEVLKTLPLH--QKIVLLAIVELTVEISTGELYDVYESLCERLRTSQRR 317

Query: 311 LSDKQKALILEKLAEC 326
            SD     I+ +L   
Sbjct: 318 FSD-----IISELEGL 328

Length = 366

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

 Score = 48.5 bits (116), Expect = 2e-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|221912 pfam13086, AAA_11, AAA domain

 Score = 43.5 bits (103), Expect = 5e-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 = 6e-05
 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|180215 PRK05707, PRK05707, DNA polymerase III subunit delta'; Validated

 Score = 43.2 bits (102), Expect = 1e-04
 Identities = 51/205 (24%), Positives = 88/205 (42%), Gaps = 39/205 (19%)

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 VETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEV-TGVIPNPWIEKLLK--VDSFQVLE 281
           +  +GG   RA+       +L        + V E    V+    ++KLLK    + Q+ E
Sbjct: 190 LTLAGGSPLRAL-------QLHE------QGVREQRARVLDG--VKKLLKQQQSASQLAE 234

Query: 282 KYIEDLILEAYSATQLFDQFHDIVM 306
            +++  +L       LFD F D   
Sbjct: 235 SWLKVPLLL------LFDWFCDWAH 253

Length = 328

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

 Score = 43.2 bits (102), Expect = 1e-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|236090 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated

 Score = 42.7 bits (101), Expect = 2e-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|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit

 Score = 41.1 bits (97), Expect = 5e-04
 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|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI

 Score = 40.2 bits (95), Expect = 6e-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|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General function prediction only]

 Score = 40.2 bits (94), Expect = 0.001
 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|129465 TIGR00368, TIGR00368, Mg chelatase-related protein

 Score = 40.2 bits (94), Expect = 0.001
 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|234063 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation protein

 Score = 39.2 bits (92), Expect = 0.002
 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

>gnl|CDD|236134 PRK07940, PRK07940, DNA polymerase III subunit delta'; Validated

 Score = 38.7 bits (91), Expect = 0.004
 Identities = 39/177 (22%), Positives = 73/177 (41%), Gaps = 46/177 (25%)

Query: 45  DDVIEQQEVVSVLKKCLSGAD---------LPH-FLFYGPPGTGKTSTMIA--------- 85
           DD++ Q+ VV+ L+     A          + H +LF GPPG+G++    A         
Sbjct: 5   DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTD 64

Query: 86  ----------ACHQL----FGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQD 131
                     AC  +      D+       L+     G+  +R+ V   A++ ++G    
Sbjct: 65  PDEPGCGECRACRTVLAGTHPDVRVVAPEGLSI----GVDEVRELVTIAARRPSTG---- 116

Query: 132 GKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRC 188
                 ++IV++++AD +T  A  AL + +E+    T + L       ++  + SRC
Sbjct: 117 -----RWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRSRC 168

Length = 394

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

 Score = 38.5 bits (90), Expect = 0.004
 Identities = 38/112 (33%), Positives = 51/112 (45%), Gaps = 31/112 (27%)

Query: 49  EQQEVVSVLKK----CLSGADLPH-FLFYGPPGTGKT--STMIA--ACHQLF---GDMYR 96
           E +EVVS LKK       GA +P   L  GPPGTGKT  +  IA  A    F   G  + 
Sbjct: 194 EFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFV 253

Query: 97  ERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADS 148
           E  + + A+       +RD  K  A++ +        PC    IV +DE D+
Sbjct: 254 EMFVGVGAAR------VRDLFKK-AKENS--------PC----IVFIDEIDA 286

Length = 638

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	355
KOG0991|consensus	333		100.0
KOG0989|consensus	346		100.0
PLN03025	319	replication factor C subunit; Provisional	100.0
PRK00440	319	rfc replication factor C small subunit; Reviewed	100.0
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK12402	337	replication factor C small subunit 2; Reviewed	100.0
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	100.0
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	100.0
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14957	546	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
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	100.0
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	100.0
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	100.0
KOG2035|consensus	351		100.0
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	100.0
PHA02544	316	44 clamp loader, small subunit; Provisional	100.0
KOG0990|consensus	360		100.0
PRK04132	846	replication factor C 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	100.0
PRK13342	413	recombination factor protein RarA; Reviewed	100.0
PRK13341	725	recombination factor protein RarA/unknown domain f	100.0
PRK05564	313	DNA polymerase III subunit delta'; Validated	100.0
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.97
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.97
KOG2028|consensus	554		99.97
PRK07399	314	DNA polymerase III subunit delta'; Validated	99.96
PRK07993	334	DNA polymerase III subunit delta'; Validated	99.96
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.96
PRK08058	329	DNA polymerase III subunit delta'; Validated	99.96
PRK05707	328	DNA polymerase III subunit delta'; Validated	99.96
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.95
PRK08769	319	DNA polymerase III subunit delta'; Validated	99.95
PRK06871	325	DNA polymerase III subunit delta'; Validated	99.95
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.95
PRK06964	342	DNA polymerase III subunit delta'; Validated	99.94
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.94
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.93
PRK06090	319	DNA polymerase III subunit delta'; Validated	99.93
PRK05907	311	hypothetical protein; Provisional	99.93
PRK05917	290	DNA polymerase III subunit delta'; Validated	99.93
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.93
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.92
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.92
PRK07452	326	DNA polymerase III subunit delta; Validated	99.92
PRK05629	318	hypothetical protein; Validated	99.92
PRK07132	299	DNA polymerase III subunit delta'; Validated	99.92
KOG1969|consensus	877		99.92
PRK07914	320	hypothetical protein; Reviewed	99.92
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	99.9
PRK06585	343	holA DNA polymerase III subunit delta; Reviewed	99.9
PRK08487	328	DNA polymerase III subunit delta; Validated	99.9
PRK08699	325	DNA polymerase III subunit delta'; Validated	99.9
PRK08084	235	DNA replication initiation factor; Provisional	99.89
PRK05574	340	holA DNA polymerase III subunit delta; Reviewed	99.89
PRK07276	290	DNA polymerase III subunit delta'; Validated	99.88
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.88
TIGR01128	302	holA DNA polymerase III, delta subunit. subunit ar	99.88
PRK08727	233	hypothetical protein; Validated	99.88
PRK06893	229	DNA replication initiation factor; Validated	99.88
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	99.87
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.87
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.86
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.86
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.86
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.86
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.85
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.85
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.84
PRK05818	261	DNA polymerase III subunit delta'; Validated	99.84
PRK05642	234	DNA replication initiation factor; Validated	99.83
PRK06620	214	hypothetical protein; Validated	99.82
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.82
COG1466	334	HolA DNA polymerase III, delta subunit [DNA replic	99.82
CHL00181	287	cbbX CbbX; Provisional	99.82
PRK09087	226	hypothetical protein; Validated	99.81
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.8
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.8
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	99.8
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.79
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.79
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.79
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.79
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.78
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.77
KOG0733|consensus	802		99.77
KOG0730|consensus	693		99.77
KOG1970|consensus	634		99.77
CHL00176	638	ftsH cell division protein; Validated	99.76
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.75
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.75
CHL00195	489	ycf46 Ycf46; Provisional	99.75
PRK06581	263	DNA polymerase III subunit delta'; Validated	99.75
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.75
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.74
COG2204	464	AtoC Response regulator containing CheY-like recei	99.74
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	99.74
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.74
PRK12422	445	chromosomal replication initiation protein; Provis	99.74
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.73
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	99.72
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	99.71
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.7
KOG0727|consensus	408		99.7
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.69
PRK15424	538	propionate catabolism operon regulatory protein Pr	99.69
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	99.69
PRK11608	326	pspF phage shock protein operon transcriptional ac	99.69
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	99.68
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.68
KOG0734|consensus	752		99.67
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.67
KOG0733|consensus	802		99.67
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	99.67
KOG0731|consensus	774		99.67
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	99.66
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	99.66
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.65
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.65
PRK05022	509	anaerobic nitric oxide reductase transcription reg	99.64
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	99.64
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.64
COG1221	403	PspF Transcriptional regulators containing an AAA-	99.63
KOG0738|consensus	491		99.63
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.63
CHL00095	821	clpC Clp protease ATP binding subunit	99.63
KOG1942|consensus	456		99.62
PRK10865	857	protein disaggregation chaperone; Provisional	99.61
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.61
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.6
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.6
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.6
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.6
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.59
KOG0743|consensus	457		99.59
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.59
KOG0728|consensus	404		99.59
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.58
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.58
KOG0730|consensus	693		99.57
KOG0737|consensus	386		99.57
CHL00206	2281	ycf2 Ycf2; Provisional	99.56
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.56
KOG2227|consensus	529		99.56
KOG2004|consensus	906		99.56
CHL00095	821	clpC Clp protease ATP binding subunit	99.56
KOG1514|consensus	767		99.56
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	99.56
KOG0726|consensus	440		99.55
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	99.55
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	99.55
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.55
KOG0736|consensus	953		99.55
KOG0739|consensus	439		99.54
PF00004	132	AAA: ATPase family associated with various cellula	99.54
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.54
PRK08485	206	DNA polymerase III subunit delta'; Validated	99.54
KOG0742|consensus	630		99.53
PRK10865	857	protein disaggregation chaperone; Provisional	99.53
KOG0729|consensus	435		99.53
PRK15115	444	response regulator GlrR; Provisional	99.52
KOG0652|consensus	424		99.51
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.51
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.5
KOG1968|consensus	871		99.5
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.5
PRK14700	300	recombination factor protein RarA; Provisional	99.49
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	99.49
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.49
PRK13531	498	regulatory ATPase RavA; Provisional	99.48
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	99.47
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.47
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	99.46
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.45
KOG2680|consensus	454		99.44
KOG0735|consensus	952		99.44
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.43
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.43
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.43
KOG0732|consensus	1080		99.41
KOG0740|consensus	428		99.39
KOG0735|consensus	952		99.39
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	99.38
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.37
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	99.36
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.34
PRK10365	441	transcriptional regulatory protein ZraR; Provision	99.34
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	99.33
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.33
PRK13765	637	ATP-dependent protease Lon; Provisional	99.33
PF06144	172	DNA_pol3_delta: DNA polymerase III, delta subunit;	99.3
KOG0744|consensus	423		99.3
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	99.28
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.28
KOG0651|consensus	388		99.26
COG0714	329	MoxR-like ATPases [General function prediction onl	99.26
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.26
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.22
PHA02244	383	ATPase-like protein	99.22
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	99.22
smart00350	509	MCM minichromosome maintenance proteins.	99.22
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	99.2
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.2
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	99.16
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.15
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	99.11
PF13173	128	AAA_14: AAA domain	99.06
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	99.06
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.06
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	99.05
KOG0741|consensus	744		99.04
PF08542	89	Rep_fac_C: Replication factor C C-terminal domain;	99.02
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	99.01
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	98.97
PRK09862	506	putative ATP-dependent protease; Provisional	98.95
KOG2170|consensus	344		98.95
PF07726	131	AAA_3: ATPase family associated with various cellu	98.94
PRK12377	248	putative replication protein; Provisional	98.93
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	98.93
COG4650	531	RtcR Sigma54-dependent transcription regulator con	98.91
PRK08116	268	hypothetical protein; Validated	98.88
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.86
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.86
KOG1051|consensus	898		98.85
PRK08181	269	transposase; Validated	98.83
PRK07952	244	DNA replication protein DnaC; Validated	98.83
smart00382	148	AAA ATPases associated with a variety of cellular	98.82
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	98.82
PRK06526	254	transposase; Provisional	98.81
PF05729	166	NACHT: NACHT domain	98.8
KOG0745|consensus	564		98.77
KOG0736|consensus	953		98.77
PRK04841	903	transcriptional regulator MalT; Provisional	98.76
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.75
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.72
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.67
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.66
PF14516	331	AAA_35: AAA-like domain	98.63
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.62
PRK06835	329	DNA replication protein DnaC; Validated	98.61
PRK04132	846	replication factor C small subunit; Provisional	98.6
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.59
PRK06921	266	hypothetical protein; Provisional	98.55
PHA00729	226	NTP-binding motif containing protein	98.55
PRK08939	306	primosomal protein DnaI; Reviewed	98.54
COG1241	682	MCM2 Predicted ATPase involved in replication cont	98.54
PRK09183	259	transposase/IS protein; Provisional	98.52
KOG0741|consensus	744		98.5
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.5
KOG0482|consensus	721		98.49
PF12169	143	DNA_pol3_gamma3: DNA polymerase III subunits gamma	98.43
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	98.42
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.42
PRK15455	644	PrkA family serine protein kinase; Provisional	98.41
KOG0480|consensus	764		98.4
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	98.39
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	98.39
KOG0478|consensus	804		98.37
KOG2543|consensus	438		98.33
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	98.33
KOG2228|consensus	408		98.32
KOG0477|consensus	854		98.3
PHA02774	613	E1; Provisional	98.3
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.28
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	98.27
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.26
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	98.26
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	98.25
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.23
PTZ00202	550	tuzin; Provisional	98.22
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.18
PRK10536	262	hypothetical protein; Provisional	98.14
) 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	98.13
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	98.05
PHA02624	647	large T antigen; Provisional	98.05
PRK04296	190	thymidine kinase; Provisional	98.03
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	97.95
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	97.92
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	97.9
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	97.88
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.87
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.87
KOG4658|consensus	889		97.87
KOG0481|consensus	729		97.84
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.81
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	97.81
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	97.8
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.78
KOG3347|consensus	176		97.73
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.72
COG3899	849	Predicted ATPase [General function prediction only	97.72
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	97.71
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.69
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.68
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.66
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.64
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	97.64
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	97.63
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	97.63
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.63
PRK14974	336	cell division protein FtsY; Provisional	97.62
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.62
PF10923	416	DUF2791: P-loop Domain of unknown function (DUF279	97.6
PRK10875	615	recD exonuclease V subunit alpha; Provisional	97.59
KOG1051|consensus	898		97.58
PRK13695	174	putative NTPase; Provisional	97.56
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.56
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	97.55
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.54
PRK06067	234	flagellar accessory protein FlaH; Validated	97.52
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.51
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	97.49
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.49
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.48
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.46
PRK13889	988	conjugal transfer relaxase TraA; Provisional	97.44
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	97.43
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.42
PRK09435	332	membrane ATPase/protein kinase; Provisional	97.42
PF00519	432	PPV_E1_C: Papillomavirus helicase; InterPro: IPR00	97.41
PRK14532	188	adenylate kinase; Provisional	97.41
COG1485	367	Predicted ATPase [General function prediction only	97.4
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	97.39
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.37
PRK08118	167	topology modulation protein; Reviewed	97.37
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.36
smart00487	201	DEXDc DEAD-like helicases superfamily.	97.32
PRK11823	446	DNA repair protein RadA; Provisional	97.32
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	97.31
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	97.31
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.3
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.29
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.29
PF13479	213	AAA_24: AAA domain	97.28
PRK06762	166	hypothetical protein; Provisional	97.28
PRK08533	230	flagellar accessory protein FlaH; Reviewed	97.27
PF13245	76	AAA_19: Part of AAA domain	97.27
KOG1808|consensus	1856		97.26
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.26
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	97.24
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	97.24
cd01128	249	rho_factor Transcription termination factor rho is	97.24
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.23
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	97.21
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.2
PRK13826	1102	Dtr system oriT relaxase; Provisional	97.16
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.16
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	97.16
TIGR01613	304	primase_Cterm phage/plasmid primase, P4 family, C-	97.13
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.12
PRK07261	171	topology modulation protein; Provisional	97.12
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.11
COG4178	604	ABC-type uncharacterized transport system, permeas	97.11
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.11
PF01443	234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	97.1
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.1
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.09
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	97.09
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.08
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.08
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	97.08
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.07
PRK00131	175	aroK shikimate kinase; Reviewed	97.06
PRK06696	223	uridine kinase; Validated	97.06
PRK04328	249	hypothetical protein; Provisional	97.05
PRK03839	180	putative kinase; Provisional	97.05
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	97.05
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	97.02
PRK14527	191	adenylate kinase; Provisional	97.01
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.01
PRK10416	318	signal recognition particle-docking protein FtsY;	97.01
PRK06547	172	hypothetical protein; Provisional	97.0
PRK14528	186	adenylate kinase; Provisional	97.0
PRK09354	349	recA recombinase A; Provisional	97.0
PRK13947	171	shikimate kinase; Provisional	97.0
PRK09376	416	rho transcription termination factor Rho; Provisio	96.99
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.99
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.97
PF01745	233	IPT: Isopentenyl transferase; InterPro: IPR002648	96.97
PRK14737	186	gmk guanylate kinase; Provisional	96.96
COG1067	647	LonB Predicted ATP-dependent protease [Posttransla	96.96
PRK13808	333	adenylate kinase; Provisional	96.95
PRK00625	173	shikimate kinase; Provisional	96.95
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.95
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.94
PRK13709	1747	conjugal transfer nickase/helicase TraI; Provision	96.93
PHA02530	300	pseT polynucleotide kinase; Provisional	96.92
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.92
PRK05973	237	replicative DNA helicase; Provisional	96.91
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.91
PRK14712	1623	conjugal transfer nickase/helicase TraI; Provision	96.9
PRK10263	1355	DNA translocase FtsK; Provisional	96.89
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	96.89
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.87
TIGR00767	415	rho transcription termination factor Rho. Members	96.87
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	96.87
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.87
PRK07667	193	uridine kinase; Provisional	96.86
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	96.86
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.85
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.84
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.83
PRK06217	183	hypothetical protein; Validated	96.83
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.83
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.82
PRK12608	380	transcription termination factor Rho; Provisional	96.81
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.8
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.8
TIGR01663	526	PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase	96.79
KOG0479|consensus	818		96.79
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.79
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.79
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.78
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.76
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	96.76
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.75
KOG0086|consensus	214		96.75
COG4619	223	ABC-type uncharacterized transport system, ATPase	96.75
COG1100	219	GTPase SAR1 and related small G proteins [General	96.75
PRK13949	169	shikimate kinase; Provisional	96.75
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	96.74
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.73
COG3910	233	Predicted ATPase [General function prediction only	96.72
PF08303	168	tRNA_lig_kinase: tRNA ligase kinase domain; InterP	96.72
PRK14531	183	adenylate kinase; Provisional	96.71
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.7
PLN02674	244	adenylate kinase	96.7
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	96.7
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.69
TIGR02760	1960	TraI_TIGR conjugative transfer relaxase protein Tr	96.68
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.67
KOG3928|consensus	461		96.66
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	96.66
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	96.66
TIGR00174	287	miaA tRNA isopentenyltransferase (miaA). Catalyzes	96.65
PF01580	205	FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR00	96.64
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.64
PRK14530	215	adenylate kinase; Provisional	96.64
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.63
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.62
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.62
PF13337	457	Lon_2: Putative ATP-dependent Lon protease	96.62
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.61
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.61
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.6
PRK10867	433	signal recognition particle protein; Provisional	96.6
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.59
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.59
PRK00091	307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	96.57
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	96.56
cd03246	173	ABCC_Protease_Secretion This family represents the	96.56
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.55
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	96.55
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	96.54
PRK05541	176	adenylylsulfate kinase; Provisional	96.53
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.53
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.52
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.52
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.51
PF13555	62	AAA_29: P-loop containing region of AAA domain	96.51
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.5
PTZ00088	229	adenylate kinase 1; Provisional	96.5
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.49
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	96.48
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	96.48
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.48
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	96.48
TIGR02533	486	type_II_gspE general secretory pathway protein E.	96.47
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	96.47
PRK08233	182	hypothetical protein; Provisional	96.47
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	96.47
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.46
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.45

>KOG0991|consensus

Probab=100.00  E-value=4.7e-54  Score=352.65  Aligned_cols=321  Identities=34%  Similarity=0.574  Sum_probs=298.4

Q ss_pred             CCCCCCCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC
Q psy17903         25 SGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (355)
Q Consensus        25 ~~~~~~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  104 (355)
                      .++.-..+.||+|||||..+.++||+++.++++.-..+.|+.||++|.||||+||||.+.++++++.++.++..++++|+
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            33444567779999999999999999999999999999999999999999999999999999999999988889999999


Q ss_pred             CCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccc
Q psy17903        105 SDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPL  184 (355)
Q Consensus       105 ~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l  184 (355)
                      +++++++.+++.++.|++..+...      ....|+||+||+|.|+..+|++|++.||-++..++|.++||...++++++
T Consensus        87 SdeRGIDvVRn~IK~FAQ~kv~lp------~grhKIiILDEADSMT~gAQQAlRRtMEiyS~ttRFalaCN~s~KIiEPI  160 (333)
T KOG0991|consen   87 SDERGIDVVRNKIKMFAQKKVTLP------PGRHKIIILDEADSMTAGAQQALRRTMEIYSNTTRFALACNQSEKIIEPI  160 (333)
T ss_pred             ccccccHHHHHHHHHHHHhhccCC------CCceeEEEeeccchhhhHHHHHHHHHHHHHcccchhhhhhcchhhhhhhH
Confidence            999999999999999998765431      12678999999999999999999999999999999999999999999999


Q ss_pred             cCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCC
Q psy17903        185 TSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIP  264 (355)
Q Consensus       185 ~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~  264 (355)
                      .|||..++|..+++.++...+..+++.+++.++++.+++++..+.||+|+++|.||....  +-+.|+.+.|.+++....
T Consensus       161 QSRCAiLRysklsd~qiL~Rl~~v~k~Ekv~yt~dgLeaiifta~GDMRQalNnLQst~~--g~g~Vn~enVfKv~d~Ph  238 (333)
T KOG0991|consen  161 QSRCAILRYSKLSDQQILKRLLEVAKAEKVNYTDDGLEAIIFTAQGDMRQALNNLQSTVN--GFGLVNQENVFKVCDEPH  238 (333)
T ss_pred             HhhhHhhhhcccCHHHHHHHHHHHHHHhCCCCCcchHHHhhhhccchHHHHHHHHHHHhc--cccccchhhhhhccCCCC
Confidence            999999999999999999999999999999999999999999999999999999997665  558899999999999999


Q ss_pred             hHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHH
Q psy17903        265 NPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQIL  341 (355)
Q Consensus       265 ~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~  341 (355)
                      +..+.+++.+   ++++.+.+++..+++.|||+.+|+..+++.+... +.++..+.+.+..++-+..++.+|.+.++||.
T Consensus       239 P~~v~~ml~~~~~~~~~~A~~il~~lw~lgysp~Dii~~~FRv~K~~-~~~E~~rlE~ikeig~thmrI~eGv~s~LQl~  317 (333)
T KOG0991|consen  239 PLLVKKMLQACLKRNIDEALKILAELWKLGYSPEDIITTLFRVVKNM-DVAESLRLEFIKEIGLTHMRILEGVNSLLQLS  317 (333)
T ss_pred             hHHHHHHHHHHHhccHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-cHHHHHHHHHHHHHhhHHhHHHhhHhHHHHHH
Confidence            9999999987   8999999999999999999999999999988876 47788888999999999999999999999999


Q ss_pred             HHHHHHHHHHhhc
Q psy17903        342 DLGSIVIKANKTA  354 (355)
Q Consensus       342 ~~~~~~~~~~~~~  354 (355)
                      .+++++|+.-.++
T Consensus       318 glla~l~~~~~k~  330 (333)
T KOG0991|consen  318 GLLAKLCKVGEKA  330 (333)
T ss_pred             HHHHHHHHhcccc
Confidence            9999999765443

>KOG0989|consensus

Probab=100.00  E-value=1.7e-53  Score=363.37  Aligned_cols=319  Identities=47%  Similarity=0.710  Sum_probs=298.2

Q ss_pred             CCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC-CccccceeeecCCCccc
Q psy17903         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRG  109 (355)
Q Consensus        31 ~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~-~~~~~~~~~~~~~~~~~  109 (355)
                      ....|+|||||++|++++||+.++..|.+.+..+..||||||||||||||+.|+++++++++ +..+..+.+.|++++++
T Consensus        22 ~~~swteKYrPkt~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderG  101 (346)
T KOG0989|consen   22 KHRSWTEKYRPKTFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERG  101 (346)
T ss_pred             CccchHHHhCCCcHHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccc
Confidence            55679999999999999999999999999999988999999999999999999999999998 55666788999999999


Q ss_pred             hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCee
Q psy17903        110 IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCS  189 (355)
Q Consensus       110 ~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~  189 (355)
                      +..+++.++.|+..........+.++..+||+|+||+|.|+.++|++|++.||+++.+++||++||..++++.++.|||.
T Consensus       102 isvvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~  181 (346)
T KOG0989|consen  102 ISVVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQ  181 (346)
T ss_pred             ccchhhhhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhHH
Confidence            99999999999998877777788888889999999999999999999999999999999999999999999999999999


Q ss_pred             eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC-HHHHHHHhCCCChHHH
Q psy17903        190 KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV-NEDVLEVTGVIPNPWI  268 (355)
Q Consensus       190 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It-~~~v~~~~~~~~~~~~  268 (355)
                      .+.|+++..+++...|+.+|.++|+.+++++++.++..++||+|+|+..||.++.  .++.|| .-.++++.+.++.+.+
T Consensus       182 KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~~al~~I~~~S~GdLR~Ait~Lqsls~--~gk~It~~~~~e~~~GvVp~~~l  259 (346)
T KOG0989|consen  182 KFRFKKLKDEDIVDRLEKIASKEGVDIDDDALKLIAKISDGDLRRAITTLQSLSL--LGKRITTSLVNEELAGVVPDEKL  259 (346)
T ss_pred             HhcCCCcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCcHHHHHHHHHHhhc--cCcccchHHHHHHHhccCCHHHH
Confidence            9999999999999999999999999999999999999999999999999999998  567888 5555566668888888


Q ss_pred             HHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHH
Q psy17903        269 EKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGS  345 (355)
Q Consensus       269 ~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~  345 (355)
                      .++++.   +|+.+....++++++.|+++.++++++..++....+.++..+..+-..++..+.++.+|.+.+++|-.++.
T Consensus       260 ~~lle~a~S~d~~~~v~~~Rei~~sg~~~~~lmsQLa~vi~~~~g~~d~~k~~~~~kl~~~~~~~~dg~~l~~~L~~L~~  339 (346)
T KOG0989|consen  260 LDLLELALSADTPNTVKRVREIMRSGYSPLQLMSQLAEVIMDIIGLSDEQKAQISLKLFTRDKRLEDGEDLELALKDLLE  339 (346)
T ss_pred             HHHHHHHHccChHHHHHHHHHHHHhccCHHHHHHHHHHHHHhccccchHHHHHHHHHHHhccchhhcchhHHHHHHHHHH
Confidence            888887   99999999999999999999999999999999887889999999999999999999999999999999999


Q ss_pred             HHHHHH
Q psy17903        346 IVIKAN  351 (355)
Q Consensus       346 ~~~~~~  351 (355)
                      .+.+.+
T Consensus       340 ~~~ql~  345 (346)
T KOG0989|consen  340 AEKQLR  345 (346)
T ss_pred             HHHHHh
Confidence            887654

>PLN03025 replication factor C subunit; Provisional

Probab=100.00  E-value=4.7e-50  Score=365.27  Aligned_cols=313  Identities=38%  Similarity=0.585  Sum_probs=285.7

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHH
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQV  112 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  112 (355)
                      .||++||||++|++++||++++..|+.++.+++.+|++|+||||+|||++|+++++++.+..+...++++|+++..+++.
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            48999999999999999999999999999999999999999999999999999999998776666789999999889999


Q ss_pred             HHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeeeEE
Q psy17903        113 IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFR  192 (355)
Q Consensus       113 i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~  192 (355)
                      +++.+..++.......      .+.++++||||+|.|+.++|++|++++|.++.+++||++||...++.++|+|||..++
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            9988887765432110      0156899999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHHHHHHH
Q psy17903        193 FKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLL  272 (355)
Q Consensus       193 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~~~~l~  272 (355)
                      |++++.+++..+++.+++++|+.++++++++++..++||+|.+++.||....  +.+.||.+++.++++...++.+++++
T Consensus       155 f~~l~~~~l~~~L~~i~~~egi~i~~~~l~~i~~~~~gDlR~aln~Lq~~~~--~~~~i~~~~v~~~~~~~~~~~i~~~i  232 (319)
T PLN03025        155 FSRLSDQEILGRLMKVVEAEKVPYVPEGLEAIIFTADGDMRQALNNLQATHS--GFGFVNQENVFKVCDQPHPLHVKNIV  232 (319)
T ss_pred             CCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHh--cCCCCCHHHHHHHcCCCCHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999995443  45689999999999999999999999


Q ss_pred             hc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        273 KV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       273 ~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                      ++   ++.+.+...+++|+..|+++.+|+..+.+++... ++++..+..++..++++++++..|.++.+||+.|+..++.
T Consensus       233 ~~~~~~~~~~a~~~l~~ll~~g~~~~~Il~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~l~a~~~~~~~  311 (319)
T PLN03025        233 RNCLKGKFDDACDGLKQLYDLGYSPTDIITTLFRVVKNY-DMPEFLKLEYLREIGFAHMRICDGVGSLLQLSGLLAKLCL  311 (319)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-CCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
Confidence            87   8999999999999999999999999998887654 6789999999999999999999999999999999999988


Q ss_pred             HHhhc
Q psy17903        350 ANKTA  354 (355)
Q Consensus       350 ~~~~~  354 (355)
                      ....|
T Consensus       312 ~~~~~  316 (319)
T PLN03025        312 VRETA  316 (319)
T ss_pred             HHHHh
Confidence            76554

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=100.00  E-value=1.7e-44  Score=330.45  Aligned_cols=311  Identities=41%  Similarity=0.692  Sum_probs=280.3

Q ss_pred             CCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  109 (355)
                      .+..+|.+||||++|++++|++++++.+..+++.+..++++|+||+|+|||++++.+++.+.+..+...++++++++..+
T Consensus         2 ~~~~~w~~kyrP~~~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~   81 (319)
T PRK00440          2 MMEEIWVEKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERG   81 (319)
T ss_pred             CccCccchhhCCCcHHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccc
Confidence            45789999999999999999999999999999999888999999999999999999999998777777788888877666


Q ss_pred             hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCee
Q psy17903        110 IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCS  189 (355)
Q Consensus       110 ~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~  189 (355)
                      .+.+++.+..+........       +++++|+|||+|.+..+.++.|+++++.++.++++|++++...++.+++++||.
T Consensus        82 ~~~~~~~i~~~~~~~~~~~-------~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~  154 (319)
T PRK00440         82 IDVIRNKIKEFARTAPVGG-------APFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCA  154 (319)
T ss_pred             hHHHHHHHHHHHhcCCCCC-------CCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhh
Confidence            6666666666654332210       146799999999999999999999999999999999999999999999999999


Q ss_pred             eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHHHH
Q psy17903        190 KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIE  269 (355)
Q Consensus       190 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~~~  269 (355)
                      .++|.+++.+++..+++.++.++|+.+++++++.+++.++||+|.+++.|++++.+  ++.||.++|.+++....+..++
T Consensus       155 ~~~~~~l~~~ei~~~l~~~~~~~~~~i~~~al~~l~~~~~gd~r~~~~~l~~~~~~--~~~it~~~v~~~~~~~~~~~i~  232 (319)
T PRK00440        155 VFRFSPLKKEAVAERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINALQAAAAT--GKEVTEEAVYKITGTARPEEIR  232 (319)
T ss_pred             eeeeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHc--CCCCCHHHHHHHhCCCCHHHHH
Confidence            99999999999999999999999999999999999999999999999999998875  4689999999999999999999


Q ss_pred             HHHhc---CCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHH
Q psy17903        270 KLLKV---DSFQVLEKYIEDLI-LEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGS  345 (355)
Q Consensus       270 ~l~~~---~~~~~~~~~l~~l~-~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~  345 (355)
                      +++++   ++..+++.++++|+ ..|+++.+++..+..++.. ++++...+.++++.++++|+++|+|.++.++||.|++
T Consensus       233 ~l~~~~~~~~~~~a~~~l~~ll~~~g~~~~~i~~~l~~~~~~-~~~~~~~l~~~~~~~~~~d~~~k~g~~~~~~le~~i~  311 (319)
T PRK00440        233 EMIELALNGDFTEAREKLRDLMIDYGLSGEDIIKQIHREVWS-LDIPEELKVELIDAIGEADFRITEGANERIQLEALLA  311 (319)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            99987   89999999999997 4899999999999876654 5899999999999999999999999999999999999


Q ss_pred             HHHHH
Q psy17903        346 IVIKA  350 (355)
Q Consensus       346 ~~~~~  350 (355)
                      ++|..
T Consensus       312 ~~~~~  316 (319)
T PRK00440        312 KLALL  316 (319)
T ss_pred             HHHHh
Confidence            99865

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=8.3e-45  Score=343.31  Aligned_cols=307  Identities=27%  Similarity=0.397  Sum_probs=276.9

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc-----------------
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-----------------   94 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~-----------------   94 (355)
                      ..|.+||||++|++++||++++..|...++.++.+| ||||||+|+|||++|+++++.+.+..                 
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            469999999999999999999999999999999999 89999999999999999999997532                 


Q ss_pred             --cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEE
Q psy17903         95 --YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL  172 (355)
Q Consensus        95 --~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il  172 (355)
                        .+..++++++....+++.+++.+......+..         +++||+||||+|.|+.+++++|+++||+++.+++||+
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              34467888887777899999888764433222         2678999999999999999999999999999999999


Q ss_pred             EecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC
Q psy17903        173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV  252 (355)
Q Consensus       173 ~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It  252 (355)
                      +|+++.++.++|+|||..++|.+++.+++..|+..++.++|+.++++++..+++.++||+|.+++.|+++..++ ++.||
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            99999999999999999999999999999999999999999999999999999999999999999999988876 56899


Q ss_pred             HHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-----cCCCCHHHHHHHHHHHH
Q psy17903        253 NEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS-----ASSLSDKQKALILEKLA  324 (355)
Q Consensus       253 ~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-----~~~~~~~~~~~i~~~l~  324 (355)
                      .++|.++++...++.+++++++   ++...+..++.++  .|+++.+++..+..+++.     ...++...+.+.+..++
T Consensus       232 ~~~V~~~lg~~~~~~I~~li~ai~~~d~~~a~~~l~~L--~g~~~~~~l~~l~~~l~~~~~~~~~~~~l~~l~r~~riL~  309 (535)
T PRK08451        232 ESKVADMLGLLDPSKLEDFFQAILNQDKEKLFELLKEL--EDYEAEMVLDEMMLFLKEKFLSKDSEFSILLYERFFRILS  309 (535)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHhcCHHHHHHHHHHH--HCCCHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHH
Confidence            9999999999999999999987   8999999999998  479999999999888872     23467777889999999


Q ss_pred             HHHHHhhCCCChHHHHHHHHHHHHHHH
Q psy17903        325 ECNARLQDGASEYIQILDLGSIVIKAN  351 (355)
Q Consensus       325 ~~~~~l~~g~~~~~~l~~~~~~~~~~~  351 (355)
                      ++...++.|.+++++++.++.+++...
T Consensus       310 ~~k~~l~~g~~~~i~l~~~~~~~~~~~  336 (535)
T PRK08451        310 SAKSLLKEGADDGFVLLLMLFKMKEAL  336 (535)
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHhc
Confidence            999999999999999999999998743

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.3e-44  Score=346.83  Aligned_cols=307  Identities=21%  Similarity=0.298  Sum_probs=273.0

Q ss_pred             ccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc------------------
Q psy17903         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM------------------   94 (355)
Q Consensus        34 ~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~------------------   94 (355)
                      .|.+||||++|++++||+++++.|++++..++.+| |||+||+|+|||++|+.+++.+++..                  
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            46799999999999999999999999999999999 89999999999999999999998631                  


Q ss_pred             ---cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         95 ---YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        95 ---~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                         ...++++++++...+++.+++.+......+..+         ++||+||||+|.|+.+++++|+++||+++.+++||
T Consensus        82 ~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~---------~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fI  152 (584)
T PRK14952         82 NGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQS---------RYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFI  152 (584)
T ss_pred             ccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcC---------CceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEE
Confidence               134678899887788999988776654443322         67899999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      ++|++++++.++|+|||..++|.+++.+++.+|+..+++++|+.++++++..+++.++||+|.++++|++++.+.+++.|
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            99999999999999999999999999999999999999999999999999999999999999999999999988767789


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------------  307 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------------  307 (355)
                      |.+++.++++......+++++++   ++...+..++++++..|.++..++..|.++++.                     
T Consensus       233 t~~~v~~llg~~~~~~i~~lv~al~~~d~~~al~~l~~l~~~g~d~~~~l~~L~~~~RdLll~k~~~~~~~~~l~~~~~~  312 (584)
T PRK14952        233 TYQRALGLLGATDVALIDDAVDALAADDAAALFGAIESVIDAGHDPRRFATDLLERFRDLIVLQAVPDAAARGVVDAPED  312 (584)
T ss_pred             CHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhcchhhhcccccCCHH
Confidence            99999999999999999999888   899999999999999999999888887776652                     


Q ss_pred             --------cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 --------ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 --------~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                              ...++...+.++++.+......++.+.+.++.||.++.++|.
T Consensus       313 ~~~~l~~qa~~~s~~~L~~~i~~l~~~~~~~~~~~~~rl~LE~llikl~~  362 (584)
T PRK14952        313 VLERMREQAARIGLATLTRYAEVVQAGLGEMRGATAPRLLLEVVCARLLL  362 (584)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHhc
Confidence                    123666777888886666666666668999999999999984

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=2e-44  Score=339.61  Aligned_cols=311  Identities=23%  Similarity=0.322  Sum_probs=277.9

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc----------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM----------------   94 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~----------------   94 (355)
                      -..|++||||.+|++++||+.++..|.++++.++.+| +|||||+|+|||++|+.+++.+.+..                
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            4579999999999999999999999999999999988 99999999999999999999997631                


Q ss_pred             ----cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccE
Q psy17903         95 ----YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRF  170 (355)
Q Consensus        95 ----~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~  170 (355)
                          ...+++++++....+++.+++........+..         +++++|||||+|.|+.+.++.|+++||+++.+++|
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                12357778776667788887765544433221         26789999999999999999999999999999999


Q ss_pred             EEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCC
Q psy17903        171 CLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEG  250 (355)
Q Consensus       171 Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~  250 (355)
                      |++++...++.++|++||..++|.+++.+++..|+..+++++|+.+++++++.|+..++||+|.++++++++..+.+ +.
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            99999999999999999999999999999999999999999999999999999999999999999999999987754 56


Q ss_pred             CCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-------------cCCCCHH
Q psy17903        251 IVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS-------------ASSLSDK  314 (355)
Q Consensus       251 It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-------------~~~~~~~  314 (355)
                      |+.++|.++++....+.+++++++   ++...+..++++++..|.++..++..+.++++.             .+.++..
T Consensus       234 It~~~V~~l~~~~~~~~vf~L~~ai~~~d~~~al~~l~~L~~~g~~~~~iL~~L~~~fR~ll~vk~~~~~~~~a~~~s~~  313 (451)
T PRK06305        234 LDPDSVAKALGLLSQDSLYTLDEAITTQNYAQALEPVTDAMNSGVAPAHFLHDLTLFFRNILLKQYNKQLSSVATKYSSE  313 (451)
T ss_pred             cCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhCCHH
Confidence            999999999999999999999988   899999999999999999999998887766553             2578999


Q ss_pred             HHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHHHHh
Q psy17903        315 QKALILEKLAECNARLQDGASEYIQILDLGSIVIKANK  352 (355)
Q Consensus       315 ~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~~~~  352 (355)
                      .+.++++.+.++|+.+++|.++.+.||.|+.+++..+.
T Consensus       314 ~L~~ii~~l~e~d~~lk~~~~~k~~lE~lll~l~~~~~  351 (451)
T PRK06305        314 QLLEIIDFLGESAKHIQLTIFEKTFLETVIIHLIRIYQ  351 (451)
T ss_pred             HHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999987654

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=4.2e-44  Score=345.23  Aligned_cols=310  Identities=19%  Similarity=0.288  Sum_probs=279.3

Q ss_pred             CCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc-------------
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------   95 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~-------------   95 (355)
                      ..-.+|.+||||++|++++||+.+++.|.+++..++.+| +||+||+|+|||++|+.+++.+++...             
T Consensus         9 ~~y~~la~KyRP~~f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~   88 (598)
T PRK09111          9 TPYRVLARKYRPQTFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGV   88 (598)
T ss_pred             ccchhHHhhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcc
Confidence            345779999999999999999999999999999999998 999999999999999999999986421             


Q ss_pred             -----------ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc
Q psy17903         96 -----------RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE  164 (355)
Q Consensus        96 -----------~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~  164 (355)
                                 +.+++++++....+++.+++.+......+...         ++|||||||+|.|+..+++.|+++||++
T Consensus        89 c~~C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a---------~~KVvIIDEad~Ls~~a~naLLKtLEeP  159 (598)
T PRK09111         89 GEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSA---------RYKVYIIDEVHMLSTAAFNALLKTLEEP  159 (598)
T ss_pred             cHHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcC---------CcEEEEEEChHhCCHHHHHHHHHHHHhC
Confidence                       13467788777788999998887665444332         6789999999999999999999999999


Q ss_pred             cCCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        165 TKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       165 ~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                      +.+++|||+++..+++.++|+|||..++|.+++.+++..|+.++++++|+.+++++++.|++.++|++|.++++|+++..
T Consensus       160 p~~~~fIl~tte~~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~a~Gdlr~al~~Ldkli~  239 (598)
T PRK09111        160 PPHVKFIFATTEIRKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVEVEDEALALIARAAEGSVRDGLSLLDQAIA  239 (598)
T ss_pred             CCCeEEEEEeCChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999887


Q ss_pred             hhCCCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh--------------
Q psy17903        245 LKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS--------------  307 (355)
Q Consensus       245 ~~~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~--------------  307 (355)
                      +. .+.||.++|.++++......+++++++   ++...+...+++++..|.++..++..|.++++.              
T Consensus       240 ~g-~g~It~e~V~~llg~~~~~~if~L~~ai~~gd~~~Al~~l~~l~~~G~~p~~il~~L~~~~r~L~~vK~~~~~a~~~  318 (598)
T PRK09111        240 HG-AGEVTAEAVRDMLGLADRARVIDLFEALMRGDVAAALAEFRAQYDAGADPVVVLTDLAEFTHLVTRLKIVPDAAEDP  318 (598)
T ss_pred             hc-CCCcCHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhccchhhcc
Confidence            74 568999999999999999999999997   999999999999999999999999887765552              


Q ss_pred             -------------cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 -------------ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 -------------~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                                   .+.++...+.++++.|.+.++.++++.|..+.+|.++.+++.
T Consensus       319 ~~~p~~~~kl~~~A~~~s~~~L~r~~q~Ll~~~~~vK~~~n~~lalE~lLlrl~~  373 (598)
T PRK09111        319 SLSEAERTRGAEFAKKLSMRVLSRLWQMLLKGIEEVQGAPRPLAAAEMVLIRLAY  373 (598)
T ss_pred             cCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHh
Confidence                         235677889999999999999999999999999999999974

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4e-44  Score=347.80  Aligned_cols=308  Identities=20%  Similarity=0.358  Sum_probs=279.4

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc-----------------
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-----------------   94 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~-----------------   94 (355)
                      ..|++||||.+|++++||++++..|.++++.++.+| ||||||+|+|||++|+.+++.+.+..                 
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 99999999999999999999997421                 


Q ss_pred             ---cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         95 ---YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        95 ---~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                         ...+++++++.+..+++.+++.+......+..+         ++||+||||+|.|+.++++.|+++||+++.+++||
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               235778888877777888998887765544332         67899999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      ++++...++.++|+|||..++|.+++.+++..|+..++.++|+.+++++++.|+..++||+|.++++|++++.|.+++ |
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            999999999999999999999999999999999999999999999999999999999999999999999999887555 9


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------------  307 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------------  307 (355)
                      +.+++.+.+.....+.+|+++++   ++...+...+++|+..|+++..++..|.++++.                     
T Consensus       235 t~~~V~~~l~~~~~~~iF~L~dai~~~~~~~al~ll~~Ll~~g~~~~~iL~~L~~~fRdlL~~K~~~~~~ll~v~~~~~~  314 (614)
T PRK14971        235 TYKSVIENLNILDYDYYFRLTDALLAGKVSDSLLLFDEILNKGFDGSHFITGLASHFRDLLVCKDAATLQLLEVGESIRQ  314 (614)
T ss_pred             cHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccccccccCCHHHHH
Confidence            99999999999999999999998   899999999999999999999999887765542                     


Q ss_pred             -----cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHHH
Q psy17903        308 -----ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  350 (355)
Q Consensus       308 -----~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~~  350 (355)
                           +++++...+.++++.+.++|+.||+|.|.++.||.++.+++..
T Consensus       315 ~~~~qa~~~s~~~L~~~l~~l~e~d~~lK~~~n~~l~lE~lllkL~~~  362 (614)
T PRK14971        315 RYLEQAQKCPMSFLYRALKLCNQCDLNYRASKNKRLLVELTLIQLAQL  362 (614)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHhcc
Confidence                 2467788889999999999999999999999999999999864

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=5.7e-44  Score=331.06  Aligned_cols=310  Identities=20%  Similarity=0.318  Sum_probs=265.0

Q ss_pred             CCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc--------------
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM--------------   94 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~--------------   94 (355)
                      .+..+|.+||||++|++++||++++..|..++..++.+| +||+||+|+|||++|+.+++.+++..              
T Consensus         3 ~~~~~L~~KyRP~~f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~   82 (484)
T PRK14956          3 GTHEVLSRKYRPQFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCL   82 (484)
T ss_pred             CCcchhHHHhCCCCHHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHH
Confidence            345789999999999999999999999999999999998 99999999999999999999998742              


Q ss_pred             -----cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCcc
Q psy17903         95 -----YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTR  169 (355)
Q Consensus        95 -----~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~  169 (355)
                           ...+++++++....+++.+++.+......+..         +.++|+||||+|.|+.+++++|++.||+++.+++
T Consensus        83 ~i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~---------g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~vi  153 (484)
T PRK14956         83 EITKGISSDVLEIDAASNRGIENIRELRDNVKFAPMG---------GKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIV  153 (484)
T ss_pred             HHHccCCccceeechhhcccHHHHHHHHHHHHhhhhc---------CCCEEEEEechhhcCHHHHHHHHHHhhcCCCceE
Confidence                 12357788887778888888876665433221         1568999999999999999999999999999999


Q ss_pred             EEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCC
Q psy17903        170 FCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGE  249 (355)
Q Consensus       170 ~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~  249 (355)
                      ||++|+...++.++|+|||..++|.+++.+++..++++++..+|+.++++++..|++.++|++|.+++.|+.+..+. ++
T Consensus       154 FILaTte~~kI~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~~e~eAL~~Ia~~S~Gd~RdAL~lLeq~i~~~-~~  232 (484)
T PRK14956        154 FILATTEFHKIPETILSRCQDFIFKKVPLSVLQDYSEKLCKIENVQYDQEGLFWIAKKGDGSVRDMLSFMEQAIVFT-DS  232 (484)
T ss_pred             EEeecCChhhccHHHHhhhheeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCChHHHHHHHHHHHHHhC-CC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999877654 45


Q ss_pred             CCCHHHHHHHhCCCChHHHHHHHhc---CC-HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh------------------
Q psy17903        250 GIVNEDVLEVTGVIPNPWIEKLLKV---DS-FQVLEKYIEDLILEAYSATQLFDQFHDIVMS------------------  307 (355)
Q Consensus       250 ~It~~~v~~~~~~~~~~~~~~l~~~---~~-~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~------------------  307 (355)
                      .||.+.|.++++....+.+.+++++   ++ ...+...+..++..|.++..++..+.++++.                  
T Consensus       233 ~it~~~V~~~lg~~~~~~~~~l~~si~~~d~~~~al~~l~~l~~~G~d~~~~~~~l~~~~r~l~~~~~~~~~~~~~~~~~  312 (484)
T PRK14956        233 KLTGVKIRKMIGYHGIEFLTSFIKSLIDPDNHSKSLEILESLYQEGQDIYKFLWDSIEFTHTLNLIRDSLADRESVNFPK  312 (484)
T ss_pred             CcCHHHHHHHhCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhcccchhhccCCH
Confidence            7999999999999999999999887   34 4689999999999999999999888877663                  


Q ss_pred             ---------cCCCCHHHHHHHHHHHHH----H-HHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 ---------ASSLSDKQKALILEKLAE----C-NARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 ---------~~~~~~~~~~~i~~~l~~----~-~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                               ...++...+.++++.+..    . +..++...+.++.+|..+.+++.
T Consensus       313 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~s~~~r~~~E~~~~~l~~  368 (484)
T PRK14956        313 EDLQKMKSDFENVDSSKLNFLSGKLFEIYEKIKTIRLRNSFEIKVFTEIQIKKLVE  368 (484)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHhhhccCCCchHHHHHHHHHHhc
Confidence                     123444445554444422    2 34567778999999999999984

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=7e-44  Score=341.44  Aligned_cols=308  Identities=21%  Similarity=0.322  Sum_probs=271.1

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc---------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~---------------   95 (355)
                      ...|.+||||++|++++||+++++.|.+++.+++.+| |||+||+|+|||++++.+++.++++..               
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            4569999999999999999999999999999999999 899999999999999999999986311               


Q ss_pred             ----ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        96 ----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                          ..+++++|..+..+++++++.+......+..         .++||+||||+|.|+...+|.|+++||+++.+++||
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                1257889988888899999888765433322         267899999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      |+|++..++.++|+|||..++|++++.+++..+|++++..+++.++++++..|++.++||+|.++++++.+..+. ++.|
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            999999999999999999999999999999999999999999999999999999999999999999998877664 4579


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------------  307 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------------  307 (355)
                      +.+.|..+++....+.++++++.   ++...+...+.++...|++...++..|..++.+                     
T Consensus       233 t~~~V~~~LG~~d~~~i~~ll~aL~~~d~~~~l~~~~~l~~~g~~~~~~l~dLl~~l~~~~~~q~~~~~~~~~~~e~~~~  312 (830)
T PRK07003        233 TETAVSGMLGALDQTYMVRLLDALAAGDGPEILAVADEMALRSLSFSTALQDLASLLHRIAWAQFAPASVLDEWPEAADL  312 (830)
T ss_pred             CHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhCccccccccchHHHH
Confidence            99999999999999999999988   999999999999999898877666555443331                     


Q ss_pred             ---cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 ---ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 ---~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                         ...++...+...++.+......|+...+.++.+|+.+.+++.
T Consensus       313 ~~~a~~~s~~~l~~~~qi~l~g~~el~~ap~~~~~~Em~llr~l~  357 (830)
T PRK07003        313 RRFAELLSPEQVQLFYQIATVGRGELGLAPDEYAGFTMTLLRMLA  357 (830)
T ss_pred             HHHHHhCCHHHHHHHHHHHHhHHHHhhcCCCHHHHHHHHHHHHhc
Confidence               235677777888899999999998889999999999999863

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=5.7e-44  Score=354.41  Aligned_cols=309  Identities=21%  Similarity=0.321  Sum_probs=272.9

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc----------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM----------------   94 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~----------------   94 (355)
                      ...|.+||||.+|++|+||+++++.|++++.+++.+| |||+||+|||||++|+.|++.++|..                
T Consensus         2 ~~~l~~KyRP~~f~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~   81 (824)
T PRK07764          2 ALALYRRYRPATFAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVAL   81 (824)
T ss_pred             chhHHHHhCCCCHHHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHH
Confidence            4568899999999999999999999999999999999 99999999999999999999998631                


Q ss_pred             -----cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCcc
Q psy17903         95 -----YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTR  169 (355)
Q Consensus        95 -----~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~  169 (355)
                           ...+++++++....+++.+++...........         +++||+||||+|.|+.+.+|.|+++||+++.+++
T Consensus        82 ~~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~---------~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~  152 (824)
T PRK07764         82 APGGPGSLDVTEIDAASHGGVDDARELRERAFFAPAE---------SRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLK  152 (824)
T ss_pred             HcCCCCCCcEEEecccccCCHHHHHHHHHHHHhchhc---------CCceEEEEechhhcCHHHHHHHHHHHhCCCCCeE
Confidence                 23467888887778899998866554332221         2678999999999999999999999999999999


Q ss_pred             EEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCC
Q psy17903        170 FCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGE  249 (355)
Q Consensus       170 ~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~  249 (355)
                      |||+|++.++++++|+|||..|.|.+++.+++..||.++++++|+.++++++..|++.++||+|.++++|+++..+.+.+
T Consensus       153 fIl~tt~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~id~eal~lLa~~sgGdlR~Al~eLEKLia~~~~~  232 (824)
T PRK07764        153 FIFATTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVPVEPGVLPLVIRAGGGSVRDSLSVLDQLLAGAGPE  232 (824)
T ss_pred             EEEEeCChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999876677


Q ss_pred             CCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-------------------
Q psy17903        250 GIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS-------------------  307 (355)
Q Consensus       250 ~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-------------------  307 (355)
                      .||.+++..+++......+++++++   ++...+..++++++..|+++..++..|.++++.                   
T Consensus       233 ~IT~e~V~allg~~~~~~I~~lidAL~~~D~a~al~~l~~Li~~G~dp~~~L~~LL~~fRDLL~vka~~~~~~~~l~~~p  312 (824)
T PRK07764        233 GVTYERAVALLGVTDSALIDEAVDALAAGDGAALFGTVDRVIEAGHDPRRFAEDLLERLRDLIVLQAVPDAAERGLVDAP  312 (824)
T ss_pred             CCCHHHHHHHhcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcCcchhhhhccCC
Confidence            8999999999999999999999987   789999999999999999987776665554442                   


Q ss_pred             ----------cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 ----------ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 ----------~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                                ...|+...+.++++.+.++...++.+.+.++.+|.||.+++.
T Consensus       313 ~d~~~~L~~qA~~~s~~~L~r~ie~l~ea~~~lrgn~nprL~LElLllrLll  364 (824)
T PRK07764        313 ADQLDRMRAQAQRLGPAELTRAADVVNDGLTEMRGATSPRLLLELLCARMLL  364 (824)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHh
Confidence                      135667778888999999977787779999999999999974

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=6.3e-44  Score=339.77  Aligned_cols=308  Identities=19%  Similarity=0.265  Sum_probs=271.1

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc----------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM----------------   94 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~----------------   94 (355)
                      -.+|.+||||++|++++||+++++.|.+++..++.+| +||+||+|+|||++|+.+++.+++..                
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            4679999999999999999999999999999999999 89999999999999999999998632                


Q ss_pred             ---cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         95 ---YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        95 ---~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                         ...++++++++...+++.+++.+......+..         +.+||+||||+|.|+.+++++|+++||+++.+++||
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               12357889988888999999887765543322         267899999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      ++|+++.++.++|+|||..++|.+++.+++..+++.+++++|+.++++++..+++.++|++|.++++++++..+ +++.|
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            99999999999999999999999999999999999999999999999999999999999999999999998877 46789


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------------  307 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------------  307 (355)
                      |.++|.++++....+.+++++++   ++.+.+...++++...|.++..++..+..++.+                     
T Consensus       233 t~~~V~~~lg~~~~~~i~~ll~al~~~d~~~~l~~~~~l~~~g~~~~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  312 (509)
T PRK14958        233 LIADVKTMLGTIEPLLLFDILEALAAKAGDRLLGCVTRLVEQGVDFSNALADLLSLLHQIAIIQTVPEALIENDSEQLRQ  312 (509)
T ss_pred             CHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhCccccccchHHHHHH
Confidence            99999999999999999999997   899999999999999999988777666554442                     


Q ss_pred             -cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 -ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 -~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                       ...++...+...++.+......|+...+.++.+|..+.+++.
T Consensus       313 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~  355 (509)
T PRK14958        313 LAKLLDREDVQLFYQIGLIGQRDLAYSPTPQTGFEMTLLRMLA  355 (509)
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHh
Confidence             123455555556666666778888889999999999999874

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.8e-43  Score=334.18  Aligned_cols=312  Identities=20%  Similarity=0.312  Sum_probs=277.8

Q ss_pred             CCCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc-------------
Q psy17903         29 RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-------------   94 (355)
Q Consensus        29 ~~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~-------------   94 (355)
                      +++..+|.+||||++|++++||++++..|...+..++.+| +||+||+|+|||++|+.+++.+++..             
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            3567899999999999999999999999999999999887 99999999999999999999997632             


Q ss_pred             ----------cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc
Q psy17903         95 ----------YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE  164 (355)
Q Consensus        95 ----------~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~  164 (355)
                                ...+++++++....+++.+++.+......+..+         +++|+||||+|.|+..+++.|+++||++
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                      123678888888889999999887765444332         6789999999999999999999999999


Q ss_pred             cCCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        165 TKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       165 ~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                      +.+++||++|+..+++.+++++||..++|.+++.+++..|++.+++++|+.+++++++.|++.++||+|.++++|++++.
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--CCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh------------
Q psy17903        245 LKG--GEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS------------  307 (355)
Q Consensus       245 ~~~--~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~------------  307 (355)
                      +++  ++.||.++|.++++....+.+++++++   ++...+...+++++..|.++..++..+.++++.            
T Consensus       236 ~~~~~~~~It~~~V~~llg~~~~~~if~L~~ai~~~d~~~Al~~l~~L~~~g~~~~~~l~~l~~~~~~l~~~k~~~~~~~  315 (507)
T PRK06645        236 MSAKSDNIISPQVINQMLGLVDSSVIIEFVEYIIHRETEKAINLINKLYGSSVNLEIFIESVSDFIAYLNKVKMLPNYSL  315 (507)
T ss_pred             hhccCCCCcCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcccccc
Confidence            764  347999999999999999999999998   999999999999999999999888765554431            


Q ss_pred             -------------cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 -------------ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 -------------~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                                   ...++...+.++.+.+.+....++...+.++.+|..+.+++.
T Consensus       316 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~e~~l~r~~~  370 (507)
T PRK06645        316 PIYESFNDRTKSILDKISLPHLSILWQIYNKGVGEIKISYNQLTETEMLVIKSIY  370 (507)
T ss_pred             ccchhHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhccCCCchHHHHHHHHHHHH
Confidence                         124556677788899999999999999999999999999874

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=5.9e-44  Score=345.97  Aligned_cols=308  Identities=22%  Similarity=0.347  Sum_probs=277.4

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc---------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~---------------   95 (355)
                      ...|.+||||++|++++||+++++.|.+++..++.+| ||||||+|+|||++|+.+++.+++...               
T Consensus         3 y~~l~~k~RP~~f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i   82 (576)
T PRK14965          3 YLVLARKYRPQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEI   82 (576)
T ss_pred             cHHHHHHhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHH
Confidence            3568999999999999999999999999999999999 899999999999999999999986421               


Q ss_pred             ----ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        96 ----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                          ..+++++++....+++.+++.+......+..         +++||+||||+|.|+.+++++|+++||+++.+++||
T Consensus        83 ~~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~---------~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fI  153 (576)
T PRK14965         83 TEGRSVDVFEIDGASNTGVDDIRELRENVKYLPSR---------SRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFI  153 (576)
T ss_pred             hcCCCCCeeeeeccCccCHHHHHHHHHHHHhcccc---------CCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEE
Confidence                3457888888778889988877665543322         267899999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      ++|++++++.++|+|||..++|.+++.+++..++..+++++|+.++++++..+++.++||+|.++++|+++..+.+ +.|
T Consensus       154 l~t~~~~kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~i~~~al~~la~~a~G~lr~al~~Ldqliay~g-~~I  232 (576)
T PRK14965        154 FATTEPHKVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGISISDAALALVARKGDGSMRDSLSTLDQVLAFCG-DAV  232 (576)
T ss_pred             EEeCChhhhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-CCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999998865 479


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------------  307 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------------  307 (355)
                      |.++|.++++....+.+++++++   ++...+..++.++...|.++..++..+.++++.                     
T Consensus       233 t~edV~~llG~~~~~~l~~ll~al~~~d~~~al~~l~~l~~~G~~~~~~l~~Ll~~~RdLl~~k~~~~~~~~l~~~~~~~  312 (576)
T PRK14965        233 GDDDVAELLGVVDRRLLLDISAAVFGRDTRALLEIVERVDEFGYNMRQFCQELIDHLRNLVVLRAVGEPGDLLDLSEAEL  312 (576)
T ss_pred             CHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhcCchhhhccCCHHHH
Confidence            99999999999999999999887   899999999999999999998888877666552                     


Q ss_pred             ------cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 ------ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 ------~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                            ...++...+.++++.+.++++.++.+.+.++.||.++.+++.
T Consensus       313 ~~~~~~A~~~s~~~L~~~l~~l~~~~~~lk~~~~~~l~lE~lllkl~~  360 (576)
T PRK14965        313 AELRAQAAAADAADLQRHLTLLLRAEGEMAHASFPRLVLEMALLKMAT  360 (576)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHhh
Confidence                  134677888889999999999999999999999999999976

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=7.1e-44  Score=332.95  Aligned_cols=308  Identities=20%  Similarity=0.299  Sum_probs=276.4

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc-----------------
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-----------------   94 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~-----------------   94 (355)
                      ..+++||||.+|++++||+.+++.|.+++.+++.+| +||+||+|+|||++|+++++.+.+..                 
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            467899999999999999999999999999999999 99999999999999999999998732                 


Q ss_pred             ----------cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc
Q psy17903         95 ----------YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE  164 (355)
Q Consensus        95 ----------~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~  164 (355)
                                ...+++++++....+++.+++....+...+..+         +++++||||+|.++.+.++.|++++|++
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                      013566777766677888888776665444332         6789999999999999999999999999


Q ss_pred             cCCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        165 TKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       165 ~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                      +..++||++++...++.+++++||..++|.+++.+++..|+..+++.+++.+++++++.++..++||+|.+.++++++..
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            99999999999889999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             hh----CCCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh----------
Q psy17903        245 LK----GGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS----------  307 (355)
Q Consensus       245 ~~----~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~----------  307 (355)
                      +.    +++.||.++|.+++.....+.+++++++   ++...+..+++++...|.++..++..+.++++.          
T Consensus       235 ~~~~~~~~~~It~~~v~~~v~~~~~~~vf~l~~ai~~~~~~~al~~~~~l~~~~~~~~~iL~ll~~~~R~ll~~k~~~~~  314 (397)
T PRK14955        235 FSVESEGEGSIRYDKVAELLNYIDDEHFFAVTDAVADGDAVAMLDVAQFVIRNGYDEQDFLEKLIEHLRNFLVVHNLRST  314 (397)
T ss_pred             hccccCCCCccCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcccc
Confidence            85    2468999999999999999999999998   999999999999999999999888877766552          


Q ss_pred             ----------------cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 ----------------ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 ----------------~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                                      .++++...+.++++.+.++|+.+|++.|..+.||.|+.+++.
T Consensus       315 ~~~~~~~~~~~~~~~~a~~~s~~~L~~~l~~l~e~d~~lK~~~~~~l~lE~lll~l~~  372 (397)
T PRK14955        315 RLVERPDAVRERYERDAAKFSPEVIMQMTDLLLQTQKELKFQFEYQFRFELALLKLIE  372 (397)
T ss_pred             ccccCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHh
Confidence                            246888899999999999999999999999999999999864

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.1e-43  Score=331.12  Aligned_cols=304  Identities=20%  Similarity=0.305  Sum_probs=272.5

Q ss_pred             ccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCC-------------------
Q psy17903         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGD-------------------   93 (355)
Q Consensus        34 ~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~-------------------   93 (355)
                      .|++||||++|++++||+++++.|.+.+..++.+| +||+||+|+|||++|+.+++.+++.                   
T Consensus         2 ~la~KyRP~~f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~   81 (491)
T PRK14964          2 NLALKYRPSSFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKN   81 (491)
T ss_pred             ChhHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhc
Confidence            58999999999999999999999999999999997 9999999999999999999998752                   


Q ss_pred             ccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEE
Q psy17903         94 MYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLI  173 (355)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~  173 (355)
                      ....+++++|+++..+++.+++.+......+..+         ++|++||||+|.|+.+++++|+++||+++.+++||++
T Consensus        82 ~~~~Dv~eidaas~~~vddIR~Iie~~~~~P~~~---------~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIla  152 (491)
T PRK14964         82 SNHPDVIEIDAASNTSVDDIKVILENSCYLPISS---------KFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILA  152 (491)
T ss_pred             cCCCCEEEEecccCCCHHHHHHHHHHHHhccccC---------CceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEE
Confidence            1345789999998899999999887766554332         6789999999999999999999999999999999999


Q ss_pred             ecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCH
Q psy17903        174 CNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN  253 (355)
Q Consensus       174 ~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~  253 (355)
                      |+...++.++++|||..++|.+++.+++..|+..+++++|+.+++++++.|++.++||+|.++++|+++..+.+ +.||.
T Consensus       153 tte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~i~~eAL~lIa~~s~GslR~alslLdqli~y~~-~~It~  231 (491)
T PRK14964        153 TTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLEQAAIYSN-NKISE  231 (491)
T ss_pred             eCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcC-CCCCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999988764 58999


Q ss_pred             HHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-----------------------
Q psy17903        254 EDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS-----------------------  307 (355)
Q Consensus       254 ~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-----------------------  307 (355)
                      ++|.++++....+.+++++++   ++...+...+++++..| ++..++..+..++..                       
T Consensus       232 e~V~~llg~~~~~~If~L~~aI~~~d~~~Al~~l~~Ll~~g-~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  310 (491)
T PRK14964        232 KSVRDLLGCVDKHILEDLVEAILLGDAQSALNVFRELCNTS-NPVIILEGMLQIIYEICYFSITKEIDFLLGEDLITRIK  310 (491)
T ss_pred             HHHHHHHccCCHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHHhcCccccccCCHHHHHHHH
Confidence            999999999999999999998   99999999999999865 677777766654432                       


Q ss_pred             --cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 --ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 --~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                        .. ++...+.++++.+.+....++...+.++++|.++.+++.
T Consensus       311 ~~~~-~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~e~~~~rl~~  353 (491)
T PRK14964        311 SLKI-GSTIFLSRLWQMLLKGIQEVKSSTCVKQAAEMMIIRLCY  353 (491)
T ss_pred             HHhC-CCHHHHHHHHHHHHHHHHHhccCCCchHHHHHHHHHHHh
Confidence              11 566677788899999999999999999999999999874

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.8e-43  Score=341.16  Aligned_cols=310  Identities=19%  Similarity=0.291  Sum_probs=279.4

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc-----------------
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-----------------   94 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~-----------------   94 (355)
                      ..+.+||||.+|++++||+.++..|++++.+++.+| +||+||+|+|||++|+.+++.+++..                 
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            457899999999999999999999999999999999 99999999999999999999998732                 


Q ss_pred             ----------cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc
Q psy17903         95 ----------YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE  164 (355)
Q Consensus        95 ----------~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~  164 (355)
                                .+.++.++++....+++.+++.+..+...+..+         ++||+||||+|.|+..+++.|+++||++
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                      123566777766677889998877765544332         6789999999999999999999999999


Q ss_pred             cCCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        165 TKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       165 ~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                      +.+++||+++++..++.++|++||..++|.+++.+++..|+..+++.+|+.+++++++.|+..++||+|.++++|+++..
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----CCCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh----------
Q psy17903        245 LK----GGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS----------  307 (355)
Q Consensus       245 ~~----~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~----------  307 (355)
                      |.    .++.||.++|.+++.....+.+++++++   ++..++..+++++...|.++..++..+.++++.          
T Consensus       235 y~~~~~~~~~It~~~V~~lv~~~~e~~iF~L~dai~~~d~~~al~~l~~Ll~~ge~p~~iL~lL~~~fRdLL~vK~~~~~  314 (620)
T PRK14954        235 FSVGSEAEKVIAYQGVAELLNYIDDEQFFDVTDAIAENDAVKMLEVARFVIDNGYDEQDFLEKLIEHFRNFLVLYNLRST  314 (620)
T ss_pred             hccccccCCccCHHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhcccc
Confidence            86    2568999999999999999999999998   899999999999999999999999888776652          


Q ss_pred             ----------------cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHHHH
Q psy17903        308 ----------------ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKAN  351 (355)
Q Consensus       308 ----------------~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~~~  351 (355)
                                      ++.++...+.++++.+.++|+.||++.+.++.||.|+.++++..
T Consensus       315 ~l~~~~~~v~~~l~~qA~~fs~~~L~~~l~~l~e~d~~LKtn~n~~l~lEllLlkl~~~~  374 (620)
T PRK14954        315 RLIERPESVKERYQQSAGGLTPAAVMQMTDFLMKTQGELKFQFEYQFRFELALLRLIELV  374 (620)
T ss_pred             ccccCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHhcc
Confidence                            24577788888999999999999999999999999999998754

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=5.5e-43  Score=323.48  Aligned_cols=308  Identities=20%  Similarity=0.280  Sum_probs=271.4

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc---------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~---------------   95 (355)
                      -.+|.+||||++|++++||+++++.|.+.+..++.+| ++|+||+|+|||++|+++++.+.+...               
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            4679999999999999999999999999999999999 899999999999999999999975311               


Q ss_pred             ----ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        96 ----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                          ..+++++++.....++.+++.+......+..         ++++++||||+|.++..+++.|++++|+++.+++||
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                1245667766556677777766654432221         256799999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      ++|++..++.++++|||..++|.+++.+++.+|+..+++.+|+.+++++++.++..++||+|.+++.+++++.+ +.+.|
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            99999999999999999999999999999999999999999999999999999999999999999999998887 46789


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------------  307 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------------  307 (355)
                      |.++|.++++...+..+++++++   ++...+...++++...|+++.+++..+..+++.                     
T Consensus       233 t~~~v~~~l~~~~~~~i~~l~~ai~~~~~~~~~~~~~~l~~~g~~~~~il~~l~~~~~d~l~~~~~~~~~~~~~~~~~~~  312 (363)
T PRK14961        233 NIKNVTDMLGLLNEKQSFLLTDALLKKDSKKTMLLLNKISSIGIEWENILIEMLRFLHHISMSQSFPKIWNTIFIKNYKN  312 (363)
T ss_pred             CHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcCchhhcccchHHHH
Confidence            99999999999999999999998   899999999999999999999999887766662                     


Q ss_pred             -----cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 -----ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 -----~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                           ...++...+.++++.+.+...+|+.+.+.++.+|.++.+++.
T Consensus       313 ~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~e~~l~~~~~  359 (363)
T PRK14961        313 QIQKIAQNNKKTNIQLCYQILLNGRKELKFAPDQKIGVEMTLLRAIN  359 (363)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHHccCCCchHHHHHHHHHHHh
Confidence                 123566777778999999999999999999999999999864

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=100.00  E-value=1e-42  Score=321.21  Aligned_cols=304  Identities=32%  Similarity=0.515  Sum_probs=262.7

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc---
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR---  108 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~---  108 (355)
                      ..+|.+||||++|++++|++++++.|.+++..+..+|++|+||+|+|||++|+++++.+.+..+...++++++.+..   
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            45899999999999999999999999999999988899999999999999999999999776544556777765421   


Q ss_pred             -----------------------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc
Q psy17903        109 -----------------------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET  165 (355)
Q Consensus       109 -----------------------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~  165 (355)
                                             ..+.+++.+..+.......        +++++|||||+|.++.+.++.|++++++++
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~vlilDe~~~l~~~~~~~L~~~le~~~  153 (337)
T PRK12402         82 KKYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLS--------ADYKTILLDNAEALREDAQQALRRIMEQYS  153 (337)
T ss_pred             hhhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCC--------CCCcEEEEeCcccCCHHHHHHHHHHHHhcc
Confidence                                   0122222222222211110        145699999999999999999999999988


Q ss_pred             CCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q psy17903        166 KSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL  245 (355)
Q Consensus       166 ~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~  245 (355)
                      ..++||++++.+.++.+++++||..+.|.+++.+++..+++.++.++++.+++++++.++..++||+|.+++.+++++. 
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            8899999998888889999999999999999999999999999999999999999999999999999999999998773 


Q ss_pred             hCCCCCCHHHHHHHhCC-CChHHHHHHHhc---CCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHH
Q psy17903        246 KGGEGIVNEDVLEVTGV-IPNPWIEKLLKV---DSFQVLEKYIEDLI-LEAYSATQLFDQFHDIVMSASSLSDKQKALIL  320 (355)
Q Consensus       246 ~~~~~It~~~v~~~~~~-~~~~~~~~l~~~---~~~~~~~~~l~~l~-~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~  320 (355)
                       +++.||.+++.+++.. ..++.+++++++   ++..++...+++++ ..|+++..++..+..++..  .++...+.+++
T Consensus       233 -~~~~It~~~v~~~~~~~~~~~~i~~l~~ai~~~~~~~a~~~l~~l~~~~g~~~~~i~~~l~~~~~~--~~~~~~l~~~~  309 (337)
T PRK12402        233 -AAGEITMEAAYEALGDVGTDEVIESLLDAAEAGDFTDARKTLDDLLIDEGLSGGEVLEELLRVARS--RYRGDNLARLH  309 (337)
T ss_pred             -cCCCCCHHHHHHHhCCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHH--HCCHHHHHHHH
Confidence             4468999999999987 457899999988   89999999999987 7899999999999887665  49999999999


Q ss_pred             HHHHHHHHHhhCCCChHHHHHHHHHHH
Q psy17903        321 EKLAECNARLQDGASEYIQILDLGSIV  347 (355)
Q Consensus       321 ~~l~~~~~~l~~g~~~~~~l~~~~~~~  347 (355)
                      +.++++|+.+|+|.+++++||.||.++
T Consensus       310 ~~l~~~d~~lk~g~~~~~~le~~i~~~  336 (337)
T PRK12402        310 RLAADADARLTDGANDRIQLEALLAEL  336 (337)
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence            999999999999999999999999876

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=7.5e-43  Score=336.75  Aligned_cols=308  Identities=23%  Similarity=0.374  Sum_probs=278.3

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc----------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM----------------   94 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~----------------   94 (355)
                      -..|.+||||++|++++||+++++.|++++..++.+| |||+||+|+|||++|+.+++.+++..                
T Consensus         3 y~al~~k~rP~~f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i   82 (559)
T PRK05563          3 YQALYRKWRPQTFEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAI   82 (559)
T ss_pred             cHHHHHHhCCCcHHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHH
Confidence            3568899999999999999999999999999999999 99999999999999999999998632                


Q ss_pred             ---cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         95 ---YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        95 ---~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                         ...++++++++...+++.+++.+......+..         +++||+||||+|.|+.+++++|+++||+++.+++||
T Consensus        83 ~~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~---------~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifI  153 (559)
T PRK05563         83 TNGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSE---------AKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFI  153 (559)
T ss_pred             hcCCCCCeEEeeccccCCHHHHHHHHHHHhhCccc---------CCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEE
Confidence               13467888888778888888877765443322         267899999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      ++|+.++++.++|+|||..++|.+++.+++..|++.+++++|+.+++++++.++..++|++|.+++.|+++..+. ++.|
T Consensus       154 latt~~~ki~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i~~~al~~ia~~s~G~~R~al~~Ldq~~~~~-~~~I  232 (559)
T PRK05563        154 LATTEPHKIPATILSRCQRFDFKRISVEDIVERLKYILDKEGIEYEDEALRLIARAAEGGMRDALSILDQAISFG-DGKV  232 (559)
T ss_pred             EEeCChhhCcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-cCCC
Confidence            999999999999999999999999999999999999999999999999999999999999999999999998875 6689


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------------  307 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------------  307 (355)
                      |.++|.++++....+.+++++++   ++...+...+.+++..|.++..++..+..+++.                     
T Consensus       233 t~~~V~~vlg~~~~~~i~~l~~al~~~d~~~al~~l~~l~~~g~d~~~~l~~L~~~~Rdll~~k~~~~~~~~~~~~~~~~  312 (559)
T PRK05563        233 TYEDALEVTGSVSQEALDDLVDAIVEGDVAKALKILEELLDEGKDPNRFIEDLIYYLRDLLLVKTSPELEILDESTENDE  312 (559)
T ss_pred             CHHHHHHHhCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhcCcccccccCHHHHH
Confidence            99999999999999999999987   899999999999999999999888887766552                     


Q ss_pred             -----cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 -----ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 -----~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                           ...++...+.++++.+.+++..++.|.+.++.+|.++.+++.
T Consensus       313 ~~~~~a~~~s~~~L~~~i~~L~~~~~~lk~~~~~~l~lE~lllkl~~  359 (559)
T PRK05563        313 LFKELSEKLDIERLYRMIDILNDAQQQIKWTNQPRIYLEVALVKLCE  359 (559)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHh
Confidence                 125778889999999999999999999999999999999987

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=6.5e-43  Score=331.81  Aligned_cols=307  Identities=21%  Similarity=0.330  Sum_probs=272.3

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc-----------------
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-----------------   94 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~-----------------   94 (355)
                      .+|.+||||++|++++||+++++.|.+++.+++.+| +||+||+|+|||++|+++++.+++..                 
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            578999999999999999999999999999999998 89999999999999999999998632                 


Q ss_pred             --cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEE
Q psy17903         95 --YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL  172 (355)
Q Consensus        95 --~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il  172 (355)
                        ...+++++++++..+++.+++.+......+..+         ++||+||||+|.|+...+++|+++||+++.+++||+
T Consensus        83 ~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~g---------k~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FIL  153 (702)
T PRK14960         83 EGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQG---------RFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLF  153 (702)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHhhhhhcC---------CcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEE
Confidence              123678899887788999998877655433221         568999999999999999999999999999999999


Q ss_pred             EecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC
Q psy17903        173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV  252 (355)
Q Consensus       173 ~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It  252 (355)
                      +|+++.++.++++|||..++|++++.+++..++..++.++|+.++++++..|++.++||+|.+++.++++..+ +++.|+
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            9999999999999999999999999999999999999999999999999999999999999999999988776 567899


Q ss_pred             HHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh----------------------
Q psy17903        253 NEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS----------------------  307 (355)
Q Consensus       253 ~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~----------------------  307 (355)
                      .++|.++++....+.+++++++   ++...+...++++...|+++..++..+..+++.                      
T Consensus       233 ~edV~~lLG~~d~e~IfdLldAI~k~d~~~al~~L~el~~~g~d~~~~l~~Ll~~lrdlll~~~~~~~~~~~~~~~~~~~  312 (702)
T PRK14960        233 HQDVKEMLGLIDRTIIYDLILAVHQNQREKVSQLLLQFRYQALDVSLVLDQLISTLHELALLQYLPELGLKYSEEINAKI  312 (702)
T ss_pred             HHHHHHHhccCCHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhcccccccccHHHHHHH
Confidence            9999999999999999999998   889999999999999999988776665544331                      


Q ss_pred             ---cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 ---ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 ---~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                         ...++...+.+.++.+.+....|+...+.++.+|.++.+++.
T Consensus       313 ~~la~~~s~~~l~~~~qi~l~~~~~l~~s~~~r~~lEm~llrl~~  357 (702)
T PRK14960        313 LQLSKLISAQDLQLYYQIACKGRSDLQLAVTQEQGFEMCVLRLLA  357 (702)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHh
Confidence               134667777888899999999999999999999999999974

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=6.7e-43  Score=336.05  Aligned_cols=307  Identities=22%  Similarity=0.359  Sum_probs=275.6

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc----------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM----------------   94 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~----------------   94 (355)
                      ...|.+||||++|++++||++++..|.+++..++.+| |||+||+|+|||++|+.+++.+++..                
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            4679999999999999999999999999999999999 89999999999999999999998631                


Q ss_pred             --------cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccC
Q psy17903         95 --------YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK  166 (355)
Q Consensus        95 --------~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~  166 (355)
                              ...+++++++....+++.+++.+......+..         +++||+||||+|.|+.+.++.|+++||+++.
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                    12357888888888999999888765444322         2678999999999999999999999999999


Q ss_pred             CccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh
Q psy17903        167 STRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK  246 (355)
Q Consensus       167 ~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~  246 (355)
                      +++|||+|+++.++.++++|||..++|++++.+++..+++.++.++|+.++++++..|++.++||+|.++++++++..+ 
T Consensus       154 ~~~fIL~Ttd~~kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~ie~~AL~~La~~s~GslR~al~lLdq~ia~-  232 (618)
T PRK14951        154 YLKFVLATTDPQKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPAEPQALRLLARAARGSMRDALSLTDQAIAF-  232 (618)
T ss_pred             CeEEEEEECCchhhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999988877 


Q ss_pred             CCCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh----------------
Q psy17903        247 GGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS----------------  307 (355)
Q Consensus       247 ~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~----------------  307 (355)
                      +++.||.++|.++++....+.+++++++   ++...+...++++...|+++..++..+..+++.                
T Consensus       233 ~~~~It~~~V~~~Lg~~~~~~i~~LldaL~~~d~~~al~~l~~l~~~G~~~~~il~~l~~~~~~~~~~~~~~~~~~~~~~  312 (618)
T PRK14951        233 GSGQLQEAAVRQMLGSVDRSHVFRLIDALAQGDGRTVVETADELRLNGLSAASTLEEMAAVLQRMAVLQAVPQAAAAATD  312 (618)
T ss_pred             cCCCcCHHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhCcccccccCh
Confidence            4678999999999999999999999998   899999999999999999999999887765542                


Q ss_pred             ---------cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHH
Q psy17903        308 ---------ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVI  348 (355)
Q Consensus       308 ---------~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~  348 (355)
                               ...++...+...++.+......++...+.++.+|+.+.+++
T Consensus       313 ~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~em~l~r~~  362 (618)
T PRK14951        313 PEAAEVARLAALMPADETQLLYSICLHGRAELGLAPDEYAALTMVLLRLL  362 (618)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHh
Confidence                     12456677778889999999999888999999999999986

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=5.1e-43  Score=331.74  Aligned_cols=309  Identities=20%  Similarity=0.314  Sum_probs=271.0

Q ss_pred             CCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc---------------
Q psy17903         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM---------------   94 (355)
Q Consensus        31 ~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~---------------   94 (355)
                      +...|.+||||++|++++||+++++.|.+++..++.+| +||+||+|+|||++|+.+++.+++..               
T Consensus         2 sy~vLarKYRPqtFddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C   81 (700)
T PRK12323          2 SYQVLARKWRPRDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQC   81 (700)
T ss_pred             cchhHHHHhCCCcHHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCccc
Confidence            35679999999999999999999999999999999999 89999999999999999999998721               


Q ss_pred             ---------cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc
Q psy17903         95 ---------YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET  165 (355)
Q Consensus        95 ---------~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~  165 (355)
                               ...+++++++....+++.+++.+......+..         +++||+||||+|.|+...+|.|++.||+++
T Consensus        82 ~sC~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~---------gr~KViIIDEah~Ls~~AaNALLKTLEEPP  152 (700)
T PRK12323         82 RACTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTA---------GRFKVYMIDEVHMLTNHAFNAMLKTLEEPP  152 (700)
T ss_pred             HHHHHHHcCCCCcceEecccccCCHHHHHHHHHHHHhchhc---------CCceEEEEEChHhcCHHHHHHHHHhhccCC
Confidence                     11267889988888999999888765544322         167899999999999999999999999999


Q ss_pred             CCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q psy17903        166 KSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL  245 (355)
Q Consensus       166 ~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~  245 (355)
                      .+++||++|++..++.++|+|||..++|++++.+++.+++++++.++++.+++++++.|++.++|++|.++++++.+..+
T Consensus       153 ~~v~FILaTtep~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~~d~eAL~~IA~~A~Gs~RdALsLLdQaia~  232 (700)
T PRK12323        153 EHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAHEVNALRLLAQAAQGSMRDALSLTDQAIAY  232 (700)
T ss_pred             CCceEEEEeCChHhhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999876665


Q ss_pred             hCCCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------
Q psy17903        246 KGGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------  307 (355)
Q Consensus       246 ~~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------  307 (355)
                       +++.|+.+.|.++++....+.+.++++.   ++...+..++..+...|++...++..+..++..               
T Consensus       233 -~~~~It~~~V~~~LG~~d~~~i~~Ll~aL~~~d~~~~l~l~~~l~~~G~d~~~~L~dLl~~l~~l~l~q~~~~~~~~~~  311 (700)
T PRK12323        233 -SAGNVSEEAVRGMLGAIDQSYLVRLLDALAAEDGAALLAIADEMAGRSLSFAGALQDLASLLQKIALAQVVPAAVQDDW  311 (700)
T ss_pred             -ccCCcCHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhCchhccccc
Confidence             3457999999999999988888888877   889999999999999999976555554433331               


Q ss_pred             ---------cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 ---------ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 ---------~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                               ...++...+...++.+......|+...+.++.+|+.+.+++.
T Consensus       312 ~~~~~~~~~a~~~s~~~l~~~~q~~~~~~~el~~a~~~~~~~Em~llrll~  362 (700)
T PRK12323        312 PEADDIRRLAGRFDAQEVQLFYQIANLGRSELALAPDEYAGFTMTLLRMLA  362 (700)
T ss_pred             chHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHhh
Confidence                     123677788888999999999999999999999999999864

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.1e-42  Score=339.22  Aligned_cols=308  Identities=22%  Similarity=0.317  Sum_probs=271.7

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc---------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~---------------   95 (355)
                      -.+|.+||||.+|++++||++++..|++++..++.+| |||+||+|+|||++|+.+++.+++...               
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            4689999999999999999999999999999999999 799999999999999999999987421               


Q ss_pred             ----ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        96 ----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                          ...++++++.+..+++.+++.+..+...+..         +++||+||||+|.|+.++++.|+++||+++.+++||
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                1235677877667888898887766543322         267899999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      ++|++..++.++|+|||..++|++++.+++..+|++++..+++.++++++..|+..++|++|.++++++.+..+ +.+.|
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            99999999999999999999999999999999999999999999999999999999999999999999877655 45679


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------------  307 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------------  307 (355)
                      +.+.|.++++......+.++++.   ++...+..++..++..|+++..++..|..+++.                     
T Consensus       233 t~~~V~~llG~iD~~~V~~llksI~~~D~~aaL~~l~~Ll~~G~D~~~ILr~Ll~~lRDill~k~~~~~~~l~i~~e~i~  312 (944)
T PRK14949        233 MLTQVQTMLGSIDEQHVIALLKALTDADIGVLMQTCAQVLAFGADAQEVLRSLLELLHQITLTQFAPAAAQQSLYSEQIR  312 (944)
T ss_pred             cHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhccchhhccchHHHHH
Confidence            99999999999887777777776   799999999999999999999999988776663                     


Q ss_pred             --cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 --ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 --~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                        ...++...+.++++.+.+...+|+.+.+.++.||.++.+++.
T Consensus       313 ~~a~~~s~~~L~~~ie~l~~a~~~L~~n~n~rl~lE~~LLrl~~  356 (944)
T PRK14949        313 AFAEQLSPEQVQLYYQILLTGRKDLPHAPDPKSGLEMALLRAVA  356 (944)
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHH
Confidence              123556667778999999999999999999999999999874

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4.5e-42  Score=319.51  Aligned_cols=308  Identities=20%  Similarity=0.326  Sum_probs=275.2

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCC-------ccccceeeec
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGD-------MYRERILELN  103 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~-------~~~~~~~~~~  103 (355)
                      ..+|++||||.+|++++||+.+++.+.+.++.+..+| +|||||+|+|||++++++++.+.+.       ..+..+++++
T Consensus         4 ~~~~~~k~rP~~~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~   83 (367)
T PRK14970          4 FVVSARKYRPQTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELD   83 (367)
T ss_pred             hHHHHHHHCCCcHHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEec
Confidence            4689999999999999999999999999999998886 9999999999999999999998762       2345567777


Q ss_pred             CCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCcccccc
Q psy17903        104 ASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQP  183 (355)
Q Consensus       104 ~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~  183 (355)
                      .....+.+.+++.+......+..+         ++++|||||+|.++...++.|++++++++..++||++++...++.++
T Consensus        84 ~~~~~~~~~i~~l~~~~~~~p~~~---------~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~  154 (367)
T PRK14970         84 AASNNSVDDIRNLIDQVRIPPQTG---------KYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPT  154 (367)
T ss_pred             cccCCCHHHHHHHHHHHhhccccC---------CcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHH
Confidence            666666778877776654333222         56799999999999999999999999998899999999999999999


Q ss_pred             ccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCC
Q psy17903        184 LTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVI  263 (355)
Q Consensus       184 l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~  263 (355)
                      +++||..++|.+++.+++..|+..+++++|+.+++++++.++..++||+|.+.+++++++.|.+.. ||.+++.+++...
T Consensus       155 l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~i~~~al~~l~~~~~gdlr~~~~~lekl~~y~~~~-it~~~v~~~~~~~  233 (367)
T PRK14970        155 ILSRCQIFDFKRITIKDIKEHLAGIAVKEGIKFEDDALHIIAQKADGALRDALSIFDRVVTFCGKN-ITRQAVTENLNIL  233 (367)
T ss_pred             HHhcceeEecCCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHhCCC
Confidence            999999999999999999999999999999999999999999999999999999999999987655 9999999999999


Q ss_pred             ChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh--------------------------cCCCCHH
Q psy17903        264 PNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS--------------------------ASSLSDK  314 (355)
Q Consensus       264 ~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~--------------------------~~~~~~~  314 (355)
                      ..+.+++++++   ++...+...++++...|.++..++..+.++++.                          .+.++..
T Consensus       234 ~~~~if~l~~ai~~~~~~~a~~~~~~l~~~~~~~~~il~~l~~~fr~ll~~k~~~~~~~l~~~~~~~~~~~~~a~~~s~~  313 (367)
T PRK14970        234 DYDTYINVTDLILENKIPELLLAFNEILRKGFDGHHFIAGLASHFRDLMVSKTPATIALLEVGEQAKKRYEVQSQKVSQS  313 (367)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhccCccccccCCHHHHHHHHHHHHcCCHH
Confidence            99999999998   899999999999999999999999888776552                          2568899


Q ss_pred             HHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        315 QKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       315 ~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                      .+.++++.+.++|+.+|++.+..+.+|.++.+++.
T Consensus       314 ~L~~~l~~l~~~d~~lK~~~~~~l~lE~~l~~l~~  348 (367)
T PRK14970        314 FLLSGIDIANDCDLKYKLSKNQRLLVELALMQLAS  348 (367)
T ss_pred             HHHHHHHHHHHHHHHHhcCCChhHHHHHHHHHHhh
Confidence            99999999999999999999999999999999975

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=3e-42  Score=330.28  Aligned_cols=308  Identities=22%  Similarity=0.345  Sum_probs=275.8

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc---------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~---------------   95 (355)
                      ...|.+||||++|++++||+++++.|.+++..++.+| +||+||+|+|||++|+.+++.+++...               
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            4579999999999999999999999999999999998 999999999999999999999876421               


Q ss_pred             ----ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        96 ----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                          ..+++++++....+++.+++.+......+..+         +++|+||||+|.|+...++.|+++||+++.+++||
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                12467888888888888988877644333222         56899999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      ++|++..++.++++|||..+.|++++.+++..+|.++++++|+.++++++..|++.++||+|.++++|+++..+ +.+.|
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            99999999999999999999999999999999999999999999999999999999999999999999998887 46689


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------------  307 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------------  307 (355)
                      +.++|..+++......+++++++   ++...+...+++++..|++...++..|..+++.                     
T Consensus       233 t~e~V~~lLG~~d~~~If~LldAL~~~d~~~al~~l~~L~~~G~d~~~~l~~L~~~l~~l~~~~~~~~~~~~~~~~~~~~  312 (709)
T PRK08691        233 AENDVRQMIGAVDKQYLYELLTGIINQDGAALLAKAQEMAACAVGFDNALGELAILLQQLALIQAVPSALAHDDPDSDIL  312 (709)
T ss_pred             CHHHHHHHHcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhcCchhccccchHHHHH
Confidence            99999999999999999999998   999999999999999999999998887766553                     


Q ss_pred             ---cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 ---ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 ---~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                         ...++...+...++.+......|+...+.++.+|..+.+++.
T Consensus       313 ~~~a~~~~~~~l~~~~q~~l~~~~~l~~a~~~~~~~Em~llrl~~  357 (709)
T PRK08691        313 HRLAQTISGEQIQLYYQIAVHGKRDLSLAPDEYAGFMMTLLRMLA  357 (709)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHh
Confidence               245677778888999999999999899999999999999864

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=3.7e-42  Score=330.56  Aligned_cols=309  Identities=21%  Similarity=0.292  Sum_probs=276.3

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc----------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM----------------   94 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~----------------   94 (355)
                      ...|.+||||.+|++++||++++..|.+++.+++.+| ||||||+|+|||++|+++++.+.+..                
T Consensus         3 y~~l~~kyRP~~f~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i   82 (563)
T PRK06647          3 YRGTATKRRPRDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSI   82 (563)
T ss_pred             cHHHHHHhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHH
Confidence            3568999999999999999999999999999999999 99999999999999999999998631                


Q ss_pred             ---cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         95 ---YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        95 ---~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                         ...+++++++....+++.+++........+..         ++++++||||+|.|+.+++++|++++|+++.+++||
T Consensus        83 ~~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~---------~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI  153 (563)
T PRK06647         83 DNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPAS---------SRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFI  153 (563)
T ss_pred             HcCCCCCeEEecCcccCCHHHHHHHHHHHHhchhc---------CCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEE
Confidence               12456778777667788888766554433322         267899999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      ++++++.++.++|+|||..++|.+++.+++..|++.+++.+|+.++++++..|++.++||+|.++++|++++.+. ++.|
T Consensus       154 ~~tte~~kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi~id~eAl~lLa~~s~GdlR~alslLdklis~~-~~~I  232 (563)
T PRK06647        154 FATTEVHKLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIKYEDEALKWIAYKSTGSVRDAYTLFDQVVSFS-DSDI  232 (563)
T ss_pred             EecCChHHhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhc-CCCC
Confidence            999999999999999999999999999999999999999999999999999999999999999999999998875 4679


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------------  307 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------------  307 (355)
                      |.+++.++++....+.+++++++   ++...+..++.+++..|.++..++..+.++++.                     
T Consensus       233 t~e~V~~llg~~~~~~if~LidaI~~~D~~~al~~l~~Ll~~G~d~~~iL~~Ll~~fRdLL~vK~G~~~~~~l~~~~e~l  312 (563)
T PRK06647        233 TLEQIRSKMGLTGDEFLEKLASSILNEDAKELLCVLDSVFLSGVSVEQFLLDCIEFFRELLFLKHGIKNEAFIGIKAERL  312 (563)
T ss_pred             CHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhcCCchhhhccccHHHH
Confidence            99999999999999999999988   899999999999999999999999888776652                     


Q ss_pred             ---cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHHH
Q psy17903        308 ---ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  350 (355)
Q Consensus       308 ---~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~~  350 (355)
                         ...++...+.++++.+.++++.++.+.+.++.||.++.+++..
T Consensus       313 ~k~~~~~s~~~L~~~l~~Llea~~~lK~n~~~~l~lE~llikl~~~  358 (563)
T PRK06647        313 PEKLREFDLSQIERAISVLLETYRDLQFSVNPRYELEINFSKILRL  358 (563)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhc
Confidence               1247888889999999999999999999999999999999853

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=100.00  E-value=6.3e-42  Score=318.02  Aligned_cols=306  Identities=25%  Similarity=0.384  Sum_probs=269.9

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc----------------
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY----------------   95 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~----------------   95 (355)
                      .||++||||.+|++++|++++++.|.+++..++.+| +||+||+|+|||++|+.+++.+.+...                
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            489999999999999999999999999999999988 999999999999999999999875321                


Q ss_pred             ---ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEE
Q psy17903         96 ---RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL  172 (355)
Q Consensus        96 ---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il  172 (355)
                         ..+++++++....+.+.+++.+......+..         +++++|||||+|.++...++.|++++++++.+++||+
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               2456777776556666777666654433322         2668999999999999999999999999999999999


Q ss_pred             EecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC
Q psy17903        173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV  252 (355)
Q Consensus       173 ~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It  252 (355)
                      +++++.++.+++++||..++|.+++.+++..|+..+++++|+.+++++++.+++.++||+|.+.++++++..+.+ +.||
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            999999899999999999999999999999999999999999999999999999999999999999999998754 5699


Q ss_pred             HHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh----------------------
Q psy17903        253 NEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS----------------------  307 (355)
Q Consensus       253 ~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~----------------------  307 (355)
                      .++|++++.......+++++++   ++...+..++.++...|.++..++..+.++++.                      
T Consensus       232 ~~~v~~~~~~~~~~~i~~l~~ai~~~~~~~a~~~~~~l~~~~~~~~~il~~l~~~~r~l~~~k~~~~~~~~i~~~~~~~l  311 (355)
T TIGR02397       232 YEDVNELLGLVDDEKLIELLEAILNKDTAEALKILDEILESGVDPEKFLEDLIEILRDLLLIKKTPSNLLAVLESEQEFL  311 (355)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhcCccccccCHHHHHHH
Confidence            9999999999999999999888   899999999999999999998888877665542                      


Q ss_pred             ---cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHH
Q psy17903        308 ---ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVI  348 (355)
Q Consensus       308 ---~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~  348 (355)
                         ...++...+..+++.+.++++.+|+|.|..+.||.|+.++|
T Consensus       312 ~~~a~~~s~~~L~~~l~~l~~~~~~lk~~~~~~l~le~l~~~~~  355 (355)
T TIGR02397       312 KELALKLSLEFLLRLLDILLEALKDLRFSNDPRIWLEMTLLRLL  355 (355)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHhC
Confidence               24567777888899999999999999999999999999886

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.

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=9.2e-42  Score=324.17  Aligned_cols=304  Identities=23%  Similarity=0.305  Sum_probs=270.5

Q ss_pred             cccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCC------------------cc
Q psy17903         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGD------------------MY   95 (355)
Q Consensus        35 ~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~------------------~~   95 (355)
                      +.+||||.+|++++||++++..|.+++..++.+| +||+||||+|||++|+++++.+.+.                  ..
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            4599999999999999999999999999999999 7999999999999999999999752                  12


Q ss_pred             ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEec
Q psy17903         96 RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN  175 (355)
Q Consensus        96 ~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~  175 (355)
                      ..+++++++....+++.+++........+..+         ++++|||||+|.++.+.++.|++++++++.+++||++++
T Consensus        84 h~dv~el~~~~~~~vd~iR~l~~~~~~~p~~~---------~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~  154 (504)
T PRK14963         84 HPDVLEIDAASNNSVEDVRDLREKVLLAPLRG---------GRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATT  154 (504)
T ss_pred             CCceEEecccccCCHHHHHHHHHHHhhccccC---------CCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcC
Confidence            34578888887788888888655544333221         567999999999999999999999999999999999999


Q ss_pred             CCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHH
Q psy17903        176 YVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNED  255 (355)
Q Consensus       176 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~  255 (355)
                      .+.++.+++++||..++|.+++.+++..|++.+++++|+.+++++++.+++.++||+|.++++|+++..+  ++.||.++
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            9999999999999999999999999999999999999999999999999999999999999999998765  45899999


Q ss_pred             HHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh------------cCCCCHHHHHHHH
Q psy17903        256 VLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS------------ASSLSDKQKALIL  320 (355)
Q Consensus       256 v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~------------~~~~~~~~~~~i~  320 (355)
                      |.++++...++.+++++++   ++...+...+++|+..|+++..|+..+.++++.            ...+++..+.+++
T Consensus       233 V~~~l~~~~~~~if~Li~al~~~d~~~Al~~l~~Ll~~G~~~~~Il~~L~~~~r~ll~~k~~~~~~~~~~~~~~~~~~~l  312 (504)
T PRK14963        233 VEEALGLPPQERLRGIAAALAQGDAAEALSGAAQLYRDGFAARTLVEGLLEAFRAALYAELGLGGGPRLEGAEPRLLAAM  312 (504)
T ss_pred             HHHHHCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhccCcccccccCcHHHHHHH
Confidence            9999999999999999998   899999999999999999999999999999882            1245778889999


Q ss_pred             HHHHHHHHHhhCCCChHHHHHHHHHHHHHH
Q psy17903        321 EKLAECNARLQDGASEYIQILDLGSIVIKA  350 (355)
Q Consensus       321 ~~l~~~~~~l~~g~~~~~~l~~~~~~~~~~  350 (355)
                      ..|.+.++++.+|.+ +..||.-+++++..
T Consensus       313 ~~l~~~~~~~~~~~~-~~~l~~~l~~~~~~  341 (504)
T PRK14963        313 TALDEQMERFARRSD-ALSLELALLHALLA  341 (504)
T ss_pred             HHHHHHHHHHHhccc-hhHHHHHHHHHHhh
Confidence            999999999999875 56688888888753

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=6.4e-42  Score=331.23  Aligned_cols=311  Identities=24%  Similarity=0.377  Sum_probs=274.7

Q ss_pred             CCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc-------------
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------   95 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~-------------   95 (355)
                      +.-.+|.+||||.+|++++||+.+++.|.+++..++.+| |||+||+|+|||++|+++++.+.+...             
T Consensus         3 m~y~~l~~KyRP~~f~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~   82 (725)
T PRK07133          3 MKYKALYRKYRPKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIEN   82 (725)
T ss_pred             cchhhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHh
Confidence            455799999999999999999999999999999999999 899999999999999999999987321             


Q ss_pred             ---ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEE
Q psy17903         96 ---RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL  172 (355)
Q Consensus        96 ---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il  172 (355)
                         +.+++++++....+++.+++.+......+..+         +++|+||||+|.|+.+++++|+++||+++.+++||+
T Consensus        83 ~~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g---------~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifIL  153 (725)
T PRK07133         83 VNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQS---------KYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFIL  153 (725)
T ss_pred             hcCCCcEEEEeccccCCHHHHHHHHHHHHhchhcC---------CCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEE
Confidence               23456777766677888888877766554332         678999999999999999999999999999999999


Q ss_pred             EecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC
Q psy17903        173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV  252 (355)
Q Consensus       173 ~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It  252 (355)
                      +|+.++++.++|+|||..++|.+++.+++..|+..++.++|+.+++++++.++..++|++|.+++.+++++.+. .+.|+
T Consensus       154 aTte~~KLl~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~id~eAl~~LA~lS~GslR~AlslLekl~~y~-~~~It  232 (725)
T PRK07133        154 ATTEVHKIPLTILSRVQRFNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKLSSGSLRDALSIAEQVSIFG-NNKIT  232 (725)
T ss_pred             EcCChhhhhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-cCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999998875 55699


Q ss_pred             HHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc---------------------
Q psy17903        253 NEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSA---------------------  308 (355)
Q Consensus       253 ~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~---------------------  308 (355)
                      .+++.++++....+.+++++++   ++...+..++.++...|.++..++..+..+++..                     
T Consensus       233 ~e~V~ellg~~~~e~If~Ll~aI~~kd~~~aL~~l~~L~~~ged~~~iL~~Ll~~~RDlLl~k~~~~~~ll~~~d~~~l~  312 (725)
T PRK07133        233 LKNVEELFGLVSNENLINLLNLLYSKDIKEVLNILNQIKEQGIDPELLLISLINLVKEFIIFNKTKDNSLLEYYSEEDLE  312 (725)
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcCchhhhccCCHHHHH
Confidence            9999999999999989998887   7899999999999999999998888776655520                     


Q ss_pred             -CCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHHH
Q psy17903        309 -SSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  350 (355)
Q Consensus       309 -~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~~  350 (355)
                       ..++...+.++++.+.++...|+.+.+.++.+|.++.+++..
T Consensus       313 ~~~~s~~~l~~~le~i~~~~~~L~~n~n~~l~lE~lll~L~~~  355 (725)
T PRK07133        313 KLKIDDDFAYKFIEILFDLLKDLKISDNPNDTLEILIIKLLAL  355 (725)
T ss_pred             HhcCCHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhc
Confidence             024455666778999999999999999999999999999753

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=7.4e-42  Score=329.35  Aligned_cols=308  Identities=21%  Similarity=0.302  Sum_probs=268.0

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc---------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~---------------   95 (355)
                      ..+|.+||||++|++++||++++..|.+.+..++.+| |||+||+|+|||++|+.+++.+++...               
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            4679999999999999999999999999999999999 899999999999999999999987421               


Q ss_pred             ----ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        96 ----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                          ..+++++++....+++.+++.+..+...+..+         ++||+||||+|.|+..++|+|+++||+++.+++||
T Consensus        83 ~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g---------~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FI  153 (647)
T PRK07994         83 EQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARG---------RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFL  153 (647)
T ss_pred             HcCCCCCceeecccccCCHHHHHHHHHHHHhhhhcC---------CCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEE
Confidence                12567888876678889998877665443322         67899999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      ++|+++.++.++|+|||..++|++++.+++..+|.+++..+++.++++++..|+..++|++|.+++.++.+..+ +++.|
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            99999999999999999999999999999999999999999999999999999999999999999999877655 45679


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------------  307 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------------  307 (355)
                      +.+++.++++....+.+.+++++   ++...+..++.++...|.++..++..+...++.                     
T Consensus       233 t~~~v~~~lg~~d~~~~~~ll~al~~~d~~~~l~~~~~l~~~g~d~~~~L~~l~~~lrdil~~q~~~~~~~~~~~d~~~~  312 (647)
T PRK07994        233 TTDDVSAMLGTLDDDQALSLLEALVEGDGERVMALINQLAERGPDWEGLLVELLELLHRIAMAQLLPAALDNDMADIELR  312 (647)
T ss_pred             CHHHHHHHHccCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhccchhcccchhHHHH
Confidence            99999999998877778788876   789999999999998899888777665543331                     


Q ss_pred             ----cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 ----ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 ----~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                          ...++...+...++.+.+....|+.+.|.++.+|.++.++..
T Consensus       313 l~~la~~~s~~~l~~~~q~~~~~~~~L~~n~n~~l~lE~~llr~~~  358 (647)
T PRK07994        313 LRELARTLPPEDVQLYYQTLLIGRKDLPLAPDRRMGVEMTLLRMLA  358 (647)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHh
Confidence                123556666677888999999999999999999999999853

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1e-41  Score=324.03  Aligned_cols=308  Identities=19%  Similarity=0.306  Sum_probs=272.2

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc----------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM----------------   94 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~----------------   94 (355)
                      ..+|++||||.+|++++||++++..|.+.+..++.+| +||+||+|+|||++|+.+++.+++..                
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            5689999999999999999999999999999999999 99999999999999999999997621                


Q ss_pred             ---cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         95 ---YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        95 ---~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                         ...+++++++....+++.+++.+..+...+..+         +++|+||||+|.|+.++++.|+++||+++.+++||
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               113567788777788888888887765444322         67899999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      ++|++..++.++|+|||..++|.+++.+++..++..+++++|+.+++++++.+++.++||+|.+++.|+++..+.+ +.|
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            9999999999999999999999999999999999999999999999999999999999999999999999988765 689


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH----------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVM----------------------  306 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~----------------------  306 (355)
                      +.+++.++++....+.+++++++   ++...+...+..+...|.+...++..+.+...                      
T Consensus       233 t~~~V~~~l~~~~~~~v~~ll~Al~~~d~~~~l~~~~~l~~~~~~~~~~l~~l~~~~~r~~~~~~~~~~~~~~~~~~~~i  312 (546)
T PRK14957        233 KQAQIKQMLGIIDSEEVYSIINAIIDNDPKAILPAIKNLALTESSADAVLDRIAEIWFACCIYSFTQSLDAVNDIDVDII  312 (546)
T ss_pred             CHHHHHHHHccCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhcccccccchhhHHHH
Confidence            99999999999888889999988   79999999999999989888888877662111                      


Q ss_pred             --hcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        307 --SASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       307 --~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                        ....++...+..+++.+.+....|+.+.+.++.+|..+.+++.
T Consensus       313 ~~~a~~~s~~~l~~~~~~~~~~~~~l~~~~~~~~~~em~l~r~~~  357 (546)
T PRK14957        313 NNILAKISIEQAHFLYQLTITAKKDIALAPNFETGVTMAILRLIA  357 (546)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHh
Confidence              0134677778888999999999999999999999999999864

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2e-41  Score=319.43  Aligned_cols=306  Identities=22%  Similarity=0.345  Sum_probs=269.7

Q ss_pred             ccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc-----------------
Q psy17903         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-----------------   95 (355)
Q Consensus        34 ~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~-----------------   95 (355)
                      .|.+||||++|++++||+++...|.+.+..++.+| +||+||||+|||++|+++++.+++...                 
T Consensus         3 ~l~~kyRP~~~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~   82 (472)
T PRK14962          3 ALYRKYRPKTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDE   82 (472)
T ss_pred             hhHHHHCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhc
Confidence            68899999999999999999999999999999988 999999999999999999999876321                 


Q ss_pred             --ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEE
Q psy17903         96 --RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLI  173 (355)
Q Consensus        96 --~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~  173 (355)
                        ...+++++++...+++.++.........+..         +++++|||||+|.|+.++++.|++++++++.+++||++
T Consensus        83 g~~~dv~el~aa~~~gid~iR~i~~~~~~~p~~---------~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ila  153 (472)
T PRK14962         83 GTFMDVIELDAASNRGIDEIRKIRDAVGYRPME---------GKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLA  153 (472)
T ss_pred             CCCCccEEEeCcccCCHHHHHHHHHHHhhChhc---------CCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEE
Confidence              2257888888778888888655443332222         15679999999999999999999999999999999999


Q ss_pred             ecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCH
Q psy17903        174 CNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN  253 (355)
Q Consensus       174 ~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~  253 (355)
                      |+++.++.+++++||..++|.+++.+++..+++.+++.+++.+++++++.|++.++||+|.+++.|++++.+.+ +.||.
T Consensus       154 ttn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~~-~~It~  232 (472)
T PRK14962        154 TTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLEQVWKFSE-GKITL  232 (472)
T ss_pred             eCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcC-CCCCH
Confidence            99888999999999999999999999999999999999999999999999999999999999999999887654 45999


Q ss_pred             HHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCH-HHHHHHHHHHHHHHHH
Q psy17903        254 EDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSD-KQKALILEKLAECNAR  329 (355)
Q Consensus       254 ~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~-~~~~~i~~~l~~~~~~  329 (355)
                      +++.++++....+.+++++++   +|...+..++.+++..|+++..++..+..++....+..+ .....+...+.++-..
T Consensus       233 e~V~~~l~~~~~~~i~~li~si~~~d~~~Al~~l~~ll~~Gedp~~i~r~l~~~~~edi~~a~~~~~~~~~~~~~~~~~~  312 (472)
T PRK14962        233 ETVHEALGLIPIEVVRDYINAIFNGDVKRVFTVLDDVYYSGKDYEVLIQQAIEDLVEDLERERANDIIQVSRQLLNILRE  312 (472)
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHHH
Confidence            999999999999999999998   899999999999999999999999999999987655555 6777788888888888


Q ss_pred             hhCCCChHHHHHHHHHHHHH
Q psy17903        330 LQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       330 l~~g~~~~~~l~~~~~~~~~  349 (355)
                      ++..-...+..+..+..++.
T Consensus       313 i~~~e~~~~l~~~~~~~~~~  332 (472)
T PRK14962        313 IKFAEEKRLVCKLGSASIAT  332 (472)
T ss_pred             hCCcchHHHHHHHHHHHHHH
Confidence            86666777788888888775

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.4e-41  Score=320.37  Aligned_cols=307  Identities=24%  Similarity=0.355  Sum_probs=271.6

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc---------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~---------------   95 (355)
                      ..+|.+||||.+|++++||++++..|.+++..++.+| ||||||+|+|||++|+.+++.+++...               
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            4699999999999999999999999999999999999 899999999999999999999975210               


Q ss_pred             ----ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        96 ----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                          ..++++++++...+++.++.........+..+         +++|+||||+|.|+.++++.|++++++++.+++||
T Consensus        83 ~~g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~~~---------~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~I  153 (486)
T PRK14953         83 DKGSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKG---------KYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFI  153 (486)
T ss_pred             hcCCCCcEEEEeCccCCCHHHHHHHHHHHHhCcccC---------CeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEE
Confidence                12466777777778888887655544433322         67899999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      ++|++.+++.+++++||..+.|.+++.+++..|+..+++.+|+.+++++++.++..++||+|.+.++|+++..++ ++.|
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            999999899999999999999999999999999999999999999999999999999999999999999998774 6689


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc--------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSA--------------------  308 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~--------------------  308 (355)
                      |.++|.++++......+++++++   ++...+..+++++...|+++..++..+.++++..                    
T Consensus       233 t~~~V~~~lg~~~~~~vf~Li~ai~~~d~~~al~~l~~L~~~g~~~~~iL~~L~~~~rdll~~k~~~~~~~~~~~~~~~~  312 (486)
T PRK14953        233 TIKVVEEFLGIVSQESVRKFLNLLLESDVDEAIKFLRTLEEKGYNLNKFWKQLEEEIRNILLNKSLKNPEEVFQVEDFYR  312 (486)
T ss_pred             CHHHHHHHhCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhcCChhhhcchHHHHH
Confidence            99999999999999999999988   8999999999999999999999999988877641                    


Q ss_pred             -CCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        309 -SSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       309 -~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                       ..++...+.++++.+.++...|+. .|.++.+|.++.+++.
T Consensus       313 ~~~~~~~~l~~~~~~~~~~~~~l~~-~~~~~~~E~~ll~l~~  353 (486)
T PRK14953        313 KLEKPLEALLYLEDVINKAFSEART-RDPLRAYELAILKLLY  353 (486)
T ss_pred             HhcCCHHHHHHHHHHHHHHHHHHhc-cChhHHHHHHHHHHHh
Confidence             113355666788999999999999 9999999999999974

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2e-41  Score=330.00  Aligned_cols=307  Identities=20%  Similarity=0.290  Sum_probs=274.0

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc----------------
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY----------------   95 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~----------------   95 (355)
                      ..|.+||||.+|++++||++++..|..++..++.+| +||+||+|+|||++|+.+++.+++...                
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            347899999999999999999999999999999888 899999999999999999999975321                


Q ss_pred             ----ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        96 ----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                          ..+++++++....+++.+++.+......+..         ++++||||||+|.|+.+.++.|+++||+++.+++||
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                1346677776667888888777654433322         267899999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      +++++.+++.+++++||..+.|.+++..++..++..++.++|+.+++++++.|++.++||+|.++++|++++.+ +++.|
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 LATTEVHKVPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENLLQQLATT-YGGEI  233 (585)
T ss_pred             EEeCChhhhhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999887 45689


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------------  307 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------------  307 (355)
                      |.+++.+++.......+++++++   ++...+..+++++...|.++.+++..+.++++.                     
T Consensus       234 t~e~V~~ll~~s~~~~vf~Lidal~~~d~~~al~~l~~L~~~g~~~~~il~~L~~~lR~Ll~lk~g~~~~~l~i~p~~~~  313 (585)
T PRK14950        234 SLSQVQSLLGISGDEEVKALAEALLAKDLKAALRTLNAVAADGADLRQFTRDLVEYLRQVMLLNSGADRSLLDLTADEKA  313 (585)
T ss_pred             CHHHHHHHhcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhcCccccccCCHHHHH
Confidence            99999999999999999999998   899999999999999999999999877766542                     


Q ss_pred             -----cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 -----ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 -----~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                           .+.++...+.++++.+.++|+.+|+|.++++.+|.+|.+++.
T Consensus       314 ~~~~qa~~~s~~~L~~~l~~l~~~D~~lK~~~~~~l~lE~~l~~~~~  360 (585)
T PRK14950        314 ALQKVSQIANLEALTKWVKAFSQLDFQLRTTSYGQLPLELAVIEALL  360 (585)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHhc
Confidence                 246888899999999999999999998789999999999874

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.4e-41  Score=323.01  Aligned_cols=309  Identities=19%  Similarity=0.280  Sum_probs=267.1

Q ss_pred             CCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc---------------
Q psy17903         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM---------------   94 (355)
Q Consensus        31 ~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~---------------   94 (355)
                      +..+|++||||++|++++||++++..|.+++.+++.+| |||+||+|+|||++|+.+++.+++..               
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            35689999999999999999999999999999998777 99999999999999999999998632               


Q ss_pred             ----cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccE
Q psy17903         95 ----YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRF  170 (355)
Q Consensus        95 ----~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~  170 (355)
                          ...+++++++....+++.++.....+...+..+         +++||||||+|.|+.+.++.|+++||+++..++|
T Consensus        82 i~~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g---------~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~if  152 (624)
T PRK14959         82 VTQGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEG---------RYKVFIIDEAHMLTREAFNALLKTLEEPPARVTF  152 (624)
T ss_pred             HhcCCCCceEEEecccccCHHHHHHHHHHHHhhhhcC---------CceEEEEEChHhCCHHHHHHHHHHhhccCCCEEE
Confidence                123477888776778888887655544333221         5689999999999999999999999999999999


Q ss_pred             EEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCC
Q psy17903        171 CLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEG  250 (355)
Q Consensus       171 Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~  250 (355)
                      |++|+...++.++|+|||..++|++++.+++..+|..++.++++.+++++++.|++.++||+|.++++|+++.. .+.+.
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 VLATTEPHKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSLLGQVLA-LGESR  231 (624)
T ss_pred             EEecCChhhhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH-hcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999998763 45668


Q ss_pred             CCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh--------------------
Q psy17903        251 IVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS--------------------  307 (355)
Q Consensus       251 It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~--------------------  307 (355)
                      ||.++|.++++....+.+++++++   ++...+..++..++..|.++..++..|..+++.                    
T Consensus       232 It~d~V~~~lg~~~~e~vfeLl~AL~~~D~~aal~~l~~Ll~~g~d~~~iL~~Ll~~~RdLLl~k~~~~~~~~~l~i~~~  311 (624)
T PRK14959        232 LTIDGARGVLGLAGQELFLRLMEALAAQDCLGVANVVRELLDRGVDMGFFLRELVATWRNLFMLRQAGEAALASLDLPED  311 (624)
T ss_pred             cCHHHHHHHhCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhccccchhhcccCHH
Confidence            999999999999988888888887   789999999999988888887777665544431                    


Q ss_pred             --------cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 --------ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 --------~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                              ...++...+.++++.+.+....|+.+.+.++.+|.++.+++.
T Consensus       312 ~~~~~~~~A~~~s~~~L~~~l~~il~~~~~l~~n~n~rl~lE~lLL~l~~  361 (624)
T PRK14959        312 EARQWLGWAKRFEPAHIHACWQMTLEGQRRVLTSLEPAMALELLLLNLAM  361 (624)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence                    123556666677889999999999999999999999999863

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

Probab=100.00  E-value=6.6e-42  Score=319.59  Aligned_cols=308  Identities=24%  Similarity=0.366  Sum_probs=277.5

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc-----------------
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-----------------   94 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~-----------------   94 (355)
                      ..+..||||++|++++||+++...|...+..++..| |+|+||.|+|||++|+.+++.+++..                 
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             --cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEE
Q psy17903         95 --YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL  172 (355)
Q Consensus        95 --~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il  172 (355)
                        ...+++++|+....+++++|+........+..+         ++||.||||+|.|+.+++|+|++.||+||.+++|||
T Consensus        84 ~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~---------ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIl  154 (515)
T COG2812          84 EGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEG---------RYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFIL  154 (515)
T ss_pred             cCCcccchhhhhhhccChHHHHHHHHHhccCCccc---------cceEEEEecHHhhhHHHHHHHhcccccCccCeEEEE
Confidence              124678999999999999999888765444332         788999999999999999999999999999999999


Q ss_pred             EecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC
Q psy17903        173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV  252 (355)
Q Consensus       173 ~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It  252 (355)
                      +|++++++.+++.|||+.++|+.++.+++...+..++.++++.++++++..+++.++|++|.+++.|+.+..+++ +.||
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            999999999999999999999999999999999999999999999999999999999999999999999998865 7899


Q ss_pred             HHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh----------------------
Q psy17903        253 NEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS----------------------  307 (355)
Q Consensus       253 ~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~----------------------  307 (355)
                      .+.|.++++....+.+..++.+   +|...+...++++.+.|+++..++..+..+++.                      
T Consensus       234 ~~~v~~~lG~~~~~~~~~~~~~i~~~d~~~~~~~~~~l~~~G~~~~~~l~dl~~~~~~~l~~~~~~~~~~~~~~~~~~~~  313 (515)
T COG2812         234 LESVRDMLGLTDIEKLLSLLEAILKGDAKEALRLINELIEEGKDPEAFLEDLLNFLRDLLLFKQTVPNELQLNTTEIEER  313 (515)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHHhcccchhhccchhhhHH
Confidence            9999999999999999988888   999999999999999999999888887766642                      


Q ss_pred             ----cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHHH
Q psy17903        308 ----ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  350 (355)
Q Consensus       308 ----~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~~  350 (355)
                          ...++...+.++++.+......++.+.+.++.+|.++.+++..
T Consensus       314 ~~~~a~~~~~~~l~~~~~~~~~~~~e~~~s~~~~~~~E~~lirl~~~  360 (515)
T COG2812         314 TKELASQISVLNLQRLYQLLLPGLKELKRSLSPRLGLEMTLIRLLEA  360 (515)
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHhh
Confidence                1224445566677888888888888999999999999999764

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=6.5e-41  Score=321.19  Aligned_cols=308  Identities=23%  Similarity=0.332  Sum_probs=271.5

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc---------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~---------------   95 (355)
                      ...|++||||++|++++||+++++.|.+++..++.+| |||+||+|+|||++|+.+++.++++..               
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            4579999999999999999999999999999999999 899999999999999999999986321               


Q ss_pred             ----ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        96 ----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                          ..++++++++...+++.+++.+......+..         +++||+||||+|.|+.++++.|+++||+++.+++||
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                1256778877677888888877765433322         267899999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      ++|+++.++.++++|||..++|++++.+++..++.++++++|+.++++++..+++.++||+|.+++.++++..+ +++.|
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            99999999998999999999999999999999999999999999999999999999999999999999998887 57789


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------------  307 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------------  307 (355)
                      +.++|.++++....+.+++++++   ++...+...++++...|.+...++..+..+++.                     
T Consensus       233 ~~~~v~~~~~~~~~~~i~~ll~al~~~~~~~~l~~~~~l~~~~~~~~~~l~~l~~~~rd~~~~~~~~~~~~~~~~~~~~~  312 (527)
T PRK14969        233 NESEVRAMLGAIDQDYLFALLEALLAQDGAALLAIADAMEERSLSFDAALQDLAALLHRLAIAQTVPDSIADDLPERDRL  312 (527)
T ss_pred             CHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhcCcccccccchHHHHH
Confidence            99999999999888889999887   789999999999999898888777766544442                     


Q ss_pred             ---cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 ---ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 ---~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                         ...++...+..+++.+.+....|+...+.++.+|.++.+++.
T Consensus       313 ~~~a~~~s~~~l~~~~~~~~~~~~~~~~~~~~~~~~e~~~~r~~~  357 (527)
T PRK14969        313 LDLAKRLSPEDIQLYYQIALHGRRDLGLAPDEYAGFTMTLLRMLA  357 (527)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHhc
Confidence               234677778888999999999999899999999999999863

>KOG2035|consensus

Probab=100.00  E-value=5.1e-41  Score=282.49  Aligned_cols=310  Identities=27%  Similarity=0.444  Sum_probs=260.5

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCcc-----------------
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-----------------   95 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~-----------------   95 (355)
                      ..|.+||||++++.+.++.+....++.....+.+||+++|||+|.||.|.+.++.+++++...                 
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            379999999999999999999999999999999999999999999999999999999987211                 


Q ss_pred             -------ccceeeecCCCccch--HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccC
Q psy17903         96 -------RERILELNASDDRGI--QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK  166 (355)
Q Consensus        96 -------~~~~~~~~~~~~~~~--~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~  166 (355)
                             ....+++++++....  -.+++.+++.++.........    ..+|+|+|.|+|.|+.++|.+|++.||.++.
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                   123467777775444  467788888877654332211    1789999999999999999999999999999


Q ss_pred             CccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh
Q psy17903        167 STRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK  246 (355)
Q Consensus       167 ~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~  246 (355)
                      ++++|++||..++++++++|||..+.++.|+++|+..++..+++++|+.++.+.+..+++.++||+|+++-.|+.+....
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            99999999999999999999999999999999999999999999999999999999999999999999999999876543


Q ss_pred             -----CCCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHH
Q psy17903        247 -----GGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKAL  318 (355)
Q Consensus       247 -----~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~  318 (355)
                           .+..|..-|.+..+.++    ...++..   ...-+.+..+|+|+.+.++|..|+..+...+..  +.+...+..
T Consensus       237 ~~~~a~~~~i~~~dWe~~i~e~----a~~i~~eQs~~~L~~vR~~LYeLL~~CIPP~~Ilk~Ll~~Ll~--~~d~~~k~~  310 (351)
T KOG2035|consen  237 EPFTANSQVIPKPDWEIYIQEI----ARVILKEQSPAKLLEVRGRLYELLSHCIPPNTILKELLEELLL--KCDTQLKLE  310 (351)
T ss_pred             ccccccCCCCCCccHHHHHHHH----HHHHHhccCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHh--cCCchhHHH
Confidence                 11334333333332211    1112221   334568889999999999999999999998888  677888899


Q ss_pred             HHHHHHHHHHHhhCCCChHHHHHHHHHHHHHHHh
Q psy17903        319 ILEKLAECNARLQDGASEYIQILDLGSIVIKANK  352 (355)
Q Consensus       319 i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~~~~  352 (355)
                      +++..+++++++..|....+|||.|++++|...+
T Consensus       311 ~~~~Aa~yEhRl~lG~KaIfHLEaFVA~fM~iy~  344 (351)
T KOG2035|consen  311 VIQHAAKYEHRLRLGQKAIFHLEAFVAKFMCIYK  344 (351)
T ss_pred             HHHHHHHHHHHHhhcchhhhhHHHHHHHHHHHHH
Confidence            9999999999999999999999999999998765

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=2.5e-40  Score=314.36  Aligned_cols=266  Identities=23%  Similarity=0.404  Sum_probs=240.7

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc---------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~---------------   95 (355)
                      ..+|.+||||.+|++++||+.+++.|.+++..++.+| +||+||+|+|||++|+.+++.+.+..+               
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            4689999999999999999999999999999999998 999999999999999999999986322               


Q ss_pred             ----ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        96 ----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                          ..++++++++...+++.+++.+..+...+..+         ++||+||||+|.|+.+++++|+++||+++.+++||
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                13567788777778888988877666544332         57899999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      ++|+.+.++.++++|||..++|.+++.+++..|+..++.++|+.+++++++.++..++||+|.+++.|++++.+.++ .|
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            99999999999999999999999999999999999999999999999999999999999999999999999888653 49


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS  307 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~  307 (355)
                      +.+++.++++....+.+++++++   ++...+..++++++..|.++.+++..+..+++.
T Consensus       233 t~e~V~ellg~~~~~~Vf~Ll~AI~~kd~~~al~~l~~Ll~~ge~~~~il~~L~~~~RD  291 (605)
T PRK05896        233 DIEDINKTFGLVDNNKKINLIELIQKNDIEELRNLINELESKGINFEAFCRDLINLLID  291 (605)
T ss_pred             CHHHHHHHhccCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHH
Confidence            99999999998888888998887   799999999999999999999999998877763

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=5.1e-40  Score=319.07  Aligned_cols=307  Identities=22%  Similarity=0.343  Sum_probs=269.7

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc---------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~---------------   95 (355)
                      ..||.+||||++|++++||++++..|.+++..++.+| +||+||+|+|||++|+++++.+++...               
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            4689999999999999999999999999999988766 999999999999999999999987321               


Q ss_pred             ------ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCcc
Q psy17903         96 ------RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTR  169 (355)
Q Consensus        96 ------~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~  169 (355)
                            ..++++++.....+++.+++.+......+..+         ++||+||||+|.|+.++++.|+++||+++..++
T Consensus        83 ~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~---------~~KViIIDEad~Lt~~a~naLLK~LEePp~~tv  153 (620)
T PRK14948         83 AIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQA---------RWKVYVIDECHMLSTAAFNALLKTLEEPPPRVV  153 (620)
T ss_pred             HHhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcC---------CceEEEEECccccCHHHHHHHHHHHhcCCcCeE
Confidence                  12466777766678889998887654433322         678999999999999999999999999999999


Q ss_pred             EEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCC
Q psy17903        170 FCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGE  249 (355)
Q Consensus       170 ~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~  249 (355)
                      ||++|+++.++.++|+|||..++|.+++.+++..++..++.++++.++++++..+++.++|++|.++++|++++.+.  +
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            99999999999999999999999999999999999999999999999999999999999999999999999998875  5


Q ss_pred             CCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-------------------
Q psy17903        250 GIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS-------------------  307 (355)
Q Consensus       250 ~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-------------------  307 (355)
                      .||.++|.++++......+++++++   ++...+..++.+++..|.++..++..+..+++.                   
T Consensus       232 ~It~e~V~~lvg~~~e~~i~~Ll~ai~~~d~~~al~~~~~Ll~~g~~p~~iL~~L~~~~RDLL~~K~~~~~~~l~~i~~d  311 (620)
T PRK14948        232 PITPEAVWDLLGAVPEQDLLNLLKALASNDPESLLDSCRQLLDRGREPLAILQGLAAFYRDLLLAKTAPNRPDLVAVSQQ  311 (620)
T ss_pred             CCCHHHHHHHhcCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcccchhhhhcCHH
Confidence            7999999999999888888888887   888999999999988888888777766554432                   


Q ss_pred             --------cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 --------ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 --------~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                              ++.++...+..+++.+.++++.++.+.+.++.+|.++.+++.
T Consensus       312 ~~~~l~~~A~~~s~~~L~~~i~~L~eae~~LK~n~nprL~LE~lLl~l~~  361 (620)
T PRK14948        312 TWDELCKLAKQINLERILQWQQHLKGSEYQLKNSTQPRLWLEVTLLGLLP  361 (620)
T ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHhhc
Confidence                    134677778888999999999999999999999999999974

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=100.00  E-value=2.7e-36  Score=275.65  Aligned_cols=297  Identities=28%  Similarity=0.378  Sum_probs=245.6

Q ss_pred             CCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  108 (355)
                      .+..+|.+||||++|++++|++++...+..+++.+..++ ++|+||+|+|||++++++++.+.     .+++++++.+ .
T Consensus         6 ~~~~~w~~kyrP~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~~-----~~~~~i~~~~-~   79 (316)
T PHA02544          6 PNEFMWEQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVG-----AEVLFVNGSD-C   79 (316)
T ss_pred             CCCCcceeccCCCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHhC-----ccceEeccCc-c
Confidence            578999999999999999999999999999999999888 66699999999999999999873     3567788877 3


Q ss_pred             chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCC-CHHHHHHHHHHhhhccCCccEEEEecCCccccccccCC
Q psy17903        109 GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM-THAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSR  187 (355)
Q Consensus       109 ~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l-~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr  187 (355)
                      ..+.+++.+..+.......        +++++|||||+|.+ ..+.++.|..++++++.+++||+++|...++.+++++|
T Consensus        80 ~~~~i~~~l~~~~~~~~~~--------~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR  151 (316)
T PHA02544         80 RIDFVRNRLTRFASTVSLT--------GGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSR  151 (316)
T ss_pred             cHHHHHHHHHHHHHhhccc--------CCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhh
Confidence            3566666555554332111        14579999999999 66778888889999999999999999999999999999


Q ss_pred             eeeEEecCCCHHHHHHHHH-------HHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHh
Q psy17903        188 CSKFRFKPLAENTMLTRLQ-------YICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVT  260 (355)
Q Consensus       188 ~~~i~~~~~~~~~~~~~l~-------~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~  260 (355)
                      |..+.|+.|+.++...++.       .++..+|+.++++++..+++.+.||+|.+++.++..+.   ++.|+.+++....
T Consensus       152 ~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~i~~~al~~l~~~~~~d~r~~l~~l~~~~~---~~~i~~~~l~~~~  228 (316)
T PHA02544        152 CRVIDFGVPTKEEQIEMMKQMIVRCKGILEAEGVEVDMKVLAALVKKNFPDFRRTINELQRYAS---TGKIDAGILSEVT  228 (316)
T ss_pred             ceEEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHc---cCCCCHHHHHHhh
Confidence            9999999999988775544       44556899999999999999999999999999997653   3679988887755


Q ss_pred             CCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChH
Q psy17903        261 GVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEY  337 (355)
Q Consensus       261 ~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~  337 (355)
                          ...+++++++   .+..+++. +...+  +.++.+++..+.+.+..  .+....+.++++.+++++..+..|.|..
T Consensus       229 ----~~~~~~l~~~l~~~d~~~~~~-~~~~~--~~~~~~~l~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~~~  299 (316)
T PHA02544        229 ----NSDIDDVVEALKAKDFKAVRA-LAPNY--ANDYASFVGKLYDELYP--QVTPPSIIRLIEIIGENNQYHGFAADQE  299 (316)
T ss_pred             ----HHHHHHHHHHHHcCCHHHHHH-HHHHh--ccCHHHHHHHHHHHHHH--hCCHHHHHHHHHHHHHHHHHHHhcCCHH
Confidence                4455666655   67777777 33322  67889999998887766  4678889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy17903        338 IQILDLGSIVIKANK  352 (355)
Q Consensus       338 ~~l~~~~~~~~~~~~  352 (355)
                      +++|.|+.++|.+++
T Consensus       300 l~le~~l~~~~~~~~  314 (316)
T PHA02544        300 IHLLYLLTQLMLECE  314 (316)
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999997764

>KOG0990|consensus

Probab=100.00  E-value=1.8e-36  Score=260.52  Aligned_cols=326  Identities=33%  Similarity=0.420  Sum_probs=277.5

Q ss_pred             CCCCCCCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC-Cccccceeeec
Q psy17903         25 SGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELN  103 (355)
Q Consensus        25 ~~~~~~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~-~~~~~~~~~~~  103 (355)
                      ++..+.+..||.+||||..+++++++++++..+.+....++.||+|+|||||+|||+...+.++.+.+ ..+...+.++|
T Consensus        21 ~p~~~~~~~pwvekyrP~~l~dv~~~~ei~st~~~~~~~~~lPh~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~leln  100 (360)
T KOG0990|consen   21 IPQSPQYPQPWVEKYRPPFLGIVIKQEPIWSTENRYSGMPGLPHLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELN  100 (360)
T ss_pred             CCCCcccCCCCccCCCCchhhhHhcCCchhhHHHHhccCCCCCcccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhh
Confidence            34556788999999999999999999999999999999999999999999999999999999999988 44555578999


Q ss_pred             CCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCcccccc
Q psy17903        104 ASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQP  183 (355)
Q Consensus       104 ~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~  183 (355)
                      +++..+++..++.+..|+.......-..   .+.+|+||+||+|.++.++|++|++.++++..+++|++.+|.+.++.|+
T Consensus       101 aSd~rgid~vr~qi~~fast~~~~~fst---~~~fKlvILDEADaMT~~AQnALRRviek~t~n~rF~ii~n~~~ki~pa  177 (360)
T KOG0990|consen  101 ASDDRGIDPVRQQIHLFASTQQPTTYST---HAAFKLVILDEADAMTRDAQNALRRVIEKYTANTRFATISNPPQKIHPA  177 (360)
T ss_pred             ccCccCCcchHHHHHHHHhhccceeccc---cCceeEEEecchhHhhHHHHHHHHHHHHHhccceEEEEeccChhhcCch
Confidence            9999999999999988876643211100   1267899999999999999999999999999999999999999999999


Q ss_pred             ccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCC---CCCCHHHHHHHh
Q psy17903        184 LTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGG---EGIVNEDVLEVT  260 (355)
Q Consensus       184 l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~---~~It~~~v~~~~  260 (355)
                      +++||..+.|.+++..+....+.+++..+....+++....+++.+.||+|.++|.|+..+.+.+.   ..++.+.+..+.
T Consensus       178 ~qsRctrfrf~pl~~~~~~~r~shi~e~e~~~~~~~~~~a~~r~s~gDmr~a~n~Lqs~~~~~~~~~e~~~~~~~vy~c~  257 (360)
T KOG0990|consen  178 QQSRCTRFRFAPLTMAQQTERQSHIRESEQKETNPEGYSALGRLSVGDMRVALNYLQSILKKVMERKELNNPNDLVYQCK  257 (360)
T ss_pred             hhcccccCCCCCCChhhhhhHHHHHHhcchhhcCHHHHHHHHHHhHHHHHHHHHHHHHHHHHhCCCCCCCCchhhHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999988766522   236677799999


Q ss_pred             CCCChHHHHHHHhc---CCHHHHHHHHHHH-HHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCCh
Q psy17903        261 GVIPNPWIEKLLKV---DSFQVLEKYIEDL-ILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASE  336 (355)
Q Consensus       261 ~~~~~~~~~~l~~~---~~~~~~~~~l~~l-~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~  336 (355)
                      +...+.++.++++.   ..+..+..-+..+ ...|+...+++..+...+... ++.......|+..++.+.++++.|-++
T Consensus       258 g~p~~~dI~~I~~~il~~~~~~~~~~is~lk~~~gla~~d~i~~l~~~~~~~-~~~~~~~~~I~~~l~~Ie~~ls~g~~~  336 (360)
T KOG0990|consen  258 GAPQPSDIRQIIEKRMNGEDIELMLDDSELKKPKGLARQDRRAELEQRFAIV-ISKTPVEGHILYQLADIEERLSKGCMQ  336 (360)
T ss_pred             CCCChhHHHHHHHHHhcCchHHHHhhhhhhhhhhhhHHHHHHHHHHHHHHHH-hcchHHHHHHHHhHHHHHHHHhcchhH
Confidence            99999899888876   4443333333333 235777778887777665554 445577888999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhc
Q psy17903        337 YIQILDLGSIVIKANKTA  354 (355)
Q Consensus       337 ~~~l~~~~~~~~~~~~~~  354 (355)
                      .+++..+|..+...+++.
T Consensus       337 ~~ql~aii~~~~~~~~~~  354 (360)
T KOG0990|consen  337 KEQLKAIIKNFAAELKAL  354 (360)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            999999999998877653

>PRK04132 replication factor C small subunit; Provisional

Probab=100.00  E-value=1.6e-35  Score=292.02  Aligned_cols=271  Identities=38%  Similarity=0.614  Sum_probs=247.2

Q ss_pred             EEEEC--CCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCC
Q psy17903         69 FLFYG--PPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA  146 (355)
Q Consensus        69 ~ll~G--p~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~  146 (355)
                      .++.|  |.+.||||+|.+++++++++.++.+++++|+++..+++.+++.+..++......    +   .+++|+||||+
T Consensus       567 ~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~~~----~---~~~KVvIIDEa  639 (846)
T PRK04132        567 NFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIG----G---ASFKIIFLDEA  639 (846)
T ss_pred             hhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHHHHHhcCCcC----C---CCCEEEEEECc
Confidence            56678  888899999999999998887888999999999999999999998877553321    1   14689999999


Q ss_pred             CCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q psy17903        147 DSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVE  226 (355)
Q Consensus       147 d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~  226 (355)
                      |.|+.++|++|+++||+++.+++||++||++.++.++|+|||..+.|++++.+++...+..+|+++++.++++++..++.
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             HcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHH-HcCCCHHHHHHHHH
Q psy17903        227 TSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLI-LEAYSATQLFDQFH  302 (355)
Q Consensus       227 ~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~-~~g~~~~~i~~~l~  302 (355)
                      .++||+|.+++.||.++..  ...||.+++..+.....++.++++++.   ++...++..+++++ ..|+++.+++..+.
T Consensus       720 ~s~GDlR~AIn~Lq~~~~~--~~~It~~~V~~~~~~~~~~~I~~il~~~l~~~~~~ar~~l~ell~~~G~~~~~iL~~l~  797 (846)
T PRK04132        720 IAEGDMRRAINILQAAAAL--DDKITDENVFLVASRARPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMH  797 (846)
T ss_pred             HcCCCHHHHHHHHHHHHHh--cCCCCHHHHHHHhCCCCHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            9999999999999988754  367999999999999988888888886   78999999999987 78999999999999


Q ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        303 DIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       303 ~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                      +.+... .+++..+.++++.++++++++..|.++.+||+.|++.++.
T Consensus       798 ~~l~~~-~i~~~~k~~ll~~lae~e~rl~~G~n~~iqL~a~la~~~~  843 (846)
T PRK04132        798 REVFNL-PIDEPKKVELADKIGEYNFRLVEGANEMIQLEALLAQFTL  843 (846)
T ss_pred             HHHHhc-CCCHHHHHHHHHHHHHHhHHHHCCCCHHHHHHHHHHHHHh
Confidence            988654 5788999999999999999999999999999999999964

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

Probab=100.00  E-value=4.3e-35  Score=259.74  Aligned_cols=297  Identities=23%  Similarity=0.299  Sum_probs=240.1

Q ss_pred             CccccccCCCCCCcccccHHHH---HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVV---SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~---~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  109 (355)
                      .|++++.||+++++++||++.+   ..|.+.++.+..++++|||||||||||+|+.++...     +..|..+++.. .+
T Consensus        12 ~PLA~rmRP~~lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~-----~~~f~~~sAv~-~g   85 (436)
T COG2256          12 MPLAERLRPKSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTT-----NAAFEALSAVT-SG   85 (436)
T ss_pred             cChHHHhCCCCHHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhh-----CCceEEecccc-cc
Confidence            6999999999999999999998   678999999999999999999999999999999998     45677888765 68


Q ss_pred             hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEec--CCccccccccCC
Q psy17903        110 IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN--YVSCIIQPLTSR  187 (355)
Q Consensus       110 ~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~--~~~~l~~~l~sr  187 (355)
                      +.++++.++........+         .+.|+||||+|+++..+|+.|+..+|++  .+++|.+|+  ....+.++|+||
T Consensus        86 vkdlr~i~e~a~~~~~~g---------r~tiLflDEIHRfnK~QQD~lLp~vE~G--~iilIGATTENPsF~ln~ALlSR  154 (436)
T COG2256          86 VKDLREIIEEARKNRLLG---------RRTILFLDEIHRFNKAQQDALLPHVENG--TIILIGATTENPSFELNPALLSR  154 (436)
T ss_pred             HHHHHHHHHHHHHHHhcC---------CceEEEEehhhhcChhhhhhhhhhhcCC--eEEEEeccCCCCCeeecHHHhhh
Confidence            888898888875554332         3469999999999999999999999954  566777664  345689999999


Q ss_pred             eeeEEecCCCHHHHHHHHHHHHHH--cCCC-----CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhC-CCCCCHHHHHHH
Q psy17903        188 CSKFRFKPLAENTMLTRLQYICEQ--ESVM-----CDFKALETLVETSGGDMRRAITCLQSCARLKG-GEGIVNEDVLEV  259 (355)
Q Consensus       188 ~~~i~~~~~~~~~~~~~l~~~~~~--~~~~-----~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~-~~~It~~~v~~~  259 (355)
                      |+++.|++++.+++...+++.+..  .++.     +++++.+.++..++||.|.++|.|+.++..+. +..++.+.+.++
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            999999999999999999995443  4444     78999999999999999999999999988773 334568888888


Q ss_pred             hCCCCh----------HHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHH
Q psy17903        260 TGVIPN----------PWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAEC  326 (355)
Q Consensus       260 ~~~~~~----------~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~  326 (355)
                      +.....          +.+..+.+.   .|.+.+.-++..+++-|.+|..|...+........+.-+.+...+.....++
T Consensus       235 l~~~~~~~Dk~gD~hYdliSA~hKSvRGSD~dAALyylARmi~~GeDp~yiARRlv~~AsEDIGlAdP~Al~~a~aa~da  314 (436)
T COG2256         235 LQRRSARFDKDGDAHYDLISALHKSVRGSDPDAALYYLARMIEAGEDPLYIARRLVRIASEDIGLADPNALQVAVAALDA  314 (436)
T ss_pred             HhhhhhccCCCcchHHHHHHHHHHhhccCCcCHHHHHHHHHHhcCCCHHHHHHHHHHHHHhhccCCChhHHHHHHHHHHH
Confidence            865321          233344443   7899999999999999999999999999988886666665555444444444


Q ss_pred             HHHhhCC-CChHHHHHHHHHHHH
Q psy17903        327 NARLQDG-ASEYIQILDLGSIVI  348 (355)
Q Consensus       327 ~~~l~~g-~~~~~~l~~~~~~~~  348 (355)
                      -.++  | ..-++.|...+..++
T Consensus       315 ~~~l--G~PE~~i~LAqavvyLA  335 (436)
T COG2256         315 VERL--GSPEARIALAQAVVYLA  335 (436)
T ss_pred             HHHh--CCchHHHHHHHHHHHHH
Confidence            4443  6 466788887777775

>PRK04195 replication factor C large subunit; Provisional

Probab=100.00  E-value=4.5e-34  Score=273.67  Aligned_cols=296  Identities=27%  Similarity=0.371  Sum_probs=236.2

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhc---CC-CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG---AD-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~---~~-~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  108 (355)
                      .+|++||||++|++++|++.++..|..|+..   |. .+++||+||||+|||++|+++++++     ...++++|+++..
T Consensus         2 ~~W~eKyrP~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el-----~~~~ielnasd~r   76 (482)
T PRK04195          2 MPWVEKYRPKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY-----GWEVIELNASDQR   76 (482)
T ss_pred             CCchhhcCCCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc-----CCCEEEEcccccc
Confidence            5899999999999999999999999999864   33 3459999999999999999999998     4578899998877


Q ss_pred             chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH----HHHHHHHHHhhhccCCccEEEEecCCccccc-c
Q psy17903        109 GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH----AAQAALRRTMEKETKSTRFCLICNYVSCIIQ-P  183 (355)
Q Consensus       109 ~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~----~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~-~  183 (355)
                      ..+.+...+..........    +   .++++|||||+|.+..    ..++.|+++++.  ....+|+++|+...+.+ +
T Consensus        77 ~~~~i~~~i~~~~~~~sl~----~---~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n~~~~~~~k~  147 (482)
T PRK04195         77 TADVIERVAGEAATSGSLF----G---ARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTANDPYDPSLRE  147 (482)
T ss_pred             cHHHHHHHHHHhhccCccc----C---CCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEeccCccccchhh
Confidence            7777777666554332111    1   1457999999999976    567889999984  34567888988877665 8


Q ss_pred             ccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCC
Q psy17903        184 LTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVI  263 (355)
Q Consensus       184 l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~  263 (355)
                      ++++|..+.|++|+..++..+++.++..+++.+++++++.|++.++||+|.+++.|+.++.  +.+.|+.+++..+....
T Consensus       148 Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi~i~~eaL~~Ia~~s~GDlR~ain~Lq~~a~--~~~~it~~~v~~~~~~d  225 (482)
T PRK04195        148 LRNACLMIEFKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAIAE--GYGKLTLEDVKTLGRRD  225 (482)
T ss_pred             HhccceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhc--CCCCCcHHHHHHhhcCC
Confidence            9999999999999999999999999999999999999999999999999999999998443  45789999999888766


Q ss_pred             ChHHHHHHHhc----CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCC-CChHH
Q psy17903        264 PNPWIEKLLKV----DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDG-ASEYI  338 (355)
Q Consensus       264 ~~~~~~~l~~~----~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g-~~~~~  338 (355)
                      ....++++++.    ++...+...+++   ...++..++..+.+.+... .-......++++.++..|..+..- ....+
T Consensus       226 ~~~~if~~l~~i~~~k~~~~a~~~~~~---~~~~~~~i~~~l~en~~~~-~~~~~~~~~a~~~ls~ad~~~~~~~~~~~~  301 (482)
T PRK04195        226 REESIFDALDAVFKARNADQALEASYD---VDEDPDDLIEWIDENIPKE-YDDPEDIARAYDALSRADIFLGRVKRTQNY  301 (482)
T ss_pred             CCCCHHHHHHHHHCCCCHHHHHHHHHc---ccCCHHHHHHHHHhccccc-cCCHHHHHHHHHHHhHHHHHHHHHHhcCCc
Confidence            66777887775    667777665554   4678899999988877652 123477788888888887776543 22236


Q ss_pred             HHHHHHHHHH
Q psy17903        339 QILDLGSIVI  348 (355)
Q Consensus       339 ~l~~~~~~~~  348 (355)
                      +|..+...+|
T Consensus       302 ~l~~~~~~~m  311 (482)
T PRK04195        302 DLWRYASDLM  311 (482)
T ss_pred             chHHHHHHHh
Confidence            6766666653

>PRK13342 recombination factor protein RarA; Reviewed

Probab=100.00  E-value=3.8e-32  Score=255.72  Aligned_cols=294  Identities=23%  Similarity=0.294  Sum_probs=232.8

Q ss_pred             ccccccCCCCCCcccccHHHHHH---HHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccch
Q psy17903         34 PWVEKYRPKTIDDVIEQQEVVSV---LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (355)
Q Consensus        34 ~~~~k~~p~~~~~~vg~~~~~~~---l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  110 (355)
                      ||++||||++|++++||++++..   |.+++.++..++++|+||||||||++|+.+++.+.     ..++.+++.. .+.
T Consensus         1 pla~~~RP~~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~-----~~~~~l~a~~-~~~   74 (413)
T PRK13342          1 PLAERMRPKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATD-----APFEALSAVT-SGV   74 (413)
T ss_pred             ChhhhhCCCCHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhC-----CCEEEEeccc-ccH
Confidence            79999999999999999999766   99999999888899999999999999999999873     4567777764 355


Q ss_pred             HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecC--CccccccccCCe
Q psy17903        111 QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY--VSCIIQPLTSRC  188 (355)
Q Consensus       111 ~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~--~~~l~~~l~sr~  188 (355)
                      ..++..+.........         ..+++|||||+|.++...++.|+..+++.  .+++|.+++.  ...+.+++++||
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            6666666554332211         14469999999999999999999999863  4555555432  346889999999


Q ss_pred             eeEEecCCCHHHHHHHHHHHHHHc--CC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCC-
Q psy17903        189 SKFRFKPLAENTMLTRLQYICEQE--SV-MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIP-  264 (355)
Q Consensus       189 ~~i~~~~~~~~~~~~~l~~~~~~~--~~-~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~-  264 (355)
                      ..+.|.+++.+++..++.+.+...  ++ .+++++++.+++.++||+|.+++.++.++..  +..|+.+++.+++.... 
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  56799999998886421 


Q ss_pred             ---------hHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhC
Q psy17903        265 ---------NPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQD  332 (355)
Q Consensus       265 ---------~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~  332 (355)
                               .+.+..+.+.   .|.+.+..++..++..|+++..|..++...+....++.+.....+...+..+-..+  
T Consensus       222 ~~d~~~~~~~~~isa~~ks~rgsd~~aal~~l~~~l~~G~d~~~i~rrl~~~a~edig~a~~~~~~~~~~~~~~~~~~--  299 (413)
T PRK13342        222 RYDKDGDEHYDLISALHKSIRGSDPDAALYYLARMLEAGEDPLFIARRLVIIASEDIGLADPNALQVAVAAADAVERI--  299 (413)
T ss_pred             ccCCCccHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccCHHHHHHHHHHHHHHHHh--
Confidence                     1223334443   78899999999999999999999999999888766666666666655555555544  


Q ss_pred             C-CChHHHHHHHHHHHH
Q psy17903        333 G-ASEYIQILDLGSIVI  348 (355)
Q Consensus       333 g-~~~~~~l~~~~~~~~  348 (355)
                      | ..-++.|...+..++
T Consensus       300 g~pe~~~~l~~~~~~l~  316 (413)
T PRK13342        300 GMPEGRIALAQAVIYLA  316 (413)
T ss_pred             CCcHHHHHHHHHHHHHH
Confidence            6 355667766666654

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

Probab=100.00  E-value=6.4e-31  Score=258.71  Aligned_cols=284  Identities=19%  Similarity=0.276  Sum_probs=222.1

Q ss_pred             CCCCccccccCCCCCCcccccHHHH---HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVV---SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~---~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  106 (355)
                      ..+.||.+||||++|++++||++++   ..|.+.+..++.++++||||||+|||++|+++++.+.     ..++.+++..
T Consensus        13 ~~~~PLaek~RP~tldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~-----~~f~~lna~~   87 (725)
T PRK13341         13 QSEAPLADRLRPRTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTR-----AHFSSLNAVL   87 (725)
T ss_pred             cccCChHHhcCCCcHHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhc-----Ccceeehhhh
Confidence            3566999999999999999999998   4788899999999999999999999999999999873     3456667653


Q ss_pred             ccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecC--Cccccccc
Q psy17903        107 DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY--VSCIIQPL  184 (355)
Q Consensus       107 ~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~--~~~l~~~l  184 (355)
                       .+...+++.+..........        ..+++|||||+|.++...|+.|+..+++.  .+++|.+++.  ...+.+++
T Consensus        88 -~~i~dir~~i~~a~~~l~~~--------~~~~IL~IDEIh~Ln~~qQdaLL~~lE~g--~IiLI~aTTenp~~~l~~aL  156 (725)
T PRK13341         88 -AGVKDLRAEVDRAKERLERH--------GKRTILFIDEVHRFNKAQQDALLPWVENG--TITLIGATTENPYFEVNKAL  156 (725)
T ss_pred             -hhhHHHHHHHHHHHHHhhhc--------CCceEEEEeChhhCCHHHHHHHHHHhcCc--eEEEEEecCCChHhhhhhHh
Confidence             34445555554432211100        13459999999999999999999999863  3455555533  34678999


Q ss_pred             cCCeeeEEecCCCHHHHHHHHHHHHH-------HcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhC---C--CCCC
Q psy17903        185 TSRCSKFRFKPLAENTMLTRLQYICE-------QESVMCDFKALETLVETSGGDMRRAITCLQSCARLKG---G--EGIV  252 (355)
Q Consensus       185 ~sr~~~i~~~~~~~~~~~~~l~~~~~-------~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~---~--~~It  252 (355)
                      .|||..+.|++++.+++..++++.+.       .+++.+++++++.|++.++||+|.+++.|+.++....   .  ..||
T Consensus       157 ~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~lln~Le~a~~~~~~~~~~~i~It  236 (725)
T PRK13341        157 VSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNALELAVESTPPDEDGLIDIT  236 (725)
T ss_pred             hccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccCCCCceecc
Confidence            99999999999999999999999987       4578899999999999999999999999998765331   1  1378


Q ss_pred             HHHHHHHhC----------CCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHH
Q psy17903        253 NEDVLEVTG----------VIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALI  319 (355)
Q Consensus       253 ~~~v~~~~~----------~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i  319 (355)
                      .+.+.+++.          ....+.+.++++.   +|.+.+..++..+++.|+++..|+..|...+....++.+.....+
T Consensus       237 ~~~~~e~l~~~~~~ydk~gd~hyd~Isa~~ksirgsD~daAl~~la~ml~~Gedp~~I~Rrl~~~asEdigladp~al~~  316 (725)
T PRK13341        237 LAIAEESIQQRAVLYDKEGDAHFDTISAFIKSLRGSDPDAALYWLARMVEAGEDPRFIFRRMLIAASEDVGLADPQALVV  316 (725)
T ss_pred             HHHHHHHHHHhhhhcccCCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCChHHHHH
Confidence            888877653          3455677878776   899999999999999999999999999999987656655555555


Q ss_pred             HHHHHHHHHH
Q psy17903        320 LEKLAECNAR  329 (355)
Q Consensus       320 ~~~l~~~~~~  329 (355)
                      ......+...
T Consensus       317 ~~~~~~a~~~  326 (725)
T PRK13341        317 VEACAAAFER  326 (725)
T ss_pred             HHHHHHHHHH
Confidence            4444444333

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=100.00  E-value=1.2e-30  Score=237.35  Aligned_cols=289  Identities=17%  Similarity=0.281  Sum_probs=206.3

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc---ccceeeecC--CCccchHHHHHH
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---RERILELNA--SDDRGIQVIRDK  116 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~---~~~~~~~~~--~~~~~~~~i~~~  116 (355)
                      +|++++||+.+++.|.+++..++.+| |||+||+|+||+++|+.+++.+.+...   ..++.++..  ....+++.+++.
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 899999999999999999999977422   224444443  234567888888


Q ss_pred             HHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeeeEEecCC
Q psy17903        117 VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPL  196 (355)
Q Consensus       117 i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~  196 (355)
                      +..+...+..+         ++||+|||++|.|+.+++++|+++||+|+.+++||++|++++++.++|+|||..++|.++
T Consensus        82 ~~~~~~~p~~~---------~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~  152 (313)
T PRK05564         82 IEEVNKKPYEG---------DKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRL  152 (313)
T ss_pred             HHHHhcCcccC---------CceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCc
Confidence            77665444332         678999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHh---CCCChHHHHHHHh
Q psy17903        197 AENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVT---GVIPNPWIEKLLK  273 (355)
Q Consensus       197 ~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~---~~~~~~~~~~l~~  273 (355)
                      +.+++..|+...+.    .++++.++.++..++|+++.+...+.......     -.+.+.+.+   .........++.+
T Consensus       153 ~~~~~~~~l~~~~~----~~~~~~~~~l~~~~~g~~~~a~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~l~~~~  223 (313)
T PRK05564        153 SKEEIEKFISYKYN----DIKEEEKKSAIAFSDGIPGKVEKFIEDDSLKN-----IRNMSLEILKDIKKSNINILLKYEN  223 (313)
T ss_pred             CHHHHHHHHHHHhc----CCCHHHHHHHHHHcCCCHHHHHHHhcccHHHH-----HHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999986543    57788899999999999998876653211100     001111111   1111111111111


Q ss_pred             c-----CC----HHHHHHHHHHHHHc--CCCHHHHH--HHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHH
Q psy17903        274 V-----DS----FQVLEKYIEDLILE--AYSATQLF--DQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQI  340 (355)
Q Consensus       274 ~-----~~----~~~~~~~l~~l~~~--g~~~~~i~--~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l  340 (355)
                      .     .+    ..-+..++++++..  +.....++  .........+..++...+.++++.+.++++.++.+.|..+.+
T Consensus       224 ~l~~~~~~~~~~l~~l~~~~rdll~~k~~~~~~~~~~~~~~~~i~~~a~~~s~~~L~~~~~~l~~~~~~l~~n~n~~l~l  303 (313)
T PRK05564        224 FLIKYKENWEEILTCILSYIRDSLLYKETGNEELIINIDKIEDIKHISEKFSYKKLNKMIEIINDTRDNLSSNVNPTLVF  303 (313)
T ss_pred             HHHHcCccHHHHHHHHHHHHHHHHHHhccCchhhhcChhHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHcCCccHHH
Confidence            1     11    12223334444311  11110000  001111112346889999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy17903        341 LDLGSIVIK  349 (355)
Q Consensus       341 ~~~~~~~~~  349 (355)
                      |.++.++..
T Consensus       304 e~lll~~~~  312 (313)
T PRK05564        304 DSMLIKMQE  312 (313)
T ss_pred             HHHHHhhhc
Confidence            999998853

>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=99.97  E-value=3.1e-30  Score=215.03  Aligned_cols=198  Identities=23%  Similarity=0.305  Sum_probs=146.4

Q ss_pred             CCCCCccccccCCCCCCcccccHHHHHHHHHHHh-----cCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeec
Q psy17903         29 RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLS-----GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (355)
Q Consensus        29 ~~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~-----~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~  103 (355)
                      .....++.+++||++|++++||++++..+.-+++     +...+|++||||||+||||+|..+++++.     .++...+
T Consensus         8 ~~~~~~l~~~lRP~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~-----~~~~~~s   82 (233)
T PF05496_consen    8 QEEEAPLAERLRPKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELG-----VNFKITS   82 (233)
T ss_dssp             ----S-HHHHTS-SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT-------EEEEE
T ss_pred             CCcchhhHHhcCCCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccC-----CCeEecc
Confidence            3556889999999999999999999998876654     34567899999999999999999999984     3455666


Q ss_pred             CCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc------------------
Q psy17903        104 ASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET------------------  165 (355)
Q Consensus       104 ~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~------------------  165 (355)
                      ++......++...+..+.               ++.|+||||+|+|++..|+.|+..||++.                  
T Consensus        83 g~~i~k~~dl~~il~~l~---------------~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l  147 (233)
T PF05496_consen   83 GPAIEKAGDLAAILTNLK---------------EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINL  147 (233)
T ss_dssp             CCC--SCHHHHHHHHT-----------------TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE-
T ss_pred             chhhhhHHHHHHHHHhcC---------------CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccC
Confidence            654444455544443322               33499999999999999999999999743                  


Q ss_pred             CCccEEEEecCCccccccccCCeeeE-EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        166 KSTRFCLICNYVSCIIQPLTSRCSKF-RFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       166 ~~~~~Il~~~~~~~l~~~l~sr~~~i-~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                      +...+|.+|+....+.++|++|+..+ ++..++.+++..++.+.+...+++++++++..|+..|.|.+|-+.+.|+++-.
T Consensus       148 ~~FTligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i~~~~~~~Ia~rsrGtPRiAnrll~rvrD  227 (233)
T PF05496_consen  148 PPFTLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNIEIDEDAAEEIARRSRGTPRIANRLLRRVRD  227 (233)
T ss_dssp             ---EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT-EE-HHHHHHHHHCTTTSHHHHHHHHHHHCC
T ss_pred             CCceEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHhcCCChHHHHHHHHHHHH
Confidence            23567888889999999999999965 79999999999999999999999999999999999999999999999999876


Q ss_pred             hh
Q psy17903        245 LK  246 (355)
Q Consensus       245 ~~  246 (355)
                      |+
T Consensus       228 ~a  229 (233)
T PF05496_consen  228 FA  229 (233)
T ss_dssp             CC
T ss_pred             HH
Confidence            65

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.

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.97  E-value=7.3e-29  Score=229.15  Aligned_cols=292  Identities=18%  Similarity=0.275  Sum_probs=205.5

Q ss_pred             CCCcccccHHHHHHHHHHHhcCC---------CCe-EEEECCCCCCHHHHHHHHHHHhcCCcc-----------------
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSGAD---------LPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-----------------   95 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~~~---------~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~-----------------   95 (355)
                      .|++++||++++..|++++..++         .+| +||+||+|+|||++|+.+++.+.++..                 
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         778 999999999999999999999987531                 


Q ss_pred             -ccceeeecCC-CccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEE
Q psy17903         96 -RERILELNAS-DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLI  173 (355)
Q Consensus        96 -~~~~~~~~~~-~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~  173 (355)
                       ..++..+... ...+++.+++.+......+..         ++++|+||||+|.|+...++.|+++||+++.+++||++
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             1122233222 235678888777666544322         26789999999999999999999999999999999999


Q ss_pred             ecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH---------H
Q psy17903        174 CNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCA---------R  244 (355)
Q Consensus       174 ~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~---------~  244 (355)
                      |+++..+.++|+|||..+.|++|+.+++.+|+...   .  .++++.+..++..++|+++.++..++.-.         .
T Consensus       154 a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~---~--~~~~~~a~~la~~s~G~~~~A~~l~~~~~~~~~r~~~~~  228 (394)
T PRK07940        154 APSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRR---D--GVDPETARRAARASQGHIGRARRLATDEEARARRAEVLN  228 (394)
T ss_pred             ECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHh---c--CCCHHHHHHHHHHcCCCHHHHHHHhcChHHHHHHHHHHH
Confidence            99999999999999999999999999999999832   2  36788889999999999998876653211         0


Q ss_pred             h----hCCC-CCC---------HHHHHHHhCCCChHHHHHHHhc------------------------------------
Q psy17903        245 L----KGGE-GIV---------NEDVLEVTGVIPNPWIEKLLKV------------------------------------  274 (355)
Q Consensus       245 ~----~~~~-~It---------~~~v~~~~~~~~~~~~~~l~~~------------------------------------  274 (355)
                      .    .... .+.         .+.+...++.........+...                                    
T Consensus       229 ~l~~l~~~~~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  308 (394)
T PRK07940        229 LALRLARVSDAVAAAEELVKAAEAEAKALTAERDEAETEELRTALGAGGTGKGPAKALRGAAGALKDLEKRQKRRATRAS  308 (394)
T ss_pred             HHHhccchhHHHHHHHHHHHHHHHHHHhhhccccHHHHHHHHHHhccccccccccccchhHHHHHHHHHHHHhhhchhhh
Confidence            0    0000 000         0011111111111111111110                                    


Q ss_pred             -----CCHHHHHHHHHHHHH--cCCCH----HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHH
Q psy17903        275 -----DSFQVLEKYIEDLIL--EAYSA----TQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDL  343 (355)
Q Consensus       275 -----~~~~~~~~~l~~l~~--~g~~~----~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~  343 (355)
                           .-.+.+..+++|++.  .|.+.    .+....+.+.   ...++...+.++++.+.++...+..+.|..+.+|.+
T Consensus       309 ~~~l~~~l~~l~~~~rDll~~~~g~~~~~~n~d~~~~l~~~---a~~~~~~~l~~~~~~~~~a~~~l~~n~n~~L~lE~l  385 (394)
T PRK07940        309 RDALDRALVDLAGLYRDVLVVQLGAEVGLINPDMADRLAEL---AARSTPEGLLRRIDAVLACRERLAGNVKPLLAVEAM  385 (394)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHhhcCCccccCHHHHHHHHHH---HHhCCHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHH
Confidence                 011224455666542  22111    1122223332   225688889999999999999999999999999999


Q ss_pred             HHHHHHHH
Q psy17903        344 GSIVIKAN  351 (355)
Q Consensus       344 ~~~~~~~~  351 (355)
                      +.++.+.+
T Consensus       386 ll~l~~~~  393 (394)
T PRK07940        386 VAALRQAL  393 (394)
T ss_pred             HHHHHHhc
Confidence            99997765

>KOG2028|consensus

Probab=99.97  E-value=2.5e-28  Score=213.35  Aligned_cols=301  Identities=20%  Similarity=0.236  Sum_probs=232.6

Q ss_pred             CccccccCCCCCCcccccHHHH---HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVV---SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~---~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  109 (355)
                      .|++|+.||+++++++||++.+   ..|+.++++++.|.++||||||||||++|+.++.......  ..++++++.. ..
T Consensus       126 ~PLaermRPktL~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~S--yrfvelSAt~-a~  202 (554)
T KOG2028|consen  126 KPLAERMRPKTLDDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHS--YRFVELSATN-AK  202 (554)
T ss_pred             CChhhhcCcchHHHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCc--eEEEEEeccc-cc
Confidence            5999999999999999999887   4688899999999999999999999999999998864443  4688888765 45


Q ss_pred             hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEec--CCccccccccCC
Q psy17903        110 IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN--YVSCIIQPLTSR  187 (355)
Q Consensus       110 ~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~--~~~~l~~~l~sr  187 (355)
                      ..+++..+++.........        .+.|+||||+|+++..+|+.|+..+|++  .+.+|.+|+  ....+..+|.||
T Consensus       203 t~dvR~ife~aq~~~~l~k--------rkTilFiDEiHRFNksQQD~fLP~VE~G--~I~lIGATTENPSFqln~aLlSR  272 (554)
T KOG2028|consen  203 TNDVRDIFEQAQNEKSLTK--------RKTILFIDEIHRFNKSQQDTFLPHVENG--DITLIGATTENPSFQLNAALLSR  272 (554)
T ss_pred             hHHHHHHHHHHHHHHhhhc--------ceeEEEeHHhhhhhhhhhhcccceeccC--ceEEEecccCCCccchhHHHHhc
Confidence            6667766665443322211        4569999999999999999999999964  456776664  345688999999


Q ss_pred             eeeEEecCCCHHHHHHHHHHHHHH----c----C-----CCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh-------C
Q psy17903        188 CSKFRFKPLAENTMLTRLQYICEQ----E----S-----VMCDFKALETLVETSGGDMRRAITCLQSCARLK-------G  247 (355)
Q Consensus       188 ~~~i~~~~~~~~~~~~~l~~~~~~----~----~-----~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~-------~  247 (355)
                      |.++.+.+++.+.+..+|.+...-    +    +     +.+++.++++++..+.||.|.++|.|+......       .
T Consensus       273 C~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR~aLN~Lems~~m~~tr~g~~~  352 (554)
T KOG2028|consen  273 CRVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDARAALNALEMSLSMFCTRSGQSS  352 (554)
T ss_pred             cceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchHHHHHHHHHHHHHHHHhhcCCcc
Confidence            999999999999999999884431    1    1     236778999999999999999999999874332       1


Q ss_pred             CCCCCHHHHHHHhCCCC----------hHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHH
Q psy17903        248 GEGIVNEDVLEVTGVIP----------NPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDK  314 (355)
Q Consensus       248 ~~~It~~~v~~~~~~~~----------~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~  314 (355)
                      ...++.+|+.+.+....          -..|..+-+.   +|.....-++..+++.|.+|.++...+.+......++.+.
T Consensus       353 ~~~lSidDvke~lq~s~~~YDr~Ge~HYntISA~HKSmRG~D~nAslY~LaRMLegGEdPLYVARRlvR~ASEDIGlaD~  432 (554)
T KOG2028|consen  353 RVLLSIDDVKEGLQRSHILYDRAGEEHYNTISALHKSMRGSDQNASLYWLARMLEGGEDPLYVARRLVRFASEDIGLADP  432 (554)
T ss_pred             cceecHHHHHHHHhhccceecccchhHHHHHHHHHHhhcCCccchHHHHHHHHHccCCCcHHHHHHHHHHhhcccCcCCc
Confidence            23689999998886542          2244444444   7888899999999999999999999999998875555544


Q ss_pred             HHHHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHH
Q psy17903        315 QKALILEKLAECNARLQDGA-SEYIQILDLGSIVI  348 (355)
Q Consensus       315 ~~~~i~~~l~~~~~~l~~g~-~~~~~l~~~~~~~~  348 (355)
                      .  .+-+..+-++....-|+ .-...|.-++..+.
T Consensus       433 S--~L~~Avaa~qav~~vGmPE~dviLAqC~v~lA  465 (554)
T KOG2028|consen  433 S--ALTQAVAAYQAVHFVGMPECDVILAQCVVYLA  465 (554)
T ss_pred             h--hhHHHHHHHHHHHHhCCchHHHHHHHHHHHHH
Confidence            3  33555666666666675 55566666666654

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=99.96  E-value=1.3e-27  Score=215.31  Aligned_cols=272  Identities=17%  Similarity=0.253  Sum_probs=194.0

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc-------------ccceeeecCC---
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------RERILELNAS---  105 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~-------------~~~~~~~~~~---  105 (355)
                      .|++++||+.+++.|.+.+..++.+| +||+||+|+||+++|.++++.+.+...             ..++..+.+.   
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            48899999999999999999999988 999999999999999999999987431             1122222211   


Q ss_pred             --------------------CccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc
Q psy17903        106 --------------------DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET  165 (355)
Q Consensus       106 --------------------~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~  165 (355)
                                          ....++.+++....+...+..+         ++||+|||++|.|+..++|+|+++||+|+
T Consensus        82 ~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~---------~~kVvII~~ae~m~~~aaNaLLK~LEEPp  152 (314)
T PRK07399         82 QGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEA---------PRKVVVIEDAETMNEAAANALLKTLEEPG  152 (314)
T ss_pred             cccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccC---------CceEEEEEchhhcCHHHHHHHHHHHhCCC
Confidence                                1233566776655544433332         67899999999999999999999999999


Q ss_pred             CCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q psy17903        166 KSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL  245 (355)
Q Consensus       166 ~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~  245 (355)
                       +++||++|+++++++++|+|||..++|.+++.+++.+|+......++..   .....++..++|+++.+++.++.... 
T Consensus       153 -~~~fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~~~---~~~~~l~~~a~Gs~~~al~~l~~~~~-  227 (314)
T PRK07399        153 -NGTLILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEILN---INFPELLALAQGSPGAAIANIEQLQS-  227 (314)
T ss_pred             -CCeEEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccccch---hHHHHHHHHcCCCHHHHHHHHHHHHH-
Confidence             8899999999999999999999999999999999999999875433222   22567888999999999998875332 


Q ss_pred             hCCCCCCHHHHHHHhCCCChHHHHHHHhcCCHHHHHHHHHHHH-HcCCCHH-HHHHHHHHHHHhcCCCCHHHHHHHHHHH
Q psy17903        246 KGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLI-LEAYSAT-QLFDQFHDIVMSASSLSDKQKALILEKL  323 (355)
Q Consensus       246 ~~~~~It~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~l~-~~g~~~~-~i~~~l~~~~~~~~~~~~~~~~~i~~~l  323 (355)
                           +..+.+..+.. ..          .+...+..+-..+- ..+...+ .++..+..++.+.     .....+++.+
T Consensus       228 -----~~~~~~~~~~~-~~----------~~~~~~~~~a~~~~~~~~~e~Q~~~l~~~~~~~~~~-----~~~~~~~~~l  286 (314)
T PRK07399        228 -----IPPELLQKLEQ-PP----------KSPLEALELAKDISEELDIEQQLWLIDYLQQHYWQK-----TKNRQLLKQL  286 (314)
T ss_pred             -----HHHHHHHHHHh-cc----------cCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHh-----hcchHHHHHH
Confidence                 11222222221 11          22233333322222 1121111 2222222233221     1246789999


Q ss_pred             HHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        324 AECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       324 ~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                      .++.+.+..+++.++.++.+..+++.
T Consensus       287 ~~a~~~l~~nvn~~lv~e~~~l~l~~  312 (314)
T PRK07399        287 EKLRKQLLSYVQPRLAWEVTLLELSQ  312 (314)
T ss_pred             HHHHHHHHHcCCcchhHHHHHHHHhc
Confidence            99999999999999999999999864

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=99.96  E-value=9e-27  Score=211.40  Aligned_cols=289  Identities=20%  Similarity=0.221  Sum_probs=204.7

Q ss_pred             ccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc-------------------ccceeeecCC---
Q psy17903         49 EQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------------RERILELNAS---  105 (355)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~~~~~---  105 (355)
                      .+....+.|.+.+.+++.+| +||+||+|+||+++|.++++.+.+...                   ..++..+...   
T Consensus         6 Wl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~   85 (334)
T PRK07993          6 WLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGK   85 (334)
T ss_pred             CChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEeccccc
Confidence            46677889999999999999 999999999999999999999986321                   1234444332   


Q ss_pred             CccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCcccccccc
Q psy17903        106 DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLT  185 (355)
Q Consensus       106 ~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~  185 (355)
                      ...+++.+++....+...+..+         ++||+|||++|.|+.++.|+|+++||+|+.+++||++|+++++++|+|+
T Consensus        86 ~~I~idqiR~l~~~~~~~~~~g---------~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIr  156 (334)
T PRK07993         86 SSLGVDAVREVTEKLYEHARLG---------GAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLR  156 (334)
T ss_pred             ccCCHHHHHHHHHHHhhccccC---------CceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHH
Confidence            2477899999888777665443         6789999999999999999999999999999999999999999999999


Q ss_pred             CCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCh
Q psy17903        186 SRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPN  265 (355)
Q Consensus       186 sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~  265 (355)
                      |||+.+.|++++.+++..|+...     ..++++.+..++..++|+++.+++.++.-.... ...+ .+.+.........
T Consensus       157 SRCq~~~~~~~~~~~~~~~L~~~-----~~~~~~~a~~~~~la~G~~~~Al~l~~~~~~~~-r~~~-~~~l~~~~~~~~~  229 (334)
T PRK07993        157 SRCRLHYLAPPPEQYALTWLSRE-----VTMSQDALLAALRLSAGAPGAALALLQPERWQQ-REAL-CQALAYALPSGDW  229 (334)
T ss_pred             hccccccCCCCCHHHHHHHHHHc-----cCCCHHHHHHHHHHcCCCHHHHHHHhcCchHHH-HHHH-HHHHHHHhcCCCH
Confidence            99999999999999999999742     347777788889999999999988874211000 0000 0111111111111


Q ss_pred             HHHHHHHhcCC----HHHHHHHHHHHHHcCCCHHHHH-HHHHH-HHHhcCCCCHHHHHHHHHHHHHHHHHhhC--CCChH
Q psy17903        266 PWIEKLLKVDS----FQVLEKYIEDLILEAYSATQLF-DQFHD-IVMSASSLSDKQKALILEKLAECNARLQD--GASEY  337 (355)
Q Consensus       266 ~~~~~l~~~~~----~~~~~~~l~~l~~~g~~~~~i~-~~l~~-~~~~~~~~~~~~~~~i~~~l~~~~~~l~~--g~~~~  337 (355)
                      ......++..+    .+-+..+++|++........++ ..... .......++...+..+++.+.++...+..  +.|..
T Consensus       230 ~~~~~~~~~~~~~~~L~~l~~~~rD~l~~~~~~~~~~n~d~~~~i~~~a~~~~~~~l~~~~~~l~~~~~~l~~~~N~N~~  309 (334)
T PRK07993        230 LSLLPALNHEQAPARLHWLATLLMDALKRQHGAAYVTNQDQPPLVAQLANHLSPARLQAILGDVCHCREQLLSVTGVNRE  309 (334)
T ss_pred             HHHHHHHcccCHHHHHHHHHHHHHHHHHHhcCCcceeCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhcCCCCHH
Confidence            11112222112    2334455666543222111111 01111 01112257888888999999999999996  78999


Q ss_pred             HHHHHHHHHHHHHHhh
Q psy17903        338 IQILDLGSIVIKANKT  353 (355)
Q Consensus       338 ~~l~~~~~~~~~~~~~  353 (355)
                      +.++.++.++...++.
T Consensus       310 L~le~lll~~~~~~~~  325 (334)
T PRK07993        310 LLLTDLLLRIEHYLQP  325 (334)
T ss_pred             HHHHHHHHHHHHHHcc
Confidence            9999999999877653

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.96  E-value=2e-26  Score=210.28  Aligned_cols=194  Identities=23%  Similarity=0.395  Sum_probs=161.5

Q ss_pred             cccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc--------------------
Q psy17903         37 EKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY--------------------   95 (355)
Q Consensus        37 ~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~--------------------   95 (355)
                      ...+|..+++++||+++...|...+..++.+| +||+||+|+|||++|+.+++.+.+...                    
T Consensus        15 ~~~~P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~   94 (351)
T PRK09112         15 GVPSPSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQ   94 (351)
T ss_pred             CCCCCCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHH
Confidence            34799999999999999999999999999999 999999999999999999999987210                    


Q ss_pred             -----ccceeeecCC---------CccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHh
Q psy17903         96 -----RERILELNAS---------DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTM  161 (355)
Q Consensus        96 -----~~~~~~~~~~---------~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~l  161 (355)
                           ..++..+...         ...+++.++.....+...+..         ++++|+||||+|.|+..++++|++.|
T Consensus        95 i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~---------g~~rVviIDeAd~l~~~aanaLLk~L  165 (351)
T PRK09112         95 IAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGD---------GNWRIVIIDPADDMNRNAANAILKTL  165 (351)
T ss_pred             HHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhcccc---------CCceEEEEEchhhcCHHHHHHHHHHH
Confidence                 0012223211         123467777665555443322         26789999999999999999999999


Q ss_pred             hhccCCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHH
Q psy17903        162 EKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQS  241 (355)
Q Consensus       162 e~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~  241 (355)
                      |+++.+++||++++.+.++.++++|||..++|++++.+++..|+...+...+  ++++++..+++.++|++|.+++.++.
T Consensus       166 EEpp~~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~--~~~~~~~~i~~~s~G~pr~Al~ll~~  243 (351)
T PRK09112        166 EEPPARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG--SDGEITEALLQRSKGSVRKALLLLNY  243 (351)
T ss_pred             hcCCCCceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC--CCHHHHHHHHHHcCCCHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999999998654333  77889999999999999999999863

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=99.96  E-value=1.1e-26  Score=211.68  Aligned_cols=288  Identities=21%  Similarity=0.241  Sum_probs=199.8

Q ss_pred             CCCcccc-cHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc-------------------ccceee
Q psy17903         43 TIDDVIE-QQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------------RERILE  101 (355)
Q Consensus        43 ~~~~~vg-~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~  101 (355)
                      .|+.++| |+.+++.|.+.+..++.+| +||+||+|+||+++|+.+++.+.+...                   ..++..
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            3778888 9999999999999999999 899999999999999999999986421                   112222


Q ss_pred             ecC-CCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccc
Q psy17903        102 LNA-SDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCI  180 (355)
Q Consensus       102 ~~~-~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l  180 (355)
                      +.. ....+++.+++.+..+...+..+         ++||+||||+|.|+.+++++|+++||+|+.+++||++|+++.++
T Consensus        83 i~~~~~~i~id~ir~l~~~~~~~~~~~---------~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~l  153 (329)
T PRK08058         83 VAPDGQSIKKDQIRYLKEEFSKSGVES---------NKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQI  153 (329)
T ss_pred             eccccccCCHHHHHHHHHHHhhCCccc---------CceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhC
Confidence            222 22356788888887766554332         67899999999999999999999999999999999999999999


Q ss_pred             cccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHh
Q psy17903        181 IQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVT  260 (355)
Q Consensus       181 ~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~  260 (355)
                      .++|+|||..++|.+++.+++..++..    +|  ++++....++.. .|+++.++..++.-.......  ....+.+.+
T Consensus       154 l~TIrSRc~~i~~~~~~~~~~~~~L~~----~g--i~~~~~~~l~~~-~g~~~~A~~l~~~~~~~~~~~--~~~~~~~~~  224 (329)
T PRK08058        154 LPTILSRCQVVEFRPLPPESLIQRLQE----EG--ISESLATLLAGL-TNSVEEALALSEDDWFAQARA--LVIKLYEAL  224 (329)
T ss_pred             cHHHHhhceeeeCCCCCHHHHHHHHHH----cC--CChHHHHHHHHH-cCCHHHHHHHhcCchHHHHHH--HHHHHHHHH
Confidence            999999999999999999999888863    34  566666666665 478999887765321100000  001111111


Q ss_pred             CCCChHHHH----HHHhc-CC-------HHHHHHHHHHHHH--cCCCHHHHHHH-HHHHHHhcCCCCHHHHHHHHHHHHH
Q psy17903        261 GVIPNPWIE----KLLKV-DS-------FQVLEKYIEDLIL--EAYSATQLFDQ-FHDIVMSASSLSDKQKALILEKLAE  325 (355)
Q Consensus       261 ~~~~~~~~~----~l~~~-~~-------~~~~~~~l~~l~~--~g~~~~~i~~~-l~~~~~~~~~~~~~~~~~i~~~l~~  325 (355)
                      .........    .+... .+       .+-+..++++++.  .|.....+... .......+..++...+..+++.+.+
T Consensus       225 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~rD~l~~~~~~~~~~~n~d~~~~l~~~a~~~s~~~l~~~~~~~~~  304 (329)
T PRK08058        225 HEKDLQSFVFVQEKWMPLFKEKDQQQLGLDLLLLIYRDLLYLQLGEEDRLVFREQKEMLQQLALSYSQQQIVAALELILE  304 (329)
T ss_pred             HcCCHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHhcCCcccccCHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            111111111    11111 11       1223445555542  22211111111 1111112235789999999999999


Q ss_pred             HHHHhhCCCChHHHHHHHHHHHH
Q psy17903        326 CNARLQDGASEYIQILDLGSIVI  348 (355)
Q Consensus       326 ~~~~l~~g~~~~~~l~~~~~~~~  348 (355)
                      +...+..+.|..+.+|.++.++.
T Consensus       305 ~~~~l~~n~n~~L~le~lll~~~  327 (329)
T PRK08058        305 AKRRLNSNVNFQLVMEQLVLRLQ  327 (329)
T ss_pred             HHHHHHHcCCHHHHHHHHHHhcc
Confidence            99999999999999999999875

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=99.96  E-value=9.1e-26  Score=204.34  Aligned_cols=276  Identities=17%  Similarity=0.203  Sum_probs=193.9

Q ss_pred             HHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc-------------------ccceeeecCC---CccchHHHH
Q psy17903         58 KKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------------RERILELNAS---DDRGIQVIR  114 (355)
Q Consensus        58 ~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~~~~~---~~~~~~~i~  114 (355)
                      .+++..++.+| +||+||+|+||+++|+.+++.+.+...                   ..++..+...   ...+++.++
T Consensus        13 ~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR   92 (328)
T PRK05707         13 QQLAGRGRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVR   92 (328)
T ss_pred             HHHHHCCCcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHH
Confidence            44456688899 999999999999999999999987421                   1234444332   346789999


Q ss_pred             HHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeeeEEec
Q psy17903        115 DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFK  194 (355)
Q Consensus       115 ~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~  194 (355)
                      +.+..+...+..+         ++||+|||++|.|+.+++|+|+++||+|+.+++||++|+++..++++|+|||..+.|.
T Consensus        93 ~l~~~~~~~~~~~---------~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~  163 (328)
T PRK05707         93 ELVSFVVQTAQLG---------GRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACP  163 (328)
T ss_pred             HHHHHHhhccccC---------CCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCC
Confidence            9877766554332         6789999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHHHHHHHhc
Q psy17903        195 PLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV  274 (355)
Q Consensus       195 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~~~~l~~~  274 (355)
                      +++.+++..|+....    ...+++....++..++|++..++..++.-....  ..--.+.+..+....  .....+.+.
T Consensus       164 ~~~~~~~~~~L~~~~----~~~~~~~~~~~l~la~Gsp~~A~~l~~~~~~~~--r~~~~~~l~~~~~~~--~~~~~~~~~  235 (328)
T PRK05707        164 LPSNEESLQWLQQAL----PESDERERIELLTLAGGSPLRALQLHEQGVREQ--RARVLDGVKKLLKQQ--QSASQLAES  235 (328)
T ss_pred             CcCHHHHHHHHHHhc----ccCChHHHHHHHHHcCCCHHHHHHHHCcchHHH--HHHHHHHHHHHhcCc--ccHHHHHHH
Confidence            999999999998653    134566677788899999999987764211000  000001111111111  011122211


Q ss_pred             ---CCH----HHHHHHHHHHHH--cCCCH-----HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhh--CCCChHH
Q psy17903        275 ---DSF----QVLEKYIEDLIL--EAYSA-----TQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQ--DGASEYI  338 (355)
Q Consensus       275 ---~~~----~~~~~~l~~l~~--~g~~~-----~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~--~g~~~~~  338 (355)
                         .+.    .-+..+++|++.  .|.+.     .+....+...   ...++...+..+++.+.++...+.  .+.|..+
T Consensus       236 ~~k~~~~~~l~~l~~~~~D~l~~~~~~~~~~~~n~d~~~~l~~~---a~~~~~~~L~~~~~~l~~~~~~l~~~~NvN~~L  312 (328)
T PRK05707        236 WLKVPLLLLFDWFCDWAHDILRYQLTQDEEGLGLADMRKVLQYL---AQKSPQAKVLALQDWLLEQRQKVLGKANLNRQL  312 (328)
T ss_pred             HccCCHHHHHHHHHHHHHHHHHHHcCCCcccccCHHHHHHHHHH---HHhCCHHHHHHHHHHHHHHHHHhhccCCCCHHH
Confidence               222    234445556543  22221     2222223322   235788889999999999999986  6789999


Q ss_pred             HHHHHHHHHHHHHhh
Q psy17903        339 QILDLGSIVIKANKT  353 (355)
Q Consensus       339 ~l~~~~~~~~~~~~~  353 (355)
                      .+|.++.++...+++
T Consensus       313 ~le~lll~~~~~~~~  327 (328)
T PRK05707        313 LLEALLVQWAGLPGA  327 (328)
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999877665

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.95  E-value=8.4e-26  Score=207.26  Aligned_cols=189  Identities=22%  Similarity=0.343  Sum_probs=156.9

Q ss_pred             cCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccc---------------------
Q psy17903         39 YRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYR---------------------   96 (355)
Q Consensus        39 ~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~---------------------   96 (355)
                      .+|+++++++||+.++..|.+.+..++.+| +||+||+|+||+++|.++++.+.++...                     
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            799999999999999999999999999999 9999999999999999999999864310                     


Q ss_pred             --------cceeeecC--C-------CccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHH
Q psy17903         97 --------ERILELNA--S-------DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRR  159 (355)
Q Consensus        97 --------~~~~~~~~--~-------~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~  159 (355)
                              .++..+..  .       ....++.+++....+...+..         ++++|+||||+|.++...++.|++
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                    12222321  0       224567777766555433222         256799999999999999999999


Q ss_pred             HhhhccCCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q psy17903        160 TMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL  239 (355)
Q Consensus       160 ~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l  239 (355)
                      .+|+++.+++||++|+++..+.++++|||..+.|.+++.+++.+|+....    ...+++.+..++..++|+++.+++.+
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            99999999999999999999999999999999999999999999998642    33455666788999999999999988


Q ss_pred             H
Q psy17903        240 Q  240 (355)
Q Consensus       240 ~  240 (355)
                      +
T Consensus       240 ~  240 (365)
T PRK07471        240 G  240 (365)
T ss_pred             c
Confidence            5

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=99.95  E-value=3.2e-25  Score=198.90  Aligned_cols=275  Identities=18%  Similarity=0.201  Sum_probs=192.0

Q ss_pred             ccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc----------------ccceeee--cCC----
Q psy17903         49 EQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY----------------RERILEL--NAS----  105 (355)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~----------------~~~~~~~--~~~----  105 (355)
                      .+..+.+.|.+.+..++.+| +||+||+|+||+++|.++++.+.+...                ..++..+  ...    
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            56788899999999999999 999999999999999999999987431                1123333  221    


Q ss_pred             ---CccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccc
Q psy17903        106 ---DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQ  182 (355)
Q Consensus       106 ---~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~  182 (355)
                         ...+++.+++........+..+         ++||+|||++|.|+..+.|+|+++||+|+.+++||++++++++++|
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               1245777887776665544332         6789999999999999999999999999999999999999999999


Q ss_pred             cccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCC
Q psy17903        183 PLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGV  262 (355)
Q Consensus       183 ~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~  262 (355)
                      +|+|||..+.|.+|+.+++..||..    .  .++++.+..++..++|++..+...++.-.... ...+ .+.+..+...
T Consensus       159 TIrSRCq~i~~~~~~~~~~~~~L~~----~--~~~~~~a~~~~~l~~G~p~~A~~~~~~~~~~~-r~~~-~~~l~~~~~~  230 (319)
T PRK08769        159 TIRSRCQRLEFKLPPAHEALAWLLA----Q--GVSERAAQEALDAARGHPGLAAQWLREDGLAL-RRAV-AQDLEQIASG  230 (319)
T ss_pred             HHHhhheEeeCCCcCHHHHHHHHHH----c--CCChHHHHHHHHHcCCCHHHHHHHhcCchHHH-HHHH-HHHHHHhccC
Confidence            9999999999999999999999974    2  35566666778899999999988774211000 0000 1112211111


Q ss_pred             CChHHHHHHHhc----CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHH
Q psy17903        263 IPNPWIEKLLKV----DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYI  338 (355)
Q Consensus       263 ~~~~~~~~l~~~----~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~  338 (355)
                      .  ....++.+.    ...+....+++|++..... ...+        .. + ....+.+....+.+....+.+|.|.++
T Consensus       231 ~--~~~~~~a~~~~~~~~~~~l~~~~~Dll~~~~~-~~~~--------~~-~-~~~~L~~~~~~l~~~~~~~~~~lN~~L  297 (319)
T PRK08769        231 R--AGAVDVAQRWTNDGQADQRLRHAADLALAQAS-AGLT--------DP-S-RLHKLATWFDAANRTRDLLRTTVRADL  297 (319)
T ss_pred             c--ccHHHHHHHHccCCcHHHHHHHHHHHHHHhcC-Cccc--------Ch-h-hHHHHHHHHHHHHHHHHhccCCCCHHH
Confidence            1  112222221    2234555566665532111 0000        00 0 244455566667777777888999999


Q ss_pred             HHHHHHHHHHHHHhh
Q psy17903        339 QILDLGSIVIKANKT  353 (355)
Q Consensus       339 ~l~~~~~~~~~~~~~  353 (355)
                      .+|.++..+...+.+
T Consensus       298 ~le~lll~~~~~~~~  312 (319)
T PRK08769        298 AVTELLLAWREGERQ  312 (319)
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999776543

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=99.95  E-value=1.5e-24  Score=194.84  Aligned_cols=283  Identities=17%  Similarity=0.189  Sum_probs=198.0

Q ss_pred             ccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc-------------------ccceeeecC--CC
Q psy17903         49 EQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------------RERILELNA--SD  106 (355)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~~~~--~~  106 (355)
                      .+....+.|.+.+..++.+| +||+||+|+||+++|+.+++.+.+...                   ..++..+..  ..
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            46677888999999999999 999999999999999999999987321                   123444433  23


Q ss_pred             ccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccC
Q psy17903        107 DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTS  186 (355)
Q Consensus       107 ~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~s  186 (355)
                      ..+++.+|+........+..+         ++||+|||++|.|+..++|+|+++||+|+.+++||++|+++.+++|+|+|
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            467899998877766555433         67899999999999999999999999999999999999999999999999


Q ss_pred             CeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChH
Q psy17903        187 RCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNP  266 (355)
Q Consensus       187 r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~  266 (355)
                      ||..+.|.+++.+++.+||....     ..+...+..++..++|++..++..++.-.... ...+ .+.+..........
T Consensus       157 RC~~~~~~~~~~~~~~~~L~~~~-----~~~~~~~~~~~~l~~g~p~~A~~~~~~~~~~~-r~~~-~~~l~~~~~~~~~~  229 (325)
T PRK06871        157 RCQTWLIHPPEEQQALDWLQAQS-----SAEISEILTALRINYGRPLLALTFLEQGLLEQ-RKTF-LRQFWLFYRRRSPL  229 (325)
T ss_pred             hceEEeCCCCCHHHHHHHHHHHh-----ccChHHHHHHHHHcCCCHHHHHHHhhCChHHH-HHHH-HHHHHHHhccCCHH
Confidence            99999999999999999998653     23444566677889999998887764311100 0000 00000001111111


Q ss_pred             HHHHHHhcCC----HHHHHHHHHHHHH--cCCCH----HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCC--C
Q psy17903        267 WIEKLLKVDS----FQVLEKYIEDLIL--EAYSA----TQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDG--A  334 (355)
Q Consensus       267 ~~~~l~~~~~----~~~~~~~l~~l~~--~g~~~----~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g--~  334 (355)
                      .....++..+    ..-+..+++|++.  .|.+.    .+....+...   +.+++...+.++++.+.++..++..+  .
T Consensus       230 ~~~~~~~k~~~~~~l~~l~~~~rD~l~~~~~~~~~~~n~D~~~~i~~~---a~~~s~~~L~~~i~~i~~~r~~L~~~~~i  306 (325)
T PRK06871        230 ELLPLFDKELVLQQLDWLLAFLSDALKAKLDIASGWICQDLQRGILQF---SQQQSAQGLLKAHQIIQKVRSDLLQINAV  306 (325)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHHHHHHHcCCCcccccHhHHHHHHHH---HHhCCHHHHHHHHHHHHHHHHHHHccccc
Confidence            1111111111    2334556666643  23221    1222222222   23688999999999999999999665  6


Q ss_pred             ChHHHHHHHHHHHHHH
Q psy17903        335 SEYIQILDLGSIVIKA  350 (355)
Q Consensus       335 ~~~~~l~~~~~~~~~~  350 (355)
                      |..+.++..+..+.-+
T Consensus       307 N~~L~l~~~l~~~~~~  322 (325)
T PRK06871        307 NQELILLDGLTRLVTE  322 (325)
T ss_pred             CHHHHHHHHHHHHHHH
Confidence            8899999988887543

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.95  E-value=1.2e-25  Score=205.78  Aligned_cols=213  Identities=19%  Similarity=0.203  Sum_probs=169.3

Q ss_pred             CCCCccccccCCCCCCcccccHHHHHHHHHHHhc-----CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  104 (355)
                      ....+|..+|||.+|++++|+++.++.+..++..     ...++++|+||||+|||++|+++++.+..     .+...++
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            4447788899999999999999999999877752     33456999999999999999999999843     2333333


Q ss_pred             CCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc------------------C
Q psy17903        105 SDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET------------------K  166 (355)
Q Consensus       105 ~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~------------------~  166 (355)
                      ........+...+....               ...+|||||+|.++...++.|+..+++..                  +
T Consensus        85 ~~~~~~~~l~~~l~~l~---------------~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~  149 (328)
T PRK00080         85 PALEKPGDLAAILTNLE---------------EGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLP  149 (328)
T ss_pred             ccccChHHHHHHHHhcc---------------cCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCC
Confidence            32222233333222211               23499999999999888888888887542                  2


Q ss_pred             CccEEEEecCCccccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q psy17903        167 STRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL  245 (355)
Q Consensus       167 ~~~~Il~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~  245 (355)
                      ..++|++|+....+.+++++||. .+.|.+++.+++.++++..+...++.++++++..|++.++|++|.+.+.++.+..+
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            35678888888888899999985 78999999999999999999999999999999999999999999999999987765


Q ss_pred             h---CCCCCCHHHHHHHhCC
Q psy17903        246 K---GGEGIVNEDVLEVTGV  262 (355)
Q Consensus       246 ~---~~~~It~~~v~~~~~~  262 (355)
                      +   +.+.|+.+.+..++..
T Consensus       230 a~~~~~~~I~~~~v~~~l~~  249 (328)
T PRK00080        230 AQVKGDGVITKEIADKALDM  249 (328)
T ss_pred             HHHcCCCCCCHHHHHHHHHH
Confidence            5   3568999999987743

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=99.94  E-value=2.4e-24  Score=194.85  Aligned_cols=273  Identities=17%  Similarity=0.153  Sum_probs=187.0

Q ss_pred             cHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccc--------------------cceeeecCC---
Q psy17903         50 QQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYR--------------------ERILELNAS---  105 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~--------------------~~~~~~~~~---  105 (355)
                      +....+.|...  .++.+| +||+||+|+||+++|+.+++.+.+....                    .++..+...   
T Consensus         6 ~~~~~~~l~~~--~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~   83 (342)
T PRK06964          6 QTDDWNRLQAL--RARLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALA   83 (342)
T ss_pred             cHHHHHHHHHh--cCCcceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEeccccc
Confidence            44556666664  568888 9999999999999999999999874311                    122333211   


Q ss_pred             --------------------------CccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHH
Q psy17903        106 --------------------------DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRR  159 (355)
Q Consensus       106 --------------------------~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~  159 (355)
                                                ...+++.+++........+..         +++||+|||++|.|+.++.|+|++
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~k~~~~~~~I~idqiR~l~~~~~~~~~~---------~~~kV~iI~~ae~m~~~AaNaLLK  154 (342)
T PRK06964         84 AEAPGAADEAKEADADEGGKKTKAPSKEIKIEQVRALLDFCGVGTHR---------GGARVVVLYPAEALNVAAANALLK  154 (342)
T ss_pred             ccccccccccccchhhcccccccccccccCHHHHHHHHHHhccCCcc---------CCceEEEEechhhcCHHHHHHHHH
Confidence                                      235667888776655433322         267899999999999999999999


Q ss_pred             HhhhccCCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q psy17903        160 TMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL  239 (355)
Q Consensus       160 ~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l  239 (355)
                      +||+|+.+++||++|+++++++|+|+|||..+.|++|+.+++..|+...    +  +++.  +.++..++|++..++..+
T Consensus       155 tLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~----~--~~~~--~~~l~~~~Gsp~~Al~~~  226 (342)
T PRK06964        155 TLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ----G--VADA--DALLAEAGGAPLAALALA  226 (342)
T ss_pred             HhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc----C--CChH--HHHHHHcCCCHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999853    3  3332  335667899999998776


Q ss_pred             HHHHHhhCCCCCCHHHHHHHhCCCChHHHHHHHhc---CC----HHHHHHHHHHHHH--cCCCHH---HHHHHHHHHHHh
Q psy17903        240 QSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---DS----FQVLEKYIEDLIL--EAYSAT---QLFDQFHDIVMS  307 (355)
Q Consensus       240 ~~~~~~~~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~----~~~~~~~l~~l~~--~g~~~~---~i~~~l~~~~~~  307 (355)
                      +.-.      .-..+.+.+.+.........++.+.   .+    .+-+..+++|++.  .|....   +....+..   .
T Consensus       227 ~~~~------~~~~~~~~~~l~~~~~~~~~~~~~~~~k~~~~~~l~~l~~~lrD~l~~~~~~~~~~~~d~~~~l~~---~  297 (342)
T PRK06964        227 SDEN------RPLRDWTLGQLAAGAACDAFACAETLQKLPVPAVLGWLQRWLYDLLAQRLAGAPRYFPAQRAALAR---C  297 (342)
T ss_pred             CCCh------HHHHHHHHHHHhccCchhHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHcCCCceecHhHHHHHHH---H
Confidence            3210      0001111111111111111222111   12    2334556666643  232211   11122222   2


Q ss_pred             cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHHH
Q psy17903        308 ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  350 (355)
Q Consensus       308 ~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~~  350 (355)
                      ...++...+..+++.+.++...+..+.|..+.+|.++.++...
T Consensus       298 a~~~~~~~L~~~~~~i~~~~~~~~~nvn~~L~le~lll~~~~~  340 (342)
T PRK06964        298 AAAVDANALARFAKAVTRQRAVENHPLAARLVFEELFLGYREL  340 (342)
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhHCCCCHHHHHHHHHHHHHHH
Confidence            2367899999999999999999999999999999999998654

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=99.94  E-value=6.8e-25  Score=201.34  Aligned_cols=286  Identities=34%  Similarity=0.472  Sum_probs=209.9

Q ss_pred             CcccccHHHHHHHHHHHh-cCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc-------------------cccceeeec
Q psy17903         45 DDVIEQQEVVSVLKKCLS-GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-------------------YRERILELN  103 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~-~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~-------------------~~~~~~~~~  103 (355)
                      ++++++..+...+..++. .++.+| +||+||||+|||++|.++++.+.+..                   ...++++++
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            367888888888888877 678899 99999999999999999999998754                   346899999


Q ss_pred             CCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCcccccc
Q psy17903        104 ASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQP  183 (355)
Q Consensus       104 ~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~  183 (355)
                      +++....+...+.++.+.........     .+++++|||||+|.|+.+++++|++.+|+++.+++||++||++.++.++
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            99987765555555555443322111     1267899999999999999999999999999999999999999999999


Q ss_pred             ccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCC
Q psy17903        184 LTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVI  263 (355)
Q Consensus       184 l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~  263 (355)
                      |+|||..+.|++++......+..           ++++..++..+.||+|.+++.++.++..    ......+.+.....
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            99999999999855544444333           6678888889999999999999988875    34444444444333


Q ss_pred             ChH-----HHHHHHhc-C-CHHHHHHHHHH-HHHcCCCHHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHHHHhhCC
Q psy17903        264 PNP-----WIEKLLKV-D-SFQVLEKYIED-LILEAYSATQLFDQFHDIVMSAS--SLSDKQKALILEKLAECNARLQDG  333 (355)
Q Consensus       264 ~~~-----~~~~l~~~-~-~~~~~~~~l~~-l~~~g~~~~~i~~~l~~~~~~~~--~~~~~~~~~i~~~l~~~~~~l~~g  333 (355)
                      ...     ...+++.. . +...+...... +...+.........+........  ..........+..+...+.++..+
T Consensus       221 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  300 (325)
T COG0470         221 LPESLAQLAALELLKLAENKFLEALEKLWLLLLLEGLLGEDLLDQLQRELLKLDKALIQEEKAAELLDALAQARRRLLDG  300 (325)
T ss_pred             ChhhcccccHHHHHHHHHhcchhHHHHHHHHHHHcCcchhHHHHHHHHHHhhchhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            332     33333333 1 33333333333 33455655555555555544321  134555566788999999999999


Q ss_pred             CChHHHHHHHHHHHHHH
Q psy17903        334 ASEYIQILDLGSIVIKA  350 (355)
Q Consensus       334 ~~~~~~l~~~~~~~~~~  350 (355)
                      ..+.+++..++..++..
T Consensus       301 ~~~~~~~~~~~~~~~~~  317 (325)
T COG0470         301 LLALIQLENLLAELLLL  317 (325)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999999988887654

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.93  E-value=2.8e-25  Score=214.10  Aligned_cols=231  Identities=24%  Similarity=0.365  Sum_probs=174.2

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCC---cc--ccceeeecCCC
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD---MY--RERILELNASD  106 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~---~~--~~~~~~~~~~~  106 (355)
                      ..||.+||||.+|++++|++..+..+...+......|++|+||+|||||++|+++++.....   .+  +..++++|+..
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            56999999999999999999999999988877777789999999999999999998765321   11  35788888864


Q ss_pred             cc-chHHHHH-HHHH-----HHHhhccCC------CCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc---------
Q psy17903        107 DR-GIQVIRD-KVKT-----FAQQTASGF------NQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE---------  164 (355)
Q Consensus       107 ~~-~~~~i~~-~i~~-----~~~~~~~~~------~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~---------  164 (355)
                      .. ....+.+ .+..     +......+.      ....-..+++++|||||++.|++..|+.|++.||+.         
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            21 1111110 0000     000000000      000001145679999999999999999999999763         


Q ss_pred             -------------------cCCccEEEEec-CCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Q psy17903        165 -------------------TKSTRFCLICN-YVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETL  224 (355)
Q Consensus       165 -------------------~~~~~~Il~~~-~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l  224 (355)
                                         +.++++|++|+ ++..+.+++++||..+.|++++.+++..+++..+++.++.+++++++.+
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                               12346666654 6788999999999999999999999999999999999999999999988


Q ss_pred             HHHcCCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCCC
Q psy17903        225 VETSGGDMRRAITCLQSCARLK---GGEGIVNEDVLEVTGVI  263 (355)
Q Consensus       225 ~~~~~g~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~~~  263 (355)
                      ..++. |.|.+.|.++.++.++   +...|+.+++.+++...
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            87664 9999999999987655   33469999999998744

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.

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=99.93  E-value=5.5e-23  Score=184.27  Aligned_cols=279  Identities=13%  Similarity=0.142  Sum_probs=191.4

Q ss_pred             ccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc------------------ccceeeecCC---C
Q psy17903         49 EQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY------------------RERILELNAS---D  106 (355)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~------------------~~~~~~~~~~---~  106 (355)
                      .+....+.|.+.+..++.+| +||+||.|+||+++|+.+++.+.+...                  ..++..+...   .
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            45677889999999999999 999999999999999999999986321                  1234445432   2


Q ss_pred             ccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccC
Q psy17903        107 DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTS  186 (355)
Q Consensus       107 ~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~s  186 (355)
                      ..+++.+++........+..         +++||+|||++|.|+..+.|+|+++||+|+.+++||++|+++++++|+|+|
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            46778888766554443322         267899999999999999999999999999999999999999999999999


Q ss_pred             CeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChH
Q psy17903        187 RCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNP  266 (355)
Q Consensus       187 r~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~  266 (355)
                      ||..+.|.+|+.+++.+|+..    .++.    ....++..++|++..+...++.-....  ..--.+.+.+.+.... .
T Consensus       158 RCq~~~~~~~~~~~~~~~L~~----~~~~----~~~~~l~l~~G~p~~A~~~~~~~~~~~--~~~~~~~l~~~l~~~~-~  226 (319)
T PRK06090        158 RCQQWVVTPPSTAQAMQWLKG----QGIT----VPAYALKLNMGSPLKTLAMMKEGGLEK--YHKLERQLVDALSGPV-S  226 (319)
T ss_pred             cceeEeCCCCCHHHHHHHHHH----cCCc----hHHHHHHHcCCCHHHHHHHhCCCcHHH--HHHHHHHHHHHHhcCc-c
Confidence            999999999999999999974    3433    234567889999999988764110000  0000112222222211 1


Q ss_pred             HHHHHHhc--C-C---HHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCC--CCh
Q psy17903        267 WIEKLLKV--D-S---FQVLEKYIEDLIL--EAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDG--ASE  336 (355)
Q Consensus       267 ~~~~l~~~--~-~---~~~~~~~l~~l~~--~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g--~~~  336 (355)
                      ....+...  + +   .+-+..++.|++.  .|....+....+...    ..++...+...++.+.++...+..+  .|.
T Consensus       227 ~~~~~a~~~~~~~~~~l~~L~~ll~Dll~~~~g~~~~~~~~~~~~l----~~~~~~~l~~~~~~l~~~~~~L~~~~~ln~  302 (319)
T PRK06090        227 DQLKCASLIAADPLTHLSWLWLLLTDAQKVHFGVQNEYYLPGSAAL----GPFTYSGLYVSTAKLERLKEQLQQFSGLNT  302 (319)
T ss_pred             cHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHhCCcchhhhHHHHHH----HhhCHHHHHHHHHHHHHHHHHHHhccccCH
Confidence            11222211  1 1   1123334555542  232222222222221    1346777777889999999999855  588


Q ss_pred             HHHHHHHHHHHHHHH
Q psy17903        337 YIQILDLGSIVIKAN  351 (355)
Q Consensus       337 ~~~l~~~~~~~~~~~  351 (355)
                      .+.++.++..+..++
T Consensus       303 elll~~lll~~~~~~  317 (319)
T PRK06090        303 ELLIMNWLIESREEL  317 (319)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            899999999887664

>PRK05907 hypothetical protein; Provisional

Probab=99.93  E-value=4.3e-23  Score=185.19  Aligned_cols=273  Identities=9%  Similarity=0.040  Sum_probs=218.9

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCC
Q psy17903         54 VSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK  133 (355)
Q Consensus        54 ~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~  133 (355)
                      ...+.+.+++|. |.|++||..-   ....+.+.+.+..+..    ..+++.+. ..+.   .+......+.++      
T Consensus         7 ~~~~~~~~~~~~-~~y~~~g~~~---~~~~~~l~~~~~~~~~----~~fdg~~~-~~~~---ii~~aetlPfFa------   68 (311)
T PRK05907          7 FKDFSQYYEEKR-PAVIVIGSSS---EEDKDIFIELLVSGRK----SEFDGQGL-LQQE---LLSWTEHFGLFA------   68 (311)
T ss_pred             HHHHHHHHhcCC-ceEEEecCCc---HHHHHHHHHHhCCCcc----ceecCCCC-CHHH---HHHHHhcCCccc------
Confidence            345566688888 8899999987   5566777666543221    23455442 3333   344444444443      


Q ss_pred             CCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE-EEecCCc---cccccccCCeeeE----EecCCCHHHHHHHH
Q psy17903        134 PCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC-LICNYVS---CIIQPLTSRCSKF----RFKPLAENTMLTRL  205 (355)
Q Consensus       134 ~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I-l~~~~~~---~l~~~l~sr~~~i----~~~~~~~~~~~~~l  205 (355)
                         ++|+|++.+.+.+.....+.|..+++++++.+++| ++.+ .+   ++.+.+.. +..+    .|.++.+.++..|+
T Consensus        69 ---erRlV~v~~~~~~~~~~~~~L~~Yl~np~~~~~liv~~~~-~d~~kkl~K~i~k-~~~v~~~~e~~~l~e~~L~~Wi  143 (311)
T PRK05907         69 ---SQETIGIYQAEKMSSSTQEFLIRYARNPNPHLTLFLFTTK-QECFSSLSKKLSS-ALCLSLFGEWFADRDKRIAQLL  143 (311)
T ss_pred             ---CeEEEEEecccccccccHHHHHHHHhCCCCCeEEEEEEec-ccHHHHHHHHHhh-cceeccccccCCCCHHHHHHHH
Confidence               78899999888777667889999999999875555 5542 22   23444543 4444    89999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhh-CCCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHH
Q psy17903        206 QYICEQESVMCDFKALETLVETS-GGDMRRAITCLQSCARLK-GGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVL  280 (355)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~-~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~  280 (355)
                      ..++++.|+.+++++++.++..+ ++|+..+.+++++++.|. +++.||.++|++++....+.++|+++++   ++..++
T Consensus       144 ~~~~~~~g~~i~~~a~~~L~~~~~~~nL~~l~~EleKL~ly~g~~~~It~e~V~~lv~~s~e~nIF~L~dai~~~~~~~A  223 (311)
T PRK05907        144 IQRAKELGISCSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKESLEASDIQSFVVKKEAASLWKLRDALLRRDRVEG  223 (311)
T ss_pred             HHHHHHcCCCcCHHHHHHHHHHccCCCHHHHHHHHHHHHHhcCCCCeECHHHHHHHhcCcccccHHHHHHHHHccCHHHH
Confidence            99999999999999999999999 699999999999999996 4678999999999999999999999999   999999


Q ss_pred             HHHHHHHHHc-CCCHHHHHHHHHHHHHh-------c-----CC----CCHHHHHHHHHHHHHHHHHhhCC-CChHHHHHH
Q psy17903        281 EKYIEDLILE-AYSATQLFDQFHDIVMS-------A-----SS----LSDKQKALILEKLAECNARLQDG-ASEYIQILD  342 (355)
Q Consensus       281 ~~~l~~l~~~-g~~~~~i~~~l~~~~~~-------~-----~~----~~~~~~~~i~~~l~~~~~~l~~g-~~~~~~l~~  342 (355)
                      .+++++|... |.+|..|+..+.+++..       .     ..    |+...+.+++..|.++|+.+|+| .++.+.||.
T Consensus       224 l~il~~Ll~~~ge~p~~ILall~rQfl~~~k~l~~~g~~~~~p~~vafs~~~L~~~~~~l~~~D~~iKtg~~d~~~~lEl  303 (311)
T PRK05907        224 HSLLRSLLSDMGEDPLGIIAFLRSQCLYGLRSIEEQSKERKHRIFVAYGKERLLQALNLLFYAESLIKNNVQDPILAVET  303 (311)
T ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHhcCCCCCCeEEEECHHHHHHHHHHHHHHHHHHhcCCCChHHHHHH
Confidence            9999999999 99999999999987731       0     12    67899999999999999999999 699999999


Q ss_pred             HHHHHHH
Q psy17903        343 LGSIVIK  349 (355)
Q Consensus       343 ~~~~~~~  349 (355)
                      |+.++|.
T Consensus       304 li~~~~~  310 (311)
T PRK05907        304 LVIRMTN  310 (311)
T ss_pred             HHHHHhc
Confidence            9999874

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=99.93  E-value=3.1e-23  Score=182.24  Aligned_cols=255  Identities=15%  Similarity=0.161  Sum_probs=183.6

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCc-----------cccceeeecCCC---ccchHHHHHH
Q psy17903         52 EVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-----------YRERILELNASD---DRGIQVIRDK  116 (355)
Q Consensus        52 ~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~-----------~~~~~~~~~~~~---~~~~~~i~~~  116 (355)
                      ...+.|.+.++.++.+| +||+||+|+||+.+|.++++.+.+..           ...++..+.+..   ..+++.+++.
T Consensus         4 ~~~~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l   83 (290)
T PRK05917          4 AAWEALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAI   83 (290)
T ss_pred             HHHHHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHH
Confidence            45678999999999999 99999999999999999999998732           123344443322   2578889888


Q ss_pred             HHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeeeEEecCC
Q psy17903        117 VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPL  196 (355)
Q Consensus       117 i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~  196 (355)
                      ...+...+..+         ++||+|||++|.|+.+++|+|+++||+|+.+++||++|+++++++|+++|||..+.|+++
T Consensus        84 ~~~~~~~p~e~---------~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~SRcq~~~~~~~  154 (290)
T PRK05917         84 KKQIWIHPYES---------PYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSRSLSIHIPME  154 (290)
T ss_pred             HHHHhhCccCC---------CceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHhcceEEEccch
Confidence            77776655433         678999999999999999999999999999999999999999999999999999999886


Q ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH--HHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHHHHHHHhc
Q psy17903        197 AENTMLTRLQYICEQESVMCDFKALETLVETSGGDMR--RAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV  274 (355)
Q Consensus       197 ~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r--~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~~~~l~~~  274 (355)
                                     +...++++.+..++..++|+++  .+...++.      .    .+......    .+.+..++  
T Consensus       155 ---------------~~~~i~~~~~~~l~~~~~g~~~~~~~~~~l~~------~----~~~~~~~~----re~~~~~L--  203 (290)
T PRK05917        155 ---------------EKTLVSKEDIAYLIGYAQGKESVTEVGQIVKG------S----ADTDKQVL----RDKTKAML--  203 (290)
T ss_pred             ---------------hccCCCHHHHHHHHHHhCCChhHHHHHHHHhc------c----hHHHHHHH----HHHHHHHH--
Confidence                           1124788888999999999996  22222221      0    01111111    22222222  


Q ss_pred             CCHHHHHHHHHHHHH--cCCCHH-HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHHHH
Q psy17903        275 DSFQVLEKYIEDLIL--EAYSAT-QLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKAN  351 (355)
Q Consensus       275 ~~~~~~~~~l~~l~~--~g~~~~-~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~~~  351 (355)
                         +-+..+++|++.  .|.+.. .+...+...+..   ++......+++.+.++.+.+..++|..+.++.++.++.+.+
T Consensus       204 ---~~ll~~~RD~l~~~~~~~~~~l~~~d~~~~l~~---~~~~~l~~~i~~i~~a~~~l~~N~N~~l~le~l~l~l~~~~  277 (290)
T PRK05917        204 ---EVLLQLFRDRFLLALKVPASALAYPDLLKEILT---LPVLPLEKVLSIIERAVQALDNSSSAPSCLEWVALQLWSLK  277 (290)
T ss_pred             ---HHHHHHHHHHHHHHcCCchhhhccHHHHHHHHh---cccccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Confidence               334555666542  333322 122222222222   12222678999999999999999999999999999998776


Q ss_pred             h
Q psy17903        352 K  352 (355)
Q Consensus       352 ~  352 (355)
                      +
T Consensus       278 ~  278 (290)
T PRK05917        278 N  278 (290)
T ss_pred             H
Confidence            5

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

Probab=99.93  E-value=1.8e-24  Score=183.78  Aligned_cols=211  Identities=18%  Similarity=0.217  Sum_probs=171.5

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhc-----CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      .......||+.|++++||+++++.|.-+++.     ....|+|||||||.||||+|..++++++.     ++-..+++-.
T Consensus        14 ~~~e~~lRP~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgv-----n~k~tsGp~l   88 (332)
T COG2255          14 MKIERSLRPKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGV-----NLKITSGPAL   88 (332)
T ss_pred             hhhhcccCcccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcC-----CeEecccccc
Confidence            3456678999999999999999999877743     34567999999999999999999999943     3333344333


Q ss_pred             cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc------------------CCcc
Q psy17903        108 RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET------------------KSTR  169 (355)
Q Consensus       108 ~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~------------------~~~~  169 (355)
                      ....++...+....               ++.|+||||+|++++...+.|+..||+..                  +...
T Consensus        89 eK~gDlaaiLt~Le---------------~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFT  153 (332)
T COG2255          89 EKPGDLAAILTNLE---------------EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFT  153 (332)
T ss_pred             cChhhHHHHHhcCC---------------cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCee
Confidence            33334443333321               44599999999999999999999998742                  2355


Q ss_pred             EEEEecCCccccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--
Q psy17903        170 FCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--  246 (355)
Q Consensus       170 ~Il~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--  246 (355)
                      +|.+|+....+..+|+.|+. ..++..++.+|+..++.+.+...++.++++++..+++++.|.+|-+.+.|.++-.++  
T Consensus       154 LIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i~~~~a~eIA~rSRGTPRIAnRLLrRVRDfa~V  233 (332)
T COG2255         154 LIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGIEIDEEAALEIARRSRGTPRIANRLLRRVRDFAQV  233 (332)
T ss_pred             EeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCCCCChHHHHHHHHhccCCcHHHHHHHHHHHHHHHH
Confidence            78889999999999999988 678889999999999999999999999999999999999999999999999998877  


Q ss_pred             -CCCCCCHHHHHHHhCCC
Q psy17903        247 -GGEGIVNEDVLEVTGVI  263 (355)
Q Consensus       247 -~~~~It~~~v~~~~~~~  263 (355)
                       +...|+.+...+++...
T Consensus       234 ~~~~~I~~~ia~~aL~~L  251 (332)
T COG2255         234 KGDGDIDRDIADKALKML  251 (332)
T ss_pred             hcCCcccHHHHHHHHHHh
Confidence             56778888777766543

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.92  E-value=1.6e-23  Score=190.53  Aligned_cols=201  Identities=18%  Similarity=0.206  Sum_probs=158.8

Q ss_pred             CCCCcccccHHHHHHHHHHHh-----cCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHH
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLS-----GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK  116 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~-----~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~  116 (355)
                      ++|++++|++++++.|..++.     .+..++++|+||||+|||++|+++++.+..     .+...++........+...
T Consensus         1 ~~~~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~-----~~~~~~~~~~~~~~~l~~~   75 (305)
T TIGR00635         1 KLLAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGV-----NLKITSGPALEKPGDLAAI   75 (305)
T ss_pred             CCHHHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCC-----CEEEeccchhcCchhHHHH
Confidence            479999999999999999886     344567999999999999999999999843     2333333322223333333


Q ss_pred             HHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc------------------CCccEEEEecCCc
Q psy17903        117 VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET------------------KSTRFCLICNYVS  178 (355)
Q Consensus       117 i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~------------------~~~~~Il~~~~~~  178 (355)
                      +....               ...++||||+|.++++.++.|+..+++..                  ...++|.+++...
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            22211               22499999999999998888988876433                  2356777888888


Q ss_pred             cccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---CCCCCCHH
Q psy17903        179 CIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK---GGEGIVNE  254 (355)
Q Consensus       179 ~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~---~~~~It~~  254 (355)
                      .+.+++++||. .+.|.+++.+++.+++++.+...++.++++++..+++.++|++|.+.+.++.+..++   +...|+.+
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            88899999995 679999999999999999999999999999999999999999999999998876554   44669999


Q ss_pred             HHHHHhCC
Q psy17903        255 DVLEVTGV  262 (355)
Q Consensus       255 ~v~~~~~~  262 (355)
                      .+.+++..
T Consensus       221 ~v~~~l~~  228 (305)
T TIGR00635       221 IALKALEM  228 (305)
T ss_pred             HHHHHHHH
Confidence            99887754

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.

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.92  E-value=2.2e-24  Score=182.05  Aligned_cols=165  Identities=28%  Similarity=0.434  Sum_probs=136.9

Q ss_pred             HHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCC---------------------ccccceeeecCCCccchHH
Q psy17903         55 SVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGD---------------------MYRERILELNASDDRGIQV  112 (355)
Q Consensus        55 ~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~---------------------~~~~~~~~~~~~~~~~~~~  112 (355)
                      +.|.+.+..++.+| +||+||+|+|||++++.+++.+.+.                     ..+..++..+. ...+++.
T Consensus         2 ~~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~-~~~~~~~   80 (188)
T TIGR00678         2 QQLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEG-QSIKVDQ   80 (188)
T ss_pred             hHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEecccc-CcCCHHH
Confidence            46788889999988 9999999999999999999999763                     11112222222 2356677


Q ss_pred             HHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeeeEE
Q psy17903        113 IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFR  192 (355)
Q Consensus       113 i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~  192 (355)
                      ++..+..+...+..+         ++++|||||+|.++.++++.|+++||+++.+++||+++++..++.+++++||..++
T Consensus        81 i~~i~~~~~~~~~~~---------~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~  151 (188)
T TIGR00678        81 VRELVEFLSRTPQES---------GRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLP  151 (188)
T ss_pred             HHHHHHHHccCcccC---------CeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEee
Confidence            877776655443322         67899999999999999999999999999999999999988899999999999999


Q ss_pred             ecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHH
Q psy17903        193 FKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRA  235 (355)
Q Consensus       193 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~  235 (355)
                      |.+++.+++.+|+.+.    |  +++++++.++..++||+|++
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.

>PRK07452 DNA polymerase III subunit delta; Validated

Probab=99.92  E-value=5.7e-23  Score=188.40  Aligned_cols=273  Identities=16%  Similarity=0.136  Sum_probs=216.2

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCCc-cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeC
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFGDM-YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDE  145 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe  145 (355)
                      |.++|||+...-+...++.+.+.+..+. ..+++..+++.+...   +...+......+..         +++|+|+|++
T Consensus         2 ~~yll~G~e~~l~~~~~~~l~~~~~~~~~~~fn~~~~d~~~~~~---~~~~~~~~~t~pff---------~~~rlVvv~~   69 (326)
T PRK07452          2 PIYLYWGEDDFALNQAIEKLIDQVVDPEWKSFNYSRLDGDDADQ---AIQALNEAMTPPFG---------SGGRLVWLKN   69 (326)
T ss_pred             CEEEEEcChHHHHHHHHHHHHHHhCCchhhhcchhhcCCccchH---HHHHHHHhcCCCCC---------CCceEEEEeC
Confidence            4589999999888888888888765432 245667777655322   23333332222222         2678999999


Q ss_pred             CCCC---CHHHHHHHHHHhhhccCCccEEEEec-CCc---cccccccCCeeeEEecCC---CHHHHHHHHHHHHHHcCCC
Q psy17903        146 ADSM---THAAQAALRRTMEKETKSTRFCLICN-YVS---CIIQPLTSRCSKFRFKPL---AENTMLTRLQYICEQESVM  215 (355)
Q Consensus       146 ~d~l---~~~~~~~Ll~~le~~~~~~~~Il~~~-~~~---~l~~~l~sr~~~i~~~~~---~~~~~~~~l~~~~~~~~~~  215 (355)
                      ++.+   +.+..+.|.++++++++++++|+++. ..+   +..+.+++.+..+.|.++   +.+++..|++..+++.|+.
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            8654   55677899999999888888888643 332   345667777888888765   4577999999999999999


Q ss_pred             CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHc
Q psy17903        216 CDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILE  290 (355)
Q Consensus       216 ~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~  290 (355)
                      +++++++.|+..+++|++.+.+++++++.|.  +++.||.++|++++... ...+++++++   ++...+...+++++..
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  46689999999999876 5789999998   9999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHh------------------------------------cCCCCHHHHHHHHHHHHHHHHHhhCCC
Q psy17903        291 AYSATQLFDQFHDIVMS------------------------------------ASSLSDKQKALILEKLAECNARLQDGA  334 (355)
Q Consensus       291 g~~~~~i~~~l~~~~~~------------------------------------~~~~~~~~~~~i~~~l~~~~~~l~~g~  334 (355)
                      |.++..|+..+.++++.                                    .++++...+.+++..|.++|+.+|+|.
T Consensus       229 g~~p~~il~~l~~~~r~l~~~k~~~~~G~~~~~~ia~~lgi~~p~~~~~~~~~~~~~s~~~L~~~l~~L~~~D~~iK~g~  308 (326)
T PRK07452        229 NEPALRIVATLTGQFRTWLWVKLLVESGERDVKVIAKAAGIGNPKRIYFLRKEVQGLSSQQLLKLLPLLLDLEASLKQGA  308 (326)
T ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHcCCCcHHHHHHHhCCCCcHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCC
Confidence            99888777766544331                                    245777778889999999999999998


Q ss_pred             ChHHHHHHHHHHHHHHHh
Q psy17903        335 SEYIQILDLGSIVIKANK  352 (355)
Q Consensus       335 ~~~~~l~~~~~~~~~~~~  352 (355)
                      ++...||.++.++|+.++
T Consensus       309 ~~~~~le~~i~~~~~~~~  326 (326)
T PRK07452        309 NPINALQDKLIELCQLLQ  326 (326)
T ss_pred             ChHHHHHHHHHHHHHhhC
Confidence            888899999999998764

>PRK05629 hypothetical protein; Validated

Probab=99.92  E-value=1.9e-22  Score=183.85  Aligned_cols=267  Identities=10%  Similarity=0.029  Sum_probs=219.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC-CccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA  146 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~-~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~  146 (355)
                      .|||||+.-.-.......+.+.+.. +...+++..+++.+.. ...+.+    ....+.++         ++|+|+|++.
T Consensus         8 vyL~~G~e~~l~~~~~~~i~~~~~~~~~~~~n~~~~d~~e~~-~~~l~~----~~t~slF~---------~~rlV~v~~~   73 (318)
T PRK05629          8 VHLVLGDDEFLAERARLNIVHDIRSSMADSLQVTTLKASEVS-QGELLD----ALSPSLFG---------EDRVIVLTNM   73 (318)
T ss_pred             eEEEEeCHHHHHHHHHHHHHHHHhccCCCCCceEEeecccCC-HHHHHH----hhCcCccC---------CceEEEEeCh
Confidence            3999999866655565666666544 3335688888877643 333332    22233332         6789999998


Q ss_pred             CCCCHHHHHHHHHHhhhccCCccEEEEecCC---ccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHH
Q psy17903        147 DSMTHAAQAALRRTMEKETKSTRFCLICNYV---SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALET  223 (355)
Q Consensus       147 d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~---~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  223 (355)
                      +.......+.++.++.++++.+++|+++...   .++.+.++..+..++|.++...++..|+.+++++.|+.+++++++.
T Consensus        74 ~~~~~~~~~~l~~~l~~~~~~~~Lil~~~~~~~~kk~~K~l~k~~~~ve~~~~~~~~l~~wi~~~~~~~g~~i~~~A~~~  153 (318)
T PRK05629         74 EQAGKEPTDLALSAAVDPSPGIYLIIMHSGGGRTKSMVPKLEKIAVVHEAAKLKPRERPGWVTQEFKNHGVRPTPDVVHA  153 (318)
T ss_pred             HhcChhHHHHHHHHHhCCCCCeEEEEEcCCcchhhHHHHHHHhcceEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            8876666788999999998888888877543   2355678888999999999999999999999999999999999999


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHH
Q psy17903        224 LVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQ  300 (355)
Q Consensus       224 l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~  300 (355)
                      |+..+++|+..+.+++++++.+. ++.||.++|++++......++|+++++   ++..++..++++++..|.+|..|+..
T Consensus       154 L~~~~g~dl~~l~~EleKL~~~~-~~~It~e~V~~~v~~~~~~~iF~l~dAv~~g~~~~Al~~l~~l~~~g~~pi~il~~  232 (318)
T PRK05629        154 LLEGVGSDLRELASAISQLVEDT-QGNVTVEKVRAYYVGVAEVSGFDIADLACAGQVSKAVASTRRALQLGVSPVALAAA  232 (318)
T ss_pred             HHHHHCccHHHHHHHHHHHHhcC-CCCcCHHHHHHHhCCCccchHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHH
Confidence            99999999999999999998764 568999999999999999999999999   99999999999999999999988777


Q ss_pred             HHHHHH---------------------------------hcCCCCHHHHHHHHHHHHHHHHHhhCC-CChHHHHHHHHHH
Q psy17903        301 FHDIVM---------------------------------SASSLSDKQKALILEKLAECNARLQDG-ASEYIQILDLGSI  346 (355)
Q Consensus       301 l~~~~~---------------------------------~~~~~~~~~~~~i~~~l~~~~~~l~~g-~~~~~~l~~~~~~  346 (355)
                      +.++++                                 +.+.++...+.+++..|.++|+.+|+| .++.+.||.+|.+
T Consensus       233 l~~~~r~l~~l~~~~~~~~~~~ia~~l~i~p~~~~~~~~~ar~~s~~~L~~~l~~l~~~D~~~K~~~~d~~~~lE~~i~~  312 (318)
T PRK05629        233 LSMKVGQIARLYSTRGRIDSFELAKELGMPPFVVEKTAKVARNWSGDAVSEAVILMADLDAAVKGQGGDPEFAIESAVRR  312 (318)
T ss_pred             HHHHHHHHHHHHhhcCCCCHHHHHHHcCCChHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHH
Confidence            654422                                 136789999999999999999999986 6999999999999


Q ss_pred             HHH
Q psy17903        347 VIK  349 (355)
Q Consensus       347 ~~~  349 (355)
                      +.+
T Consensus       313 ~~~  315 (318)
T PRK05629        313 VAE  315 (318)
T ss_pred             HHh
Confidence            976

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=99.92  E-value=3.5e-22  Score=177.96  Aligned_cols=274  Identities=11%  Similarity=0.122  Sum_probs=187.5

Q ss_pred             HHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCC--------ccccceeeecC-CCccchHHHHHHHHHH
Q psy17903         51 QEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGD--------MYRERILELNA-SDDRGIQVIRDKVKTF  120 (355)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~--------~~~~~~~~~~~-~~~~~~~~i~~~i~~~  120 (355)
                      ..++..+.+.+++++.+| |||+|++|+||+.++..+++.+.|.        ..+.++..++. ....+++.+++.+..+
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 9999999999999999999999652        12224445552 2336678888777766


Q ss_pred             HHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeeeEEecCCCHHH
Q psy17903        121 AQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENT  200 (355)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~  200 (355)
                      ...+...        +++||+|||+++.++..++++|+++||+||.+++||++++.+.++.++++|||..++|.+++.++
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            5443221        16789999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCC--ChHHHHHHHhc--C-
Q psy17903        201 MLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVI--PNPWIEKLLKV--D-  275 (355)
Q Consensus       201 ~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~--~~~~~~~l~~~--~-  275 (355)
                      +..|+...      .++++....++..++ ++++++..+.....      -....+.+.+...  ....+....+.  + 
T Consensus       154 l~~~l~~~------~~~~~~a~~~a~~~~-~~~~a~~~~~~~~~------~~~~~~~~~l~~~~~~~~~l~~~~~~~~~k  220 (299)
T PRK07132        154 ILAKLLSK------NKEKEYNWFYAYIFS-NFEQAEKYINKESE------NLLKKFEEALNKSLKEKYELILFLNKKLTK  220 (299)
T ss_pred             HHHHHHHc------CCChhHHHHHHHHcC-CHHHHHHHHhcCCH------HHHHHHHHHHHHhhhhHHHHHHHHHhhcCh
Confidence            99998742      367777777777766 59988887642110      0000111111000  00111111111  1 


Q ss_pred             -C----HHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHH
Q psy17903        276 -S----FQVLEKYIEDLIL--EAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVI  348 (355)
Q Consensus       276 -~----~~~~~~~l~~l~~--~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~  348 (355)
                       +    ..-+.-+.++++.  .+.+...+... ...+.... ++...   +++.+.++..+|..++|..+++|.|+.++.
T Consensus       221 e~~~~ll~~l~~~~rd~l~~~~~~~~~~i~~~-~~~i~~~~-~s~~~---li~~i~~~~~~L~~N~N~~l~~e~lll~l~  295 (299)
T PRK07132        221 ENALFLLKLLKFFFKSIFANKKKKNPKNIKVA-FSKKKKFK-IEFFE---LITIIDEFLNSLETNENFNLQKQAFLVKIY  295 (299)
T ss_pred             hhHHHHHHHHHHHHHHHHHHhccCChHhHhhH-HHHHHHHh-cCHHH---HHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence             0    1222334444432  23333333333 23222221 44433   488999999999999999999999999987


Q ss_pred             HH
Q psy17903        349 KA  350 (355)
Q Consensus       349 ~~  350 (355)
                      +.
T Consensus       296 e~  297 (299)
T PRK07132        296 EI  297 (299)
T ss_pred             Hh
Confidence            54

>KOG1969|consensus

Probab=99.92  E-value=1.1e-22  Score=192.15  Aligned_cols=217  Identities=27%  Similarity=0.441  Sum_probs=174.2

Q ss_pred             CCCccccccCCCCCCcccccHHHHHHHHHHHhc--------------------------------CCCCe--EEEECCCC
Q psy17903         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG--------------------------------ADLPH--FLFYGPPG   76 (355)
Q Consensus        31 ~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~--------------------------------~~~~~--~ll~Gp~G   76 (355)
                      .+.+|++||+|+.|-+++|.+.+-+.+-.|++.                                ++++.  +||+||||
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            344999999999999999999888777777631                                12233  99999999


Q ss_pred             CCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHH
Q psy17903         77 TGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAA  156 (355)
Q Consensus        77 ~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~  156 (355)
                      .||||+|+.+|++.     .+.++++|+++.+....+.+.+........... .+++|    ..+||||||.-...+.+.
T Consensus       337 lGKTTLAHViAkqa-----GYsVvEINASDeRt~~~v~~kI~~avq~~s~l~-adsrP----~CLViDEIDGa~~~~Vdv  406 (877)
T KOG1969|consen  337 LGKTTLAHVIAKQA-----GYSVVEINASDERTAPMVKEKIENAVQNHSVLD-ADSRP----VCLVIDEIDGAPRAAVDV  406 (877)
T ss_pred             CChhHHHHHHHHhc-----CceEEEecccccccHHHHHHHHHHHHhhccccc-cCCCc----ceEEEecccCCcHHHHHH
Confidence            99999999999997     568999999999999999999887665432211 12333    389999999999888888


Q ss_pred             HHHHhhh------ccC---------------CccEEEEecCCc-cccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCC
Q psy17903        157 LRRTMEK------ETK---------------STRFCLICNYVS-CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESV  214 (355)
Q Consensus       157 Ll~~le~------~~~---------------~~~~Il~~~~~~-~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~  214 (355)
                      ++..++.      ++.               .--+|++||+.. ..+.+|+--|.++.|.+|+..-+.+.|+.+|.++|+
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            8888862      111               123677888754 456778888999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCC--CCCCHHHHH
Q psy17903        215 MCDFKALETLVETSGGDMRRAITCLQSCARLKGG--EGIVNEDVL  257 (355)
Q Consensus       215 ~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~--~~It~~~v~  257 (355)
                      .++..++..|++.+++|+|..+|.||.++.....  ..|...++-
T Consensus       487 r~d~~aL~~L~el~~~DIRsCINtLQfLa~~~~r~ds~i~~~~i~  531 (877)
T KOG1969|consen  487 RADSKALNALCELTQNDIRSCINTLQFLASNVDRRDSSISVKLIC  531 (877)
T ss_pred             CCCHHHHHHHHHHhcchHHHHHHHHHHHHHhcccccccchhhhhh
Confidence            9999999999999999999999999999886522  235544444

>PRK07914 hypothetical protein; Reviewed

Probab=99.92  E-value=4.2e-22  Score=181.63  Aligned_cols=270  Identities=12%  Similarity=0.052  Sum_probs=222.4

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcC--CccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEe
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFG--DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILD  144 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~--~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiD  144 (355)
                      |-|+|||+.-.........+.+....  +...+++..+++.+... ..    +......+.++         ++|+|+|+
T Consensus         6 ~iYll~G~E~~l~~~~~~~i~~~~~~~~~~~~~n~~~~d~~~~~~-~~----i~~~~t~plF~---------~rRlV~v~   71 (320)
T PRK07914          6 PLHLVLGDEELLVERAVAAVLRSARQRAGTADVPVSRMRAGDVST-YE----LAELLSPSLFA---------EERVVVLE   71 (320)
T ss_pred             ceEEEEecHHHHHHHHHHHHHHHHhcCcCCCCCceEEeccccCCH-HH----HHHhcCCCCCC---------CceEEEEe
Confidence            34999999977777777788776543  33466788888866432 22    23333333332         77899999


Q ss_pred             CCCCCCHHHHHHHHHHhhhccCCccEEEEecCC---ccccccccCCe-eeEEecCC-CHHHHHHHHHHHHHHcCCCCCHH
Q psy17903        145 EADSMTHAAQAALRRTMEKETKSTRFCLICNYV---SCIIQPLTSRC-SKFRFKPL-AENTMLTRLQYICEQESVMCDFK  219 (355)
Q Consensus       145 e~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~---~~l~~~l~sr~-~~i~~~~~-~~~~~~~~l~~~~~~~~~~~~~~  219 (355)
                      +...+..+..+.|..+++++++.+++|++++..   .++.++++..+ ..+.|.++ +..++..|+..++++.|+.++++
T Consensus        72 ~~~~~~~~~~~~l~~~l~~~~~~t~lil~~~~~~~~kk~~K~L~k~g~~~v~~~~~~~~~~l~~wi~~~a~~~g~~i~~~  151 (320)
T PRK07914         72 AAAEAGKDAAALILSAAADLPPGTVLVVVHSGGGRAKALANQLRKLGAEVHPCARITKAAERADFVRKEFRSLRVKVDDD  151 (320)
T ss_pred             ChHhccHHHHHHHHHHHhCCCCCeEEEEEecCCcchhHHHHHHHHCCCEEEecCCCCCHHHHHHHHHHHHHHcCCCCCHH
Confidence            987777667788999999999888888876432   23456777665 48899998 99999999999999999999999


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHH
Q psy17903        220 ALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ  296 (355)
Q Consensus       220 ~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~  296 (355)
                      +++.|++.+++|+..+.+++++++.+. ++.||.++|++++......++|+++++   ++..++..++++|+..|.++..
T Consensus       152 A~~~L~~~~g~dl~~l~~EleKL~~~~-~~~It~e~V~~~v~~~~~~~vf~L~dAi~~g~~~~A~~~l~~L~~~ge~p~~  230 (320)
T PRK07914        152 TVTALLDAVGSDLRELASACSQLVADT-GGAVDAAAVRRYHSGKAEVKGFDIADKAVAGDVAGAAEALRWAMMRGEPHVV  230 (320)
T ss_pred             HHHHHHHHHCccHHHHHHHHHHHhcCC-CCCcCHHHHHHHcCCCeechHHHHHHHHHCCCHHHHHHHHHHHHHCCCchHH
Confidence            999999999999999999999987654 468999999999999999999999998   9999999999999999999988


Q ss_pred             HHHHHHHHHHh-------------------------------cCCCCHHHHHHHHHHHHHHHHHhhCC-CChHHHHHHHH
Q psy17903        297 LFDQFHDIVMS-------------------------------ASSLSDKQKALILEKLAECNARLQDG-ASEYIQILDLG  344 (355)
Q Consensus       297 i~~~l~~~~~~-------------------------------~~~~~~~~~~~i~~~l~~~~~~l~~g-~~~~~~l~~~~  344 (355)
                      ++..+.++++.                               .+.++...+.+++..|.++|..+|+| .++.+.||.++
T Consensus       231 il~~l~~~~r~L~~~k~~~~~~~~i~~~l~i~p~~~~~~~~~~~~~s~~~L~~~l~~l~~~D~~lK~~~~~~~~~lE~~i  310 (320)
T PRK07914        231 LADALAEAVHTIARVGPLSGDPYRLAGELGMPPWRVQKAQKQARRWSRDTVATAMRVVAALNADVKGAAADADYALESAV  310 (320)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCHHHHHHHcCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcCCCChHHHHHHHH
Confidence            88776655442                               36899999999999999999999998 79999999999


Q ss_pred             HHHHHHH
Q psy17903        345 SIVIKAN  351 (355)
Q Consensus       345 ~~~~~~~  351 (355)
                      .++|...
T Consensus       311 ~~~~~~~  317 (320)
T PRK07914        311 RRVAELV  317 (320)
T ss_pred             HHHHHHh
Confidence            9998743

>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=99.90  E-value=2.7e-23  Score=170.15  Aligned_cols=140  Identities=33%  Similarity=0.576  Sum_probs=110.2

Q ss_pred             ccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc------------------ccceeeecCCCc--
Q psy17903         49 EQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY------------------RERILELNASDD--  107 (355)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~------------------~~~~~~~~~~~~--  107 (355)
                      ||+.+++.|.+.+..++.+| +||+||+|+||+++|.++++.+.+...                  ..++..++....  
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            89999999999999999999 999999999999999999999987432                  235566665543  


Q ss_pred             -cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccC
Q psy17903        108 -RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTS  186 (355)
Q Consensus       108 -~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~s  186 (355)
                       ..++.+++....+...+..         +++||+||||+|.|+.+++++|+++||+|+.+++||++|++..+++++++|
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             6778888666654433322         267899999999999999999999999999999999999999999999999


Q ss_pred             CeeeEEecCCC
Q psy17903        187 RCSKFRFKPLA  197 (355)
Q Consensus       187 r~~~i~~~~~~  197 (355)
                      ||..+.|++++
T Consensus       152 Rc~~i~~~~ls  162 (162)
T PF13177_consen  152 RCQVIRFRPLS  162 (162)
T ss_dssp             TSEEEEE----
T ss_pred             hceEEecCCCC
Confidence            99999998864

...

>PRK06585 holA DNA polymerase III subunit delta; Reviewed

Probab=99.90  E-value=5.8e-21  Score=176.32  Aligned_cols=282  Identities=12%  Similarity=0.089  Sum_probs=219.9

Q ss_pred             HHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-cccceeeecCCCcc-chHHHHHHHHHHHHhhccCCCCCC
Q psy17903         57 LKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-YRERILELNASDDR-GIQVIRDKVKTFAQQTASGFNQDG  132 (355)
Q Consensus        57 l~~~l~~--~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~-~~~~i~~~i~~~~~~~~~~~~~~~  132 (355)
                      +...+..  +..|-|+|||+........++.+.+.+.... ..+++..+++.+.. ...   +.+......+.++     
T Consensus         9 ~~~~l~~~~~~~~~yll~G~e~~li~~~~~~l~~~~~~~~~~~fn~~~~~~~e~~~~~~---~~~~~~~t~slF~-----   80 (343)
T PRK06585          9 VDRFLARPDPKIRAVLLYGPDRGLVRERARRLAKSVVPDLDDPFAVVRLDGDDLDADPA---RLEDEANAISLFG-----   80 (343)
T ss_pred             HHHHHhCCCCCCeEEEEeCCchHHHHHHHHHHHHHhcCCCCCCcceeeccHHHhhcCHH---HHHHHHhCCCCCC-----
Confidence            3444443  3445599999999888888888888875422 23456666654321 123   3333433344433     


Q ss_pred             CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCc---ccccccc--CCeeeEEecCCCHHHHHHHHHH
Q psy17903        133 KPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVS---CIIQPLT--SRCSKFRFKPLAENTMLTRLQY  207 (355)
Q Consensus       133 ~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~---~l~~~l~--sr~~~i~~~~~~~~~~~~~l~~  207 (355)
                          ++++|+|++.+   ....+.|..+++.++..+++|+.+...+   ++.+.+.  ..+..+.|.+++..++..|+..
T Consensus        81 ----~~rlViv~~~~---~~~~~~L~~~l~~~~~~~~lil~~~~~~~~~kl~k~~~~~~~~~~v~~~~~~~~~l~~~i~~  153 (343)
T PRK06585         81 ----GRRLIWVRAGS---KNLAAALKALLESPPGDAFIVIEAGDLKKGSSLRKLFETAAYAAAIPCYADDERDLARLIDD  153 (343)
T ss_pred             ----CceEEEEECCc---hhHHHHHHHHHcCCCCCcEEEEEcCCCCcccHHHHHHhcCCCeeEEecCCCCHHHHHHHHHH
Confidence                67899999664   3445678889998888888887765432   2333332  3355789999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhC-CCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHH
Q psy17903        208 ICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKG-GEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKY  283 (355)
Q Consensus       208 ~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~-~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~  283 (355)
                      .+++.|+.+++++++.|++.++||++.+.++|++++.|.+ ++.||.++|.+++.......+++++++   ++..++..+
T Consensus       154 ~~~~~g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~It~edV~~lv~~~~e~~if~l~dai~~~~~~~a~~~  233 (343)
T PRK06585        154 ELAEAGLRITPDARALLVALLGGDRLASRNEIEKLALYAHGKGEITLDDVRAVVGDASALSLDDAADAALAGDLAAFERA  233 (343)
T ss_pred             HHHHCCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHhCCcccccHHHHHHHHHCCCHHHHHHH
Confidence            9999999999999999999999999999999999999974 468999999999999999999999998   999999999


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHh------------------------------------cCCCCHHHHHHHHHHHHHHH
Q psy17903        284 IEDLILEAYSATQLFDQFHDIVMS------------------------------------ASSLSDKQKALILEKLAECN  327 (355)
Q Consensus       284 l~~l~~~g~~~~~i~~~l~~~~~~------------------------------------~~~~~~~~~~~i~~~l~~~~  327 (355)
                      +..++..|.+|..|+..+.++++.                                    .+.++...+.+++..|.++|
T Consensus       234 l~~ll~~g~~p~~il~~L~~~~r~L~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~a~~~s~~~L~~~l~~l~~~d  313 (343)
T PRK06585        234 LDRALAEGTAPVLILRAALRHFQRLHIVRLKVENGKSAEQAIASLRPPVFFKRKPDFEKALRRWSLERLLRALERLQAAE  313 (343)
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhCCCCCcchHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence            999999999999888877765552                                    24577778888999999999


Q ss_pred             HHhhCC-CChHHHHHHHHHHHHHHHhh
Q psy17903        328 ARLQDG-ASEYIQILDLGSIVIKANKT  353 (355)
Q Consensus       328 ~~l~~g-~~~~~~l~~~~~~~~~~~~~  353 (355)
                      ..+|+| .++.+.+|.++.++|..-++
T Consensus       314 ~~lK~~~~~~~~~le~~i~~~~~~~~~  340 (343)
T PRK06585        314 LDCRRNPALADAIARRVLLSIAVRARR  340 (343)
T ss_pred             HHHhcCCCcHHHHHHHHHHHHHHHHHh
Confidence            999998 58889999999999976543

>PRK08487 DNA polymerase III subunit delta; Validated

Probab=99.90  E-value=1e-20  Score=173.05  Aligned_cols=278  Identities=18%  Similarity=0.174  Sum_probs=216.5

Q ss_pred             HHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCC
Q psy17903         55 SVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK  133 (355)
Q Consensus        55 ~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~  133 (355)
                      ..+...++++..++ |+|||+.-.-....+..+.+.+..+....+ +.++.   ...+   +.+......+.++      
T Consensus         4 ~~l~~~lk~~~l~~vyll~GeE~yli~~~~~~i~~~~~~~~~~~~-~~~~~---~~~~---~i~~~~~t~plF~------   70 (328)
T PRK08487          4 KELDTLLKQNKLPNAFLLYGEDEFQIELYAKKISEKFKPENELKT-LYFDE---YDFE---QAKDFLSQSSLFG------   70 (328)
T ss_pred             HHHHHHHhcCCCCceEEEecCchhHHHHHHHHHHHHhcCchHhhh-hchhh---ccHH---HHHHHHhcccccC------
Confidence            45677788887766 999999988888888888877654322222 33332   2233   3344444444443      


Q ss_pred             CCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCcc---ccccccCC--eeeEEecCCCHHHHHHHHHHH
Q psy17903        134 PCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSC---IIQPLTSR--CSKFRFKPLAENTMLTRLQYI  208 (355)
Q Consensus       134 ~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~---l~~~l~sr--~~~i~~~~~~~~~~~~~l~~~  208 (355)
                         ++|+|+|.+...+.......|..++++++..+++|++.....+   +.+.+...  +..+.|.+++..++..|+...
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               7789999998777776778999999988877777765543322   22333332  568999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHH
Q psy17903        209 CEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIE  285 (355)
Q Consensus       209 ~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~  285 (355)
                      +++.|+.+++++++.|+..+++|+..+.++|++++.|.  +.||.++|.+++....+.++++++++   ++  .+..+++
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  37999999999999999999999998   55  5778898


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHh-----------------------------------cCCCCHHHHHHHHHHHHHHHHHh
Q psy17903        286 DLILEAYSATQLFDQFHDIVMS-----------------------------------ASSLSDKQKALILEKLAECNARL  330 (355)
Q Consensus       286 ~l~~~g~~~~~i~~~l~~~~~~-----------------------------------~~~~~~~~~~~i~~~l~~~~~~l  330 (355)
                      +|...|.+|..|+..+.++++.                                   .++++...+.+++..|.++|+.+
T Consensus       224 ~L~~~g~~pi~Il~~L~r~~~~L~~i~~~~~~~~~~~~a~~~~~~~~~f~~~~~~~q~~~~s~~~L~~~l~~L~e~D~~l  303 (328)
T PRK08487        224 KLLEEGFNEIALLNSLERFFYQLFLFFAYIKINGKPDAKEILGYKPPKQIAENLAKQAIKIKEAQYKEIFELLLEWELEL  303 (328)
T ss_pred             HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHcCCcCHHHHhCCCCCHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHH
Confidence            9988899988887766654431                                   34677888889999999999999


Q ss_pred             hCC--CChHHHHHHHHHHHHHHHh
Q psy17903        331 QDG--ASEYIQILDLGSIVIKANK  352 (355)
Q Consensus       331 ~~g--~~~~~~l~~~~~~~~~~~~  352 (355)
                      |+|  .+..+.+|.+++++.+.+.
T Consensus       304 K~g~~~~~~~~~~~~~~~~~~~~~  327 (328)
T PRK08487        304 KTGQKIDKNLFLLSTLIKIQKILN  327 (328)
T ss_pred             HcCCCccHHHHHHHHHHHHHHHhc
Confidence            999  3667899999999987764

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=99.90  E-value=8.1e-21  Score=171.92  Aligned_cols=273  Identities=18%  Similarity=0.203  Sum_probs=182.2

Q ss_pred             cHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc--------------------ccceeeecCCC--
Q psy17903         50 QQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY--------------------RERILELNASD--  106 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~--------------------~~~~~~~~~~~--  106 (355)
                      +....+.+...  .++.+| +||+||+|+||+++|+.+++.+.+...                    ..+++++++..  
T Consensus         6 ~~~~w~~l~~~--~~r~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~   83 (325)
T PRK08699          6 HQEQWRQIAEH--WERRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDE   83 (325)
T ss_pred             cHHHHHHHHHh--cCCcceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEeccccc
Confidence            44445555544  468888 999999999999999999999986321                    13466665521  


Q ss_pred             --------ccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCc
Q psy17903        107 --------DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVS  178 (355)
Q Consensus       107 --------~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~  178 (355)
                              ..+++.+++........+..+         ++||++||+++.|+...++.|++.||+++.++.||++|+++.
T Consensus        84 ~~~g~~~~~I~id~iR~l~~~~~~~p~~~---------~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~  154 (325)
T PRK08699         84 PENGRKLLQIKIDAVREIIDNVYLTSVRG---------GLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAAD  154 (325)
T ss_pred             ccccccCCCcCHHHHHHHHHHHhhCcccC---------CceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChH
Confidence                    256888998766655443332         678999999999999999999999999988899999999999


Q ss_pred             cccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHH
Q psy17903        179 CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLE  258 (355)
Q Consensus       179 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~  258 (355)
                      .+.++++|||..+.|.+++.+++..||..    .+..  ... ..+ ..++|.+..+... +...        -.+.+.+
T Consensus       155 ~ll~ti~SRc~~~~~~~~~~~~~~~~L~~----~~~~--~~~-~~l-~~~~g~p~~~~~~-~~~~--------~r~~~~~  217 (325)
T PRK08699        155 KVLPTIKSRCRKMVLPAPSHEEALAYLRE----RGVA--EPE-ERL-AFHSGAPLFDEEP-ELRA--------LRIKLLD  217 (325)
T ss_pred             hChHHHHHHhhhhcCCCCCHHHHHHHHHh----cCCC--cHH-HHH-HHhCCChhhhcCc-hHHH--------HHHHHHH
Confidence            99999999999999999999999999974    2432  221 122 3567766433110 0000        0011111


Q ss_pred             HhCCCChHHHHHHHhc--C---C----HHHHHHHHHHHHHc--CCCH---HHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Q psy17903        259 VTGVIPNPWIEKLLKV--D---S----FQVLEKYIEDLILE--AYSA---TQLFDQFHDIVMSASSLSDKQKALILEKLA  324 (355)
Q Consensus       259 ~~~~~~~~~~~~l~~~--~---~----~~~~~~~l~~l~~~--g~~~---~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~  324 (355)
                      .+.......+..+.+.  +   +    .+-+..+++|++..  |...   .+....+..   ....++...+..+++.+.
T Consensus       218 ~l~~~~~~~~l~~~~~~~~~k~~~~~~l~~l~~~~rDll~~~~~~~~~~~~d~~~~l~~---~a~~~~~~~L~~~~~~l~  294 (325)
T PRK08699        218 ILAEPRLLKILDYAALFDKEKLPLAVFVGWMQKWLVDLGLCLQHMKPVYYPAYEDRLLQ---TASGFRPRNVFAAEDMLK  294 (325)
T ss_pred             HHHccChhhHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHcCCCcccCHhHHHHHHH---HHHhcCHHHHHHHHHHHH
Confidence            1212112222222211  1   1    23344556665432  2111   111222222   223578888999999999


Q ss_pred             HHHHHhhCCCChHHHHHHHHHHHHHHHhh
Q psy17903        325 ECNARLQDGASEYIQILDLGSIVIKANKT  353 (355)
Q Consensus       325 ~~~~~l~~g~~~~~~l~~~~~~~~~~~~~  353 (355)
                      ++...+..+.|..+.+|.++.++...+++
T Consensus       295 ~~~~~l~~n~n~~L~le~lll~~~~~~~~  323 (325)
T PRK08699        295 QLAPYGFHTLNVKMQIEHLLINYLELKKE  323 (325)
T ss_pred             HHHHHhhCCCCHHHHHHHHHHHHHHHhcc
Confidence            99999999999999999999999877653

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.89  E-value=1e-21  Score=171.02  Aligned_cols=212  Identities=14%  Similarity=0.184  Sum_probs=153.5

Q ss_pred             CCCccccccCCC-CCCccc--ccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         31 KPVPWVEKYRPK-TIDDVI--EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        31 ~~~~~~~k~~p~-~~~~~v--g~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      .|.++--.+.|. +|++++  ++..++..+.++......++++||||+|+|||++++++++.+........++..+....
T Consensus         7 ~Ql~l~~~~~~~~~fd~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~   86 (235)
T PRK08084          7 AQLSLPLYLPDDETFASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAW   86 (235)
T ss_pred             cceecCCCCCCcCCccccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhh
Confidence            466665445544 688887  36677888888887666667999999999999999999998764333223333332111


Q ss_pred             cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--HHHHHHHHHhhhc--cCCccEEEEecCC-c---c
Q psy17903        108 RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKE--TKSTRFCLICNYV-S---C  179 (355)
Q Consensus       108 ~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--~~~~~Ll~~le~~--~~~~~~Il~~~~~-~---~  179 (355)
                          ...+.+..+.               ...+|+|||++.+..  ..+..|...+...  .....+|++++.+ .   .
T Consensus        87 ----~~~~~~~~~~---------------~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~  147 (235)
T PRK08084         87 ----FVPEVLEGME---------------QLSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNL  147 (235)
T ss_pred             ----hhHHHHHHhh---------------hCCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCc
Confidence                0111112211               123899999999864  3344555554432  2234577777754 2   2


Q ss_pred             ccccccCCe---eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh--hCCCCCCHH
Q psy17903        180 IIQPLTSRC---SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL--KGGEGIVNE  254 (355)
Q Consensus       180 l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~--~~~~~It~~  254 (355)
                      +.+.|+||+   ..+.+.+|+.+++.+++++.+...|+.++++++++|++.++||+|.+.+.++.+...  ..+..||.+
T Consensus       148 ~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~~~~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~l~~~~~it~~  227 (235)
T PRK08084        148 GLPDLASRLDWGQIYKLQPLSDEEKLQALQLRARLRGFELPEDVGRFLLKRLDREMRTLFMTLDQLDRASITAQRKLTIP  227 (235)
T ss_pred             ccHHHHHHHhCCceeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHhcCCCCCHH
Confidence            579999999   699999999999999999989989999999999999999999999999999998643  356789999


Q ss_pred             HHHHHhC
Q psy17903        255 DVLEVTG  261 (355)
Q Consensus       255 ~v~~~~~  261 (355)
                      .+++++.
T Consensus       228 ~~k~~l~  234 (235)
T PRK08084        228 FVKEILK  234 (235)
T ss_pred             HHHHHHc
Confidence            9988764

>PRK05574 holA DNA polymerase III subunit delta; Reviewed

Probab=99.89  E-value=2.5e-20  Score=172.13  Aligned_cols=280  Identities=18%  Similarity=0.141  Sum_probs=217.6

Q ss_pred             HHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcC-CccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCC
Q psy17903         55 SVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDG  132 (355)
Q Consensus        55 ~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~-~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~  132 (355)
                      ..+...++++ .++ ++|||+.-.-+...++.+.+.+.. +....++..+++.+. ..+.+.   ......+.++     
T Consensus         6 ~~~~~~~~~~-~~~~~li~G~d~~l~~~~~~~i~~~~~~~~~~~~~~~~~d~~~~-~~~~l~---~~~~t~~lF~-----   75 (340)
T PRK05574          6 EQLEKQLKKG-LAPLYLLYGDEPLLLQEAKDAIRAAARAQGFDERNVFTFDGSET-DWDDVL---EACQSLPLFS-----   75 (340)
T ss_pred             HHHHHHHhCC-CCceEEEEcCcHHHHHHHHHHHHHHHHcCCCceeeEEEeecCCC-CHHHHH---HHhhccCccc-----
Confidence            3455666666 444 999999966666666777665432 334556677777643 233333   3333333332     


Q ss_pred             CCCCCcEEEEEeCCCCCCHH----HHHHHHHHhhhccC--CccEEEEecCCc---cc---cccccCCeeeEEecCCCHHH
Q psy17903        133 KPCPPFKIVILDEADSMTHA----AQAALRRTMEKETK--STRFCLICNYVS---CI---IQPLTSRCSKFRFKPLAENT  200 (355)
Q Consensus       133 ~~~~~~~vliiDe~d~l~~~----~~~~Ll~~le~~~~--~~~~Il~~~~~~---~l---~~~l~sr~~~i~~~~~~~~~  200 (355)
                          ++++|+|++++.+...    ....|..++ ++++  ..++++..+..+   ++   .+++.++|..+.|.+++..+
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                6689999999998654    334555556 4443  345555544332   23   67788889999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHHHHHHHhc---CCH
Q psy17903        201 MLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSF  277 (355)
Q Consensus       201 ~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~  277 (355)
                      +..|+...++..|+.+++++++.|++.++||+..+.+++++++.+.+++.||.++|.+++.......+++++++   ++.
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            99999999999999999999999999999999999999999999985555999999999999988999999998   889


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHh----------------------------------cCCCCHHHHHHHHHHH
Q psy17903        278 QVLEKYIEDLILEAYSATQLFDQFHDIVMS----------------------------------ASSLSDKQKALILEKL  323 (355)
Q Consensus       278 ~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~----------------------------------~~~~~~~~~~~i~~~l  323 (355)
                      ..+...+..+...|.++..++..+.++++.                                  .+.++...+.+++..|
T Consensus       231 ~~a~~~l~~l~~~~~~~~~il~~l~~~~~~l~~~k~~~~~g~~~~~~~~~~~i~~~~~~~~~~~~~~~s~~~L~~~l~~L  310 (340)
T PRK05574        231 KRALRILDGLRLEGEEPIKLLAALQREFRLLLQLKILSQQGYPLQQLAKELRVWPYRVKLALRALQRLSLKQLKQAIQLL  310 (340)
T ss_pred             HHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHcCCChhHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            999999999998899888888877655442                                  2578888999999999


Q ss_pred             HHHHHHhhCC--CChHHHHHHHHHHHHH
Q psy17903        324 AECNARLQDG--ASEYIQILDLGSIVIK  349 (355)
Q Consensus       324 ~~~~~~l~~g--~~~~~~l~~~~~~~~~  349 (355)
                      .++|..+|+|  .+..+.||.|+.++|.
T Consensus       311 ~~~d~~iK~~~~~~~~~~le~~ii~l~~  338 (340)
T PRK05574        311 AETDYQIKTGYGGDKWLELELLLLKLAG  338 (340)
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHhcc
Confidence            9999999999  5889999999999985

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=99.88  E-value=4.2e-20  Score=163.14  Aligned_cols=260  Identities=17%  Similarity=0.182  Sum_probs=173.3

Q ss_pred             ccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc-------------------ccceeeecCCC-c
Q psy17903         49 EQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------------RERILELNASD-D  107 (355)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~~~~~~-~  107 (355)
                      .|+.+++.|.+.+.+++.+| |||+||  +||+++|..+++.+.+...                   ..++..+.... .
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            57889999999999999999 999996  6899999999999986321                   12344444332 3


Q ss_pred             cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCC
Q psy17903        108 RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSR  187 (355)
Q Consensus       108 ~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr  187 (355)
                      .+++.+++.+..+...+..+         ++||+|||++|.|+..+.|+|+++||+|+.+++||++|++++.++|+|+||
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            56789998888877655433         678999999999999999999999999999999999999999999999999


Q ss_pred             eeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHH
Q psy17903        188 CSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPW  267 (355)
Q Consensus       188 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~  267 (355)
                      |+.++|++ +.+++.+++.    +.|  ++.+....++.. .|+++.++..++.-....    + .+.+........   
T Consensus       155 cq~i~f~~-~~~~~~~~L~----~~g--~~~~~a~~la~~-~~s~~~A~~l~~~~~~~~----~-~~~~~~~~~~l~---  218 (290)
T PRK07276        155 TQIFHFPK-NEAYLIQLLE----QKG--LLKTQAELLAKL-AQSTSEAEKLAQNKKFLE----L-IDQAERFVTILL---  218 (290)
T ss_pred             ceeeeCCC-cHHHHHHHHH----HcC--CChHHHHHHHHH-CCCHHHHHHHhCChhHHH----H-HHHHHHHHHHhc---
Confidence            99999976 7777777775    345  444444555544 468999988773111100    0 011111110000   


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCC---HHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHH
Q psy17903        268 IEKLLKVDSFQVLEKYIEDLILEAYS---ATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLG  344 (355)
Q Consensus       268 ~~~l~~~~~~~~~~~~l~~l~~~g~~---~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~  344 (355)
                             .+...+.-.+..+.....+   ...++..+..++.+  ++........++.....+.....+++-...||.|+
T Consensus       219 -------~~~~~~~l~~~~l~~~~~~~e~q~~~l~~l~~~~~~--~~~~~~~~~~L~~~~~~r~~w~~Nv~~~~~le~l~  289 (290)
T PRK07276        219 -------KDKDEAYLQVARLVQLADEKEEQDQVLTLLTLLLAQ--ERMQVNVRTQLEAVYQARKMWQSNVSFQNALEYMV  289 (290)
T ss_pred             -------cChHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhHHHHHHhccCHHHHHHHHh
Confidence                   1110111111111111111   11222222222212  23334456667888888888888999999999886

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.88  E-value=1.6e-20  Score=182.17  Aligned_cols=268  Identities=18%  Similarity=0.219  Sum_probs=179.6

Q ss_pred             ccccCCCCCCcccccHHHHHHHHHHHhc----CCCCe-EEEECCCCCCHHHHHHHHHHHhcC-----CccccceeeecCC
Q psy17903         36 VEKYRPKTIDDVIEQQEVVSVLKKCLSG----ADLPH-FLFYGPPGTGKTSTMIAACHQLFG-----DMYRERILELNAS  105 (355)
Q Consensus        36 ~~k~~p~~~~~~vg~~~~~~~l~~~l~~----~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~-----~~~~~~~~~~~~~  105 (355)
                      ...|.|   +.|.|+++.++.|..++..    ....+ ++|+|+||||||++++.+.+++..     ....+.++++||.
T Consensus       749 ~~DYVP---D~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm  825 (1164)
T PTZ00112        749 QLDVVP---KYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGM  825 (1164)
T ss_pred             CcccCC---CcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCC
Confidence            334555   5688999998888776643    33334 579999999999999999988742     1223678899997


Q ss_pred             CccchHHHHHHHH-HHHHhhc-cC----------CCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc---cCCccE
Q psy17903        106 DDRGIQVIRDKVK-TFAQQTA-SG----------FNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE---TKSTRF  170 (355)
Q Consensus       106 ~~~~~~~i~~~i~-~~~~~~~-~~----------~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~---~~~~~~  170 (355)
                      .......+...+. .+....+ .+          ............||||||+|.|....++.|+.+++.+   ...+++
T Consensus       826 ~Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiL  905 (1164)
T PTZ00112        826 NVVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVL  905 (1164)
T ss_pred             ccCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEE
Confidence            6544443332222 1100000 00          0000000012348999999999877777787777643   334677


Q ss_pred             EEEecC---CccccccccCCee--eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH---HcCCCHHHHHHHHHHH
Q psy17903        171 CLICNY---VSCIIQPLTSRCS--KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVE---TSGGDMRRAITCLQSC  242 (355)
Q Consensus       171 Il~~~~---~~~l~~~l~sr~~--~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~---~~~g~~r~~~~~l~~~  242 (355)
                      |+++|.   +..+.+.+++|+.  .+.|+|++.+++.++|..++......+++++++++++   ...||+|.|++.|+.+
T Consensus       906 IGISNdlDLperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrA  985 (1164)
T PTZ00112        906 IAISNTMDLPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKA  985 (1164)
T ss_pred             EEecCchhcchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHH
Confidence            788875   3567789999987  4999999999999999999986555689999999988   5689999999999999


Q ss_pred             HHhhCCCCCCHHHHHHHhCCCChHHHHHHHhc-CCHHH--HHHHHHHHHHc---CCCHHHHHHHHHHHHH
Q psy17903        243 ARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV-DSFQV--LEKYIEDLILE---AYSATQLFDQFHDIVM  306 (355)
Q Consensus       243 ~~~~~~~~It~~~v~~~~~~~~~~~~~~l~~~-~~~~~--~~~~l~~l~~~---g~~~~~i~~~l~~~~~  306 (355)
                      ....++..|+.++|.++......+.+.+.+.. ....+  +..++..+...   +.....|+..+...+.
T Consensus       986 gEikegskVT~eHVrkAleeiE~srI~e~IktLPlHqKLVLlALIlLlk~tg~~~i~TGEVYerYk~Lce 1055 (1164)
T PTZ00112        986 FENKRGQKIVPRDITEATNQLFDSPLTNAINYLPWPFKMFLTCLIVELRMLNDFIIPYKKVLNRYKVLVE 1055 (1164)
T ss_pred             HhhcCCCccCHHHHHHHHHHHHhhhHHHHHHcCCHHHHHHHHHHHHHHhhcCCCceeHHHHHHHHHHHHH
Confidence            88777778999999998876655555555543 11111  11222222221   3556667776666665

>TIGR01128 holA DNA polymerase III, delta subunit

Probab=99.88  E-value=4.1e-20  Score=167.93  Aligned_cols=254  Identities=14%  Similarity=0.087  Sum_probs=204.9

Q ss_pred             HHHHHHHHhcCC-ccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-HHHHHHHH
Q psy17903         82 TMIAACHQLFGD-MYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-AAQAALRR  159 (355)
Q Consensus        82 la~~l~~~l~~~-~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-~~~~~Ll~  159 (355)
                      .+..+++....+ ..+.+++.+++.+. ..+.+.   ......+..+         ++++|+|++++.+.. ...+.|.+
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~e~-~~~~l~---~~~~~~slf~---------~~kliii~~~~~~~~~~~~~~L~~   69 (302)
T TIGR01128         3 AADAIRAAALAQGFDEFNVFRIDGEEF-DWNQLL---EEAQTLPLFS---------ERRLVELRNPEGKPGAKGLKALEE   69 (302)
T ss_pred             HHHHHHHHHHhCCCchheeeeeccCCC-CHHHHH---HHhhccCccc---------CCeEEEEECCCCCCCHHHHHHHHH
Confidence            345555555433 33567788887653 333332   2322233322         567999999999864 56789999


Q ss_pred             HhhhccCCccEEEEecCCcc---cccccc--CCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHH
Q psy17903        160 TMEKETKSTRFCLICNYVSC---IIQPLT--SRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRR  234 (355)
Q Consensus       160 ~le~~~~~~~~Il~~~~~~~---l~~~l~--sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~  234 (355)
                      ++++++.++++|+.++..++   +.+.+.  ++|..+.|.+++..++..|+...+++.|+.+++++++.++..++||++.
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            99999888888888875432   222333  4999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh----
Q psy17903        235 AITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS----  307 (355)
Q Consensus       235 ~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~----  307 (355)
                      +.+++++++.+.+++.||.++|..++.......+++++++   ++...+...++.+...|.++..++..+.++++.    
T Consensus       150 l~~el~KL~~~~~~~~It~e~I~~~~~~~~~~~if~l~dal~~~~~~~a~~~l~~l~~~~~~~~~il~~l~~~~~~L~~~  229 (302)
T TIGR01128       150 IAQELEKLALYAPDGKITLEDVEEAVSDSARFNVFDLTDALLEGKAARALRILKGLLGEGEEPLILLALLQRQLRLLLQL  229 (302)
T ss_pred             HHHHHHHHHhhCCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHH
Confidence            9999999999987778999999999998888889999998   899999999999999999998888877765542    


Q ss_pred             ------------------------------cCCCCHHHHHHHHHHHHHHHHHhh-CC-CChHHHHHHHHHHHH
Q psy17903        308 ------------------------------ASSLSDKQKALILEKLAECNARLQ-DG-ASEYIQILDLGSIVI  348 (355)
Q Consensus       308 ------------------------------~~~~~~~~~~~i~~~l~~~~~~l~-~g-~~~~~~l~~~~~~~~  348 (355)
                                                    .+.++...+..++..|.++|..+| +| .+..+.||.++.++|
T Consensus       230 k~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~s~~~L~~~l~~l~~~d~~~K~~~~~~~~~~le~~i~~~~  302 (302)
T TIGR01128       230 KRLAQQGGPLAQLASKLGIWPYRRKLALKALRRLSLAKLEQALQELAEADLQLKGTGGGDPWLALERLLLKLA  302 (302)
T ss_pred             HHHHHcCCCHHHHHHHcCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHHHHHhC
Confidence                                          245778888899999999999999 46 799999999999886

subunit around DNA forming a DNA sliding clamp.

>PRK08727 hypothetical protein; Validated

Probab=99.88  E-value=6.2e-21  Score=165.86  Aligned_cols=212  Identities=17%  Similarity=0.242  Sum_probs=151.8

Q ss_pred             CCccccccCCC-CCCcccccH-HHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc
Q psy17903         32 PVPWVEKYRPK-TIDDVIEQQ-EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (355)
Q Consensus        32 ~~~~~~k~~p~-~~~~~vg~~-~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  109 (355)
                      |.++--.++|. +|+.+++.+ ..+..+.....+.....++|+||+|+|||+++.++++++.....  .+..++..+.  
T Consensus         5 Ql~l~~~~~~~~~f~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~--~~~y~~~~~~--   80 (233)
T PRK08727          5 QLPLALRYPSDQRFDSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAEQAGR--SSAYLPLQAA--   80 (233)
T ss_pred             CccccCCCCCcCChhhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCC--cEEEEeHHHh--
Confidence            66676666665 799887654 44555555544333334999999999999999999998755433  3334433221  


Q ss_pred             hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC--HHHHHHHHHHhhhcc-CCccEEEEecCC-c---cccc
Q psy17903        110 IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT--HAAQAALRRTMEKET-KSTRFCLICNYV-S---CIIQ  182 (355)
Q Consensus       110 ~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~--~~~~~~Ll~~le~~~-~~~~~Il~~~~~-~---~l~~  182 (355)
                      ...+...+..+.               ...+|+|||++.+.  ...+..+..+++... ....+|++++.+ .   .+.+
T Consensus        81 ~~~~~~~~~~l~---------------~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~  145 (233)
T PRK08727         81 AGRLRDALEALE---------------GRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLP  145 (233)
T ss_pred             hhhHHHHHHHHh---------------cCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhH
Confidence            111222222221               22399999999986  344566777665432 234577777743 3   3468


Q ss_pred             cccCC---eeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH--hhCCCCCCHHHHH
Q psy17903        183 PLTSR---CSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR--LKGGEGIVNEDVL  257 (355)
Q Consensus       183 ~l~sr---~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~--~~~~~~It~~~v~  257 (355)
                      .++||   |..+.|++|+.+++.+++++++...++.++++++++|++.++||+|.+++.|+.+..  ...+..||.+.++
T Consensus       146 dL~SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~l~l~~e~~~~La~~~~rd~r~~l~~L~~l~~~~~~~~~~it~~~~~  225 (233)
T PRK08727        146 DLRSRLAQCIRIGLPVLDDVARAAVLRERAQRRGLALDEAAIDWLLTHGERELAGLVALLDRLDRESLAAKRRVTVPFLR  225 (233)
T ss_pred             HHHHHHhcCceEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            99999   779999999999999999999999999999999999999999999999999998763  2345689999998


Q ss_pred             HHhCC
Q psy17903        258 EVTGV  262 (355)
Q Consensus       258 ~~~~~  262 (355)
                      +++..
T Consensus       226 ~~l~~  230 (233)
T PRK08727        226 RVLEE  230 (233)
T ss_pred             HHHhh
Confidence            87743

>PRK06893 DNA replication initiation factor; Validated

Probab=99.88  E-value=4.2e-21  Score=166.57  Aligned_cols=211  Identities=15%  Similarity=0.212  Sum_probs=145.7

Q ss_pred             CCccccccC-CCCCCcccccHHHH--HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc
Q psy17903         32 PVPWVEKYR-PKTIDDVIEQQEVV--SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (355)
Q Consensus        32 ~~~~~~k~~-p~~~~~~vg~~~~~--~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  108 (355)
                      |.++--.++ +.+|++++++++..  ..+.+.......+.++||||+|+|||++++++++++.....+..++..+.....
T Consensus         2 Ql~l~~~~~~~~~fd~f~~~~~~~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~~   81 (229)
T PRK06893          2 QLPLPIHQIDDETLDNFYADNNLLLLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQYF   81 (229)
T ss_pred             CcccCCCCCCcccccccccCChHHHHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhhh
Confidence            344433333 45899999766432  333333333334558999999999999999999997544333333333321111


Q ss_pred             chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--HHHHHHHHHhhhccC--CccEEEEecCC-cc---c
Q psy17903        109 GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKETK--STRFCLICNYV-SC---I  180 (355)
Q Consensus       109 ~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--~~~~~Ll~~le~~~~--~~~~Il~~~~~-~~---l  180 (355)
                      .    ...+..+.               +..+|+|||++.+..  ..+..|..+++....  ..++|++++.. ..   .
T Consensus        82 ~----~~~~~~~~---------------~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~  142 (229)
T PRK06893         82 S----PAVLENLE---------------QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIK  142 (229)
T ss_pred             h----HHHHhhcc---------------cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHcccc
Confidence            1    11111111               234999999998853  334566666654332  33455666643 22   4


Q ss_pred             cccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh--hCCCCCCHHH
Q psy17903        181 IQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL--KGGEGIVNED  255 (355)
Q Consensus       181 ~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~--~~~~~It~~~  255 (355)
                      .+.++||+.   .+.+++|+.++...++++.+...++.++++++++|++.++||+|.+.+.++.+...  ..+..||.+.
T Consensus       143 ~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~~l~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~~it~~~  222 (229)
T PRK06893        143 LPDLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQRGIELSDEVANFLLKRLDRDMHTLFDALDLLDKASLQAQRKLTIPF  222 (229)
T ss_pred             chhHHHHHhcCCeeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhcCCCCCHHH
Confidence            488999987   89999999999999999999999999999999999999999999999999988543  2456799999


Q ss_pred             HHHHhC
Q psy17903        256 VLEVTG  261 (355)
Q Consensus       256 v~~~~~  261 (355)
                      +++++.
T Consensus       223 v~~~L~  228 (229)
T PRK06893        223 VKEILG  228 (229)
T ss_pred             HHHHhc
Confidence            988764

>TIGR00602 rad24 checkpoint protein rad24

Probab=99.87  E-value=5.6e-21  Score=185.03  Aligned_cols=211  Identities=20%  Similarity=0.286  Sum_probs=138.0

Q ss_pred             CCCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-----EEEECCCCCCHHHHHHHHHHHhcCCccc-ccee-e
Q psy17903         29 RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-----FLFYGPPGTGKTSTMIAACHQLFGDMYR-ERIL-E  101 (355)
Q Consensus        29 ~~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-----~ll~Gp~G~GKt~la~~l~~~l~~~~~~-~~~~-~  101 (355)
                      .+...||++||||+++++++||++.+..+..++.....+.     ++|+||+|+|||++++.+++.+...... .+.+ .
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            3456799999999999999999999999999997654332     9999999999999999999987542211 0100 0


Q ss_pred             ecCCC---------------ccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH---HHHHHHH--Hh
Q psy17903        102 LNASD---------------DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA---AQAALRR--TM  161 (355)
Q Consensus       102 ~~~~~---------------~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~---~~~~Ll~--~l  161 (355)
                      ....+               ....+.+...+...... .. ... +....+++||+|||++.+...   .+..++.  +.
T Consensus       148 ~~~~~~~~~~~s~~~~~~~~~s~~~~F~~fl~~a~~~-~~-~~g-~~~~~~~~IILIDEiPn~~~r~~~~lq~lLr~~~~  224 (637)
T TIGR00602       148 DFQKNDHKVTLSLESCFSNFQSQIEVFSEFLLRATNK-LQ-MLG-DDLMTDKKIILVEDLPNQFYRDTRALHEILRWKYV  224 (637)
T ss_pred             cccccccccchhhhhccccccchHHHHHHHHHHHHhh-hc-ccc-cccCCceeEEEeecchhhchhhHHHHHHHHHHHhh
Confidence            00000               01122222222221110 00 000 001125679999999776542   2333333  33


Q ss_pred             hhccCCccEEEEecCC-c-------c-------ccccccC--CeeeEEecCCCHHHHHHHHHHHHHHcCCC------C-C
Q psy17903        162 EKETKSTRFCLICNYV-S-------C-------IIQPLTS--RCSKFRFKPLAENTMLTRLQYICEQESVM------C-D  217 (355)
Q Consensus       162 e~~~~~~~~Il~~~~~-~-------~-------l~~~l~s--r~~~i~~~~~~~~~~~~~l~~~~~~~~~~------~-~  217 (355)
                      +.  ..+.+|+++++. .       .       +.+++.+  |+..|.|.|+...++.+.|..++..++..      + +
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 1       1       2267876  55689999999999999999999876432      2 4


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        218 FKALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       218 ~~~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                      +++++.|+..++||+|.|++.||.++.
T Consensus       303 ~~~l~~I~~~s~GDiRsAIn~LQf~~~  329 (637)
T TIGR00602       303 KTSVELLCQGCSGDIRSAINSLQFSSS  329 (637)
T ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHh
Confidence            689999999999999999999998754

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.87  E-value=2.6e-19  Score=166.99  Aligned_cols=238  Identities=18%  Similarity=0.208  Sum_probs=158.6

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhc----CCCCeEEEECCCCCCHHHHHHHHHHHhcCCc----cccceeeecC
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG----ADLPHFLFYGPPGTGKTSTMIAACHQLFGDM----YRERILELNA  104 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~----~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~  104 (355)
                      ..+...|.|.   +++|+++.++.|..++..    +..++++|+||||+|||++++.+++.+....    ....++++|+
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            4567889986   689999999888888753    3444599999999999999999999875321    1256788888


Q ss_pred             CCccchH-HHHHHHHHHHH--hhccCCC-C---------C-CCCCCCcEEEEEeCCCCCCHHH---HHHHHHH--hhhcc
Q psy17903        105 SDDRGIQ-VIRDKVKTFAQ--QTASGFN-Q---------D-GKPCPPFKIVILDEADSMTHAA---QAALRRT--MEKET  165 (355)
Q Consensus       105 ~~~~~~~-~i~~~i~~~~~--~~~~~~~-~---------~-~~~~~~~~vliiDe~d~l~~~~---~~~Ll~~--le~~~  165 (355)
                      ....... .+......+..  ....... .         . -.......+|||||+|.+....   ...|.+.  ..+.+
T Consensus        83 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~  162 (365)
T TIGR02928        83 QILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLD  162 (365)
T ss_pred             CCCCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCC
Confidence            7654432 22223333211  0000000 0         0 0001134589999999995332   2334433  12222


Q ss_pred             -CCccEEEEecCCc---cccccccCCee--eEEecCCCHHHHHHHHHHHHHH--cCCCCCHHHHHHHHH---HcCCCHHH
Q psy17903        166 -KSTRFCLICNYVS---CIIQPLTSRCS--KFRFKPLAENTMLTRLQYICEQ--ESVMCDFKALETLVE---TSGGDMRR  234 (355)
Q Consensus       166 -~~~~~Il~~~~~~---~l~~~l~sr~~--~i~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~~~~l~~---~~~g~~r~  234 (355)
                       ..+.+|+++|.+.   .+.+.+.+|+.  .+.|+|++.+++.++++.+++.  .+..+++++++.++.   .+.||+|.
T Consensus       163 ~~~v~lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~  242 (365)
T TIGR02928       163 NAKVGVIGISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARK  242 (365)
T ss_pred             CCeEEEEEEECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHH
Confidence             4577888888764   46777888874  7999999999999999999863  233478887776554   45799999


Q ss_pred             HHHHHHHHHHhh---CCCCCCHHHHHHHhCCCChHHHHHHHh
Q psy17903        235 AITCLQSCARLK---GGEGIVNEDVLEVTGVIPNPWIEKLLK  273 (355)
Q Consensus       235 ~~~~l~~~~~~~---~~~~It~~~v~~~~~~~~~~~~~~l~~  273 (355)
                      +++.++.+...+   +...||.++|.++......+...+.+.
T Consensus       243 al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~~~~~~~~~i~  284 (365)
T TIGR02928       243 AIDLLRVAGEIAEREGAERVTEDHVEKAQEKIEKDRLLELIR  284 (365)
T ss_pred             HHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999887655   346799999998877664444333343

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.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.86  E-value=4e-20  Score=160.86  Aligned_cols=200  Identities=17%  Similarity=0.236  Sum_probs=151.0

Q ss_pred             CCCCCCccc--ccHHHHHHHHHHHhcC-CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHH
Q psy17903         40 RPKTIDDVI--EQQEVVSVLKKCLSGA-DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK  116 (355)
Q Consensus        40 ~p~~~~~~v--g~~~~~~~l~~~l~~~-~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~  116 (355)
                      +|.+|++++  ++..++..++.+.... ...+++|+||+|+|||++++++++.......  .++.+++....      ..
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            455799988  3467778888887743 2335999999999999999999998754332  45556654321      11


Q ss_pred             HHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccC--CccEEEEecCCc---cccccccCCe---
Q psy17903        117 VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK--STRFCLICNYVS---CIIQPLTSRC---  188 (355)
Q Consensus       117 i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~--~~~~Il~~~~~~---~l~~~l~sr~---  188 (355)
                      +. +  .            .+..+|||||+|.+....+..|+.+++....  ..++|++++...   .+.+.+.+|+   
T Consensus        85 ~~-~--~------------~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~  149 (227)
T PRK08903         85 FD-F--D------------PEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWG  149 (227)
T ss_pred             Hh-h--c------------ccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcC
Confidence            10 0  0            0234999999999998888899888875432  233555555332   2456677785   


Q ss_pred             eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHhCC
Q psy17903        189 SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVTGV  262 (355)
Q Consensus       189 ~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~~~~It~~~v~~~~~~  262 (355)
                      ..+++++|+.++...++...+.+.++.++++++++|++.++||+|.+.+.++.+..++  .+..||.+.+.+++..
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            6899999999999999999999999999999999999999999999999999887655  5678999999998763

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.86  E-value=1.7e-20  Score=166.27  Aligned_cols=190  Identities=18%  Similarity=0.216  Sum_probs=136.7

Q ss_pred             CCcccccHHHHHHHHHHHh----------c-----CCCCeEEEECCCCCCHHHHHHHHHHHhcCC--ccccceeeecCCC
Q psy17903         44 IDDVIEQQEVVSVLKKCLS----------G-----ADLPHFLFYGPPGTGKTSTMIAACHQLFGD--MYRERILELNASD  106 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~----------~-----~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~--~~~~~~~~~~~~~  106 (355)
                      +++++|.+.++..+++.+.          .     +...|++|+||||||||++|+.+++.+...  .....++++++++
T Consensus         5 l~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~~   84 (261)
T TIGR02881         5 LSRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERAD   84 (261)
T ss_pred             HHHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHHH
Confidence            5789999999887765431          1     133469999999999999999999987431  1223566666654


Q ss_pred             ccch--HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC--------HHHHHHHHHHhhhccCCccEEEEecC
Q psy17903        107 DRGI--QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT--------HAAQAALRRTMEKETKSTRFCLICNY  176 (355)
Q Consensus       107 ~~~~--~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~--------~~~~~~Ll~~le~~~~~~~~Il~~~~  176 (355)
                      ..+.  ......+.......            ...||||||+|.|.        .+.++.|++.+++....+++|+++..
T Consensus        85 l~~~~~g~~~~~~~~~~~~a------------~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~  152 (261)
T TIGR02881        85 LVGEYIGHTAQKTREVIKKA------------LGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYS  152 (261)
T ss_pred             hhhhhccchHHHHHHHHHhc------------cCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCc
Confidence            2211  00011111111111            12399999999986        34678899999988777777777653


Q ss_pred             C-----ccccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH----------cCCCHHHHHHHHH
Q psy17903        177 V-----SCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVET----------SGGDMRRAITCLQ  240 (355)
Q Consensus       177 ~-----~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~----------~~g~~r~~~~~l~  240 (355)
                      .     ..+.|++++|+. .++|++++.+++.++++..+...+..++++++..+.+.          +.||.|.+.|.++
T Consensus       153 ~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~~~~gn~R~~~n~~e  232 (261)
T TIGR02881       153 DEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVKEREYKLTEEAKWKLREHLYKVDQLSSREFSNARYVRNIIE  232 (261)
T ss_pred             chhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHhccCCCCchHHHHHHHHH
Confidence            2     235789999994 79999999999999999999999999999999888543          3699999999999


Q ss_pred             HHHHh
Q psy17903        241 SCARL  245 (355)
Q Consensus       241 ~~~~~  245 (355)
                      .+...
T Consensus       233 ~a~~~  237 (261)
T TIGR02881       233 KAIRR  237 (261)
T ss_pred             HHHHH
Confidence            86653

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.

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.86  E-value=3.4e-19  Score=167.91  Aligned_cols=290  Identities=19%  Similarity=0.260  Sum_probs=186.6

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHh----cCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLS----GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~----~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      ..+|...|.|   +.++|++..++.|...+.    ++..++++|+||||+|||++++.+++.+........++++|+...
T Consensus        20 ~~~l~~~~~P---~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~   96 (394)
T PRK00411         20 EEVLEPDYVP---ENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQID   96 (394)
T ss_pred             hhhCCCCCcC---CCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcC
Confidence            3455556666   468899999888887763    334456999999999999999999998855433456788888654


Q ss_pred             cchHHH-HHHHHHHHHhhc--cCCCCC---------CCCCCCcEEEEEeCCCCCC----HHHHHHHHHHhhhccC-CccE
Q psy17903        108 RGIQVI-RDKVKTFAQQTA--SGFNQD---------GKPCPPFKIVILDEADSMT----HAAQAALRRTMEKETK-STRF  170 (355)
Q Consensus       108 ~~~~~i-~~~i~~~~~~~~--~~~~~~---------~~~~~~~~vliiDe~d~l~----~~~~~~Ll~~le~~~~-~~~~  170 (355)
                      .....+ ......+.....  .+....         -.......+|+|||+|.+.    .+....|++.++..+. .+.+
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            433222 222222211000  000000         0000123589999999986    3345555565554333 5668


Q ss_pred             EEEecCCc---cccccccCCee--eEEecCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHc---CCCHHHHHHHHH
Q psy17903        171 CLICNYVS---CIIQPLTSRCS--KFRFKPLAENTMLTRLQYICEQE--SVMCDFKALETLVETS---GGDMRRAITCLQ  240 (355)
Q Consensus       171 Il~~~~~~---~l~~~l~sr~~--~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~~~l~~~~---~g~~r~~~~~l~  240 (355)
                      |++++...   .+.+.+++|+.  .+.|++++.+++.++++.+++..  ...+++++++.+++.+   .||+|.+++.+.
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            88888653   35566777764  78999999999999999998653  3368999999998887   899999999998


Q ss_pred             HHHHhh---CCCCCCHHHHHHHhCCCChHHHHHHHhc--CCHHHHHHHHHHHHH---cCCCHHHHHHHHHHHHHhcCCCC
Q psy17903        241 SCARLK---GGEGIVNEDVLEVTGVIPNPWIEKLLKV--DSFQVLEKYIEDLIL---EAYSATQLFDQFHDIVMSASSLS  312 (355)
Q Consensus       241 ~~~~~~---~~~~It~~~v~~~~~~~~~~~~~~l~~~--~~~~~~~~~l~~l~~---~g~~~~~i~~~l~~~~~~~~~~~  312 (355)
                      .++..+   +...|+.+++.+++...........+..  .....+...+..+..   ...+..+++..+...+... +.+
T Consensus       257 ~a~~~a~~~~~~~I~~~~v~~a~~~~~~~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~-~~~  335 (394)
T PRK00411        257 RAGLIAEREGSRKVTEEDVRKAYEKSEIVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEEL-GYE  335 (394)
T ss_pred             HHHHHHHHcCCCCcCHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHc-CCC
Confidence            876655   4467999999998877655454555543  122222233333322   3457778888887777543 343


Q ss_pred             H---HHHHHHHHHHHH
Q psy17903        313 D---KQKALILEKLAE  325 (355)
Q Consensus       313 ~---~~~~~i~~~l~~  325 (355)
                      +   ......+..|..
T Consensus       336 ~~~~~~~~~~l~~L~~  351 (394)
T PRK00411        336 PRTHTRFYEYINKLDM  351 (394)
T ss_pred             cCcHHHHHHHHHHHHh
Confidence            3   444444444444

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

Probab=99.86  E-value=9.6e-21  Score=159.02  Aligned_cols=207  Identities=25%  Similarity=0.309  Sum_probs=150.4

Q ss_pred             cccCCCCCCcccccHHHHHH---HHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         37 EKYRPKTIDDVIEQQEVVSV---LKKCLSG------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        37 ~k~~p~~~~~~vg~~~~~~~---l~~~l~~------~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      +-..-.+|++++||+.++..   |..++++      ..+.++|||||||+|||++|++++++.     +.+++.+++...
T Consensus       113 e~~~~it~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~-----kvp~l~vkat~l  187 (368)
T COG1223         113 EIISDITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA-----KVPLLLVKATEL  187 (368)
T ss_pred             hhhccccHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc-----CCceEEechHHH
Confidence            44445589999999988854   4455544      345569999999999999999999997     556777777654


Q ss_pred             cch------HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH------------HHHHHHHHHhhhc--cCC
Q psy17903        108 RGI------QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH------------AAQAALRRTMEKE--TKS  167 (355)
Q Consensus       108 ~~~------~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~------------~~~~~Ll~~le~~--~~~  167 (355)
                      .+.      ..+++........         .||    |+||||+|.+.-            +..|+|+.-|+..  ...
T Consensus       188 iGehVGdgar~Ihely~rA~~~---------aPc----ivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneG  254 (368)
T COG1223         188 IGEHVGDGARRIHELYERARKA---------APC----IVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEG  254 (368)
T ss_pred             HHHHhhhHHHHHHHHHHHHHhc---------CCe----EEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCc
Confidence            332      2344433333332         233    999999998843            3457787777643  356


Q ss_pred             ccEEEEecCCccccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHh
Q psy17903        168 TRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSCARL  245 (355)
Q Consensus       168 ~~~Il~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~~~  245 (355)
                      ++.|.+||++..++++++||+. .|+|.-|+.++...+++..+++-.++++.. +++++..+.| +-|.+..-+-+.+..
T Consensus       255 VvtIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~-~~~~~~~t~g~SgRdikekvlK~aLh  333 (368)
T COG1223         255 VVTIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDAD-LRYLAAKTKGMSGRDIKEKVLKTALH  333 (368)
T ss_pred             eEEEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccccC-HHHHHHHhCCCCchhHHHHHHHHHHH
Confidence            8899999999999999999998 899999999999999999999887777666 7888887755 444444333222221


Q ss_pred             ----hCCCCCCHHHHHHHhCC
Q psy17903        246 ----KGGEGIVNEDVLEVTGV  262 (355)
Q Consensus       246 ----~~~~~It~~~v~~~~~~  262 (355)
                          -+...|+.++++.++..
T Consensus       334 ~Ai~ed~e~v~~edie~al~k  354 (368)
T COG1223         334 RAIAEDREKVEREDIEKALKK  354 (368)
T ss_pred             HHHHhchhhhhHHHHHHHHHh
Confidence                15678999998887754

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.85  E-value=5.5e-20  Score=159.98  Aligned_cols=201  Identities=18%  Similarity=0.246  Sum_probs=147.9

Q ss_pred             CCCCCcccc--cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHH
Q psy17903         41 PKTIDDVIE--QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVK  118 (355)
Q Consensus        41 p~~~~~~vg--~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~  118 (355)
                      +.+|+++++  ++.+++.+++++......+++|+||+|||||++|+++++......  ..++.+++......  ....+.
T Consensus        11 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~--~~~~~i~~~~~~~~--~~~~~~   86 (226)
T TIGR03420        11 DPTFDNFYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERG--KSAIYLPLAELAQA--DPEVLE   86 (226)
T ss_pred             chhhcCcCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcC--CcEEEEeHHHHHHh--HHHHHh
Confidence            446888873  667899999998766666699999999999999999999875432  24556665442211  111111


Q ss_pred             HHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHH--HHHHHHHhhhcc-CCccEEEEecCC-cc--cc-ccccCCe---
Q psy17903        119 TFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA--QAALRRTMEKET-KSTRFCLICNYV-SC--II-QPLTSRC---  188 (355)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~--~~~Ll~~le~~~-~~~~~Il~~~~~-~~--l~-~~l~sr~---  188 (355)
                      .+.               +.++|+|||+|.+....  ++.|...++... ....+|++++.. ..  .. +.+.+|+   
T Consensus        87 ~~~---------------~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~  151 (226)
T TIGR03420        87 GLE---------------QADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWG  151 (226)
T ss_pred             hcc---------------cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcC
Confidence            100               22499999999997643  777877776532 224667777643 22  22 6677775   


Q ss_pred             eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHh
Q psy17903        189 SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVT  260 (355)
Q Consensus       189 ~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~~~~It~~~v~~~~  260 (355)
                      ..+.+++++.++...+++..+.+.++.+++++++.|++.++||+|.+.+.++.+...+  .++.||.+.+.+++
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            4899999999999999999988889999999999999999999999999998876533  56679999988875

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.85  E-value=1.7e-19  Score=176.68  Aligned_cols=231  Identities=18%  Similarity=0.221  Sum_probs=165.2

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCC-----ccccceeeecCCCc
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD-----MYRERILELNASDD  107 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~-----~~~~~~~~~~~~~~  107 (355)
                      .+..+.|||.+|++++|++..+..+.+.+......+++|+||+|||||++|+.+++.....     ..+..++.+++...
T Consensus       142 ~~~~~~~rp~~~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l  221 (615)
T TIGR02903       142 KSAQSLLRPRAFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTL  221 (615)
T ss_pred             hHHhhhcCcCcHHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhc
Confidence            5567789999999999999999988888877766679999999999999999998876321     01346788887653


Q ss_pred             c-chHHHHHH------------HH-HHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc--------
Q psy17903        108 R-GIQVIRDK------------VK-TFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET--------  165 (355)
Q Consensus       108 ~-~~~~i~~~------------i~-~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~--------  165 (355)
                      . ....+...            .. .+...+........-.....++|||||++.|....|+.|++.|++..        
T Consensus       222 ~~d~~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~  301 (615)
T TIGR02903       222 RWDPREVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYY  301 (615)
T ss_pred             cCCHHHHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeeccee
Confidence            2 11111100            00 01110100000000001234599999999999999999999997632        


Q ss_pred             --------------------CCccEEEEe-cCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Q psy17903        166 --------------------KSTRFCLIC-NYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETL  224 (355)
Q Consensus       166 --------------------~~~~~Il~~-~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l  224 (355)
                                          ..+++|.++ +++..+.+++++||..+.|.+++.+++..++++.+.+.++.+++++++.|
T Consensus       302 ~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~ls~eal~~L  381 (615)
T TIGR02903       302 DPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVHLAAGVEELI  381 (615)
T ss_pred             ccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence                                113344434 34667889999999999999999999999999999988888999999999


Q ss_pred             HHHcCCCHHHHHHHHHHHHHhh-----------CCCCCCHHHHHHHhCCCC
Q psy17903        225 VETSGGDMRRAITCLQSCARLK-----------GGEGIVNEDVLEVTGVIP  264 (355)
Q Consensus       225 ~~~~~g~~r~~~~~l~~~~~~~-----------~~~~It~~~v~~~~~~~~  264 (355)
                      .+++ ++.|++++.|+.+..+.           ....|+.+++.++++...
T Consensus       382 ~~ys-~~gRraln~L~~~~~~~~~~~~~~~~~~~~~~I~~edv~~~l~~~r  431 (615)
T TIGR02903       382 ARYT-IEGRKAVNILADVYGYALYRAAEAGKENDKVTITQDDVYEVIQISR  431 (615)
T ss_pred             HHCC-CcHHHHHHHHHHHHHHHHHHHHHhccCCCCeeECHHHHHHHhCCCc
Confidence            8876 47799999997765442           112589999999987663

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.

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

Probab=99.84  E-value=2.1e-19  Score=157.87  Aligned_cols=219  Identities=20%  Similarity=0.254  Sum_probs=154.2

Q ss_pred             CCCCCCCCCCccccccCCCCCCcccccHHHHHHHHHHHhc-----------C-CCCe-EEEECCCCCCHHHHHHHHHHHh
Q psy17903         24 TSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------A-DLPH-FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        24 ~~~~~~~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----------~-~~~~-~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      |+-..+.-..+-.++-.-.+++++.|-+++++.|+..+.-           | .+|. +|+|||||||||.+|+++|++.
T Consensus       130 p~~~Dp~V~~M~v~e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T  209 (406)
T COG1222         130 PPEVDPRVSVMEVEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT  209 (406)
T ss_pred             CCccCchhheeeeccCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc
Confidence            3333444445556664555899999999999999998842           2 3333 9999999999999999999997


Q ss_pred             cCCccccceeeecCCCc------cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HH
Q psy17903         91 FGDMYRERILELNASDD------RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AA  153 (355)
Q Consensus        91 ~~~~~~~~~~~~~~~~~------~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~  153 (355)
                           +..|+.+.+++.      .+...+++.+.-....         .|+    ||||||+|.+..           +.
T Consensus       210 -----~AtFIrvvgSElVqKYiGEGaRlVRelF~lArek---------aPs----IIFiDEIDAIg~kR~d~~t~gDrEV  271 (406)
T COG1222         210 -----DATFIRVVGSELVQKYIGEGARLVRELFELAREK---------APS----IIFIDEIDAIGAKRFDSGTSGDREV  271 (406)
T ss_pred             -----CceEEEeccHHHHHHHhccchHHHHHHHHHHhhc---------CCe----EEEEechhhhhcccccCCCCchHHH
Confidence                 446677766652      1223344333322222         222    999999998843           45


Q ss_pred             HHHHHHHhhh-----ccCCccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q psy17903        154 QAALRRTMEK-----ETKSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLV  225 (355)
Q Consensus       154 ~~~Ll~~le~-----~~~~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~  225 (355)
                      |..++.+|.+     +..++.+|++||.++.++|+|.+.++   .|+|+.|+.+....+++-++++.++. ++-.++.|+
T Consensus       272 QRTmleLL~qlDGFD~~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~-~dvd~e~la  350 (406)
T COG1222         272 QRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLA-DDVDLELLA  350 (406)
T ss_pred             HHHHHHHHHhccCCCCCCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCc-cCcCHHHHH
Confidence            6667777653     56789999999999999999999887   79999999999999999988775542 223467777


Q ss_pred             HHcCCCHH-HHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        226 ETSGGDMR-RAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       226 ~~~~g~~r-~~~~~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      ..++|--+ .+...+..+..++   ....||.+|+.++..
T Consensus       351 ~~~~g~sGAdlkaictEAGm~AiR~~R~~Vt~~DF~~Av~  390 (406)
T COG1222         351 RLTEGFSGADLKAICTEAGMFAIRERRDEVTMEDFLKAVE  390 (406)
T ss_pred             HhcCCCchHHHHHHHHHHhHHHHHhccCeecHHHHHHHHH
Confidence            77755333 3333333333333   667899999988664

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=99.84  E-value=3.2e-19  Score=153.50  Aligned_cols=161  Identities=11%  Similarity=0.117  Sum_probs=123.7

Q ss_pred             CCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc-----------------ccceeeecCC-CccchHHHHHHHHHHHHhhc
Q psy17903         65 DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-----------------RERILELNAS-DDRGIQVIRDKVKTFAQQTA  125 (355)
Q Consensus        65 ~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~-----------------~~~~~~~~~~-~~~~~~~i~~~i~~~~~~~~  125 (355)
                      +.+| +||+||+|+||..+|.++++.+.+...                 ..++..+... ...+++.+++....+...+.
T Consensus         5 ~~~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~~~I~id~ir~l~~~l~~~s~   84 (261)
T PRK05818          5 NKTHPLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPSV   84 (261)
T ss_pred             CCCcceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHHccCch
Confidence            4567 999999999999999999999986421                 1123332222 23567888887776654331


Q ss_pred             cCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeeeEEecCC---------
Q psy17903        126 SGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPL---------  196 (355)
Q Consensus       126 ~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~---------  196 (355)
                      ..        +++||+||+++|.|+.++.|+|+++||+|+.+++||++|++++.++++++|||+.+.|+++         
T Consensus        85 e~--------~~~KV~II~~ae~m~~~AaNaLLK~LEEPp~~t~fiLit~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~~  156 (261)
T PRK05818         85 ES--------NGKKIYIIYGIEKLNKQSANSLLKLIEEPPKNTYGIFTTRNENNILNTILSRCVQYVVLSKEKKVPFKVE  156 (261)
T ss_pred             hc--------CCCEEEEeccHhhhCHHHHHHHHHhhcCCCCCeEEEEEECChHhCchHhhhheeeeecCChhhhcccccc
Confidence            11        1578999999999999999999999999999999999999999999999999999999888         


Q ss_pred             -CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q psy17903        197 -AENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSC  242 (355)
Q Consensus       197 -~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~  242 (355)
                       ++.++...+...     ..+++    .++..++|+..+++..++.+
T Consensus       157 ~~~~~i~~~L~~~-----~~~d~----~i~~~a~g~~~~a~~l~~~l  194 (261)
T PRK05818        157 SNDRYFQYILLSF-----YSVDE----QLQAYNNGSFSKLKNIIETL  194 (261)
T ss_pred             cChHHHHHHHHHc-----cCccH----HHHHHcCCCHHHHHHHHHHH
Confidence             555555554432     12343    56667899999999999854

>PRK05642 DNA replication initiation factor; Validated

Probab=99.83  E-value=7e-19  Score=153.02  Aligned_cols=212  Identities=15%  Similarity=0.188  Sum_probs=148.9

Q ss_pred             CCCccccccCCC-CCCccc-cc-HHHHHHHHHHHhcC---CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC
Q psy17903         31 KPVPWVEKYRPK-TIDDVI-EQ-QEVVSVLKKCLSGA---DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (355)
Q Consensus        31 ~~~~~~~k~~p~-~~~~~v-g~-~~~~~~l~~~l~~~---~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  104 (355)
                      .|.++--.+.|. +|+.++ |. ..++..+.++....   ..+.++|+||+|+|||++++++++++....  ..+++++.
T Consensus         4 ~Ql~l~~~~~~~~tfdnF~~~~~~~a~~~~~~~~~~~~~~~~~~l~l~G~~G~GKTHLl~a~~~~~~~~~--~~v~y~~~   81 (234)
T PRK05642          4 IQLPLGVRLRDDATFANYYPGANAAALGYVERLCEADAGWTESLIYLWGKDGVGRSHLLQAACLRFEQRG--EPAVYLPL   81 (234)
T ss_pred             cccccCCCCCCcccccccCcCChHHHHHHHHHHhhccccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCC--CcEEEeeH
Confidence            456665556654 799887 33 23344455554421   123499999999999999999998875432  24455554


Q ss_pred             CCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--HHHHHHHHHhhhcc-CCccEEEEecC-C---
Q psy17903        105 SDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKET-KSTRFCLICNY-V---  177 (355)
Q Consensus       105 ~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--~~~~~Ll~~le~~~-~~~~~Il~~~~-~---  177 (355)
                      .+...  .....+..+.               +..+|+|||++.+..  ..+..|..+++... .+..+|++++. +   
T Consensus        82 ~~~~~--~~~~~~~~~~---------------~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l  144 (234)
T PRK05642         82 AELLD--RGPELLDNLE---------------QYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPREL  144 (234)
T ss_pred             HHHHh--hhHHHHHhhh---------------hCCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHc
Confidence            33211  0111111111               123899999998853  44566777776433 23556667764 2   


Q ss_pred             ccccccccCCe---eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCC
Q psy17903        178 SCIIQPLTSRC---SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIV  252 (355)
Q Consensus       178 ~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~~~~It  252 (355)
                      ....+.++||+   ..+.+.+|+.++...+++..+...++.++++++++|++.++||+|.+.+.++.+...+  .+..||
T Consensus       145 ~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka~~~~~~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~l~~~~~it  224 (234)
T PRK05642        145 PIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRASRRGLHLTDEVGHFILTRGTRSMSALFDLLERLDQASLQAQRKLT  224 (234)
T ss_pred             CccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHcCCcCC
Confidence            22468999998   6899999999999999998888889999999999999999999999999999987544  457899


Q ss_pred             HHHHHHHhC
Q psy17903        253 NEDVLEVTG  261 (355)
Q Consensus       253 ~~~v~~~~~  261 (355)
                      .+.+++++.
T Consensus       225 ~~~~~~~L~  233 (234)
T PRK05642        225 IPFLKETLG  233 (234)
T ss_pred             HHHHHHHhc
Confidence            999988764

>PRK06620 hypothetical protein; Validated

Probab=99.82  E-value=7.8e-19  Score=150.20  Aligned_cols=186  Identities=14%  Similarity=0.138  Sum_probs=131.2

Q ss_pred             CCCccc-c--cHHHHHHHHHHHhcC--CC--CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHH
Q psy17903         43 TIDDVI-E--QQEVVSVLKKCLSGA--DL--PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (355)
Q Consensus        43 ~~~~~v-g--~~~~~~~l~~~l~~~--~~--~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~  115 (355)
                      +|++++ |  +..+...+..+.+..  +.  +.++||||+|+|||++++++++....     .+  +.....  .     
T Consensus        14 tfd~Fvvg~~N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~-----~~--~~~~~~--~-----   79 (214)
T PRK06620         14 HPDEFIVSSSNDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNA-----YI--IKDIFF--N-----   79 (214)
T ss_pred             CchhhEecccHHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHHHHHHhccCC-----EE--cchhhh--c-----
Confidence            466665 3  345677777777632  22  34999999999999999998887521     11  111100  0     


Q ss_pred             HHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecC-Ccc-ccccccCCee---e
Q psy17903        116 KVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY-VSC-IIQPLTSRCS---K  190 (355)
Q Consensus       116 ~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~-~~~-l~~~l~sr~~---~  190 (355)
                        ..+..              ...+++|||+|.+.....-.+.+.+.+..  ..++++++. +.. -++.|+||+.   .
T Consensus        80 --~~~~~--------------~~d~lliDdi~~~~~~~lf~l~N~~~e~g--~~ilits~~~p~~l~l~~L~SRl~~gl~  141 (214)
T PRK06620         80 --EEILE--------------KYNAFIIEDIENWQEPALLHIFNIINEKQ--KYLLLTSSDKSRNFTLPDLSSRIKSVLS  141 (214)
T ss_pred             --hhHHh--------------cCCEEEEeccccchHHHHHHHHHHHHhcC--CEEEEEcCCCccccchHHHHHHHhCCce
Confidence              01110              12389999999875443334444443332  245555543 222 1388999988   8


Q ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHh
Q psy17903        191 FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVT  260 (355)
Q Consensus       191 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~~~~It~~~v~~~~  260 (355)
                      +.+++|+.+++..++++.+...++.++++++++|++.++||+|.+.+.|+.+..++  .+..||.+.+++++
T Consensus       142 ~~l~~pd~~~~~~~l~k~~~~~~l~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~~it~~~~~~~l  213 (214)
T PRK06620        142 ILLNSPDDELIKILIFKHFSISSVTISRQIIDFLLVNLPREYSKIIEILENINYFALISKRKITISLVKEVL  213 (214)
T ss_pred             EeeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHh
Confidence            99999999999999999999899999999999999999999999999999986543  45679999888865

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

Probab=99.82  E-value=1e-17  Score=153.73  Aligned_cols=270  Identities=20%  Similarity=0.287  Sum_probs=184.6

Q ss_pred             ccccccCCCCCCcccccHHHHHHHHHH----HhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc
Q psy17903         34 PWVEKYRPKTIDDVIEQQEVVSVLKKC----LSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (355)
Q Consensus        34 ~~~~k~~p~~~~~~vg~~~~~~~l~~~----l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  109 (355)
                      .+.+-|-|..   +.+++..++.+...    +.++.+.++++||++|||||++++.+.+++........++++||.....
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            3445666655   78888888776655    4566666699999999999999999999997765555589999987655


Q ss_pred             hHHHHHHH-HHHHHhhccCCCCC---------CCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhh---ccCCccEEEEecC
Q psy17903        110 IQVIRDKV-KTFAQQTASGFNQD---------GKPCPPFKIVILDEADSMTHAAQAALRRTMEK---ETKSTRFCLICNY  176 (355)
Q Consensus       110 ~~~i~~~i-~~~~~~~~~~~~~~---------~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~---~~~~~~~Il~~~~  176 (355)
                      ...+...+ ..+...+..+....         -......-||++||+|.|....++.|+.++..   ....+.+|+++|+
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            54433332 22211111110000         00002445999999999987655555555543   3334567777776


Q ss_pred             C---ccccccccCCee--eEEecCCCHHHHHHHHHHHHHH--cCCCCCHHHHHHHHH---HcCCCHHHHHHHHHHHHHhh
Q psy17903        177 V---SCIIQPLTSRCS--KFRFKPLAENTMLTRLQYICEQ--ESVMCDFKALETLVE---TSGGDMRRAITCLQSCARLK  246 (355)
Q Consensus       177 ~---~~l~~~l~sr~~--~i~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~~~~l~~---~~~g~~r~~~~~l~~~~~~~  246 (355)
                      .   ..+.+.++|+..  .+.|+|++.+|+.+++..+++.  ..-.+++++++.++.   ..+||.|.++..|+.++..+
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            5   346788888876  6889999999999999999885  234577877777664   45789999999999998887


Q ss_pred             ---CCCCCCHHHHHHHhCCCChHHHHHHHhc-CCHHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHhc
Q psy17903        247 ---GGEGIVNEDVLEVTGVIPNPWIEKLLKV-DSFQVLEKYIEDLIL--EAYSATQLFDQFHDIVMSA  308 (355)
Q Consensus       247 ---~~~~It~~~v~~~~~~~~~~~~~~l~~~-~~~~~~~~~l~~l~~--~g~~~~~i~~~l~~~~~~~  308 (355)
                         +.+.++.+++..+..........+.++. ...+++.  +..+..  ...+...++..+...+...
T Consensus       246 e~~~~~~v~~~~v~~a~~~~~~~~~~~~~~~L~~~~ki~--L~~i~~~~~~~~~~~~y~~y~~~~~~~  311 (366)
T COG1474         246 EREGSRKVSEDHVREAQEEIERDVLEEVLKTLPLHQKIV--LLAIVELTVEISTGELYDVYESLCERL  311 (366)
T ss_pred             HhhCCCCcCHHHHHHHHHHhhHHHHHHHHHcCCHhHHHH--HHHHHHhcCCCChHHHHHHHHHHHhhh
Confidence               5678999999999776666666666654 2222221  222221  5677778888877777664

>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]

Probab=99.82  E-value=2.9e-17  Score=150.44  Aligned_cols=281  Identities=19%  Similarity=0.202  Sum_probs=213.7

Q ss_pred             HHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCC
Q psy17903         56 VLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKP  134 (355)
Q Consensus        56 ~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~  134 (355)
                      .+...+.+++... +++||+.-.-....+..+......+.........+..+ ....   ..+......+.++       
T Consensus         5 ~~~~~l~~~~~~~v~ll~G~d~~l~~e~~~~i~~~~~~~~~~~~~~~~~~~~-~~~~---~~~~~~~s~~lF~-------   73 (334)
T COG1466           5 ELAKHLKKKNLMPVYLLYGEDEGLLEEAADAILKRALADGFDENYSFFDDSE-LDWA---DLLSELESPSLFG-------   73 (334)
T ss_pred             HHHHHHhcCCCccEEEEecCChhHHHHHHHHHHHHHhccchhhHHhhccccc-CCHH---HHHHHhhcccccc-------
Confidence            3445555553444 99999997777777777777765333333333322222 1222   2233333333332       


Q ss_pred             CCCcEEEEEeCCCCCC-HHHHHHHHHHhhhcc-CCccEEEEecCCcc---c---cccccCCeeeEEecCCCHHHHHHHHH
Q psy17903        135 CPPFKIVILDEADSMT-HAAQAALRRTMEKET-KSTRFCLICNYVSC---I---IQPLTSRCSKFRFKPLAENTMLTRLQ  206 (355)
Q Consensus       135 ~~~~~vliiDe~d~l~-~~~~~~Ll~~le~~~-~~~~~Il~~~~~~~---l---~~~l~sr~~~i~~~~~~~~~~~~~l~  206 (355)
                        ++++++|+..+... .+....+.......+ ..+++++..+..++   .   ...+.. +..+.+.+++..++.+|+.
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              55799999998875 444455555555555 55555555544332   2   333333 6689999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHH
Q psy17903        207 YICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKY  283 (355)
Q Consensus       207 ~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~  283 (355)
                      ..+++.|+.+++++++.++...+||++.+.+++++++.+++++.||.++|..++....+.++++++++   ++..++...
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            99999999999999999999999999999999999999997779999999999999999999999998   999999999


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHh----------------------------------cCCCCHHHHHHHHHHHHHHHHH
Q psy17903        284 IEDLILEAYSATQLFDQFHDIVMS----------------------------------ASSLSDKQKALILEKLAECNAR  329 (355)
Q Consensus       284 l~~l~~~g~~~~~i~~~l~~~~~~----------------------------------~~~~~~~~~~~i~~~l~~~~~~  329 (355)
                      +++++.+|+.|..|+..+.++++.                                  ..+++...+.++++.+.++|+.
T Consensus       231 l~~L~~~ge~p~~il~~l~~~f~~~~~l~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~r~s~~~l~~~l~~l~~~d~~  310 (334)
T COG1466         231 LRDLLLEGEEPLKLLAALTRQFRLLLQLKALAEKGKSLQQAAKSLGIPYRRKKLFKKAARRLSLKQLLKALRLLAQLDYQ  310 (334)
T ss_pred             HHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHcCcCHHHHHHHhcCcHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHH
Confidence            999999999999999988877662                                  1238999999999999999999


Q ss_pred             hhCCC-ChHHHHHHHHHHHHHH
Q psy17903        330 LQDGA-SEYIQILDLGSIVIKA  350 (355)
Q Consensus       330 l~~g~-~~~~~l~~~~~~~~~~  350 (355)
                      +|+|. ++.+.++.++..++..
T Consensus       311 ~K~~~~d~~~~l~~~l~~~~~~  332 (334)
T COG1466         311 IKTGYGDPVWALELFLLRLLEL  332 (334)
T ss_pred             HhcCCccchHHHHHHHHHHhhc
Confidence            99994 8889999999988753

>CHL00181 cbbX CbbX; Provisional

Probab=99.82  E-value=1.1e-18  Score=155.78  Aligned_cols=190  Identities=17%  Similarity=0.181  Sum_probs=134.9

Q ss_pred             CcccccHHHHHHHHHHHh----------cC-----CCCeEEEECCCCCCHHHHHHHHHHHhcCCc--cccceeeecCCCc
Q psy17903         45 DDVIEQQEVVSVLKKCLS----------GA-----DLPHFLFYGPPGTGKTSTMIAACHQLFGDM--YRERILELNASDD  107 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~----------~~-----~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~--~~~~~~~~~~~~~  107 (355)
                      ++++|.+.++++|.+++.          .|     ...|++|+||||||||++|+++++.+....  ....+++++..+.
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l  102 (287)
T CHL00181         23 EELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDL  102 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHH
Confidence            378999999887766541          11     223599999999999999999999874321  1224666664431


Q ss_pred             cchH--HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCC---------CHHHHHHHHHHhhhccCCccEEEEecC
Q psy17903        108 RGIQ--VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM---------THAAQAALRRTMEKETKSTRFCLICNY  176 (355)
Q Consensus       108 ~~~~--~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l---------~~~~~~~Ll~~le~~~~~~~~Il~~~~  176 (355)
                      .+.-  .............            .++||||||++.+         ..+.++.|+..|++...++++|++++.
T Consensus       103 ~~~~~g~~~~~~~~~l~~a------------~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~  170 (287)
T CHL00181        103 VGQYIGHTAPKTKEVLKKA------------MGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYK  170 (287)
T ss_pred             HHHHhccchHHHHHHHHHc------------cCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCc
Confidence            1100  0000011111111            2249999999987         456788999999988888888888753


Q ss_pred             C--c---cccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--------cCCCHHHHHHHHHHH
Q psy17903        177 V--S---CIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVET--------SGGDMRRAITCLQSC  242 (355)
Q Consensus       177 ~--~---~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~--------~~g~~r~~~~~l~~~  242 (355)
                      .  .   ...|++++|+. .+.|++++.+++.+++...+++.+..+++++...+...        ..||.|.+.+.++++
T Consensus       171 ~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~~~~~~l~~~~~~~L~~~i~~~~~~~~~GNaR~vrn~ve~~  250 (287)
T CHL00181        171 DRMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIMLEEQQYQLTPEAEKALLDYIKKRMEQPLFANARSVRNALDRA  250 (287)
T ss_pred             HHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHhCCCCCCccHHHHHHHHHHH
Confidence            2  1   23589999988 89999999999999999999999999999887776654        348999999999887


Q ss_pred             HHhh
Q psy17903        243 ARLK  246 (355)
Q Consensus       243 ~~~~  246 (355)
                      ....
T Consensus       251 ~~~~  254 (287)
T CHL00181        251 RMRQ  254 (287)
T ss_pred             HHHH
Confidence            6543

>PRK09087 hypothetical protein; Validated

Probab=99.81  E-value=1.5e-18  Score=149.75  Aligned_cols=204  Identities=16%  Similarity=0.165  Sum_probs=145.0

Q ss_pred             CCCCccccccCCC-CCCcccc---cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC
Q psy17903         30 NKPVPWVEKYRPK-TIDDVIE---QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (355)
Q Consensus        30 ~~~~~~~~k~~p~-~~~~~vg---~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  105 (355)
                      ..|.++--.+.|. +|++++.   +..++..+.++.. ...+.++|+||+|+|||++++++++...       ...++..
T Consensus         5 ~~Ql~l~~~~~~~~~~~~Fi~~~~N~~a~~~l~~~~~-~~~~~l~l~G~~GsGKThLl~~~~~~~~-------~~~i~~~   76 (226)
T PRK09087          5 PEQLPLNFSHDPAYGRDDLLVTESNRAAVSLVDHWPN-WPSPVVVLAGPVGSGKTHLASIWREKSD-------ALLIHPN   76 (226)
T ss_pred             CcceeeCCCCCCCCChhceeecCchHHHHHHHHhccc-CCCCeEEEECCCCCCHHHHHHHHHHhcC-------CEEecHH
Confidence            4566665555555 7999884   4456666666542 2234499999999999999999998741       1223221


Q ss_pred             CccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccC-CccEEEEecCC----ccc
Q psy17903        106 DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK-STRFCLICNYV----SCI  180 (355)
Q Consensus       106 ~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~-~~~~Il~~~~~----~~l  180 (355)
                      . ...+    .+....                ..+|+|||++.+.. .+..|..++..... ...+|++++..    ...
T Consensus        77 ~-~~~~----~~~~~~----------------~~~l~iDDi~~~~~-~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~  134 (226)
T PRK09087         77 E-IGSD----AANAAA----------------EGPVLIEDIDAGGF-DETGLFHLINSVRQAGTSLLMTSRLWPSSWNVK  134 (226)
T ss_pred             H-cchH----HHHhhh----------------cCeEEEECCCCCCC-CHHHHHHHHHHHHhCCCeEEEECCCChHHhccc
Confidence            1 1111    111100                12899999998753 34556666643222 34566666643    224


Q ss_pred             cccccCCe---eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHH
Q psy17903        181 IQPLTSRC---SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNED  255 (355)
Q Consensus       181 ~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~~~~It~~~  255 (355)
                      .+.++||+   ..+++++|+.+++..++++.++..++.++++++++|++.+.|+++.+...+.++..++  .+..||.+.
T Consensus       135 ~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~~~~~~l~~ev~~~La~~~~r~~~~l~~~l~~L~~~~~~~~~~it~~~  214 (226)
T PRK09087        135 LPDLKSRLKAATVVEIGEPDDALLSQVIFKLFADRQLYVDPHVVYYLVSRMERSLFAAQTIVDRLDRLALERKSRITRAL  214 (226)
T ss_pred             cccHHHHHhCCceeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            68899998   6999999999999999999999999999999999999999999999999888876555  467899999


Q ss_pred             HHHHhCCC
Q psy17903        256 VLEVTGVI  263 (355)
Q Consensus       256 v~~~~~~~  263 (355)
                      +++++...
T Consensus       215 ~~~~l~~~  222 (226)
T PRK09087        215 AAEVLNEM  222 (226)
T ss_pred             HHHHHHhh
Confidence            99988643

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.80  E-value=3e-18  Score=153.06  Aligned_cols=185  Identities=17%  Similarity=0.199  Sum_probs=135.9

Q ss_pred             cccccHHHHHHHHHHHh----------cCC-----CCeEEEECCCCCCHHHHHHHHHHHhcCCcc--ccceeeecCCCcc
Q psy17903         46 DVIEQQEVVSVLKKCLS----------GAD-----LPHFLFYGPPGTGKTSTMIAACHQLFGDMY--RERILELNASDDR  108 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~----------~~~-----~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~--~~~~~~~~~~~~~  108 (355)
                      +++|.+++++.+..++.          .|.     ..|++|+||||||||++|+++++.+....+  ..+++.+++.+..
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            68999998888766431          111     125999999999999999999998754221  2346666653321


Q ss_pred             c------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCC---------CHHHHHHHHHHhhhccCCccEEEE
Q psy17903        109 G------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM---------THAAQAALRRTMEKETKSTRFCLI  173 (355)
Q Consensus       109 ~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l---------~~~~~~~Ll~~le~~~~~~~~Il~  173 (355)
                      +      ...+.+.+..    .            ...+|||||++.|         ..+.++.|+..|++....+++|++
T Consensus       103 ~~~~g~~~~~~~~~~~~----a------------~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a  166 (284)
T TIGR02880       103 GQYIGHTAPKTKEILKR----A------------MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILA  166 (284)
T ss_pred             HhhcccchHHHHHHHHH----c------------cCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEe
Confidence            1      0111111111    0            1239999999987         245678999999988878888887


Q ss_pred             ecCC--c---cccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--------cCCCHHHHHHHH
Q psy17903        174 CNYV--S---CIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVET--------SGGDMRRAITCL  239 (355)
Q Consensus       174 ~~~~--~---~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~--------~~g~~r~~~~~l  239 (355)
                      ++..  .   .+.|++++|+. .++|++++.+++..++...+++.+..+++++.+.+..+        +.||.|.+.|.+
T Consensus       167 ~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~~~~~~l~~~a~~~L~~~l~~~~~~~~~GN~R~lrn~v  246 (284)
T TIGR02880       167 GYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLKEQQYRFSAEAEEAFADYIALRRTQPHFANARSIRNAI  246 (284)
T ss_pred             CCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHhCCCCCCChHHHHHHHH
Confidence            7542  2   24689999986 89999999999999999999999889999998888765        479999999999


Q ss_pred             HHHHHhh
Q psy17903        240 QSCARLK  246 (355)
Q Consensus       240 ~~~~~~~  246 (355)
                      +.+....
T Consensus       247 e~~~~~~  253 (284)
T TIGR02880       247 DRARLRQ  253 (284)
T ss_pred             HHHHHHH
Confidence            9887644

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.

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

Probab=99.80  E-value=2.4e-18  Score=172.80  Aligned_cols=220  Identities=19%  Similarity=0.193  Sum_probs=161.2

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCcc-----ccceeeecCCC
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-----RERILELNASD  106 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~~~~  106 (355)
                      ..+++++.||..+++++|+++.+..+.+.+.....++++|+||||||||++++.+++.+.....     +..++.++...
T Consensus       169 ~~~l~~~~r~~~l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~  248 (731)
T TIGR02639       169 TVDLTEKAKNGKIDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGS  248 (731)
T ss_pred             hhhHHHHHhcCCCCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHH
Confidence            5688999999999999999999999999998888888999999999999999999999743221     33455665432


Q ss_pred             cc----chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH---------HHHHHHHHHhhhccCCccEEEE
Q psy17903        107 DR----GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH---------AAQAALRRTMEKETKSTRFCLI  173 (355)
Q Consensus       107 ~~----~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~---------~~~~~Ll~~le~~~~~~~~Il~  173 (355)
                      ..    ......+.+..........         ...||||||+|.+..         +.++.|...|++  ..+++|.+
T Consensus       249 l~a~~~~~g~~e~~l~~i~~~~~~~---------~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~--g~i~~Iga  317 (731)
T TIGR02639       249 LLAGTKYRGDFEERLKAVVSEIEKE---------PNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSS--GKLRCIGS  317 (731)
T ss_pred             HhhhccccchHHHHHHHHHHHHhcc---------CCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhC--CCeEEEEe
Confidence            21    1112222232222211000         123999999998852         346778888874  45778888


Q ss_pred             ecCC-----ccccccccCCeeeEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCCC------HHHHHHH
Q psy17903        174 CNYV-----SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGGD------MRRAITC  238 (355)
Q Consensus       174 ~~~~-----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~g~------~r~~~~~  238 (355)
                      |+..     ....+++.+|+..+.+++|+.++...+++.....    .++.++++++..++..++..      ++++++.
T Consensus       318 Tt~~e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~~~~e~~~~v~i~~~al~~~~~ls~ryi~~r~~P~kai~l  397 (731)
T TIGR02639       318 TTYEEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLKEKYEEFHHVKYSDEALEAAVELSARYINDRFLPDKAIDV  397 (731)
T ss_pred             cCHHHHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHHHHHHhccCcccCHHHHHHHHHhhhcccccccCCHHHHHH
Confidence            8752     2367899999999999999999999999977654    46789999999999887542      7889999


Q ss_pred             HHHHHHhh-------CCCCCCHHHHHHHhCC
Q psy17903        239 LQSCARLK-------GGEGIVNEDVLEVTGV  262 (355)
Q Consensus       239 l~~~~~~~-------~~~~It~~~v~~~~~~  262 (355)
                      ++.++...       ....|+.+++.+++..
T Consensus       398 ld~a~a~~~~~~~~~~~~~v~~~~i~~~i~~  428 (731)
T TIGR02639       398 IDEAGASFRLRPKAKKKANVSVKDIENVVAK  428 (731)
T ss_pred             HHHhhhhhhcCcccccccccCHHHHHHHHHH
Confidence            98766432       1234888888877643

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=99.80  E-value=3e-18  Score=163.36  Aligned_cols=215  Identities=21%  Similarity=0.352  Sum_probs=136.1

Q ss_pred             CCCCccccccCCCCCCcccccHHHHHHHHHHHhcC---CCC--eEEEECCCCCCHHHHHHHHHHHhcCCcc--cccee--
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGA---DLP--HFLFYGPPGTGKTSTMIAACHQLFGDMY--RERIL--  100 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~---~~~--~~ll~Gp~G~GKt~la~~l~~~l~~~~~--~~~~~--  100 (355)
                      +...+|++||+|++.++++.|++-++.++.|++..   ..+  -+||+||+|||||++++.++++++.+..  ..+..  
T Consensus         4 ~~~~~W~~ky~P~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~Ew~np~~~~   83 (519)
T PF03215_consen    4 DESEPWVEKYAPKTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQEWINPVSFR   83 (519)
T ss_pred             cccCccchhcCCCCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhCCeeEEecCCCCcc
Confidence            56789999999999999999999999999998753   222  2899999999999999999999854211  11110  


Q ss_pred             eec--CCCcc----chHHHHHHHHHHHHhhccCCCC------CCCCCCCcEEEEEeCCCCCCHHHHHHH----HHHhhhc
Q psy17903        101 ELN--ASDDR----GIQVIRDKVKTFAQQTASGFNQ------DGKPCPPFKIVILDEADSMTHAAQAAL----RRTMEKE  164 (355)
Q Consensus       101 ~~~--~~~~~----~~~~i~~~i~~~~~~~~~~~~~------~~~~~~~~~vliiDe~d~l~~~~~~~L----l~~le~~  164 (355)
                      +.+  ..+..    ..+.+......|..........      ......+++||+|||+..+.......|    ++++...
T Consensus        84 ~~~~~~~d~~s~~~~~~~f~sq~~~F~~f~l~~s~y~~l~~~g~~~~~~~kvILVEDlPN~~~~~~~~f~~~L~~~l~~~  163 (519)
T PF03215_consen   84 ESDNQEDDFESDFNKFDEFLSQSDKFSEFLLRASKYSSLSMSGSNSSSNKKVILVEDLPNVFHRDTSRFREALRQYLRSS  163 (519)
T ss_pred             ccccccccccccccccccccchhhhhccccccccccccccccCCCcCCCceEEEeeccccccchhHHHHHHHHHHHHHcC
Confidence            000  00000    0011112222232221111000      111113678999999998755443444    4444433


Q ss_pred             cC-CccEEEEe-cC------Cc-------cc-cccccC--CeeeEEecCCCHHHHHHHHHHHHHHc-----CC-CCC--H
Q psy17903        165 TK-STRFCLIC-NY------VS-------CI-IQPLTS--RCSKFRFKPLAENTMLTRLQYICEQE-----SV-MCD--F  218 (355)
Q Consensus       165 ~~-~~~~Il~~-~~------~~-------~l-~~~l~s--r~~~i~~~~~~~~~~~~~l~~~~~~~-----~~-~~~--~  218 (355)
                      .. .++||++- +.      ..       .+ .+.+..  ++..|.|.|+...-+...|.+++..+     +. ..+  .
T Consensus       164 ~~~PlV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~~~i~~I~FNpIa~T~mkKaL~rI~~~E~~~~~~~~~~p~~~  243 (519)
T PF03215_consen  164 RCLPLVFIISETESLSGDNSYRSNSFTAERLFPKEILNHPGITRIKFNPIAPTFMKKALKRILKKEARSSSGKNKVPDKQ  243 (519)
T ss_pred             CCCCEEEEEecccccCCCCcccccchhhhhccCHHHHhCCCceEEEecCCCHHHHHHHHHHHHHHHhhhhcCCccCCChH
Confidence            33 34444441 11      00       12 234443  34589999999999999999999987     22 222  3


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        219 KALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       219 ~~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                      +.++.|+..++||+|.|++.||.++.
T Consensus       244 ~~l~~I~~~s~GDIRsAIn~LQf~~~  269 (519)
T PF03215_consen  244 SVLDSIAESSNGDIRSAINNLQFWCL  269 (519)
T ss_pred             HHHHHHHHhcCchHHHHHHHHHHHhc
Confidence            56899999999999999999999887

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.79  E-value=2.2e-17  Score=156.17  Aligned_cols=212  Identities=11%  Similarity=0.178  Sum_probs=146.9

Q ss_pred             CCCCCccc-ccH--HHHHHHHHHHhcC-C-CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc--hHHH
Q psy17903         41 PKTIDDVI-EQQ--EVVSVLKKCLSGA-D-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG--IQVI  113 (355)
Q Consensus        41 p~~~~~~v-g~~--~~~~~l~~~l~~~-~-~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~--~~~i  113 (355)
                      +-+|+.++ |..  .+......+.... . .++++|||++|+|||++++++++.+.....+..++++++.+...  ...+
T Consensus       111 ~~tFdnFv~g~~n~~A~~aa~~~a~~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~~~l  190 (450)
T PRK14087        111 ENTFENFVIGSSNEQAFIAVQTVSKNPGISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAVDIL  190 (450)
T ss_pred             ccchhcccCCCcHHHHHHHHHHHHhCcCcccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHH
Confidence            45788887 332  2445555555532 2 23499999999999999999999875433334566666543211  0111


Q ss_pred             HH---HHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC--HHHHHHHHHHhhhcc-CCccEEEEecCCc----ccccc
Q psy17903        114 RD---KVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT--HAAQAALRRTMEKET-KSTRFCLICNYVS----CIIQP  183 (355)
Q Consensus       114 ~~---~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~--~~~~~~Ll~~le~~~-~~~~~Il~~~~~~----~l~~~  183 (355)
                      ..   .+..+....           ....+|+|||++.+.  ...++.|..++.... ....+|++++...    .+.+.
T Consensus       191 ~~~~~~~~~~~~~~-----------~~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~r  259 (450)
T PRK14087        191 QKTHKEIEQFKNEI-----------CQNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNR  259 (450)
T ss_pred             HHhhhHHHHHHHHh-----------ccCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHH
Confidence            11   111111110           023499999999987  456677777665422 2235777777542    35678


Q ss_pred             ccCCee---eEEecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--C--CCCCCHH
Q psy17903        184 LTSRCS---KFRFKPLAENTMLTRLQYICEQESV--MCDFKALETLVETSGGDMRRAITCLQSCARLK--G--GEGIVNE  254 (355)
Q Consensus       184 l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~--~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~--~~~It~~  254 (355)
                      |++|+.   .+.+.+|+.++...++++.++..|.  .++++++++|+..++||+|.+.+.|.++..++  .  +..||.+
T Consensus       260 L~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~  339 (450)
T PRK14087        260 LITRFNMGLSIAIQKLDNKTATAIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIE  339 (450)
T ss_pred             HHHHHhCCceeccCCcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHH
Confidence            888875   8999999999999999999998775  69999999999999999999999999886554  2  3679999


Q ss_pred             HHHHHhCCC
Q psy17903        255 DVLEVTGVI  263 (355)
Q Consensus       255 ~v~~~~~~~  263 (355)
                      .+.+++...
T Consensus       340 ~v~~~l~~~  348 (450)
T PRK14087        340 IVSDLFRDI  348 (450)
T ss_pred             HHHHHHhhc
Confidence            999988653

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.79  E-value=1.2e-16  Score=153.04  Aligned_cols=217  Identities=17%  Similarity=0.176  Sum_probs=148.9

Q ss_pred             cccccCCC-CCCcccc-cHH--HHHHHHHHHhc-CCC-CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc
Q psy17903         35 WVEKYRPK-TIDDVIE-QQE--VVSVLKKCLSG-ADL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (355)
Q Consensus        35 ~~~k~~p~-~~~~~vg-~~~--~~~~l~~~l~~-~~~-~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  108 (355)
                      +.....+. +|++|+. ...  +......++.+ +.. ..++|||++|+|||+|+.++++.+........++++++.+..
T Consensus       277 ~~a~L~~~~TFDnFvvG~sN~~A~aaa~avae~~~~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~  356 (617)
T PRK14086        277 PTARLNPKYTFDTFVIGASNRFAHAAAVAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFT  356 (617)
T ss_pred             ccCCCCCCCCHhhhcCCCccHHHHHHHHHHHhCccccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHH
Confidence            44444443 6898873 322  33344555543 222 239999999999999999999997543223455666654321


Q ss_pred             c--hHHHHH-HHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--HHHHHHHHHhhhccC-CccEEEEecCC----c
Q psy17903        109 G--IQVIRD-KVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKETK-STRFCLICNYV----S  178 (355)
Q Consensus       109 ~--~~~i~~-~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--~~~~~Ll~~le~~~~-~~~~Il~~~~~----~  178 (355)
                      .  ...++. ....|....           ....+|+|||++.+..  ..+..|+.+++.... +..+|++++..    .
T Consensus       357 ~el~~al~~~~~~~f~~~y-----------~~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~  425 (617)
T PRK14086        357 NEFINSIRDGKGDSFRRRY-----------REMDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLV  425 (617)
T ss_pred             HHHHHHHHhccHHHHHHHh-----------hcCCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhh
Confidence            0  011111 111111110           0234999999999954  335667666654332 34567777754    2


Q ss_pred             cccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCH
Q psy17903        179 CIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVN  253 (355)
Q Consensus       179 ~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~~~~It~  253 (355)
                      .+.+.|+||+.   .+.+.+|+.+....+|++.+...++.++++++++|+....+|+|.+...|.++..++  .+..||.
T Consensus       426 ~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka~~r~l~l~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl  505 (617)
T PRK14086        426 TLEDRLRNRFEWGLITDVQPPELETRIAILRKKAVQEQLNAPPEVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDL  505 (617)
T ss_pred             hccHHHHhhhhcCceEEcCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCH
Confidence            46678999976   899999999999999999999999999999999999999999999999999887665  4567999


Q ss_pred             HHHHHHhCC
Q psy17903        254 EDVLEVTGV  262 (355)
Q Consensus       254 ~~v~~~~~~  262 (355)
                      +.+++++..
T Consensus       506 ~la~~vL~~  514 (617)
T PRK14086        506 GLTEIVLRD  514 (617)
T ss_pred             HHHHHHHHH
Confidence            988887753

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.79  E-value=1.1e-17  Score=161.45  Aligned_cols=212  Identities=20%  Similarity=0.195  Sum_probs=143.7

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHh-----------cCCCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccce
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLS-----------GADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERI   99 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~-----------~~~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~   99 (355)
                      ...+.+.....+|++++|.++++..+.+++.           +...+ ++||+||||||||++++++++..     ..++
T Consensus        42 ~~~~~~~~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~-----~~~~  116 (495)
T TIGR01241        42 AKLLNEEKPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA-----GVPF  116 (495)
T ss_pred             cccccCCCCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc-----CCCe
Confidence            3344455556689999999999888776653           12333 39999999999999999999987     3456


Q ss_pred             eeecCCCcc------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH--------------HHHHHHH
Q psy17903        100 LELNASDDR------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRR  159 (355)
Q Consensus       100 ~~~~~~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~--------------~~~~Ll~  159 (355)
                      +.+++++..      +...++..+......         .|    .||||||+|.+...              ..+.|+.
T Consensus       117 ~~i~~~~~~~~~~g~~~~~l~~~f~~a~~~---------~p----~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~  183 (495)
T TIGR01241       117 FSISGSDFVEMFVGVGASRVRDLFEQAKKN---------AP----CIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLV  183 (495)
T ss_pred             eeccHHHHHHHHhcccHHHHHHHHHHHHhc---------CC----CEEEEechhhhhhccccCcCCccHHHHHHHHHHHh
Confidence            666655421      122333333332211         11    29999999988532              2345555


Q ss_pred             Hhhhc--cCCccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHH
Q psy17903        160 TMEKE--TKSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMR  233 (355)
Q Consensus       160 ~le~~--~~~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r  233 (355)
                      .|+..  ...+++|.+||.++.+.+++.++++   .+.++.|+.++..++++..+...... ++..+..+++.+.| +.+
T Consensus       184 ~~d~~~~~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~-~~~~l~~la~~t~G~sga  262 (495)
T TIGR01241       184 EMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLA-PDVDLKAVARRTPGFSGA  262 (495)
T ss_pred             hhccccCCCCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCC-cchhHHHHHHhCCCCCHH
Confidence            55532  2357788889999999999987543   79999999999999999888765443 34456778888765 445


Q ss_pred             HHHHHHHHHHHhh---CCCCCCHHHHHHHhCC
Q psy17903        234 RAITCLQSCARLK---GGEGIVNEDVLEVTGV  262 (355)
Q Consensus       234 ~~~~~l~~~~~~~---~~~~It~~~v~~~~~~  262 (355)
                      .+.+.++.++..+   +...|+.+++.+++..
T Consensus       263 dl~~l~~eA~~~a~~~~~~~i~~~~l~~a~~~  294 (495)
T TIGR01241       263 DLANLLNEAALLAARKNKTEITMNDIEEAIDR  294 (495)
T ss_pred             HHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            5555555444332   4567999999987753

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.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.79  E-value=6.9e-17  Score=152.32  Aligned_cols=207  Identities=15%  Similarity=0.202  Sum_probs=145.0

Q ss_pred             CCCccc-ccHH--HHHHHHHHHhcCC--CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHH
Q psy17903         43 TIDDVI-EQQE--VVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV  117 (355)
Q Consensus        43 ~~~~~v-g~~~--~~~~l~~~l~~~~--~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i  117 (355)
                      +|+.++ |...  +......+.....  ...++||||+|+|||++++++++++........++++++.+..  ..+...+
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            577754 5432  3455555555422  2238999999999999999999998654334456666654321  1111111


Q ss_pred             -----HHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--HHHHHHHHHhhhc-cCCccEEEEecCC----cccccccc
Q psy17903        118 -----KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKE-TKSTRFCLICNYV----SCIIQPLT  185 (355)
Q Consensus       118 -----~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--~~~~~Ll~~le~~-~~~~~~Il~~~~~----~~l~~~l~  185 (355)
                           ..+.... .          ...+|+|||+|.+..  ..+..|+..++.. ..+..+|++++..    ..+.+.++
T Consensus       186 ~~~~~~~~~~~~-~----------~~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~  254 (405)
T TIGR00362       186 RNNKMEEFKEKY-R----------SVDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLR  254 (405)
T ss_pred             HcCCHHHHHHHH-H----------hCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhh
Confidence                 1111100 0          123999999999864  3456677666542 2334567777643    23567899


Q ss_pred             CCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHh
Q psy17903        186 SRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVT  260 (355)
Q Consensus       186 sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~~~~It~~~v~~~~  260 (355)
                      +|+.   .++|.+|+.++...+++..++..++.++++++++|++.+.||+|.+...|.++..++  .+..||.+.+.+++
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            9985   799999999999999999999999999999999999999999999998888887665  45779999998887


Q ss_pred             CC
Q psy17903        261 GV  262 (355)
Q Consensus       261 ~~  262 (355)
                      ..
T Consensus       335 ~~  336 (405)
T TIGR00362       335 KD  336 (405)
T ss_pred             HH
Confidence            54

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).

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.78  E-value=8.8e-17  Score=153.40  Aligned_cols=208  Identities=14%  Similarity=0.192  Sum_probs=147.0

Q ss_pred             CCCccc-cc--HHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHH
Q psy17903         43 TIDDVI-EQ--QEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV  117 (355)
Q Consensus        43 ~~~~~v-g~--~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i  117 (355)
                      +|+.++ |.  ..+......+....  ..+.++||||+|+|||++++++++++........++++++.+..  ..+...+
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            688866 42  33556666666542  22349999999999999999999998654334456666665421  1111111


Q ss_pred             H-----HHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--HHHHHHHHHhhhc-cCCccEEEEecCC-c---ccccccc
Q psy17903        118 K-----TFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKE-TKSTRFCLICNYV-S---CIIQPLT  185 (355)
Q Consensus       118 ~-----~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--~~~~~Ll~~le~~-~~~~~~Il~~~~~-~---~l~~~l~  185 (355)
                      .     .+.... .          ...+|+|||+|.+..  ..+..|+.+++.. .....+|++++.+ .   .+.+.++
T Consensus       198 ~~~~~~~~~~~~-~----------~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~  266 (450)
T PRK00149        198 RNNTMEEFKEKY-R----------SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLR  266 (450)
T ss_pred             HcCcHHHHHHHH-h----------cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHH
Confidence            1     111100 0          223999999999854  3456666655432 1223466667643 2   2567899


Q ss_pred             CCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHh
Q psy17903        186 SRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVT  260 (355)
Q Consensus       186 sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~~~~It~~~v~~~~  260 (355)
                      ||+.   .++|.+|+.+++..+++..+...++.++++++++|++.+.||+|.+...|..+..++  .+..||.+.+.+++
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   799999999999999999999999999999999999999999999999998887665  45679999999888


Q ss_pred             CCC
Q psy17903        261 GVI  263 (355)
Q Consensus       261 ~~~  263 (355)
                      ...
T Consensus       347 ~~~  349 (450)
T PRK00149        347 KDL  349 (450)
T ss_pred             HHh
Confidence            643

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

Probab=99.77  E-value=1.5e-17  Score=155.37  Aligned_cols=215  Identities=18%  Similarity=0.228  Sum_probs=140.9

Q ss_pred             CCCCCccccccCCCCCCcccccHHHHHHHHHHHhc-----------C-CCC-eEEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         29 RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------A-DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        29 ~~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----------~-~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      +.-..++.+++.+.+|+++.|.+.+++.|.+++.-           + ..+ ++|||||||||||++|+++++.+..   
T Consensus       167 ~~~~~~~~~~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~---  243 (438)
T PTZ00361        167 PLVSVMKVDKAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSA---  243 (438)
T ss_pred             hhhhhcccccCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCC---
Confidence            33356678888888999999999999999887741           1 222 3999999999999999999999743   


Q ss_pred             ccceeeecCCCcc------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHH
Q psy17903         96 RERILELNASDDR------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALR  158 (355)
Q Consensus        96 ~~~~~~~~~~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll  158 (355)
                        .++.+.+++..      +...++..+.....         ..+    .+|||||+|.+..           +.+..++
T Consensus       244 --~fi~V~~seL~~k~~Ge~~~~vr~lF~~A~~---------~~P----~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll  308 (438)
T PTZ00361        244 --TFLRVVGSELIQKYLGDGPKLVRELFRVAEE---------NAP----SIVFIDEIDAIGTKRYDATSGGEKEIQRTML  308 (438)
T ss_pred             --CEEEEecchhhhhhcchHHHHHHHHHHHHHh---------CCC----cEEeHHHHHHHhccCCCCCCcccHHHHHHHH
Confidence              45555554321      11122222222111         112    2999999987742           2233344


Q ss_pred             HHh---hh--ccCCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q psy17903        159 RTM---EK--ETKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG  230 (355)
Q Consensus       159 ~~l---e~--~~~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g  230 (355)
                      .++   +.  ...++.+|++||.++.+.+++.+  |+. .|+|++|+.++..++++.++.+..+.- +..+..++..+.|
T Consensus       309 ~LL~~Ldg~~~~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~-dvdl~~la~~t~g  387 (438)
T PTZ00361        309 ELLNQLDGFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAE-DVDLEEFIMAKDE  387 (438)
T ss_pred             HHHHHHhhhcccCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCc-CcCHHHHHHhcCC
Confidence            443   32  23467899999999999999876  443 799999999999999998876654322 1234555555433


Q ss_pred             -CHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCC
Q psy17903        231 -DMRRAITCLQSCARLK---GGEGIVNEDVLEVTGV  262 (355)
Q Consensus       231 -~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~~  262 (355)
                       +...+.+.+..++..+   +...|+.+|+.++...
T Consensus       388 ~sgAdI~~i~~eA~~~Alr~~r~~Vt~~D~~~A~~~  423 (438)
T PTZ00361        388 LSGADIKAICTEAGLLALRERRMKVTQADFRKAKEK  423 (438)
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCCccCHHHHHHHHHH
Confidence             3344444444444333   5567999999886643

>KOG0733|consensus

Probab=99.77  E-value=8.9e-18  Score=156.21  Aligned_cols=182  Identities=21%  Similarity=0.252  Sum_probs=138.6

Q ss_pred             CCCcccccHHHHHHHHHHHh----------cC-CCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc---
Q psy17903         43 TIDDVIEQQEVVSVLKKCLS----------GA-DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD---  107 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~----------~~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~---  107 (355)
                      +|.++.|.+..+..|...+-          -| .+|. +|||||||||||.+|++++.++     ..+++.+++.+.   
T Consensus       188 ~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel-----~vPf~~isApeivSG  262 (802)
T KOG0733|consen  188 SFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGEL-----GVPFLSISAPEIVSG  262 (802)
T ss_pred             chhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhc-----CCceEeecchhhhcc
Confidence            59999999999988887662          12 2333 9999999999999999999998     556777776553   


Q ss_pred             ---cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHH-----------HHHHHHHhhhcc------CC
Q psy17903        108 ---RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA-----------QAALRRTMEKET------KS  167 (355)
Q Consensus       108 ---~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~-----------~~~Ll~~le~~~------~~  167 (355)
                         .+...+++.+.+.....         ||    |+||||+|.+.+..           ...|+..|++..      ..
T Consensus       263 vSGESEkkiRelF~~A~~~a---------Pc----ivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g~~  329 (802)
T KOG0733|consen  263 VSGESEKKIRELFDQAKSNA---------PC----IVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKGDP  329 (802)
T ss_pred             cCcccHHHHHHHHHHHhccC---------Ce----EEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCCCC
Confidence               22356777776655443         33    99999999997632           245777776532      45


Q ss_pred             ccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy17903        168 TRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCA  243 (355)
Q Consensus       168 ~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~  243 (355)
                      +++|.+||.++.+.++|++-++   .|.+.-|++.+..++|+.+|+...+.- +-....|+..++|.++.-+..|-..+
T Consensus       330 VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g-~~d~~qlA~lTPGfVGADL~AL~~~A  407 (802)
T KOG0733|consen  330 VLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSG-DFDFKQLAKLTPGFVGADLMALCREA  407 (802)
T ss_pred             eEEEecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCC-CcCHHHHHhcCCCccchhHHHHHHHH
Confidence            7888899999999999998776   799999999999999999998765543 23367788999998887766664443

>KOG0730|consensus

Probab=99.77  E-value=9.6e-18  Score=157.81  Aligned_cols=208  Identities=19%  Similarity=0.206  Sum_probs=149.6

Q ss_pred             ccCCCCCCcccccHHHHHHHHHHHh-----------cC-CCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC
Q psy17903         38 KYRPKTIDDVIEQQEVVSVLKKCLS-----------GA-DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (355)
Q Consensus        38 k~~p~~~~~~vg~~~~~~~l~~~l~-----------~~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  104 (355)
                      .....+|+++.|.++++..|++.+.           -| ..|. +|||||||||||++|++++++.     ..+|+.+.+
T Consensus       427 e~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~-----~~nFlsvkg  501 (693)
T KOG0730|consen  427 EMPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEA-----GMNFLSVKG  501 (693)
T ss_pred             cCCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhh-----cCCeeeccC
Confidence            3345589999999999999998773           22 3333 9999999999999999999998     446667666


Q ss_pred             CCcc------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH-----------HHHHHHHHhhh--cc
Q psy17903        105 SDDR------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-----------AQAALRRTMEK--ET  165 (355)
Q Consensus       105 ~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~-----------~~~~Ll~~le~--~~  165 (355)
                      ++..      +...+++.+.......+             -|||+||+|.+..+           ..+.|+.-|+-  ..
T Consensus       502 pEL~sk~vGeSEr~ir~iF~kAR~~aP-------------~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~  568 (693)
T KOG0730|consen  502 PELFSKYVGESERAIREVFRKARQVAP-------------CIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEAL  568 (693)
T ss_pred             HHHHHHhcCchHHHHHHHHHHHhhcCC-------------eEEehhhHHhHhhccCCCccchHHHHHHHHHHHccccccc
Confidence            5422      23456666665544332             29999999998543           23455555542  23


Q ss_pred             CCccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCC-CHHHHHHHHH
Q psy17903        166 KSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVETSGG-DMRRAITCLQ  240 (355)
Q Consensus       166 ~~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~~~~l~~~~~g-~~r~~~~~l~  240 (355)
                      .++.+|.+||.++.+++++.+.++   .+.+++|+.+...++++..+++  .+++++ .++.|++.+.| +-+.+.+.++
T Consensus       569 k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kk--mp~~~~vdl~~La~~T~g~SGAel~~lCq  646 (693)
T KOG0730|consen  569 KNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKK--MPFSEDVDLEELAQATEGYSGAEIVAVCQ  646 (693)
T ss_pred             CcEEEEeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhc--CCCCccccHHHHHHHhccCChHHHHHHHH
Confidence            578888899999999999999554   7999999999999999988866  445554 68888888755 4455556666


Q ss_pred             HHHHhh-----CCCCCCHHHHHHHhCCCCh
Q psy17903        241 SCARLK-----GGEGIVNEDVLEVTGVIPN  265 (355)
Q Consensus       241 ~~~~~~-----~~~~It~~~v~~~~~~~~~  265 (355)
                      .++.++     .-..|+.+++.+++.....
T Consensus       647 ~A~~~a~~e~i~a~~i~~~hf~~al~~~r~  676 (693)
T KOG0730|consen  647 EAALLALRESIEATEITWQHFEEALKAVRP  676 (693)
T ss_pred             HHHHHHHHHhcccccccHHHHHHHHHhhcc
Confidence            666655     2345777777777654433

>KOG1970|consensus

Probab=99.77  E-value=2.8e-17  Score=151.52  Aligned_cols=207  Identities=23%  Similarity=0.352  Sum_probs=137.0

Q ss_pred             CCCccccccCCCCCCcccccHHHHHHHHHHHh-----cCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeec
Q psy17903         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLS-----GADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (355)
Q Consensus        31 ~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~-----~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~  103 (355)
                      ..-+|.+||+|.+.+++..|+.-+..+++|++     ....++  +||+||+||||||+++.++++++-.     +.+..
T Consensus        68 ~~elW~eKy~P~t~eeLAVHkkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskelg~~-----~~Ew~  142 (634)
T KOG1970|consen   68 EFELWVEKYKPRTLEELAVHKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKELGYQ-----LIEWS  142 (634)
T ss_pred             ccchhHHhcCcccHHHHhhhHHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhhCce-----eeeec
Confidence            35789999999999999999999999999998     555555  9999999999999999999998532     22211


Q ss_pred             -------CCCcc----c----hHHHHHHHHHHHHhh----ccCCCCCCCCCCCcEEEEEeCCCCCCHH-H----HHHHHH
Q psy17903        104 -------ASDDR----G----IQVIRDKVKTFAQQT----ASGFNQDGKPCPPFKIVILDEADSMTHA-A----QAALRR  159 (355)
Q Consensus       104 -------~~~~~----~----~~~i~~~i~~~~~~~----~~~~~~~~~~~~~~~vliiDe~d~l~~~-~----~~~Ll~  159 (355)
                             .....    +    ...--..++.|....    ....... ....++++|+|||+...... .    ++.|..
T Consensus       143 Npi~~~~~~~~h~~t~~~~~~~~s~L~~fesFler~~kyg~l~~~g~-~~~~~~~liLveDLPn~~~~d~~~~f~evL~~  221 (634)
T KOG1970|consen  143 NPINLKEPENLHNETSFLMFPYQSQLAVFESFLLRATKYGSLQMSGD-DLRTDKKLILVEDLPNQFYRDDSETFREVLRL  221 (634)
T ss_pred             CCccccccccccccchhcccchhhHHHHHHHHHHHHHhhchhhhccc-ccccCceEEEeeccchhhhhhhHHHHHHHHHH
Confidence                   00000    0    111111122222211    1110111 11125679999999877543 3    334444


Q ss_pred             HhhhccCCccEEEEecCC-------cc-ccccc--cCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCC------HHHHHH
Q psy17903        160 TMEKETKSTRFCLICNYV-------SC-IIQPL--TSRCSKFRFKPLAENTMLTRLQYICEQESVMCD------FKALET  223 (355)
Q Consensus       160 ~le~~~~~~~~Il~~~~~-------~~-l~~~l--~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~------~~~~~~  223 (355)
                      +...+...++|| +|+..       .+ ....+  .-|...|.|.|+...-+...|+.+|..+....+      ...++.
T Consensus       222 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  222 YVSIGRCPLIFI-ITDSLSNGNNNQDRLFPKDIQEEPRISNISFNPIAPTIMKKFLKRICRIEANKKSGIKVPDTAEVEL  300 (634)
T ss_pred             HHhcCCCcEEEE-EeccccCCCcchhhhchhhhhhccCcceEeecCCcHHHHHHHHHHHHHHhcccccCCcCchhHHHHH
Confidence            444333334444 44321       11 22333  344458999999999999999999999877766      567888


Q ss_pred             HHHHcCCCHHHHHHHHHHHHH
Q psy17903        224 LVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       224 l~~~~~g~~r~~~~~l~~~~~  244 (355)
                      ++..++||+|.|++.||.-+.
T Consensus       301 i~~~s~GDIRsAInsLQlsss  321 (634)
T KOG1970|consen  301 ICQGSGGDIRSAINSLQLSSS  321 (634)
T ss_pred             HHHhcCccHHHHHhHhhhhcc
Confidence            999999999999999998753

>CHL00176 ftsH cell division protein; Validated

Probab=99.76  E-value=5.9e-17  Score=158.35  Aligned_cols=202  Identities=20%  Similarity=0.241  Sum_probs=141.0

Q ss_pred             CCCCcccccHHHHHHHHHHH---hc--------CCCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc
Q psy17903         42 KTIDDVIEQQEVVSVLKKCL---SG--------ADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l---~~--------~~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  109 (355)
                      .+|++++|.++++..+.+.+   +.        ...+ ++||+||||||||++|++++.+.     ..+++.+++++...
T Consensus       180 ~~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~-----~~p~i~is~s~f~~  254 (638)
T CHL00176        180 ITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA-----EVPFFSISGSEFVE  254 (638)
T ss_pred             CCHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCeeeccHHHHHH
Confidence            47999999999888877665   21        1222 49999999999999999999987     34566666654211


Q ss_pred             ------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------H---HHHHHHHHhhhc--cCC
Q psy17903        110 ------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------A---AQAALRRTMEKE--TKS  167 (355)
Q Consensus       110 ------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~---~~~~Ll~~le~~--~~~  167 (355)
                            ...++..+.....         ..++    ||||||+|.+..           .   ..+.|+..++..  ..+
T Consensus       255 ~~~g~~~~~vr~lF~~A~~---------~~P~----ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~  321 (638)
T CHL00176        255 MFVGVGAARVRDLFKKAKE---------NSPC----IVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKG  321 (638)
T ss_pred             HhhhhhHHHHHHHHHHHhc---------CCCc----EEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCC
Confidence                  1222322222211         1222    999999998842           1   234455555432  346


Q ss_pred             ccEEEEecCCccccccccCCe---eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHH
Q psy17903        168 TRFCLICNYVSCIIQPLTSRC---SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSCA  243 (355)
Q Consensus       168 ~~~Il~~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~  243 (355)
                      +++|.+||.++.+.+++.+++   ..+.|..|+.++...+++.+++.... .++..+..+++.+.| +.+.+.+.+..++
T Consensus       322 ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~-~~d~~l~~lA~~t~G~sgaDL~~lvneAa  400 (638)
T CHL00176        322 VIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKL-SPDVSLELIARRTPGFSGADLANLLNEAA  400 (638)
T ss_pred             eeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhccc-chhHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence            788889999999999998765   38999999999999999999876332 345668889988877 6666666666655


Q ss_pred             Hhh---CCCCCCHHHHHHHhCC
Q psy17903        244 RLK---GGEGIVNEDVLEVTGV  262 (355)
Q Consensus       244 ~~~---~~~~It~~~v~~~~~~  262 (355)
                      ..+   +...|+.+++.+++..
T Consensus       401 l~a~r~~~~~It~~dl~~Ai~r  422 (638)
T CHL00176        401 ILTARRKKATITMKEIDTAIDR  422 (638)
T ss_pred             HHHHHhCCCCcCHHHHHHHHHH
Confidence            433   5567999999987743

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.75  E-value=9.5e-17  Score=149.79  Aligned_cols=205  Identities=18%  Similarity=0.238  Sum_probs=136.3

Q ss_pred             CCCCCcccccHHHHHHHHHHHhc-----------C-C-CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         41 PKTIDDVIEQQEVVSVLKKCLSG-----------A-D-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~l~~-----------~-~-~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      ..+|+++.|.+.+++.+...+..           | . ..++|||||||||||++|+++++.+.     ..++.+++++.
T Consensus       127 ~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~-----~~~i~v~~~~l  201 (389)
T PRK03992        127 NVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN-----ATFIRVVGSEL  201 (389)
T ss_pred             CCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhC-----CCEEEeehHHH
Confidence            34789999999999999887631           1 2 23399999999999999999999984     34566665542


Q ss_pred             c------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC-----------HHHHHHHHHHhhh-----cc
Q psy17903        108 R------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT-----------HAAQAALRRTMEK-----ET  165 (355)
Q Consensus       108 ~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~-----------~~~~~~Ll~~le~-----~~  165 (355)
                      .      ....++..+......             ...+|||||+|.+.           .+.+..+..++..     ..
T Consensus       202 ~~~~~g~~~~~i~~~f~~a~~~-------------~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~  268 (389)
T PRK03992        202 VQKFIGEGARLVRELFELAREK-------------APSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPR  268 (389)
T ss_pred             hHhhccchHHHHHHHHHHHHhc-------------CCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCC
Confidence            1      111222222211111             12399999999983           2334455555532     22


Q ss_pred             CCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHH
Q psy17903        166 KSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQS  241 (355)
Q Consensus       166 ~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~  241 (355)
                      .++++|++||.++.+.+++.+  |+. .+.|++|+.++..++++.+++...+.- ...+..++..+.| +.+.+...+..
T Consensus       269 ~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~-~~~~~~la~~t~g~sgadl~~l~~e  347 (389)
T PRK03992        269 GNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLAD-DVDLEELAELTEGASGADLKAICTE  347 (389)
T ss_pred             CCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCC-cCCHHHHHHHcCCCCHHHHHHHHHH
Confidence            467889999999999999876  443 799999999999999998876544321 1346677777755 33444444444


Q ss_pred             HHHhh---CCCCCCHHHHHHHhCCCC
Q psy17903        242 CARLK---GGEGIVNEDVLEVTGVIP  264 (355)
Q Consensus       242 ~~~~~---~~~~It~~~v~~~~~~~~  264 (355)
                      ++..+   +...|+.+++.+++....
T Consensus       348 A~~~a~~~~~~~i~~~d~~~A~~~~~  373 (389)
T PRK03992        348 AGMFAIRDDRTEVTMEDFLKAIEKVM  373 (389)
T ss_pred             HHHHHHHcCCCCcCHHHHHHHHHHHh
Confidence            44433   456799999998876543

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.75  E-value=5e-17  Score=153.66  Aligned_cols=208  Identities=14%  Similarity=0.179  Sum_probs=145.0

Q ss_pred             CCCccc-ccH--HHHHHHHHHHhcC-CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHH--
Q psy17903         43 TIDDVI-EQQ--EVVSVLKKCLSGA-DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK--  116 (355)
Q Consensus        43 ~~~~~v-g~~--~~~~~l~~~l~~~-~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~--  116 (355)
                      +|+.++ |..  .+......+..+. ...+++||||+|+|||++++++++.+........++++++.+.  ...+...  
T Consensus       103 tFdnFv~g~~n~~a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f--~~~~~~~~~  180 (440)
T PRK14088        103 TFENFVVGPGNSFAYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKF--LNDLVDSMK  180 (440)
T ss_pred             cccccccCCchHHHHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHH--HHHHHHHHh
Confidence            688887 433  2334555555432 2345999999999999999999999865433445666665431  1111111  


Q ss_pred             ---HHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--HHHHHHHHHhhhcc-CCccEEEEecC-Cc---cccccccC
Q psy17903        117 ---VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKET-KSTRFCLICNY-VS---CIIQPLTS  186 (355)
Q Consensus       117 ---i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--~~~~~Ll~~le~~~-~~~~~Il~~~~-~~---~l~~~l~s  186 (355)
                         +..+.....          ....+|+|||++.+..  ..+..|+..+.... ....+|++++. +.   .+.+.++|
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               111111100          0124999999998853  34556666654322 23356666653 32   35678999


Q ss_pred             Cee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHhC
Q psy17903        187 RCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVTG  261 (355)
Q Consensus       187 r~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~~~~It~~~v~~~~~  261 (355)
                      |+.   .+.+.+|+.+....++++.++..++.++++++++|++.+.||+|.+...+.++..++  .+..||.+.+.+++.
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            987   899999999999999999999999999999999999999999999999999887665  567899999888775


Q ss_pred             C
Q psy17903        262 V  262 (355)
Q Consensus       262 ~  262 (355)
                      .
T Consensus       331 ~  331 (440)
T PRK14088        331 D  331 (440)
T ss_pred             H
Confidence            3

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.75  E-value=9.5e-17  Score=152.28  Aligned_cols=206  Identities=15%  Similarity=0.137  Sum_probs=141.4

Q ss_pred             CCCCcccccHHHHHHHHHHHh--------cC-CCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc---
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLS--------GA-DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR---  108 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~--------~~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~---  108 (355)
                      .+|+++.|.+.+++.+.+...        .| ..|. +|||||||||||.+|+++++++     +.+++.++++...   
T Consensus       225 ~~~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~-----~~~~~~l~~~~l~~~~  299 (489)
T CHL00195        225 EKISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDW-----QLPLLRLDVGKLFGGI  299 (489)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh-----CCCEEEEEhHHhcccc
Confidence            479999999988888775321        12 2333 9999999999999999999997     4456666654321   


Q ss_pred             ---chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH------------HHHHHHHHhhhccCCccEEEE
Q psy17903        109 ---GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA------------AQAALRRTMEKETKSTRFCLI  173 (355)
Q Consensus       109 ---~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~------------~~~~Ll~~le~~~~~~~~Il~  173 (355)
                         +...++..+......         .++    ||+|||+|.+...            ....|+..|++....+.+|.+
T Consensus       300 vGese~~l~~~f~~A~~~---------~P~----IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaT  366 (489)
T CHL00195        300 VGESESRMRQMIRIAEAL---------SPC----ILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVAT  366 (489)
T ss_pred             cChHHHHHHHHHHHHHhc---------CCc----EEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEe
Confidence               112334333322211         122    9999999977431            234566777766667778888


Q ss_pred             ecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCC-HHHHHHHHHHHHHhh--
Q psy17903        174 CNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVM-CDFKALETLVETSGGD-MRRAITCLQSCARLK--  246 (355)
Q Consensus       174 ~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~g~-~r~~~~~l~~~~~~~--  246 (355)
                      ||+++.+.+++.+  |+. .+.++.|+.++..++++..+.+.+.. .++..+..++..+.|- .+.+.+.+..+...+  
T Consensus       367 TN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSGAdI~~lv~eA~~~A~~  446 (489)
T CHL00195        367 ANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIAFY  446 (489)
T ss_pred             cCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCCCHHHHHHHHHHHHHHHHH
Confidence            9999999999976  554 78999999999999999998875433 3455678888887553 333333333333322  


Q ss_pred             CCCCCCHHHHHHHhCCCCh
Q psy17903        247 GGEGIVNEDVLEVTGVIPN  265 (355)
Q Consensus       247 ~~~~It~~~v~~~~~~~~~  265 (355)
                      .+..++.+++..++....+
T Consensus       447 ~~~~lt~~dl~~a~~~~~P  465 (489)
T CHL00195        447 EKREFTTDDILLALKQFIP  465 (489)
T ss_pred             cCCCcCHHHHHHHHHhcCC
Confidence            5677999999988876655

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=99.75  E-value=3.2e-16  Score=131.92  Aligned_cols=177  Identities=16%  Similarity=0.181  Sum_probs=138.6

Q ss_pred             HHHHHHHHhcCCCCe-EEEECCCC-CCHHHHHHHHHHHhcCCc----cccceeeecCC-------CccchHHHHHHHHHH
Q psy17903         54 VSVLKKCLSGADLPH-FLFYGPPG-TGKTSTMIAACHQLFGDM----YRERILELNAS-------DDRGIQVIRDKVKTF  120 (355)
Q Consensus        54 ~~~l~~~l~~~~~~~-~ll~Gp~G-~GKt~la~~l~~~l~~~~----~~~~~~~~~~~-------~~~~~~~i~~~i~~~  120 (355)
                      ++.+.+.++.++..| |||.|..+ +||..++..+++.+.+..    ...++..+...       ...+++.+|+....+
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            467888999999999 99999998 999999999999886531    12344444332       346788999877776


Q ss_pred             HHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeeeEEecCCCHHH
Q psy17903        121 AQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENT  200 (355)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~  200 (355)
                      ...+..+         ++||++|+++|.|+.++.++|+++||+|+.+++||++|+++..++++++|||..+.|+.+....
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            6554433         6789999999999999999999999999999999999999999999999999999999999988


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q psy17903        201 MLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSC  242 (355)
Q Consensus       201 ~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~  242 (355)
                      ..++....+.-   ..+...++.|.+...-|........+.+
T Consensus       153 ~~e~~~~~~~p---~~~~~~l~~i~~~~~~d~~~w~~~~~~~  191 (263)
T PRK06581        153 YNELYSQFIQP---IADNKTLDFINRFTTKDRELWLDFIDNL  191 (263)
T ss_pred             HHHHHHHhccc---ccccHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            88877655432   2344557777766666655555554443

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

Probab=99.75  E-value=1.8e-16  Score=147.25  Aligned_cols=206  Identities=20%  Similarity=0.212  Sum_probs=135.4

Q ss_pred             ccCCCCCCcccccHHHHHHHHHHHhc-----------C-CC-CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC
Q psy17903         38 KYRPKTIDDVIEQQEVVSVLKKCLSG-----------A-DL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (355)
Q Consensus        38 k~~p~~~~~~vg~~~~~~~l~~~l~~-----------~-~~-~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  104 (355)
                      .....+|+++.|.+.+++.|.+.+.-           | .. .++|||||||||||++|+++++.+..     .++.+.+
T Consensus       138 ~~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~-----~fi~i~~  212 (398)
T PTZ00454        138 EKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTA-----TFIRVVG  212 (398)
T ss_pred             CCCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCC-----CEEEEeh
Confidence            33445899999999999999887631           1 12 23999999999999999999998743     3444444


Q ss_pred             CCcc------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHH---HHHhhh-
Q psy17903        105 SDDR------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAAL---RRTMEK-  163 (355)
Q Consensus       105 ~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~L---l~~le~-  163 (355)
                      +...      +...+++.+.....         .    ...||||||+|.+..           ..+..+   +..++. 
T Consensus       213 s~l~~k~~ge~~~~lr~lf~~A~~---------~----~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~  279 (398)
T PTZ00454        213 SEFVQKYLGEGPRMVRDVFRLARE---------N----APSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGF  279 (398)
T ss_pred             HHHHHHhcchhHHHHHHHHHHHHh---------c----CCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhcc
Confidence            3210      11122222222111         1    123999999998732           223333   333432 


Q ss_pred             -ccCCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHH
Q psy17903        164 -ETKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITC  238 (355)
Q Consensus       164 -~~~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~  238 (355)
                       ...++.+|++||.++.+.+++.+  |+. .++|+.|+.++...+++.++.+.++.- +-.+..++..+.| +.+.+.+.
T Consensus       280 ~~~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~-dvd~~~la~~t~g~sgaDI~~l  358 (398)
T PTZ00454        280 DQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSE-EVDLEDFVSRPEKISAADIAAI  358 (398)
T ss_pred             CCCCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCc-ccCHHHHHHHcCCCCHHHHHHH
Confidence             23467889999999999999877  443 799999999999999998887655432 2345667777654 45555555


Q ss_pred             HHHHHHhh---CCCCCCHHHHHHHhCC
Q psy17903        239 LQSCARLK---GGEGIVNEDVLEVTGV  262 (355)
Q Consensus       239 l~~~~~~~---~~~~It~~~v~~~~~~  262 (355)
                      +..+...+   +...|+.+|+.+++..
T Consensus       359 ~~eA~~~A~r~~~~~i~~~df~~A~~~  385 (398)
T PTZ00454        359 CQEAGMQAVRKNRYVILPKDFEKGYKT  385 (398)
T ss_pred             HHHHHHHHHHcCCCccCHHHHHHHHHH
Confidence            55555443   4467999999887643

>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=99.74  E-value=4e-17  Score=140.39  Aligned_cols=193  Identities=18%  Similarity=0.255  Sum_probs=127.5

Q ss_pred             CCCccc-c--cHHHHHHHHHHHhcCCC--CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc--hHHHHH
Q psy17903         43 TIDDVI-E--QQEVVSVLKKCLSGADL--PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG--IQVIRD  115 (355)
Q Consensus        43 ~~~~~v-g--~~~~~~~l~~~l~~~~~--~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~--~~~i~~  115 (355)
                      +|+.++ |  +..+.............  ..++||||+|+|||+|++++++++.....+..++++++.+...  .+.+.+
T Consensus         6 tFdnfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~~~~~~~~   85 (219)
T PF00308_consen    6 TFDNFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIREFADALRD   85 (219)
T ss_dssp             SCCCS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHHHHHHHHT
T ss_pred             ccccCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHHHHHHHHc
Confidence            688886 5  34445555555554332  3399999999999999999999986533344566666543211  011100


Q ss_pred             -HHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHH--HHHHHHHhhhcc-CCccEEEEecC-Cc---cccccccCC
Q psy17903        116 -KVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA--QAALRRTMEKET-KSTRFCLICNY-VS---CIIQPLTSR  187 (355)
Q Consensus       116 -~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~--~~~Ll~~le~~~-~~~~~Il~~~~-~~---~l~~~l~sr  187 (355)
                       .+..+...- .          ...+|+|||++.+....  +..|..+++... ....+|++++. +.   .+.+.++||
T Consensus        86 ~~~~~~~~~~-~----------~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SR  154 (219)
T PF00308_consen   86 GEIEEFKDRL-R----------SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSR  154 (219)
T ss_dssp             TSHHHHHHHH-C----------TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHH
T ss_pred             ccchhhhhhh-h----------cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhh
Confidence             011111110 0          23499999999997654  777777776532 23456777754 33   356778888


Q ss_pred             ee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh
Q psy17903        188 CS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK  246 (355)
Q Consensus       188 ~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~  246 (355)
                      +.   .+.+.+|+.++...++++.+...++.++++++++|++...+|+|.+...|+++..++
T Consensus       155 l~~Gl~~~l~~pd~~~r~~il~~~a~~~~~~l~~~v~~~l~~~~~~~~r~L~~~l~~l~~~~  216 (219)
T PF00308_consen  155 LSWGLVVELQPPDDEDRRRILQKKAKERGIELPEEVIEYLARRFRRDVRELEGALNRLDAYA  216 (219)
T ss_dssp             HHCSEEEEE----HHHHHHHHHHHHHHTT--S-HHHHHHHHHHTTSSHHHHHHHHHHHHHHH
T ss_pred             HhhcchhhcCCCCHHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhcCCHHHHHHHHHHHHHHh
Confidence            65   899999999999999999999999999999999999999999999999999887654

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.

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=99.74  E-value=3.4e-16  Score=145.30  Aligned_cols=213  Identities=16%  Similarity=0.159  Sum_probs=148.9

Q ss_pred             CCCCcccccHHHHHHHHHHHhcCCCC--eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHH
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLSGADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~~~~~~--~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~  119 (355)
                      ..+.+++|++..+..+.+.+.+-...  ++||+|++||||..+|+++++.....  +.+|+.+||.. ...+.+...+..
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 SLGGELVGESPAMQQLRRLIAKVAPSDASVLITGESGTGKELVARAIHQASPRA--KGPFIAVNCAA-IPENLLESELFG  214 (464)
T ss_pred             cccCCceecCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHhhCccc--CCCceeeeccc-CCHHHHHHHhhc
Confidence            35778999999999999988764333  39999999999999999999986443  45899999986 333333333333


Q ss_pred             HHHhhccCCC---CCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-------c
Q psy17903        120 FAQQTASGFN---QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------S  178 (355)
Q Consensus       120 ~~~~~~~~~~---~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-------~  178 (355)
                      +....+.+..   .+....++++++||||+..|+.+.|..|++.|++..           .++++|.+||..       .
T Consensus       215 hekGAFTGA~~~r~G~fE~A~GGTLfLDEI~~mpl~~Q~kLLRvLqe~~~~rvG~~~~i~vdvRiIaaT~~dL~~~v~~G  294 (464)
T COG2204         215 HEKGAFTGAITRRIGRFEQANGGTLFLDEIGEMPLELQVKLLRVLQEREFERVGGNKPIKVDVRIIAATNRDLEEEVAAG  294 (464)
T ss_pred             ccccCcCCcccccCcceeEcCCceEEeeccccCCHHHHHHHHHHHHcCeeEecCCCcccceeeEEEeecCcCHHHHHHcC
Confidence            3332222211   111122677899999999999999999999998642           357899888853       2


Q ss_pred             cccccccCCeeeEE--ecCCCH--HHHH----HHHHHHHHHcC---CCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhh
Q psy17903        179 CIIQPLTSRCSKFR--FKPLAE--NTML----TRLQYICEQES---VMCDFKALETLVET-SGGDMRRAITCLQSCARLK  246 (355)
Q Consensus       179 ~l~~~l~sr~~~i~--~~~~~~--~~~~----~~l~~~~~~~~---~~~~~~~~~~l~~~-~~g~~r~~~~~l~~~~~~~  246 (355)
                      ++.+.|--|..++.  ++|+.+  +++.    .++++.+++.|   ..+++++++.|..+ ++||+|++.|.+++++..+
T Consensus       295 ~FReDLyyRLnV~~i~iPpLRER~EDIp~L~~hfl~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNVREL~N~ver~~il~  374 (464)
T COG2204         295 RFREDLYYRLNVVPLRLPPLRERKEDIPLLAEHFLKRFAAELGRPPKGFSPEALAALLAYDWPGNVRELENVVERAVILS  374 (464)
T ss_pred             CcHHHHHhhhccceecCCcccccchhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCChHHHHHHHHHHHHHhcC
Confidence            34444545555433  333332  3333    33444444443   46899999998876 5999999999999999988


Q ss_pred             CCCCCCHHHHH
Q psy17903        247 GGEGIVNEDVL  257 (355)
Q Consensus       247 ~~~~It~~~v~  257 (355)
                      .+..|+.+++.
T Consensus       375 ~~~~i~~~~l~  385 (464)
T COG2204         375 EGPEIEVEDLP  385 (464)
T ss_pred             Cccccchhhcc
Confidence            88888887755

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.74  E-value=2.6e-16  Score=138.07  Aligned_cols=121  Identities=20%  Similarity=0.247  Sum_probs=103.6

Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecC------------CccccccccCCeeeEEecCCCHHHHHHHHH
Q psy17903        139 KIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY------------VSCIIQPLTSRCSKFRFKPLAENTMLTRLQ  206 (355)
Q Consensus       139 ~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~------------~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~  206 (355)
                      .|+||||+|.|.-+++..|.+.||.. -.+++|++||.            |+-+...|..|..++.-.|++.+++.++++
T Consensus       293 GVLFIDEvHmLDIE~FsFlnrAlEse-~aPIii~AtNRG~~kiRGTd~~sPhGIP~DlLDRllII~t~py~~~EireIi~  371 (450)
T COG1224         293 GVLFIDEVHMLDIECFSFLNRALESE-LAPIIILATNRGMTKIRGTDIESPHGIPLDLLDRLLIISTRPYSREEIREIIR  371 (450)
T ss_pred             ceEEEechhhhhHHHHHHHHHHhhcc-cCcEEEEEcCCceeeecccCCcCCCCCCHhhhhheeEEecCCCCHHHHHHHHH
Confidence            49999999999999999999999864 34678888874            234567789999999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHh
Q psy17903        207 YICEQESVMCDFKALETLVETS-GGDMRRAITCLQSCARLK---GGEGIVNEDVLEVT  260 (355)
Q Consensus       207 ~~~~~~~~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~  260 (355)
                      .+++.+++.++++++++|+... ..++|.++++|.-+...+   +++.|..++|+++.
T Consensus       372 iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe~a~  429 (450)
T COG1224         372 IRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERAK  429 (450)
T ss_pred             HhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHHH
Confidence            9999999999999999999875 679999999997554444   66789999988753

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.74  E-value=5.3e-17  Score=164.24  Aligned_cols=200  Identities=17%  Similarity=0.167  Sum_probs=149.5

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-----cccceeeecCCC
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNASD  106 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~  106 (355)
                      ..+++++.||..++.++|+++.++++.+.+.....++++|+||||||||++++.+++.+....     .+..++.++...
T Consensus       174 ~~~L~~~~r~~~ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~  253 (852)
T TIGR03345       174 TTDLTAQAREGKIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGL  253 (852)
T ss_pred             hhhHHHHhcCCCCCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhh
Confidence            467888899999999999999999999998888888899999999999999999999985432     123344444432


Q ss_pred             c----cch----HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----H---HHHHHHHHhhhccCCccE
Q psy17903        107 D----RGI----QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----A---AQAALRRTMEKETKSTRF  170 (355)
Q Consensus       107 ~----~~~----~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----~---~~~~Ll~~le~~~~~~~~  170 (355)
                      .    ...    ..++..+.......            ...||||||+|.+..     .   ..+.|...+++  ...++
T Consensus       254 l~ag~~~~ge~e~~lk~ii~e~~~~~------------~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~--G~l~~  319 (852)
T TIGR03345       254 LQAGASVKGEFENRLKSVIDEVKASP------------QPIILFIDEAHTLIGAGGQAGQGDAANLLKPALAR--GELRT  319 (852)
T ss_pred             hhcccccchHHHHHHHHHHHHHHhcC------------CCeEEEEeChHHhccCCCccccccHHHHhhHHhhC--CCeEE
Confidence            1    112    23444444332211            234999999999964     2   23457777774  45778


Q ss_pred             EEEecCC-----ccccccccCCeeeEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCCC------HHHH
Q psy17903        171 CLICNYV-----SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGGD------MRRA  235 (355)
Q Consensus       171 Il~~~~~-----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~g~------~r~~  235 (355)
                      |.+|+..     ....++|.+||..|.+++|+.++...+|+.....    .++.++++++..++..+.+.      +.++
T Consensus       320 IgaTT~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi~~r~LPDKA  399 (852)
T TIGR03345       320 IAATTWAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYIPGRQLPDKA  399 (852)
T ss_pred             EEecCHHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccccccccCccHH
Confidence            8888752     2378999999999999999999999997666543    46889999999999988653      6789


Q ss_pred             HHHHHHHHHh
Q psy17903        236 ITCLQSCARL  245 (355)
Q Consensus       236 ~~~l~~~~~~  245 (355)
                      +..|+.++..
T Consensus       400 Idlldea~a~  409 (852)
T TIGR03345       400 VSLLDTACAR  409 (852)
T ss_pred             HHHHHHHHHH
Confidence            9999877653

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.

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.74  E-value=1.6e-16  Score=149.79  Aligned_cols=209  Identities=18%  Similarity=0.259  Sum_probs=145.4

Q ss_pred             cCCC-CCCccc-ccHH--HHHHHHHHHhc-----C-CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc
Q psy17903         39 YRPK-TIDDVI-EQQE--VVSVLKKCLSG-----A-DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (355)
Q Consensus        39 ~~p~-~~~~~v-g~~~--~~~~l~~~l~~-----~-~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  108 (355)
                      ..|. +|+.++ |...  +.....++.+.     + ...+++||||+|+|||++++++++.+....  ..++++++....
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            3454 799887 4332  33455555532     1 223499999999999999999999985432  345555543211


Q ss_pred             chHHHHHHHH-----HHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--HHHHHHHHHhhhc-cCCccEEEEecCC---
Q psy17903        109 GIQVIRDKVK-----TFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKE-TKSTRFCLICNYV---  177 (355)
Q Consensus       109 ~~~~i~~~i~-----~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--~~~~~Ll~~le~~-~~~~~~Il~~~~~---  177 (355)
                        ..+...+.     .+....           ....+|+|||++.+..  ..++.|...+... .....+|++++..   
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     111100           0234999999999964  3466666665422 2234677777653   


Q ss_pred             -ccccccccCCe---eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH---Hhh--CC
Q psy17903        178 -SCIIQPLTSRC---SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCA---RLK--GG  248 (355)
Q Consensus       178 -~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~---~~~--~~  248 (355)
                       ..+.+.|+||+   ..+.+.+|+.+++..++++.++..++.++++++++|+....+|+|.+.+.|+.++   .++  .+
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             34668899998   4899999999999999999999999999999999999999999999999999885   333  45


Q ss_pred             CCCCHHHHHHHhCC
Q psy17903        249 EGIVNEDVLEVTGV  262 (355)
Q Consensus       249 ~~It~~~v~~~~~~  262 (355)
                      ..||.+.+++++..
T Consensus       329 ~~i~~~~~~~~l~~  342 (445)
T PRK12422        329 QLLYVDDIKALLHD  342 (445)
T ss_pred             CCCCHHHHHHHHHH
Confidence            67999999988753

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=99.73  E-value=3.4e-16  Score=143.29  Aligned_cols=215  Identities=17%  Similarity=0.249  Sum_probs=152.9

Q ss_pred             cccccCCCCCCccc-cc--HHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc
Q psy17903         35 WVEKYRPKTIDDVI-EQ--QEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (355)
Q Consensus        35 ~~~k~~p~~~~~~v-g~--~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  109 (355)
                      ...+|.   |+.++ |.  .-+......+.+..  ..+.++||||.|+|||+|++++++.......+..++++.......
T Consensus        80 l~~~yt---FdnFv~g~~N~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~  156 (408)
T COG0593          80 LNPKYT---FDNFVVGPSNRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTN  156 (408)
T ss_pred             CCCCCc---hhheeeCCchHHHHHHHHHHHhccCCcCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHH
Confidence            344444   66666 32  23344445555443  234499999999999999999999998766666677766654211


Q ss_pred             --hHHHHH-HHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH--HHHHHHHHhhhccCC-ccEEEEecCCcc----
Q psy17903        110 --IQVIRD-KVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--AQAALRRTMEKETKS-TRFCLICNYVSC----  179 (355)
Q Consensus       110 --~~~i~~-~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~--~~~~Ll~~le~~~~~-~~~Il~~~~~~~----  179 (355)
                        +..+++ .+..|-...            ...+++|||++.+...  .+..+..++..-... -.+|++++.+.+    
T Consensus       157 ~~v~a~~~~~~~~Fk~~y------------~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~  224 (408)
T COG0593         157 DFVKALRDNEMEKFKEKY------------SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNG  224 (408)
T ss_pred             HHHHHHHhhhHHHHHHhh------------ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhcc
Confidence              111111 122222221            1138999999998764  366776666543222 267777765432    


Q ss_pred             ccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHH
Q psy17903        180 IIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNE  254 (355)
Q Consensus       180 l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~~~~It~~  254 (355)
                      +.+.|+||+.   .+.+.+|+.+....+|++.+...++.++++++.+++.....|+|.+...|.++..++  .+..||.+
T Consensus       225 ~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~~~~~~i~~ev~~~la~~~~~nvReLegaL~~l~~~a~~~~~~iTi~  304 (408)
T COG0593         225 LEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAEDRGIEIPDEVLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITID  304 (408)
T ss_pred             ccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcCccCcHH
Confidence            4578888865   899999999999999999999999999999999999999999999999999988777  45689999


Q ss_pred             HHHHHhCCCC
Q psy17903        255 DVLEVTGVIP  264 (355)
Q Consensus       255 ~v~~~~~~~~  264 (355)
                      .+.+++....
T Consensus       305 ~v~e~L~~~~  314 (408)
T COG0593         305 LVKEILKDLL  314 (408)
T ss_pred             HHHHHHHHhh
Confidence            9998876543

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=99.72  E-value=3.2e-16  Score=145.40  Aligned_cols=213  Identities=19%  Similarity=0.204  Sum_probs=147.0

Q ss_pred             CCCCcccccHHHHHHHHHHHhcCCCC--eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHH
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLSGADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~~~~~~--~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~  119 (355)
                      -+|++++|.+..+.++.+.++.....  .+||.|++||||..+|+++++.....  +.+|+.+||+. ....-+...+..
T Consensus       242 y~f~~Iig~S~~m~~~~~~akr~A~tdstVLi~GESGTGKElfA~~IH~~S~R~--~~PFIaiNCaA-iPe~LlESELFG  318 (560)
T COG3829         242 YTFDDIIGESPAMLRVLELAKRIAKTDSTVLILGESGTGKELFARAIHNLSPRA--NGPFIAINCAA-IPETLLESELFG  318 (560)
T ss_pred             cchhhhccCCHHHHHHHHHHHhhcCCCCcEEEecCCCccHHHHHHHHHhcCccc--CCCeEEEeccc-CCHHHHHHHHhC
Confidence            36999999998888887777654332  39999999999999999999986443  55899999986 333344444444


Q ss_pred             HHHhhccCCCCCCCCC----CCcEEEEEeCCCCCCHHHHHHHHHHhhhc-----------cCCccEEEEecCC-cc----
Q psy17903        120 FAQQTASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKE-----------TKSTRFCLICNYV-SC----  179 (355)
Q Consensus       120 ~~~~~~~~~~~~~~~~----~~~~vliiDe~d~l~~~~~~~Ll~~le~~-----------~~~~~~Il~~~~~-~~----  179 (355)
                      +....+.+....|++.    ++++.||+||+..|+...|..|++.|++.           +.++++|.+||.. .+    
T Consensus       319 ye~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgempl~LQaKLLRVLQEkei~rvG~t~~~~vDVRIIAATN~nL~~~i~~  398 (560)
T COG3829         319 YEKGAFTGASKGGKPGLFELANGGTLFLDEIGEMPLPLQAKLLRVLQEKEIERVGGTKPIPVDVRIIAATNRNLEKMIAE  398 (560)
T ss_pred             cCCccccccccCCCCcceeeccCCeEEehhhccCCHHHHHHHHHHHhhceEEecCCCCceeeEEEEEeccCcCHHHHHhc
Confidence            4444555544444444    77889999999999999999999999874           3468899999854 22    


Q ss_pred             --ccccccCCee--eEEecCCCH--HHHHHHHHHH----HHHcC---CCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHh
Q psy17903        180 --IIQPLTSRCS--KFRFKPLAE--NTMLTRLQYI----CEQES---VMCDFKALETLVET-SGGDMRRAITCLQSCARL  245 (355)
Q Consensus       180 --l~~~l~sr~~--~i~~~~~~~--~~~~~~l~~~----~~~~~---~~~~~~~~~~l~~~-~~g~~r~~~~~l~~~~~~  245 (355)
                        +-..|-=|..  .+.++|+.+  +++.......    ..+.+   ..++++++..|.++ ++||+|.+.|.++++..+
T Consensus       399 G~FReDLYYRLNV~~i~iPPLReR~eDI~~L~~~Fl~k~s~~~~~~v~~ls~~a~~~L~~y~WPGNVRELeNviER~v~~  478 (560)
T COG3829         399 GTFREDLYYRLNVIPITIPPLRERKEDIPLLAEYFLDKFSRRYGRNVKGLSPDALALLLRYDWPGNVRELENVIERAVNL  478 (560)
T ss_pred             CcchhhheeeeceeeecCCCcccCcchHHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHhCCCCchHHHHHHHHHHHHhc
Confidence              2222222333  233444432  3433333333    22332   24889999998775 699999999999999875


Q ss_pred             h-CCCCCCHHHHH
Q psy17903        246 K-GGEGIVNEDVL  257 (355)
Q Consensus       246 ~-~~~~It~~~v~  257 (355)
                      . .+..|+.+++-
T Consensus       479 ~~~~~~I~~~~lp  491 (560)
T COG3829         479 VESDGLIDADDLP  491 (560)
T ss_pred             cCCcceeehhhcc
Confidence            5 34557776665

>TIGR01817 nifA Nif-specific regulatory protein

Probab=99.71  E-value=7.3e-16  Score=150.28  Aligned_cols=217  Identities=18%  Similarity=0.185  Sum_probs=149.2

Q ss_pred             ccCCCCCCcccccHHHHHHHHHHHhcCC--CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHH
Q psy17903         38 KYRPKTIDDVIEQQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (355)
Q Consensus        38 k~~p~~~~~~vg~~~~~~~l~~~l~~~~--~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~  115 (355)
                      +++..+|+.++|++..+..+.+.++...  ..+++|+|++||||+++|+++++....  ...+++.+||..... ..+..
T Consensus       189 ~~~~~~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s~r--~~~pfv~i~c~~~~~-~~~~~  265 (534)
T TIGR01817       189 RRRSGKEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSPR--AKRPFVKVNCAALSE-TLLES  265 (534)
T ss_pred             ccccCccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhCCC--CCCCeEEeecCCCCH-HHHHH
Confidence            4555689999999999888887776432  234999999999999999999988643  244789999986422 22221


Q ss_pred             HHHHHHHhhccCC--CCCC-CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC----
Q psy17903        116 KVKTFAQQTASGF--NQDG-KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV----  177 (355)
Q Consensus       116 ~i~~~~~~~~~~~--~~~~-~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~----  177 (355)
                      .+.........+.  ...| ...++.++|||||++.|+...|..|++++++..           .++++|++++..    
T Consensus       266 ~lfg~~~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s~~~l~~~  345 (534)
T TIGR01817       266 ELFGHEKGAFTGAIAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDLEEA  345 (534)
T ss_pred             HHcCCCCCccCCCCcCCCCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeCCCCHHHH
Confidence            1111000000000  0001 111356699999999999999999999998643           246788887643    


Q ss_pred             ---ccccccccCCee--eEEecCCC--HHHHHHHHHHHHHH----cC--CCCCHHHHHHHHHH-cCCCHHHHHHHHHHHH
Q psy17903        178 ---SCIIQPLTSRCS--KFRFKPLA--ENTMLTRLQYICEQ----ES--VMCDFKALETLVET-SGGDMRRAITCLQSCA  243 (355)
Q Consensus       178 ---~~l~~~l~sr~~--~i~~~~~~--~~~~~~~l~~~~~~----~~--~~~~~~~~~~l~~~-~~g~~r~~~~~l~~~~  243 (355)
                         ..+.+.|..|+.  .|.++|+.  .+++..++...+.+    .+  ..+++++++.|..+ ++||+|++.+.++.++
T Consensus       346 ~~~~~f~~~L~~rl~~~~i~lPpLreR~eDi~~L~~~~l~~~~~~~~~~~~~s~~a~~~L~~~~WPGNvrEL~~v~~~a~  425 (534)
T TIGR01817       346 VAKGEFRADLYYRINVVPIFLPPLRERREDIPLLAEAFLEKFNRENGRPLTITPSAIRVLMSCKWPGNVRELENCLERTA  425 (534)
T ss_pred             HHcCCCCHHHHHHhcCCeeeCCCcccccccHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHhCCCCChHHHHHHHHHHHH
Confidence               123344555544  56777776  46666665555442    22  57899999999987 5999999999999998


Q ss_pred             HhhCCCCCCHHHHH
Q psy17903        244 RLKGGEGIVNEDVL  257 (355)
Q Consensus       244 ~~~~~~~It~~~v~  257 (355)
                      ..+.+..|+.+++.
T Consensus       426 ~~~~~~~I~~~~l~  439 (534)
T TIGR01817       426 TLSRSGTITRSDFS  439 (534)
T ss_pred             HhCCCCcccHHHCc
Confidence            87777789988875

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.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.70  E-value=4.7e-16  Score=144.51  Aligned_cols=206  Identities=16%  Similarity=0.203  Sum_probs=132.2

Q ss_pred             ccCCCCCCcccccHHHHHHHHHHHhcC------------C-CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC
Q psy17903         38 KYRPKTIDDVIEQQEVVSVLKKCLSGA------------D-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (355)
Q Consensus        38 k~~p~~~~~~vg~~~~~~~l~~~l~~~------------~-~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  104 (355)
                      +....+|+++.|.+.+++.+...+...            . ..+++|+||||||||++|+++++.+..     .++.+.+
T Consensus       115 ~~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~-----~~~~v~~  189 (364)
T TIGR01242       115 ERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNA-----TFIRVVG  189 (364)
T ss_pred             cCCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCC-----CEEecch
Confidence            444457899999999999998877421            1 223999999999999999999999843     3444443


Q ss_pred             CCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHhhh----
Q psy17903        105 SDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEK----  163 (355)
Q Consensus       105 ~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~le~----  163 (355)
                      .....      ...++..+.. +..        .    ...+|||||+|.+..           ..+..+...+..    
T Consensus       190 ~~l~~~~~g~~~~~i~~~f~~-a~~--------~----~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~  256 (364)
T TIGR01242       190 SELVRKYIGEGARLVREIFEL-AKE--------K----APSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGF  256 (364)
T ss_pred             HHHHHHhhhHHHHHHHHHHHH-HHh--------c----CCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCC
Confidence            32110      0111111111 111        1    123999999998832           233445444432    


Q ss_pred             -ccCCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCH-HHHHHH
Q psy17903        164 -ETKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDM-RRAITC  238 (355)
Q Consensus       164 -~~~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~-r~~~~~  238 (355)
                       ...++.+|++||.++.+.+++.+  |+. .+.|+.|+.++..++++..+......- +.....+++.+.|-. +.+.+.
T Consensus       257 ~~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~-~~~~~~la~~t~g~sg~dl~~l  335 (364)
T TIGR01242       257 DPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAE-DVDLEAIAKMTEGASGADLKAI  335 (364)
T ss_pred             CCCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCc-cCCHHHHHHHcCCCCHHHHHHH
Confidence             23467889999999989888875  433 799999999999999998875543321 124667777775533 333333


Q ss_pred             HHHHHHh---hCCCCCCHHHHHHHhCC
Q psy17903        239 LQSCARL---KGGEGIVNEDVLEVTGV  262 (355)
Q Consensus       239 l~~~~~~---~~~~~It~~~v~~~~~~  262 (355)
                      +..+...   .+...|+.+++.+++..
T Consensus       336 ~~~A~~~a~~~~~~~i~~~d~~~a~~~  362 (364)
T TIGR01242       336 CTEAGMFAIREERDYVTMDDFIKAVEK  362 (364)
T ss_pred             HHHHHHHHHHhCCCccCHHHHHHHHHH
Confidence            4333332   25678999999987643

Many proteins may score above the trusted cutoff because an internal

>KOG0727|consensus

Probab=99.70  E-value=1.2e-15  Score=128.03  Aligned_cols=209  Identities=19%  Similarity=0.254  Sum_probs=134.2

Q ss_pred             CccccccCCC-CCCcccccHHHHHHHHHHHhc-----------C-CCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccc
Q psy17903         33 VPWVEKYRPK-TIDDVIEQQEVVSVLKKCLSG-----------A-DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRER   98 (355)
Q Consensus        33 ~~~~~k~~p~-~~~~~vg~~~~~~~l~~~l~~-----------~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~   98 (355)
                      .++...-+|. ++.++.|.+-.++.++..++-           | .+|. +|+|||||||||++++++++..     ...
T Consensus       142 ~ml~~~ekpdvsy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t-----~a~  216 (408)
T KOG0727|consen  142 SMLGPDEKPDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHT-----TAA  216 (408)
T ss_pred             cccCCCCCCCccccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhcc-----chh
Confidence            3444444554 788999988888888777631           2 3333 9999999999999999999986     345


Q ss_pred             eeeecCCCc------cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHh
Q psy17903         99 ILELNASDD------RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTM  161 (355)
Q Consensus        99 ~~~~~~~~~------~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~l  161 (355)
                      |+.+.+++.      .+...++..+.-.....             ..+|||||+|.+..           +.|.-|+++|
T Consensus       217 firvvgsefvqkylgegprmvrdvfrlakena-------------psiifideidaiatkrfdaqtgadrevqril~ell  283 (408)
T KOG0727|consen  217 FIRVVGSEFVQKYLGEGPRMVRDVFRLAKENA-------------PSIIFIDEIDAIATKRFDAQTGADREVQRILIELL  283 (408)
T ss_pred             eeeeccHHHHHHHhccCcHHHHHHHHHHhccC-------------CcEEEeehhhhHhhhhccccccccHHHHHHHHHHH
Confidence            666666642      22334444333222221             12999999998843           3455566666


Q ss_pred             hh-----ccCCccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH----cC
Q psy17903        162 EK-----ETKSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVET----SG  229 (355)
Q Consensus       162 e~-----~~~~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~----~~  229 (355)
                      ..     ...++.+|++||..+.+.|++.+.++   .++|+-|+..+-+-++..++.+.++.-+-+ ++.++.+    ++
T Consensus       284 nqmdgfdq~~nvkvimatnradtldpallrpgrldrkiefplpdrrqkrlvf~titskm~ls~~vd-le~~v~rpdkis~  362 (408)
T KOG0727|consen  284 NQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKMNLSDEVD-LEDLVARPDKISG  362 (408)
T ss_pred             HhccCcCcccceEEEEecCcccccCHhhcCCccccccccCCCCchhhhhhhHHhhhhcccCCcccC-HHHHhcCccccch
Confidence            53     35678899999999999999998876   799999999998888888887765543323 3333322    33


Q ss_pred             CCHHHHHHHHHHHHHhhCCCCCCHHHHHHHh
Q psy17903        230 GDMRRAITCLQSCARLKGGEGIVNEDVLEVT  260 (355)
Q Consensus       230 g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~  260 (355)
                      .++..+.++.-..+-....-.|...|+++.-
T Consensus       363 adi~aicqeagm~avr~nryvvl~kd~e~ay  393 (408)
T KOG0727|consen  363 ADINAICQEAGMLAVRENRYVVLQKDFEKAY  393 (408)
T ss_pred             hhHHHHHHHHhHHHHHhcceeeeHHHHHHHH
Confidence            3444433333222222133345566665543

>TIGR00763 lon ATP-dependent protease La

Probab=99.69  E-value=7.3e-16  Score=155.74  Aligned_cols=202  Identities=20%  Similarity=0.246  Sum_probs=137.2

Q ss_pred             cccccHHHHHHHHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHH----
Q psy17903         46 DVIEQQEVVSVLKKCLSG------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD----  115 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~------~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~----  115 (355)
                      +++|++.+++.+.+++..      ...++++|+||||||||++|+++++.+..     +++.++.........+..    
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            478999999999886632      13345999999999999999999999843     444554433222222110    


Q ss_pred             -------HH-HHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHH----HHHHHHHhhhc---------------cCCc
Q psy17903        116 -------KV-KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA----QAALRRTMEKE---------------TKST  168 (355)
Q Consensus       116 -------~i-~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~----~~~Ll~~le~~---------------~~~~  168 (355)
                             .+ ..+....           ....+|+|||+|.+.++.    .++|+..|+..               ..++
T Consensus       396 ~~g~~~g~i~~~l~~~~-----------~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v  464 (775)
T TIGR00763       396 YVGAMPGRIIQGLKKAK-----------TKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKV  464 (775)
T ss_pred             eeCCCCchHHHHHHHhC-----------cCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCE
Confidence                   00 1111000           022399999999997643    47788887631               1357


Q ss_pred             cEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHH-----HHc-----CCCCCHHHHHHHHHHc--CCCHHHHH
Q psy17903        169 RFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYIC-----EQE-----SVMCDFKALETLVETS--GGDMRRAI  236 (355)
Q Consensus       169 ~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~-----~~~-----~~~~~~~~~~~l~~~~--~g~~r~~~  236 (355)
                      +||+++|..+.+.+++++||..+.|++++.++...+++..+     +..     ++.++++++..+++..  ...+|.+.
T Consensus       465 ~~I~TtN~~~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~~l~~~~~~~~~l~~~~~~~~~~~l~~i~~~~~~e~g~R~l~  544 (775)
T TIGR00763       465 IFIATANSIDTIPRPLLDRMEVIELSGYTEEEKLEIAKKYLIPKALEDHGLKPDELKITDEALLLLIKYYTREAGVRNLE  544 (775)
T ss_pred             EEEEecCCchhCCHHHhCCeeEEecCCCCHHHHHHHHHHHHHHHHHHHcCCCcceEEECHHHHHHHHHhcChhcCChHHH
Confidence            88999999999999999999999999999999999887765     222     4578999999998754  34556555


Q ss_pred             HHHHHHHHhh-------CC--------CCCCHHHHHHHhCCC
Q psy17903        237 TCLQSCARLK-------GG--------EGIVNEDVLEVTGVI  263 (355)
Q Consensus       237 ~~l~~~~~~~-------~~--------~~It~~~v~~~~~~~  263 (355)
                      ..+++++...       +.        -.|+.+++.+.++..
T Consensus       545 r~i~~~~~~~~~~~~~~~~~~~~~~~~v~i~~~~~~~~lg~~  586 (775)
T TIGR00763       545 RQIEKICRKAAVKLVEQGEKKKSEAESVVITPDNLKKYLGKP  586 (775)
T ss_pred             HHHHHHHHHHHHHHHhccCcccCCcccccCCHHHHHHhcCcc
Confidence            5554443221       11        257788888777644

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.

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=99.69  E-value=3.4e-15  Score=143.20  Aligned_cols=214  Identities=16%  Similarity=0.184  Sum_probs=140.2

Q ss_pred             CCCcccccHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhc------CCccccceeeecCCCccchHHHH
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLF------GDMYRERILELNASDDRGIQVIR  114 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~------~~~~~~~~~~~~~~~~~~~~~i~  114 (355)
                      .|++++|++..+..+.+.+..-  ...++||+|++||||+.+|+.+++.+.      ....+.+++.+||..... ..+.
T Consensus       217 ~f~~iiG~S~~m~~~~~~i~~~A~s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inCaal~e-~lle  295 (538)
T PRK15424        217 VLGDLLGQSPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNCGAIAE-SLLE  295 (538)
T ss_pred             chhheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeecccCCh-hhHH
Confidence            5889999999998888887542  223499999999999999999998732      222355899999986432 2222


Q ss_pred             HHHHHHHHhhccCCCCCCC----CCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-c
Q psy17903        115 DKVKTFAQQTASGFNQDGK----PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-S  178 (355)
Q Consensus       115 ~~i~~~~~~~~~~~~~~~~----~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-~  178 (355)
                      ..+..+....+.+....++    ..+++++|||||++.|+...|..|+++|++..           .++++|++|+.. .
T Consensus       296 seLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~kLl~~L~e~~~~r~G~~~~~~~dvRiIaat~~~L~  375 (538)
T PRK15424        296 AELFGYEEGAFTGSRRGGRAGLFEIAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQPVPVDVRVISATHCDLE  375 (538)
T ss_pred             HHhcCCccccccCccccccCCchhccCCCEEEEcChHhCCHHHHHHHHhhhhcCeEEecCCCceeccceEEEEecCCCHH
Confidence            2221111111111110011    11456799999999999999999999998642           345788888743 1


Q ss_pred             c------ccccccCCee--eEEecCCCH--HHHHHHHHHHHHH----cCCCCCHHHH-------HHHHHH-cCCCHHHHH
Q psy17903        179 C------IIQPLTSRCS--KFRFKPLAE--NTMLTRLQYICEQ----ESVMCDFKAL-------ETLVET-SGGDMRRAI  236 (355)
Q Consensus       179 ~------l~~~l~sr~~--~i~~~~~~~--~~~~~~l~~~~~~----~~~~~~~~~~-------~~l~~~-~~g~~r~~~  236 (355)
                      .      +.+.+--|..  .+.++|+.+  +++..++...+.+    .+..++++++       +.|..+ ++||+|++.
T Consensus       376 ~~v~~g~Fr~dL~yrL~~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~~~~~~~a~~~~~~a~~~L~~y~WPGNvREL~  455 (538)
T PRK15424        376 EDVRQGRFRRDLFYRLSILRLQLPPLRERVADILPLAESFLKQSLAALSAPFSAALRQGLQQCETLLLHYDWPGNVRELR  455 (538)
T ss_pred             HHHhcccchHHHHHHhcCCeecCCChhhchhHHHHHHHHHHHHHHHHcCCCCCHHHHHhhHHHHHHHHhCCCCchHHHHH
Confidence            1      2233333433  566777764  5666666655543    5667888776       344433 699999999


Q ss_pred             HHHHHHHHhhCC---CCCCHHHHH
Q psy17903        237 TCLQSCARLKGG---EGIVNEDVL  257 (355)
Q Consensus       237 ~~l~~~~~~~~~---~~It~~~v~  257 (355)
                      |.+++++.+..+   ..|+.+++.
T Consensus       456 nvier~~i~~~~~~~~~i~~~~l~  479 (538)
T PRK15424        456 NLMERLALFLSVEPTPDLTPQFLQ  479 (538)
T ss_pred             HHHHHHHHhcCCCCcCccCHHHhh
Confidence            999998887532   467777664

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=99.69  E-value=2.4e-15  Score=137.06  Aligned_cols=206  Identities=16%  Similarity=0.145  Sum_probs=137.1

Q ss_pred             ccccHHHHHHHHHHHhcCCC--CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhh
Q psy17903         47 VIEQQEVVSVLKKCLSGADL--PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQT  124 (355)
Q Consensus        47 ~vg~~~~~~~l~~~l~~~~~--~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~  124 (355)
                      ++|++..+..+.+.+.....  .+++|+|++||||+++|++++.....  ...+++.+||..... +.+...+.......
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            46777777777666654322  23999999999999999999987543  245789999986422 22222111111100


Q ss_pred             ccCCC--CCC-CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-------cccccc
Q psy17903        125 ASGFN--QDG-KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SCIIQP  183 (355)
Q Consensus       125 ~~~~~--~~~-~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-------~~l~~~  183 (355)
                      ..+..  ..| ...++.++|||||++.|+...|..|+++|++..           .++++|++++..       ..+.+.
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  001 111355699999999999999999999998643           456888888743       234456


Q ss_pred             ccCCee--eEEecCCC--HHHHHHHHHHHHH----HcC----CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCCCC
Q psy17903        184 LTSRCS--KFRFKPLA--ENTMLTRLQYICE----QES----VMCDFKALETLVETS-GGDMRRAITCLQSCARLKGGEG  250 (355)
Q Consensus       184 l~sr~~--~i~~~~~~--~~~~~~~l~~~~~----~~~----~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~~~~~  250 (355)
                      |..|+.  .|.++|+.  .+++..++...+.    +.+    ..+++++++.|..+. +||+|++.|.++.++..+.+..
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  67777777  3666666555443    323    368999999998875 9999999999999888765555


Q ss_pred             CCHHH
Q psy17903        251 IVNED  255 (355)
Q Consensus       251 It~~~  255 (355)
                      ++.++
T Consensus       238 ~~~~~  242 (329)
T TIGR02974       238 APIDE  242 (329)
T ss_pred             cchhh
Confidence            66555

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

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=99.69  E-value=3.7e-15  Score=135.97  Aligned_cols=211  Identities=15%  Similarity=0.131  Sum_probs=139.7

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCC--CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHH
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSGADL--PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~~~~--~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  120 (355)
                      -+++++|.+..+..+.+.+.....  .+++|+|++||||+++|++++.....  ...+++.+||.... .+.+...+...
T Consensus         4 ~~~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s~r--~~~pfv~v~c~~~~-~~~~~~~lfg~   80 (326)
T PRK11608          4 YKDNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLSSR--WQGPFISLNCAALN-ENLLDSELFGH   80 (326)
T ss_pred             ccCccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhCCc--cCCCeEEEeCCCCC-HHHHHHHHccc
Confidence            367899999888888777654322  24999999999999999999976432  24578999998743 23222222111


Q ss_pred             HHhhccCCC---CCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-------cc
Q psy17903        121 AQQTASGFN---QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SC  179 (355)
Q Consensus       121 ~~~~~~~~~---~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-------~~  179 (355)
                      ......+..   ......++.++|||||++.|+...|..|+.+++...           .++++|++++..       ..
T Consensus        81 ~~~~~~g~~~~~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~~~l~~l~~~g~  160 (326)
T PRK11608         81 EAGAFTGAQKRHPGRFERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVAEGK  160 (326)
T ss_pred             cccccCCcccccCCchhccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCchhHHHHHHcCC
Confidence            110000000   000111355699999999999999999999997632           246788877643       23


Q ss_pred             ccccccCCee--eEEecCCCH--HHHHHHHHHHH----HHcC----CCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhh
Q psy17903        180 IIQPLTSRCS--KFRFKPLAE--NTMLTRLQYIC----EQES----VMCDFKALETLVET-SGGDMRRAITCLQSCARLK  246 (355)
Q Consensus       180 l~~~l~sr~~--~i~~~~~~~--~~~~~~l~~~~----~~~~----~~~~~~~~~~l~~~-~~g~~r~~~~~l~~~~~~~  246 (355)
                      +.+.|..|+.  .|.++|+.+  +++..++...+    .+.+    ..+++++++.|..+ ++||+|++.+.++.++..+
T Consensus       161 f~~dL~~~l~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~~s~~al~~L~~y~WPGNvrEL~~vl~~a~~~~  240 (326)
T PRK11608        161 FRADLLDRLAFDVVQLPPLRERQSDIMLMAEHFAIQMCRELGLPLFPGFTERARETLLNYRWPGNIRELKNVVERSVYRH  240 (326)
T ss_pred             chHHHHHhcCCCEEECCChhhhhhhHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhc
Confidence            4455666654  677777764  56665555543    3333    35899999999876 4999999999999988766


Q ss_pred             CCCCCCHHHH
Q psy17903        247 GGEGIVNEDV  256 (355)
Q Consensus       247 ~~~~It~~~v  256 (355)
                      .+..|+.+++
T Consensus       241 ~~~~~~~~~l  250 (326)
T PRK11608        241 GTSEYPLDNI  250 (326)
T ss_pred             CCCCCchhhc
Confidence            5555655443

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=99.68  E-value=4.5e-15  Score=143.61  Aligned_cols=213  Identities=16%  Similarity=0.148  Sum_probs=143.0

Q ss_pred             CCCCCcccccHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHH
Q psy17903         41 PKTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVK  118 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~  118 (355)
                      ...|++++|.+..+..+.+.++..  ...+++|+|++||||+++|++++.....  ...+++.+||+.... +.+...+.
T Consensus       200 ~~~f~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~s~r--~~~pfv~inca~~~~-~~~e~elF  276 (520)
T PRK10820        200 DSAFSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLRSPR--GKKPFLALNCASIPD-DVVESELF  276 (520)
T ss_pred             cccccceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHHhCCC--CCCCeEEeccccCCH-HHHHHHhc
Confidence            347999999998877777666432  2233999999999999999998876533  234788999987432 22221111


Q ss_pred             HHHHhhccCC--CCCC-CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-------
Q psy17903        119 TFAQQTASGF--NQDG-KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------  177 (355)
Q Consensus       119 ~~~~~~~~~~--~~~~-~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-------  177 (355)
                      ........+.  ...| ...++.++|+|||++.|+...|..|++++++..           .++++|++|+..       
T Consensus       277 G~~~~~~~~~~~~~~g~~e~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~~~l~~l~~~  356 (520)
T PRK10820        277 GHAPGAYPNALEGKKGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVELVQK  356 (520)
T ss_pred             CCCCCCcCCcccCCCChhhhcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecCCCHHHHHHc
Confidence            1010000000  0001 011355699999999999999999999997632           346788877643       


Q ss_pred             ccccccccCCee--eEEecCCCH--HHHHHHH----HHHHHHcCC---CCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHh
Q psy17903        178 SCIIQPLTSRCS--KFRFKPLAE--NTMLTRL----QYICEQESV---MCDFKALETLVET-SGGDMRRAITCLQSCARL  245 (355)
Q Consensus       178 ~~l~~~l~sr~~--~i~~~~~~~--~~~~~~l----~~~~~~~~~---~~~~~~~~~l~~~-~~g~~r~~~~~l~~~~~~  245 (355)
                      ..+.+.|..|..  .+.++|+.+  +++..++    ...+.+.|.   .+++++++.|..+ ++||+|++.|.++.+...
T Consensus       357 g~f~~dL~~rL~~~~i~lPpLreR~~Di~~L~~~fl~~~~~~~g~~~~~ls~~a~~~L~~y~WPGNvreL~nvl~~a~~~  436 (520)
T PRK10820        357 GEFREDLYYRLNVLTLNLPPLRDRPQDIMPLTELFVARFADEQGVPRPKLAADLNTVLTRYGWPGNVRQLKNAIYRALTQ  436 (520)
T ss_pred             CCccHHHHhhcCeeEEeCCCcccChhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHhcCCCCCHHHHHHHHHHHHHHh
Confidence            123444656643  677777765  4555443    334444443   6899999999887 799999999999999887


Q ss_pred             hCCCCCCHHHH
Q psy17903        246 KGGEGIVNEDV  256 (355)
Q Consensus       246 ~~~~~It~~~v  256 (355)
                      +.+..|+.+++
T Consensus       437 ~~~~~i~~~~~  447 (520)
T PRK10820        437 LEGYELRPQDI  447 (520)
T ss_pred             CCCCcccHHHc
Confidence            77778988885

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.68  E-value=7.6e-16  Score=155.26  Aligned_cols=172  Identities=21%  Similarity=0.241  Sum_probs=121.9

Q ss_pred             CCCCCcccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         41 PKTIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~l~------------~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      ..+|+++.|.+.+++.|.+.+.            +...+. +|||||||||||++|+++++++.     .+++.+++++.
T Consensus       449 ~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~-----~~fi~v~~~~l  523 (733)
T TIGR01243       449 NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESG-----ANFIAVRGPEI  523 (733)
T ss_pred             ccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcC-----CCEEEEehHHH
Confidence            3479999999999999988764            122333 99999999999999999999973     45667766542


Q ss_pred             c------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH------------HHHHHHHHHhhh--ccCC
Q psy17903        108 R------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH------------AAQAALRRTMEK--ETKS  167 (355)
Q Consensus       108 ~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~------------~~~~~Ll~~le~--~~~~  167 (355)
                      .      ....++..+......             ...+|||||+|.+.+            ...+.|+..|+.  ...+
T Consensus       524 ~~~~vGese~~i~~~f~~A~~~-------------~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~  590 (733)
T TIGR01243       524 LSKWVGESEKAIREIFRKARQA-------------APAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSN  590 (733)
T ss_pred             hhcccCcHHHHHHHHHHHHHhc-------------CCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCC
Confidence            1      112333333332221             223999999998742            224556666663  3457


Q ss_pred             ccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHcCCCH
Q psy17903        168 TRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDF-KALETLVETSGGDM  232 (355)
Q Consensus       168 ~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~~~~l~~~~~g~~  232 (355)
                      +++|++||.++.+.+++.+  |+. .+.|+.|+.++..++++...++  ..+++ ..+..+++.+.|..
T Consensus       591 v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~--~~~~~~~~l~~la~~t~g~s  657 (733)
T TIGR01243       591 VVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRS--MPLAEDVDLEELAEMTEGYT  657 (733)
T ss_pred             EEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcC--CCCCccCCHHHHHHHcCCCC
Confidence            8889999999999999986  665 7999999999999999876644  33433 34778888876643

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.

>KOG0734|consensus

Probab=99.67  E-value=1.5e-15  Score=139.62  Aligned_cols=199  Identities=20%  Similarity=0.223  Sum_probs=140.9

Q ss_pred             CCCCcccccHHHHHHHHHHHh-----------cCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc--
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLS-----------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD--  107 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~-----------~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--  107 (355)
                      .+|+++-|.++++.+|.+.+.           +|..|. +|++||||+|||.||++++.+.     +.+|+...+++.  
T Consensus       301 v~F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA-----~VPFF~~sGSEFdE  375 (752)
T KOG0734|consen  301 VTFEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA-----GVPFFYASGSEFDE  375 (752)
T ss_pred             cccccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc-----CCCeEeccccchhh
Confidence            469999999999887776652           456666 9999999999999999999886     456666666653  


Q ss_pred             ----cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHhhhc--cCCccE
Q psy17903        108 ----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEKE--TKSTRF  170 (355)
Q Consensus       108 ----~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~le~~--~~~~~~  170 (355)
                          .+...+++.+......         -||    ||||||+|.+..           +..|.|+--|+-.  ...+++
T Consensus       376 m~VGvGArRVRdLF~aAk~~---------APc----IIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNeGiIv  442 (752)
T KOG0734|consen  376 MFVGVGARRVRDLFAAAKAR---------APC----IIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNEGIIV  442 (752)
T ss_pred             hhhcccHHHHHHHHHHHHhc---------CCe----EEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCCceEE
Confidence                2234566655544332         233    999999998842           2345666666543  345788


Q ss_pred             EEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHcCC-CHHHHHHHHHHHHHh
Q psy17903        171 CLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDF-KALETLVETSGG-DMRRAITCLQSCARL  245 (355)
Q Consensus       171 Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~~~~l~~~~~g-~~r~~~~~l~~~~~~  245 (355)
                      |.+||.++.++++|.+.++   .|.++.|+..-..++|..++.+  +..++ -....|++-+.| +-..+.|++..++.+
T Consensus       443 igATNfpe~LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~k--i~~~~~VD~~iiARGT~GFsGAdLaNlVNqAAlk  520 (752)
T KOG0734|consen  443 IGATNFPEALDKALTRPGRFDRHVTVPLPDVRGRTEILKLYLSK--IPLDEDVDPKIIARGTPGFSGADLANLVNQAALK  520 (752)
T ss_pred             EeccCChhhhhHHhcCCCccceeEecCCCCcccHHHHHHHHHhc--CCcccCCCHhHhccCCCCCchHHHHHHHHHHHHH
Confidence            8899999999999988876   7888999988888888888765  33442 235566666655 344556666666665


Q ss_pred             h---CCCCCCHHHHHHHh
Q psy17903        246 K---GGEGIVNEDVLEVT  260 (355)
Q Consensus       246 ~---~~~~It~~~v~~~~  260 (355)
                      +   +...+|+.+++.+-
T Consensus       521 Aa~dga~~VtM~~LE~ak  538 (752)
T KOG0734|consen  521 AAVDGAEMVTMKHLEFAK  538 (752)
T ss_pred             HHhcCcccccHHHHhhhh
Confidence            5   55678888887543

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.67  E-value=8.6e-15  Score=138.87  Aligned_cols=178  Identities=20%  Similarity=0.227  Sum_probs=118.6

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhc-----------C-CCC-eEEEECCCCCCHHHHHHHHHHHhcCCcc---
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------A-DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMY---   95 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----------~-~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~---   95 (355)
                      ..+..+++.+.+|+++.|.+..++.+.+.+..           + ..+ ++|||||||||||++++++++.+.....   
T Consensus       169 ~~l~~~~~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~  248 (512)
T TIGR03689       169 EDLVLEEVPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAET  248 (512)
T ss_pred             hcceeecCCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhcccccccc
Confidence            44556777788999999999999999887631           1 222 3999999999999999999999854311   


Q ss_pred             --ccceeeecCCCcc------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH------------HHH
Q psy17903         96 --RERILELNASDDR------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA------------AQA  155 (355)
Q Consensus        96 --~~~~~~~~~~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~------------~~~  155 (355)
                        ...++.+..++..      ....++..+.......     ..+.+    -||||||+|.+...            ..+
T Consensus       249 ~~~~~fl~v~~~eLl~kyvGete~~ir~iF~~Ar~~a-----~~g~p----~IIfIDEiD~L~~~R~~~~s~d~e~~il~  319 (512)
T TIGR03689       249 GDKSYFLNIKGPELLNKYVGETERQIRLIFQRAREKA-----SDGRP----VIVFFDEMDSIFRTRGSGVSSDVETTVVP  319 (512)
T ss_pred             CCceeEEeccchhhcccccchHHHHHHHHHHHHHHHh-----hcCCC----ceEEEehhhhhhcccCCCccchHHHHHHH
Confidence              1223343332211      0112222222221111     11222    29999999988431            134


Q ss_pred             HHHHHhhhcc--CCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHH
Q psy17903        156 ALRRTMEKET--KSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFK  219 (355)
Q Consensus       156 ~Ll~~le~~~--~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~  219 (355)
                      .|+..|+...  .++++|.+||.++.+.+++.+  |+. .|+|++|+.++..++++.++.. .++++++
T Consensus       320 ~LL~~LDgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~-~l~l~~~  387 (512)
T TIGR03689       320 QLLSELDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTD-SLPLDAD  387 (512)
T ss_pred             HHHHHhcccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhc-cCCchHH
Confidence            6666665432  467888999999999999998  543 6999999999999999988764 3455433

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.

>KOG0733|consensus

Probab=99.67  E-value=1.9e-15  Score=140.92  Aligned_cols=168  Identities=17%  Similarity=0.239  Sum_probs=123.4

Q ss_pred             CCCCcccccHHHHHHHHHHHhc-----------C-CCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLSG-----------A-DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~~-----------~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  108 (355)
                      .+|+++.+.+++..+|..++-.           | ..|. +|+|||||||||.+|+++|++.     ..+|+.+.+++..
T Consensus       508 VtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEa-----g~NFisVKGPELl  582 (802)
T KOG0733|consen  508 VTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEA-----GANFISVKGPELL  582 (802)
T ss_pred             CChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhc-----cCceEeecCHHHH
Confidence            3789999999999988877632           1 2333 9999999999999999999997     5577777776532


Q ss_pred             c------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHhhhc--cCCcc
Q psy17903        109 G------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEKE--TKSTR  169 (355)
Q Consensus       109 ~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~le~~--~~~~~  169 (355)
                      .      ...++..+.....         .-||    |||+||+|.|.+           ...|.|+--|+-.  ...+.
T Consensus       583 NkYVGESErAVR~vFqRAR~---------saPC----VIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~  649 (802)
T KOG0733|consen  583 NKYVGESERAVRQVFQRARA---------SAPC----VIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVY  649 (802)
T ss_pred             HHHhhhHHHHHHHHHHHhhc---------CCCe----EEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceE
Confidence            1      1223333332221         2344    999999999965           2356666666533  34677


Q ss_pred             EEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHH
Q psy17903        170 FCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKA-LETLVET  227 (355)
Q Consensus       170 ~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~l~~~  227 (355)
                      +|.+||.++.++|++.+.++   .+.+..|+.++..++|+.+.+..+..+++++ ++.|+..
T Consensus       650 viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~  711 (802)
T KOG0733|consen  650 VIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEERVAILKTITKNTKPPLSSDVDLDEIARN  711 (802)
T ss_pred             EEeecCCCcccchhhcCCCccCceeeecCCCHHHHHHHHHHHhccCCCCCCcccCHHHHhhc
Confidence            88899999999999998887   6888999999999999999987677776543 6666654

>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=99.67  E-value=2.5e-15  Score=134.06  Aligned_cols=103  Identities=24%  Similarity=0.264  Sum_probs=79.2

Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCC------------ccccccccCCeeeEEecCCCHHHHHHHHH
Q psy17903        139 KIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYV------------SCIIQPLTSRCSKFRFKPLAENTMLTRLQ  206 (355)
Q Consensus       139 ~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~------------~~l~~~l~sr~~~i~~~~~~~~~~~~~l~  206 (355)
                      +|+||||+|.|..+....|.+.||.. -.+++|++||+.            +-+...+.+||.++...|++.+++.++++
T Consensus       280 GVLFIDEvHmLDiEcFsfLnralEs~-~sPiiIlATNRg~~~irGt~~~sphGiP~DlLDRllII~t~py~~~ei~~Il~  358 (398)
T PF06068_consen  280 GVLFIDEVHMLDIECFSFLNRALESE-LSPIIILATNRGITKIRGTDIISPHGIPLDLLDRLLIIRTKPYSEEEIKQILK  358 (398)
T ss_dssp             -EEEEESGGGSBHHHHHHHHHHHTST-T--EEEEEES-SEEE-BTTS-EEETT--HHHHTTEEEEEE----HHHHHHHHH
T ss_pred             ceEEecchhhccHHHHHHHHHHhcCC-CCcEEEEecCceeeeccCccCcCCCCCCcchHhhcEEEECCCCCHHHHHHHHH
Confidence            59999999999999999999999864 456788899843            22455789999999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHH
Q psy17903        207 YICEQESVMCDFKALETLVETS-GGDMRRAITCLQSC  242 (355)
Q Consensus       207 ~~~~~~~~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~  242 (355)
                      -+|+.+++.+++++++.|.... ..++|.++++|.-+
T Consensus       359 iR~~~E~v~i~~~al~~L~~ig~~~SLRYAiqLi~~a  395 (398)
T PF06068_consen  359 IRAKEEDVEISEDALDLLTKIGVETSLRYAIQLITPA  395 (398)
T ss_dssp             HHHHHCT--B-HHHHHHHHHHHHHS-HHHHHHCHHHH
T ss_pred             hhhhhhcCcCCHHHHHHHHHHhhhccHHHHHHhhhhh
Confidence            9999999999999999999875 78999999988654

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.

>KOG0731|consensus

Probab=99.67  E-value=3.8e-15  Score=144.43  Aligned_cols=204  Identities=19%  Similarity=0.193  Sum_probs=147.9

Q ss_pred             CCCCCCcccccHHHHHHHHHHHh-----------cCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         40 RPKTIDDVIEQQEVVSVLKKCLS-----------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        40 ~p~~~~~~vg~~~~~~~l~~~l~-----------~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      .+..|+++.|.++++..|.+.+.           +..+|. +||+||||||||.||+++|.+.     +.+|+.+++++.
T Consensus       306 t~V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA-----gVPF~svSGSEF  380 (774)
T KOG0731|consen  306 TGVKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA-----GVPFFSVSGSEF  380 (774)
T ss_pred             CCCccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc-----CCceeeechHHH
Confidence            44689999999999988877663           235566 9999999999999999999987     667888888763


Q ss_pred             cc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH---------------HHHHHHHHhhh--c
Q psy17903        108 RG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA---------------AQAALRRTMEK--E  164 (355)
Q Consensus       108 ~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~---------------~~~~Ll~~le~--~  164 (355)
                      ..      ...+++.+......         .|+    +|+|||+|.+...               ..|.|+--|+.  .
T Consensus       381 vE~~~g~~asrvr~lf~~ar~~---------aP~----iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~  447 (774)
T KOG0731|consen  381 VEMFVGVGASRVRDLFPLARKN---------APS----IIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFET  447 (774)
T ss_pred             HHHhcccchHHHHHHHHHhhcc---------CCe----EEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcC
Confidence            21      22344443332222         122    9999999987432               23445554543  3


Q ss_pred             cCCccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH-HH
Q psy17903        165 TKSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITC-LQ  240 (355)
Q Consensus       165 ~~~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~-l~  240 (355)
                      ...++++.+||.++-+++++.+.++   .+.+..|+......+++.+++......++..+..++..++|..+.-+.. +.
T Consensus       448 ~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t~gf~gadl~n~~n  527 (774)
T KOG0731|consen  448 SKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLTPGFSGADLANLCN  527 (774)
T ss_pred             CCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcCCCCcHHHHHhhhh
Confidence            4568888899999999999998877   7999999999999999999887766656666666888888876654433 34


Q ss_pred             HHHHhh---CCCCCCHHHHHHHhC
Q psy17903        241 SCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       241 ~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      .++..+   +...|+..++..++.
T Consensus       528 eaa~~a~r~~~~~i~~~~~~~a~~  551 (774)
T KOG0731|consen  528 EAALLAARKGLREIGTKDLEYAIE  551 (774)
T ss_pred             HHHHHHHHhccCccchhhHHHHHH
Confidence            444433   456788888887765

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=99.66  E-value=1.2e-14  Score=139.44  Aligned_cols=216  Identities=15%  Similarity=0.136  Sum_probs=144.2

Q ss_pred             CCCCcccccHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHH
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~  119 (355)
                      ..|++++|.+..+..+.+.++.-  ...+++|+|++||||+.+|+.+++....  .+.+++.+||..... ..+...+..
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            45889999999998888877532  2234999999999999999999987533  345789999986432 222211111


Q ss_pred             HHHhhccCCCCCCCC----CCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCCc------
Q psy17903        120 FAQQTASGFNQDGKP----CPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYVS------  178 (355)
Q Consensus       120 ~~~~~~~~~~~~~~~----~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~~------  178 (355)
                      +....+.+....++.    .++.++|||||++.|+...|..|+++|++..           .++++|++++..-      
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            111111111100111    1356799999999999999999999998642           2457888887432      


Q ss_pred             -cccccccCCe--eeEEecCCCH--HHHHHHHHHHHH----HcCCCCCHHHHHH-------HHHH-cCCCHHHHHHHHHH
Q psy17903        179 -CIIQPLTSRC--SKFRFKPLAE--NTMLTRLQYICE----QESVMCDFKALET-------LVET-SGGDMRRAITCLQS  241 (355)
Q Consensus       179 -~l~~~l~sr~--~~i~~~~~~~--~~~~~~l~~~~~----~~~~~~~~~~~~~-------l~~~-~~g~~r~~~~~l~~  241 (355)
                       .+.+.+-.|.  ..+.++|+.+  +++..++...+.    ..++.+++++++.       |..+ ++||+|++.|.+++
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             2223333343  3677777765  566655555444    3466789999887       6554 59999999999999


Q ss_pred             HHHhh---CCCCCCHHHHHHHh
Q psy17903        242 CARLK---GGEGIVNEDVLEVT  260 (355)
Q Consensus       242 ~~~~~---~~~~It~~~v~~~~  260 (355)
                      ++...   .+..|+.+++....
T Consensus       446 ~~i~~~~~~~~~I~~~~l~~~~  467 (526)
T TIGR02329       446 LALELSAMPAGALTPDVLRALA  467 (526)
T ss_pred             HHHhcccCCCCccCHHHhhhhc
Confidence            88764   24578888876443

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.

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=99.66  E-value=1e-14  Score=145.24  Aligned_cols=215  Identities=15%  Similarity=0.083  Sum_probs=144.0

Q ss_pred             CCCCcccccHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHH
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~  119 (355)
                      .+|++++|.+..+..+.+.++..  ...+++|+|++||||+++|+++++.....  ..+++.+||..... +.+...+..
T Consensus       322 ~~~~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~s~r~--~~pfv~vnc~~~~~-~~~~~elfg  398 (638)
T PRK11388        322 HTFDHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNESERA--AGPYIAVNCQLYPD-EALAEEFLG  398 (638)
T ss_pred             ccccceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHhCCcc--CCCeEEEECCCCCh-HHHHHHhcC
Confidence            36999999998887777666542  22239999999999999999999886432  34789999986432 222111111


Q ss_pred             HHHhhccCCCCCCC-CCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-------ccc
Q psy17903        120 FAQQTASGFNQDGK-PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SCI  180 (355)
Q Consensus       120 ~~~~~~~~~~~~~~-~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-------~~l  180 (355)
                      ... ........|. ..+++.+|||||++.|+...|..|++++++..           .++++|++|+..       ..+
T Consensus       399 ~~~-~~~~~~~~g~~~~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~t~~~l~~~~~~~~f  477 (638)
T PRK11388        399 SDR-TDSENGRLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTADLAMLVEQNRF  477 (638)
T ss_pred             CCC-cCccCCCCCceeECCCCEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceEEeeEEEEEeccCCHHHHHhcCCC
Confidence            000 0000000011 11356799999999999999999999998643           246788887743       123


Q ss_pred             cccccCCee--eEEecCCCH--HHHHHHHHHHHHH----c--CCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCCC
Q psy17903        181 IQPLTSRCS--KFRFKPLAE--NTMLTRLQYICEQ----E--SVMCDFKALETLVETS-GGDMRRAITCLQSCARLKGGE  249 (355)
Q Consensus       181 ~~~l~sr~~--~i~~~~~~~--~~~~~~l~~~~~~----~--~~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~~~~  249 (355)
                      .+.|--|..  .|.++|+.+  +++..++...+.+    .  .+.+++++++.|.++. +||+|++.|.++.+...+.+.
T Consensus       478 ~~dL~~~l~~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~s~~a~~~L~~y~WPGNvreL~~~l~~~~~~~~~~  557 (638)
T PRK11388        478 SRQLYYALHAFEITIPPLRMRREDIPALVNNKLRSLEKRFSTRLKIDDDALARLVSYRWPGNDFELRSVIENLALSSDNG  557 (638)
T ss_pred             hHHHhhhhceeEEeCCChhhhhhHHHHHHHHHHHHHHHHhCCCCCcCHHHHHHHHcCCCCChHHHHHHHHHHHHHhCCCC
Confidence            333433433  566777765  4666555555443    2  2468999999998876 999999999999988777677


Q ss_pred             CCCHHHHHHHh
Q psy17903        250 GIVNEDVLEVT  260 (355)
Q Consensus       250 ~It~~~v~~~~  260 (355)
                      .|+.+++...+
T Consensus       558 ~i~~~~lp~~~  568 (638)
T PRK11388        558 RIRLSDLPEHL  568 (638)
T ss_pred             eecHHHCchhh
Confidence            89888876544

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.65  E-value=2.4e-14  Score=126.77  Aligned_cols=198  Identities=16%  Similarity=0.132  Sum_probs=131.2

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHH---------HHHHHHH
Q psy17903         52 EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD---------KVKTFAQ  122 (355)
Q Consensus        52 ~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~---------~i~~~~~  122 (355)
                      .+++.+..++..+.  +++|+||||||||++|+++++.++     .+++.+++........+..         ....+..
T Consensus         9 ~l~~~~l~~l~~g~--~vLL~G~~GtGKT~lA~~la~~lg-----~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~   81 (262)
T TIGR02640         9 RVTSRALRYLKSGY--PVHLRGPAGTGKTTLAMHVARKRD-----RPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIH   81 (262)
T ss_pred             HHHHHHHHHHhcCC--eEEEEcCCCCCHHHHHHHHHHHhC-----CCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHH
Confidence            44556666666553  689999999999999999999773     3455565544322222111         0111110


Q ss_pred             hh-----ccCCCC-CCC---CCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc----------------CCccEEEEecCC
Q psy17903        123 QT-----ASGFNQ-DGK---PCPPFKIVILDEADSMTHAAQAALRRTMEKET----------------KSTRFCLICNYV  177 (355)
Q Consensus       123 ~~-----~~~~~~-~~~---~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~----------------~~~~~Il~~~~~  177 (355)
                      ..     ...... .+.   ....+.+++|||++.++++.++.|+..|++..                +++++|+++|..
T Consensus        82 ~~~~~~~~~~~~~~~g~l~~A~~~g~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~~  161 (262)
T TIGR02640        82 NVVKLEDIVRQNWVDNRLTLAVREGFTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNPV  161 (262)
T ss_pred             HhhhhhcccceeecCchHHHHHHcCCEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCCc
Confidence            00     000000 000   00123599999999999999999999997531                356788888854


Q ss_pred             -----ccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc------C----CCHHHHHHHHHHH
Q psy17903        178 -----SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETS------G----GDMRRAITCLQSC  242 (355)
Q Consensus       178 -----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~------~----g~~r~~~~~l~~~  242 (355)
                           ..+.+++..||..+.+..|+.++..++++..+     .++++.++.+++..      +    -.+|.++...+.+
T Consensus       162 ~~~g~~~l~~aL~~R~~~i~i~~P~~~~e~~Il~~~~-----~~~~~~~~~iv~~~~~~R~~~~~~~~~~r~~i~~~~~~  236 (262)
T TIGR02640       162 EYAGVHETQDALLDRLITIFMDYPDIDTETAILRAKT-----DVAEDSAATIVRLVREFRASGDEITSGLRASLMIAEVA  236 (262)
T ss_pred             cccceecccHHHHhhcEEEECCCCCHHHHHHHHHHhh-----CCCHHHHHHHHHHHHHHHhhCCccCCcHHHHHHHHHHH
Confidence                 24578899999999999999999999988764     46676666665442      1    1378888888888


Q ss_pred             HHhhCCCCCCHHHHHHHhC
Q psy17903        243 ARLKGGEGIVNEDVLEVTG  261 (355)
Q Consensus       243 ~~~~~~~~It~~~v~~~~~  261 (355)
                      ..+.....++.+++.+++.
T Consensus       237 ~~~~~~~~~~~~~~~~~~~  255 (262)
T TIGR02640       237 TQQDIPVDVDDEDFVDLCI  255 (262)
T ss_pred             HHcCCCCCCCcHHHHHHHH
Confidence            7776566788888887764

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).

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=99.65  E-value=9.3e-15  Score=145.45  Aligned_cols=212  Identities=16%  Similarity=0.137  Sum_probs=145.7

Q ss_pred             cccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCcc-----ccceeeecCCCc--
Q psy17903         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-----RERILELNASDD--  107 (355)
Q Consensus        35 ~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~~~~~--  107 (355)
                      ++++-+-..++.++|++..++.+.+.+.....+++||+||||+|||++|+.++..+.....     +..++.++....  
T Consensus       176 l~~~a~~g~~~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~lla  255 (758)
T PRK11034        176 LNQLARVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLA  255 (758)
T ss_pred             HHHHHHcCCCCcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhc
Confidence            3444456678999999999999999998877777999999999999999999988643221     122333332211  


Q ss_pred             --cchHH----HHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH---------HHHHHHHHHhhhccCCccEEE
Q psy17903        108 --RGIQV----IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH---------AAQAALRRTMEKETKSTRFCL  172 (355)
Q Consensus       108 --~~~~~----i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~---------~~~~~Ll~~le~~~~~~~~Il  172 (355)
                        .....    +...+..+...             +..+|||||+|.+..         +..+.|..++.+  ....+|.
T Consensus       256 G~~~~Ge~e~rl~~l~~~l~~~-------------~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~--g~i~vIg  320 (758)
T PRK11034        256 GTKYRGDFEKRFKALLKQLEQD-------------TNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--GKIRVIG  320 (758)
T ss_pred             ccchhhhHHHHHHHHHHHHHhc-------------CCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhC--CCeEEEe
Confidence              00112    22222222211             223999999998821         223445566653  4567777


Q ss_pred             EecCCc-----cccccccCCeeeEEecCCCHHHHHHHHHHHHH----HcCCCCCHHHHHHHHHHcCC------CHHHHHH
Q psy17903        173 ICNYVS-----CIIQPLTSRCSKFRFKPLAENTMLTRLQYICE----QESVMCDFKALETLVETSGG------DMRRAIT  237 (355)
Q Consensus       173 ~~~~~~-----~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~----~~~~~~~~~~~~~l~~~~~g------~~r~~~~  237 (355)
                      +|+...     ...++|.+|+..|.+++|+.++...+|+....    ..++.++++++..+++.+..      -+.+++.
T Consensus       321 ATt~~E~~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~lPdKaid  400 (758)
T PRK11034        321 STTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAID  400 (758)
T ss_pred             cCChHHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCccChHHHHH
Confidence            777542     36899999999999999999999999997654    35789999999988876543      4668999


Q ss_pred             HHHHHHHhh-------CCCCCCHHHHHHHhC
Q psy17903        238 CLQSCARLK-------GGEGIVNEDVLEVTG  261 (355)
Q Consensus       238 ~l~~~~~~~-------~~~~It~~~v~~~~~  261 (355)
                      .|+.++...       ....|+.+++.+++.
T Consensus       401 lldea~a~~~~~~~~~~~~~v~~~~i~~v~~  431 (758)
T PRK11034        401 VIDEAGARARLMPVSKRKKTVNVADIESVVA  431 (758)
T ss_pred             HHHHHHHhhccCcccccccccChhhHHHHHH
Confidence            998876432       123477777777664

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=99.64  E-value=3e-14  Score=137.86  Aligned_cols=212  Identities=19%  Similarity=0.161  Sum_probs=140.3

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCC--CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHH
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSGADL--PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~~~~--~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  120 (355)
                      .+..++|++..+..+.+.++....  .+++|+|++||||+.+|+++++.....  +.+++.+||..... ..+...+...
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 KEGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASPRA--DKPLVYLNCAALPE-SLAESELFGH  261 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCCcC--CCCeEEEEcccCCh-HHHHHHhcCc
Confidence            567899999999888887765322  239999999999999999999986432  44788999986432 2221111111


Q ss_pred             HHhhccCCC--CCC-CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-------cc
Q psy17903        121 AQQTASGFN--QDG-KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SC  179 (355)
Q Consensus       121 ~~~~~~~~~--~~~-~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-------~~  179 (355)
                      ......+..  ..| ...++.++|||||++.|+.+.|..|++++++..           .++++|++++..       ..
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            111000000  000 111355689999999999999999999997643           256888888753       12


Q ss_pred             ccccccCCee--eEEecCCCH--HHHHHHHHHHH----HHc---CCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhhC
Q psy17903        180 IIQPLTSRCS--KFRFKPLAE--NTMLTRLQYIC----EQE---SVMCDFKALETLVET-SGGDMRRAITCLQSCARLKG  247 (355)
Q Consensus       180 l~~~l~sr~~--~i~~~~~~~--~~~~~~l~~~~----~~~---~~~~~~~~~~~l~~~-~~g~~r~~~~~l~~~~~~~~  247 (355)
                      +.+.|..|..  .|.++|+.+  +++..++...+    .+.   ...+++++++.|..+ ++||+|++.|.++.++..+.
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            3444444443  566666654  45555444333    332   356899999999876 49999999999999988764


Q ss_pred             CC------CCCHHHHH
Q psy17903        248 GE------GIVNEDVL  257 (355)
Q Consensus       248 ~~------~It~~~v~  257 (355)
                      +.      .|+.+++.
T Consensus       422 ~~~~~~~~~i~~~~l~  437 (509)
T PRK05022        422 ARGAGRIVTLEAQHLD  437 (509)
T ss_pred             CCccCccceecHHHcC
Confidence            43      36666543

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=99.64  E-value=2.5e-15  Score=137.72  Aligned_cols=203  Identities=18%  Similarity=0.154  Sum_probs=137.6

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCCC--eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHH
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSGADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~~~~~--~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  120 (355)
                      .+.++||++.++..+.+.++.-...  .+||.|++||||..+|+++++.....  +.+++.+||+.. ....+..-+..+
T Consensus       221 ~~~~iIG~S~am~~ll~~i~~VA~Sd~tVLi~GETGtGKElvAraIH~~S~R~--~kPfV~~NCAAl-PesLlESELFGH  297 (550)
T COG3604         221 EVGGIIGRSPAMRQLLKEIEVVAKSDSTVLIRGETGTGKELVARAIHQLSPRR--DKPFVKLNCAAL-PESLLESELFGH  297 (550)
T ss_pred             ccccceecCHHHHHHHHHHHHHhcCCCeEEEecCCCccHHHHHHHHHhhCccc--CCCceeeecccc-chHHHHHHHhcc
Confidence            5779999999999888887653322  39999999999999999999886543  447899999863 222222222222


Q ss_pred             HHhhccC---CCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-------cc
Q psy17903        121 AQQTASG---FNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SC  179 (355)
Q Consensus       121 ~~~~~~~---~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-------~~  179 (355)
                      ....+.+   .+.+....++++.+|+|||..|+...|.+|++.|++..           .++++|.+||..       .+
T Consensus       298 eKGAFTGA~~~r~GrFElAdGGTLFLDEIGelPL~lQaKLLRvLQegEieRvG~~r~ikVDVRiIAATNRDL~~~V~~G~  377 (550)
T COG3604         298 EKGAFTGAINTRRGRFELADGGTLFLDEIGELPLALQAKLLRVLQEGEIERVGGDRTIKVDVRVIAATNRDLEEMVRDGE  377 (550)
T ss_pred             cccccccchhccCcceeecCCCeEechhhccCCHHHHHHHHHHHhhcceeecCCCceeEEEEEEEeccchhHHHHHHcCc
Confidence            2222222   11112222677899999999999999999999998642           468899999853       11


Q ss_pred             c--------------cccccCCeeeEEecCCCHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHH-cCCCHHHHHHHHHH
Q psy17903        180 I--------------IQPLTSRCSKFRFKPLAENTMLTRLQYICEQES---VMCDFKALETLVET-SGGDMRRAITCLQS  241 (355)
Q Consensus       180 l--------------~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~---~~~~~~~~~~l~~~-~~g~~r~~~~~l~~  241 (355)
                      +              .|+|+.|...|.+      -...++++...+.|   ..+++++++.|.++ ++||+|.+.|.+++
T Consensus       378 FRaDLYyRLsV~Pl~lPPLRER~~DIpl------LA~~Fle~~~~~~gr~~l~ls~~Al~~L~~y~wPGNVRELen~veR  451 (550)
T COG3604         378 FRADLYYRLSVFPLELPPLRERPEDIPL------LAGYFLEKFRRRLGRAILSLSAEALELLSSYEWPGNVRELENVVER  451 (550)
T ss_pred             chhhhhhcccccccCCCCcccCCccHHH------HHHHHHHHHHHhcCCcccccCHHHHHHHHcCCCCCcHHHHHHHHHH
Confidence            2              3444444443311      12333344444444   46899999999876 49999999999999


Q ss_pred             HHHhhCCCCCCHHH
Q psy17903        242 CARLKGGEGIVNED  255 (355)
Q Consensus       242 ~~~~~~~~~It~~~  255 (355)
                      ++..+ +..++..+
T Consensus       452 avlla-~~~~~~~d  464 (550)
T COG3604         452 AVLLA-GRLTRRGD  464 (550)
T ss_pred             HHHHh-cccCCCcc
Confidence            99987 55555444

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

Probab=99.64  E-value=5.9e-14  Score=125.33  Aligned_cols=204  Identities=19%  Similarity=0.170  Sum_probs=128.5

Q ss_pred             ccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHH-------------
Q psy17903         49 EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD-------------  115 (355)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~-------------  115 (355)
                      ++..+...+...+..+ .+.++|+||+|+|||++++.+++.+.....  ....+........+.+..             
T Consensus        27 ~~~~~~~~l~~~~~~~-~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~--~~~~~~~~~~~~~~~l~~i~~~lG~~~~~~~  103 (269)
T TIGR03015        27 GHKRAMAYLEYGLSQR-EGFILITGEVGAGKTTLIRNLLKRLDQERV--VAAKLVNTRVDAEDLLRMVAADFGLETEGRD  103 (269)
T ss_pred             HHHHHHHHHHHHHhcC-CCEEEEEcCCCCCHHHHHHHHHHhcCCCCe--EEeeeeCCCCCHHHHHHHHHHHcCCCCCCCC
Confidence            3445556666555543 224899999999999999999998753221  111111111000111111             


Q ss_pred             ------HHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc---cCCccEEEEecCC--cc----c
Q psy17903        116 ------KVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE---TKSTRFCLICNYV--SC----I  180 (355)
Q Consensus       116 ------~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~---~~~~~~Il~~~~~--~~----l  180 (355)
                            .+..+.....    ..+    ...+|+|||++.+.....+.|..+.+..   ...+.+++++...  ..    -
T Consensus       104 ~~~~~~~l~~~l~~~~----~~~----~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~  175 (269)
T TIGR03015       104 KAALLRELEDFLIEQF----AAG----KRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQ  175 (269)
T ss_pred             HHHHHHHHHHHHHHHH----hCC----CCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCch
Confidence                  1111110000    011    3359999999999988777765544321   1223445555421  11    1


Q ss_pred             cccccCCe-eeEEecCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---CCCCCC
Q psy17903        181 IQPLTSRC-SKFRFKPLAENTMLTRLQYICEQES----VMCDFKALETLVETSGGDMRRAITCLQSCARLK---GGEGIV  252 (355)
Q Consensus       181 ~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~----~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~---~~~~It  252 (355)
                      ..++.+|. ..+++++++.+++..++...+...+    ..+++++++.|++.++|++|.+...+..+...+   +...|+
T Consensus       176 ~~~l~~r~~~~~~l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~  255 (269)
T TIGR03015       176 LQQLRQRIIASCHLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIG  255 (269)
T ss_pred             hHHHHhheeeeeeCCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCC
Confidence            23466774 4789999999999999999988655    368999999999999999999887777765443   567899


Q ss_pred             HHHHHHHhCCC
Q psy17903        253 NEDVLEVTGVI  263 (355)
Q Consensus       253 ~~~v~~~~~~~  263 (355)
                      .++|.+++...
T Consensus       256 ~~~v~~~~~~~  266 (269)
T TIGR03015       256 GEEVREVIAEI  266 (269)
T ss_pred             HHHHHHHHHHh
Confidence            99999887543

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.

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=99.63  E-value=7.3e-15  Score=134.15  Aligned_cols=208  Identities=19%  Similarity=0.210  Sum_probs=142.4

Q ss_pred             CCCCcccccHHHHHHHHHHHhcCCC--CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHH
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLSGADL--PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~~~~~--~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~  119 (355)
                      ..++++||.+.....+.+.++.-..  .++||+|++|+||+.+|+.++..... .+..+++.+||+.....-...+ +..
T Consensus        75 ~~~~~LIG~~~~~~~~~eqik~~ap~~~~vLi~GetGtGKel~A~~iH~~s~r-~~~~PFI~~NCa~~~en~~~~e-LFG  152 (403)
T COG1221          75 EALDDLIGESPSLQELREQIKAYAPSGLPVLIIGETGTGKELFARLIHALSAR-RAEAPFIAFNCAAYSENLQEAE-LFG  152 (403)
T ss_pred             hhhhhhhccCHHHHHHHHHHHhhCCCCCcEEEecCCCccHHHHHHHHHHhhhc-ccCCCEEEEEHHHhCcCHHHHH-Hhc
Confidence            3578999999888888777776322  23999999999999999999943322 2677999999987544333322 222


Q ss_pred             HHHhhccCCCCCCCC----CCCcEEEEEeCCCCCCHHHHHHHHHHhhh-----------ccCCccEEEEecCC--ccccc
Q psy17903        120 FAQQTASGFNQDGKP----CPPFKIVILDEADSMTHAAQAALRRTMEK-----------ETKSTRFCLICNYV--SCIIQ  182 (355)
Q Consensus       120 ~~~~~~~~~~~~~~~----~~~~~vliiDe~d~l~~~~~~~Ll~~le~-----------~~~~~~~Il~~~~~--~~l~~  182 (355)
                      +....+.+ +..+++    .++++++|+||++.|++..|..|+++|++           .+.++++|++|+..  ..+..
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            22222332 111211    15778999999999999999999999997           34578889888743  34555


Q ss_pred             --cccCCee--eEEecCCCH--HHHHHH----HHHHHHHcCCCC---CHHHHHHHHHH-cCCCHHHHHHHHHHHHHhhCC
Q psy17903        183 --PLTSRCS--KFRFKPLAE--NTMLTR----LQYICEQESVMC---DFKALETLVET-SGGDMRRAITCLQSCARLKGG  248 (355)
Q Consensus       183 --~l~sr~~--~i~~~~~~~--~~~~~~----l~~~~~~~~~~~---~~~~~~~l~~~-~~g~~r~~~~~l~~~~~~~~~  248 (355)
                        .+-.|+.  .|+++|+.+  +|+...    +...+++.+.++   +++++..+..+ ++||+|++.|.++.++..+..
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              6666555  566766654  333333    444555555543   34677777665 599999999999999987744


Q ss_pred             CCCC
Q psy17903        249 EGIV  252 (355)
Q Consensus       249 ~~It  252 (355)
                      ..++
T Consensus       312 ~~~~  315 (403)
T COG1221         312 EGQD  315 (403)
T ss_pred             ccCC
Confidence            4444

>KOG0738|consensus

Probab=99.63  E-value=4.4e-15  Score=131.80  Aligned_cols=179  Identities=22%  Similarity=0.257  Sum_probs=120.6

Q ss_pred             CCCcccccHHHHHHHHHHH----------hcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc-
Q psy17903         43 TIDDVIEQQEVVSVLKKCL----------SGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG-  109 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l----------~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~-  109 (355)
                      .|+++.|..++++.|++++          ++.+.|-  +|++||||+|||.+|++++.+..     .-|+.++.+...+ 
T Consensus       210 kW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc~-----tTFFNVSsstltSK  284 (491)
T KOG0738|consen  210 KWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECG-----TTFFNVSSSTLTSK  284 (491)
T ss_pred             ChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhhc-----CeEEEechhhhhhh
Confidence            6888889888888888765          3444444  99999999999999999999984     3456666655322 


Q ss_pred             ----hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH------------HHHHHHHHHhhhcc-----CCc
Q psy17903        110 ----IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH------------AAQAALRRTMEKET-----KST  168 (355)
Q Consensus       110 ----~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~------------~~~~~Ll~~le~~~-----~~~  168 (355)
                          .+.+...+.+++.....+            +|||||||.|..            ...+.|+--|+-..     ..+
T Consensus       285 wRGeSEKlvRlLFemARfyAPS------------tIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~  352 (491)
T KOG0738|consen  285 WRGESEKLVRLLFEMARFYAPS------------TIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLENSKV  352 (491)
T ss_pred             hccchHHHHHHHHHHHHHhCCc------------eeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhcccccccccee
Confidence                234444555555443322            899999999954            12355655554211     234


Q ss_pred             cEEE-EecCCccccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q psy17903        169 RFCL-ICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL  239 (355)
Q Consensus       169 ~~Il-~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l  239 (355)
                      +||+ +||-+..+++++++|+. .|.++-|+.+.....++..+.. ....++-.++.|++.+.|.-+.-+..+
T Consensus       353 VmVLAATN~PWdiDEAlrRRlEKRIyIPLP~~~~R~~Li~~~l~~-~~~~~~~~~~~lae~~eGySGaDI~nv  424 (491)
T KOG0738|consen  353 VMVLAATNFPWDIDEALRRRLEKRIYIPLPDAEARSALIKILLRS-VELDDPVNLEDLAERSEGYSGADITNV  424 (491)
T ss_pred             EEEEeccCCCcchHHHHHHHHhhheeeeCCCHHHHHHHHHHhhcc-ccCCCCccHHHHHHHhcCCChHHHHHH
Confidence            5555 56778999999999998 6778778887777777655532 223344557778888777554444333

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.63  E-value=5e-15  Score=151.02  Aligned_cols=201  Identities=16%  Similarity=0.157  Sum_probs=147.2

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-----cccceeeecCCC
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNASD  106 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~  106 (355)
                      ..+++++.||..++.++|+++.++++.+.+.....++++|+||||+|||++++.++..+....     .+..++.++...
T Consensus       160 ~~~l~~~~~~~~~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~  239 (852)
T TIGR03346       160 ARDLTERAREGKLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGA  239 (852)
T ss_pred             hhhHHHHhhCCCCCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHH
Confidence            467999999999999999999999999999888777899999999999999999999874321     123444544322


Q ss_pred             c----cchH----HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------HHHHHHHHHhhhccCCccE
Q psy17903        107 D----RGIQ----VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------AAQAALRRTMEKETKSTRF  170 (355)
Q Consensus       107 ~----~~~~----~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------~~~~~Ll~~le~~~~~~~~  170 (355)
                      .    ....    .+...+.......            ...||||||+|.+..        +..+.|...+++  ....+
T Consensus       240 l~a~~~~~g~~e~~l~~~l~~~~~~~------------~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~--g~i~~  305 (852)
T TIGR03346       240 LIAGAKYRGEFEERLKAVLNEVTKSE------------GQIILFIDELHTLVGAGKAEGAMDAGNMLKPALAR--GELHC  305 (852)
T ss_pred             HhhcchhhhhHHHHHHHHHHHHHhcC------------CCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhc--CceEE
Confidence            1    1111    2333333322110            234999999998863        345666666653  45677


Q ss_pred             EEEecCC-----ccccccccCCeeeEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC---C---HHHH
Q psy17903        171 CLICNYV-----SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGG---D---MRRA  235 (355)
Q Consensus       171 Il~~~~~-----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~g---~---~r~~  235 (355)
                      |.+|+..     ....+++.+|+..+.++.|+.++...+++.....    .++.++++++..++..+.+   |   +.++
T Consensus       306 IgaTt~~e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~~~~e~~~~v~~~d~~i~~~~~ls~~yi~~r~lPdkA  385 (852)
T TIGR03346       306 IGATTLDEYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGLKERYEVHHGVRITDPAIVAAATLSHRYITDRFLPDKA  385 (852)
T ss_pred             EEeCcHHHHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHHHHhccccCCCCCHHHHHHHHHhccccccccCCchHH
Confidence            8777744     2368999999999999999999999999877654    4677899999998887754   3   7889


Q ss_pred             HHHHHHHHHhh
Q psy17903        236 ITCLQSCARLK  246 (355)
Q Consensus       236 ~~~l~~~~~~~  246 (355)
                      +..|+.++...
T Consensus       386 idlld~a~a~~  396 (852)
T TIGR03346       386 IDLIDEAAARI  396 (852)
T ss_pred             HHHHHHHHHHH
Confidence            99998877543

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.63  E-value=1.5e-14  Score=147.21  Aligned_cols=197  Identities=14%  Similarity=0.120  Sum_probs=142.8

Q ss_pred             ccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-----cccceeeecCCCc-
Q psy17903         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNASDD-  107 (355)
Q Consensus        34 ~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~~-  107 (355)
                      .++++-+...++.++|++..++++.+++.....++++|+||||||||++++.++..+....     .+..++.++.... 
T Consensus       168 ~l~~~a~~~~~~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~  247 (821)
T CHL00095        168 NLTKEAIDGNLDPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLL  247 (821)
T ss_pred             HHHHHHHcCCCCCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHh
Confidence            3444556778999999999999999999888878899999999999999999999975321     1245666665421 


Q ss_pred             ---cchH----HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------HHHHHHHHHhhhccCCccEEE
Q psy17903        108 ---RGIQ----VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------AAQAALRRTMEKETKSTRFCL  172 (355)
Q Consensus       108 ---~~~~----~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------~~~~~Ll~~le~~~~~~~~Il  172 (355)
                         ....    .+...+......             +..||||||+|.+..        +..+.|...+.+  ..+.+|.
T Consensus       248 ag~~~~ge~e~rl~~i~~~~~~~-------------~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~r--g~l~~Ig  312 (821)
T CHL00095        248 AGTKYRGEFEERLKRIFDEIQEN-------------NNIILVIDEVHTLIGAGAAEGAIDAANILKPALAR--GELQCIG  312 (821)
T ss_pred             ccCCCccHHHHHHHHHHHHHHhc-------------CCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhC--CCcEEEE
Confidence               1112    333333333211             224999999998753        245666667764  3567777


Q ss_pred             EecCC-----ccccccccCCeeeEEecCCCHHHHHHHHHHHHH----HcCCCCCHHHHHHHHHHcCC------CHHHHHH
Q psy17903        173 ICNYV-----SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICE----QESVMCDFKALETLVETSGG------DMRRAIT  237 (355)
Q Consensus       173 ~~~~~-----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~----~~~~~~~~~~~~~l~~~~~g------~~r~~~~  237 (355)
                      +|+..     ....+++.+|+..+.+..|+.++...+++....    ..++.++++++..++..+++      -++++++
T Consensus       313 aTt~~ey~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls~~yi~~r~lPdkaid  392 (821)
T CHL00095        313 ATTLDEYRKHIEKDPALERRFQPVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSDQYIADRFLPDKAID  392 (821)
T ss_pred             eCCHHHHHHHHhcCHHHHhcceEEecCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCccccCchHHHH
Confidence            77743     235689999999999999999998888876543    24677999999999988765      3778999


Q ss_pred             HHHHHHHh
Q psy17903        238 CLQSCARL  245 (355)
Q Consensus       238 ~l~~~~~~  245 (355)
                      .|+.++..
T Consensus       393 lld~a~a~  400 (821)
T CHL00095        393 LLDEAGSR  400 (821)
T ss_pred             HHHHHHHH
Confidence            99877653

>KOG1942|consensus

Probab=99.62  E-value=4.6e-14  Score=121.03  Aligned_cols=121  Identities=22%  Similarity=0.257  Sum_probs=101.6

Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCC-------------ccccccccCCeeeEEecCCCHHHHHHHH
Q psy17903        139 KIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYV-------------SCIIQPLTSRCSKFRFKPLAENTMLTRL  205 (355)
Q Consensus       139 ~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~-------------~~l~~~l~sr~~~i~~~~~~~~~~~~~l  205 (355)
                      .++||||++.|.-+....|.+.+|.+ -.+++||++|.-             +-+.+.+..|..++.-.+++++++++++
T Consensus       298 GVLFIDEVhMLDiEcFTyL~kalES~-iaPivifAsNrG~~~irGt~d~~sPhGip~dllDRl~Iirt~~y~~~e~r~Ii  376 (456)
T KOG1942|consen  298 GVLFIDEVHMLDIECFTYLHKALESP-IAPIVIFASNRGMCTIRGTEDILSPHGIPPDLLDRLLIIRTLPYDEEEIRQII  376 (456)
T ss_pred             cceEeeehhhhhhHHHHHHHHHhcCC-CCceEEEecCCcceeecCCcCCCCCCCCCHHHhhheeEEeeccCCHHHHHHHH
Confidence            49999999999999999999999864 456788888742             3356778999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHH---hhCCCCCCHHHHHHHh
Q psy17903        206 QYICEQESVMCDFKALETLVETS-GGDMRRAITCLQSCAR---LKGGEGIVNEDVLEVT  260 (355)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~---~~~~~~It~~~v~~~~  260 (355)
                      +.+++.+++.++++++..++... ..++|.+++.|--+..   ..++..|..++++++.
T Consensus       377 ~~Ra~~E~l~~~e~a~~~l~~~gt~tsLRy~vqLl~p~~~~ak~~g~~~i~v~dvee~~  435 (456)
T KOG1942|consen  377 KIRAQVEGLQVEEEALDLLAEIGTSTSLRYAVQLLTPASILAKTNGRKEISVEDVEEVT  435 (456)
T ss_pred             HHHHhhhcceecHHHHHHHHhhccchhHHHHHHhcCHHHHHHHHcCCceeecccHHHHH
Confidence            99999999999999999999864 6789999999864433   3366789888888754

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.61  E-value=7.6e-15  Score=149.17  Aligned_cols=200  Identities=17%  Similarity=0.169  Sum_probs=145.7

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-----cccceeeecCCC
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNASD  106 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~  106 (355)
                      ..+++++.||..++.++|+++.++++.+.+.....++++|+||||||||++++.++..+..+.     .+..++.++...
T Consensus       165 ~~~l~~~~r~~~l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~  244 (857)
T PRK10865        165 TIDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA  244 (857)
T ss_pred             hhhHHHHHhcCCCCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhh
Confidence            467899999999999999999999999999888877899999999999999999999985421     123455554433


Q ss_pred             c----cchH----HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------HHHHHHHHHhhhccCCccE
Q psy17903        107 D----RGIQ----VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------AAQAALRRTMEKETKSTRF  170 (355)
Q Consensus       107 ~----~~~~----~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------~~~~~Ll~~le~~~~~~~~  170 (355)
                      .    ....    .+...+.......            ...||||||+|.+..        +.++.|...+++  ....+
T Consensus       245 l~ag~~~~g~~e~~lk~~~~~~~~~~------------~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~--g~l~~  310 (857)
T PRK10865        245 LVAGAKYRGEFEERLKGVLNDLAKQE------------GNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHC  310 (857)
T ss_pred             hhhccchhhhhHHHHHHHHHHHHHcC------------CCeEEEEecHHHhccCCCCccchhHHHHhcchhhc--CCCeE
Confidence            1    1111    2333333322211            224999999999963        346777777764  46778


Q ss_pred             EEEecCCc-----cccccccCCeeeEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHH
Q psy17903        171 CLICNYVS-----CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGG------DMRRA  235 (355)
Q Consensus       171 Il~~~~~~-----~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~g------~~r~~  235 (355)
                      |.+|+...     ...+++.+|+..|.+..|+.++...+++.....    .++.++++++...+..+++      -+.++
T Consensus       311 IgaTt~~e~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~~~~e~~~~v~~~d~a~~~a~~ls~ry~~~~~~pdkA  390 (857)
T PRK10865        311 VGATTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLKERYELHHHVQITDPAIVAAATLSHRYIADRQLPDKA  390 (857)
T ss_pred             EEcCCCHHHHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHhhhhccCCCCCcCHHHHHHHHHHhhccccCCCCChHH
Confidence            88777543     367999999999999999999999999877653    3678889888887766643      35677


Q ss_pred             HHHHHHHHHh
Q psy17903        236 ITCLQSCARL  245 (355)
Q Consensus       236 ~~~l~~~~~~  245 (355)
                      +..++.++..
T Consensus       391 i~LiD~aaa~  400 (857)
T PRK10865        391 IDLIDEAASS  400 (857)
T ss_pred             HHHHHHHhcc
Confidence            7777766653

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

Probab=99.61  E-value=4.6e-14  Score=119.99  Aligned_cols=190  Identities=20%  Similarity=0.245  Sum_probs=134.9

Q ss_pred             cccCCCCCCcccccHHHHHHHHHH----HhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHH
Q psy17903         37 EKYRPKTIDDVIEQQEVVSVLKKC----LSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQV  112 (355)
Q Consensus        37 ~k~~p~~~~~~vg~~~~~~~l~~~----l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  112 (355)
                      ....|..+++++|-+..++.|.+.    +.+....|+|++|++|||||++++++..++....  ..++++...+......
T Consensus        19 ~~~~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~G--LRlIev~k~~L~~l~~   96 (249)
T PF05673_consen   19 KHPDPIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQG--LRLIEVSKEDLGDLPE   96 (249)
T ss_pred             CCCCCCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC--ceEEEECHHHhccHHH
Confidence            344567899999999888777654    4555555699999999999999999999987654  4688888776555555


Q ss_pred             HHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHH-HHHHHHHh----hhccCCccEEEEecCCccccc-----
Q psy17903        113 IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA-QAALRRTM----EKETKSTRFCLICNYVSCIIQ-----  182 (355)
Q Consensus       113 i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~-~~~Ll~~l----e~~~~~~~~Il~~~~~~~l~~-----  182 (355)
                      +.+.+..   .+            .+=|||+||...=..+. -..|..+|    +..|.|+++..|+|..+-+.+     
T Consensus        97 l~~~l~~---~~------------~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~E~~~d~  161 (249)
T PF05673_consen   97 LLDLLRD---RP------------YKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVPESFSDR  161 (249)
T ss_pred             HHHHHhc---CC------------CCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhccchhhhhc
Confidence            5544442   21            12299999976443333 34455554    456788888888875432211     


Q ss_pred             ------------------cccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHcCCCHHHHHHH
Q psy17903        183 ------------------PLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDF-----KALETLVETSGGDMRRAITC  238 (355)
Q Consensus       183 ------------------~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~-----~~~~~l~~~~~g~~r~~~~~  238 (355)
                                        +|..|+. .+.|.+++.++..++++..+++.|+.+++     ++++......+.+.|.|.+.
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                              2345554 79999999999999999999999999985     44444445556789999988


Q ss_pred             HHHHH
Q psy17903        239 LQSCA  243 (355)
Q Consensus       239 l~~~~  243 (355)
                      ++.+.
T Consensus       242 ~~~l~  246 (249)
T PF05673_consen  242 IDDLA  246 (249)
T ss_pred             HHHHh
Confidence            87654

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.60  E-value=5.1e-14  Score=127.57  Aligned_cols=217  Identities=14%  Similarity=0.135  Sum_probs=131.6

Q ss_pred             CCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCcc----ccceeeec----C-------
Q psy17903         40 RPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY----RERILELN----A-------  104 (355)
Q Consensus        40 ~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~----~~~~~~~~----~-------  104 (355)
                      .|..|.+++||++++..+.-.+-.....|+||+|+||+|||++|+++++.+.+-..    .+.+..+.    .       
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            57789999999999998886554333467999999999999999999999842100    00000000    0       


Q ss_pred             ---------------CC--ccchHHHHHHHHHHHHhhccCCCCCCC-CCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-
Q psy17903        105 ---------------SD--DRGIQVIRDKVKTFAQQTASGFNQDGK-PCPPFKIVILDEADSMTHAAQAALRRTMEKET-  165 (355)
Q Consensus       105 ---------------~~--~~~~~~i~~~i~~~~~~~~~~~~~~~~-~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-  165 (355)
                                     +.  ..+...+...+.    .+..... .|. ..+++.++++||++.+++..|+.|+..|++.. 
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                           00  000001111100    0000000 010 01345699999999999999999999998643 


Q ss_pred             ------------CCccEEEEecCCc-cccccccCCee-eEEecCCCH-HHHHHHHHHHHH--------------------
Q psy17903        166 ------------KSTRFCLICNYVS-CIIQPLTSRCS-KFRFKPLAE-NTMLTRLQYICE--------------------  210 (355)
Q Consensus       166 ------------~~~~~Il~~~~~~-~l~~~l~sr~~-~i~~~~~~~-~~~~~~l~~~~~--------------------  210 (355)
                                  ..++++.+.|..+ .+.+++..|+. .+.+.++.. ++..+++.....                    
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                        2233444444323 46778888986 567766655 554555544211                    


Q ss_pred             ---------HcCCCCCHHHHHHHHHHc---C-CCHHHHHHHHHHHHH---hhCCCCCCHHHHHHHhC
Q psy17903        211 ---------QESVMCDFKALETLVETS---G-GDMRRAITCLQSCAR---LKGGEGIVNEDVLEVTG  261 (355)
Q Consensus       211 ---------~~~~~~~~~~~~~l~~~~---~-g~~r~~~~~l~~~~~---~~~~~~It~~~v~~~~~  261 (355)
                               -..+.++++.++++++.+   + ..+|..+..+..+..   +.+...|+.+|+..+..
T Consensus       238 ~~i~~a~~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~~  304 (334)
T PRK13407        238 GRILGARARLPQLKTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRSVAT  304 (334)
T ss_pred             HHHHHHHHhcCCcccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHHH
Confidence                     124668888888877654   2 356666665554433   33778899999987763

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.60  E-value=3.6e-14  Score=143.87  Aligned_cols=195  Identities=19%  Similarity=0.323  Sum_probs=136.5

Q ss_pred             CcccccHHHHHHHHHHHhc-------CCCCe--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHH
Q psy17903         45 DDVIEQQEVVSVLKKCLSG-------ADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~-------~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~  115 (355)
                      +.++||+.++..+.+.+..       .+.|.  ++|+||+|+|||.+|+++++.+++...  .++.+|+++......+..
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            4688999999999888743       12222  899999999999999999999875432  566677654322211111


Q ss_pred             HHHHHHHhhccCCCCCCC-----CCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC--
Q psy17903        116 KVKTFAQQTASGFNQDGK-----PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV--  177 (355)
Q Consensus       116 ~i~~~~~~~~~~~~~~~~-----~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~--  177 (355)
                      .+...  .+..+....|.     ...++.||++||++.+.++.++.|+.+++++.           .+++||+++|-.  
T Consensus       644 l~g~~--~gyvg~~~~g~L~~~v~~~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSNlg~~  721 (852)
T TIGR03345       644 LKGSP--PGYVGYGEGGVLTEAVRRKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLTSNAGSD  721 (852)
T ss_pred             ccCCC--CCcccccccchHHHHHHhCCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEeCCCchH
Confidence            10000  00000000000     00144599999999999999999999998764           678899998731  


Q ss_pred             ---------c------------------cccccccCCeeeEEecCCCHHHHHHHHHHHHHH-------c-C--CCCCHHH
Q psy17903        178 ---------S------------------CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ-------E-S--VMCDFKA  220 (355)
Q Consensus       178 ---------~------------------~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~-------~-~--~~~~~~~  220 (355)
                               .                  .+.|++.+|+.+|.|.+++.+++..++...+..       . +  +.+++++
T Consensus       722 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEflnRi~iI~F~pLs~e~l~~Iv~~~L~~l~~rl~~~~gi~l~i~d~a  801 (852)
T TIGR03345       722 LIMALCADPETAPDPEALLEALRPELLKVFKPAFLGRMTVIPYLPLDDDVLAAIVRLKLDRIARRLKENHGAELVYSEAL  801 (852)
T ss_pred             HHHHhccCcccCcchHHHHHHHHHHHHHhccHHHhcceeEEEeCCCCHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHH
Confidence                     0                  145778899999999999999999998776643       1 4  4689999


Q ss_pred             HHHHHHHcCC---CHHHHHHHHHHHH
Q psy17903        221 LETLVETSGG---DMRRAITCLQSCA  243 (355)
Q Consensus       221 ~~~l~~~~~g---~~r~~~~~l~~~~  243 (355)
                      +++|++.+.+   ..|.+.+.++...
T Consensus       802 ~~~La~~g~~~~~GAR~L~r~Ie~~i  827 (852)
T TIGR03345       802 VEHIVARCTEVESGARNIDAILNQTL  827 (852)
T ss_pred             HHHHHHHcCCCCCChHHHHHHHHHHH
Confidence            9999998866   7899988887643

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.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.60  E-value=4.2e-14  Score=139.85  Aligned_cols=208  Identities=16%  Similarity=0.136  Sum_probs=139.5

Q ss_pred             ccccccCCCCCCcccccHHHHHHHHHHHhc-----------CCCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceee
Q psy17903         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------ADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILE  101 (355)
Q Consensus        34 ~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----------~~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~  101 (355)
                      .|........|+++.|.+....++.+.+.-           +..+ +++|+||||+|||++++++++++.     .+++.
T Consensus       141 ~~~~~~~~~~~~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~-----~~f~~  215 (644)
T PRK10733        141 MLTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK-----VPFFT  215 (644)
T ss_pred             ccCchhhhCcHHHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcC-----CCEEE
Confidence            334444456788999998888777765531           1223 499999999999999999999873     35666


Q ss_pred             ecCCCcc------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH--------------HHHHHHHHh
Q psy17903        102 LNASDDR------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTM  161 (355)
Q Consensus       102 ~~~~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~--------------~~~~Ll~~l  161 (355)
                      +++++..      +...++..+......         .|    .+|||||+|.+...              ..+.|+..|
T Consensus       216 is~~~~~~~~~g~~~~~~~~~f~~a~~~---------~P----~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~m  282 (644)
T PRK10733        216 ISGSDFVEMFVGVGASRVRDMFEQAKKA---------AP----CIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEM  282 (644)
T ss_pred             EehHHhHHhhhcccHHHHHHHHHHHHhc---------CC----cEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhh
Confidence            6665421      122333333332211         12    29999999998431              235555556


Q ss_pred             hhc--cCCccEEEEecCCccccccccC--Ce-eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC----CH
Q psy17903        162 EKE--TKSTRFCLICNYVSCIIQPLTS--RC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG----DM  232 (355)
Q Consensus       162 e~~--~~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g----~~  232 (355)
                      +..  ...+++|.+||.++.+.+++.+  |+ ..+.|+.|+.++..++++.++++..+.- +..+..+++.+.|    |+
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 DGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAP-DIDAAIIARGTPGFSGADL  361 (644)
T ss_pred             hcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCCC-cCCHHHHHhhCCCCCHHHH
Confidence            543  3457888899999999999986  55 3899999999999999998887644322 2235667888877    56


Q ss_pred             HHHHHHHHHHHHhhCCCCCCHHHHHHHh
Q psy17903        233 RRAITCLQSCARLKGGEGIVNEDVLEVT  260 (355)
Q Consensus       233 r~~~~~l~~~~~~~~~~~It~~~v~~~~  260 (355)
                      ..+.+.....+...+...|+.+++.++.
T Consensus       362 ~~l~~eAa~~a~r~~~~~i~~~d~~~a~  389 (644)
T PRK10733        362 ANLVNEAALFAARGNKRVVSMVEFEKAK  389 (644)
T ss_pred             HHHHHHHHHHHHHcCCCcccHHHHHHHH
Confidence            5555555444443356779999988765

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.60  E-value=9.4e-14  Score=140.19  Aligned_cols=229  Identities=17%  Similarity=0.198  Sum_probs=145.3

Q ss_pred             CCCCCcccccHHHHHHHHHHHhc-----------C-C-CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         41 PKTIDDVIEQQEVVSVLKKCLSG-----------A-D-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~l~~-----------~-~-~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      ..+|+++.|.+.+++.+.+.+..           + . ..++|||||||||||++++++++.+.     ..++.+++.+.
T Consensus       174 ~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~-----~~~i~i~~~~i  248 (733)
T TIGR01243       174 KVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAG-----AYFISINGPEI  248 (733)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhC-----CeEEEEecHHH
Confidence            34799999999999999887732           1 1 22399999999999999999999983     34566665432


Q ss_pred             c------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHhhhcc--CCc
Q psy17903        108 R------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEKET--KST  168 (355)
Q Consensus       108 ~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~le~~~--~~~  168 (355)
                      .      ....++..+......             ...+|||||+|.+..           ..++.|+..|+...  ..+
T Consensus       249 ~~~~~g~~~~~l~~lf~~a~~~-------------~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~v  315 (733)
T TIGR01243       249 MSKYYGESEERLREIFKEAEEN-------------APSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRV  315 (733)
T ss_pred             hcccccHHHHHHHHHHHHHHhc-------------CCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCE
Confidence            1      112233333322211             113999999998753           23566777776432  345


Q ss_pred             cEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        169 RFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCD-FKALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       169 ~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                      ++|.++|.+..+.+++++  |+. .+.|..|+.++..++++..+..  ..+. +..++.+++.++|....-+..+...+.
T Consensus       316 ivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~--~~l~~d~~l~~la~~t~G~~gadl~~l~~~a~  393 (733)
T TIGR01243       316 IVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRN--MPLAEDVDLDKLAEVTHGFVGADLAALAKEAA  393 (733)
T ss_pred             EEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcC--CCCccccCHHHHHHhCCCCCHHHHHHHHHHHH
Confidence            666788888889999887  443 7899999999999999966543  3343 345788888888765543333322111


Q ss_pred             hh-----------------------CCCCCCHHHHHHHhCCCChHHHHHHHhc---------CCHHHHHHHHHHHHH
Q psy17903        245 LK-----------------------GGEGIVNEDVLEVTGVIPNPWIEKLLKV---------DSFQVLEKYIEDLIL  289 (355)
Q Consensus       245 ~~-----------------------~~~~It~~~v~~~~~~~~~~~~~~l~~~---------~~~~~~~~~l~~l~~  289 (355)
                      ..                       ..-.++.+++..++....+....+.+..         +..+.+++.+.+.+.
T Consensus       394 ~~al~r~~~~~~~~~~~~~i~~~~~~~~~v~~~df~~Al~~v~ps~~~~~~~~~~~~~~~di~g~~~~k~~l~~~v~  470 (733)
T TIGR01243       394 MAALRRFIREGKINFEAEEIPAEVLKELKVTMKDFMEALKMVEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAVE  470 (733)
T ss_pred             HHHHHHHhhccccccccccccchhcccccccHHHHHHHHhhccccccchhhccccccchhhcccHHHHHHHHHHHHH
Confidence            10                       1124677788777765554433322211         345556666666544

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.

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=99.59  E-value=1.3e-14  Score=145.55  Aligned_cols=209  Identities=20%  Similarity=0.223  Sum_probs=138.7

Q ss_pred             cccccHHHHHHHHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHH
Q psy17903         46 DVIEQQEVVSVLKKCLSG------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~------~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~  119 (355)
                      +..|.+.+++++..++..      ...+.++|+||||+|||++++.+++.+..     +++.++.........+......
T Consensus       323 ~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~-----~~~~i~~~~~~d~~~i~g~~~~  397 (784)
T PRK10787        323 DHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGR-----KYVRMALGGVRDEAEIRGHRRT  397 (784)
T ss_pred             hccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCC-----CEEEEEcCCCCCHHHhccchhc
Confidence            488999999999877642      23344999999999999999999999843     4555554443333333222111


Q ss_pred             HHHhhcc----CCCCCCCCCCCcEEEEEeCCCCCCHHH----HHHHHHHhhhc---------------cCCccEEEEecC
Q psy17903        120 FAQQTAS----GFNQDGKPCPPFKIVILDEADSMTHAA----QAALRRTMEKE---------------TKSTRFCLICNY  176 (355)
Q Consensus       120 ~~~~~~~----~~~~~~~~~~~~~vliiDe~d~l~~~~----~~~Ll~~le~~---------------~~~~~~Il~~~~  176 (355)
                      +......    .....+   ....+++|||+|.+..+.    +++|+.+++..               -.++.||+|+|.
T Consensus       398 ~~g~~~G~~~~~l~~~~---~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~TaN~  474 (784)
T PRK10787        398 YIGSMPGKLIQKMAKVG---VKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNS  474 (784)
T ss_pred             cCCCCCcHHHHHHHhcC---CCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEEEcCCC
Confidence            1100000    000000   022499999999998764    58999998742               145677777776


Q ss_pred             CccccccccCCeeeEEecCCCHHHHHHHHHHHHHH----------cCCCCCHHHHHHHHHHc--CCCHHHHHHHHHHHHH
Q psy17903        177 VSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----------ESVMCDFKALETLVETS--GGDMRRAITCLQSCAR  244 (355)
Q Consensus       177 ~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----------~~~~~~~~~~~~l~~~~--~g~~r~~~~~l~~~~~  244 (355)
                      . .+.++|++||.++.|.+++.++...++++.+..          ..+.++++++..+++.+  .-..|.+.+.+++++.
T Consensus       475 ~-~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L~~k~~~~~~l~~~~l~i~~~ai~~ii~~yt~e~GaR~LeR~I~~i~r  553 (784)
T PRK10787        475 M-NIPAPLLDRMEVIRLSGYTEDEKLNIAKRHLLPKQIERNALKKGELTVDDSAIIGIIRYYTREAGVRSLEREISKLCR  553 (784)
T ss_pred             C-CCCHHHhcceeeeecCCCCHHHHHHHHHHhhhHHHHHHhCCCCCeEEECHHHHHHHHHhCCcccCCcHHHHHHHHHHH
Confidence            6 599999999999999999999999998887741          13568999999999754  2234444444444433


Q ss_pred             hh------CC----CCCCHHHHHHHhCCC
Q psy17903        245 LK------GG----EGIVNEDVLEVTGVI  263 (355)
Q Consensus       245 ~~------~~----~~It~~~v~~~~~~~  263 (355)
                      ..      ++    -.|+.+++.+.++..
T Consensus       554 ~~l~~~~~~~~~~~v~v~~~~~~~~lg~~  582 (784)
T PRK10787        554 KAVKQLLLDKSLKHIEINGDNLHDYLGVQ  582 (784)
T ss_pred             HHHHHHHhcCCCceeeecHHHHHHHhCCC
Confidence            21      21    258888888888755

>KOG0743|consensus

Probab=99.59  E-value=2.3e-14  Score=130.34  Aligned_cols=159  Identities=18%  Similarity=0.207  Sum_probs=114.9

Q ss_pred             CCCcccc--ccCCCCCCcccccHHHHHH----HHHHHhc-------CCCC--eEEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         31 KPVPWVE--KYRPKTIDDVIEQQEVVSV----LKKCLSG-------ADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        31 ~~~~~~~--k~~p~~~~~~vg~~~~~~~----l~~~l~~-------~~~~--~~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      ....|.-  --+|.+|+-++-.+..++.    |..++++       |..-  .||||||||||||+++.|+|+.+     
T Consensus       185 ~~~~W~~v~f~HpstF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L-----  259 (457)
T KOG0743|consen  185 KGGEWRSVGFPHPSTFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYL-----  259 (457)
T ss_pred             cCCcceecCCCCCCCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhc-----
Confidence            3556643  3357889999877665554    4555543       2221  29999999999999999999999     


Q ss_pred             ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH------------------HHHHHH
Q psy17903         96 RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH------------------AAQAAL  157 (355)
Q Consensus        96 ~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~------------------~~~~~L  157 (355)
                      +++++.++-+....-.+++..+....               ++-||+|+|+|+-..                  -....|
T Consensus       260 ~ydIydLeLt~v~~n~dLr~LL~~t~---------------~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGL  324 (457)
T KOG0743|consen  260 NYDIYDLELTEVKLDSDLRHLLLATP---------------NKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGL  324 (457)
T ss_pred             CCceEEeeeccccCcHHHHHHHHhCC---------------CCcEEEEeecccccccccccccccccccCCcceeehHHh
Confidence            55666777666655556665555422               334999999997622                  123568


Q ss_pred             HHHhhhccCCc----cEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHH
Q psy17903        158 RRTMEKETKST----RFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYIC  209 (355)
Q Consensus       158 l~~le~~~~~~----~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~  209 (355)
                      ++.++..-..|    ++|||||..++++|||.++++   ++++..-+.+.+...+.+.+
T Consensus       325 LNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL  383 (457)
T KOG0743|consen  325 LNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYL  383 (457)
T ss_pred             hhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhc
Confidence            88888654433    789999999999999999887   78888888888887777664

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

Probab=99.59  E-value=2.8e-14  Score=127.74  Aligned_cols=151  Identities=17%  Similarity=0.247  Sum_probs=107.8

Q ss_pred             CCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc------chHHHHHHHHHHHHhhccCCCCCCCCCCC
Q psy17903         65 DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR------GIQVIRDKVKTFAQQTASGFNQDGKPCPP  137 (355)
Q Consensus        65 ~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~  137 (355)
                      +.|. ++||||||||||.+|+++++++.     .+++.+++++..      +...+++.+.......    ...+.+|  
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg-----~~~i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~a----~~~~aPc--  214 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMG-----IEPIVMSAGELESENAGEPGKLIRQRYREAADII----KKKGKMS--  214 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcC-----CCeEEEEHHHhhcCcCCcHHHHHHHHHHHHHHHh----hccCCCe--
Confidence            3344 99999999999999999999984     456666665422      2245666555544321    0123444  


Q ss_pred             cEEEEEeCCCCCCHH---------H---HHHHHHHhhh--------------ccCCccEEEEecCCccccccccC--Cee
Q psy17903        138 FKIVILDEADSMTHA---------A---QAALRRTMEK--------------ETKSTRFCLICNYVSCIIQPLTS--RCS  189 (355)
Q Consensus       138 ~~vliiDe~d~l~~~---------~---~~~Ll~~le~--------------~~~~~~~Il~~~~~~~l~~~l~s--r~~  189 (355)
                        +|||||+|.+.+.         .   ...|+..++.              ....+.+|.+||+++.++++|++  |+.
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              9999999987541         1   1356666543              24457788899999999999998  544


Q ss_pred             eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC
Q psy17903        190 KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGD  231 (355)
Q Consensus       190 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~  231 (355)
                      .+ +..|+.++..++++.+++..+  ++.+.+..|+...+|-
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            43 458999999999999988764  5678889999988775

>KOG0728|consensus

Probab=99.59  E-value=4.2e-14  Score=118.72  Aligned_cols=211  Identities=20%  Similarity=0.260  Sum_probs=136.7

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhc-------------CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccc
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRER   98 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-------------~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~   98 (355)
                      +.+.++|..-.+++-+.|.+..+..++..++-             ..+..+|+|||||+|||.+|+++++..     ...
T Consensus       134 sLMmVeKvPDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht-----~c~  208 (404)
T KOG0728|consen  134 SLMMVEKVPDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHT-----DCT  208 (404)
T ss_pred             HHHhhhhCCccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhc-----ceE
Confidence            45667776556676677789999998888742             123349999999999999999999986     345


Q ss_pred             eeeecCCCc------cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHh
Q psy17903         99 ILELNASDD------RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTM  161 (355)
Q Consensus        99 ~~~~~~~~~------~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~l  161 (355)
                      ++.+++++.      .+...+++.+--.....             ..+||.||+|.+..           +.|...+++|
T Consensus       209 firvsgselvqk~igegsrmvrelfvmareha-------------psiifmdeidsigs~r~e~~~ggdsevqrtmlell  275 (404)
T KOG0728|consen  209 FIRVSGSELVQKYIGEGSRMVRELFVMAREHA-------------PSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELL  275 (404)
T ss_pred             EEEechHHHHHHHhhhhHHHHHHHHHHHHhcC-------------CceEeeecccccccccccCCCCccHHHHHHHHHHH
Confidence            667766542      11122333322222211             12999999998842           3455555555


Q ss_pred             hh-----ccCCccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH
Q psy17903        162 EK-----ETKSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMR  233 (355)
Q Consensus       162 e~-----~~~~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r  233 (355)
                      ..     ...+..+|++||..+-+++++.+.++   .++|++|+++...++++-..++.++.-- -.+..+++.-+|--+
T Consensus       276 nqldgfeatknikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihsrkmnl~rg-i~l~kiaekm~gasg  354 (404)
T KOG0728|consen  276 NQLDGFEATKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMNLTRG-INLRKIAEKMPGASG  354 (404)
T ss_pred             HhccccccccceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhhchhcc-cCHHHHHHhCCCCcc
Confidence            43     35678899999999999999998877   6999999999999999887766432110 123445555433222


Q ss_pred             -HHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        234 -RAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       234 -~~~~~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                       .+...+-.+..|+   ..-.+|.+|++-+++
T Consensus       355 aevk~vcteagm~alrerrvhvtqedfemav~  386 (404)
T KOG0728|consen  355 AEVKGVCTEAGMYALRERRVHVTQEDFEMAVA  386 (404)
T ss_pred             chhhhhhhhhhHHHHHHhhccccHHHHHHHHH
Confidence             2222222222333   234588888876554

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=99.58  E-value=6.1e-14  Score=139.67  Aligned_cols=189  Identities=19%  Similarity=0.265  Sum_probs=126.5

Q ss_pred             cccccHHHHHHHHHHHhcC--------CC-CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHH
Q psy17903         46 DVIEQQEVVSVLKKCLSGA--------DL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK  116 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~~--------~~-~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~  116 (355)
                      .++||+++++.+...+...        ++ .++||+||+|||||.+|+.+++.+.     .+++.+++++......+...
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~-----~~~i~id~se~~~~~~~~~L  533 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG-----IELLRFDMSEYMERHTVSRL  533 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC-----CCcEEeechhhcccccHHHH
Confidence            4789999999999888631        11 2399999999999999999999983     35667777654322222111


Q ss_pred             HHHHHHhhccCCCCCC-----CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC---
Q psy17903        117 VKTFAQQTASGFNQDG-----KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV---  177 (355)
Q Consensus       117 i~~~~~~~~~~~~~~~-----~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~---  177 (355)
                      +.. . .+..+....+     -...++.||++||+|.+.++.++.|+.+|+++.           .+++||+++|.-   
T Consensus       534 iG~-~-~gyvg~~~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN~g~~~  611 (758)
T PRK11034        534 IGA-P-PGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRE  611 (758)
T ss_pred             cCC-C-CCcccccccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCCcCHHH
Confidence            110 0 0000000000     000144699999999999999999999998642           367799998821   


Q ss_pred             ----------------------ccccccccCCee-eEEecCCCHHHHHHHHHHHHHH-------cC--CCCCHHHHHHHH
Q psy17903        178 ----------------------SCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQ-------ES--VMCDFKALETLV  225 (355)
Q Consensus       178 ----------------------~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~-------~~--~~~~~~~~~~l~  225 (355)
                                            ..+.|.+..|.. ++.|.+++.+++..++...+.+       .|  +.++++++++|+
T Consensus       612 ~~~~~~g~~~~~~~~~~~~~~~~~f~pefl~Rid~ii~f~~L~~~~l~~I~~~~l~~~~~~l~~~~i~l~~~~~~~~~l~  691 (758)
T PRK11034        612 TERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQAQLDQKGVSLEVSQEARDWLA  691 (758)
T ss_pred             HhhcccCcccchhhHHHHHHHHHhcCHHHHccCCEEEEcCCCCHHHHHHHHHHHHHHHHHHHHHCCCCceECHHHHHHHH
Confidence                                  114477788886 8999999999999988766542       23  457899999999


Q ss_pred             HHc---CCCHHHHHHHHHH
Q psy17903        226 ETS---GGDMRRAITCLQS  241 (355)
Q Consensus       226 ~~~---~g~~r~~~~~l~~  241 (355)
                      ...   .-..|-+.+.+++
T Consensus       692 ~~~~~~~~GAR~l~r~i~~  710 (758)
T PRK11034        692 EKGYDRAMGARPMARVIQD  710 (758)
T ss_pred             HhCCCCCCCCchHHHHHHH
Confidence            764   2234555555544

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

Probab=99.58  E-value=1.1e-13  Score=131.97  Aligned_cols=224  Identities=20%  Similarity=0.283  Sum_probs=151.9

Q ss_pred             CCccccccCCC--------CC-CcccccHHHHHHHHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccc
Q psy17903         32 PVPWVEKYRPK--------TI-DDVIEQQEVVSVLKKCLSG------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYR   96 (355)
Q Consensus        32 ~~~~~~k~~p~--------~~-~~~vg~~~~~~~l~~~l~~------~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~   96 (355)
                      +.||..+-.-.        -+ .+-.|-+++++++.+++.-      -..|-++|+||||+|||++++.+|+.++.    
T Consensus       301 ~lPW~~~sk~~~Dl~~a~~iLd~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~R----  376 (782)
T COG0466         301 DLPWGKRSKDKLDLKKAEKILDKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGR----  376 (782)
T ss_pred             hCCCccccchhhhHHHHHHHhcccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCC----
Confidence            68886643321        11 3556889999999887732      12234999999999999999999999955    


Q ss_pred             cceeeecCCCccchHHHHHHHHHHHHhhc----cCCCCCCCCCCCcEEEEEeCCCCCCHH----HHHHHHHHhhhc----
Q psy17903         97 ERILELNASDDRGIQVIRDKVKTFAQQTA----SGFNQDGKPCPPFKIVILDEADSMTHA----AQAALRRTMEKE----  164 (355)
Q Consensus        97 ~~~~~~~~~~~~~~~~i~~~i~~~~~~~~----~~~~~~~~~~~~~~vliiDe~d~l~~~----~~~~Ll~~le~~----  164 (355)
                       .|+.++-...++..+|+..-+.+...-+    .+....+   ....+++|||+|.|+.+    -..+|+++|+-.    
T Consensus       377 -kfvR~sLGGvrDEAEIRGHRRTYIGamPGrIiQ~mkka~---~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~  452 (782)
T COG0466         377 -KFVRISLGGVRDEAEIRGHRRTYIGAMPGKIIQGMKKAG---VKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNT  452 (782)
T ss_pred             -CEEEEecCccccHHHhccccccccccCChHHHHHHHHhC---CcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCc
Confidence             4555555554555454433222211100    0000000   12349999999999753    357888888521    


Q ss_pred             -----------cCCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHH-----Hc-----CCCCCHHHHHH
Q psy17903        165 -----------TKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICE-----QE-----SVMCDFKALET  223 (355)
Q Consensus       165 -----------~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~-----~~-----~~~~~~~~~~~  223 (355)
                                 -.++.||.|+|..+.+..+|..|..++++..++++|-..+.++++-     ..     .+.++++++..
T Consensus       453 F~DhYLev~yDLS~VmFiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~LiPk~~~~~gL~~~el~i~d~ai~~  532 (782)
T COG0466         453 FSDHYLEVPYDLSKVMFIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHLIPKQLKEHGLKKGELTITDEAIKD  532 (782)
T ss_pred             hhhccccCccchhheEEEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhcchHHHHHcCCCccceeecHHHHHH
Confidence                       1357899999999999999999999999999999999888776642     33     35689999999


Q ss_pred             HHHHc--CCCHHHHHHHHHHHHHhh------C--CC--CCCHHHHHHHhCCC
Q psy17903        224 LVETS--GGDMRRAITCLQSCARLK------G--GE--GIVNEDVLEVTGVI  263 (355)
Q Consensus       224 l~~~~--~g~~r~~~~~l~~~~~~~------~--~~--~It~~~v~~~~~~~  263 (355)
                      +++..  ..-+|.+...+.++++..      +  ..  .|+.+++.+.++..
T Consensus       533 iI~~YTREAGVR~LeR~i~ki~RK~~~~i~~~~~k~~~~i~~~~l~~yLG~~  584 (782)
T COG0466         533 IIRYYTREAGVRNLEREIAKICRKAAKKILLKKEKSIVKIDEKNLKKYLGVP  584 (782)
T ss_pred             HHHHHhHhhhhhHHHHHHHHHHHHHHHHHHhcCcccceeeCHHHHHHHhCCc
Confidence            98765  456777777776665543      1  11  47788888877654

>KOG0730|consensus

Probab=99.57  E-value=2.4e-13  Score=128.52  Aligned_cols=240  Identities=17%  Similarity=0.188  Sum_probs=170.2

Q ss_pred             CCCCCCcccccHHHHHHHHHHHhc-----------C-CCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC
Q psy17903         40 RPKTIDDVIEQQEVVSVLKKCLSG-----------A-DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (355)
Q Consensus        40 ~p~~~~~~vg~~~~~~~l~~~l~~-----------~-~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  106 (355)
                      .|.. +++.|....+..+...+.-           + ..| .+|+|||||+|||.++++++++..     ..++.++++.
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-DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEYG-----AFLFLINGPE  253 (693)
T ss_pred             cccc-cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHhC-----ceeEecccHH
Confidence            3444 5777777777777766521           1 222 399999999999999999999973     4566777764


Q ss_pred             cc------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH----------HHHHHHHHHhhhcc--CCc
Q psy17903        107 DR------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH----------AAQAALRRTMEKET--KST  168 (355)
Q Consensus       107 ~~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~----------~~~~~Ll~~le~~~--~~~  168 (355)
                      ..      ....++..+........            .-+++|||+|.+.+          .....|+.+++...  ..+
T Consensus       254 li~k~~gEte~~LR~~f~~a~k~~~------------psii~IdEld~l~p~r~~~~~~e~Rv~sqlltL~dg~~~~~~v  321 (693)
T KOG0730|consen  254 LISKFPGETESNLRKAFAEALKFQV------------PSIIFIDELDALCPKREGADDVESRVVSQLLTLLDGLKPDAKV  321 (693)
T ss_pred             HHHhcccchHHHHHHHHHHHhccCC------------CeeEeHHhHhhhCCcccccchHHHHHHHHHHHHHhhCcCcCcE
Confidence            21      12334544444333221            12999999999975          22456777777654  678


Q ss_pred             cEEEEecCCccccccccC-Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh
Q psy17903        169 RFCLICNYVSCIIQPLTS-RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK  246 (355)
Q Consensus       169 ~~Il~~~~~~~l~~~l~s-r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~  246 (355)
                      +++.++|+++.+.+++++ |+. .+.+.-|+..+..++++..++..+.. ++..+..++..++|.++.-+..+-+.+...
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            888889999999999996 544 79999999999999999999887766 678889999999998876665555444433


Q ss_pred             CCCCCCHHHHHHHhCCCChHHHHHHHhc---------CCHHHHHHHHHHHHHcCCCHHHHHH
Q psy17903        247 GGEGIVNEDVLEVTGVIPNPWIEKLLKV---------DSFQVLEKYIEDLILEAYSATQLFD  299 (355)
Q Consensus       247 ~~~~It~~~v~~~~~~~~~~~~~~l~~~---------~~~~~~~~~l~~l~~~g~~~~~i~~  299 (355)
                      .... +.+++..+...+.+..+.+.+-.         +..+..+..+.+.+.++......+.
T Consensus       401 ~~r~-~~~~~~~A~~~i~psa~Re~~ve~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~  461 (693)
T KOG0730|consen  401 ATRR-TLEIFQEALMGIRPSALREILVEMPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFA  461 (693)
T ss_pred             Hhhh-hHHHHHHHHhcCCchhhhheeccCCCCChhhccCHHHHHHHHHHHHhhhhhchHHHH
Confidence            2222 78899999988888877766543         5677888888877765444344443

>KOG0737|consensus

Probab=99.57  E-value=2.5e-14  Score=126.68  Aligned_cols=186  Identities=21%  Similarity=0.255  Sum_probs=127.2

Q ss_pred             CCCcccccHHHHHHHHHHHh----------cC---C-CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc
Q psy17903         43 TIDDVIEQQEVVSVLKKCLS----------GA---D-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~----------~~---~-~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  108 (355)
                      +|+++.|-+.+++.++..+-          .+   + ..++|+|||||||||.+|++++++....     ++.+..+...
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            78999999999999988762          11   1 2239999999999999999999998554     4444444322


Q ss_pred             c-----hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHH-------H----HHHHHH----hhhccCCc
Q psy17903        109 G-----IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA-------Q----AALRRT----MEKETKST  168 (355)
Q Consensus       109 ~-----~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~-------~----~~Ll~~----le~~~~~~  168 (355)
                      +     ...+...+..++.        .-.|+    +|||||+|.+....       .    +.+...    ..+....+
T Consensus       165 ~KWfgE~eKlv~AvFslAs--------Kl~P~----iIFIDEvds~L~~R~s~dHEa~a~mK~eFM~~WDGl~s~~~~rV  232 (386)
T KOG0737|consen  165 SKWFGEAQKLVKAVFSLAS--------KLQPS----IIFIDEVDSFLGQRRSTDHEATAMMKNEFMALWDGLSSKDSERV  232 (386)
T ss_pred             hhhHHHHHHHHHHHHhhhh--------hcCcc----eeehhhHHHHHhhcccchHHHHHHHHHHHHHHhccccCCCCceE
Confidence            2     1222222222222        22233    99999999885321       1    111111    12233346


Q ss_pred             cEEEEecCCccccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh
Q psy17903        169 RFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK  246 (355)
Q Consensus       169 ~~Il~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~  246 (355)
                      .++.+||++..++.++.+|.. .+++.-|+.++..++++-+++.+.+. +.-.+..++..+.|.-+.-+.++.+.+.+.
T Consensus       233 lVlgATNRP~DlDeAiiRR~p~rf~V~lP~~~qR~kILkviLk~e~~e-~~vD~~~iA~~t~GySGSDLkelC~~Aa~~  310 (386)
T KOG0737|consen  233 LVLGATNRPFDLDEAIIRRLPRRFHVGLPDAEQRRKILKVILKKEKLE-DDVDLDEIAQMTEGYSGSDLKELCRLAALR  310 (386)
T ss_pred             EEEeCCCCCccHHHHHHHhCcceeeeCCCchhhHHHHHHHHhcccccC-cccCHHHHHHhcCCCcHHHHHHHHHHHhHh
Confidence            666788899999999888855 89999999999999999999988775 444578889999887776666666655543

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.56  E-value=7.2e-14  Score=145.43  Aligned_cols=124  Identities=7%  Similarity=0.036  Sum_probs=88.5

Q ss_pred             EEEEeCCCCCCHHH-----HHHHHHHhhhc-----cCCccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHH
Q psy17903        140 IVILDEADSMTHAA-----QAALRRTMEKE-----TKSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQ  206 (355)
Q Consensus       140 vliiDe~d~l~~~~-----~~~Ll~~le~~-----~~~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~  206 (355)
                      ||+|||+|.+....     .+.|+..|+..     ..++++|.+||.++.++|||.+.++   .|.++.|+..+..+++.
T Consensus      1735 IIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~~~s~~~VIVIAATNRPD~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~ 1814 (2281)
T CHL00206       1735 IIWIPNIHDLNVNESNYLSLGLLVNSLSRDCERCSTRNILVIASTHIPQKVDPALIAPNKLNTCIKIRRLLIPQQRKHFF 1814 (2281)
T ss_pred             EEEEEchhhcCCCccceehHHHHHHHhccccccCCCCCEEEEEeCCCcccCCHhHcCCCCCCeEEEeCCCCchhHHHHHH
Confidence            99999999997532     46677777632     3467888899999999999998554   78898888877777776


Q ss_pred             HHHHHcCCCCCHH--HHHHHHHHcCCC-HHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCCC
Q psy17903        207 YICEQESVMCDFK--ALETLVETSGGD-MRRAITCLQSCARLK---GGEGIVNEDVLEVTGVI  263 (355)
Q Consensus       207 ~~~~~~~~~~~~~--~~~~l~~~~~g~-~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~~~  263 (355)
                      ......++.+..+  .++.+++.+.|- .+.+.+.+..++..+   +...|+.+++..++.+.
T Consensus      1815 ILl~tkg~~L~~~~vdl~~LA~~T~GfSGADLanLvNEAaliAirq~ks~Id~~~I~~Al~Rq 1877 (2281)
T CHL00206       1815 TLSYTRGFHLEKKMFHTNGFGSITMGSNARDLVALTNEALSISITQKKSIIDTNTIRSALHRQ 1877 (2281)
T ss_pred             HHHhhcCCCCCcccccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHHH
Confidence            5544456665543  477888888663 344444445554444   56789999999887544

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

Probab=99.56  E-value=1.8e-13  Score=132.52  Aligned_cols=207  Identities=21%  Similarity=0.252  Sum_probs=144.5

Q ss_pred             CCCCCcccccHHHHHHHHHHHhc-----------C-CCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         41 PKTIDDVIEQQEVVSVLKKCLSG-----------A-DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~l~~-----------~-~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      ..+|+++.|.+.+...+.+.+..           + +.+ .+|||||||||||.+|++++..+     +.+++.++.++.
T Consensus       238 ~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~-----~~~fi~v~~~~l  312 (494)
T COG0464         238 DVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALES-----RSRFISVKGSEL  312 (494)
T ss_pred             CcceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhC-----CCeEEEeeCHHH
Confidence            34788999988888888776621           1 223 39999999999999999999976     556777777643


Q ss_pred             cc--h----HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHhh--hccCCc
Q psy17903        108 RG--I----QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTME--KETKST  168 (355)
Q Consensus       108 ~~--~----~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~le--~~~~~~  168 (355)
                      .+  +    ..+++.+......         .++    +||+||+|.+..           ...+.|+..++  +...++
T Consensus       313 ~sk~vGesek~ir~~F~~A~~~---------~p~----iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v  379 (494)
T COG0464         313 LSKWVGESEKNIRELFEKARKL---------APS----IIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGV  379 (494)
T ss_pred             hccccchHHHHHHHHHHHHHcC---------CCc----EEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCce
Confidence            22  2    2333333332211         222    999999998843           34566677664  345567


Q ss_pred             cEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCC-HHHHHHHHHHHH
Q psy17903        169 RFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVM-CDFKALETLVETSGGD-MRRAITCLQSCA  243 (355)
Q Consensus       169 ~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~g~-~r~~~~~l~~~~  243 (355)
                      ++|.+||.++.+.+++.+  |+. .+.|++|+.++..++++..+...+.. .++-.++.+++.+.|- ...+...++.+.
T Consensus       380 ~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~~sgadi~~i~~ea~  459 (494)
T COG0464         380 LVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAA  459 (494)
T ss_pred             EEEecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhcCCCHHHHHHHHHHHH
Confidence            788899999999999998  665 79999999999999999998866654 3455677788776653 334444444444


Q ss_pred             Hhh---C-CCCCCHHHHHHHhCCCCh
Q psy17903        244 RLK---G-GEGIVNEDVLEVTGVIPN  265 (355)
Q Consensus       244 ~~~---~-~~~It~~~v~~~~~~~~~  265 (355)
                      ..+   . ...|+.+++.+++....+
T Consensus       460 ~~~~~~~~~~~~~~~~~~~a~~~~~p  485 (494)
T COG0464         460 LEALREARRREVTLDDFLDALKKIKP  485 (494)
T ss_pred             HHHHHHhccCCccHHHHHHHHHhcCC
Confidence            433   2 346899999888876544

>KOG2227|consensus

Probab=99.56  E-value=6.3e-13  Score=121.07  Aligned_cols=202  Identities=18%  Similarity=0.212  Sum_probs=141.6

Q ss_pred             CcccccHHHHHHHHHHHhc----CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHH-HH
Q psy17903         45 DDVIEQQEVVSVLKKCLSG----ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV-KT  119 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~----~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i-~~  119 (355)
                      +.+.|++..++.++.++..    .....++++|.||+|||.+...+...+.........+++||........+...+ ..
T Consensus       150 ~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~~~  229 (529)
T KOG2227|consen  150 GTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIFSS  229 (529)
T ss_pred             CCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHHHH
Confidence            4588999988888888754    233349999999999999999999888766666677899998644443333332 22


Q ss_pred             HHHhhccCCCC---------CCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc---CCccEEEEecCC---ccccccc
Q psy17903        120 FAQQTASGFNQ---------DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET---KSTRFCLICNYV---SCIIQPL  184 (355)
Q Consensus       120 ~~~~~~~~~~~---------~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~---~~~~~Il~~~~~---~~l~~~l  184 (355)
                      +..........         .......--++++||.|+|....+..|+.+++++.   ...++|..+|..   +++++.|
T Consensus       230 ~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~LprL  309 (529)
T KOG2227|consen  230 LLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRFLPRL  309 (529)
T ss_pred             HHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHHHhhhh
Confidence            21111000000         00000012389999999999888888888888753   455666677754   4677888


Q ss_pred             cCCee----eEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHc---CCCHHHHHHHHHHHHHhh
Q psy17903        185 TSRCS----KFRFKPLAENTMLTRLQYICEQESVM-CDFKALETLVETS---GGDMRRAITCLQSCARLK  246 (355)
Q Consensus       185 ~sr~~----~i~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~---~g~~r~~~~~l~~~~~~~  246 (355)
                      ..++.    .+.|+|++.+++.++++..+..+... +-+.+++..++..   .||+|+++..++.+...+
T Consensus       310 ~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R~aiEI~  379 (529)
T KOG2227|consen  310 NLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCRRAIEIA  379 (529)
T ss_pred             hhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHHHHHHHH
Confidence            87654    79999999999999999998876544 3445788877664   799999999998766554

>KOG2004|consensus

Probab=99.56  E-value=2.2e-14  Score=136.12  Aligned_cols=186  Identities=18%  Similarity=0.270  Sum_probs=131.7

Q ss_pred             CcccccHHHHHHHHHHHhcCCCC----e--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHH--
Q psy17903         45 DDVIEQQEVVSVLKKCLSGADLP----H--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK--  116 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~~~~----~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~--  116 (355)
                      ++-.|.+++++++.+++.-+...    .  ++|+||||+|||++++.+|++++.+++     .++.....+..+|+..  
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFf-----RfSvGG~tDvAeIkGHRR  485 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFF-----RFSVGGMTDVAEIKGHRR  485 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceE-----EEeccccccHHhhcccce
Confidence            45678899999999988543322    2  999999999999999999999976554     3333333333333222  


Q ss_pred             ---------HHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH----HHHHHHHHHhhhcc---------------CCc
Q psy17903        117 ---------VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH----AAQAALRRTMEKET---------------KST  168 (355)
Q Consensus       117 ---------i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~----~~~~~Ll~~le~~~---------------~~~  168 (355)
                               +-+......          ....+++|||+|.+..    +-..+|+++|+-..               ..+
T Consensus       486 TYVGAMPGkiIq~LK~v~----------t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkV  555 (906)
T KOG2004|consen  486 TYVGAMPGKIIQCLKKVK----------TENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKV  555 (906)
T ss_pred             eeeccCChHHHHHHHhhC----------CCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhhe
Confidence                     111111110          1334999999999864    33577888875211               247


Q ss_pred             cEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHH----------HcCCCCCHHHHHHHHHHc--CCCHHHHH
Q psy17903        169 RFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICE----------QESVMCDFKALETLVETS--GGDMRRAI  236 (355)
Q Consensus       169 ~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~----------~~~~~~~~~~~~~l~~~~--~g~~r~~~  236 (355)
                      .||+++|..+.+.++|+.|..+|++..+..+|-..+.++++-          .+.++++++++..|++..  ..-+|.+.
T Consensus       556 LFicTAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yLip~a~~~~gl~~e~v~is~~al~~lI~~YcrEaGVRnLq  635 (906)
T KOG2004|consen  556 LFICTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYLIPQALKDCGLKPEQVKISDDALLALIERYCREAGVRNLQ  635 (906)
T ss_pred             EEEEeccccccCChhhhhhhheeeccCccHHHHHHHHHHhhhhHHHHHcCCCHHhcCccHHHHHHHHHHHHHHHhHHHHH
Confidence            789999999999999999999999999999998888776653          235688999998888654  45677777


Q ss_pred             HHHHHHHHh
Q psy17903        237 TCLQSCARL  245 (355)
Q Consensus       237 ~~l~~~~~~  245 (355)
                      ..++++++.
T Consensus       636 k~iekI~Rk  644 (906)
T KOG2004|consen  636 KQIEKICRK  644 (906)
T ss_pred             HHHHHHHHH
Confidence            777766553

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.56  E-value=2e-13  Score=139.04  Aligned_cols=193  Identities=21%  Similarity=0.319  Sum_probs=129.7

Q ss_pred             CcccccHHHHHHHHHHHhcC-------CCC-e-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHH
Q psy17903         45 DDVIEQQEVVSVLKKCLSGA-------DLP-H-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~-------~~~-~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~  115 (355)
                      +.++||+++++.+.+.+...       +.| + ++|+||+|+|||++|+++++.+++..  ..++.++.++......+..
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~--~~~~~~d~s~~~~~~~~~~  586 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSE--DAMIRLDMSEYMEKHTVSK  586 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCc--cceEEEEchhccccccHHH
Confidence            56889999999998887532       222 2 89999999999999999999997653  2566777665432221111


Q ss_pred             HHHHHHHhhccCCCCCC-----CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCCcc
Q psy17903        116 KVKTFAQQTASGFNQDG-----KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYVSC  179 (355)
Q Consensus       116 ~i~~~~~~~~~~~~~~~-----~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~~~  179 (355)
                      .+..  ..+..+....+     -...++.||++||+|.+.++.++.|++.|+++.           .+++||+++|....
T Consensus       587 l~g~--~~gyvg~~~~~~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Tsn~g~~  664 (821)
T CHL00095        587 LIGS--PPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTSNLGSK  664 (821)
T ss_pred             hcCC--CCcccCcCccchHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEeCCcchH
Confidence            1100  00000000000     000245799999999999999999999999752           57889999873210


Q ss_pred             -------------------------------------ccccccCCe-eeEEecCCCHHHHHHHHHHHHHH-------c--
Q psy17903        180 -------------------------------------IIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQ-------E--  212 (355)
Q Consensus       180 -------------------------------------l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~-------~--  212 (355)
                                                           +.|.+.+|+ .+|.|.|++.+++.+++...+.+       .  
T Consensus       665 ~i~~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~f~peflnRid~ii~F~pL~~~~l~~Iv~~~l~~l~~rl~~~~i  744 (821)
T CHL00095        665 VIETNSGGLGFELSENQLSEKQYKRLSNLVNEELKQFFRPEFLNRLDEIIVFRQLTKNDVWEIAEIMLKNLFKRLNEQGI  744 (821)
T ss_pred             HHHhhccccCCcccccccccccHHHHHHHHHHHHHHhcCHHHhccCCeEEEeCCCCHHHHHHHHHHHHHHHHHHHHHCCc
Confidence                                                 225577888 68999999999999998877653       2  


Q ss_pred             CCCCCHHHHHHHHHHc---CCCHHHHHHHHHH
Q psy17903        213 SVMCDFKALETLVETS---GGDMRRAITCLQS  241 (355)
Q Consensus       213 ~~~~~~~~~~~l~~~~---~g~~r~~~~~l~~  241 (355)
                      .+.+++++.++|++..   .-..|-+.+.+++
T Consensus       745 ~l~~~~~~~~~La~~~~~~~~GAR~l~r~i~~  776 (821)
T CHL00095        745 QLEVTERIKTLLIEEGYNPLYGARPLRRAIMR  776 (821)
T ss_pred             EEEECHHHHHHHHHhcCCCCCChhhHHHHHHH
Confidence            2567999999999863   2234555555544

>KOG1514|consensus

Probab=99.56  E-value=4.4e-13  Score=127.44  Aligned_cols=224  Identities=20%  Similarity=0.218  Sum_probs=156.9

Q ss_pred             ccccHHHHHHHHHHHhcCCC-----CeEEEECCCCCCHHHHHHHHHHHhc-----CCccccceeeecCCCccchHHHHHH
Q psy17903         47 VIEQQEVVSVLKKCLSGADL-----PHFLFYGPPGTGKTSTMIAACHQLF-----GDMYRERILELNASDDRGIQVIRDK  116 (355)
Q Consensus        47 ~vg~~~~~~~l~~~l~~~~~-----~~~ll~Gp~G~GKt~la~~l~~~l~-----~~~~~~~~~~~~~~~~~~~~~i~~~  116 (355)
                      +-+++.....|..+++..-.     ..++|+|-||+|||.++..+.+.+.     ++...+.++++|+....+...+.+.
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            34555555566665543222     2399999999999999999999876     3566788999999887777766655


Q ss_pred             HHHHHHhh-----------ccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc---CCccEEEEecCC---cc
Q psy17903        117 VKTFAQQT-----------ASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET---KSTRFCLICNYV---SC  179 (355)
Q Consensus       117 i~~~~~~~-----------~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~---~~~~~Il~~~~~---~~  179 (355)
                      +-+.....           ...+. ..+++....||+|||.|.|....|..|.++++++.   ...++|.++|..   .+
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            44321100           00011 12233355699999999999989999999999864   345566666643   33


Q ss_pred             -ccccccCCee--eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc---CCCHHHHHHHHHHHHHhhCC-----
Q psy17903        180 -IIQPLTSRCS--KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETS---GGDMRRAITCLQSCARLKGG-----  248 (355)
Q Consensus       180 -l~~~l~sr~~--~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~---~g~~r~~~~~l~~~~~~~~~-----  248 (355)
                       +...+-||..  .+.|.|++.+|+.+++..+++.. ..++.++++.+++..   .||.|++++.+++++..+..     
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             3345666654  89999999999999999888655 457788888877653   79999999999999887732     


Q ss_pred             -----CCCCHHHHHHHhCCCChHHHHHHH
Q psy17903        249 -----EGIVNEDVLEVTGVIPNPWIEKLL  272 (355)
Q Consensus       249 -----~~It~~~v~~~~~~~~~~~~~~l~  272 (355)
                           ..++.-+|.+++..+..+.....+
T Consensus       636 k~~~~q~v~~~~v~~Ai~em~~~~~~~~i  664 (767)
T KOG1514|consen  636 KLAVSQLVGILHVMEAINEMLASPYIKAL  664 (767)
T ss_pred             cccccceeehHHHHHHHHHHhhhhHHHHh
Confidence                 335777777777666555444444

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=99.56  E-value=2.2e-13  Score=136.64  Aligned_cols=210  Identities=17%  Similarity=0.185  Sum_probs=136.5

Q ss_pred             CCCCcccccHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHH
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~  119 (355)
                      ..|++++|++..+..+.+.++..  ...+++|+|++|||||++|++++......  ..+++.+||..... ..+...+..
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            36889999998888877666532  22249999999999999999999876432  34788888876421 211111111


Q ss_pred             HHHhhccCCC--CCC-CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCCc-------
Q psy17903        120 FAQQTASGFN--QDG-KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYVS-------  178 (355)
Q Consensus       120 ~~~~~~~~~~--~~~-~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~~-------  178 (355)
                      .......+..  ..+ ...+++++|||||++.++.+.|..|++.+++..           .++++|++++..-       
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            0000000000  000 001245699999999999999999999997642           3568888886531       


Q ss_pred             cccccccCCee--eEEecCCCH--HHHHHHHHHHH----HHcCC---CCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhh
Q psy17903        179 CIIQPLTSRCS--KFRFKPLAE--NTMLTRLQYIC----EQESV---MCDFKALETLVET-SGGDMRRAITCLQSCARLK  246 (355)
Q Consensus       179 ~l~~~l~sr~~--~i~~~~~~~--~~~~~~l~~~~----~~~~~---~~~~~~~~~l~~~-~~g~~r~~~~~l~~~~~~~  246 (355)
                      .+.+.+-.|..  .|.++|+.+  +++..+++..+    .+.+.   .+++++++.|..+ ++||+|++.+.++.++..+
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            12233433433  567777764  56655555443    33332   4789999998876 5999999999999998877


Q ss_pred             CCCCCCHH
Q psy17903        247 GGEGIVNE  254 (355)
Q Consensus       247 ~~~~It~~  254 (355)
                      .+..|+.+
T Consensus       610 ~~~~i~~~  617 (686)
T PRK15429        610 RGNVLQLS  617 (686)
T ss_pred             CCCccccc
Confidence            66666653

>KOG0726|consensus

Probab=99.55  E-value=2.9e-14  Score=122.10  Aligned_cols=211  Identities=21%  Similarity=0.266  Sum_probs=138.9

Q ss_pred             CCCCccccccCCCCCCcccccHHHHHHHHHHHhc-----------C-CCCe-EEEECCCCCCHHHHHHHHHHHhcCCccc
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------A-DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYR   96 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----------~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~   96 (355)
                      .-..+-.+|-...++.++-|.+..++.|+..++-           | .+|. +++||+||+|||.+|+++++.....   
T Consensus       170 mv~vmK~eKaP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSAT---  246 (440)
T KOG0726|consen  170 MVSVMKVEKAPQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSAT---  246 (440)
T ss_pred             cceeeecccCchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchh---
Confidence            3345556775556899999999999999998842           2 2233 9999999999999999999986332   


Q ss_pred             cceeeecCCC------ccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHH
Q psy17903         97 ERILELNASD------DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRR  159 (355)
Q Consensus        97 ~~~~~~~~~~------~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~  159 (355)
                        |+.+-+++      -.+...+++.+.-.....+             .|+||||+|.+..           +.|..++.
T Consensus       247 --FlRvvGseLiQkylGdGpklvRqlF~vA~e~ap-------------SIvFiDEIdAiGtKRyds~SggerEiQrtmLE  311 (440)
T KOG0726|consen  247 --FLRVVGSELIQKYLGDGPKLVRELFRVAEEHAP-------------SIVFIDEIDAIGTKRYDSNSGGEREIQRTMLE  311 (440)
T ss_pred             --hhhhhhHHHHHHHhccchHHHHHHHHHHHhcCC-------------ceEEeehhhhhccccccCCCccHHHHHHHHHH
Confidence              22322222      1223344444433322221             2999999998842           34556666


Q ss_pred             Hhhh-----ccCCccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHH----H
Q psy17903        160 TMEK-----ETKSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLV----E  226 (355)
Q Consensus       160 ~le~-----~~~~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~~~~l~----~  226 (355)
                      +|..     ....+.+|++||....+.|+|.+.++   .|.|+.|++..-..++.-+..+  ..+.++ .++.++    .
T Consensus       312 LLNQldGFdsrgDvKvimATnrie~LDPaLiRPGrIDrKIef~~pDe~TkkkIf~IHTs~--Mtl~~dVnle~li~~kdd  389 (440)
T KOG0726|consen  312 LLNQLDGFDSRGDVKVIMATNRIETLDPALIRPGRIDRKIEFPLPDEKTKKKIFQIHTSR--MTLAEDVNLEELIMTKDD  389 (440)
T ss_pred             HHHhccCccccCCeEEEEecccccccCHhhcCCCccccccccCCCchhhhceeEEEeecc--cchhccccHHHHhhcccc
Confidence            6653     24568899999999999999998877   6999999998877776644332  222222 133333    2


Q ss_pred             HcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHh
Q psy17903        227 TSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVT  260 (355)
Q Consensus       227 ~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~  260 (355)
                      .++.|+..+..+.-.++.....-.++.+|+..+.
T Consensus       390 lSGAdIkAictEaGllAlRerRm~vt~~DF~ka~  423 (440)
T KOG0726|consen  390 LSGADIKAICTEAGLLALRERRMKVTMEDFKKAK  423 (440)
T ss_pred             cccccHHHHHHHHhHHHHHHHHhhccHHHHHHHH
Confidence            3566777666665555554445567888877654

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=99.55  E-value=4.6e-13  Score=128.23  Aligned_cols=212  Identities=17%  Similarity=0.178  Sum_probs=138.6

Q ss_pred             CCCcccccHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHH
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  120 (355)
                      .+..++|....+..+.+.+...  ...+++|+|++|+||+++|+.++......  ..+++.++|..... ..+...+...
T Consensus       137 ~~~~lig~s~~~~~l~~~i~~~a~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~--~~~~v~v~c~~~~~-~~~~~~lfg~  213 (445)
T TIGR02915       137 ALRGLITSSPGMQKICRTIEKIAPSDITVLLLGESGTGKEVLARALHQLSDRK--DKRFVAINCAAIPE-NLLESELFGY  213 (445)
T ss_pred             cccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhCCcC--CCCeEEEECCCCCh-HHHHHHhcCC
Confidence            4567888888887777776532  22349999999999999999999875432  34688899876422 2222111111


Q ss_pred             HHhhccCC--CCCCC-CCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-------cc
Q psy17903        121 AQQTASGF--NQDGK-PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SC  179 (355)
Q Consensus       121 ~~~~~~~~--~~~~~-~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-------~~  179 (355)
                      ......+.  ...|. ..+++++|||||++.|+...|..|++++++..           .++++|++++..       ..
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            10000000  00010 11356699999999999999999999998642           256888888754       22


Q ss_pred             ccccccCCee--eEEecCCCH--HHHHHHHHHHH----HHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhC
Q psy17903        180 IIQPLTSRCS--KFRFKPLAE--NTMLTRLQYIC----EQES---VMCDFKALETLVETS-GGDMRRAITCLQSCARLKG  247 (355)
Q Consensus       180 l~~~l~sr~~--~i~~~~~~~--~~~~~~l~~~~----~~~~---~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~~  247 (355)
                      +.+.|..|..  .|.++|+.+  +++..++...+    ...+   ..+++++++.|..+. +||+|++.+.++.++..+.
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            3344444444  556666653  44444444333    3323   468999999998765 9999999999999998877


Q ss_pred             CCCCCHHHHH
Q psy17903        248 GEGIVNEDVL  257 (355)
Q Consensus       248 ~~~It~~~v~  257 (355)
                      +..|+.+++.
T Consensus       374 ~~~i~~~~l~  383 (445)
T TIGR02915       374 GNQITAEDLG  383 (445)
T ss_pred             CCcccHHHcC
Confidence            7788888763

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=99.55  E-value=6.6e-13  Score=128.02  Aligned_cols=213  Identities=16%  Similarity=0.177  Sum_probs=141.7

Q ss_pred             CCCcccccHHHHHHHHHHHhcCC--CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHH
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~~~--~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  120 (355)
                      .+.+++|....+..+.+.+....  ..+++|+|++|+||+++|+++++.....  ..+++.+||... ..+.+...+...
T Consensus       136 ~~~~lig~s~~~~~l~~~~~~~~~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~--~~~~i~i~c~~~-~~~~~~~~lfg~  212 (469)
T PRK10923        136 PTTDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHSPRA--KAPFIALNMAAI-PKDLIESELFGH  212 (469)
T ss_pred             ccccceecCHHHHHHHHHHHHHhccCCeEEEEeCCCCcHHHHHHHHHhcCCCC--CCCeEeeeCCCC-CHHHHHHHhcCC
Confidence            45678998888777766664322  2239999999999999999999875432  457889999764 222222222111


Q ss_pred             HHhhccCCC--CCC-CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-------cc
Q psy17903        121 AQQTASGFN--QDG-KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SC  179 (355)
Q Consensus       121 ~~~~~~~~~--~~~-~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-------~~  179 (355)
                      ......+..  ..| ...+..+.+||||++.|+...|..|++++++..           .++++|++++..       ..
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            110000000  000 011345689999999999999999999998642           245888888643       23


Q ss_pred             ccccccCCee--eEEecCCCH--HHHHHHHHHHHH----HcCC---CCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhhC
Q psy17903        180 IIQPLTSRCS--KFRFKPLAE--NTMLTRLQYICE----QESV---MCDFKALETLVET-SGGDMRRAITCLQSCARLKG  247 (355)
Q Consensus       180 l~~~l~sr~~--~i~~~~~~~--~~~~~~l~~~~~----~~~~---~~~~~~~~~l~~~-~~g~~r~~~~~l~~~~~~~~  247 (355)
                      +.+.+..|+.  .|.++|+.+  +++..++...+.    +.+.   .+++++++.|..+ ++||+|++.|.++.++..+.
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  566666654  555555554443    3332   4799999999876 49999999999999998877


Q ss_pred             CCCCCHHHHHH
Q psy17903        248 GEGIVNEDVLE  258 (355)
Q Consensus       248 ~~~It~~~v~~  258 (355)
                      +..|+.+++..
T Consensus       373 ~~~i~~~~l~~  383 (469)
T PRK10923        373 GQEVLIQDLPG  383 (469)
T ss_pred             CCcccHHHCcH
Confidence            77899888753

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.55  E-value=2.4e-13  Score=138.82  Aligned_cols=196  Identities=19%  Similarity=0.295  Sum_probs=135.5

Q ss_pred             CcccccHHHHHHHHHHHhcCC--------CCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHH
Q psy17903         45 DDVIEQQEVVSVLKKCLSGAD--------LPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~~--------~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~  115 (355)
                      +.++||+.+++.+.+.+....        +.+ ++|+||+|+|||++|+++++.+.+..  ..++.++++..........
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~--~~~i~~d~s~~~~~~~~~~  642 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDE--DAMVRIDMSEYMEKHSVAR  642 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCC--CcEEEEechhhcccchHHH
Confidence            468999999999998886421        223 99999999999999999999987643  3567777765432221111


Q ss_pred             HHHHHHHhhccCCCCCCC-----CCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCCcc
Q psy17903        116 KVKTFAQQTASGFNQDGK-----PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYVSC  179 (355)
Q Consensus       116 ~i~~~~~~~~~~~~~~~~-----~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~~~  179 (355)
                      .+..  ..+..+....+.     ...++.||++||++.+.++.++.|+.+|+++.           .++++|++||....
T Consensus       643 l~g~--~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TSn~g~~  720 (852)
T TIGR03346       643 LIGA--PPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSNLGSQ  720 (852)
T ss_pred             hcCC--CCCccCcccccHHHHHHHcCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeCCcchH
Confidence            1100  000000000000     00134599999999999999999999998763           46779999885211


Q ss_pred             -------------------------ccccccCCee-eEEecCCCHHHHHHHHHHHHHH-------c--CCCCCHHHHHHH
Q psy17903        180 -------------------------IIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQ-------E--SVMCDFKALETL  224 (355)
Q Consensus       180 -------------------------l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~-------~--~~~~~~~~~~~l  224 (355)
                                               +.|.+..|+. ++.|.|++.+++.+++......       .  .+.+++++++.|
T Consensus       721 ~~~~~~~~~~~~~~~~~~~~~~~~~F~pel~~Rid~IivF~PL~~e~l~~I~~l~L~~l~~~l~~~~~~l~i~~~a~~~L  800 (852)
T TIGR03346       721 FIQELAGGDDYEEMREAVMEVLRAHFRPEFLNRIDEIVVFHPLGREQIARIVEIQLGRLRKRLAERKITLELSDAALDFL  800 (852)
T ss_pred             hHhhhcccccHHHHHHHHHHHHHhhcCHHHhcCcCeEEecCCcCHHHHHHHHHHHHHHHHHHHHHCCCeecCCHHHHHHH
Confidence                                     2355667774 8899999999998887766542       2  256899999999


Q ss_pred             HHH-c--CCCHHHHHHHHHHHHH
Q psy17903        225 VET-S--GGDMRRAITCLQSCAR  244 (355)
Q Consensus       225 ~~~-~--~g~~r~~~~~l~~~~~  244 (355)
                      ++. +  .++.|.+.+.+++...
T Consensus       801 ~~~~~~~~~gaR~L~~~i~~~i~  823 (852)
T TIGR03346       801 AEAGYDPVYGARPLKRAIQREIE  823 (852)
T ss_pred             HHhCCCCCCCchhHHHHHHHHHH
Confidence            987 3  6899999998887553

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.

>KOG0736|consensus

Probab=99.55  E-value=9.7e-14  Score=132.76  Aligned_cols=170  Identities=19%  Similarity=0.250  Sum_probs=116.0

Q ss_pred             CCCCcccccHHHHHHHHHHHhc----------C-C-CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc--
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLSG----------A-D-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD--  107 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~~----------~-~-~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--  107 (355)
                      .+|+|+.|-++++..|.+.|.-          | + ...+|||||||||||.+|+++|.++     +.+|+.+.+++.  
T Consensus       669 V~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEc-----sL~FlSVKGPELLN  743 (953)
T KOG0736|consen  669 VSWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATEC-----SLNFLSVKGPELLN  743 (953)
T ss_pred             cchhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhc-----eeeEEeecCHHHHH
Confidence            4899999999999999887742          2 2 1239999999999999999999998     566777666552  


Q ss_pred             ----cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH-------------HHHHHHHHhhh----ccC
Q psy17903        108 ----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-------------AQAALRRTMEK----ETK  166 (355)
Q Consensus       108 ----~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~-------------~~~~Ll~~le~----~~~  166 (355)
                          .+...+|+.++....         ..||    |||+||+|.+.+.             ....|+.-|+.    ...
T Consensus       744 MYVGqSE~NVR~VFerAR~---------A~PC----VIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~  810 (953)
T KOG0736|consen  744 MYVGQSEENVREVFERARS---------AAPC----VIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQ  810 (953)
T ss_pred             HHhcchHHHHHHHHHHhhc---------cCCe----EEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCC
Confidence                122455555554432         3455    9999999999652             23455555543    334


Q ss_pred             CccEEEEecCCccccccccCCee---eEEecCCCHHHH-HHHHHHHHHHcCCCCCHH-HHHHHHHHcCCC
Q psy17903        167 STRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTM-LTRLQYICEQESVMCDFK-ALETLVETSGGD  231 (355)
Q Consensus       167 ~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~-~~~l~~~~~~~~~~~~~~-~~~~l~~~~~g~  231 (355)
                      .+.+|.+||+++-++|+|.+.++   .+.+.+...++- ..+|+...++  +.++++ .+..+++.|+-+
T Consensus       811 ~VFViGATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTrk--FkLdedVdL~eiAk~cp~~  878 (953)
T KOG0736|consen  811 DVFVIGATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTRK--FKLDEDVDLVEIAKKCPPN  878 (953)
T ss_pred             ceEEEecCCCccccChhhcCCCccceeEEecCCccHHHHHHHHHHHHHH--ccCCCCcCHHHHHhhCCcC
Confidence            56667788999999999998877   566776665544 4444444433  444443 366677776543

>KOG0739|consensus

Probab=99.54  E-value=5.5e-14  Score=120.82  Aligned_cols=172  Identities=19%  Similarity=0.270  Sum_probs=116.8

Q ss_pred             CCCcccccHHHHHHHHHHH----------hcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc-
Q psy17903         43 TIDDVIEQQEVVSVLKKCL----------SGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG-  109 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l----------~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~-  109 (355)
                      .|+++.|.+.+++.|++.+          .+++.|-  +|+|||||+||+.+|++++.+.+     ..|+.++.++..+ 
T Consensus       131 kWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAn-----STFFSvSSSDLvSK  205 (439)
T KOG0739|consen  131 KWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEAN-----STFFSVSSSDLVSK  205 (439)
T ss_pred             chhhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcC-----CceEEeehHHHHHH
Confidence            7999999999999999875          3445444  99999999999999999999973     3566677665321 


Q ss_pred             ----hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH-------H----HHHHHHHhhh---ccCCccEE
Q psy17903        110 ----IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-------A----QAALRRTMEK---ETKSTRFC  171 (355)
Q Consensus       110 ----~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~-------~----~~~Ll~~le~---~~~~~~~I  171 (355)
                          .+.+...+.+++...        +|    .||||||+|.+...       +    ...|+--|+-   ....+.++
T Consensus       206 WmGESEkLVknLFemARe~--------kP----SIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLVL  273 (439)
T KOG0739|consen  206 WMGESEKLVKNLFEMAREN--------KP----SIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLVL  273 (439)
T ss_pred             HhccHHHHHHHHHHHHHhc--------CC----cEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEEE
Confidence                122222233333321        12    29999999988541       1    1223333332   23446667


Q ss_pred             EEecCCccccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC
Q psy17903        172 LICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGD  231 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~  231 (355)
                      .+||-+..+..+|++|+. .|.++-|........++-.+-.....+++.....|++.+.|.
T Consensus       274 gATNiPw~LDsAIRRRFekRIYIPLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kTeGy  334 (439)
T KOG0739|consen  274 GATNIPWVLDSAIRRRFEKRIYIPLPEAHARARMFKLHLGDTPHVLTEQDFKELARKTEGY  334 (439)
T ss_pred             ecCCCchhHHHHHHHHhhcceeccCCcHHHhhhhheeccCCCccccchhhHHHHHhhcCCC
Confidence            788889999999999998 677766666555555554444444567888899999988764

>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=99.54  E-value=5.3e-14  Score=111.44  Aligned_cols=108  Identities=26%  Similarity=0.310  Sum_probs=80.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEE
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVI  142 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vli  142 (355)
                      +||+||||+|||++++.+++.+     +.+++++++....      ....+...+.......            ...+|+
T Consensus         1 ill~G~~G~GKT~l~~~la~~l-----~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~------------~~~vl~   63 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL-----GFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSA------------KPCVLF   63 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT-----TSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTS------------TSEEEE
T ss_pred             CEEECcCCCCeeHHHHHHHhhc-----ccccccccccccccccccccccccccccccccccc------------cceeee
Confidence            6899999999999999999998     4567788877643      2233333333322221            024999


Q ss_pred             EeCCCCCCHHH-----------HHHHHHHhhhccC---CccEEEEecCCcccccccc-CCee-eEEe
Q psy17903        143 LDEADSMTHAA-----------QAALRRTMEKETK---STRFCLICNYVSCIIQPLT-SRCS-KFRF  193 (355)
Q Consensus       143 iDe~d~l~~~~-----------~~~Ll~~le~~~~---~~~~Il~~~~~~~l~~~l~-sr~~-~i~~  193 (355)
                      |||+|.+....           .+.|+..+++...   .+++|++||..+.+.+++. +|+. .++|
T Consensus        64 iDe~d~l~~~~~~~~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~~~~i~~~l~~~rf~~~i~~  130 (132)
T PF00004_consen   64 IDEIDKLFPKSQPSSSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNSPDKIDPALLRSRFDRRIEF  130 (132)
T ss_dssp             EETGGGTSHHCSTSSSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESSGGGSCHHHHSTTSEEEEEE
T ss_pred             eccchhcccccccccccccccccceeeecccccccccccceeEEeeCChhhCCHhHHhCCCcEEEEc
Confidence            99999998775           6788888887655   4889999999999999999 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 ....

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

Probab=99.54  E-value=2.5e-13  Score=136.73  Aligned_cols=190  Identities=19%  Similarity=0.254  Sum_probs=127.2

Q ss_pred             CcccccHHHHHHHHHHHhcC--------CCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHH
Q psy17903         45 DDVIEQQEVVSVLKKCLSGA--------DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~--------~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~  115 (355)
                      +.++||+++++.+.+.+...        ++. +++|+||+|||||.+|+++++.+..     .++.+++++......+..
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~-----~~~~~d~se~~~~~~~~~  528 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGV-----HLERFDMSEYMEKHTVSR  528 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcC-----CeEEEeCchhhhcccHHH
Confidence            46889999999998887632        122 3999999999999999999999843     456666654322111111


Q ss_pred             HHHHHHHhhccCCCCCC-----CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCCc-
Q psy17903        116 KVKTFAQQTASGFNQDG-----KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYVS-  178 (355)
Q Consensus       116 ~i~~~~~~~~~~~~~~~-----~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~~-  178 (355)
                      .+....  +..+....+     -...++.||++||+|.+.++.++.|+++|+++.           .+++||+++|... 
T Consensus       529 lig~~~--gyvg~~~~~~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~Tsn~g~~  606 (731)
T TIGR02639       529 LIGAPP--GYVGFEQGGLLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVILIMTSNAGAS  606 (731)
T ss_pred             HhcCCC--CCcccchhhHHHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCEEEECCCcchh
Confidence            110000  000000000     000145699999999999999999999998752           3577888886421 


Q ss_pred             ------------------------cccccccCCee-eEEecCCCHHHHHHHHHHHHHH-------c--CCCCCHHHHHHH
Q psy17903        179 ------------------------CIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQ-------E--SVMCDFKALETL  224 (355)
Q Consensus       179 ------------------------~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~-------~--~~~~~~~~~~~l  224 (355)
                                              .+.|.+..|.. +|.|.+++.+++..++...+.+       .  .+.++++++++|
T Consensus       607 ~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~Rid~Vi~F~pLs~e~l~~Iv~~~L~~l~~~l~~~~~~l~i~~~a~~~L  686 (731)
T TIGR02639       607 EMSKPPIGFGSENVESKSDKAIKKLFSPEFRNRLDAIIHFNPLSEEVLEKIVQKFVDELSKQLNEKNIKLELTDDAKKYL  686 (731)
T ss_pred             hhhhccCCcchhhhHHHHHHHHHhhcChHHHhcCCeEEEcCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEeCHHHHHHH
Confidence                                    13566778875 8999999999999999887753       2  256799999999


Q ss_pred             HHHc---CCCHHHHHHHHHH
Q psy17903        225 VETS---GGDMRRAITCLQS  241 (355)
Q Consensus       225 ~~~~---~g~~r~~~~~l~~  241 (355)
                      ++..   .-..|.+.+.++.
T Consensus       687 a~~~~~~~~GaR~l~r~i~~  706 (731)
T TIGR02639       687 AEKGYDEEFGARPLARVIQE  706 (731)
T ss_pred             HHhCCCcccCchHHHHHHHH
Confidence            9864   2345555555554

>PRK08485 DNA polymerase III subunit delta'; Validated

Probab=99.54  E-value=1.5e-13  Score=112.71  Aligned_cols=129  Identities=16%  Similarity=0.142  Sum_probs=110.3

Q ss_pred             CCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCcccccc
Q psy17903        104 ASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQP  183 (355)
Q Consensus       104 ~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~  183 (355)
                      ..+..+++.+++.+......+.           .++ +||+++|.|+..++|+|+++||+|+.+++||++|+++.++.++
T Consensus        33 ~~~~i~Vd~iReii~~~~~~~~-----------~~k-~iI~~a~~l~~~A~NaLLK~LEEPp~~~~fiL~t~~~~~llpT  100 (206)
T PRK08485         33 IKEEFKIEDAKEVIAEAYIAES-----------EEK-IIVIAAPSYGIEAQNALLKILEEPPKNICFIIVAKSKNLLLPT  100 (206)
T ss_pred             CCCCCCHHHHHHHHHHHhhCCC-----------CcE-EEEEchHhhCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCchH
Confidence            3446889999998887654431           223 4678999999999999999999999999999999999999999


Q ss_pred             ccCCeee-------------EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q psy17903        184 LTSRCSK-------------FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL  245 (355)
Q Consensus       184 l~sr~~~-------------i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~  245 (355)
                      ++|||..             +.|.+++.+++.+++.. ..++++...+++++.++..+.|.+|.++...+....+
T Consensus       101 I~SRc~~~~~~~~~~~~~l~l~l~~l~~~~i~~~L~~-~~ke~~~~~~ea~~lIa~la~~s~r~~l~l~~q~l~~  174 (206)
T PRK08485        101 IRSRLIIEKRKQKKPVKPLDLDLKKLDLKDIYEFLKE-LEKENKLSKEELKELIESLLKECVKYKIPLNEEELEY  174 (206)
T ss_pred             HHhhheeccccccccccccccccCCCCHHHHHHHHHH-HHHcccccHHHHHHHHHHHHHHHHHHHcCccHHHHHH
Confidence            9999985             77999999999999998 6778888888999999999999999998777655443

>KOG0742|consensus

Probab=99.53  E-value=4.3e-13  Score=119.97  Aligned_cols=151  Identities=20%  Similarity=0.237  Sum_probs=108.9

Q ss_pred             CCcccccHHHHHHHHHHHh--------cCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc-----ch
Q psy17903         44 IDDVIEQQEVVSVLKKCLS--------GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR-----GI  110 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~--------~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-----~~  110 (355)
                      |+++|-++....+|.++..        ++.+.+++||||||+|||.+|+.+++..+-     ++....+.+..     .+
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            8999999988888877652        233445999999999999999999998632     33333333322     22


Q ss_pred             HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC---------H---HHHHHHHHHhhhccCCccEEEEecCCc
Q psy17903        111 QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT---------H---AAQAALRRTMEKETKSTRFCLICNYVS  178 (355)
Q Consensus       111 ~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~---------~---~~~~~Ll~~le~~~~~~~~Il~~~~~~  178 (355)
                      ..|.+.+.. +..+.           .+-++||||+|.+.         .   .+.|+|+-.-.+.+...++++++|.+.
T Consensus       429 TkiH~lFDW-akkS~-----------rGLllFIDEADAFLceRnktymSEaqRsaLNAlLfRTGdqSrdivLvlAtNrpg  496 (630)
T KOG0742|consen  429 TKIHKLFDW-AKKSR-----------RGLLLFIDEADAFLCERNKTYMSEAQRSALNALLFRTGDQSRDIVLVLATNRPG  496 (630)
T ss_pred             HHHHHHHHH-Hhhcc-----------cceEEEehhhHHHHHHhchhhhcHHHHHHHHHHHHHhcccccceEEEeccCCcc
Confidence            334443333 32221           23489999999762         2   234555555556677899999999999


Q ss_pred             cccccccCCee-eEEecCCCHHHHHHHHHHHHHH
Q psy17903        179 CIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQ  211 (355)
Q Consensus       179 ~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~  211 (355)
                      .++.++..|.. .|+|+-|..++...+|..++.+
T Consensus       497 dlDsAV~DRide~veFpLPGeEERfkll~lYlnk  530 (630)
T KOG0742|consen  497 DLDSAVNDRIDEVVEFPLPGEEERFKLLNLYLNK  530 (630)
T ss_pred             chhHHHHhhhhheeecCCCChHHHHHHHHHHHHH
Confidence            99999999987 8999999999999998888764

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.53  E-value=6.3e-13  Score=135.27  Aligned_cols=193  Identities=21%  Similarity=0.322  Sum_probs=130.0

Q ss_pred             CCcccccHHHHHHHHHHHhcC-------CCC--eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHH
Q psy17903         44 IDDVIEQQEVVSVLKKCLSGA-------DLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIR  114 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~~~-------~~~--~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~  114 (355)
                      .+.++||+.++..+...+...       +.|  .++|+||+|+|||++|+++++.+.+..  ..++.++++.........
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~--~~~i~id~se~~~~~~~~  644 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSD--DAMVRIDMSEFMEKHSVS  644 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCC--CcEEEEEhHHhhhhhhHH
Confidence            457899999999998887632       112  399999999999999999999986543  246677776532211111


Q ss_pred             HHHHHHHHhhcc--CCCCCC-----CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecC
Q psy17903        115 DKVKTFAQQTAS--GFNQDG-----KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNY  176 (355)
Q Consensus       115 ~~i~~~~~~~~~--~~~~~~-----~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~  176 (355)
                      ..+.    .+..  +....+     -...++.+|+|||++.+.++.++.|+.+++++.           .+++||+++|.
T Consensus       645 ~LiG----~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~TSN~  720 (857)
T PRK10865        645 RLVG----APPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNL  720 (857)
T ss_pred             HHhC----CCCcccccchhHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEeCCc
Confidence            1110    0000  000000     000134599999999999999999999998752           35668888885


Q ss_pred             C-------------------------ccccccccCCe-eeEEecCCCHHHHHHHHHHHHHH-------cC--CCCCHHHH
Q psy17903        177 V-------------------------SCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQ-------ES--VMCDFKAL  221 (355)
Q Consensus       177 ~-------------------------~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~-------~~--~~~~~~~~  221 (355)
                      .                         ..+.|.+.+|+ .++.|.|++.+++..++...+..       .+  +.++++++
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            2                         11346788888 58999999999999988776654       13  45799999


Q ss_pred             HHHHHHcC---CCHHHHHHHHHHH
Q psy17903        222 ETLVETSG---GDMRRAITCLQSC  242 (355)
Q Consensus       222 ~~l~~~~~---g~~r~~~~~l~~~  242 (355)
                      +.|++..-   -..|-+.+.++..
T Consensus       801 ~~L~~~gy~~~~GARpL~r~I~~~  824 (857)
T PRK10865        801 KLLSENGYDPVYGARPLKRAIQQQ  824 (857)
T ss_pred             HHHHHcCCCccCChHHHHHHHHHH
Confidence            99998642   2456666666544

>KOG0729|consensus

Probab=99.53  E-value=1.9e-13  Score=115.88  Aligned_cols=208  Identities=21%  Similarity=0.261  Sum_probs=133.0

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhc-----------C-CCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccce
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------A-DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERI   99 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----------~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~   99 (355)
                      .+-+|...-.++.++-|-++.++.|++.++-           | .+|. +|+|||||+|||.+|+++++..     +..|
T Consensus       165 mm~veekpdvty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrt-----dacf  239 (435)
T KOG0729|consen  165 MMQVEEKPDVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRT-----DACF  239 (435)
T ss_pred             EEEeecCCCcccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhccc-----CceE
Confidence            3444543445899999999999999887742           2 2333 9999999999999999999886     3345


Q ss_pred             eeecCCCc------cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHhh
Q psy17903        100 LELNASDD------RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTME  162 (355)
Q Consensus       100 ~~~~~~~~------~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~le  162 (355)
                      +.+-+++.      .+...+++.+. ++.        ..+.|    +||+||+|.+..           +.|...++++.
T Consensus       240 irvigselvqkyvgegarmvrelf~-mar--------tkkac----iiffdeidaiggarfddg~ggdnevqrtmleli~  306 (435)
T KOG0729|consen  240 IRVIGSELVQKYVGEGARMVRELFE-MAR--------TKKAC----IIFFDEIDAIGGARFDDGAGGDNEVQRTMLELIN  306 (435)
T ss_pred             EeehhHHHHHHHhhhhHHHHHHHHH-Hhc--------ccceE----EEEeeccccccCccccCCCCCcHHHHHHHHHHHH
Confidence            55444431      11122222222 111        12333    999999998843           34555666654


Q ss_pred             -----hccCCccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCC--
Q psy17903        163 -----KETKSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKA-LETLVETSGGD--  231 (355)
Q Consensus       163 -----~~~~~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~l~~~~~g~--  231 (355)
                           ++..+..++++||.++.+.|+|.+.++   .++|.-|+.+-...+++-+++...  ++.+. .+.|++.|+.+  
T Consensus       307 qldgfdprgnikvlmatnrpdtldpallrpgrldrkvef~lpdlegrt~i~kihaksms--verdir~ellarlcpnstg  384 (435)
T KOG0729|consen  307 QLDGFDPRGNIKVLMATNRPDTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSMS--VERDIRFELLARLCPNSTG  384 (435)
T ss_pred             hccCCCCCCCeEEEeecCCCCCcCHhhcCCcccccceeccCCcccccceeEEEeccccc--cccchhHHHHHhhCCCCcc
Confidence                 356788899999999999999988876   799999999888888776665433  33322 45566666544  


Q ss_pred             --HHHHHHHHHHHHHhhCCCCCCHHHHHHHh
Q psy17903        232 --MRRAITCLQSCARLKGGEGIVNEDVLEVT  260 (355)
Q Consensus       232 --~r~~~~~l~~~~~~~~~~~It~~~v~~~~  260 (355)
                        +|..-.+.-..+.-+..+..|+.++.+++
T Consensus       385 aeirsvcteagmfairarrk~atekdfl~av  415 (435)
T KOG0729|consen  385 AEIRSVCTEAGMFAIRARRKVATEKDFLDAV  415 (435)
T ss_pred             hHHHHHHHHhhHHHHHHHhhhhhHHHHHHHH
Confidence              33333332222222234456666666554

>PRK15115 response regulator GlrR; Provisional

Probab=99.52  E-value=1.5e-12  Score=124.63  Aligned_cols=212  Identities=17%  Similarity=0.200  Sum_probs=132.5

Q ss_pred             cccccHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHh
Q psy17903         46 DVIEQQEVVSVLKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQ  123 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~--~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~  123 (355)
                      .++|....+..+.+.+..  ....+++|+|++|+||+++|+.+++.....  ..+++.++|.... ...+...+......
T Consensus       135 ~lig~s~~~~~~~~~~~~~a~~~~~vli~Ge~GtGk~~lA~~ih~~s~r~--~~~f~~i~c~~~~-~~~~~~~lfg~~~~  211 (444)
T PRK15115        135 AIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNASPRA--SKPFIAINCGALP-EQLLESELFGHARG  211 (444)
T ss_pred             cccccCHHHHHHHHHHHhhccCCCeEEEEcCCcchHHHHHHHHHHhcCCC--CCCeEEEeCCCCC-HHHHHHHhcCCCcC
Confidence            467766665555444332  122349999999999999999999876432  3478899987642 22222221111111


Q ss_pred             hccCC--CCCC-CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-c------cccc
Q psy17903        124 TASGF--NQDG-KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-S------CIIQ  182 (355)
Q Consensus       124 ~~~~~--~~~~-~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-~------~l~~  182 (355)
                      ...+.  ...| ...++.++|||||++.|+...|..|++++++..           .++++|++++.. .      .+.+
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            10000  0001 011345699999999999999999999998643           256788877643 1      1222


Q ss_pred             cccCCee--eEEecCCCH--HHHHHHHHHHHH----HcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCCCC
Q psy17903        183 PLTSRCS--KFRFKPLAE--NTMLTRLQYICE----QES---VMCDFKALETLVETS-GGDMRRAITCLQSCARLKGGEG  250 (355)
Q Consensus       183 ~l~sr~~--~i~~~~~~~--~~~~~~l~~~~~----~~~---~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~~~~~  250 (355)
                      .+..|..  .+.++|+.+  +++..++...+.    ..+   ..+++++++.|..+. +||+|++.+.++.++..+.+..
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            2333322  445555543  445444444333    233   248999999999876 9999999999999888777778


Q ss_pred             CCHHHHHHHh
Q psy17903        251 IVNEDVLEVT  260 (355)
Q Consensus       251 It~~~v~~~~  260 (355)
                      |+.+++...+
T Consensus       372 i~~~~l~~~~  381 (444)
T PRK15115        372 ISDALVEQAL  381 (444)
T ss_pred             cChhhhhhhh
Confidence            9988876443

>KOG0652|consensus

Probab=99.51  E-value=3.6e-13  Score=113.85  Aligned_cols=200  Identities=22%  Similarity=0.281  Sum_probs=124.4

Q ss_pred             CCCCcccccHHHHHHHHHHHh-----------cC-CCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc-
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLS-----------GA-DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD-  107 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~-----------~~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-  107 (355)
                      ..+.++.|.+..++.|...+-           -| ++|. +|+|||||+|||.+|++++.+....+     +.+.++.. 
T Consensus       168 E~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTF-----LKLAgPQLV  242 (424)
T KOG0652|consen  168 EQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATF-----LKLAGPQLV  242 (424)
T ss_pred             ccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchH-----HHhcchHHH
Confidence            368899999999999888761           12 2333 99999999999999999998864322     22222110 


Q ss_pred             -----cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHhhh-----ccC
Q psy17903        108 -----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEK-----ETK  166 (355)
Q Consensus       108 -----~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~le~-----~~~  166 (355)
                           .+...++..+. ++.        ...|    .+|||||+|.+..           +.|...+.+|..     ...
T Consensus       243 QMfIGdGAkLVRDAFa-LAK--------EkaP----~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~  309 (424)
T KOG0652|consen  243 QMFIGDGAKLVRDAFA-LAK--------EKAP----TIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDD  309 (424)
T ss_pred             hhhhcchHHHHHHHHH-Hhh--------ccCC----eEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCcc
Confidence                 01112222211 111        1122    3999999998842           345555555543     234


Q ss_pred             CccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCH-HHHH---HHH
Q psy17903        167 STRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDM-RRAI---TCL  239 (355)
Q Consensus       167 ~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~-r~~~---~~l  239 (355)
                      .+.+|.+||..+-+.|++.+.++   .|+|+.|+++...++++-+.++.++.- +--.+.|++.+.+-- .++.   -+.
T Consensus       310 ~vKviAATNRvDiLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~~-DvNfeELaRsTddFNGAQcKAVcVEA  388 (424)
T KOG0652|consen  310 RVKVIAATNRVDILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVSD-DVNFEELARSTDDFNGAQCKAVCVEA  388 (424)
T ss_pred             ceEEEeecccccccCHHHhhcccccccccCCCCChHHHHHHHHHhhhhcCCCC-CCCHHHHhhcccccCchhheeeehhh
Confidence            57789999999999999987766   799999999999999998877655432 223566666653311 1111   111


Q ss_pred             HHHHHhhCCCCCCHHHHHHHh
Q psy17903        240 QSCARLKGGEGIVNEDVLEVT  260 (355)
Q Consensus       240 ~~~~~~~~~~~It~~~v~~~~  260 (355)
                      -.++...+...|+-+++.+.+
T Consensus       389 GMiALRr~atev~heDfmegI  409 (424)
T KOG0652|consen  389 GMIALRRGATEVTHEDFMEGI  409 (424)
T ss_pred             hHHHHhcccccccHHHHHHHH
Confidence            122222244567777776544

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

Probab=99.51  E-value=3.4e-13  Score=128.68  Aligned_cols=201  Identities=21%  Similarity=0.248  Sum_probs=140.7

Q ss_pred             CCCCCcccccHHHHHHHHHHH---h--------cCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc-
Q psy17903         41 PKTIDDVIEQQEVVSVLKKCL---S--------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD-  107 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~l---~--------~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-  107 (355)
                      ..+|.++.|.+++++.+.+.+   +        ++..|. ++++||||+|||.+|++++.+.     +.+++.+++++. 
T Consensus       146 ~v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA-----~VPFf~iSGS~FV  220 (596)
T COG0465         146 KVTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEA-----GVPFFSISGSDFV  220 (596)
T ss_pred             CcChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhccc-----CCCceeccchhhh
Confidence            357999999999998887765   3        234555 9999999999999999999887     556777777763 


Q ss_pred             -----cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------------HHHHHHHHHhhhcc--C
Q psy17903        108 -----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTMEKET--K  166 (355)
Q Consensus       108 -----~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------------~~~~~Ll~~le~~~--~  166 (355)
                           .+...+|+.+.+.....         ||    ||||||+|....              +..+.|+--|+-..  .
T Consensus       221 emfVGvGAsRVRdLF~qAkk~a---------P~----IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~  287 (596)
T COG0465         221 EMFVGVGASRVRDLFEQAKKNA---------PC----IIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNE  287 (596)
T ss_pred             hhhcCCCcHHHHHHHHHhhccC---------CC----eEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCC
Confidence                 23345666666554432         23    999999998843              23456666666444  4


Q ss_pred             CccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH-HHHHHHHHH
Q psy17903        167 STRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMR-RAITCLQSC  242 (355)
Q Consensus       167 ~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r-~~~~~l~~~  242 (355)
                      .++++.+||.++-++++|.+.++   .|.+..|+.....++++-+++..... ..-.+..+++.++|-.. .+.|.+..+
T Consensus       288 gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~-~~Vdl~~iAr~tpGfsGAdL~nl~NEA  366 (596)
T COG0465         288 GVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLA-EDVDLKKIARGTPGFSGADLANLLNEA  366 (596)
T ss_pred             ceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCC-CcCCHHHHhhhCCCcccchHhhhHHHH
Confidence            56777788899999999987765   78899999999999999666554433 12234448888766443 344455444


Q ss_pred             HHhh---CCCCCCHHHHHHHh
Q psy17903        243 ARLK---GGEGIVNEDVLEVT  260 (355)
Q Consensus       243 ~~~~---~~~~It~~~v~~~~  260 (355)
                      +.++   ....|+..++.++.
T Consensus       367 al~aar~n~~~i~~~~i~ea~  387 (596)
T COG0465         367 ALLAARRNKKEITMRDIEEAI  387 (596)
T ss_pred             HHHHHHhcCeeEeccchHHHH
Confidence            4444   45678877777655

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.50  E-value=2.1e-12  Score=117.32  Aligned_cols=226  Identities=15%  Similarity=0.191  Sum_probs=137.5

Q ss_pred             ccccCCC-CCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-ccc-ceeeecCCCc-----
Q psy17903         36 VEKYRPK-TIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-YRE-RILELNASDD-----  107 (355)
Q Consensus        36 ~~k~~p~-~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-~~~-~~~~~~~~~~-----  107 (355)
                      .++-+|. .|.+++||++++..|...+.+....+++|.|++|+|||++++.+++.+.... ... ++. .++...     
T Consensus         7 ~~~~~~~~pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~-~~p~~p~~~~~   85 (350)
T CHL00081          7 KKKERPVFPFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFN-SHPSDPELMSD   85 (350)
T ss_pred             hhccCCCCCHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCC-CCCCChhhhch
Confidence            4444554 7999999999999999998887777799999999999999999988875311 000 010 000000     


Q ss_pred             ---------------------------cchHHHHHHH--HHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHH
Q psy17903        108 ---------------------------RGIQVIRDKV--KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALR  158 (355)
Q Consensus       108 ---------------------------~~~~~i~~~i--~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll  158 (355)
                                                 ...+.+...+  ......+......+--..+++.+|++||++.+++..|..|+
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInrL~~~~Q~~LL  165 (350)
T CHL00081         86 EVREAIQNGETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLLDDHLVDILL  165 (350)
T ss_pred             hhhhhhcccccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHhCCHHHHHHHH
Confidence                                       0000000000  00000000000000001145679999999999999999999


Q ss_pred             HHhhhcc-----------CCccEEEEe--cCC-ccccccccCCee-eEEecCCCH-HHHHHHHHHHHH------------
Q psy17903        159 RTMEKET-----------KSTRFCLIC--NYV-SCIIQPLTSRCS-KFRFKPLAE-NTMLTRLQYICE------------  210 (355)
Q Consensus       159 ~~le~~~-----------~~~~~Il~~--~~~-~~l~~~l~sr~~-~i~~~~~~~-~~~~~~l~~~~~------------  210 (355)
                      +.|++..           ....|++++  |.. ..+.+++..|+. .+.+..++. ++..+++++...            
T Consensus       166 eam~e~~~~ier~G~s~~~p~rfiviaT~np~eg~l~~~LldRf~l~i~l~~~~~~~~e~~il~~~~~~~~~~~~~~~~~  245 (350)
T CHL00081        166 DSAASGWNTVEREGISIRHPARFVLVGSGNPEEGELRPQLLDRFGMHAEIRTVKDPELRVKIVEQRTSFDKNPQEFREKY  245 (350)
T ss_pred             HHHHhCCeEEeeCCeeeecCCCEEEEeccCcccCCCCHHHHHHhCceeecCCCCChHHHHHHHHhhhccccChhhhhhhh
Confidence            9997632           122344433  322 247788888876 677777763 555455544211            


Q ss_pred             -----------------HcCCCCCHHHHHHHHHHc---C-CCHHHHHHHHHHH---HHhhCCCCCCHHHHHHHhCC
Q psy17903        211 -----------------QESVMCDFKALETLVETS---G-GDMRRAITCLQSC---ARLKGGEGIVNEDVLEVTGV  262 (355)
Q Consensus       211 -----------------~~~~~~~~~~~~~l~~~~---~-g~~r~~~~~l~~~---~~~~~~~~It~~~v~~~~~~  262 (355)
                                       -..+.++++.++++++.+   + -++|..+..++.+   +.+.+...++.+||..++..
T Consensus       246 ~~~~~~~~~~I~~ar~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a~~  321 (350)
T CHL00081        246 EESQEELRSKIVAAQNLLPKVEIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVITL  321 (350)
T ss_pred             ccccccCHHHHHHHHHhcCCCccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence                             124678888888877664   2 3577777666544   34447788999999987643

>KOG1968|consensus

Probab=99.50  E-value=1.8e-13  Score=136.64  Aligned_cols=206  Identities=26%  Similarity=0.417  Sum_probs=154.5

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcC------------C--CCe--EEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGA------------D--LPH--FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~------------~--~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      ...|.++|+|....++.|.......+..|+...            .  ...  ++++||||+|||+.+..++..+     
T Consensus       307 ~~~~~~k~~p~~~k~~~~~~~~~~~~~~~l~~~k~~~~~sy~~~~~~ss~~~~~l~~G~pGigKT~~~h~~~k~~-----  381 (871)
T KOG1968|consen  307 GAGWTEKYQPTSSKALEGNASSSKKASKWLAKSKDKEKSSYKENEPDSSKKKALLLSGPPGIGKTTAAHKAAKEL-----  381 (871)
T ss_pred             ccccccccccccHHhhhcccchhhhhhhHHHhhhccccccccccCcchhhHHHHHhcCCCCCCchhhHhhhhhhc-----
Confidence            478999999999999999887776777776432            1  111  4999999999999999999998     


Q ss_pred             ccceeeecCCCccchHHHHHHHHHHHHhhcc-CCC-CCC-CCC--CCcEEEEEeCCCCCCHH---HHHHHHHHhhhccCC
Q psy17903         96 RERILELNASDDRGIQVIRDKVKTFAQQTAS-GFN-QDG-KPC--PPFKIVILDEADSMTHA---AQAALRRTMEKETKS  167 (355)
Q Consensus        96 ~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~-~~~-~~~-~~~--~~~~vliiDe~d~l~~~---~~~~Ll~~le~~~~~  167 (355)
                      .+.+++.|+++.++...+.+.+..+...-.. +.. ..+ +.+  ...-||++||+|.+..+   ....+-.+..+  ..
T Consensus       382 g~~v~E~Nas~~RSk~~l~~~~~~~~~s~si~~~~~~~~~~~~~~~~~~vil~devD~~~~~dRg~v~~l~~l~~k--s~  459 (871)
T KOG1968|consen  382 GFKVVEKNASDVRSKKELLNKLGNATSSHSIKGSKKKKGNRQSLNSDHFLILMDEVDGMFGEDRGGVSKLSSLCKK--SS  459 (871)
T ss_pred             ccceeecCccccccccHHHhhhhccccccchhhhhcccccccccccceeEEEEeccccccchhhhhHHHHHHHHHh--cc
Confidence            5588999999877666666655543221110 000 000 000  12349999999999873   34555555552  22


Q ss_pred             ccEEEEecCCcc-ccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        168 TRFCLICNYVSC-IIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       168 ~~~Il~~~~~~~-l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                      .-+|++||+... -..++.+.|..++|..|+.+.+...+..+|..+++.++++.++.+++.++||+|++++.|+....
T Consensus       460 ~Piv~~cndr~~p~sr~~~~~~~~l~f~kP~~~~i~~ri~si~~se~~ki~~~~l~~~s~~~~~DiR~~i~~lq~~~~  537 (871)
T KOG1968|consen  460 RPLVCTCNDRNLPKSRALSRACSDLRFSKPSSELIRSRIMSICKSEGIKISDDVLEEISKLSGGDIRQIIMQLQFWSL  537 (871)
T ss_pred             CCeEEEecCCCCccccchhhhcceeeecCCcHHHHHhhhhhhhcccceecCcHHHHHHHHhcccCHHHHHHHHhhhhc
Confidence            346778887654 44577788899999999999999999999999999999999999999999999999999998744

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.50  E-value=1.9e-12  Score=117.71  Aligned_cols=218  Identities=12%  Similarity=0.112  Sum_probs=129.6

Q ss_pred             CCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCC------ccc-----cceeeecC--------
Q psy17903         44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD------MYR-----ERILELNA--------  104 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~------~~~-----~~~~~~~~--------  104 (355)
                      |..++||++++..|.-.+-.....+++|.|++|+|||+++++++..+...      ..+     ......+|        
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            78899999999888666655555679999999999999999999887310      000     00000000        


Q ss_pred             --------------CCccchHHHHHHH--HHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc---
Q psy17903        105 --------------SDDRGIQVIRDKV--KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET---  165 (355)
Q Consensus       105 --------------~~~~~~~~i~~~i--~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~---  165 (355)
                                    +.....+.+...+  ......+......+--..+++.+++|||++.+++..|+.|+..|++..   
T Consensus        83 ~~~~~~~~~~~~~lP~~~t~d~l~G~~d~~~~l~~g~~~~~~GlL~~A~~GvL~lDEi~~L~~~~Q~~Ll~~l~~g~~~v  162 (337)
T TIGR02030        83 PLSIIKKPVPVVDLPLGATEDRVCGTLDIERALTEGVKAFEPGLLARANRGILYIDEVNLLEDHLVDVLLDVAASGWNVV  162 (337)
T ss_pred             ccccccCCCCcCCCCCCCcccceecchhHhhHhhcCCEEeecCcceeccCCEEEecChHhCCHHHHHHHHHHHHhCCeEE
Confidence                          0000000010000  000000000000000011355699999999999999999999997642   


Q ss_pred             ----------CCccEEEEecCC-ccccccccCCee-eEEecCCCH-HHHHHHHHHHHH----------------------
Q psy17903        166 ----------KSTRFCLICNYV-SCIIQPLTSRCS-KFRFKPLAE-NTMLTRLQYICE----------------------  210 (355)
Q Consensus       166 ----------~~~~~Il~~~~~-~~l~~~l~sr~~-~i~~~~~~~-~~~~~~l~~~~~----------------------  210 (355)
                                ..+++|.+.|.. ..+.+++..|+. .+.+..+.. ++..++++....                      
T Consensus       163 ~r~G~~~~~~~r~iviat~np~eg~l~~~LldRf~l~i~l~~p~~~eer~eIL~~~~~~~~~~~~~~~~~~~e~~~~~~~  242 (337)
T TIGR02030       163 EREGISIRHPARFVLVGSGNPEEGELRPQLLDRFGLHAEIRTVRDVELRVEIVERRTEYDADPHAFCEKWQTEQEALQAK  242 (337)
T ss_pred             EECCEEEEcCCCEEEEeccccccCCCCHHHHhhcceEEECCCCCCHHHHHHHHHhhhhcccCchhhhhhhhhhhhcCHHH
Confidence                      122333333322 347778888987 577777765 555555554211                      


Q ss_pred             -------HcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHHHHH---hhCCCCCCHHHHHHHhC
Q psy17903        211 -------QESVMCDFKALETLVETS---GG-DMRRAITCLQSCAR---LKGGEGIVNEDVLEVTG  261 (355)
Q Consensus       211 -------~~~~~~~~~~~~~l~~~~---~g-~~r~~~~~l~~~~~---~~~~~~It~~~v~~~~~  261 (355)
                             -..+.++++.++++++.+   +. ++|..+..++.+..   +.+...++.+||..++.
T Consensus       243 I~~a~~~~~~V~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a~  307 (337)
T TIGR02030       243 IVNAQNLLPQVTIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVAV  307 (337)
T ss_pred             HHHHHHHhccCcCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence                   134668888888877654   33 46777766655443   34778899999998664

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.

>PRK14700 recombination factor protein RarA; Provisional

Probab=99.49  E-value=5.1e-12  Score=110.49  Aligned_cols=181  Identities=11%  Similarity=0.033  Sum_probs=136.6

Q ss_pred             CCccEEEEec--CCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHc------CCCCCHHHHHHHHHHcCCCHHHHHH
Q psy17903        166 KSTRFCLICN--YVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQE------SVMCDFKALETLVETSGGDMRRAIT  237 (355)
Q Consensus       166 ~~~~~Il~~~--~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~------~~~~~~~~~~~l~~~~~g~~r~~~~  237 (355)
                      ..+++|.+|+  ....+.++|+|||+++.|++++.+++..++++.+...      .+.+++++++.|+..++||.|.++|
T Consensus         7 G~i~LIGATTENP~f~vn~ALlSR~~v~~l~~L~~~di~~il~ral~~~~~~~~~~~~i~~~al~~ia~~a~GDaR~aLN   86 (300)
T PRK14700          7 GKIILIGATTENPTYYLNDALVSRLFILRLKRLSLVATQKLIEKALSQDEVLAKHKFKIDDGLYNAMHNYNEGDCRKILN   86 (300)
T ss_pred             CcEEEEeecCCCccceecHhhhhhhheeeecCCCHHHHHHHHHHHHHhhhccCCcCCCcCHHHHHHHHHhcCCHHHHHHH
Confidence            4566777665  3456899999999999999999999999999998752      3679999999999999999999999


Q ss_pred             HHHHHHHhh-CC--CCCCHHHHHHHhCCC----------ChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHH
Q psy17903        238 CLQSCARLK-GG--EGIVNEDVLEVTGVI----------PNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQF  301 (355)
Q Consensus       238 ~l~~~~~~~-~~--~~It~~~v~~~~~~~----------~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l  301 (355)
                      .||.+.... +.  ..||.+.+.+++...          .-+.+..+.+.   .|.+.+.-++..|++.|++|..|.+.|
T Consensus        87 ~LE~a~~~~~~~~~~~it~~~~~~~~~~~~~~yDk~gd~HYd~iSAf~KSiRGSDpDAAlYyLArml~~GEDp~~IaRRL  166 (300)
T PRK14700         87 LLERMFLISTRGDEIYLNKELFDQAVGETSRDFHREGKEFYEQLSAFHKSVRGTDPDAAIFWLSVMLDNGVDPLVIARRM  166 (300)
T ss_pred             HHHHHHhhccccCCCccCHHHHHHHHhHHHhcccCCcchhHHHHHHHHHHhhcCCccHHHHHHHHHHHcCCCHHHHHHHH
Confidence            999966533 22  239999999887532          22345555555   889999999999999999999999999


Q ss_pred             HHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHH
Q psy17903        302 HDIVMSASSLSDKQKALILEKLAECNARLQDGA-SEYIQILDLGSIVI  348 (355)
Q Consensus       302 ~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~-~~~~~l~~~~~~~~  348 (355)
                      ........++-+.+...+..-+..+-..  -|. .-++.|...+..++
T Consensus       167 ii~AsEDIGlAdP~al~~a~aa~~A~~~--iG~PEa~i~La~aviyLA  212 (300)
T PRK14700        167 LCIASEDIGNADPQALRVAMDAWNAYEK--LGMPEGRLVLAQAAIYLA  212 (300)
T ss_pred             HHHHHhhccCCCHHHHHHHHHHHHHHHH--hCChHHHHHHHHHHHHHH
Confidence            9988876555554444333333333333  363 55666666666654

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=99.49  E-value=6.9e-12  Score=120.59  Aligned_cols=212  Identities=17%  Similarity=0.176  Sum_probs=134.0

Q ss_pred             CCcccccHHHHHHHHHHHhcCC--CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHH
Q psy17903         44 IDDVIEQQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFA  121 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~~~~--~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~  121 (355)
                      +..++|....+..+.+.+....  ..+++++|++|+||+++|+.++.....  ...+++.++|.... ...+...+....
T Consensus       142 ~~~ii~~S~~~~~~~~~~~~~a~~~~~vli~Ge~GtGK~~lA~~ih~~s~~--~~~~~~~i~c~~~~-~~~~~~~lfg~~  218 (457)
T PRK11361        142 WGHILTNSPAMMDICKDTAKIALSQASVLISGESGTGKELIARAIHYNSRR--AKGPFIKVNCAALP-ESLLESELFGHE  218 (457)
T ss_pred             ccceecccHHHhHHHHHHHHHcCCCcEEEEEcCCCccHHHHHHHHHHhCCC--CCCCeEEEECCCCC-HHHHHHHhcCCC
Confidence            4467787766666655554322  234999999999999999999886533  23478888987642 222211111100


Q ss_pred             HhhccCCC--CCC-CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCCc-------cc
Q psy17903        122 QQTASGFN--QDG-KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYVS-------CI  180 (355)
Q Consensus       122 ~~~~~~~~--~~~-~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~~-------~l  180 (355)
                      .....+..  ..| ...+++++|||||++.|+...|..|+.++++..           .++++|++++..-       .+
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  000 011355699999999999999999999997632           3468888887431       23


Q ss_pred             cccccCCee--eEEecCCCH--HHHHHHHHHH----HHHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCC
Q psy17903        181 IQPLTSRCS--KFRFKPLAE--NTMLTRLQYI----CEQES---VMCDFKALETLVETS-GGDMRRAITCLQSCARLKGG  248 (355)
Q Consensus       181 ~~~l~sr~~--~i~~~~~~~--~~~~~~l~~~----~~~~~---~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~~~  248 (355)
                      .+.+..|..  .+.++|+.+  +++..++...    ....+   ..+++++++.|..+. +||+|++.+.++.+...+.+
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            333443433  455555553  4444433333    32223   368999999998764 99999999999998887777


Q ss_pred             CCCCHHHHHH
Q psy17903        249 EGIVNEDVLE  258 (355)
Q Consensus       249 ~~It~~~v~~  258 (355)
                      ..|+.+++..
T Consensus       379 ~~i~~~~l~~  388 (457)
T PRK11361        379 PIIFSEDLPP  388 (457)
T ss_pred             CcccHHHChH
Confidence            7898888754

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=99.49  E-value=4.6e-13  Score=131.04  Aligned_cols=191  Identities=21%  Similarity=0.351  Sum_probs=134.6

Q ss_pred             CcccccHHHHHHHHHHHhcC-------CCC--eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHH
Q psy17903         45 DDVIEQQEVVSVLKKCLSGA-------DLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~-------~~~--~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~  115 (355)
                      +.++||++++..+.+.++..       +.|  .+||.||+|+|||.+|++++..++++.  ..++.+|+++......+..
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e--~aliR~DMSEy~EkHsVSr  568 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDE--QALIRIDMSEYMEKHSVSR  568 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCC--ccceeechHHHHHHHHHHH
Confidence            46899999999999988532       222  299999999999999999999998764  3688888887644443332


Q ss_pred             HHHHHHHhhcc--CCCCCC-----CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC
Q psy17903        116 KVKTFAQQTAS--GFNQDG-----KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV  177 (355)
Q Consensus       116 ~i~~~~~~~~~--~~~~~~-----~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~  177 (355)
                      .+.    .++.  ++...|     -+..++-||++||++.-.++.++.|+.+|+++.           .++++|+|+|--
T Consensus       569 LIG----aPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN~G  644 (786)
T COG0542         569 LIG----APPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNAG  644 (786)
T ss_pred             HhC----CCCCCceeccccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEecccc
Confidence            222    1111  111111     011356799999999999999999999999753           478899998721


Q ss_pred             c--------------------c--------ccccccCCee-eEEecCCCHHHHHHHHHHHHHH-------cC--CCCCHH
Q psy17903        178 S--------------------C--------IIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQ-------ES--VMCDFK  219 (355)
Q Consensus       178 ~--------------------~--------l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~-------~~--~~~~~~  219 (355)
                      .                    .        +.|.+..|.. +|.|.+++.+.+.+++...+..       .+  +.++++
T Consensus       645 s~~i~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFLNRid~II~F~~L~~~~l~~Iv~~~L~~l~~~L~~~~i~l~~s~~  724 (786)
T COG0542         645 SEEILRDADGDDFADKEALKEAVMEELKKHFRPEFLNRIDEIIPFNPLSKEVLERIVDLQLNRLAKRLAERGITLELSDE  724 (786)
T ss_pred             hHHHHhhccccccchhhhHHHHHHHHHHhhCCHHHHhhcccEEeccCCCHHHHHHHHHHHHHHHHHHHHhCCceEEECHH
Confidence            0                    0        2355666666 8999999999998887766553       23  467899


Q ss_pred             HHHHHHHHcC---CCHHHHHHHHHH
Q psy17903        220 ALETLVETSG---GDMRRAITCLQS  241 (355)
Q Consensus       220 ~~~~l~~~~~---g~~r~~~~~l~~  241 (355)
                      +.++|++.+-   ...|-+.+.++.
T Consensus       725 a~~~l~~~gyd~~~GARpL~R~Iq~  749 (786)
T COG0542         725 AKDFLAEKGYDPEYGARPLRRAIQQ  749 (786)
T ss_pred             HHHHHHHhccCCCcCchHHHHHHHH
Confidence            9999998762   334555555543

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.48  E-value=3.8e-12  Score=118.94  Aligned_cols=210  Identities=14%  Similarity=0.147  Sum_probs=125.0

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHH--HHHHHH
Q psy17903         45 DDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK--VKTFAQ  122 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~--i~~~~~  122 (355)
                      +.++|++++++.+...+..+.  |+||+||||+|||++|+++++.+....   .+....+..... .++...  +.....
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            358899999999988887664  799999999999999999999874321   122222211011 111110  111100


Q ss_pred             hhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc---------CCccE-EEEecCCc---cccccccCCee
Q psy17903        123 QTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET---------KSTRF-CLICNYVS---CIIQPLTSRCS  189 (355)
Q Consensus       123 ~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~---------~~~~~-Il~~~~~~---~l~~~l~sr~~  189 (355)
                      .+.......|. -....++|+||+..+++..|+.|+..|++..         ...+| ++++|...   ...+++..|+.
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 EGRYQRLTSGY-LPEAEIVFLDEIWKAGPAILNTLLTAINERRFRNGAHEEKIPMRLLVTASNELPEADSSLEALYDRML  172 (498)
T ss_pred             cCchhhhcCCc-cccccEEeecccccCCHHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECCCCcccCCchHHhHhhEE
Confidence            00000001110 0012399999999999999999999996532         12344 44555322   24457888876


Q ss_pred             -eEEecCCC-HHHHHHHHHHHHH-----------------------HcCCCCCHHHHHHHHHHc------C----CCHHH
Q psy17903        190 -KFRFKPLA-ENTMLTRLQYICE-----------------------QESVMCDFKALETLVETS------G----GDMRR  234 (355)
Q Consensus       190 -~i~~~~~~-~~~~~~~l~~~~~-----------------------~~~~~~~~~~~~~l~~~~------~----g~~r~  234 (355)
                       .+.+++++ .++..+++.....                       -..+.+++...+++++..      .    -++|.
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             57788886 3454566543211                       024567777777766543      1    24566


Q ss_pred             HHHHH---HHHHHhhCCCCCCHHHHHHHhCC
Q psy17903        235 AITCL---QSCARLKGGEGIVNEDVLEVTGV  262 (355)
Q Consensus       235 ~~~~l---~~~~~~~~~~~It~~~v~~~~~~  262 (355)
                      .+..+   +..+.+.|...++.+|+. ++..
T Consensus       253 ~~~l~~~akA~A~l~GR~~V~p~Dv~-ll~~  282 (498)
T PRK13531        253 WKKAIRLLQASAFFSGRDAIAPIDLI-LLKD  282 (498)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCHHHHH-HhHH
Confidence            55544   444555578889999998 5443

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=99.47  E-value=1.6e-12  Score=114.51  Aligned_cols=206  Identities=19%  Similarity=0.167  Sum_probs=136.1

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCCC--eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHH
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSGADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~~~~~--~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  120 (355)
                      .|+.+++.+..++.+....++-..-  .+||.|++|+||..+|++++......  +.+|+.+||+.......-.+.+.. 
T Consensus       202 ~F~~~v~~S~~mk~~v~qA~k~AmlDAPLLI~GeTGTGKdLlAkaCH~~S~R~--~~pFlalNCA~lPe~~aEsElFG~-  278 (511)
T COG3283         202 GFEQIVAVSPKMKHVVEQAQKLAMLDAPLLITGETGTGKDLLAKACHLASPRH--SKPFLALNCASLPEDAAESELFGH-  278 (511)
T ss_pred             chHHHhhccHHHHHHHHHHHHhhccCCCeEEecCCCchHHHHHHHHhhcCccc--CCCeeEeecCCCchhHhHHHHhcC-
Confidence            5899999988887777666543222  29999999999999999998776443  457899999864222211111111 


Q ss_pred             HHhhccCCCCCCC----CCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-------c
Q psy17903        121 AQQTASGFNQDGK----PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------S  178 (355)
Q Consensus       121 ~~~~~~~~~~~~~----~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-------~  178 (355)
                      +.   .   ..++    ..++++.|++||+..|++.-|.+|++++.++.           .++++|++|...       .
T Consensus       279 ap---g---~~gk~GffE~AngGTVlLDeIgEmSp~lQaKLLRFL~DGtFRRVGee~Ev~vdVRVIcatq~nL~~lv~~g  352 (511)
T COG3283         279 AP---G---DEGKKGFFEQANGGTVLLDEIGEMSPRLQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQVNLVELVQKG  352 (511)
T ss_pred             CC---C---CCCccchhhhccCCeEEeehhhhcCHHHHHHHHHHhcCCceeecCCcceEEEEEEEEecccccHHHHHhcC
Confidence            10   0   1111    11566799999999999999999999997643           457788777532       1


Q ss_pred             cccccccCCeee--EEecCCCH------HHHHHHHHHHHHHcCC---CCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhh
Q psy17903        179 CIIQPLTSRCSK--FRFKPLAE------NTMLTRLQYICEQESV---MCDFKALETLVET-SGGDMRRAITCLQSCARLK  246 (355)
Q Consensus       179 ~l~~~l~sr~~~--i~~~~~~~------~~~~~~l~~~~~~~~~---~~~~~~~~~l~~~-~~g~~r~~~~~l~~~~~~~  246 (355)
                      ++-..+--|..+  ++++|+.+      .-..-++++.+.+.++   .++++.+.++.++ ++||+|++.|.+-+++...
T Consensus       353 ~fReDLfyRLNVLtl~~PpLRer~~di~pL~e~Fv~q~s~elg~p~pkl~~~~~~~L~~y~WpGNVRqL~N~iyRA~s~~  432 (511)
T COG3283         353 KFREDLFYRLNVLTLNLPPLRERPQDIMPLAELFVQQFSDELGVPRPKLAADLLTVLTRYAWPGNVRQLKNAIYRALTLL  432 (511)
T ss_pred             chHHHHHHHhheeeecCCccccCcccchHHHHHHHHHHHHHhCCCCCccCHHHHHHHHHcCCCccHHHHHHHHHHHHHHh
Confidence            122222223232  22222221      1224456666666665   4678888888765 6999999999999888888


Q ss_pred             CCCCCCHHHHH
Q psy17903        247 GGEGIVNEDVL  257 (355)
Q Consensus       247 ~~~~It~~~v~  257 (355)
                      .+..++.+++.
T Consensus       433 Eg~~l~i~~i~  443 (511)
T COG3283         433 EGYELRIEDIL  443 (511)
T ss_pred             ccCccchhhcc
Confidence            77778877775

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=99.47  E-value=6.3e-13  Score=124.02  Aligned_cols=189  Identities=20%  Similarity=0.226  Sum_probs=113.6

Q ss_pred             CC-cccccHHHHHHHHHHHhc-------C---------CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC
Q psy17903         44 ID-DVIEQQEVVSVLKKCLSG-------A---------DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (355)
Q Consensus        44 ~~-~~vg~~~~~~~l~~~l~~-------~---------~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  106 (355)
                      ++ .++||+.+++.+...+.+       +         ...++||+||||||||++|+++++.+.     .+++.+++..
T Consensus        69 L~~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~-----~pf~~id~~~  143 (412)
T PRK05342         69 LDQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILD-----VPFAIADATT  143 (412)
T ss_pred             HhhHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhC-----CCceecchhh
Confidence            44 378999999988665511       1         124599999999999999999999883     3455555543


Q ss_pred             ccch----HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------------HHHHHHHHHhhhcc---
Q psy17903        107 DRGI----QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTMEKET---  165 (355)
Q Consensus       107 ~~~~----~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------------~~~~~Ll~~le~~~---  165 (355)
                      ....    ......+...........     ..+.+.+|||||+|.++.              +.|++|++.||...   
T Consensus       144 l~~~gyvG~d~e~~l~~l~~~~~~~~-----~~a~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~~LL~~Leg~~~~v  218 (412)
T PRK05342        144 LTEAGYVGEDVENILLKLLQAADYDV-----EKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASV  218 (412)
T ss_pred             cccCCcccchHHHHHHHHHHhccccH-----HHcCCcEEEEechhhhccccCCCCcCCCcccHHHHHHHHHHHhcCeEEe
Confidence            2211    111222222111100000     001345999999999975              37899999997421   


Q ss_pred             ------------------CCccEEEEecCC------------------------------c--------------ccccc
Q psy17903        166 ------------------KSTRFCLICNYV------------------------------S--------------CIIQP  183 (355)
Q Consensus       166 ------------------~~~~~Il~~~~~------------------------------~--------------~l~~~  183 (355)
                                        .++.||++++..                              .              -+.|.
T Consensus       219 ~~~gg~~~~~~~~~~i~t~nilfi~~Gaf~g~~~~~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~dL~~~gf~PE  298 (412)
T PRK05342        219 PPQGGRKHPQQEFIQVDTTNILFICGGAFDGLEKIIKQRLGKKGIGFGAEVKSKKEKRTEGELLKQVEPEDLIKFGLIPE  298 (412)
T ss_pred             CCCCCcCcCCCCeEEeccCCceeeecccccCcHHHHHHHHhhcccCCccccccccccchhHHHHHhcCHHHHHHHhhhHH
Confidence                              122333222100                              0              02455


Q ss_pred             ccCCee-eEEecCCCHHHHHHHHHH----H-------HHHcCC--CCCHHHHHHHHHHc---CCCHHHHHHHHHHH
Q psy17903        184 LTSRCS-KFRFKPLAENTMLTRLQY----I-------CEQESV--MCDFKALETLVETS---GGDMRRAITCLQSC  242 (355)
Q Consensus       184 l~sr~~-~i~~~~~~~~~~~~~l~~----~-------~~~~~~--~~~~~~~~~l~~~~---~g~~r~~~~~l~~~  242 (355)
                      +..|.. ++.|.+++.+++..++..    .       +...++  .++++++++|++.+   .--.|.+...+++.
T Consensus       299 flgRld~iv~f~~L~~~~L~~Il~~~~~~l~~q~~~~l~~~~i~L~~t~~al~~Ia~~~~~~~~GAR~Lrriie~~  374 (412)
T PRK05342        299 FIGRLPVVATLEELDEEALVRILTEPKNALVKQYQKLFEMDGVELEFTDEALEAIAKKAIERKTGARGLRSILEEI  374 (412)
T ss_pred             HhCCCCeeeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhCCCCCCCCchHHHHHHHH
Confidence            666665 789999999999998872    2       233444  57999999999874   22344444444443

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=99.46  E-value=1.2e-11  Score=119.09  Aligned_cols=214  Identities=17%  Similarity=0.174  Sum_probs=142.3

Q ss_pred             CCcccccHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHH
Q psy17903         44 IDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFA  121 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~  121 (355)
                      ...++|.......+.+.+...  ....+++.|++|+||+++|+++++.....  ..+++.+||... ..+.+...+....
T Consensus       133 ~~~lig~s~~~~~v~~~i~~~a~~~~~vli~Ge~GtGK~~~A~~ih~~~~~~--~~~~~~~~c~~~-~~~~~~~~lfg~~  209 (463)
T TIGR01818       133 SAELIGEAPAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRHSPRA--NGPFIALNMAAI-PKDLIESELFGHE  209 (463)
T ss_pred             ccceeecCHHHHHHHHHHHHHhCcCCeEEEECCCCCCHHHHHHHHHHhCCCC--CCCeEEEeCCCC-CHHHHHHHhcCCC
Confidence            345788777776666555432  22239999999999999999999875433  457888898764 2222222221100


Q ss_pred             HhhccCCC--CCC-CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCCc-------cc
Q psy17903        122 QQTASGFN--QDG-KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYVS-------CI  180 (355)
Q Consensus       122 ~~~~~~~~--~~~-~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~~-------~l  180 (355)
                      .....+..  ..+ ...+++.+|+|||++.|+.+.|..|++++++..           .++++|++++..-       .+
T Consensus       210 ~~~~~~~~~~~~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~f  289 (463)
T TIGR01818       210 KGAFTGANTRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNLEALVRQGKF  289 (463)
T ss_pred             CCCCCCcccCCCCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCCHHHHHHcCCc
Confidence            00000000  000 011345689999999999999999999998642           2467888876431       23


Q ss_pred             cccccCCee--eEEecCCC--HHHHHHHHHHHHH----HcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCC
Q psy17903        181 IQPLTSRCS--KFRFKPLA--ENTMLTRLQYICE----QES---VMCDFKALETLVETS-GGDMRRAITCLQSCARLKGG  248 (355)
Q Consensus       181 ~~~l~sr~~--~i~~~~~~--~~~~~~~l~~~~~----~~~---~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~~~  248 (355)
                      .+.|..|..  .++++|+.  .+++..++...+.    ..+   ..+++++++.|..+. +||+|++.+.++.++..+.+
T Consensus       290 ~~~L~~rl~~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNvreL~~~~~~~~~~~~~  369 (463)
T TIGR01818       290 REDLFHRLNVIRIHLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALERLKQLRWPGNVRQLENLCRWLTVMASG  369 (463)
T ss_pred             HHHHHHHhCcceecCCCcccchhhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCCC
Confidence            345555544  67778877  5677776665543    223   468999999998764 99999999999999988777


Q ss_pred             CCCCHHHHHHHh
Q psy17903        249 EGIVNEDVLEVT  260 (355)
Q Consensus       249 ~~It~~~v~~~~  260 (355)
                      ..|+.+++...+
T Consensus       370 ~~i~~~~l~~~~  381 (463)
T TIGR01818       370 DEVLVSDLPAEL  381 (463)
T ss_pred             CcccHHhchHHH
Confidence            789988876443

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.

>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=99.45  E-value=2.1e-12  Score=112.50  Aligned_cols=188  Identities=18%  Similarity=0.268  Sum_probs=108.2

Q ss_pred             ccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHH---------H
Q psy17903         47 VIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK---------V  117 (355)
Q Consensus        47 ~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~---------i  117 (355)
                      ++|++..++.|.+++.++...+++|+||.|+|||++++.+.+.+.....  ..+.++.............         +
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            5799999999999999876677999999999999999999998843222  2222222221111111111         0


Q ss_pred             HHHHHhhccCCC------CCCC--------------CCCCcEEEEEeCCCCCC------HHHHHHHHHHhhh--ccCCcc
Q psy17903        118 KTFAQQTASGFN------QDGK--------------PCPPFKIVILDEADSMT------HAAQAALRRTMEK--ETKSTR  169 (355)
Q Consensus       118 ~~~~~~~~~~~~------~~~~--------------~~~~~~vliiDe~d~l~------~~~~~~Ll~~le~--~~~~~~  169 (355)
                      ............      ....              ....+-+|||||++.+.      ......|...++.  ...++.
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            000100000000      0000              00123599999999998      3445667777765  234455


Q ss_pred             EEEEecCCc------cccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHH
Q psy17903        170 FCLICNYVS------CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMC--DFKALETLVETSGGDMRRAIT  237 (355)
Q Consensus       170 ~Il~~~~~~------~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~--~~~~~~~l~~~~~g~~r~~~~  237 (355)
                      +|+++....      .-..++..|+..+.+++++.++..+++...+... ..+  +++.++.+...++|+|+.+..
T Consensus       159 ~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~-~~~~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  159 IVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL-IKLPFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC-------HHHHHHHHHHHTT-HHHHHH
T ss_pred             EEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh-hcccCCHHHHHHHHHHhCCCHHHHhc
Confidence            666655421      1234567777889999999999999999988776 554  999999999999999998753

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

>KOG2680|consensus

Probab=99.44  E-value=3.5e-12  Score=109.90  Aligned_cols=120  Identities=20%  Similarity=0.285  Sum_probs=97.6

Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecC------------CccccccccCCeeeEEecCCCHHHHHHHHH
Q psy17903        139 KIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY------------VSCIIQPLTSRCSKFRFKPLAENTMLTRLQ  206 (355)
Q Consensus       139 ~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~------------~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~  206 (355)
                      .++||||+|.|.-+....|.+.+|+.- .+++|++||.            ++-+.-.+..|..++.-.|++.+++..+|+
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            599999999999999999999998643 4567777763            233556688999999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHH
Q psy17903        207 YICEQESVMCDFKALETLVETS-GGDMRRAITCLQSCARLK---GGEGIVNEDVLEV  259 (355)
Q Consensus       207 ~~~~~~~~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~---~~~~It~~~v~~~  259 (355)
                      .+|..+.+.+++++++.|.... ..++|.+++++......+   .+..+..+|+..+
T Consensus       369 iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~~~v~~~di~r~  425 (454)
T KOG2680|consen  369 IRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKGKVVEVDDIERV  425 (454)
T ss_pred             hhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcCceeehhHHHHH
Confidence            9999999999999999998865 679999999987665544   3455666666553

>KOG0735|consensus

Probab=99.44  E-value=4.8e-12  Score=120.38  Aligned_cols=179  Identities=22%  Similarity=0.227  Sum_probs=126.2

Q ss_pred             CCCCcccccHHHHHHHHHHHhcC------------CCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc-
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLSGA------------DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD-  107 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~~~------------~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-  107 (355)
                      -.|+++.|..++++.+.+.+.-.            +.+ ++|+|||||||||.+|.+++...     +..++.+.+++. 
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            35899999999998888877421            222 39999999999999999999986     567777766542 


Q ss_pred             -----cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHhhh--ccCCcc
Q psy17903        108 -----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEK--ETKSTR  169 (355)
Q Consensus       108 -----~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~le~--~~~~~~  169 (355)
                           .+...+|+.+....         ..+||    |+|+||+|.+.+           ...|.|+.-|+.  +-..+.
T Consensus       739 ~KyIGaSEq~vR~lF~rA~---------~a~PC----iLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~  805 (952)
T KOG0735|consen  739 SKYIGASEQNVRDLFERAQ---------SAKPC----ILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVY  805 (952)
T ss_pred             HHHhcccHHHHHHHHHHhh---------ccCCe----EEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEE
Confidence                 11233444444322         24566    999999999965           346778777763  234556


Q ss_pred             EEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q psy17903        170 FCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL  239 (355)
Q Consensus       170 ~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l  239 (355)
                      ++.+|.+++-++|+|.+.++   .+.++.|++.+..++++......-+ -++..++.++..+.|--+.-++.|
T Consensus       806 i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~~-~~~vdl~~~a~~T~g~tgADlq~l  877 (952)
T KOG0735|consen  806 ILAATSRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLLK-DTDVDLECLAQKTDGFTGADLQSL  877 (952)
T ss_pred             EEEecCCccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhccCC-ccccchHHHhhhcCCCchhhHHHH
Confidence            66677789999999998887   6889999999999999877653322 234457778888776554444433

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

Probab=99.43  E-value=7.5e-12  Score=104.77  Aligned_cols=189  Identities=17%  Similarity=0.215  Sum_probs=132.8

Q ss_pred             cCCCCCCcccccHHHHHHHHHH----HhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHH
Q psy17903         39 YRPKTIDDVIEQQEVVSVLKKC----LSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIR  114 (355)
Q Consensus        39 ~~p~~~~~~vg~~~~~~~l~~~----l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~  114 (355)
                      +.|..+.+++|-+.+.+.|.+.    +++-...|+|++|..|+|||++++++..++.....  ..++++..+....-.+.
T Consensus        54 ~~~i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~gl--rLVEV~k~dl~~Lp~l~  131 (287)
T COG2607          54 PDPIDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGL--RLVEVDKEDLATLPDLV  131 (287)
T ss_pred             CCCcCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcCC--eEEEEcHHHHhhHHHHH
Confidence            3445677889998888877654    44444445999999999999999999999977655  48898887765555555


Q ss_pred             HHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHH-HHHHHHh----hhccCCccEEEEecCCccccc-------
Q psy17903        115 DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQ-AALRRTM----EKETKSTRFCLICNYVSCIIQ-------  182 (355)
Q Consensus       115 ~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~-~~Ll~~l----e~~~~~~~~Il~~~~~~~l~~-------  182 (355)
                      +.++...               .+=|||+||.-.=..+.. ..|...|    +..|.|++|..++|..+-+.+       
T Consensus       132 ~~Lr~~~---------------~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNRRHLl~e~~~dn~~  196 (287)
T COG2607         132 ELLRARP---------------EKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNRRHLLPEDMKDNEG  196 (287)
T ss_pred             HHHhcCC---------------ceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCCcccccHhhhhCCC
Confidence            4444322               233899999865544433 3344444    456777777777775543211       


Q ss_pred             ---------------cccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHH-----HHHHcCCCHHHHHHHHHH
Q psy17903        183 ---------------PLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALET-----LVETSGGDMRRAITCLQS  241 (355)
Q Consensus       183 ---------------~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-----l~~~~~g~~r~~~~~l~~  241 (355)
                                     .+..|+. .+.|.+++.++...++...+++.++.++++.++.     ...+.+.+-|.+.+.++.
T Consensus       197 ~~~eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~~~~l~~~~e~l~~eAl~WAt~rg~RSGR~A~QF~~~  276 (287)
T COG2607         197 STGEIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYAKHFGLDISDEELHAEALQWATTRGGRSGRVAWQFIRD  276 (287)
T ss_pred             cccccChhHHHHHhhchhhhcceeecccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhcCCCccHhHHHHHHH
Confidence                           1234544 7899999999999999999999999998755544     333446788889988887


Q ss_pred             HHH
Q psy17903        242 CAR  244 (355)
Q Consensus       242 ~~~  244 (355)
                      ++.
T Consensus       277 ~~g  279 (287)
T COG2607         277 LAG  279 (287)
T ss_pred             HHh
Confidence            664

>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=99.43  E-value=3.3e-12  Score=102.65  Aligned_cols=138  Identities=28%  Similarity=0.323  Sum_probs=92.2

Q ss_pred             cccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHH---HHHhh
Q psy17903         48 IEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT---FAQQT  124 (355)
Q Consensus        48 vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~---~~~~~  124 (355)
                      +|++..+..+...+......+++|+||+|+|||++++.+++.+...  ...++.+++...............   .....
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            3677888888888877555679999999999999999999998532  235566665543322222211110   00000


Q ss_pred             ccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc------cCCccEEEEecCCc--cccccccCCe-eeEEec
Q psy17903        125 ASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE------TKSTRFCLICNYVS--CIIQPLTSRC-SKFRFK  194 (355)
Q Consensus       125 ~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~------~~~~~~Il~~~~~~--~l~~~l~sr~-~~i~~~  194 (355)
                      ...   .    ....++++||++.+.......+...++..      ...+.+|++++...  .+.+.+.+|+ ..+.++
T Consensus        79 ~~~---~----~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~~~~~~~~~~r~~~~i~~~  150 (151)
T cd00009          79 LAE---K----AKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIP  150 (151)
T ss_pred             hhc---c----CCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccccCCcChhHHhhhccEeecC
Confidence            000   0    13459999999999777777888877765      35677888888765  6778888888 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.

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.43  E-value=9e-12  Score=123.30  Aligned_cols=213  Identities=15%  Similarity=0.107  Sum_probs=132.0

Q ss_pred             CCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc-----------CCc------------------
Q psy17903         44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF-----------GDM------------------   94 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~-----------~~~------------------   94 (355)
                      |..++||+.++..+.-.+-.....++||+|++|+|||++|+++++.+.           ++.                  
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            779999999999988887776666799999999999999999999872           100                  


Q ss_pred             -cccceeeecCCCc----cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc----
Q psy17903         95 -YRERILELNASDD----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET----  165 (355)
Q Consensus        95 -~~~~~~~~~~~~~----~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~----  165 (355)
                       ...+++.+.+...    .+..++...+.    .+.......--..+++.+|||||++.+++..|+.|+..|++..    
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             0123333322210    01111111111    0000000000011355699999999999999999999998642    


Q ss_pred             ---------CCccEEEEecCC-ccccccccCCee-eEEecCCC-HHHHHHHHHHHHH-----------------------
Q psy17903        166 ---------KSTRFCLICNYV-SCIIQPLTSRCS-KFRFKPLA-ENTMLTRLQYICE-----------------------  210 (355)
Q Consensus       166 ---------~~~~~Il~~~~~-~~l~~~l~sr~~-~i~~~~~~-~~~~~~~l~~~~~-----------------------  210 (355)
                               ..+.+|.++|.. ..+.++|..|+. .+.+..+. .++..+++.....                       
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                     345666666643 346788999986 45565554 3333333332110                       


Q ss_pred             ------HcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHHH---HHhhCCCCCCHHHHHHHh
Q psy17903        211 ------QESVMCDFKALETLVETS---GG-DMRRAITCLQSC---ARLKGGEGIVNEDVLEVT  260 (355)
Q Consensus       211 ------~~~~~~~~~~~~~l~~~~---~g-~~r~~~~~l~~~---~~~~~~~~It~~~v~~~~  260 (355)
                            ...+.++++.+++++..+   +- .+|..+..++.+   +.+.+...|+.+||.+++
T Consensus       239 ~~ar~~~~~V~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~  301 (633)
T TIGR02442       239 ARARSLLPSVRISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREAA  301 (633)
T ss_pred             HHHHHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHH
Confidence                  124678888888888765   22 366655555443   444478899999998755

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.

>KOG0732|consensus

Probab=99.41  E-value=7.7e-12  Score=125.02  Aligned_cols=191  Identities=19%  Similarity=0.134  Sum_probs=142.4

Q ss_pred             CCCCCcccccHHHHHHHHHHHhc------------CCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         41 PKTIDDVIEQQEVVSVLKKCLSG------------ADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~l~~------------~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      -..|+++.|.+.++..|++.+-.            -..|. +|++||||+|||..|++++..+....-+..++.-.+++.
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            34799999999999999987621            12333 999999999999999999999876555555554444432


Q ss_pred             c------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH-----------HHHHHHHHhhhc--cCCc
Q psy17903        108 R------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-----------AQAALRRTMEKE--TKST  168 (355)
Q Consensus       108 ~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~-----------~~~~Ll~~le~~--~~~~  168 (355)
                      -      ....++-.+.++....+             -|||.||+|.|.+-           ....|+.+|...  ...+
T Consensus       341 lskwvgEaERqlrllFeeA~k~qP-------------SIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGldsRgqV  407 (1080)
T KOG0732|consen  341 LSKWVGEAERQLRLLFEEAQKTQP-------------SIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDSRGQV  407 (1080)
T ss_pred             hccccCcHHHHHHHHHHHHhccCc-------------eEEeccccccccccccchHHHhhhhHHHHHHHhccCCCCCCce
Confidence            1      11234444444333221             29999999988651           124567777643  3467


Q ss_pred             cEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        169 RFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       169 ~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                      ++|.+||.++.+.++++++++   .+.|.-|+.+....++.-.-.++.-.++...+..++..+.|..+.-+..|...+.
T Consensus       408 vvigATnRpda~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~~t~gy~gaDlkaLCTeAa  486 (1080)
T KOG0732|consen  408 VVIGATNRPDAIDPALRRPGRFDREFYFPLPDVDARAKILDIHTRKWEPPISRELLLWLAEETSGYGGADLKALCTEAA  486 (1080)
T ss_pred             EEEcccCCccccchhhcCCcccceeEeeeCCchHHHHHHHHHhccCCCCCCCHHHHHHHHHhccccchHHHHHHHHHHh
Confidence            888899999999999999887   7889999999999999988888888899999999999999988887777755443

>KOG0740|consensus

Probab=99.39  E-value=7.4e-12  Score=114.94  Aligned_cols=179  Identities=16%  Similarity=0.140  Sum_probs=124.0

Q ss_pred             cccCCCCCCcccccHHHHHHHHHHHh----------cCCC--CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC
Q psy17903         37 EKYRPKTIDDVIEQQEVVSVLKKCLS----------GADL--PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (355)
Q Consensus        37 ~k~~p~~~~~~vg~~~~~~~l~~~l~----------~~~~--~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  104 (355)
                      +.-++..|+++.|.+.+...+...+-          +-+.  ..+|+.||||+|||.+++++|.+...     .++.+.+
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            34456778899998888877776542          1122  23999999999999999999999843     4555555


Q ss_pred             CCccch-----HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHH------------HHHHHHHhh---hc
Q psy17903        105 SDDRGI-----QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA------------QAALRRTME---KE  164 (355)
Q Consensus       105 ~~~~~~-----~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~------------~~~Ll~~le---~~  164 (355)
                      +...+.     +.+...+...+...            ..-|+||||+|.+....            .+.|+...-   .+
T Consensus       220 ssLtsK~~Ge~eK~vralf~vAr~~------------qPsvifidEidslls~Rs~~e~e~srr~ktefLiq~~~~~s~~  287 (428)
T KOG0740|consen  220 SSLTSKYVGESEKLVRALFKVARSL------------QPSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFDGKNSAP  287 (428)
T ss_pred             HHhhhhccChHHHHHHHHHHHHHhc------------CCeEEEechhHHHHhhcCCcccccchhhhhHHHhhhccccCCC
Confidence            442111     11111222222222            12399999999884321            123333221   23


Q ss_pred             cCCccEEEEecCCccccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCH
Q psy17903        165 TKSTRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDM  232 (355)
Q Consensus       165 ~~~~~~Il~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~  232 (355)
                      ...+++|.+||.++.++.++++|+. .+.++.|+.+....++.+.+++.+..+.+..+..|++.+.|.-
T Consensus       288 ~drvlvigaTN~P~e~Dea~~Rrf~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~Tegys  356 (428)
T KOG0740|consen  288 DDRVLVIGATNRPWELDEAARRRFVKRLYIPLPDYETRSLLWKQLLKEQPNGLSDLDISLLAKVTEGYS  356 (428)
T ss_pred             CCeEEEEecCCCchHHHHHHHHHhhceeeecCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCcc
Confidence            4467888889999999999999987 6778999999999999999998888888899999999876533

>KOG0735|consensus

Probab=99.39  E-value=1.1e-10  Score=111.23  Aligned_cols=223  Identities=15%  Similarity=0.130  Sum_probs=151.0

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc--chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEe
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR--GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILD  144 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~--~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiD  144 (355)
                      +++||+||+|+|||.+++++++++..+ ....+..++|+...  ..+.++..+..........         .--||++|
T Consensus       432 ~~Ill~G~~GsGKT~L~kal~~~~~k~-~~~hv~~v~Cs~l~~~~~e~iQk~l~~vfse~~~~---------~PSiIvLD  501 (952)
T KOG0735|consen  432 GNILLNGPKGSGKTNLVKALFDYYSKD-LIAHVEIVSCSTLDGSSLEKIQKFLNNVFSEALWY---------APSIIVLD  501 (952)
T ss_pred             ccEEEeCCCCCCHhHHHHHHHHHhccc-cceEEEEEechhccchhHHHHHHHHHHHHHHHHhh---------CCcEEEEc
Confidence            359999999999999999999998643 33455567776643  3445554444433332221         11299999


Q ss_pred             CCCCCCHH----------HHHHHHHHh----h---hccCCccEEEEecCCccccccccCCee---eEEecCCCHHHHHHH
Q psy17903        145 EADSMTHA----------AQAALRRTM----E---KETKSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTR  204 (355)
Q Consensus       145 e~d~l~~~----------~~~~Ll~~l----e---~~~~~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~  204 (355)
                      ++|.+...          ..+.|...+    .   +......||++++....+.+.|.+...   ++.+++|...+..++
T Consensus       502 dld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~ap~~~~R~~I  581 (952)
T KOG0735|consen  502 DLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALPAPAVTRRKEI  581 (952)
T ss_pred             chhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecCCcchhHHHHH
Confidence            99998541          112222222    2   223345677777777777777665533   789999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHcCCCH-HHHHHHHHHHHHhh-------CCCCCCHHHHHHHhCCCChHHHHHHHhc--
Q psy17903        205 LQYICEQESVMCDFKALETLVETSGGDM-RRAITCLQSCARLK-------GGEGIVNEDVLEVTGVIPNPWIEKLLKV--  274 (355)
Q Consensus       205 l~~~~~~~~~~~~~~~~~~l~~~~~g~~-r~~~~~l~~~~~~~-------~~~~It~~~v~~~~~~~~~~~~~~l~~~--  274 (355)
                      |...+++....+..+.++.++..++|.. +.+....+++...+       +.+.+|.+++.+.+....+..+..+-..  
T Consensus       582 L~~~~s~~~~~~~~~dLd~ls~~TEGy~~~DL~ifVeRai~~a~leris~~~klltke~f~ksL~~F~P~aLR~ik~~k~  661 (952)
T KOG0735|consen  582 LTTIFSKNLSDITMDDLDFLSVKTEGYLATDLVIFVERAIHEAFLERISNGPKLLTKELFEKSLKDFVPLALRGIKLVKS  661 (952)
T ss_pred             HHHHHHhhhhhhhhHHHHHHHHhcCCccchhHHHHHHHHHHHHHHHHhccCcccchHHHHHHHHHhcChHHhhhcccccc
Confidence            9999998887888889999999998854 44445555554333       2236899999999887777666554322  


Q ss_pred             --------CCHHHHHHHHHHHHHcCCCHHHHHH
Q psy17903        275 --------DSFQVLEKYIEDLILEAYSATQLFD  299 (355)
Q Consensus       275 --------~~~~~~~~~l~~l~~~g~~~~~i~~  299 (355)
                              +....++..+.+.+++.-....|+.
T Consensus       662 tgi~w~digg~~~~k~~l~~~i~~P~kyp~if~  694 (952)
T KOG0735|consen  662 TGIRWEDIGGLFEAKKVLEEVIEWPSKYPQIFA  694 (952)
T ss_pred             CCCCceecccHHHHHHHHHHHHhccccchHHHh
Confidence                    5677888899998887655555554

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=99.38  E-value=1.6e-11  Score=120.49  Aligned_cols=126  Identities=14%  Similarity=0.138  Sum_probs=89.2

Q ss_pred             CCcEEEEEeCCCCCCHHHHHHHHHHhhhcc---------------------CCccEEEEecCC--ccccccccCCee---
Q psy17903        136 PPFKIVILDEADSMTHAAQAALRRTMEKET---------------------KSTRFCLICNYV--SCIIQPLTSRCS---  189 (355)
Q Consensus       136 ~~~~vliiDe~d~l~~~~~~~Ll~~le~~~---------------------~~~~~Il~~~~~--~~l~~~l~sr~~---  189 (355)
                      +++++++|||++.|++..|..|++.|++..                     .++++|+++|..  ..+.+++++|+.   
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            567899999999999999999999996531                     245678777753  467889999886   


Q ss_pred             -eEEecC---CCHHH---HHHHHHHHHHHcC--CCCCHHHHHHHHHHc----------CCCHHHHHHHHHHHHHhh---C
Q psy17903        190 -KFRFKP---LAENT---MLTRLQYICEQES--VMCDFKALETLVETS----------GGDMRRAITCLQSCARLK---G  247 (355)
Q Consensus       190 -~i~~~~---~~~~~---~~~~l~~~~~~~~--~~~~~~~~~~l~~~~----------~g~~r~~~~~l~~~~~~~---~  247 (355)
                       .+.|..   .+.+.   +..++.+.+++.|  ..++++++..+++.+          ..+.|.+.+.++.+...+   +
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             244432   23333   4555666666553  358999999988532          245788888888764433   4


Q ss_pred             CCCCCHHHHHHHhC
Q psy17903        248 GEGIVNEDVLEVTG  261 (355)
Q Consensus       248 ~~~It~~~v~~~~~  261 (355)
                      ...|+.++|.+++.
T Consensus       376 ~~~I~~ehV~~Ai~  389 (608)
T TIGR00764       376 KVYVTAEHVLKAKK  389 (608)
T ss_pred             CceecHHHHHHHHH
Confidence            56799999998764

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.37  E-value=2.7e-11  Score=108.35  Aligned_cols=177  Identities=13%  Similarity=0.079  Sum_probs=111.6

Q ss_pred             ccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHH-
Q psy17903         38 KYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK-  116 (355)
Q Consensus        38 k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~-  116 (355)
                      .|.|+.-.+++-.++....+..++..+  .+++|.||||||||++++.+++.++     .+++.+++.......++... 
T Consensus        38 ~~~p~~d~~y~f~~~~~~~vl~~l~~~--~~ilL~G~pGtGKTtla~~lA~~l~-----~~~~rV~~~~~l~~~DliG~~  110 (327)
T TIGR01650        38 EHVPDIDPAYLFDKATTKAICAGFAYD--RRVMVQGYHGTGKSTHIEQIAARLN-----WPCVRVNLDSHVSRIDLVGKD  110 (327)
T ss_pred             CCCCCCCCCccCCHHHHHHHHHHHhcC--CcEEEEeCCCChHHHHHHHHHHHHC-----CCeEEEEecCCCChhhcCCCc
Confidence            444554456677777777777776543  3699999999999999999999994     34555554443222111110 


Q ss_pred             ---H------HHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhh--------------ccCCccEEEE
Q psy17903        117 ---V------KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEK--------------ETKSTRFCLI  173 (355)
Q Consensus       117 ---i------~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~--------------~~~~~~~Il~  173 (355)
                         +      ..|...+...      ......++++||++...++.++.|..+||.              +++..++|.+
T Consensus       111 ~~~l~~g~~~~~f~~GpL~~------A~~~g~illlDEin~a~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT  184 (327)
T TIGR01650       111 AIVLKDGKQITEFRDGILPW------ALQHNVALCFDEYDAGRPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFAT  184 (327)
T ss_pred             eeeccCCcceeEEecCcchh------HHhCCeEEEechhhccCHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEe
Confidence               0      0000000000      001334799999999999999998888873              2235667777


Q ss_pred             ecCCc------------cccccccCCeee-EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q psy17903        174 CNYVS------------CIIQPLTSRCSK-FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVET  227 (355)
Q Consensus       174 ~~~~~------------~l~~~l~sr~~~-i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~  227 (355)
                      +|...            .+.++...|+.. +.+..|+.++-.+++...+....-..+++.++++++.
T Consensus       185 ~Np~g~Gd~~G~y~Gt~~l~~A~lDRF~i~~~~~Yp~~e~E~~Il~~~~~~~~~~~~~~i~~~mV~l  251 (327)
T TIGR01650       185 ANTIGLGDTTGLYHGTQQINQAQMDRWSIVTTLNYLEHDNEAAIVLAKAKGFDDTEGKDIINAMVRV  251 (327)
T ss_pred             eCCCCcCCCCcceeeeecCCHHHHhheeeEeeCCCCCHHHHHHHHHhhccCCCccchHHHHHHHHHH
Confidence            77632            357889999974 5899999999999988664321111134556665543

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.

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=99.36  E-value=1.6e-11  Score=116.34  Aligned_cols=246  Identities=17%  Similarity=0.159  Sum_probs=151.3

Q ss_pred             ccHHHHHHHHHHHhcCCCC--eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhcc
Q psy17903         49 EQQEVVSVLKKCLSGADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTAS  126 (355)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~--~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~  126 (355)
                      +.+...+.+.+.++.....  ++++.|++|+||..++++++....   ...+++.+||... ....+...+..+....+.
T Consensus       317 ~~d~s~a~l~rk~~rv~~~~~pvll~GEtGtGKe~laraiH~~s~---~~gpfvAvNCaAi-p~~liesELFGy~~GafT  392 (606)
T COG3284         317 LLDPSRATLLRKAERVAATDLPVLLQGETGTGKEVLARAIHQNSE---AAGPFVAVNCAAI-PEALIESELFGYVAGAFT  392 (606)
T ss_pred             ccCHHHHHHHHHHHHHhhcCCCeEecCCcchhHHHHHHHHHhccc---ccCCeEEEEeccc-hHHhhhHHHhccCccccc
Confidence            4444444444444332222  399999999999999999999864   4567889998752 223333333333322222


Q ss_pred             CCCCCCCCC----CCcEEEEEeCCCCCCHHHHHHHHHHhhhcc----------CCccEEEEecCCc-------ccccccc
Q psy17903        127 GFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKET----------KSTRFCLICNYVS-------CIIQPLT  185 (355)
Q Consensus       127 ~~~~~~~~~----~~~~vliiDe~d~l~~~~~~~Ll~~le~~~----------~~~~~Il~~~~~~-------~l~~~l~  185 (355)
                      +....|+..    ++.+.+|+||+..|+-..|..|+++|++..          ..+++|.+|+..-       .+-+.|-
T Consensus       393 ga~~kG~~g~~~~A~gGtlFldeIgd~p~~~Qs~LLrVl~e~~v~p~g~~~~~vdirvi~ath~dl~~lv~~g~fredLy  472 (606)
T COG3284         393 GARRKGYKGKLEQADGGTLFLDEIGDMPLALQSRLLRVLQEGVVTPLGGTRIKVDIRVIAATHRDLAQLVEQGRFREDLY  472 (606)
T ss_pred             cchhccccccceecCCCccHHHHhhhchHHHHHHHHHHHhhCceeccCCcceeEEEEEEeccCcCHHHHHHcCCchHHHH
Confidence            222222211    567799999999999999999999998743          2456777776431       1222232


Q ss_pred             CCee--eEEecCCCH-HHHHHHHHHHHHH---cCCCCCHHHHHHHHH-HcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHH
Q psy17903        186 SRCS--KFRFKPLAE-NTMLTRLQYICEQ---ESVMCDFKALETLVE-TSGGDMRRAITCLQSCARLKGGEGIVNEDVLE  258 (355)
Q Consensus       186 sr~~--~i~~~~~~~-~~~~~~l~~~~~~---~~~~~~~~~~~~l~~-~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~  258 (355)
                      =|..  .|.++|+.+ .+....|.++.++   .+.++++++++.|.. .++||+|++.|.++.++..++++.|...|+..
T Consensus       473 yrL~~~~i~lP~lr~R~d~~~~l~~~~~~~~~~~~~l~~~~~~~l~~~~WPGNirel~~v~~~~~~l~~~g~~~~~dlp~  552 (606)
T COG3284         473 YRLNAFVITLPPLRERSDRIPLLDRILKRENDWRLQLDDDALARLLAYRWPGNIRELDNVIERLAALSDGGRIRVSDLPP  552 (606)
T ss_pred             HHhcCeeeccCchhcccccHHHHHHHHHHccCCCccCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCCCeeEcccCCH
Confidence            2222  566666654 2223333333333   457899999998765 56999999999999999999877776555433


Q ss_pred             HhC-----C---CChHHHHHHHhc--CCHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q psy17903        259 VTG-----V---IPNPWIEKLLKV--DSFQVLEKYIEDLILEAYSATQLFDQFHDI  304 (355)
Q Consensus       259 ~~~-----~---~~~~~~~~l~~~--~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~  304 (355)
                      .+-     .   ...+.+-+.+.+  ++...+.+.+      |++-.-++..+.+|
T Consensus       553 ~l~~~~~~~~~~~~~~~l~~al~~~~~~is~aa~~l------gi~R~T~yrklk~~  602 (606)
T COG3284         553 ELLEEQATPREDIEKAALLAALQATNGNISEAARLL------GISRSTLYRKLKRH  602 (606)
T ss_pred             HHHhhhcccccchHHHHHHHHHHHcCCCHHHHHHHh------CCCHHHHHHHHHHh
Confidence            221     1   111222222222  6666666554      78888888777664

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=99.34  E-value=3.1e-11  Score=112.15  Aligned_cols=187  Identities=18%  Similarity=0.195  Sum_probs=113.1

Q ss_pred             cccccHHHHHHHHHHHh-------c---CC--------CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         46 DVIEQQEVVSVLKKCLS-------G---AD--------LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~-------~---~~--------~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      .++||+++++.+...+.       .   ..        ..++||+||||+|||++|+++++.+.     .++..+++...
T Consensus        78 ~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~-----~pf~~~da~~L  152 (413)
T TIGR00382        78 YVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILN-----VPFAIADATTL  152 (413)
T ss_pred             eecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcC-----CCeEEechhhc
Confidence            36899999998876651       1   11        23599999999999999999998873     23444444332


Q ss_pred             cch----HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------------HHHHHHHHHhhhc-----
Q psy17903        108 RGI----QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTMEKE-----  164 (355)
Q Consensus       108 ~~~----~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------------~~~~~Ll~~le~~-----  164 (355)
                      ...    ......+........... ..    +...+|+|||+|.+.+              +.|+.|+++|+..     
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            110    111222222111110000 00    1234999999999976              5799999999631     


Q ss_pred             --------cCCccEEEEecCC--------------------------------c------------------cccccccC
Q psy17903        165 --------TKSTRFCLICNYV--------------------------------S------------------CIIQPLTS  186 (355)
Q Consensus       165 --------~~~~~~Il~~~~~--------------------------------~------------------~l~~~l~s  186 (355)
                              ..++++|+|+|-.                                .                  .+.|.+..
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                    1123445444420                                0                  03466677


Q ss_pred             Cee-eEEecCCCHHHHHHHHHHH----HH-------HcC--CCCCHHHHHHHHHHc---CCCHHHHHHHHHHH
Q psy17903        187 RCS-KFRFKPLAENTMLTRLQYI----CE-------QES--VMCDFKALETLVETS---GGDMRRAITCLQSC  242 (355)
Q Consensus       187 r~~-~i~~~~~~~~~~~~~l~~~----~~-------~~~--~~~~~~~~~~l~~~~---~g~~r~~~~~l~~~  242 (355)
                      |.. ++.|.+++.+++.+++...    .+       ..+  +.++++++++|++.+   .--.|.+...++..
T Consensus       308 Rld~Iv~f~pL~~~~L~~Il~~~~n~l~kq~~~~l~~~gi~L~~t~~a~~~Ia~~~~~~~~GAR~Lr~iie~~  380 (413)
T TIGR00382       308 RLPVIATLEKLDEEALIAILTKPKNALVKQYQALFKMDNVELDFEEEALKAIAKKALERKTGARGLRSIVEGL  380 (413)
T ss_pred             CCCeEeecCCCCHHHHHHHHHHHHHHHHHHHHHHhccCCeEEEECHHHHHHHHHhCCCCCCCchHHHHHHHHh
Confidence            775 6889999999999987652    22       123  457899999999874   22345555555543

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.

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=99.34  E-value=1.4e-10  Score=111.04  Aligned_cols=211  Identities=15%  Similarity=0.150  Sum_probs=132.8

Q ss_pred             cccccHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHh
Q psy17903         46 DVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQ  123 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~  123 (355)
                      .++|....+..+...+..-  ....++++|++|+||++++++++......  ..+++.++|.... ...+...+......
T Consensus       140 ~lig~s~~~~~~~~~i~~~~~~~~~vli~ge~g~gk~~~a~~ih~~s~~~--~~~~i~~~c~~~~-~~~~~~~lfg~~~~  216 (441)
T PRK10365        140 GMVGKSPAMQHLLSEIALVAPSEATVLIHGDSGTGKELVARAIHASSARS--EKPLVTLNCAALN-ESLLESELFGHEKG  216 (441)
T ss_pred             ceEecCHHHHHHHHHHhhccCCCCeEEEEecCCCCHHHHHHHHHHcCCCC--CCCeeeeeCCCCC-HHHHHHHhcCCCCC
Confidence            4666666555554444322  22339999999999999999999875432  3478899998643 23222222111110


Q ss_pred             hccCC--CCCC-CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCCc-------cccc
Q psy17903        124 TASGF--NQDG-KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYVS-------CIIQ  182 (355)
Q Consensus       124 ~~~~~--~~~~-~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~~-------~l~~  182 (355)
                      ...+.  ...| ...++.++|||||++.|+...|..|+.++++..           .++++|++++...       .+.+
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            00000  0001 011356699999999999999999999998643           2456787776431       1223


Q ss_pred             cccCCee--eEEecCCCH--HHHHHHHHHHHHH----cC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCCCC
Q psy17903        183 PLTSRCS--KFRFKPLAE--NTMLTRLQYICEQ----ES---VMCDFKALETLVETS-GGDMRRAITCLQSCARLKGGEG  250 (355)
Q Consensus       183 ~l~sr~~--~i~~~~~~~--~~~~~~l~~~~~~----~~---~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~~~~~  250 (355)
                      .+..+..  .+.++|+.+  +++..++...+.+    .+   ..+++++++.|..+. +||+|++.+.++.++..+.+..
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            3333333  455555553  3554444444332    23   358999999999876 9999999999999887777778


Q ss_pred             CCHHHHHHH
Q psy17903        251 IVNEDVLEV  259 (355)
Q Consensus       251 It~~~v~~~  259 (355)
                      |+.+++...
T Consensus       377 i~~~~l~~~  385 (441)
T PRK10365        377 ISERELPLA  385 (441)
T ss_pred             cchHhCchh
Confidence            998887643

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

Probab=99.33  E-value=4.7e-11  Score=104.93  Aligned_cols=215  Identities=14%  Similarity=0.075  Sum_probs=131.4

Q ss_pred             cccccHHH---HHHHHHHHh---cCCCCeEEEECCCCCCHHHHHHHHHHHhcC----CccccceeeecCCCccchHHHHH
Q psy17903         46 DVIEQQEV---VSVLKKCLS---GADLPHFLFYGPPGTGKTSTMIAACHQLFG----DMYRERILELNASDDRGIQVIRD  115 (355)
Q Consensus        46 ~~vg~~~~---~~~l~~~l~---~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~----~~~~~~~~~~~~~~~~~~~~i~~  115 (355)
                      ..||.+.+   ++.|.+.+.   ..+.|+++|+|++|.|||++++.+++....    +....+++.+.+....+...+..
T Consensus        35 rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~  114 (302)
T PF05621_consen   35 RWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYS  114 (302)
T ss_pred             CeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHH
Confidence            35565544   455555554   456778999999999999999999987643    11224566666655444444443


Q ss_pred             HHHHHHHhhccCCCCCCC---------CCCCcEEEEEeCCCCCCH---HHHHHHHHHhhhcc--CCccEEEEecCC----
Q psy17903        116 KVKTFAQQTASGFNQDGK---------PCPPFKIVILDEADSMTH---AAQAALRRTMEKET--KSTRFCLICNYV----  177 (355)
Q Consensus       116 ~i~~~~~~~~~~~~~~~~---------~~~~~~vliiDe~d~l~~---~~~~~Ll~~le~~~--~~~~~Il~~~~~----  177 (355)
                      .+-.....+.........         ..-+-|+|||||+|.+..   ..|..+++.|..-.  -.+.+|+++...    
T Consensus       115 ~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~a  194 (302)
T PF05621_consen  115 AILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRA  194 (302)
T ss_pred             HHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHH
Confidence            333322221111000000         001457999999999732   33444443333211  123344444321    


Q ss_pred             ccccccccCCeeeEEecCCCH-HHHHHHHHHHHHHcC----CCC-CHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---CC
Q psy17903        178 SCIIQPLTSRCSKFRFKPLAE-NTMLTRLQYICEQES----VMC-DFKALETLVETSGGDMRRAITCLQSCARLK---GG  248 (355)
Q Consensus       178 ~~l~~~l~sr~~~i~~~~~~~-~~~~~~l~~~~~~~~----~~~-~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~---~~  248 (355)
                      -.-++++.+|+..+.+++... ++....+...-....    -.+ +++....|...++|.++.+.+.+..++..+   |.
T Consensus       195 l~~D~QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~ll~~aA~~AI~sG~  274 (302)
T PF05621_consen  195 LRTDPQLASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRLLNAAAIAAIRSGE  274 (302)
T ss_pred             hccCHHHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHHHHHHHHHHHhcCC
Confidence            234688999999998888775 455555554433221    123 457778999999999999999999888776   67


Q ss_pred             CCCCHHHHHHHh
Q psy17903        249 EGIVNEDVLEVT  260 (355)
Q Consensus       249 ~~It~~~v~~~~  260 (355)
                      +.||.+.+..+-
T Consensus       275 E~It~~~l~~~~  286 (302)
T PF05621_consen  275 ERITREILDKID  286 (302)
T ss_pred             ceecHHHHhhCC
Confidence            889999988753

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

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.33  E-value=3.7e-11  Score=110.28  Aligned_cols=109  Identities=21%  Similarity=0.237  Sum_probs=79.1

Q ss_pred             CCcEEEEEeCCCCCCH------------HHHHHHHHHhhhcc----------CCccEEEEec----CCccccccccCCee
Q psy17903        136 PPFKIVILDEADSMTH------------AAQAALRRTMEKET----------KSTRFCLICN----YVSCIIQPLTSRCS  189 (355)
Q Consensus       136 ~~~~vliiDe~d~l~~------------~~~~~Ll~~le~~~----------~~~~~Il~~~----~~~~l~~~l~sr~~  189 (355)
                      ..+.||||||+|.+..            ..|+.|++++|-..          .+..||+++.    .+..++|.+.-|+.
T Consensus       246 e~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLkilEGt~v~~k~~~v~T~~ILFI~~GAF~~~kp~DlIPEl~GR~P  325 (441)
T TIGR00390       246 EQSGIIFIDEIDKIAKKGESSGADVSREGVQRDLLPIVEGSTVNTKYGMVKTDHILFIAAGAFQLAKPSDLIPELQGRFP  325 (441)
T ss_pred             HcCCEEEEEchhhhcccCCCCCCCCCccchhccccccccCceeeecceeEECCceeEEecCCcCCCChhhccHHHhCccc
Confidence            3667999999999853            36899999998521          3445555443    34558899999988


Q ss_pred             -eEEecCCCHHHHHHHHH-----------HHHHHcCC--CCCHHHHHHHHHHc--------CCCHHHHHHHHHHHHH
Q psy17903        190 -KFRFKPLAENTMLTRLQ-----------YICEQESV--MCDFKALETLVETS--------GGDMRRAITCLQSCAR  244 (355)
Q Consensus       190 -~i~~~~~~~~~~~~~l~-----------~~~~~~~~--~~~~~~~~~l~~~~--------~g~~r~~~~~l~~~~~  244 (355)
                       ++.+.+++.+++..+|.           ..++.+|+  .++++++..|++.+        +--.|.+...++++..
T Consensus       326 i~v~L~~L~~edL~rILteP~nsLikQy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~~~iGAR~LrtilE~~l~  402 (441)
T TIGR00390       326 IRVELQALTTDDFERILTEPKNSLIKQYKALMKTEGVNIEFSDEAIKRIAELAYNVNEKTENIGARRLHTVLERLLE  402 (441)
T ss_pred             eEEECCCCCHHHHHHHhcCChhHHHHHHHHHHhhcCcEEEEeHHHHHHHHHHHHHhcccccccchhhHHHHHHHHHH
Confidence             78999999999998872           22334554  56899999998875        3456777777776643

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.

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=99.33  E-value=4.5e-11  Score=116.91  Aligned_cols=126  Identities=16%  Similarity=0.236  Sum_probs=85.9

Q ss_pred             CCcEEEEEeCCCCCCHHHHHHHHHHhhhcc---------------------CCccEEEEecCC--ccccccccCCee---
Q psy17903        136 PPFKIVILDEADSMTHAAQAALRRTMEKET---------------------KSTRFCLICNYV--SCIIQPLTSRCS---  189 (355)
Q Consensus       136 ~~~~vliiDe~d~l~~~~~~~Ll~~le~~~---------------------~~~~~Il~~~~~--~~l~~~l~sr~~---  189 (355)
                      +++.+|||||++.|++..|..|++.|++..                     .++++|++++..  ..+.+.+.+|+.   
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            567899999999999999999999986432                     245788888764  345677888874   


Q ss_pred             -eEEecCC---CHHHHHHHHHHHHHH---c--CCCCCHHHHHHHHHHc---CCC-------HHHHHHHHHHHHHhh---C
Q psy17903        190 -KFRFKPL---AENTMLTRLQYICEQ---E--SVMCDFKALETLVETS---GGD-------MRRAITCLQSCARLK---G  247 (355)
Q Consensus       190 -~i~~~~~---~~~~~~~~l~~~~~~---~--~~~~~~~~~~~l~~~~---~g~-------~r~~~~~l~~~~~~~---~  247 (355)
                       .+.|..-   +.+....+++.+++.   .  -..++++++..|++.+   .|+       .|.+.+.++.+...+   +
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             3555532   345555565555443   2  2368999999988754   233       666666666655444   4


Q ss_pred             CCCCCHHHHHHHhC
Q psy17903        248 GEGIVNEDVLEVTG  261 (355)
Q Consensus       248 ~~~It~~~v~~~~~  261 (355)
                      ...++.+++.++..
T Consensus       385 ~~~i~~~~v~~a~~  398 (637)
T PRK13765        385 AELTTAEHVLEAKK  398 (637)
T ss_pred             cceecHHHHHHHHH
Confidence            55688888877653

>PF06144 DNA_pol3_delta: DNA polymerase III, delta subunit; InterPro: IPR010372 DNA polymerase III, delta subunit (2

Probab=99.30  E-value=1.5e-11  Score=102.17  Aligned_cols=163  Identities=15%  Similarity=0.207  Sum_probs=112.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC-CccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCC-
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA-  146 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~-~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~-  146 (355)
                      |+|||+.-.-+...++.+.+.+.. +....++..+++.+..    ..+.+......+..         +++++|+|.++ 
T Consensus         1 Yll~G~d~~l~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~----~~~l~~~~~s~slF---------~~~klvii~~~~   67 (172)
T PF06144_consen    1 YLLYGEDSFLIEEYIKKIRKALIKKDFDDFNVIVFDGSEDD----IDELLEELQSPSLF---------GDKKLVIIKNAP   67 (172)
T ss_dssp             EEEEES-HHHHHHHHHHHHHHHHTTTEEEEEEEE-STTS-H----HH-HTTTSTTTTSS---------SSEEEEEEE---
T ss_pred             CEEEeCcHHHHHHHHHHHHHHhhcCCCccceEEEEccccCc----HHHHHHHHhcCCcc---------CCCeEEEEecCc
Confidence            689999977777777777777433 3444566666665531    11122222222222         26789999999 


Q ss_pred             ---CCCCHHHHHHHHHHhhhccCCccEEEEec-CCc---cccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHH
Q psy17903        147 ---DSMTHAAQAALRRTMEKETKSTRFCLICN-YVS---CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFK  219 (355)
Q Consensus       147 ---d~l~~~~~~~Ll~~le~~~~~~~~Il~~~-~~~---~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~  219 (355)
                         +....+....|..++++++.++++|+.++ ..+   ++.+.+.+.+..+.|.+++..++..|++..+++.|+.++++
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               45666778899999999999998888887 333   46788888999999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        220 ALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       220 ~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                      +++.|+...++|++.+.+++++++.
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.

>KOG0744|consensus

Probab=99.30  E-value=6e-11  Score=103.46  Aligned_cols=156  Identities=20%  Similarity=0.294  Sum_probs=104.1

Q ss_pred             CCcccccHHHHHHHHHHHh-------cCCCC-----e--EEEECCCCCCHHHHHHHHHHHhc----CCccccceeeecCC
Q psy17903         44 IDDVIEQQEVVSVLKKCLS-------GADLP-----H--FLFYGPPGTGKTSTMIAACHQLF----GDMYRERILELNAS  105 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~-------~~~~~-----~--~ll~Gp~G~GKt~la~~l~~~l~----~~~~~~~~~~~~~~  105 (355)
                      |+.++.....++++..++.       .+-.+     +  +|++||||+|||++++++|+.+.    ...+...++++|+.
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            5556666677777766542       11111     1  99999999999999999999984    24455678898875


Q ss_pred             Ccc---------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH---------------HHHHHHHHHh
Q psy17903        106 DDR---------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH---------------AAQAALRRTM  161 (355)
Q Consensus       106 ~~~---------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~---------------~~~~~Ll~~l  161 (355)
                      ...         .+..+.+.+.++.....           ..-.|+|||++.+..               ...|+|+.-|
T Consensus       221 sLFSKWFsESgKlV~kmF~kI~ELv~d~~-----------~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQl  289 (423)
T KOG0744|consen  221 SLFSKWFSESGKLVAKMFQKIQELVEDRG-----------NLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQL  289 (423)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHHhCCC-----------cEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHH
Confidence            421         12344455555443321           334789999998843               2357777777


Q ss_pred             hhcc--CCccEEEEecCCccccccccCCee-eEEecCCCHHHHHHHHHHHHH
Q psy17903        162 EKET--KSTRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICE  210 (355)
Q Consensus       162 e~~~--~~~~~Il~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~  210 (355)
                      ++..  +++.++.++|-.+.++.++..|.. +..+.+|+...+..+++.-..
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            6532  344444444556789999999988 567799999999999887655

>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=99.28  E-value=4.8e-11  Score=98.05  Aligned_cols=128  Identities=17%  Similarity=0.155  Sum_probs=77.9

Q ss_pred             ccccHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhh
Q psy17903         47 VIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQT  124 (355)
Q Consensus        47 ~vg~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~  124 (355)
                      ++|.+..+..+.+.++.-  ...+++|+|++||||+.+|+++++....  .+.+++.+||+.. ..+.+...+.......
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s~r--~~~pfi~vnc~~~-~~~~~e~~LFG~~~~~   77 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNSPR--KNGPFISVNCAAL-PEELLESELFGHEKGA   77 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCSTT--TTS-EEEEETTTS--HHHHHHHHHEBCSSS
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhhhc--ccCCeEEEehhhh-hcchhhhhhhcccccc
Confidence            578888887777776542  2234999999999999999999985432  3458999999874 2222222111110000


Q ss_pred             ccCCCC--CC-CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc-----------cCCccEEEEecCC
Q psy17903        125 ASGFNQ--DG-KPCPPFKIVILDEADSMTHAAQAALRRTMEKE-----------TKSTRFCLICNYV  177 (355)
Q Consensus       125 ~~~~~~--~~-~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~-----------~~~~~~Il~~~~~  177 (355)
                      ..+...  .| -..+++++|||||++.|+++.|..|+++|++.           +.++++|++|+..
T Consensus        78 ~~~~~~~~~G~l~~A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~~~  144 (168)
T PF00158_consen   78 FTGARSDKKGLLEQANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTSKD  144 (168)
T ss_dssp             STTTSSEBEHHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEESS-
T ss_pred             ccccccccCCceeeccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecCcC
Confidence            000000  00 00045679999999999999999999999863           2367888888743

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 ....

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=99.28  E-value=8e-11  Score=108.12  Aligned_cols=108  Identities=22%  Similarity=0.236  Sum_probs=78.3

Q ss_pred             CcEEEEEeCCCCCCH------------HHHHHHHHHhhhcc----------CCccEEEEec----CCccccccccCCee-
Q psy17903        137 PFKIVILDEADSMTH------------AAQAALRRTMEKET----------KSTRFCLICN----YVSCIIQPLTSRCS-  189 (355)
Q Consensus       137 ~~~vliiDe~d~l~~------------~~~~~Ll~~le~~~----------~~~~~Il~~~----~~~~l~~~l~sr~~-  189 (355)
                      ..+||||||+|.+..            ..|+.|++++|...          .+..||+++.    .+..++|.+.-|+. 
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            36899999998521          3344554442    34558899999988 


Q ss_pred             eEEecCCCHHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHc--------CCCHHHHHHHHHHHHH
Q psy17903        190 KFRFKPLAENTMLTRLQY-----------ICEQESV--MCDFKALETLVETS--------GGDMRRAITCLQSCAR  244 (355)
Q Consensus       190 ~i~~~~~~~~~~~~~l~~-----------~~~~~~~--~~~~~~~~~l~~~~--------~g~~r~~~~~l~~~~~  244 (355)
                      ++.+.+++.+++.++|..           .++.+|+  .+++++++.|++.+        +--.|.+...++++..
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            789999999999888732           2334555  57899999998875        3346777777776643

>KOG0651|consensus

Probab=99.26  E-value=4.4e-11  Score=103.72  Aligned_cols=170  Identities=22%  Similarity=0.280  Sum_probs=108.7

Q ss_pred             CCCcccccHHHHHHHHHHHhc-----------C-CCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc--
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSG-----------A-DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD--  107 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~-----------~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--  107 (355)
                      +|+.+.|...++..+.+.+.-           | .+|. ++||||||+|||.+|++++..+..     +++...++..  
T Consensus       130 s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~-----nfl~v~ss~lv~  204 (388)
T KOG0651|consen  130 SFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGV-----NFLKVVSSALVD  204 (388)
T ss_pred             CHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCC-----ceEEeeHhhhhh
Confidence            889999999999988887631           2 2333 999999999999999999999844     4444333321  


Q ss_pred             ----cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHhhhc-----cCC
Q psy17903        108 ----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEKE-----TKS  167 (355)
Q Consensus       108 ----~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~le~~-----~~~  167 (355)
                          .+...|++.+.......         +|    ++|+||+|....           ..|..|.+++.+.     -..
T Consensus       205 kyiGEsaRlIRemf~yA~~~~---------pc----iifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~r  271 (388)
T KOG0651|consen  205 KYIGESARLIRDMFRYAREVI---------PC----IIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLHR  271 (388)
T ss_pred             hhcccHHHHHHHHHHHHhhhC---------ce----EEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhccc
Confidence                12234555544444332         23    999999997732           3355566665432     246


Q ss_pred             ccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHcCC
Q psy17903        168 TRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQE--SVMCDFKALETLVETSGG  230 (355)
Q Consensus       168 ~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~~~l~~~~~g  230 (355)
                      +.+|+++|+++.++|+|.+.++   .++.+-|++.....+++-....-  --.++.+++-.+++..+|
T Consensus       272 Vk~ImatNrpdtLdpaLlRpGRldrk~~iPlpne~~r~~I~Kih~~~i~~~Geid~eaivK~~d~f~g  339 (388)
T KOG0651|consen  272 VKTIMATNRPDTLDPALLRPGRLDRKVEIPLPNEQARLGILKIHVQPIDFHGEIDDEAILKLVDGFNG  339 (388)
T ss_pred             ccEEEecCCccccchhhcCCccccceeccCCcchhhceeeEeeccccccccccccHHHHHHHHhccCh
Confidence            7899999999999999988776   46666555544444433222211  113555555555554443

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=99.26  E-value=1.4e-10  Score=106.51  Aligned_cols=154  Identities=19%  Similarity=0.130  Sum_probs=99.4

Q ss_pred             cccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHH---
Q psy17903         46 DVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQ---  122 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~---  122 (355)
                      .++|+++++..+...+..+.  |++|.||||+|||++|+.+++.+.     .+++.+.+.......++.........   
T Consensus        25 ~~~g~~~~~~~~l~a~~~~~--~vll~G~PG~gKT~la~~lA~~l~-----~~~~~i~~t~~l~p~d~~G~~~~~~~~~~   97 (329)
T COG0714          25 VVVGDEEVIELALLALLAGG--HVLLEGPPGVGKTLLARALARALG-----LPFVRIQCTPDLLPSDLLGTYAYAALLLE   97 (329)
T ss_pred             eeeccHHHHHHHHHHHHcCC--CEEEECCCCccHHHHHHHHHHHhC-----CCeEEEecCCCCCHHHhcCchhHhhhhcc
Confidence            48888888888777776654  799999999999999999999994     46677777654444333222111111   


Q ss_pred             hhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc------------CCccEEEEec-----CCcccccccc
Q psy17903        123 QTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET------------KSTRFCLICN-----YVSCIIQPLT  185 (355)
Q Consensus       123 ~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~------------~~~~~Il~~~-----~~~~l~~~l~  185 (355)
                      ..........-..+-+.++++||+++..+..++.|+..|++..            ....+|.+.|     ....+.+++.
T Consensus        98 ~~~~~~~~gpl~~~~~~ill~DEInra~p~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~viaT~Np~e~~g~~~l~eA~l  177 (329)
T COG0714          98 PGEFRFVPGPLFAAVRVILLLDEINRAPPEVQNALLEALEERQVTVPGLTTIRLPPPFIVIATQNPGEYEGTYPLPEALL  177 (329)
T ss_pred             CCeEEEecCCcccccceEEEEeccccCCHHHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEEccCccccCCCcCCCHHHH
Confidence            1111000000000111499999999999999999999998721            2233444446     2345789999


Q ss_pred             CCe-eeEEecCCCHHHHHHHHH
Q psy17903        186 SRC-SKFRFKPLAENTMLTRLQ  206 (355)
Q Consensus       186 sr~-~~i~~~~~~~~~~~~~l~  206 (355)
                      .|| ..+.+..|..++...++.
T Consensus       178 dRf~~~~~v~yp~~~~e~~~i~  199 (329)
T COG0714         178 DRFLLRIYVDYPDSEEEERIIL  199 (329)
T ss_pred             hhEEEEEecCCCCchHHHHHHH
Confidence            999 678888884444444333

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

Probab=99.26  E-value=3.5e-12  Score=102.08  Aligned_cols=116  Identities=21%  Similarity=0.199  Sum_probs=72.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEAD  147 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d  147 (355)
                      +++|+||||||||++++.+++.+     +.++..+++......+.+.................-.....+..+++|||++
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~-----~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin   75 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALL-----GRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEIN   75 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH-----TCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCG
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh-----hcceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCcc
Confidence            48999999999999999999998     3455666666554444433211110000000000000000145799999999


Q ss_pred             CCCHHHHHHHHHHhhhcc-------------C------CccEEEEecCCc----cccccccCCe
Q psy17903        148 SMTHAAQAALRRTMEKET-------------K------STRFCLICNYVS----CIIQPLTSRC  188 (355)
Q Consensus       148 ~l~~~~~~~Ll~~le~~~-------------~------~~~~Il~~~~~~----~l~~~l~sr~  188 (355)
                      ...++.++.|+.++++..             .      +.++|+++|...    .+.+++++||
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            999999999999987521             1      278888888776    6888999886

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=99.22  E-value=1.1e-10  Score=114.62  Aligned_cols=199  Identities=20%  Similarity=0.195  Sum_probs=143.4

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccc-----cceeeecCCCc
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYR-----ERILELNASDD  107 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~-----~~~~~~~~~~~  107 (355)
                      .-+++.-|-..++.++|+++.++++.+.+......+-++.|+||+|||.++.-+|..+..+..+     ..++.++....
T Consensus       158 ~dlt~~Ar~gklDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~L  237 (786)
T COG0542         158 RDLTELAREGKLDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSL  237 (786)
T ss_pred             hhhHHHHhcCCCCCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHH
Confidence            4455566677899999999999999999988777778999999999999999999998653322     23445544321


Q ss_pred             ------cc--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC---------HHHHHHHHHHhhhccCCccE
Q psy17903        108 ------RG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT---------HAAQAALRRTMEKETKSTRF  170 (355)
Q Consensus       108 ------~~--~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~---------~~~~~~Ll~~le~~~~~~~~  170 (355)
                            .+  .+.+...+......             +.-|+||||+|.+-         .++.|.|...|.++  ...+
T Consensus       238 vAGakyRGeFEeRlk~vl~ev~~~-------------~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARG--eL~~  302 (786)
T COG0542         238 VAGAKYRGEFEERLKAVLKEVEKS-------------KNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARG--ELRC  302 (786)
T ss_pred             hccccccCcHHHHHHHHHHHHhcC-------------CCeEEEEechhhhcCCCcccccccchhhhhHHHHhcC--CeEE
Confidence                  11  12333333333322             23499999999883         23556677777644  4566


Q ss_pred             EEEecC--Cc---cccccccCCeeeEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCCC------HHHH
Q psy17903        171 CLICNY--VS---CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGGD------MRRA  235 (355)
Q Consensus       171 Il~~~~--~~---~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~g~------~r~~  235 (355)
                      |.+|+-  ..   .-+++|.+|++.|.+..|+.++...+|+....+    .++.++++++.+.+..+...      +.++
T Consensus       303 IGATT~~EYRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk~~yE~hH~V~i~D~Al~aAv~LS~RYI~dR~LPDKA  382 (786)
T COG0542         303 IGATTLDEYRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGLKERYEAHHGVRITDEALVAAVTLSDRYIPDRFLPDKA  382 (786)
T ss_pred             EEeccHHHHHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHHHHHHHccCceecHHHHHHHHHHHHhhcccCCCCchH
Confidence            777752  11   246899999999999999999999999877654    68899999999988877543      4678


Q ss_pred             HHHHHHHHHhh
Q psy17903        236 ITCLQSCARLK  246 (355)
Q Consensus       236 ~~~l~~~~~~~  246 (355)
                      +..++.++...
T Consensus       383 IDLiDeA~a~~  393 (786)
T COG0542         383 IDLLDEAGARV  393 (786)
T ss_pred             HHHHHHHHHHH
Confidence            88888776543

>PHA02244 ATPase-like protein

Probab=99.22  E-value=2.5e-10  Score=103.36  Aligned_cols=129  Identities=15%  Similarity=0.116  Sum_probs=84.3

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHH---HHHHhhccCCCCC
Q psy17903         55 SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVK---TFAQQTASGFNQD  131 (355)
Q Consensus        55 ~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~---~~~~~~~~~~~~~  131 (355)
                      ..+.+++..+.  +++|+||+|||||++|+++++.+..     +++.++....  ...+...+.   .+...+...    
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            34555665543  5899999999999999999999743     4455542110  000000000   000000000    


Q ss_pred             CCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhh-----------ccCCccEEEEecCC-----------ccccccccCCee
Q psy17903        132 GKPCPPFKIVILDEADSMTHAAQAALRRTMEK-----------ETKSTRFCLICNYV-----------SCIIQPLTSRCS  189 (355)
Q Consensus       132 ~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~-----------~~~~~~~Il~~~~~-----------~~l~~~l~sr~~  189 (355)
                        ...++.+++|||++.+.++.+..|...++.           .+.++++|+++|..           ..+.+++.+|+.
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              001345999999999999999999998863           24678899999862           346789999999


Q ss_pred             eEEecCCCH
Q psy17903        190 KFRFKPLAE  198 (355)
Q Consensus       190 ~i~~~~~~~  198 (355)
                      .++|..|+.
T Consensus       255 ~I~~dyp~~  263 (383)
T PHA02244        255 PIEFDYDEK  263 (383)
T ss_pred             EeeCCCCcH
Confidence            999988874

>TIGR00368 Mg chelatase-related protein

Probab=99.22  E-value=6e-10  Score=106.60  Aligned_cols=216  Identities=19%  Similarity=0.182  Sum_probs=124.6

Q ss_pred             CCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc-ch----HHHHH-
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR-GI----QVIRD-  115 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-~~----~~i~~-  115 (355)
                      .+|+++.|+..+++.+...+..+  .+++|.||+|+|||++++.++..+..... ...++....... +.    ..+.. 
T Consensus       189 ~d~~dv~Gq~~~~~al~~aa~~g--~~vlliG~pGsGKTtlar~l~~llp~~~~-~~~le~~~i~s~~g~~~~~~~~~~~  265 (499)
T TIGR00368       189 LDLKDIKGQQHAKRALEIAAAGG--HNLLLFGPPGSGKTMLASRLQGILPPLTN-EEAIETARIWSLVGKLIDRKQIKQR  265 (499)
T ss_pred             CCHHHhcCcHHHHhhhhhhccCC--CEEEEEecCCCCHHHHHHHHhcccCCCCC-cEEEeccccccchhhhccccccccC
Confidence            37999999999998888887655  36999999999999999999886532111 111221111000 00    00000 


Q ss_pred             -------HH--HHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-------------CCccEEEE
Q psy17903        116 -------KV--KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-------------KSTRFCLI  173 (355)
Q Consensus       116 -------~i--~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-------------~~~~~Il~  173 (355)
                             ..  ......+ .......-..+++.++||||++.+.+..++.|+..||+..             .++.+|.+
T Consensus       266 Pf~~p~~s~s~~~~~ggg-~~~~pG~i~lA~~GvLfLDEi~e~~~~~~~~L~~~LE~~~v~i~r~g~~~~~pa~frlIaa  344 (499)
T TIGR00368       266 PFRSPHHSASKPALVGGG-PIPLPGEISLAHNGVLFLDELPEFKRSVLDALREPIEDGSISISRASAKIFYPARFQLVAA  344 (499)
T ss_pred             CccccccccchhhhhCCc-cccchhhhhccCCCeEecCChhhCCHHHHHHHHHHHHcCcEEEEecCcceeccCCeEEEEe
Confidence                   00  0000000 0000000011456799999999999999999999998642             46778888


Q ss_pred             ecCC------c-----------------cccccccCCee-eEEecCCCHHHH------------HHHHHHH-HHH----c
Q psy17903        174 CNYV------S-----------------CIIQPLTSRCS-KFRFKPLAENTM------------LTRLQYI-CEQ----E  212 (355)
Q Consensus       174 ~~~~------~-----------------~l~~~l~sr~~-~i~~~~~~~~~~------------~~~l~~~-~~~----~  212 (355)
                      +|..      .                 ++..+|.+|+. .+.+++++.+++            .+.+... ..+    .
T Consensus       345 ~Npcpcg~~~~~~~~c~c~~~~~~~y~~~is~pllDR~dl~~~~~~~~~~~l~~~~~~e~s~~ir~rV~~Ar~~q~~R~~  424 (499)
T TIGR00368       345 MNPCPCGHYGGKNTHCRCSPQQISRYWNKLSGPFLDRIDLSVEVPLLPPEKLLSTGSGESSAEVKQRVIKAREIQNIRYE  424 (499)
T ss_pred             cCCcccCcCCCCcccccCCHHHHHHHhhhccHhHHhhCCEEEEEcCCCHHHHhccCCCCCHHHHHHHHHHHHHHHHHHhc
Confidence            8742      1                 46677888887 567777655443            2333211 111    0


Q ss_pred             C------------------CCCCHHHHHHHH---HHcCCCHHHHHHHHHH---HHHhhCCCCCCHHHHHHHhC
Q psy17903        213 S------------------VMCDFKALETLV---ETSGGDMRRAITCLQS---CARLKGGEGIVNEDVLEVTG  261 (355)
Q Consensus       213 ~------------------~~~~~~~~~~l~---~~~~g~~r~~~~~l~~---~~~~~~~~~It~~~v~~~~~  261 (355)
                      +                  ..+++++.+.+.   ...+-+.|.....|.-   ++.+.+...|+.++|.+++.
T Consensus       425 ~~~~~~~N~~l~~~~l~~~~~l~~~~~~~l~~a~~~~~lS~R~~~rilrvArTiAdL~g~~~i~~~hv~eA~~  497 (499)
T TIGR00368       425 KFANINKNADLNSDEIEQFCKLSAIDANDLEGALNKLGLSSRATHRILKVARTIADLKEEKNISREHLAEAIE  497 (499)
T ss_pred             CCCCCcccccCCHHHHHhhcCCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHh
Confidence            1                  123444444433   3334455655555544   44444778899999988763

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>smart00350 MCM minichromosome maintenance proteins

Probab=99.22  E-value=1.3e-09  Score=105.44  Aligned_cols=153  Identities=17%  Similarity=0.186  Sum_probs=90.1

Q ss_pred             cccccHHHHHHHHHHHhcCCC------------CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccch--H
Q psy17903         46 DVIEQQEVVSVLKKCLSGADL------------PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI--Q  111 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~~~~------------~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~--~  111 (355)
                      .+.|++.++..+.-.+-+|..            .|+||+|+||+|||++|+.+++......    +......+..+.  .
T Consensus       204 ~i~G~~~~k~~l~l~l~gg~~~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~~----~~~~~~~~~~~l~~~  279 (509)
T smart00350      204 SIYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPRAV----YTTGKGSSAVGLTAA  279 (509)
T ss_pred             cccCcHHHHHHHHHHHhCCCccccCCCccccccceEEEeCCCChhHHHHHHHHHHHcCcce----EcCCCCCCcCCcccc
Confidence            456777776666655544421            2699999999999999999999764321    111111110000  0


Q ss_pred             HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-------------CCccEEEEecCCc
Q psy17903        112 VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-------------KSTRFCLICNYVS  178 (355)
Q Consensus       112 ~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-------------~~~~~Il~~~~~~  178 (355)
                      .+++.   .  .+......+.-..++.++++|||++.+.+..|..|++.||+..             ..+.+|.++|...
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--TREFTLEGGALVLADNGVCCIDEFDKMDDSDRTAIHEAMEQQTISIAKAGITTTLNARCSVLAAANPIG  354 (509)
T ss_pred             ceEcc---C--cceEEecCccEEecCCCEEEEechhhCCHHHHHHHHHHHhcCEEEEEeCCEEEEecCCcEEEEEeCCCC
Confidence            01100   0  0000000000011355699999999999999999999998642             4567787787531


Q ss_pred             -------------cccccccCCee-e-EEecCCCHHHHHHHHHH
Q psy17903        179 -------------CIIQPLTSRCS-K-FRFKPLAENTMLTRLQY  207 (355)
Q Consensus       179 -------------~l~~~l~sr~~-~-i~~~~~~~~~~~~~l~~  207 (355)
                                   .+.+++.+|+. . +-...++.+.-..++.+
T Consensus       355 g~y~~~~~~~~n~~l~~~lLsRFdLi~~~~d~~~~~~d~~i~~~  398 (509)
T smart00350      355 GRYDPKLTPEENIDLPAPILSRFDLLFVVLDEVDEERDRELAKH  398 (509)
T ss_pred             cccCCCcChhhccCCChHHhCceeeEEEecCCCChHHHHHHHHH
Confidence                         46788999995 2 33455665554454444

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=99.20  E-value=8.8e-10  Score=108.09  Aligned_cols=194  Identities=14%  Similarity=0.099  Sum_probs=117.5

Q ss_pred             cCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHH--HHHHhhccCCCCCCCCCCCcEE
Q psy17903         63 GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVK--TFAQQTASGFNQDGKPCPPFKI  140 (355)
Q Consensus        63 ~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~--~~~~~~~~~~~~~~~~~~~~~v  140 (355)
                      +....|+||.|++|+|||++|+++++.+...   .+++.+....  ..+.+...+.  .....+.......--..+++.+
T Consensus        13 ~p~~g~vLl~G~~GtgKs~lar~l~~~~~~~---~pfv~i~~~~--t~d~L~G~idl~~~~~~g~~~~~~G~L~~A~~Gv   87 (589)
T TIGR02031        13 DPSLGGVAIRARAGTGKTALARALAEILPPI---MPFVELPLGV--TEDRLIGGIDVEESLAGGQRVTQPGLLDEAPRGV   87 (589)
T ss_pred             CCCcceEEEEcCCCcHHHHHHHHHHHhCCcC---CCeEecCccc--chhhcccchhhhhhhhcCcccCCCCCeeeCCCCc
Confidence            3345679999999999999999999987442   1345444311  1111111110  0000010000000001135569


Q ss_pred             EEEeCCCCCCHHHHHHHHHHhhhcc-------------CCccEEEEecCCc---cccccccCCee-eEEec-CCCHHHHH
Q psy17903        141 VILDEADSMTHAAQAALRRTMEKET-------------KSTRFCLICNYVS---CIIQPLTSRCS-KFRFK-PLAENTML  202 (355)
Q Consensus       141 liiDe~d~l~~~~~~~Ll~~le~~~-------------~~~~~Il~~~~~~---~l~~~l~sr~~-~i~~~-~~~~~~~~  202 (355)
                      |+|||++.+++..|+.|+..|++..             ..+.+|.++|...   .+.+++..|+. .+.+. .++.++..
T Consensus        88 L~lDEi~rl~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g~L~~~LldRf~l~v~~~~~~~~~er~  167 (589)
T TIGR02031        88 LYVDMANLLDDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGGGLPDHLLDRLALHVSLEDVASQDLRV  167 (589)
T ss_pred             EeccchhhCCHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccCCCCHHHHHhccCeeecCCCCCHHHHH
Confidence            9999999999999999999998653             3456676666543   57788888877 34443 33445444


Q ss_pred             HHHHHHH---------------------H--HcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHH---HHHhhCCCCCC
Q psy17903        203 TRLQYIC---------------------E--QESVMCDFKALETLVETS---GG-DMRRAITCLQS---CARLKGGEGIV  252 (355)
Q Consensus       203 ~~l~~~~---------------------~--~~~~~~~~~~~~~l~~~~---~g-~~r~~~~~l~~---~~~~~~~~~It  252 (355)
                      ++++...                     +  ...+.++++.++++++.+   +- .+|..+..++.   .+.+.+...++
T Consensus       168 eil~~~~~~~~~~~~~~~~~~~~~i~~ar~~~~~V~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal~gr~~V~  247 (589)
T TIGR02031       168 EIVRRERCNEVFRMNDELELLRGQIEAARELLPQVTISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAALHGRTEVT  247 (589)
T ss_pred             HHHHHHHHhhhhhcchhhHHHHHHHHHHHHhcCCccCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhCCCCCC
Confidence            5444422                     1  135678999888888765   22 36666655543   34444788999


Q ss_pred             HHHHHHHhC
Q psy17903        253 NEDVLEVTG  261 (355)
Q Consensus       253 ~~~v~~~~~  261 (355)
                      .+|+..++.
T Consensus       248 ~~Dv~~a~~  256 (589)
T TIGR02031       248 EEDLKLAVE  256 (589)
T ss_pred             HHHHHHHHH
Confidence            999998763

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.

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=99.20  E-value=7.5e-11  Score=98.47  Aligned_cols=128  Identities=22%  Similarity=0.231  Sum_probs=73.2

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC----------------
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD----------------  106 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~----------------  106 (355)
                      +|.+++||+.++..+.-+..++  .|+|++||||+|||++|+++..-+..-. .....++....                
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--HHLLLIGPPGTGKTMLARRLPSLLPPLT-EEEALEVSKIYSVAGLGPDEGLIRQRP   77 (206)
T ss_dssp             -TCCSSSTHHHHHHHHHHHHCC----EEEES-CCCTHHHHHHHHHHCS--CC-EECCESS--S-TT---S---EEEE---
T ss_pred             ChhhhcCcHHHHHHHHHHHcCC--CCeEEECCCCCCHHHHHHHHHHhCCCCc-hHHHhhhccccccccCCCCCceecCCC
Confidence            4889999999999999888865  4799999999999999999997653210 00111111000                


Q ss_pred             ccch-HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc-------------cCCccEEE
Q psy17903        107 DRGI-QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-------------TKSTRFCL  172 (355)
Q Consensus       107 ~~~~-~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~-------------~~~~~~Il  172 (355)
                      .... ..+  ....+..... ...+..-..+.+.|+|+||+..+.+...+.|+..|++.             +.+..+|.
T Consensus        78 fr~phhs~--s~~~liGgg~-~~~PGeislAh~GVLflDE~~ef~~~vld~Lr~ple~g~v~i~R~~~~~~~Pa~f~lv~  154 (206)
T PF01078_consen   78 FRAPHHSA--SEAALIGGGR-PPRPGEISLAHRGVLFLDELNEFDRSVLDALRQPLEDGEVTISRAGGSVTYPARFLLVA  154 (206)
T ss_dssp             EEEE-TT----HHHHHEEGG-GEEE-CGGGGTTSEEEECETTTS-HHHHHHHHHHHHHSBEEEEETTEEEEEB--EEEEE
T ss_pred             cccCCCCc--CHHHHhCCCc-CCCcCHHHHhcCCEEEechhhhcCHHHHHHHHHHHHCCeEEEEECCceEEEecccEEEE
Confidence            0000 000  0011111110 00000001146679999999999999999999999864             44566777


Q ss_pred             EecC
Q psy17903        173 ICNY  176 (355)
Q Consensus       173 ~~~~  176 (355)
                      +.|.
T Consensus       155 a~NP  158 (206)
T PF01078_consen  155 AMNP  158 (206)
T ss_dssp             EE-S
T ss_pred             Eecc
Confidence            7764

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.

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

Probab=99.16  E-value=8.5e-10  Score=102.57  Aligned_cols=150  Identities=18%  Similarity=0.240  Sum_probs=95.8

Q ss_pred             CCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCcc--ccceeeecCCC------------ccc
Q psy17903         44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY--RERILELNASD------------DRG  109 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~--~~~~~~~~~~~------------~~~  109 (355)
                      ++++++.+..++.+...+..+  .+++|+||||+|||++|+.++..+.++..  ....+.+...-            ..+
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            667888888898888888754  47999999999999999999999865321  12222222111            000


Q ss_pred             h----HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHH-HHHHHHHhhh---------------------
Q psy17903        110 I----QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA-QAALRRTMEK---------------------  163 (355)
Q Consensus       110 ~----~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~-~~~Ll~~le~---------------------  163 (355)
                      .    ..+.+.+......+       .    ...+|||||+++...+. ...++.+||.                     
T Consensus       252 y~~~~G~f~~~~~~A~~~p-------~----~~~vliIDEINRani~kiFGel~~lLE~~~rg~~~~v~l~y~e~d~e~f  320 (459)
T PRK11331        252 FRRKDGIFYNFCQQAKEQP-------E----KKYVFIIDEINRANLSKVFGEVMMLMEHDKRGENWSVPLTYSENDEERF  320 (459)
T ss_pred             eEecCchHHHHHHHHHhcc-------c----CCcEEEEehhhccCHHHhhhhhhhhccccccccccceeeeccccccccc
Confidence            0    01111111111110       1    23599999999998654 5566666652                     


Q ss_pred             -ccCCccEEEEecCCc----cccccccCCeeeEEecC-CCHHHHHHHHH
Q psy17903        164 -ETKSTRFCLICNYVS----CIIQPLTSRCSKFRFKP-LAENTMLTRLQ  206 (355)
Q Consensus       164 -~~~~~~~Il~~~~~~----~l~~~l~sr~~~i~~~~-~~~~~~~~~l~  206 (355)
                       .+.++.+|.|.|..+    .+..++++|+..+++.| ++...+.+++.
T Consensus       321 ~iP~Nl~IIgTMNt~Drs~~~lD~AlrRRF~fi~i~p~~~~~~~~~~l~  369 (459)
T PRK11331        321 YVPENVYIIGLMNTADRSLAVVDYALRRRFSFIDIEPGFDTPQFRNFLL  369 (459)
T ss_pred             cCCCCeEEEEecCccccchhhccHHHHhhhheEEecCCCChHHHHHHHH
Confidence             235677888888665    47889999999998877 45555666654

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=99.15  E-value=6.1e-11  Score=97.76  Aligned_cols=103  Identities=24%  Similarity=0.355  Sum_probs=69.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc-CCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF-GDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA  146 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~  146 (355)
                      +++|.||+|||||.+|+++++.+. +..  .+++.+|++.....+.....+......+.....     ..+..||++||+
T Consensus         5 ~~ll~GpsGvGKT~la~~la~~l~~~~~--~~~~~~d~s~~~~~~~~~~~~~~l~~~~~~~v~-----~~~~gVVllDEi   77 (171)
T PF07724_consen    5 NFLLAGPSGVGKTELAKALAELLFVGSE--RPLIRIDMSEYSEGDDVESSVSKLLGSPPGYVG-----AEEGGVVLLDEI   77 (171)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHT-SSC--CEEEEEEGGGHCSHHHCSCHCHHHHHHTTCHHH-----HHHHTEEEEETG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhccCCc--cchHHHhhhcccccchHHhhhhhhhhcccceee-----ccchhhhhhHHH
Confidence            499999999999999999999997 443  367888887765522211111111111100000     002239999999


Q ss_pred             CCCCH-----------HHHHHHHHHhhhcc-----------CCccEEEEecCC
Q psy17903        147 DSMTH-----------AAQAALRRTMEKET-----------KSTRFCLICNYV  177 (355)
Q Consensus       147 d~l~~-----------~~~~~Ll~~le~~~-----------~~~~~Il~~~~~  177 (355)
                      |...+           ..|+.|+++||+..           .+++||+++|--
T Consensus        78 dKa~~~~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~~  130 (171)
T PF07724_consen   78 DKAHPSNSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNFG  130 (171)
T ss_dssp             GGCSHTTTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESSS
T ss_pred             hhccccccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEecccc
Confidence            99999           99999999998632           467888888744

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 ....

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=99.11  E-value=1e-08  Score=102.55  Aligned_cols=136  Identities=17%  Similarity=0.196  Sum_probs=80.8

Q ss_pred             cccccHHHHHHHHHHHhcCC---------------------CCeEEEECCCCCCHHHHHHHHHHHhcCCcc--ccceeee
Q psy17903         46 DVIEQQEVVSVLKKCLSGAD---------------------LPHFLFYGPPGTGKTSTMIAACHQLFGDMY--RERILEL  102 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~~~---------------------~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~--~~~~~~~  102 (355)
                      .+.|++.++..|.-.+-+|.                     -.|+||.|+||+|||.+|+.+++......+  ...+..+
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            46678877776655553331                     015999999999999999999986432211  0111222


Q ss_pred             cCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-------------CCcc
Q psy17903        103 NASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-------------KSTR  169 (355)
Q Consensus       103 ~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-------------~~~~  169 (355)
                      ++...   ....   ..  ..+......+.-..+++++++|||++.|+...|..|++.||+..             ..+.
T Consensus       531 gLTa~---~~~~---d~--~tG~~~le~GaLvlAdgGtL~IDEidkms~~~Q~aLlEaMEqqtIsI~KaGi~~tL~ar~r  602 (915)
T PTZ00111        531 GLTAS---IKFN---ES--DNGRAMIQPGAVVLANGGVCCIDELDKCHNESRLSLYEVMEQQTVTIAKAGIVATLKAETA  602 (915)
T ss_pred             cccch---hhhc---cc--ccCcccccCCcEEEcCCCeEEecchhhCCHHHHHHHHHHHhCCEEEEecCCcceecCCCeE
Confidence            22110   0000   00  00000000000111356699999999999999999999998643             3577


Q ss_pred             EEEEecCCc-------------cccccccCCee
Q psy17903        170 FCLICNYVS-------------CIIQPLTSRCS  189 (355)
Q Consensus       170 ~Il~~~~~~-------------~l~~~l~sr~~  189 (355)
                      +|.++|...             .+.++|.+|+.
T Consensus       603 VIAAaNP~~gryd~~~s~~eni~Lp~~LLSRFD  635 (915)
T PTZ00111        603 ILASCNPINSRYNKNKAVIENINISPSLFTRFD  635 (915)
T ss_pred             EEEEcCCcccccCcccCcccccCCChHHhhhhc
Confidence            888887531             25678889985

>PF13173 AAA_14: AAA domain

Probab=99.06  E-value=3e-09  Score=83.68  Aligned_cols=119  Identities=22%  Similarity=0.307  Sum_probs=77.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHH-HHHHHHHhhccCCCCCCCCCCCcEEEEEeCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD-KVKTFAQQTASGFNQDGKPCPPFKIVILDEA  146 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~-~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~  146 (355)
                      .++|+||+|+|||++++.+++.+.   ...+++.++..+......... ....+... ...         +.++|||||+
T Consensus         4 ~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~-~~~---------~~~~i~iDEi   70 (128)
T PF13173_consen    4 IIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPDLLEYFLEL-IKP---------GKKYIFIDEI   70 (128)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhhhHHHHHHh-hcc---------CCcEEEEehh
Confidence            489999999999999999999875   223566777665433221110 11111111 100         2359999999


Q ss_pred             CCCCHHHHHHHHHHhhhccCCccEEEEecCCc----cccccccCCeeeEEecCCCHHHH
Q psy17903        147 DSMTHAAQAALRRTMEKETKSTRFCLICNYVS----CIIQPLTSRCSKFRFKPLAENTM  201 (355)
Q Consensus       147 d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~----~l~~~l~sr~~~i~~~~~~~~~~  201 (355)
                      +.+. +....+..+.+.. .+..+|+++....    .....+..|...+++.|++-.|.
T Consensus        71 q~~~-~~~~~lk~l~d~~-~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   71 QYLP-DWEDALKFLVDNG-PNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             hhhc-cHHHHHHHHHHhc-cCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            9996 4555555666654 5667777776543    24466788888999999998774

>smart00763 AAA_PrkA PrkA AAA domain

Probab=99.06  E-value=4.5e-09  Score=95.27  Aligned_cols=91  Identities=10%  Similarity=-0.079  Sum_probs=65.4

Q ss_pred             CCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-------ccccccccCCeeeEEecCCC
Q psy17903        136 PPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SCIIQPLTSRCSKFRFKPLA  197 (355)
Q Consensus       136 ~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-------~~l~~~l~sr~~~i~~~~~~  197 (355)
                      ++++++-++|+.....+.++.|+..+++..           .+.+||.++|..       .+..+++++||..+.++.+.
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            678899999999999999999999998632           124566666654       35689999999988876554


Q ss_pred             -HHHHHHHHHHHHHHc---CCCCCHHHHHHHHH
Q psy17903        198 -ENTMLTRLQYICEQE---SVMCDFKALETLVE  226 (355)
Q Consensus       198 -~~~~~~~l~~~~~~~---~~~~~~~~~~~l~~  226 (355)
                       .++-.++.++.+...   +..+.+.+++.++.
T Consensus       315 ~~~~E~~Iy~k~~~~s~~~~~~~aP~~le~aa~  347 (361)
T smart00763      315 RVSEEAQIYEKLLRNSDLTEAHIAPHTLEMAAL  347 (361)
T ss_pred             CHHHHHHHHHHHhccCcCcccccCchHHHHHHH
Confidence             455566777666543   44566666665554

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

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

Probab=99.06  E-value=3.4e-09  Score=95.51  Aligned_cols=188  Identities=13%  Similarity=0.131  Sum_probs=104.1

Q ss_pred             cHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHH--hcCCccccceeeecCCCccchHH-HHHHHHHHHHhh
Q psy17903         50 QQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQ--LFGDMYRERILELNASDDRGIQV-IRDKVKTFAQQT  124 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~--l~~~~~~~~~~~~~~~~~~~~~~-i~~~i~~~~~~~  124 (355)
                      ++..+++|.+.+...  ....+.|+|++|+|||++|..+++.  ....+ + .++.++......... ....+..+....
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            356778888888773  3333999999999999999999988  33322 2 222333332222222 222222221110


Q ss_pred             ccCCCCCC----------CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeeeEEec
Q psy17903        125 ASGFNQDG----------KPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFK  194 (355)
Q Consensus       125 ~~~~~~~~----------~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~  194 (355)
                      ........          .-...+-+||+|+++...  ..+.+...+.....++.+|+||.... +...+......+++.
T Consensus        79 ~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~kilvTTR~~~-v~~~~~~~~~~~~l~  155 (287)
T PF00931_consen   79 SSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEE--DLEELREPLPSFSSGSKILVTTRDRS-VAGSLGGTDKVIELE  155 (287)
T ss_dssp             STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHH--HH-------HCHHSS-EEEEEESCGG-GGTTHHSCEEEEECS
T ss_pred             cccccccccccccccchhhhccccceeeeeeecccc--cccccccccccccccccccccccccc-ccccccccccccccc
Confidence            00000000          000134599999987653  44455555554555678888886543 333333336789999


Q ss_pred             CCCHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q psy17903        195 PLAENTMLTRLQYICEQES---VMCDFKALETLVETSGGDMRRAITCLQSC  242 (355)
Q Consensus       195 ~~~~~~~~~~l~~~~~~~~---~~~~~~~~~~l~~~~~g~~r~~~~~l~~~  242 (355)
                      +++.++..+.+.+.+....   ..-.++..+.|++.|+|.+-.+.-....+
T Consensus       156 ~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l  206 (287)
T PF00931_consen  156 PLSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYL  206 (287)
T ss_dssp             S--HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9999999999998876544   12224567889999999988776665544

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.

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=99.05  E-value=4.1e-10  Score=89.91  Aligned_cols=107  Identities=15%  Similarity=0.168  Sum_probs=71.7

Q ss_pred             cccHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhc
Q psy17903         48 IEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTA  125 (355)
Q Consensus        48 vg~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~  125 (355)
                      ||....++.+.+.++.-  ...+++|+|++|+||+++|+.++.....  ....++.+++....     .+.+..    . 
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~~--~~~~~~~~~~~~~~-----~~~l~~----a-   68 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSGR--ANGPFIVIDCASLP-----AELLEQ----A-   68 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTTT--CCS-CCCCCHHCTC-----HHHHHH----C-
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcCc--cCCCeEEechhhCc-----HHHHHH----c-
Confidence            46777777777766542  2234999999999999999999987543  23345555554422     112222    1 


Q ss_pred             cCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc-cCCccEEEEecCC
Q psy17903        126 SGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-TKSTRFCLICNYV  177 (355)
Q Consensus       126 ~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~-~~~~~~Il~~~~~  177 (355)
                                 ...+++|+|+|.|+.+.|..|..+++.. ..++++|+++...
T Consensus        69 -----------~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~  110 (138)
T PF14532_consen   69 -----------KGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQD  110 (138)
T ss_dssp             -----------TTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-
T ss_pred             -----------CCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCC
Confidence                       1238999999999999999999999864 5678899888743

>KOG0741|consensus

Probab=99.04  E-value=9.2e-10  Score=101.88  Aligned_cols=177  Identities=18%  Similarity=0.218  Sum_probs=108.5

Q ss_pred             CCCc--ccccHHHHHHHHH-H----------HhcCCCCe---EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC
Q psy17903         43 TIDD--VIEQQEVVSVLKK-C----------LSGADLPH---FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (355)
Q Consensus        43 ~~~~--~vg~~~~~~~l~~-~----------l~~~~~~~---~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  106 (355)
                      .|++  +-|-+.....+.+ +          +++-..+|   +|+|||||||||.+|+.+.+-++...++    -+|+++
T Consensus       217 ~Fe~mGIGGLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePK----IVNGPe  292 (744)
T KOG0741|consen  217 NFESMGIGGLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPK----IVNGPE  292 (744)
T ss_pred             ChhhcccccchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCc----ccCcHH
Confidence            3554  4466655544432 2          23444556   9999999999999999999999764332    123222


Q ss_pred             ------ccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-------------HHHHHHHHHhhhc--c
Q psy17903        107 ------DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-------------AAQAALRRTMEKE--T  165 (355)
Q Consensus       107 ------~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-------------~~~~~Ll~~le~~--~  165 (355)
                            -.+...+|..+......--.    .| ..++-.|||+||+|.+..             ...|.|+.-|+-.  -
T Consensus       293 IL~KYVGeSE~NvR~LFaDAEeE~r~----~g-~~SgLHIIIFDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDGVeqL  367 (744)
T KOG0741|consen  293 ILNKYVGESEENVRKLFADAEEEQRR----LG-ANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDGVEQL  367 (744)
T ss_pred             HHHHhhcccHHHHHHHHHhHHHHHHh----hC-ccCCceEEEehhhHHHHHhcCCCCCCCCccHHHHHHHHHhcccHHhh
Confidence                  11223444444433221100    00 002457999999998854             3467788777632  3


Q ss_pred             CCccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHH---HcCCCCCHHHHHHHHHHc
Q psy17903        166 KSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICE---QESVMCDFKALETLVETS  228 (355)
Q Consensus       166 ~~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~---~~~~~~~~~~~~~l~~~~  228 (355)
                      .+..+|..||+.+-++++|.+.++   .+++.-|++.-..++++-+.+   ..+.--++-.++.|+..+
T Consensus       368 NNILVIGMTNR~DlIDEALLRPGRlEVqmEIsLPDE~gRlQIl~IHT~rMre~~~l~~dVdl~elA~lT  436 (744)
T KOG0741|consen  368 NNILVIGMTNRKDLIDEALLRPGRLEVQMEISLPDEKGRLQILKIHTKRMRENNKLSADVDLKELAALT  436 (744)
T ss_pred             hcEEEEeccCchhhHHHHhcCCCceEEEEEEeCCCccCceEEEEhhhhhhhhcCCCCCCcCHHHHHHHh
Confidence            467788889999999999998877   577778888766666554443   233322334466666665

>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=99.02  E-value=7.3e-09  Score=75.95  Aligned_cols=83  Identities=37%  Similarity=0.589  Sum_probs=72.5

Q ss_pred             ChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHH
Q psy17903        264 PNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQI  340 (355)
Q Consensus       264 ~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l  340 (355)
                      +++.+.++++.   +++..++..+++++..|+++.+++..+.+.+... .+++..+.+++..+++++++|..|.++.+||
T Consensus         4 ~~~~i~~i~~~~~~~~~~~~~~~~~~l~~~G~s~~~Il~~l~~~l~~~-~~~~~~k~~i~~~la~~e~rl~~G~~e~lQl   82 (89)
T PF08542_consen    4 PPEVIEEILESCLNGDFKEARKKLYELLVEGYSASDILKQLHEVLVES-DIPDSQKAEILKILAEIEYRLSDGASEILQL   82 (89)
T ss_dssp             -HHHHHHHHHHHHHTCHHHHHHHHHHHHHTT--HHHHHHHHHHHHHTS-TSSHHHHHHHHHHHHHHHHHHHTTC-HHHHH
T ss_pred             CHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHh-hccHHHHHHHHHHHHHHhHHHHCCCCHHHHH
Confidence            45566666665   8999999999999999999999999999999988 8899999999999999999999999999999


Q ss_pred             HHHHHHH
Q psy17903        341 LDLGSIV  347 (355)
Q Consensus       341 ~~~~~~~  347 (355)
                      +.|++++
T Consensus        83 ~alva~~   89 (89)
T PF08542_consen   83 EALVAAF   89 (89)
T ss_dssp             HHHHHHH
T ss_pred             HHHHhhC
Confidence            9999875

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.

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=99.01  E-value=2.1e-08  Score=91.38  Aligned_cols=165  Identities=13%  Similarity=0.030  Sum_probs=100.1

Q ss_pred             CCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccch---HHHHHH----
Q psy17903         44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI---QVIRDK----  116 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~---~~i~~~----  116 (355)
                      |..++|++.....|--..-......+||.|+.|+||||++++++.-|.....-. =..++|.-....   +.++..    
T Consensus        16 f~aivGqd~lk~aL~l~av~P~iggvLI~G~kGtaKSt~~Rala~LLp~~~~V~-gc~f~cdP~~P~~~c~~c~~k~~e~   94 (423)
T COG1239          16 FTAIVGQDPLKLALGLNAVDPQIGGALIAGEKGTAKSTLARALADLLPEIEVVI-GCPFNCDPDDPEEMCDECRAKGDEL   94 (423)
T ss_pred             hhhhcCchHHHHHHhhhhcccccceeEEecCCCccHHHHHHHHHHhCCccceec-CCCCCCCCCChhhhhHHHHhhcccc
Confidence            677999999887776554444555699999999999999999999884311000 000111100000   001100    


Q ss_pred             -----------------------------HHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc---
Q psy17903        117 -----------------------------VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE---  164 (355)
Q Consensus       117 -----------------------------i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~---  164 (355)
                                                   +......+...+.++--..+++.|+.|||+..|....++.|+..++++   
T Consensus        95 ~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL~d~lvd~LLd~aaeG~n~  174 (423)
T COG1239          95 EWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVNLLDDHLVDALLDVAAEGVND  174 (423)
T ss_pred             ccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchhhccCCEEEEeccccccHHHHHHHHHHHHhCCce
Confidence                                         000111111111111122368889999999999999999999999863   


Q ss_pred             ----------cCCccEEEEecCC-ccccccccCCee-eEEecCCC-HHHHHHHHHHHH
Q psy17903        165 ----------TKSTRFCLICNYV-SCIIQPLTSRCS-KFRFKPLA-ENTMLTRLQYIC  209 (355)
Q Consensus       165 ----------~~~~~~Il~~~~~-~~l~~~l~sr~~-~i~~~~~~-~~~~~~~l~~~~  209 (355)
                                +.++++|.+.|.. ..+.++|+.|+. .+...++. .++..+++.+..
T Consensus       175 vereGisi~hpa~fvligTmNPEeGeLrpqLlDRfg~~v~~~~~~~~~~rv~Ii~r~~  232 (423)
T COG1239         175 VEREGISIRHPARFLLIGTMNPEEGELRPQLLDRFGLEVDTHYPLDLEERVEIIRRRL  232 (423)
T ss_pred             eeeCceeeccCccEEEEeecCccccccchhhHhhhcceeeccCCCCHHHHHHHHHHHH
Confidence                      3456677777753 568899999965 66665554 444455554443

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=98.97  E-value=2.4e-08  Score=85.02  Aligned_cols=200  Identities=19%  Similarity=0.203  Sum_probs=126.2

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhh-----
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQT-----  124 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~-----  124 (355)
                      +.+.+..+...+..+. .-+.++|+-|+|||++.+++...+.++..  ..+.++.........+...+..+...+     
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            5566777777777664 13899999999999999987777765432  224454443222221111111111100     


Q ss_pred             ----------ccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhh---hccCCccEEEEecCC-cc-----cccccc
Q psy17903        125 ----------ASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTME---KETKSTRFCLICNYV-SC-----IIQPLT  185 (355)
Q Consensus       125 ----------~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le---~~~~~~~~Il~~~~~-~~-----l~~~l~  185 (355)
                                ........    ...++++||++.+..+....|+.+.+   +.+....+++++... ..     ....+.
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                      00000111    11599999999999988877766543   344444556665422 11     234567


Q ss_pred             CCeee-EEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh---hCCCCCCHHHH
Q psy17903        186 SRCSK-FRFKPLAENTMLTRLQYICEQESVM---CDFKALETLVETSGGDMRRAITCLQSCARL---KGGEGIVNEDV  256 (355)
Q Consensus       186 sr~~~-i~~~~~~~~~~~~~l~~~~~~~~~~---~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~---~~~~~It~~~v  256 (355)
                      .|+.. ++++|++.++...+++.+++..+..   ++++++..+...+.|-+|.+-+.+..+-..   +++..|+...+
T Consensus       189 ~R~~ir~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~Al~~a~~a~~~~v~~a~~  266 (269)
T COG3267         189 QRIDIRIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATLALDAAYSAGEDGVSEAEI  266 (269)
T ss_pred             heEEEEEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHHHHHHHHHcCCCccchhhc
Confidence            88886 9999999999999999999876543   578999999999999888776666544222   25556666544

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.95  E-value=2.7e-08  Score=94.97  Aligned_cols=217  Identities=18%  Similarity=0.155  Sum_probs=121.1

Q ss_pred             CCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC------CCc-------c
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA------SDD-------R  108 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~------~~~-------~  108 (355)
                      .+|.++.|+..+++.+.-.+..+  .+++|.||+|+|||++++.++..+...... ..++...      ...       .
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--HNLLLIGPPGTGKTMLASRINGLLPDLSNE-EALESAAILSLVNAESVQKQWRQR  264 (506)
T ss_pred             cCeEEEECcHHHHhhhheeccCC--cEEEEECCCCCcHHHHHHHHhccCCCCCCc-EEEecchhhhhhccccccCCcCCC
Confidence            37888999998888876665544  469999999999999999998876421110 1111111      000       0


Q ss_pred             chHHHHHHHHHHHHhhc-cCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc-------------cCCccEEEEe
Q psy17903        109 GIQVIRDKVKTFAQQTA-SGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-------------TKSTRFCLIC  174 (355)
Q Consensus       109 ~~~~i~~~i~~~~~~~~-~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~-------------~~~~~~Il~~  174 (355)
                      ....-.......+-.+. .......-..+++.++|+||++.+....++.|++.||+.             +.++.+|.++
T Consensus       265 Pfr~ph~~~s~~~l~GGg~~~~pG~l~~A~gGvLfLDEi~e~~~~~~~~L~~~LE~g~v~I~r~g~~~~~pa~f~lIAa~  344 (506)
T PRK09862        265 PFRSPHHSASLTAMVGGGAIPGPGEISLAHNGVLFLDELPEFERRTLDALREPIESGQIHLSRTRAKITYPARFQLVAAM  344 (506)
T ss_pred             CccCCCccchHHHHhCCCceehhhHhhhccCCEEecCCchhCCHHHHHHHHHHHHcCcEEEecCCcceeccCCEEEEEee
Confidence            00000000000000000 000000001146679999999999999999999999763             3456778777


Q ss_pred             cCCc---------------------cccccccCCee-eEEecCCCHHH-------------HHHHHH-HHHH--H----c
Q psy17903        175 NYVS---------------------CIIQPLTSRCS-KFRFKPLAENT-------------MLTRLQ-YICE--Q----E  212 (355)
Q Consensus       175 ~~~~---------------------~l~~~l~sr~~-~i~~~~~~~~~-------------~~~~l~-~~~~--~----~  212 (355)
                      |...                     ++..++.+|+. .+.+++++.++             +.+.+. .+-.  .    .
T Consensus       345 NP~pcG~~~~~~c~c~~~~~~~Y~~~ls~plLDRfdL~v~v~~~~~~~l~~~~~~~ess~~i~~rV~~ar~~q~~r~~~~  424 (506)
T PRK09862        345 NPSPTGHYQGNHNRCTPEQTLRYLNRLSGPFLDRFDLSLEIPLPPPGILSKTVVPGESSATVKQRVMAARERQFKRQNKL  424 (506)
T ss_pred             cCccceecCCCCCCcCHHHHHHHHhhCCHhHHhhccEEEEeCCCCHHHHhcccCCCCChHHHHHHHhhHHHHHHHHHHHH
Confidence            7531                     35568888887 57777664322             221111 0000  0    0


Q ss_pred             C-----------CCCCHHHHHHHH---HHcCCCHHHHHHHHHHH---HHhhCCCCCCHHHHHHHhC
Q psy17903        213 S-----------VMCDFKALETLV---ETSGGDMRRAITCLQSC---ARLKGGEGIVNEDVLEVTG  261 (355)
Q Consensus       213 ~-----------~~~~~~~~~~l~---~~~~g~~r~~~~~l~~~---~~~~~~~~It~~~v~~~~~  261 (355)
                      +           +.+++++.+.+.   ...+-+.|.....++-+   +.+.+...|+.+++.+++.
T Consensus       425 n~~l~~~~l~~~~~l~~~~~~~l~~~~~~~~lS~Ra~~rlLrvARTiADL~g~~~V~~~hv~eAl~  490 (506)
T PRK09862        425 NAWLDSPEIRQFCKLESEDARWLEETLIHLGLSIRAWQRLLKVARTIADIDQSDIITRQHLQEAVS  490 (506)
T ss_pred             hcccCHHHHHHHhCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            1           233444433332   23344667666666544   3344778899999988775

>KOG2170|consensus

Probab=98.95  E-value=2.2e-08  Score=86.91  Aligned_cols=125  Identities=17%  Similarity=0.246  Sum_probs=84.3

Q ss_pred             ccccHHHHHHHHHHH----hcCCCCe---EEEECCCCCCHHHHHHHHHHHhcCCcccccee-----eecCCCccchHHHH
Q psy17903         47 VIEQQEVVSVLKKCL----SGADLPH---FLFYGPPGTGKTSTMIAACHQLFGDMYRERIL-----ELNASDDRGIQVIR  114 (355)
Q Consensus        47 ~vg~~~~~~~l~~~l----~~~~~~~---~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~-----~~~~~~~~~~~~i~  114 (355)
                      +.||.-+.+.+.+.+    .+.....   +-|+|++||||..+++.+++.+.......+++     ..+.+....++..+
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            557665555554444    4443222   77999999999999999999998655444443     34445555555555


Q ss_pred             HHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-------CCccEEEEecCCcc
Q psy17903        115 DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-------KSTRFCLICNYVSC  179 (355)
Q Consensus       115 ~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-------~~~~~Il~~~~~~~  179 (355)
                      ..+...........        .+.+.|+||+|.|.++..+.|...|+.++       ...+|||.+|....
T Consensus       164 ~eL~~~v~~~v~~C--------~rslFIFDE~DKmp~gLld~lkpfLdyyp~v~gv~frkaIFIfLSN~gg~  227 (344)
T KOG2170|consen  164 EELKNRVRGTVQAC--------QRSLFIFDEVDKLPPGLLDVLKPFLDYYPQVSGVDFRKAIFIFLSNAGGS  227 (344)
T ss_pred             HHHHHHHHHHHHhc--------CCceEEechhhhcCHhHHHHHhhhhccccccccccccceEEEEEcCCcch
Confidence            55554443333221        34599999999999999999988887543       35789999986543

>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=98.94  E-value=3.4e-10  Score=86.74  Aligned_cols=89  Identities=26%  Similarity=0.236  Sum_probs=47.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHH-HHHHHHhhccCCCCCCCCCCCcEEEEEeCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK-VKTFAQQTASGFNQDGKPCPPFKIVILDEA  146 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~-i~~~~~~~~~~~~~~~~~~~~~~vliiDe~  146 (355)
                      |+||.|+||+|||++|+++++.+..+     +..+.+.......++... +... ........ .|..  -..++++||+
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~-----f~RIq~tpdllPsDi~G~~v~~~-~~~~f~~~-~GPi--f~~ill~DEi   71 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLS-----FKRIQFTPDLLPSDILGFPVYDQ-ETGEFEFR-PGPI--FTNILLADEI   71 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT-------EEEEE--TT--HHHHHEEEEEET-TTTEEEEE-E-TT---SSEEEEETG
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCc-----eeEEEecCCCCcccceeeeeecc-CCCeeEee-cChh--hhceeeeccc
Confidence            68999999999999999999998543     333333221112211110 0000 00000000 0000  1239999999


Q ss_pred             CCCCHHHHHHHHHHhhhcc
Q psy17903        147 DSMTHAAQAALRRTMEKET  165 (355)
Q Consensus       147 d~l~~~~~~~Ll~~le~~~  165 (355)
                      .+.++..|.+|++.|++..
T Consensus        72 NrappktQsAlLeam~Er~   90 (131)
T PF07726_consen   72 NRAPPKTQSALLEAMEERQ   90 (131)
T ss_dssp             GGS-HHHHHHHHHHHHHSE
T ss_pred             ccCCHHHHHHHHHHHHcCe
Confidence            9999999999999998753

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.

>PRK12377 putative replication protein; Provisional

Probab=98.93  E-value=5.2e-09  Score=91.23  Aligned_cols=129  Identities=18%  Similarity=0.261  Sum_probs=73.4

Q ss_pred             ccCCCCCCccc----ccHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchH
Q psy17903         38 KYRPKTIDDVI----EQQEVVSVLKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ  111 (355)
Q Consensus        38 k~~p~~~~~~v----g~~~~~~~l~~~l~~--~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~  111 (355)
                      .+...+|+.+.    |+..++.....++..  ....+++|+||+|+|||++|.++++.+.....  .++.++..+.  ..
T Consensus        67 ~~~~~tFdnf~~~~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~--~v~~i~~~~l--~~  142 (248)
T PRK12377         67 LHRKCSFANYQVQNDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLAKGR--SVIVVTVPDV--MS  142 (248)
T ss_pred             ccccCCcCCcccCChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHHcCC--CeEEEEHHHH--HH
Confidence            44555677775    333455555544432  12345999999999999999999999865433  2333333221  11


Q ss_pred             HHHHHHHHH--HHhhccCCCCCCCCCCCcEEEEEeCC--CCCCHHHHHHHHHHhhhccC-CccEEEEecCC
Q psy17903        112 VIRDKVKTF--AQQTASGFNQDGKPCPPFKIVILDEA--DSMTHAAQAALRRTMEKETK-STRFCLICNYV  177 (355)
Q Consensus       112 ~i~~~i~~~--~~~~~~~~~~~~~~~~~~~vliiDe~--d~l~~~~~~~Ll~~le~~~~-~~~~Il~~~~~  177 (355)
                      .+.......  ........       ....+|||||+  +..+...++.|..+++..-. ....|++||-.
T Consensus       143 ~l~~~~~~~~~~~~~l~~l-------~~~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl~  206 (248)
T PRK12377        143 RLHESYDNGQSGEKFLQEL-------CKVDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTNLN  206 (248)
T ss_pred             HHHHHHhccchHHHHHHHh-------cCCCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcCCC
Confidence            111111000  00000000       13349999999  55567778889999886543 34567778743

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.93  E-value=1.9e-08  Score=87.95  Aligned_cols=187  Identities=19%  Similarity=0.215  Sum_probs=109.9

Q ss_pred             cccccHHHHHHHH--------HHHhc---C----CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccch
Q psy17903         46 DVIEQQEVVSVLK--------KCLSG---A----DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (355)
Q Consensus        46 ~~vg~~~~~~~l~--------~~l~~---~----~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  110 (355)
                      -++||+.+++.|.        +.-..   .    ..+++|+.||+|+|||.+|+.+++.+     +.+|.-.|+...+..
T Consensus        62 YVIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~L-----nVPFaiADATtLTEA  136 (408)
T COG1219          62 YVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKIL-----NVPFAIADATTLTEA  136 (408)
T ss_pred             heecchhhhceeeeeehhHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHh-----CCCeeeccccchhhc
Confidence            3679998775442        22111   1    12459999999999999999999998     445555555432111


Q ss_pred             ----HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------------HHHHHHHHHhhhc-----c--
Q psy17903        111 ----QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTMEKE-----T--  165 (355)
Q Consensus       111 ----~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------------~~~~~Ll~~le~~-----~--  165 (355)
                          +++.+.+..+.+......     ..+.+++|+|||+|.++.              ..|++|++++|-.     |  
T Consensus       137 GYVGEDVENillkLlqaadydV-----~rAerGIIyIDEIDKIarkSeN~SITRDVSGEGVQQALLKiiEGTvasVPPqG  211 (408)
T COG1219         137 GYVGEDVENILLKLLQAADYDV-----ERAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGTVASVPPQG  211 (408)
T ss_pred             cccchhHHHHHHHHHHHcccCH-----HHHhCCeEEEechhhhhccCCCCCcccccCchHHHHHHHHHHcCceeccCCCC
Confidence                233333333332221110     012566999999999853              4689999999841     1  


Q ss_pred             --------------CCccEEEEec---------------------CC----c-------------------cccccccCC
Q psy17903        166 --------------KSTRFCLICN---------------------YV----S-------------------CIIQPLTSR  187 (355)
Q Consensus       166 --------------~~~~~Il~~~---------------------~~----~-------------------~l~~~l~sr  187 (355)
                                    .+..||+.+.                     ..    .                   -++|.+.-|
T Consensus       212 GRKHP~Qe~iqvDT~NILFIcgGAF~GlekiI~~R~~~~~iGF~a~~~~~~~~~~~~~~l~~vepeDLvkFGLIPEfIGR  291 (408)
T COG1219         212 GRKHPQQEFIQVDTSNILFICGGAFAGLEKIIKKRLGKKGIGFGAEVKSKSKKKEEGELLKQVEPEDLVKFGLIPEFIGR  291 (408)
T ss_pred             CCCCCccceEEEcccceeEEeccccccHHHHHHHhccCCcccccccccchhhhhhHHHHHHhcChHHHHHcCCcHHHhcc
Confidence                          1233333220                     00    0                   024555566


Q ss_pred             ee-eEEecCCCHHHHHHHHH-----------HHHHHcCC--CCCHHHHHHHHHHc---CCCHHHHHHHHHHH
Q psy17903        188 CS-KFRFKPLAENTMLTRLQ-----------YICEQESV--MCDFKALETLVETS---GGDMRRAITCLQSC  242 (355)
Q Consensus       188 ~~-~i~~~~~~~~~~~~~l~-----------~~~~~~~~--~~~~~~~~~l~~~~---~g~~r~~~~~l~~~  242 (355)
                      .. +..+.+++.+++..+|.           ..+...++  .++++++..+++.+   .-..|-+...++.+
T Consensus       292 lPvia~L~~Lde~aLv~ILtePkNAlvKQYq~Lf~~d~V~L~F~~~AL~~IA~~A~~rkTGARGLRsI~E~~  363 (408)
T COG1219         292 LPVIATLEELDEDALVQILTEPKNALVKQYQKLFEMDGVELEFTEEALKAIAKKAIERKTGARGLRSIIEEL  363 (408)
T ss_pred             cceeeehhhcCHHHHHHHHhcccHHHHHHHHHHhcccCceEEEcHHHHHHHHHHHHHhccchhHHHHHHHHH
Confidence            55 45688888888877753           23333444  57899999998765   33445555555544

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.91  E-value=1.3e-08  Score=88.11  Aligned_cols=192  Identities=17%  Similarity=0.152  Sum_probs=116.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh-cCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCC---CCCCCCCCcEEEEEe
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL-FGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFN---QDGKPCPPFKIVILD  144 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l-~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~---~~~~~~~~~~vliiD  144 (355)
                      +|+.||.|.||+.+|+.+...- ....+...++++||....+...+...+... ...+.+..   ..--..+++.++|+|
T Consensus       211 ~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghv-kgaftga~~~r~gllrsadggmlfld  289 (531)
T COG4650         211 ILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHV-KGAFTGARESREGLLRSADGGMLFLD  289 (531)
T ss_pred             eEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhh-ccccccchhhhhhhhccCCCceEehH
Confidence            9999999999999999876532 234556789999999877765554433321 11111110   011122466799999


Q ss_pred             CCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecC-------CccccccccCCeeeEEecCCCHHHHH----
Q psy17903        145 EADSMTHAAQAALRRTMEKET-----------KSTRFCLICNY-------VSCIIQPLTSRCSKFRFKPLAENTML----  202 (355)
Q Consensus       145 e~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~-------~~~l~~~l~sr~~~i~~~~~~~~~~~----  202 (355)
                      |+..|..+.|..|++.+|+..           ....+|..|..       ...+-+.+-.|...+.|.-|...+..    
T Consensus       290 eigelgadeqamllkaieekrf~pfgsdr~v~sdfqliagtvrdlrq~vaeg~fredl~arinlwtf~lpgl~qr~edie  369 (531)
T COG4650         290 EIGELGADEQAMLLKAIEEKRFYPFGSDRQVSSDFQLIAGTVRDLRQLVAEGKFREDLYARINLWTFTLPGLRQRQEDIE  369 (531)
T ss_pred             hhhhcCccHHHHHHHHHHhhccCCCCCccccccchHHhhhhHHHHHHHHhccchHHHHHHhhheeeeeccccccCccccC
Confidence            999999999999999998742           12233332211       01122333344444444433321111    


Q ss_pred             ----HHHHHHHHHc--CCCCCHHHHHHHHH-------HcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhC
Q psy17903        203 ----TRLQYICEQE--SVMCDFKALETLVE-------TSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG  261 (355)
Q Consensus       203 ----~~l~~~~~~~--~~~~~~~~~~~l~~-------~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~  261 (355)
                          --+.+.+...  .+.+..++-..-..       ...||.|.+-..+-+++.++.++.||.+.|++-+.
T Consensus       370 pnldyelerha~~~g~~vrfntearra~l~fa~spqa~w~gnfrelsasvtrmatlad~grit~~~ve~ei~  441 (531)
T COG4650         370 PNLDYELERHASLTGDSVRFNTEARRAWLAFATSPQATWRGNFRELSASVTRMATLADSGRITLDVVEDEIN  441 (531)
T ss_pred             CCccHHHHHHHHhhCceeeeehHHHHHHHHhccCcchhhcccHHHHhHHHHHHHHHhcCCceeHHHHHHHHH
Confidence                1123333333  34555555444222       24699999999999999999999999999886554

>PRK08116 hypothetical protein; Validated

Probab=98.88  E-value=7.8e-09  Score=91.69  Aligned_cols=147  Identities=17%  Similarity=0.240  Sum_probs=85.0

Q ss_pred             cccCCCCCCcccccH---HHHHHHHHHHhc----C-CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc
Q psy17903         37 EKYRPKTIDDVIEQQ---EVVSVLKKCLSG----A-DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (355)
Q Consensus        37 ~k~~p~~~~~~vg~~---~~~~~l~~~l~~----~-~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  108 (355)
                      ++|+-.+|+.+...+   .++....+++++    . ....++|+|++|+|||++|.++++.+....  ..++.++..+. 
T Consensus        77 ~~~~~~tFdnf~~~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~~~--~~v~~~~~~~l-  153 (268)
T PRK08116         77 EKFRNSTFENFLFDKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEKG--VPVIFVNFPQL-  153 (268)
T ss_pred             HHHHhcchhcccCChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEEHHHH-
Confidence            455556777765322   344444444432    1 112399999999999999999999986542  24445443321 


Q ss_pred             chHHHHHHHH--------HHHHhhccCCCCCCCCCCCcEEEEEeCC--CCCCHHHHHHHHHHhhhc-cCCccEEEEecCC
Q psy17903        109 GIQVIRDKVK--------TFAQQTASGFNQDGKPCPPFKIVILDEA--DSMTHAAQAALRRTMEKE-TKSTRFCLICNYV  177 (355)
Q Consensus       109 ~~~~i~~~i~--------~~~~~~~~~~~~~~~~~~~~~vliiDe~--d~l~~~~~~~Ll~~le~~-~~~~~~Il~~~~~  177 (355)
                       ...+...+.        .+... .          .+..+|||||+  +..+...+..|..+++.. .....+|++||..
T Consensus       154 -l~~i~~~~~~~~~~~~~~~~~~-l----------~~~dlLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        154 -LNRIKSTYKSSGKEDENEIIRS-L----------VNADLLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             -HHHHHHHHhccccccHHHHHHH-h----------cCCCEEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence             111111100        00000 0          02349999999  556666778888888753 3345677788854


Q ss_pred             c-c----ccccccCC----eeeEEecCCCH
Q psy17903        178 S-C----IIQPLTSR----CSKFRFKPLAE  198 (355)
Q Consensus       178 ~-~----l~~~l~sr----~~~i~~~~~~~  198 (355)
                      . .    +...+.+|    |..|.|..++.
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    33456666    66788876653

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=98.86  E-value=8.2e-08  Score=88.87  Aligned_cols=119  Identities=24%  Similarity=0.328  Sum_probs=72.2

Q ss_pred             CCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeec------CCCccc--hHH
Q psy17903         41 PKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN------ASDDRG--IQV  112 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~------~~~~~~--~~~  112 (355)
                      ..+|.|++||+.+++.+.-...+|  +|++++||||||||++|+.+..-+..- .....++.+      +....+  ...
T Consensus       175 ~~D~~DV~GQ~~AKrAleiAAAGg--HnLl~~GpPGtGKTmla~Rl~~lLPpl-s~~E~lE~s~I~s~~g~~~~~~~~~~  251 (490)
T COG0606         175 APDFKDVKGQEQAKRALEIAAAGG--HNLLLVGPPGTGKTMLASRLPGLLPPL-SIPEALEVSAIHSLAGDLHEGCPLKI  251 (490)
T ss_pred             CcchhhhcCcHHHHHHHHHHHhcC--CcEEEecCCCCchHHhhhhhcccCCCC-ChHHHHHHHHHhhhcccccccCccce
Confidence            347999999999999999888877  369999999999999999988765320 000111111      000000  000


Q ss_pred             HHH--------HHHHHHHhhccCCCCCCC-CCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc
Q psy17903        113 IRD--------KVKTFAQQTASGFNQDGK-PCPPFKIVILDEADSMTHAAQAALRRTMEKE  164 (355)
Q Consensus       113 i~~--------~i~~~~~~~~~~~~~~~~-~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~  164 (355)
                      .+.        ....+...+  +....|. ..+..+|+|+||+..+.....+.|+.-||+.
T Consensus       252 ~rPFr~PHHsaS~~aLvGGG--~~p~PGeIsLAH~GVLFLDElpef~~~iLe~LR~PLE~g  310 (490)
T COG0606         252 HRPFRAPHHSASLAALVGGG--GVPRPGEISLAHNGVLFLDELPEFKRSILEALREPLENG  310 (490)
T ss_pred             eCCccCCCccchHHHHhCCC--CCCCCCceeeecCCEEEeeccchhhHHHHHHHhCccccC
Confidence            000        000000000  0000000 0157789999999999999999999999864

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.86  E-value=8e-08  Score=84.73  Aligned_cols=107  Identities=22%  Similarity=0.228  Sum_probs=74.4

Q ss_pred             CcEEEEEeCCCCCCH------------HHHHHHHHHhhhcc----------CCccEEEEe----cCCccccccccCCee-
Q psy17903        137 PFKIVILDEADSMTH------------AAQAALRRTMEKET----------KSTRFCLIC----NYVSCIIQPLTSRCS-  189 (355)
Q Consensus       137 ~~~vliiDe~d~l~~------------~~~~~Ll~~le~~~----------~~~~~Il~~----~~~~~l~~~l~sr~~-  189 (355)
                      ..++|||||+|.+..            +.|..|+.++|-..          .+..||.++    ..|+.++|.|.-|+. 
T Consensus       250 ~~GIvFIDEIDKIa~~~~~g~~dvSREGVQRDlLPlvEGstV~TKyG~VkTdHILFIasGAFh~sKPSDLiPELQGRfPI  329 (444)
T COG1220         250 QNGIVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLVEGSTVSTKYGPVKTDHILFIASGAFHVAKPSDLIPELQGRFPI  329 (444)
T ss_pred             hcCeEEEehhhHHHhcCCCCCCCcchhhhcccccccccCceeeccccccccceEEEEecCceecCChhhcChhhcCCCce
Confidence            346999999998843            34667888877421          233444433    246779999999988 


Q ss_pred             eEEecCCCHHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHc---C-----CCHHHHHHHHHHHH
Q psy17903        190 KFRFKPLAENTMLTRLQY-----------ICEQESV--MCDFKALETLVETS---G-----GDMRRAITCLQSCA  243 (355)
Q Consensus       190 ~i~~~~~~~~~~~~~l~~-----------~~~~~~~--~~~~~~~~~l~~~~---~-----g~~r~~~~~l~~~~  243 (355)
                      .|++.+++.+++..+|..           .++.+++  .++++++..|++.+   +     =..|++...++++-
T Consensus       330 RVEL~~Lt~~Df~rILtep~~sLikQY~aLlkTE~v~l~FtddaI~~iAeiA~~vN~~~ENIGARRLhTvlErlL  404 (444)
T COG1220         330 RVELDALTKEDFERILTEPKASLIKQYKALLKTEGVELEFTDDAIKRIAEIAYQVNEKTENIGARRLHTVLERLL  404 (444)
T ss_pred             EEEcccCCHHHHHHHHcCcchHHHHHHHHHHhhcCeeEEecHHHHHHHHHHHHHhcccccchhHHHHHHHHHHHH
Confidence            799999999999887632           2333454  57899999998764   2     23577777777664

>KOG1051|consensus

Probab=98.85  E-value=2e-08  Score=100.24  Aligned_cols=118  Identities=24%  Similarity=0.418  Sum_probs=86.3

Q ss_pred             CcccccHHHHHHHHHHHhcC-----CC-Ce--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc-------
Q psy17903         45 DDVIEQQEVVSVLKKCLSGA-----DL-PH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG-------  109 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~-----~~-~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~-------  109 (355)
                      +.++||++++..+...+...     +. +.  ++|.||.|+|||-+|++++..+++...  .++.+|.+....       
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~--~~IriDmse~~evskligs  639 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEE--NFIRLDMSEFQEVSKLIGS  639 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCcc--ceEEechhhhhhhhhccCC
Confidence            46889999999999988542     21 22  999999999999999999999987644  677777765211       


Q ss_pred             ------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEE
Q psy17903        110 ------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCL  172 (355)
Q Consensus       110 ------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il  172 (355)
                            ....- .+.+....            .++.||++||+|.-.++.++.|+..++++.           .+++||+
T Consensus       640 p~gyvG~e~gg-~Lteavrr------------rP~sVVLfdeIEkAh~~v~n~llq~lD~GrltDs~Gr~Vd~kN~I~IM  706 (898)
T KOG1051|consen  640 PPGYVGKEEGG-QLTEAVKR------------RPYSVVLFEEIEKAHPDVLNILLQLLDRGRLTDSHGREVDFKNAIFIM  706 (898)
T ss_pred             CcccccchhHH-HHHHHHhc------------CCceEEEEechhhcCHHHHHHHHHHHhcCccccCCCcEeeccceEEEE
Confidence                  11111 11111111            156699999999999999999999999753           5789999


Q ss_pred             EecCC
Q psy17903        173 ICNYV  177 (355)
Q Consensus       173 ~~~~~  177 (355)
                      |+|.-
T Consensus       707 Tsn~~  711 (898)
T KOG1051|consen  707 TSNVG  711 (898)
T ss_pred             ecccc
Confidence            98854

>PRK08181 transposase; Validated

Probab=98.83  E-value=1.9e-08  Score=88.75  Aligned_cols=108  Identities=20%  Similarity=0.310  Sum_probs=61.3

Q ss_pred             HHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHH-hhccCCCCCCCCC
Q psy17903         57 LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQ-QTASGFNQDGKPC  135 (355)
Q Consensus        57 l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~-~~~~~~~~~~~~~  135 (355)
                      ...|+..+  .+++|+||+|+|||+++.++++++....+  .++.++..+      +.+.+..... .......   ...
T Consensus        99 ~~~~~~~~--~nlll~Gp~GtGKTHLa~Aia~~a~~~g~--~v~f~~~~~------L~~~l~~a~~~~~~~~~l---~~l  165 (269)
T PRK08181         99 GDSWLAKG--ANLLLFGPPGGGKSHLAAAIGLALIENGW--RVLFTRTTD------LVQKLQVARRELQLESAI---AKL  165 (269)
T ss_pred             HHHHHhcC--ceEEEEecCCCcHHHHHHHHHHHHHHcCC--ceeeeeHHH------HHHHHHHHHhCCcHHHHH---HHH
Confidence            33577644  46999999999999999999998754333  333333321      1111111000 0000000   000


Q ss_pred             CCcEEEEEeCCCCCCH--HHHHHHHHHhhhccCCccEEEEecCC
Q psy17903        136 PPFKIVILDEADSMTH--AAQAALRRTMEKETKSTRFCLICNYV  177 (355)
Q Consensus       136 ~~~~vliiDe~d~l~~--~~~~~Ll~~le~~~~~~~~Il~~~~~  177 (355)
                      ....+|||||++....  ..+..|..+++.......+|+++|.+
T Consensus       166 ~~~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        166 DKFDLLILDDLAYVTKDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             hcCCEEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence            0234999999987754  44567888887544345677788753

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.83  E-value=2.2e-08  Score=87.06  Aligned_cols=127  Identities=17%  Similarity=0.319  Sum_probs=74.3

Q ss_pred             ccccCCCCCCcccc----cHHHHHHHHHHHhcCC--CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc
Q psy17903         36 VEKYRPKTIDDVIE----QQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (355)
Q Consensus        36 ~~k~~p~~~~~~vg----~~~~~~~l~~~l~~~~--~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  109 (355)
                      .+.|++.+|+.+..    +..++..+.+++++-.  ..+++|+|++|+|||+++.++++.+.....  .++.++..+.  
T Consensus        63 ~~~~~~~tFdnf~~~~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~--~v~~it~~~l--  138 (244)
T PRK07952         63 RPLHQNCSFENYRVECEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGK--SVLIITVADI--  138 (244)
T ss_pred             CccccCCccccccCCCchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCC--eEEEEEHHHH--
Confidence            45677778988763    3345666666665422  235999999999999999999999865332  3344433221  


Q ss_pred             hHHHHHHHH-------HHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH--HHHHHHHHhhhc-cCCccEEEEecCC
Q psy17903        110 IQVIRDKVK-------TFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--AQAALRRTMEKE-TKSTRFCLICNYV  177 (355)
Q Consensus       110 ~~~i~~~i~-------~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~--~~~~Ll~~le~~-~~~~~~Il~~~~~  177 (355)
                      ...+.....       ..... .          ....+|||||++.....  ....|..+++.. ......|++||-.
T Consensus       139 ~~~l~~~~~~~~~~~~~~l~~-l----------~~~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl~  205 (244)
T PRK07952        139 MSAMKDTFSNSETSEEQLLND-L----------SNVDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNSN  205 (244)
T ss_pred             HHHHHHHHhhccccHHHHHHH-h----------ccCCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCCC
Confidence            111111100       00000 0          02349999999877533  344566777643 2345567788743

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.82  E-value=6.6e-08  Score=76.70  Aligned_cols=95  Identities=27%  Similarity=0.292  Sum_probs=58.4

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc--------------------hHHHHHHHHHHHHhhcc
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG--------------------IQVIRDKVKTFAQQTAS  126 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~--------------------~~~i~~~i~~~~~~~~~  126 (355)
                      .+++|+||+|+|||++++.++..+....  ..++.+++.....                    ..... .....+...  
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~--   77 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPG--GGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLR-LALALARKL--   77 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCC--CCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHH-HHHHHHHhc--
Confidence            4599999999999999999999986543  2345555543211                    11122 112222111  


Q ss_pred             CCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHH--------HhhhccCCccEEEEecC
Q psy17903        127 GFNQDGKPCPPFKIVILDEADSMTHAAQAALRR--------TMEKETKSTRFCLICNY  176 (355)
Q Consensus       127 ~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~--------~le~~~~~~~~Il~~~~  176 (355)
                                ...+|+|||++.+..........        ..........+|+++|.
T Consensus        78 ----------~~~viiiDei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  125 (148)
T smart00382       78 ----------KPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTND  125 (148)
T ss_pred             ----------CCCEEEEECCcccCCHHHHHHHHhhhhhHHHHHHHhcCCCEEEEEeCC
Confidence                      11499999999998766554432        22334556777777775

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.

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=98.82  E-value=2e-07  Score=90.93  Aligned_cols=205  Identities=14%  Similarity=0.100  Sum_probs=123.6

Q ss_pred             cHHHHHHHHHHHhcC-CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceee--ecCCCc--cchHHHHHHHHHHHHhh
Q psy17903         50 QQEVVSVLKKCLSGA-DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILE--LNASDD--RGIQVIRDKVKTFAQQT  124 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~-~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~--~~~~~~--~~~~~i~~~i~~~~~~~  124 (355)
                      |++++..|.-..-+. ....++|.|+.|++|+++++.++.-+...   .+++.  .+.++.  .+--++...+..    +
T Consensus         8 ~~~~~~Al~l~av~p~~~gGv~i~g~~G~~ks~~~r~l~~llp~~---~p~r~~p~~~t~~~L~Gg~Dl~~~l~~----g   80 (584)
T PRK13406          8 WADAALAAALLAVDPAGLGGVVLRARAGPVRDRWLAALRALLPAG---TPLRRLPPGIADDRLLGGLDLAATLRA----G   80 (584)
T ss_pred             HHHHHHHHHHhCcCccccceEEEEcCCCcHHHHHHHHHHHhcCCC---CCcccCCCCCcHHHccCCchHHhHhhc----C
Confidence            444444444333333 44569999999999999999999887441   12332  222221  111122222221    1


Q ss_pred             ccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCC-----------ccEEEEecC-----CccccccccCCe
Q psy17903        125 ASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKS-----------TRFCLICNY-----VSCIIQPLTSRC  188 (355)
Q Consensus       125 ~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~-----------~~~Il~~~~-----~~~l~~~l~sr~  188 (355)
                      .......--..+++.||||||+..+.+..++.|+..|++....           ..|++++.+     ..++.+++..|+
T Consensus        81 ~~~~~pGlla~Ah~GvL~lDe~n~~~~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~~~~~L~~~lLDRf  160 (584)
T PRK13406         81 RPVAQRGLLAEADGGVLVLAMAERLEPGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAEEDERAPAALADRL  160 (584)
T ss_pred             CcCCCCCceeeccCCEEEecCcccCCHHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChhcccCCCHHhHhhe
Confidence            1000011011146679999999999999999999999875321           123333322     234778899998


Q ss_pred             e-eEEecCCCHHHHH-------HHHHHHHHHcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHHHH---HhhCCCCCCH
Q psy17903        189 S-KFRFKPLAENTML-------TRLQYICEQESVMCDFKALETLVETS---GG-DMRRAITCLQSCA---RLKGGEGIVN  253 (355)
Q Consensus       189 ~-~i~~~~~~~~~~~-------~~l~~~~~~~~~~~~~~~~~~l~~~~---~g-~~r~~~~~l~~~~---~~~~~~~It~  253 (355)
                      . .+.+..++..+..       ++...+..-.++.++++.++++++.+   +- +.|..+..++.+.   .+.+...|+.
T Consensus       161 ~l~v~v~~~~~~~~~~~~~~~~~I~~AR~rl~~v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~  240 (584)
T PRK13406        161 AFHLDLDGLALRDAREIPIDADDIAAARARLPAVGPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEE  240 (584)
T ss_pred             EEEEEcCCCChHHhcccCCCHHHHHHHHHHHccCCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCH
Confidence            7 6788877765432       23322222247889999999887654   31 6677666665443   3447889999


Q ss_pred             HHHHHHhC
Q psy17903        254 EDVLEVTG  261 (355)
Q Consensus       254 ~~v~~~~~  261 (355)
                      +||.+++.
T Consensus       241 ~dv~~Aa~  248 (584)
T PRK13406        241 EDLALAAR  248 (584)
T ss_pred             HHHHHHHH
Confidence            99998763

>PRK06526 transposase; Provisional

Probab=98.81  E-value=1.2e-08  Score=89.55  Aligned_cols=122  Identities=17%  Similarity=0.175  Sum_probs=66.3

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCC
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA  146 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~  146 (355)
                      .+++|+||+|+|||+++.+++.++......  +...+..      .+.+.+............  -....+..+|||||+
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~a~~~g~~--v~f~t~~------~l~~~l~~~~~~~~~~~~--l~~l~~~dlLIIDD~  168 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIRACQAGHR--VLFATAA------QWVARLAAAHHAGRLQAE--LVKLGRYPLLIVDEV  168 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHHHHCCCc--hhhhhHH------HHHHHHHHHHhcCcHHHH--HHHhccCCEEEEccc
Confidence            469999999999999999999887543222  2222111      111111110000000000  000013349999999


Q ss_pred             CCCC--HHHHHHHHHHhhhccCCccEEEEecCCcc--------------ccccccCCeeeEEecCCCH
Q psy17903        147 DSMT--HAAQAALRRTMEKETKSTRFCLICNYVSC--------------IIQPLTSRCSKFRFKPLAE  198 (355)
Q Consensus       147 d~l~--~~~~~~Ll~~le~~~~~~~~Il~~~~~~~--------------l~~~l~sr~~~i~~~~~~~  198 (355)
                      +.+.  ...++.|..+++.......+|+++|.+..              ++..|...|..+.|...+.
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            9874  55667788887654334457778875421              1233444556677665443

>PF05729 NACHT: NACHT domain

Probab=98.80  E-value=5.8e-08  Score=79.68  Aligned_cols=142  Identities=13%  Similarity=0.162  Sum_probs=78.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCcccc----ceeeecCCCccch---HHHHHHHHHHHHhhccCCCC---CCCCCCCc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRE----RILELNASDDRGI---QVIRDKVKTFAQQTASGFNQ---DGKPCPPF  138 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~----~~~~~~~~~~~~~---~~i~~~i~~~~~~~~~~~~~---~~~~~~~~  138 (355)
                      ++|+|++|+|||++++.++..+.......    ..+.++.......   ..+.+.+.............   .......+
T Consensus         3 l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~   82 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKNKR   82 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcCCc
Confidence            78999999999999999999886533211    1223333221111   12222222111100000000   00000133


Q ss_pred             EEEEEeCCCCCCHHHH--------HHHHHHhhh-ccCCccEEEEecCCcc-ccccccCCeeeEEecCCCHHHHHHHHHHH
Q psy17903        139 KIVILDEADSMTHAAQ--------AALRRTMEK-ETKSTRFCLICNYVSC-IIQPLTSRCSKFRFKPLAENTMLTRLQYI  208 (355)
Q Consensus       139 ~vliiDe~d~l~~~~~--------~~Ll~~le~-~~~~~~~Il~~~~~~~-l~~~l~sr~~~i~~~~~~~~~~~~~l~~~  208 (355)
                      -++|||.+|.+.....        ..|..++.. ...++.+++++..... -..........+.+.+++++++.+++++.
T Consensus        83 ~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  162 (166)
T PF05729_consen   83 VLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQYLRKY  162 (166)
T ss_pred             eEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHHHHHH
Confidence            4899999999976432        234455554 3456777777764332 12222222367899999999999999987


Q ss_pred             HH
Q psy17903        209 CE  210 (355)
Q Consensus       209 ~~  210 (355)
                      ++
T Consensus       163 f~  164 (166)
T PF05729_consen  163 FS  164 (166)
T ss_pred             hh
Confidence            65

>KOG0745|consensus

Probab=98.77  E-value=7.1e-08  Score=87.65  Aligned_cols=87  Identities=23%  Similarity=0.308  Sum_probs=57.6

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccch----HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEE
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI----QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVI  142 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~----~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vli  142 (355)
                      .++|+.||+|+|||.+|+.+|+-+     +.++.-.||...+-.    +++...+..+.........     .+.+.|||
T Consensus       227 SNvLllGPtGsGKTllaqTLAr~l-----dVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVe-----kAQqGIVf  296 (564)
T KOG0745|consen  227 SNVLLLGPTGSGKTLLAQTLARVL-----DVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVE-----KAQQGIVF  296 (564)
T ss_pred             ccEEEECCCCCchhHHHHHHHHHh-----CCCeEEecccchhhcccccccHHHHHHHHHHHccCCHH-----HHhcCeEE
Confidence            359999999999999999999998     566777777653211    2233333333222111000     01345999


Q ss_pred             EeCCCCCCH--------------HHHHHHHHHhhh
Q psy17903        143 LDEADSMTH--------------AAQAALRRTMEK  163 (355)
Q Consensus       143 iDe~d~l~~--------------~~~~~Ll~~le~  163 (355)
                      |||+|.+..              ..|++|++++|-
T Consensus       297 lDEvDKi~~~~~~i~~~RDVsGEGVQQaLLKllEG  331 (564)
T KOG0745|consen  297 LDEVDKITKKAESIHTSRDVSGEGVQQALLKLLEG  331 (564)
T ss_pred             EehhhhhcccCccccccccccchhHHHHHHHHhcc
Confidence            999999962              468999999983

>KOG0736|consensus

Probab=98.77  E-value=5.8e-07  Score=87.18  Aligned_cols=224  Identities=17%  Similarity=0.203  Sum_probs=126.4

Q ss_pred             ccccHHHHHHHHHHHhcC---------CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccch--HHHHH
Q psy17903         47 VIEQQEVVSVLKKCLSGA---------DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI--QVIRD  115 (355)
Q Consensus        47 ~vg~~~~~~~l~~~l~~~---------~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~--~~i~~  115 (355)
                      ..+.+..+..+...+.-.         ..+.+|++|+||||||++++++++++     ..++++++|.+....  .....
T Consensus       403 ~~~~~~~~~~l~~vl~p~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~l-----g~h~~evdc~el~~~s~~~~et  477 (953)
T KOG0736|consen  403 PPGLEAKVLELVAVLSPQKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASEL-----GLHLLEVDCYELVAESASHTET  477 (953)
T ss_pred             CccchHHHHHHHHHhCcccCcchhccccceEEEEeCCCCCChHHHHHHHHHHh-----CCceEeccHHHHhhcccchhHH
Confidence            334555555555555321         12339999999999999999999999     446667776542111  01111


Q ss_pred             HHH-HHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHH--------HHHHHHHhh-----hccCCccEEEEecCCcccc
Q psy17903        116 KVK-TFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA--------QAALRRTME-----KETKSTRFCLICNYVSCII  181 (355)
Q Consensus       116 ~i~-~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~--------~~~Ll~~le-----~~~~~~~~Il~~~~~~~l~  181 (355)
                      .+. .|......          ..-+||+-+.|.+..++        +..+...+.     .....++||.+++....+.
T Consensus       478 kl~~~f~~a~~~----------~pavifl~~~dvl~id~dgged~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~s~~~lp  547 (953)
T KOG0736|consen  478 KLQAIFSRARRC----------SPAVLFLRNLDVLGIDQDGGEDARLLKVIRHLLSNEDFKFSCPPVIVVATTSSIEDLP  547 (953)
T ss_pred             HHHHHHHHHhhc----------CceEEEEeccceeeecCCCchhHHHHHHHHHHHhcccccCCCCceEEEEeccccccCC
Confidence            111 11111111          11288888888774321        222222222     1234577788888888888


Q ss_pred             ccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHcCC----CHHHHH--------HHHHHHHH---
Q psy17903        182 QPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDF-KALETLVETSGG----DMRRAI--------TCLQSCAR---  244 (355)
Q Consensus       182 ~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~~~~l~~~~~g----~~r~~~--------~~l~~~~~---  244 (355)
                      +.+++-+. .+.++.++++|..+|++-+.....  +.. ..++.++..+.|    ++....        .-++....   
T Consensus       548 ~~i~~~f~~ei~~~~lse~qRl~iLq~y~~~~~--~n~~v~~k~~a~~t~gfs~~~L~~l~~~~s~~~~~~i~~~~l~g~  625 (953)
T KOG0736|consen  548 ADIQSLFLHEIEVPALSEEQRLEILQWYLNHLP--LNQDVNLKQLARKTSGFSFGDLEALVAHSSLAAKTRIKNKGLAGG  625 (953)
T ss_pred             HHHHHhhhhhccCCCCCHHHHHHHHHHHHhccc--cchHHHHHHHHHhcCCCCHHHHHHHhcCchHHHHHHHHhhccccc
Confidence            88887766 799999999999999998876543  333 234445555543    222111        11111110   


Q ss_pred             ---------hhCCCCCCHHHHHHHhCCCChHHHHHHHh---------c-CCHHHHHHHHHHH
Q psy17903        245 ---------LKGGEGIVNEDVLEVTGVIPNPWIEKLLK---------V-DSFQVLEKYIEDL  287 (355)
Q Consensus       245 ---------~~~~~~It~~~v~~~~~~~~~~~~~~l~~---------~-~~~~~~~~~l~~l  287 (355)
                               ...+..++++|+.+.+.+...+....+-.         . +..++++.-+.+-
T Consensus       626 ~~~~~~~~~~~~~~~l~~edf~kals~~~~~fs~aiGAPKIPnV~WdDVGGLeevK~eIldT  687 (953)
T KOG0736|consen  626 LQEEDEGELCAAGFLLTEEDFDKALSRLQKEFSDAIGAPKIPNVSWDDVGGLEEVKTEILDT  687 (953)
T ss_pred             chhccccccccccceecHHHHHHHHHHHHHhhhhhcCCCCCCccchhcccCHHHHHHHHHHH
Confidence                     00235688999988876554443332221         1 5566666655543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.76  E-value=6.5e-07  Score=93.55  Aligned_cols=191  Identities=13%  Similarity=0.131  Sum_probs=113.8

Q ss_pred             CCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHH
Q psy17903         41 PKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  120 (355)
                      |..-..++-++...+.|...   ...+-++|+||+|+||||++..+++...    ....+.++..+..........+..+
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            44455677777777666532   2334499999999999999999886542    2234455544422211111111111


Q ss_pred             HHhhccC---------CCC-CC------------CCCCCcEEEEEeCCCCCCHHH-HHHHHHHhhhccCCccEEEEecCC
Q psy17903        121 AQQTASG---------FNQ-DG------------KPCPPFKIVILDEADSMTHAA-QAALRRTMEKETKSTRFCLICNYV  177 (355)
Q Consensus       121 ~~~~~~~---------~~~-~~------------~~~~~~~vliiDe~d~l~~~~-~~~Ll~~le~~~~~~~~Il~~~~~  177 (355)
                      .......         ... ..            ......-+|||||+|.+.... ...|..++...+.+.++|+++...
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~  162 (903)
T PRK04841         83 QQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNL  162 (903)
T ss_pred             HHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCC
Confidence            1000000         000 00            000123489999999997554 345666677667788888877653


Q ss_pred             ccc-cccccCCeeeEEec----CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHH
Q psy17903        178 SCI-IQPLTSRCSKFRFK----PLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQS  241 (355)
Q Consensus       178 ~~l-~~~l~sr~~~i~~~----~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~  241 (355)
                      ..+ ...++-+...+.+.    +++.+|...++...   .|..++++.+..+.+.++|++..+.-.+..
T Consensus       163 ~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~---~~~~~~~~~~~~l~~~t~Gwp~~l~l~~~~  228 (903)
T PRK04841        163 PPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQR---LSSPIEAAESSRLCDDVEGWATALQLIALS  228 (903)
T ss_pred             CCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhc---cCCCCCHHHHHHHHHHhCChHHHHHHHHHH
Confidence            222 22333333344444    88999999988754   467789999999999999999776644443

>PLN03210 Resistant to P

Probab=98.75  E-value=6.1e-07  Score=95.53  Aligned_cols=193  Identities=10%  Similarity=0.074  Sum_probs=108.5

Q ss_pred             CCCCcccccHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeee---cCCC---------c
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILEL---NASD---------D  107 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~---~~~~---------~  107 (355)
                      ..+++++|.+..++.+..++.-.  ...-+-|+|++|+||||+|+++++.+...+....++..   ....         .
T Consensus       181 ~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~~  260 (1153)
T PLN03210        181 NDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDD  260 (1153)
T ss_pred             cccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeeccccccchhhcccccccc
Confidence            46889999999999999888533  22239999999999999999999887543211111110   0000         0


Q ss_pred             cc-hHHHH-HHHHHHHHhhccCCCC----CCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCcccc
Q psy17903        108 RG-IQVIR-DKVKTFAQQTASGFNQ----DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCII  181 (355)
Q Consensus       108 ~~-~~~i~-~~i~~~~~~~~~~~~~----~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~  181 (355)
                      .. ...+. ..+.............    ..+-...+-+||+||++..  ...+.|....+.......+|++|.+..-+.
T Consensus       261 ~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~  338 (1153)
T PLN03210        261 YNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRIIVITKDKHFLR  338 (1153)
T ss_pred             cchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEEEEEeCcHHHHH
Confidence            00 00011 1111111000000000    0000013458999998753  445566555444445567787887654322


Q ss_pred             ccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHHHHH
Q psy17903        182 QPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCD--FKALETLVETSGGDMRRAITC  238 (355)
Q Consensus       182 ~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~~~~l~~~~~g~~r~~~~~  238 (355)
                      ..  .-...+++..++.++..+++...+.+....-+  .+....+++.++|-+-.+.-.
T Consensus       339 ~~--~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vl  395 (1153)
T PLN03210        339 AH--GIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVL  395 (1153)
T ss_pred             hc--CCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHH
Confidence            11  01247888899999999999888765432221  244666888899988655443

syringae 6; Provisional

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

Probab=98.72  E-value=3.3e-08  Score=77.97  Aligned_cols=107  Identities=17%  Similarity=0.261  Sum_probs=61.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCcc---ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCC---------CCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMY---RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDG---------KPC  135 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~---------~~~  135 (355)
                      .++++||+|+|||++++.+++.+.....   ...++.+++........+...+...............         -..
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            4899999999999999999998743100   2345555554433333333332222211111000000         000


Q ss_pred             CCcEEEEEeCCCCC-CHHHHHHHHHHhhhccCCccEEEEecC
Q psy17903        136 PPFKIVILDEADSM-THAAQAALRRTMEKETKSTRFCLICNY  176 (355)
Q Consensus       136 ~~~~vliiDe~d~l-~~~~~~~Ll~~le~~~~~~~~Il~~~~  176 (355)
                      ....+|||||+|.+ ..+..+.|..+++  ..++.+|+++.+
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            12249999999999 8888888877777  556677777764

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=98.67  E-value=4.7e-08  Score=81.25  Aligned_cols=94  Identities=23%  Similarity=0.368  Sum_probs=53.5

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc-------cchHHHHHHHHHHHHhhccCCCCCCCCCCCcE
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD-------RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFK  139 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-------~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~  139 (355)
                      .+++|+||+|+|||++|.++++++.....  .+..++..+.       .........+..+.               +..
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            46999999999999999999998765433  2333332210       00011112222222               224


Q ss_pred             EEEEeCCCCCC--HHHHHHHHHHhhhccCCccEEEEecCC
Q psy17903        140 IVILDEADSMT--HAAQAALRRTMEKETKSTRFCLICNYV  177 (355)
Q Consensus       140 vliiDe~d~l~--~~~~~~Ll~~le~~~~~~~~Il~~~~~  177 (355)
                      +|||||+....  ....+.|..+++..-.+...|++||..
T Consensus       111 lLilDDlG~~~~~~~~~~~l~~ii~~R~~~~~tIiTSN~~  150 (178)
T PF01695_consen  111 LLILDDLGYEPLSEWEAELLFEIIDERYERKPTIITSNLS  150 (178)
T ss_dssp             CEEEETCTSS---HHHHHCTHHHHHHHHHT-EEEEEESS-
T ss_pred             EecccccceeeecccccccchhhhhHhhcccCeEeeCCCc
Confidence            99999998764  334556667776543333567788743

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.

>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=98.66  E-value=4.1e-06  Score=72.38  Aligned_cols=138  Identities=18%  Similarity=0.174  Sum_probs=89.0

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCC
Q psy17903         55 SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKP  134 (355)
Q Consensus        55 ~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~  134 (355)
                      ..|..++....  .-.++||+|+|||.+++.+++.+     ...++.+||++..+...+...+...+..+.         
T Consensus        23 ~~l~~al~~~~--~~~~~GpagtGKtetik~La~~l-----G~~~~vfnc~~~~~~~~l~ril~G~~~~Ga---------   86 (231)
T PF12774_consen   23 LTLTQALSLNL--GGALSGPAGTGKTETIKDLARAL-----GRFVVVFNCSEQMDYQSLSRILKGLAQSGA---------   86 (231)
T ss_dssp             HHHHHHHCTTT--EEEEESSTTSSHHHHHHHHHHCT-----T--EEEEETTSSS-HHHHHHHHHHHHHHT----------
T ss_pred             HHHHHHhccCC--CCCCcCCCCCCchhHHHHHHHHh-----CCeEEEecccccccHHHHHHHHHHHhhcCc---------
Confidence            34445554332  35789999999999999999998     446789999999899888888888877653         


Q ss_pred             CCCcEEEEEeCCCCCCHHHHHHHHHHhh-------hc-------------cCCccEEEEecC----CccccccccCCeee
Q psy17903        135 CPPFKIVILDEADSMTHAAQAALRRTME-------KE-------------TKSTRFCLICNY----VSCIIQPLTSRCSK  190 (355)
Q Consensus       135 ~~~~~vliiDe~d~l~~~~~~~Ll~~le-------~~-------------~~~~~~Il~~~~----~~~l~~~l~sr~~~  190 (355)
                           -+++||++++..+....+...+.       ..             .+++.+.++.|.    ...+.+.+++-++.
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                 58999999999876544433322       11             123334444442    24578889999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCC
Q psy17903        191 FRFKPLAENTMLTRLQYICEQESVMC  216 (355)
Q Consensus       191 i~~~~~~~~~~~~~l~~~~~~~~~~~  216 (355)
                      +.+..|+...+.+++-   -..|..-
T Consensus       162 vam~~PD~~~I~ei~L---~s~GF~~  184 (231)
T PF12774_consen  162 VAMMVPDLSLIAEILL---LSQGFKD  184 (231)
T ss_dssp             EE--S--HHHHHHHHH---HCCCTSS
T ss_pred             eEEeCCCHHHHHHHHH---HHcCchh
Confidence            9999998887766644   3355543

>PF14516 AAA_35: AAA-like domain

Probab=98.63  E-value=1.8e-05  Score=72.61  Aligned_cols=201  Identities=18%  Similarity=0.161  Sum_probs=115.0

Q ss_pred             ccccHHHHHHHHHHHhc-CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc---cchHHHH-HHHHHHH
Q psy17903         47 VIEQQEVVSVLKKCLSG-ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD---RGIQVIR-DKVKTFA  121 (355)
Q Consensus        47 ~vg~~~~~~~l~~~l~~-~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~---~~~~~i~-~~i~~~~  121 (355)
                      .|.++.+-+.+.+.+.+ |.  .+.|.||..+|||++...+.+.+....+...++.+...+.   ...+.+. .......
T Consensus        13 Yi~R~~~e~~~~~~i~~~G~--~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~   90 (331)
T PF14516_consen   13 YIERPPAEQECYQEIVQPGS--YIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFLRWFCEEIS   90 (331)
T ss_pred             ccCchHHHHHHHHHHhcCCC--EEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHHHHHHHHHH
Confidence            44555566677767665 43  5899999999999999999998866544333333332211   1122111 1111110


Q ss_pred             Hhhc------------cCCCCC---------CCCCCCcEEEEEeCCCCCCH------HHHHHHHHHhhhcc-----CCcc
Q psy17903        122 QQTA------------SGFNQD---------GKPCPPFKIVILDEADSMTH------AAQAALRRTMEKET-----KSTR  169 (355)
Q Consensus       122 ~~~~------------~~~~~~---------~~~~~~~~vliiDe~d~l~~------~~~~~Ll~~le~~~-----~~~~  169 (355)
                      ..-.            .+....         -......=|++|||+|.+..      +....|+...++..     ...+
T Consensus        91 ~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~~~L~  170 (331)
T PF14516_consen   91 RQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIWQKLR  170 (331)
T ss_pred             HHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCcccceEE
Confidence            0000            000000         00001234899999998865      22333444444322     2355


Q ss_pred             EEEEecCCcccc-----ccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        170 FCLICNYVSCII-----QPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       170 ~Il~~~~~~~l~-----~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                      +|++......+.     .++ .-+..+.++.++.+|+...++.    .+..+++..++.+...++|.+--+...+..++.
T Consensus       171 li~~~~t~~~~~~~~~~SPF-NIg~~i~L~~Ft~~ev~~L~~~----~~~~~~~~~~~~l~~~tgGhP~Lv~~~~~~l~~  245 (331)
T PF14516_consen  171 LILAGSTEDYIILDINQSPF-NIGQPIELPDFTPEEVQELAQR----YGLEFSQEQLEQLMDWTGGHPYLVQKACYLLVE  245 (331)
T ss_pred             EEEecCcccccccCCCCCCc-ccccceeCCCCCHHHHHHHHHh----hhccCCHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            666654322111     122 3344789999999999877664    466788888999999999999877777776665


Q ss_pred             hhCCCCCCHHHHHH
Q psy17903        245 LKGGEGIVNEDVLE  258 (355)
Q Consensus       245 ~~~~~~It~~~v~~  258 (355)
                          ..++.+++.+
T Consensus       246 ----~~~~~~~l~~  255 (331)
T PF14516_consen  246 ----EQITLEQLLE  255 (331)
T ss_pred             ----ccCcHHHHHH
Confidence                3566555543

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.62  E-value=8.7e-07  Score=70.25  Aligned_cols=125  Identities=16%  Similarity=0.272  Sum_probs=67.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccc-----------------cceeeecCCC--------c---------cchHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYR-----------------ERILELNASD--------D---------RGIQVIR  114 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~-----------------~~~~~~~~~~--------~---------~~~~~i~  114 (355)
                      +.++|+||+||||++..++..+....++                 +.++.+....        .         -..+.+.
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            8999999999999999999988643221                 1222222111        0         0112222


Q ss_pred             HHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCC---CHHHHHHHHHHhhhccCCccEEEEec--CCccccccccCCee
Q psy17903        115 DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM---THAAQAALRRTMEKETKSTRFCLICN--YVSCIIQPLTSRCS  189 (355)
Q Consensus       115 ~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l---~~~~~~~Ll~~le~~~~~~~~Il~~~--~~~~l~~~l~sr~~  189 (355)
                      +...........          ...+|||||+..|   ++.....+-..|....+   +|++-+  +.+.+...++++..
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            222221111111          1249999999887   33444555556653322   444443  44567778888888


Q ss_pred             eEEecCCCHHHHHHHHHHH
Q psy17903        190 KFRFKPLAENTMLTRLQYI  208 (355)
Q Consensus       190 ~i~~~~~~~~~~~~~l~~~  208 (355)
                      .+.|  ++.+..-.++.++
T Consensus       155 v~v~--lt~~NR~~i~~~I  171 (179)
T COG1618         155 VYVF--LTPENRNRILNEI  171 (179)
T ss_pred             EEEE--EccchhhHHHHHH
Confidence            7664  4433333444433

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.61  E-value=3e-07  Score=83.65  Aligned_cols=132  Identities=17%  Similarity=0.259  Sum_probs=72.4

Q ss_pred             HHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHH-HHHHHHhh--ccC
Q psy17903         53 VVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK-VKTFAQQT--ASG  127 (355)
Q Consensus        53 ~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~-i~~~~~~~--~~~  127 (355)
                      ++.....++.+-  ...+++|+||+|+|||+++.++++++.....  .++.++..+.  ...+... ........  ...
T Consensus       168 ~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~aIa~~l~~~g~--~V~y~t~~~l--~~~l~~~~~~~~~~~~~~~~~  243 (329)
T PRK06835        168 ILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNCIAKELLDRGK--SVIYRTADEL--IEILREIRFNNDKELEEVYDL  243 (329)
T ss_pred             HHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHCCC--eEEEEEHHHH--HHHHHHHHhccchhHHHHHHH
Confidence            344444555531  2255999999999999999999999865433  4455444331  1111110 00000000  000


Q ss_pred             CCCCCCCCCCcEEEEEeCCCCC--CHHHHHHHHHHhhhccC-CccEEEEecCC-cc----ccccccCC----eeeEEecC
Q psy17903        128 FNQDGKPCPPFKIVILDEADSM--THAAQAALRRTMEKETK-STRFCLICNYV-SC----IIQPLTSR----CSKFRFKP  195 (355)
Q Consensus       128 ~~~~~~~~~~~~vliiDe~d~l--~~~~~~~Ll~~le~~~~-~~~~Il~~~~~-~~----l~~~l~sr----~~~i~~~~  195 (355)
                      .       .+..+|||||++..  ++..+..|..+++..-. ...+|++||.. ..    +.+.+.||    +..+.|..
T Consensus       244 l-------~~~DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl~~~el~~~~~eri~SRL~~~~~~i~~~G  316 (329)
T PRK06835        244 L-------INCDLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNLSLEELLKTYSERISSRLLGNFTLLKFYG  316 (329)
T ss_pred             h-------ccCCEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHhHHHHHHHHcCCEEEEecC
Confidence            0       02349999999655  55567788888875432 34577788743 22    22344444    44666644

>PRK04132 replication factor C small subunit; Provisional

Probab=98.60  E-value=2.4e-08  Score=100.28  Aligned_cols=52  Identities=48%  Similarity=0.964  Sum_probs=48.9

Q ss_pred             CCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHH
Q psy17903         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTST   82 (355)
Q Consensus        31 ~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~l   82 (355)
                      .+.||.+||||.+|++++||+++++.|+.+++.+..+|++|+||||+||...
T Consensus         5 ~~~~~~~k~RP~~f~dIiGqe~i~~~Lk~~i~~~~i~h~l~~g~~g~~~cl~   56 (846)
T PRK04132          5 LEKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKCLT   56 (846)
T ss_pred             hcccHHHhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEECCCCCCcccc
Confidence            4679999999999999999999999999999999999999999999999643

>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=98.59  E-value=1.4e-07  Score=83.82  Aligned_cols=148  Identities=18%  Similarity=0.222  Sum_probs=86.1

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCC--CCC
Q psy17903         56 VLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQ--DGK  133 (355)
Q Consensus        56 ~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~--~~~  133 (355)
                      -+..+++.+.  ++||+||+|+|||++++.+.+.+..+.+  ....++.+.......++..++..    ......  -+.
T Consensus        25 ll~~l~~~~~--pvLl~G~~GtGKT~li~~~l~~l~~~~~--~~~~~~~s~~Tts~~~q~~ie~~----l~k~~~~~~gP   96 (272)
T PF12775_consen   25 LLDLLLSNGR--PVLLVGPSGTGKTSLIQNFLSSLDSDKY--LVITINFSAQTTSNQLQKIIESK----LEKRRGRVYGP   96 (272)
T ss_dssp             HHHHHHHCTE--EEEEESSTTSSHHHHHHHHHHCSTTCCE--EEEEEES-TTHHHHHHHHCCCTT----ECECTTEEEEE
T ss_pred             HHHHHHHcCC--cEEEECCCCCchhHHHHhhhccCCcccc--ceeEeeccCCCCHHHHHHHHhhc----EEcCCCCCCCC
Confidence            3444555543  6999999999999999998887654432  23445555544444444333221    111000  011


Q ss_pred             CCCCcEEEEEeCCCCCCHH------HHHHHHHHhhhcc------------CCccEEEEecCC---ccccccccCCeeeEE
Q psy17903        134 PCPPFKIVILDEADSMTHA------AQAALRRTMEKET------------KSTRFCLICNYV---SCIIQPLTSRCSKFR  192 (355)
Q Consensus       134 ~~~~~~vliiDe~d~l~~~------~~~~Ll~~le~~~------------~~~~~Il~~~~~---~~l~~~l~sr~~~i~  192 (355)
                      +..++-++||||++.-.++      ..+.|+.+++...            .++.+|.+++..   ..+.+.+.+.+.++.
T Consensus        97 ~~~k~lv~fiDDlN~p~~d~ygtq~~iElLRQ~i~~~g~yd~~~~~~~~i~~i~~vaa~~p~~Gr~~is~R~~r~f~i~~  176 (272)
T PF12775_consen   97 PGGKKLVLFIDDLNMPQPDKYGTQPPIELLRQLIDYGGFYDRKKLEWKSIEDIQFVAAMNPTGGRNPISPRFLRHFNILN  176 (272)
T ss_dssp             ESSSEEEEEEETTT-S---TTS--HHHHHHHHHHHCSEEECTTTTEEEEECSEEEEEEESSTTT--SHHHHHHTTEEEEE
T ss_pred             CCCcEEEEEecccCCCCCCCCCCcCHHHHHHHHHHhcCcccCCCcEEEEEeeeEEEEecCCCCCCCCCChHHhhheEEEE
Confidence            2123448999999876543      2456666665321            246677666643   236678889999999


Q ss_pred             ecCCCHHHHHHHHHHHHHH
Q psy17903        193 FKPLAENTMLTRLQYICEQ  211 (355)
Q Consensus       193 ~~~~~~~~~~~~l~~~~~~  211 (355)
                      +..|+.+.+..++..++..
T Consensus       177 ~~~p~~~sl~~If~~il~~  195 (272)
T PF12775_consen  177 IPYPSDESLNTIFSSILQS  195 (272)
T ss_dssp             ----TCCHHHHHHHHHHHH
T ss_pred             ecCCChHHHHHHHHHHHhh
Confidence            9999999999998887764

>PRK06921 hypothetical protein; Provisional

Probab=98.55  E-value=5.7e-07  Score=79.70  Aligned_cols=100  Identities=13%  Similarity=0.213  Sum_probs=56.4

Q ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhcCC-ccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEe
Q psy17903         66 LPHFLFYGPPGTGKTSTMIAACHQLFGD-MYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILD  144 (355)
Q Consensus        66 ~~~~ll~Gp~G~GKt~la~~l~~~l~~~-~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiD  144 (355)
                      ..+++|+|++|+|||+++.++++++... ..  .++.+...+.  ...+...+..+.... ...       ....+||||
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~--~v~y~~~~~l--~~~l~~~~~~~~~~~-~~~-------~~~dlLiID  184 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGV--PVLYFPFVEG--FGDLKDDFDLLEAKL-NRM-------KKVEVLFID  184 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCc--eEEEEEHHHH--HHHHHHHHHHHHHHH-HHh-------cCCCEEEEe
Confidence            3459999999999999999999998643 22  3444443221  112222111111100 000       023499999


Q ss_pred             CCCC-------CCHHHHHHHHHHhhhccC-CccEEEEecCC
Q psy17903        145 EADS-------MTHAAQAALRRTMEKETK-STRFCLICNYV  177 (355)
Q Consensus       145 e~d~-------l~~~~~~~Ll~~le~~~~-~~~~Il~~~~~  177 (355)
                      |++.       .+.-.+..|..+++.... ...+|+++|..
T Consensus       185 Dl~~~~~g~e~~t~~~~~~lf~iin~R~~~~k~tIitsn~~  225 (266)
T PRK06921        185 DLFKPVNGKPRATEWQIEQMYSVLNYRYLNHKPILISSELT  225 (266)
T ss_pred             ccccccCCCccCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            9944       344445667777765432 24467788753

>PHA00729 NTP-binding motif containing protein

Probab=98.55  E-value=3.5e-07  Score=77.90  Aligned_cols=126  Identities=12%  Similarity=0.122  Sum_probs=71.4

Q ss_pred             HHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccc--cceeeecCC---CccchHHHHHHHHHHHHhhccCCCCC
Q psy17903         57 LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYR--ERILELNAS---DDRGIQVIRDKVKTFAQQTASGFNQD  131 (355)
Q Consensus        57 l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~--~~~~~~~~~---~~~~~~~i~~~i~~~~~~~~~~~~~~  131 (355)
                      +.+.+..+...+++|+|+||+|||++|.++++.+......  ......+..   -....+.+.+.+.......       
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            3344455566679999999999999999999987411100  000000100   0122333444443322110       


Q ss_pred             CCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHH
Q psy17903        132 GKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQY  207 (355)
Q Consensus       132 ~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~  207 (355)
                      .    ...++||||+......-.        .+...    +  .....+.+++++|+..+.|.+++.+++...++.
T Consensus        81 ~----~~dlLIIDd~G~~~~~~~--------wh~~~----~--~~yf~L~~aLrSR~~l~il~~ls~edL~~~Lr~  138 (226)
T PHA00729         81 Y----RIPLIIFDDAGIWLSKYV--------WYEDY----M--KTFYKIYALIRTRVSAVIFTTPSPEDLAFYLRE  138 (226)
T ss_pred             C----CCCEEEEeCCchhhcccc--------hhhhc----c--chHHHHHHHHHhhCcEEEEecCCHHHHHHHHHh
Confidence            0    123899999754321100        00000    0  123346788899999999999999999888775

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.54  E-value=1.9e-07  Score=84.24  Aligned_cols=122  Identities=11%  Similarity=0.163  Sum_probs=65.7

Q ss_pred             CCCCCcccc----cHHHHHHHHHHHhcC----CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHH
Q psy17903         41 PKTIDDVIE----QQEVVSVLKKCLSGA----DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQV  112 (355)
Q Consensus        41 p~~~~~~vg----~~~~~~~l~~~l~~~----~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  112 (355)
                      ..+|+++..    +..+......++...    ...+++|+||+|+|||+++.++++++......  +..+..++  -...
T Consensus       123 ~atf~~~~~~~~~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~--v~~~~~~~--l~~~  198 (306)
T PRK08939        123 QASLADIDLDDRDRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKKGVS--STLLHFPE--FIRE  198 (306)
T ss_pred             cCcHHHhcCCChHHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCC--EEEEEHHH--HHHH
Confidence            456776653    233444445566532    23459999999999999999999998644332  22222221  1111


Q ss_pred             HHHHHH-----HHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--HHHHHHHH-Hhhhc-cCCccEEEEecCC
Q psy17903        113 IRDKVK-----TFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRR-TMEKE-TKSTRFCLICNYV  177 (355)
Q Consensus       113 i~~~i~-----~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--~~~~~Ll~-~le~~-~~~~~~Il~~~~~  177 (355)
                      +...+.     ..... .          ....+|||||+..-..  -....++. +++.. ......|+++|-.
T Consensus       199 lk~~~~~~~~~~~l~~-l----------~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl~  261 (306)
T PRK08939        199 LKNSISDGSVKEKIDA-V----------KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNFD  261 (306)
T ss_pred             HHHHHhcCcHHHHHHH-h----------cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCCC
Confidence            111110     00000 0          0234999999976543  33333444 44433 3445567788754

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=98.54  E-value=2.5e-06  Score=83.62  Aligned_cols=136  Identities=23%  Similarity=0.266  Sum_probs=83.4

Q ss_pred             CcccccHHHHHHHHHHHhcCC---------C---CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchH-
Q psy17903         45 DDVIEQQEVVSVLKKCLSGAD---------L---PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ-  111 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~~---------~---~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~-  111 (355)
                      ..+.|++.++..|.=.+-+|.         .   -|+||.|.||+|||.+.+.+++-.....    +....++...+.. 
T Consensus       286 PsIyG~e~VKkAilLqLfgGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aPr~v----ytsgkgss~~GLTA  361 (682)
T COG1241         286 PSIYGHEDVKKAILLQLFGGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAPRGV----YTSGKGSSAAGLTA  361 (682)
T ss_pred             ccccCcHHHHHHHHHHhcCCCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCCceE----EEccccccccCcee
Confidence            356788888777765553321         1   2599999999999999999998864321    2222222222211 


Q ss_pred             -HHHHHH--HHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-------------CCccEEEEec
Q psy17903        112 -VIRDKV--KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-------------KSTRFCLICN  175 (355)
Q Consensus       112 -~i~~~i--~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-------------~~~~~Il~~~  175 (355)
                       ..++..  ......+.       -..++++|++|||+|.|+.....+|...||+..             ..+-++.++|
T Consensus       362 av~rd~~tge~~LeaGA-------LVlAD~Gv~cIDEfdKm~~~dr~aihEaMEQQtIsIaKAGI~atLnARcsvLAAaN  434 (682)
T COG1241         362 AVVRDKVTGEWVLEAGA-------LVLADGGVCCIDEFDKMNEEDRVAIHEAMEQQTISIAKAGITATLNARCSVLAAAN  434 (682)
T ss_pred             EEEEccCCCeEEEeCCE-------EEEecCCEEEEEeccCCChHHHHHHHHHHHhcEeeecccceeeecchhhhhhhhhC
Confidence             001100  00001111       111466799999999999999999999999632             2345566676


Q ss_pred             CCc-------------cccccccCCeeeE
Q psy17903        176 YVS-------------CIIQPLTSRCSKF  191 (355)
Q Consensus       176 ~~~-------------~l~~~l~sr~~~i  191 (355)
                      ...             .+.++|.||+..+
T Consensus       435 P~~Gryd~~~~~~enI~l~~~lLSRFDLi  463 (682)
T COG1241         435 PKFGRYDPKKTVAENINLPAPLLSRFDLI  463 (682)
T ss_pred             CCCCcCCCCCCHHHhcCCChhHHhhCCee
Confidence            432             1467899998744

>PRK09183 transposase/IS protein; Provisional

Probab=98.52  E-value=3.6e-07  Score=80.73  Aligned_cols=97  Identities=20%  Similarity=0.223  Sum_probs=54.5

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHH-----HHHHHHhhccCCCCCCCCCCCcEEE
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK-----VKTFAQQTASGFNQDGKPCPPFKIV  141 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~-----i~~~~~~~~~~~~~~~~~~~~~~vl  141 (355)
                      .+++|+||+|+|||+++.+++........  .+..++..+..  ..+...     +........      .    ...++
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~~~G~--~v~~~~~~~l~--~~l~~a~~~~~~~~~~~~~~------~----~~dlL  168 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAVRAGI--KVRFTTAADLL--LQLSTAQRQGRYKTTLQRGV------M----APRLL  168 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHcCC--eEEEEeHHHHH--HHHHHHHHCCcHHHHHHHHh------c----CCCEE
Confidence            35999999999999999999887533222  23333322110  011000     000000000      0    22399


Q ss_pred             EEeCCCCC--CHHHHHHHHHHhhhccCCccEEEEecCC
Q psy17903        142 ILDEADSM--THAAQAALRRTMEKETKSTRFCLICNYV  177 (355)
Q Consensus       142 iiDe~d~l--~~~~~~~Ll~~le~~~~~~~~Il~~~~~  177 (355)
                      ||||++..  .....+.|..+++.......+|+++|..
T Consensus       169 iiDdlg~~~~~~~~~~~lf~li~~r~~~~s~iiTsn~~  206 (259)
T PRK09183        169 IIDEIGYLPFSQEEANLFFQVIAKRYEKGSMILTSNLP  206 (259)
T ss_pred             EEcccccCCCChHHHHHHHHHHHHHHhcCcEEEecCCC
Confidence            99999875  4455567888876533333477788753

>KOG0741|consensus

Probab=98.50  E-value=2.2e-06  Score=79.96  Aligned_cols=152  Identities=14%  Similarity=0.246  Sum_probs=87.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC-ccch------HHHHHHHHHHHHhhccCCCCCCCCCCCcEEE
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD-DRGI------QVIRDKVKTFAQQTASGFNQDGKPCPPFKIV  141 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~-~~~~------~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vl  141 (355)
                      +||+||||+|||+||..++...     .++++.+-.++ ..+.      ..+...+......             .--+|
T Consensus       541 vLl~Gp~~sGKTaLAA~iA~~S-----~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS-------------~lsii  602 (744)
T KOG0741|consen  541 VLLEGPPGSGKTALAAKIALSS-----DFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKS-------------PLSII  602 (744)
T ss_pred             EEEecCCCCChHHHHHHHHhhc-----CCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcC-------------cceEE
Confidence            9999999999999999999886     55666554333 2222      2233333332222             22399


Q ss_pred             EEeCCCCCCH----------HHHHHHHHHhhhccCC--ccEEEEecCCccccccc--cCCe-eeEEecCCCH-HHHHHHH
Q psy17903        142 ILDEADSMTH----------AAQAALRRTMEKETKS--TRFCLICNYVSCIIQPL--TSRC-SKFRFKPLAE-NTMLTRL  205 (355)
Q Consensus       142 iiDe~d~l~~----------~~~~~Ll~~le~~~~~--~~~Il~~~~~~~l~~~l--~sr~-~~i~~~~~~~-~~~~~~l  205 (355)
                      +||++++|-.          -..++|+-++.+.|+.  -.+|++|+....++..+  ..-+ ..++++.++. +++.+++
T Consensus       603 vvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~~~~~~vl  682 (744)
T KOG0741|consen  603 VVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTGEQLLEVL  682 (744)
T ss_pred             EEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCchHHHHHHH
Confidence            9999998832          2356666667665443  55677666543332221  1111 2677777775 7777776


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHcCC-----CHHHHHHHHHHHH
Q psy17903        206 QYICEQESVMCDFKALETLVETSGG-----DMRRAITCLQSCA  243 (355)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~l~~~~~g-----~~r~~~~~l~~~~  243 (355)
                      ...     -.++++..+.+++.-.+     .+.+++..++.+.
T Consensus       683 ~~~-----n~fsd~~~~~~~~~~~~~~~~vgIKklL~lie~a~  720 (744)
T KOG0741|consen  683 EEL-----NIFSDDEVRAIAEQLLSKKVNVGIKKLLMLIEMAR  720 (744)
T ss_pred             HHc-----cCCCcchhHHHHHHHhccccchhHHHHHHHHHHHh
Confidence            632     23455555554443322     2566666666543

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

Probab=98.50  E-value=1.2e-07  Score=79.32  Aligned_cols=48  Identities=25%  Similarity=0.387  Sum_probs=33.5

Q ss_pred             cccccHHHHHHHHHHHh---cCCCCeEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         46 DVIEQQEVVSVLKKCLS---GADLPHFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~---~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      +++|+++.++.|...+.   .+..+.++|+|++|+|||++++++...+...
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            47899999999999993   2333449999999999999999998887543

>KOG0482|consensus

Probab=98.49  E-value=4.1e-06  Score=77.81  Aligned_cols=284  Identities=18%  Similarity=0.202  Sum_probs=163.6

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCC---------C---CeEEEECCCCCCHHHHHHHHHHHhcCCcccccee
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGAD---------L---PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERIL  100 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~---------~---~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~  100 (355)
                      -.+.||....---++.|+.++++.|.-++-+|.         .   -|+++.|.||+.||.|.+.+.+-.....    +.
T Consensus       330 ~d~yekLa~SiAPEIyGheDVKKaLLLlLVGgvd~~~~dGMKIRGdINicLmGDPGVAKSQLLkyi~rlapRgv----YT  405 (721)
T KOG0482|consen  330 GDFYEKLAASIAPEIYGHEDVKKALLLLLVGGVDKSPGDGMKIRGDINICLMGDPGVAKSQLLKYISRLAPRGV----YT  405 (721)
T ss_pred             ccHHHHHHHhhchhhccchHHHHHHHHHhhCCCCCCCCCCceeecceeEEecCCCchhHHHHHHHHHhcCcccc----ee
Confidence            344555544444579999999998887774331         1   1499999999999999999988753322    22


Q ss_pred             eecCCCccchHHHHHHHHHHHHhhccCC-CCCCC--CCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc------------
Q psy17903        101 ELNASDDRGIQVIRDKVKTFAQQTASGF-NQDGK--PCPPFKIVILDEADSMTHAAQAALRRTMEKET------------  165 (355)
Q Consensus       101 ~~~~~~~~~~~~i~~~i~~~~~~~~~~~-~~~~~--~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~------------  165 (355)
                      ...++  +++.......+.    +..+- ...|.  ..++.+|.+|||+|.|.....-++-++||.-.            
T Consensus       406 TGrGS--SGVGLTAAVmkD----pvTgEM~LEGGALVLAD~GICCIDEfDKM~e~DRtAIHEVMEQQTISIaKAGI~TtL  479 (721)
T KOG0482|consen  406 TGRGS--SGVGLTAAVMKD----PVTGEMVLEGGALVLADGGICCIDEFDKMDESDRTAIHEVMEQQTISIAKAGINTTL  479 (721)
T ss_pred             cCCCC--CccccchhhhcC----CCCCeeEeccceEEEccCceEeehhhhhhhhhhhHHHHHHHHhhhhhhhhhccccch
Confidence            22222  222211111110    11000 00011  11466799999999999888888888888532            


Q ss_pred             -CCccEEEEecCCc-------------cccccccCCee-------------------------------eEEecCCCHHH
Q psy17903        166 -KSTRFCLICNYVS-------------CIIQPLTSRCS-------------------------------KFRFKPLAENT  200 (355)
Q Consensus       166 -~~~~~Il~~~~~~-------------~l~~~l~sr~~-------------------------------~i~~~~~~~~~  200 (355)
                       ..+.++.++|...             .+..+|.||+.                               ...|.|++.+-
T Consensus       480 NAR~sILaAANPayGRYnprrs~e~NI~LPaALLSRFDll~Li~D~pdrd~D~~LA~HiTyVH~H~~qp~~~fepl~~~~  559 (721)
T KOG0482|consen  480 NARTSILAAANPAYGRYNPRRSPEQNINLPAALLSRFDLLWLIQDRPDRDNDLRLAQHITYVHQHEEQPPLDFEPLDPNL  559 (721)
T ss_pred             hhhHHhhhhcCccccccCcccChhHhcCCcHHHHHhhhhhhhhccCCcccchHHHHHHhHhhhccCCCCCccCCCCCHHH
Confidence             2344555555321             13456666653                               23466677777


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHH--------------cCCCHHHHHHHHHHHH---HhhCCCCCCHHHHHHHhCCC
Q psy17903        201 MLTRLQYICEQESVMCDFKALETLVET--------------SGGDMRRAITCLQSCA---RLKGGEGIVNEDVLEVTGVI  263 (355)
Q Consensus       201 ~~~~l~~~~~~~~~~~~~~~~~~l~~~--------------~~g~~r~~~~~l~~~~---~~~~~~~It~~~v~~~~~~~  263 (355)
                      ++.++. .|+..+-.++++..+++...              +.-.+|.++.+|+...   .+.-...+..+||.+++.-+
T Consensus       560 mR~yI~-~ak~~~P~vp~~l~dyi~~AYv~~Rrea~~~~~~t~ttpRtLL~IlRls~AlarLRls~~V~~~DV~EALRLm  638 (721)
T KOG0482|consen  560 MRRYIS-LAKRKNPVVPEALADYITGAYVELRREARSSKDFTYTTPRTLLGILRLSTALARLRLSDSVEEDDVNEALRLM  638 (721)
T ss_pred             HHHHHH-HHhhcCCCCCHHHHHHHHHHHHHHHHHhhccCCCcccCHHHHHHHHHHHHHHHHhhhccccchhhHHHHHHHH
Confidence            776655 55656666777777776543              1246777777775433   33234668888888776321


Q ss_pred             Ch---HHHHH---HHhcCCHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Q psy17903        264 PN---PWIEK---LLKVDSFQVLEKYIEDLIL-EAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNAR  329 (355)
Q Consensus       264 ~~---~~~~~---l~~~~~~~~~~~~l~~l~~-~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~  329 (355)
                      .-   +...+   .-+....+.+..+++++.. .|.....+-....+...+  +|++.++...++.-.++.-.
T Consensus       639 e~sK~sL~~~~~~~~~~~~~~~if~iirel~~e~g~~~v~~s~~~~r~~~k--Gfs~~ql~~~i~ey~~lnVw  709 (721)
T KOG0482|consen  639 EMSKDSLYQDDGQKEDTSATDAIFAIIRELAGEGGKRCVKLSNAEQRCVRK--GFSEAQLKKCIDEYAELNVW  709 (721)
T ss_pred             HhhhcccccccccccccchHHHHHHHHHHHHhhcCCceeeHHHHHHHHHHc--CCCHHHHHHHHHHHHhcCeE
Confidence            11   10000   0000235677778888876 454444444444443333  79999888877776665433

>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=98.43  E-value=3.6e-06  Score=67.50  Aligned_cols=99  Identities=20%  Similarity=0.239  Sum_probs=86.5

Q ss_pred             CCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh--------------------
Q psy17903        251 IVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS--------------------  307 (355)
Q Consensus       251 It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~--------------------  307 (355)
                      ||.++|.++++.+..+.+++++++   +|..++...++++...|.++..++..+.++++.                    
T Consensus         1 It~e~V~~~lG~v~~~~i~~l~~ai~~~d~~~~l~~~~~l~~~G~d~~~~l~~L~~~~R~ll~~k~~~~~~~~~~~~~~~   80 (143)
T PF12169_consen    1 ITAEDVREILGLVDEEQIFELLDAILEGDAAEALELLNELLEQGKDPKQFLDDLIEYLRDLLLYKITGDKSNLLELSEEE   80 (143)
T ss_dssp             B-HHHHHHHHTHTSTHHHHHHHHHHHTT-HHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHHHHTTSGGGS-SG--CTTT
T ss_pred             CCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhCCchhhcccCCHHH
Confidence            689999999999999999999998   999999999999999999999999999888773                    


Q ss_pred             -------cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        308 -------ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       308 -------~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                             +..++...+.++++.+.++...++.+.++++.+|..+.++|.
T Consensus        81 ~~~~~~~a~~~~~~~l~~~~~~l~~~~~~lr~s~~pr~~lE~~llrl~~  129 (143)
T PF12169_consen   81 EEKLKELAKKFSPERLQRILQILLEAENELRYSSNPRILLEMALLRLCQ  129 (143)
T ss_dssp             HHHHHHHHHHS-HHHHHHHHHHHHHHHHHTTTSSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHHH
Confidence                   134778888889999999999999999999999999999986

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.

>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=98.42  E-value=3.6e-05  Score=71.19  Aligned_cols=107  Identities=9%  Similarity=0.130  Sum_probs=70.3

Q ss_pred             CcEEEEEeCCCCCCHHHHHHHHHHhhhc------cCCccEEEEecCC---ccccccccCC-eeeEEecCCCHHHHHHHHH
Q psy17903        137 PFKIVILDEADSMTHAAQAALRRTMEKE------TKSTRFCLICNYV---SCIIQPLTSR-CSKFRFKPLAENTMLTRLQ  206 (355)
Q Consensus       137 ~~~vliiDe~d~l~~~~~~~Ll~~le~~------~~~~~~Il~~~~~---~~l~~~l~sr-~~~i~~~~~~~~~~~~~l~  206 (355)
                      .+.|||||++..-... .+.+...|-+-      .....+||.|++.   ..+.+++-+| +..+.+...+.+-...++.
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            3569999999776543 33344333221      2234566667654   2355666555 4578999999999999999


Q ss_pred             HHHHHcC-C-------------------CCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        207 YICEQES-V-------------------MCDFKALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       207 ~~~~~~~-~-------------------~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                      ..+.... .                   ......++..+..-||-+..+.-+.+++..
T Consensus       227 ~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiks  284 (431)
T PF10443_consen  227 SQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKS  284 (431)
T ss_pred             HHhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHc
Confidence            9886531 1                   124455667777789988888888877664

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 [].

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.42  E-value=1.4e-06  Score=76.71  Aligned_cols=116  Identities=16%  Similarity=0.265  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHHhcC-CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHH--HHHhhccC
Q psy17903         51 QEVVSVLKKCLSGA-DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT--FAQQTASG  127 (355)
Q Consensus        51 ~~~~~~l~~~l~~~-~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~--~~~~~~~~  127 (355)
                      ..++..+....+.- +..+++|+||||+|||++|.++++++....+  .+..+..++.  +..+......  ........
T Consensus        89 ~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~--sv~f~~~~el--~~~Lk~~~~~~~~~~~l~~~  164 (254)
T COG1484          89 KKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELLKAGI--SVLFITAPDL--LSKLKAAFDEGRLEEKLLRE  164 (254)
T ss_pred             HHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHcCC--eEEEEEHHHH--HHHHHHHHhcCchHHHHHHH
Confidence            34444444443221 3345999999999999999999999963333  3444443321  1111111110  00000000


Q ss_pred             CCCCCCCCCCcEEEEEeCCCCCCH--HHHHHHHHHhhhccCCccEEEEecCC
Q psy17903        128 FNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKETKSTRFCLICNYV  177 (355)
Q Consensus       128 ~~~~~~~~~~~~vliiDe~d~l~~--~~~~~Ll~~le~~~~~~~~Il~~~~~  177 (355)
                      .       ....++||||+.....  ...+.+..++...-..-..++++|.+
T Consensus       165 l-------~~~dlLIiDDlG~~~~~~~~~~~~~q~I~~r~~~~~~~~tsN~~  209 (254)
T COG1484         165 L-------KKVDLLIIDDIGYEPFSQEEADLLFQLISRRYESRSLIITSNLS  209 (254)
T ss_pred             h-------hcCCEEEEecccCccCCHHHHHHHHHHHHHHHhhccceeecCCC
Confidence            0       1345999999988644  34455555554432222237788754

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=98.41  E-value=6.2e-05  Score=72.29  Aligned_cols=50  Identities=16%  Similarity=0.267  Sum_probs=41.2

Q ss_pred             CCCCcccccHHHHHHHHHHH----hcCCCC--eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         42 KTIDDVIEQQEVVSVLKKCL----SGADLP--HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l----~~~~~~--~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .-|+++.|.++++++|...+    .+...+  -++|.||||+|||++++.+++.+.
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            36889999999999888777    333222  399999999999999999999874

>KOG0480|consensus

Probab=98.40  E-value=2.9e-06  Score=80.79  Aligned_cols=135  Identities=24%  Similarity=0.286  Sum_probs=79.1

Q ss_pred             CCcccccHHHHHHHHHHHhcC------------CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchH
Q psy17903         44 IDDVIEQQEVVSVLKKCLSGA------------DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ  111 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~~~------------~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~  111 (355)
                      |..+.||+.++.-|.-.+-+|            .-.|++|.|.||+|||.+.++.+.-+...    .+...+++...+..
T Consensus       344 ~PsIyGhe~VK~GilL~LfGGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsPR~----vYtsGkaSSaAGLT  419 (764)
T KOG0480|consen  344 FPSIYGHELVKAGILLSLFGGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSPRS----VYTSGKASSAAGLT  419 (764)
T ss_pred             CccccchHHHHhhHHHHHhCCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCCcc----eEecCcccccccce
Confidence            345667877776665555332            11359999999999999999998776332    22233333222211


Q ss_pred             H--HHHH-HHHHH-HhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-------------CCccEEEEe
Q psy17903        112 V--IRDK-VKTFA-QQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-------------KSTRFCLIC  174 (355)
Q Consensus       112 ~--i~~~-i~~~~-~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-------------~~~~~Il~~  174 (355)
                      .  .++- -..|. ..+..       ..++.+|..|||+|.|....|.+|.+.||+-.             ..+-+|.++
T Consensus       420 aaVvkD~esgdf~iEAGAL-------mLADnGICCIDEFDKMd~~dqvAihEAMEQQtISIaKAGv~aTLnARtSIlAAA  492 (764)
T KOG0480|consen  420 AAVVKDEESGDFTIEAGAL-------MLADNGICCIDEFDKMDVKDQVAIHEAMEQQTISIAKAGVVATLNARTSILAAA  492 (764)
T ss_pred             EEEEecCCCCceeeecCcE-------EEccCceEEechhcccChHhHHHHHHHHHhheehheecceEEeecchhhhhhhc
Confidence            0  0000 00000 00111       11355699999999999988999999999632             234455666


Q ss_pred             cCCc-------------cccccccCCee
Q psy17903        175 NYVS-------------CIIQPLTSRCS  189 (355)
Q Consensus       175 ~~~~-------------~l~~~l~sr~~  189 (355)
                      |+..             ++..+|.||+.
T Consensus       493 NPv~GhYdR~ktl~eNi~msApimSRFD  520 (764)
T KOG0480|consen  493 NPVGGHYDRKKTLRENINMSAPIMSRFD  520 (764)
T ss_pred             CCcCCccccccchhhhcCCCchhhhhhc
Confidence            6431             24567778765

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=98.39  E-value=2.6e-05  Score=72.18  Aligned_cols=94  Identities=18%  Similarity=0.242  Sum_probs=54.7

Q ss_pred             HHHhcCCCCeEEEECCCCCCHHHHHHHHHHH--hcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCC
Q psy17903         59 KCLSGADLPHFLFYGPPGTGKTSTMIAACHQ--LFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCP  136 (355)
Q Consensus        59 ~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~--l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~  136 (355)
                      .+++.+  .|+++.||+|||||+++.++...  +..+            .......+...+..- .....         .
T Consensus       204 ~fve~~--~Nli~lGp~GTGKThla~~l~~~~a~~sG------------~f~T~a~Lf~~L~~~-~lg~v---------~  259 (449)
T TIGR02688       204 PLVEPN--YNLIELGPKGTGKSYIYNNLSPYVILISG------------GTITVAKLFYNISTR-QIGLV---------G  259 (449)
T ss_pred             HHHhcC--CcEEEECCCCCCHHHHHHHHhHHHHHHcC------------CcCcHHHHHHHHHHH-HHhhh---------c
Confidence            344433  46999999999999999998777  2111            112222222222210 00000         1


Q ss_pred             CcEEEEEeCCCCCCH----HHHHHHHHHhhhcc---------CCccEEEEecC
Q psy17903        137 PFKIVILDEADSMTH----AAQAALRRTMEKET---------KSTRFCLICNY  176 (355)
Q Consensus       137 ~~~vliiDe~d~l~~----~~~~~Ll~~le~~~---------~~~~~Il~~~~  176 (355)
                      ...+|+|||+..+.-    +..+.|..+|+...         .+.-++|.+|-
T Consensus       260 ~~DlLI~DEvgylp~~~~~~~v~imK~yMesg~fsRG~~~~~a~as~vfvGNi  312 (449)
T TIGR02688       260 RWDVVAFDEVATLKFAKPKELIGILKNYMESGSFTRGDETKSSDASFVFLGNV  312 (449)
T ss_pred             cCCEEEEEcCCCCcCCchHHHHHHHHHHHHhCceeccceeeeeeeEEEEEccc
Confidence            456999999999653    24466777787532         34557777763

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.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=98.39  E-value=3.5e-06  Score=71.31  Aligned_cols=121  Identities=23%  Similarity=0.367  Sum_probs=67.5

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHH-------HHHHHh
Q psy17903         51 QEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV-------KTFAQQ  123 (355)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i-------~~~~~~  123 (355)
                      +++.+.+...+.++. ...++.|++|+|||+++..+.+.+....  ..++-+.. .......+.+..       ..+...
T Consensus         4 ~~Q~~a~~~~l~~~~-~~~~l~G~aGtGKT~~l~~~~~~~~~~g--~~v~~~ap-T~~Aa~~L~~~~~~~a~Ti~~~l~~   79 (196)
T PF13604_consen    4 EEQREAVRAILTSGD-RVSVLQGPAGTGKTTLLKALAEALEAAG--KRVIGLAP-TNKAAKELREKTGIEAQTIHSFLYR   79 (196)
T ss_dssp             HHHHHHHHHHHHCTC-SEEEEEESTTSTHHHHHHHHHHHHHHTT----EEEEES-SHHHHHHHHHHHTS-EEEHHHHTTE
T ss_pred             HHHHHHHHHHHhcCC-eEEEEEECCCCCHHHHHHHHHHHHHhCC--CeEEEECC-cHHHHHHHHHhhCcchhhHHHHHhc
Confidence            345556666666543 3488999999999999999988875543  23333333 222333333331       111111


Q ss_pred             hccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCC
Q psy17903        124 TASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYV  177 (355)
Q Consensus       124 ~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~  177 (355)
                      ..............+.+|||||+..+.......|++.+..  .+..+|++++..
T Consensus        80 ~~~~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilvGD~~  131 (196)
T PF13604_consen   80 IPNGDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILVGDPN  131 (196)
T ss_dssp             ECCEECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEEE-TT
T ss_pred             CCcccccccccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEECCcc
Confidence            1110000000012456999999999999888888888875  356788888643

>KOG0478|consensus

Probab=98.37  E-value=8.5e-06  Score=78.29  Aligned_cols=118  Identities=22%  Similarity=0.259  Sum_probs=72.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchH-------HHHHHHHHHHHhhccCCCCCCCCCCCcEE
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ-------VIRDKVKTFAQQTASGFNQDGKPCPPFKI  140 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~-------~i~~~i~~~~~~~~~~~~~~~~~~~~~~v  140 (355)
                      |+|++|.||+|||.+.+.+++-+....+    ....++...+..       +-++.+-   ..+..       ..++.++
T Consensus       464 NILL~GDPGtsKSqlLqyv~~l~pRg~y----TSGkGsSavGLTayVtrd~dtkqlVL---esGAL-------VLSD~Gi  529 (804)
T KOG0478|consen  464 NILLVGDPGTSKSQLLQYCHRLLPRGVY----TSGKGSSAVGLTAYVTKDPDTRQLVL---ESGAL-------VLSDNGI  529 (804)
T ss_pred             eEEEecCCCcCHHHHHHHHHHhCCccee----ecCCccchhcceeeEEecCccceeee---ecCcE-------EEcCCce
Confidence            4999999999999999999988754322    111111110000       0000000   01111       0135569


Q ss_pred             EEEeCCCCCCHHHHHHHHHHhhhc-------------cCCccEEEEecCC------c-------cccccccCCeeeE--E
Q psy17903        141 VILDEADSMTHAAQAALRRTMEKE-------------TKSTRFCLICNYV------S-------CIIQPLTSRCSKF--R  192 (355)
Q Consensus       141 liiDe~d~l~~~~~~~Ll~~le~~-------------~~~~~~Il~~~~~------~-------~l~~~l~sr~~~i--~  192 (355)
                      .+|||+|.|+....+.|.+.||.-             +..+-++.++|..      .       .+.|+|.||+..|  -
T Consensus       530 CCIDEFDKM~dStrSvLhEvMEQQTvSIAKAGII~sLNAR~SVLAaANP~~skynp~k~i~eNI~LpptLLSRFDLIyll  609 (804)
T KOG0478|consen  530 CCIDEFDKMSDSTRSVLHEVMEQQTLSIAKAGIIASLNARCSVLAAANPIRSKYNPNKSIIENINLPPTLLSRFDLIFLL  609 (804)
T ss_pred             EEchhhhhhhHHHHHHHHHHHHHhhhhHhhcceeeeccccceeeeeeccccccCCCCCchhhccCCChhhhhhhcEEEEE
Confidence            999999999999999999999863             2345566677732      1       1568899999854  3


Q ss_pred             ecCCCHH
Q psy17903        193 FKPLAEN  199 (355)
Q Consensus       193 ~~~~~~~  199 (355)
                      +.++++.
T Consensus       610 lD~~DE~  616 (804)
T KOG0478|consen  610 LDKPDER  616 (804)
T ss_pred             ecCcchh
Confidence            5666654

>KOG2543|consensus

Probab=98.33  E-value=3.9e-05  Score=69.22  Aligned_cols=196  Identities=17%  Similarity=0.086  Sum_probs=110.1

Q ss_pred             CcccccHHHHHHHHHHHhcCC--CCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc------------
Q psy17903         45 DDVIEQQEVVSVLKKCLSGAD--LPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG------------  109 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~~--~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~------------  109 (355)
                      ..+.+++.+++.|..++-...  .|. +.|||..|+|||.+++.+.+..+-     ..+.+++-+-..            
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 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNL-----ENVWLNCVECFTYAILLEKILNKS   80 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCC-----cceeeehHHhccHHHHHHHHHHHh
Confidence            356789999999999986543  444 799999999999999999999832     222222211000            


Q ss_pred             -------------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH---HHHHHHHHhhhc-cCCccEEE
Q psy17903        110 -------------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA---AQAALRRTMEKE-TKSTRFCL  172 (355)
Q Consensus       110 -------------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~---~~~~Ll~~le~~-~~~~~~Il  172 (355)
                                   .+.+...+..+.+.......      ...-+||+|++|.+..-   ..+.|.+.-+-- ...+++++
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                         11222222222221111111      12348999999998642   223333322211 22566666


Q ss_pred             EecCCcccccc-ccCCe-eeEEecCCCHHHHHHHHHHHHHHcCCCCCH----HHHHHH----HHHcCCCHHHHHHHHHHH
Q psy17903        173 ICNYVSCIIQP-LTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDF----KALETL----VETSGGDMRRAITCLQSC  242 (355)
Q Consensus       173 ~~~~~~~l~~~-l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~----~~~~~l----~~~~~g~~r~~~~~l~~~  242 (355)
                      ......+.... ..--+ ..++|+.++.+++..++.+--..   ....    .-+..+    ...| +|+..+...+...
T Consensus       155 s~~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~p~---~r~~~~ya~fl~v~l~vF~~~c-rd~~eL~~~~~~~  230 (438)
T KOG2543|consen  155 SAPSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRDNPG---KRKLDVYAQFLHVLLQVFYMAC-RDVNELRSLISLA  230 (438)
T ss_pred             eccccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcCCcc---ccchHHHHHHHHHHHHHHHHHh-CCHHHHHHHHHHH
Confidence            66554443221 11111 37899999999999988753221   2222    222222    2334 4999888888766


Q ss_pred             HHhh----CCCCCCHHH
Q psy17903        243 ARLK----GGEGIVNED  255 (355)
Q Consensus       243 ~~~~----~~~~It~~~  255 (355)
                      ....    .++.|+..+
T Consensus       231 wpky~epi~~~~i~~~d  247 (438)
T KOG2543|consen  231 WPKYCEPITKGKIDPTD  247 (438)
T ss_pred             HHhhccccccCCCChhH
Confidence            5433    345666666

>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=98.33  E-value=6e-07  Score=73.77  Aligned_cols=61  Identities=10%  Similarity=0.252  Sum_probs=35.0

Q ss_pred             EEEEEeCCCCC---CHHHHHHHHHHhhhccCCccEEEEecC--CccccccccCC--eeeEEecCCCHHHHH
Q psy17903        139 KIVILDEADSM---THAAQAALRRTMEKETKSTRFCLICNY--VSCIIQPLTSR--CSKFRFKPLAENTML  202 (355)
Q Consensus       139 ~vliiDe~d~l---~~~~~~~Ll~~le~~~~~~~~Il~~~~--~~~l~~~l~sr--~~~i~~~~~~~~~~~  202 (355)
                      .++||||+..|   ++.-++++.+.|+.  . ..+|.+-..  ...+.+.+++|  +.++++.+-+.+.+.
T Consensus        97 ~liviDEIG~mEl~~~~F~~~v~~~l~s--~-~~vi~vv~~~~~~~~l~~i~~~~~~~i~~vt~~NRd~l~  164 (168)
T PF03266_consen   97 DLIVIDEIGKMELKSPGFREAVEKLLDS--N-KPVIGVVHKRSDNPFLEEIKRRPDVKIFEVTEENRDALP  164 (168)
T ss_dssp             HEEEE---STTCCC-CHHHHHHHHHHCT--T-SEEEEE--SS--SCCHHHHHTTTTSEEEE--TTTCCCHH
T ss_pred             CEEEEeccchhhhcCHHHHHHHHHHHcC--C-CcEEEEEecCCCcHHHHHHHhCCCcEEEEeChhHHhhHh
Confidence            49999999877   45667888888882  2 223433332  34577888887  667877776655543

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.

>KOG2228|consensus

Probab=98.32  E-value=9.2e-06  Score=72.04  Aligned_cols=164  Identities=16%  Similarity=0.203  Sum_probs=90.4

Q ss_pred             cccccHHHH----HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHH
Q psy17903         46 DVIEQQEVV----SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFA  121 (355)
Q Consensus        46 ~~vg~~~~~----~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~  121 (355)
                      .+.|..+..    ..+++.+..|....+++.||.|+|||++............-++-.+.+|+.-..+.-.+.++..++.
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            355655444    4445555567766699999999999999876665522222233456777765442223333333322


Q ss_pred             Hhhc-----cC-CCC-----------CCCCCCCcEEEEEeCCCCCCHHH-HHHHHHHhhhc---cCCccEEEEecCCc--
Q psy17903        122 QQTA-----SG-FNQ-----------DGKPCPPFKIVILDEADSMTHAA-QAALRRTMEKE---TKSTRFCLICNYVS--  178 (355)
Q Consensus       122 ~~~~-----~~-~~~-----------~~~~~~~~~vliiDe~d~l~~~~-~~~Ll~~le~~---~~~~~~Il~~~~~~--  178 (355)
                      ....     .+ .+.           ++......-+.|+||+|.+.+.. |-.|.++++-.   ...+++|..|...+  
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            1110     00 000           11111123466778999887644 54555555432   22344455554443  


Q ss_pred             -cccccccCCee---eEEecCCCHHHHHHHHHHHH
Q psy17903        179 -CIIQPLTSRCS---KFRFKPLAENTMLTRLQYIC  209 (355)
Q Consensus       179 -~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~  209 (355)
                       .+-+.++||+.   ++-+++.+.++..+++++..
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             35577889986   34445667788888888765

>KOG0477|consensus

Probab=98.30  E-value=2.6e-05  Score=74.27  Aligned_cols=205  Identities=15%  Similarity=0.188  Sum_probs=113.7

Q ss_pred             cccccHHHHHHHHHHHhcCCC------------CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHH-
Q psy17903         46 DVIEQQEVVSVLKKCLSGADL------------PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQV-  112 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~~~~------------~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~-  112 (355)
                      .+.|+..++..+.-.+-+|..            -|+||+|.||+||+.+.+.+.+......    +...-++...+... 
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            467888888888877755421            1499999999999999999888753221    11111111111100 


Q ss_pred             -HHH-HHHHH-HHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc-------------cCCccEEEEecC
Q psy17903        113 -IRD-KVKTF-AQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-------------TKSTRFCLICNY  176 (355)
Q Consensus       113 -i~~-~i~~~-~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~-------------~~~~~~Il~~~~  176 (355)
                       .+. ...++ ...+..       ..++++|.+|||+|.|+.+....+-+.||+-             ...|.+|.++|.
T Consensus       526 v~KdPvtrEWTLEaGAL-------VLADkGvClIDEFDKMndqDRtSIHEAMEQQSISISKAGIVtsLqArctvIAAanP  598 (854)
T KOG0477|consen  526 VRKDPVTREWTLEAGAL-------VLADKGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARCTVIAAANP  598 (854)
T ss_pred             EeeCCccceeeeccCeE-------EEccCceEEeehhhhhcccccchHHHHHHhcchhhhhhhHHHHHHhhhhhheecCC
Confidence             000 00011 011111       1146779999999999987666666666643             234667878775


Q ss_pred             C-------------ccccccccCCeeeEE-----ecCCCHHHHHHHHHH-HHHHcC-------C----------CCCHHH
Q psy17903        177 V-------------SCIIQPLTSRCSKFR-----FKPLAENTMLTRLQY-ICEQES-------V----------MCDFKA  220 (355)
Q Consensus       177 ~-------------~~l~~~l~sr~~~i~-----~~~~~~~~~~~~l~~-~~~~~~-------~----------~~~~~~  220 (355)
                      .             -.+.+++.||+.++.     +.+..++.+.+++-. +.+.+.       +          .++.++
T Consensus       599 igGRY~~s~tFaqNV~ltePIlSRFDiLcVvkD~vd~~~De~lA~fVV~Sh~r~hp~~~~~~~~~e~~~~~~v~~ipq~l  678 (854)
T KOG0477|consen  599 IGGRYNPSLTFAQNVDLTEPILSRFDILCVVKDTVDPVQDEKLAKFVVGSHVRHHPSNKEEDGLEEPQMPARVEPIPQEL  678 (854)
T ss_pred             CCCccCCccchhhccccccchhhhcceeeeeecccCchhHHHHHHHHHHhHhhcCCcccccCcccccccccccccChHHH
Confidence            2             135688999987432     455555555555433 333211       1          255566


Q ss_pred             HHHHHHHc---------CCCHHHH---HHHHHHHHHhhCCCCCCHHHHHHHhC
Q psy17903        221 LETLVETS---------GGDMRRA---ITCLQSCARLKGGEGIVNEDVLEVTG  261 (355)
Q Consensus       221 ~~~l~~~~---------~g~~r~~---~~~l~~~~~~~~~~~It~~~v~~~~~  261 (355)
                      +..-+.++         ++|..++   ...|++-+...++-.||..+++.++.
T Consensus       679 LrkyI~yar~~v~PkL~q~d~~K~s~vya~lRkES~~tGs~piTvRHieS~ir  731 (854)
T KOG0477|consen  679 LRKYIIYAREKVRPKLNQMDMDKISSVYADLRKESMATGSLPITVRHIESMIR  731 (854)
T ss_pred             HHHHHHHHHHhcccccccccHHHHHHHHHHHHhhccccCCchhhHHHHHHHHH
Confidence            55544332         3333332   33334333333556788888887664

>PHA02774 E1; Provisional

Probab=98.30  E-value=6.6e-06  Score=78.78  Aligned_cols=138  Identities=23%  Similarity=0.319  Sum_probs=83.8

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCC
Q psy17903         52 EVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQ  130 (355)
Q Consensus        52 ~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~  130 (355)
                      .....|+.++++....+ ++|+||||+|||+++.++++.+.+...    ..+|...            .|.-.+.     
T Consensus       419 ~fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L~G~vi----~fvN~~s------------~FwLqpl-----  477 (613)
T PHA02774        419 SFLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLKGKVI----SFVNSKS------------HFWLQPL-----  477 (613)
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhCCCEE----EEEECcc------------ccccchh-----
Confidence            45577788886543334 999999999999999999999854322    1233321            1110111     


Q ss_pred             CCCCCCCcEEEEEeCCCCCC-HHHHHHHHHHhhhcc-------------CCccEEEEecCC---ccccccccCCeeeEEe
Q psy17903        131 DGKPCPPFKIVILDEADSMT-HAAQAALRRTMEKET-------------KSTRFCLICNYV---SCIIQPLTSRCSKFRF  193 (355)
Q Consensus       131 ~~~~~~~~~vliiDe~d~l~-~~~~~~Ll~~le~~~-------------~~~~~Il~~~~~---~~l~~~l~sr~~~i~~  193 (355)
                           .+.+++++||+-.-. .-....|+.+|+..+             ..+.+|+++|-.   +.-.+.|.||...+.|
T Consensus       478 -----~d~ki~vlDD~t~~~w~y~d~~Lrn~LdG~~v~lD~Khk~~~q~k~pPlIITSN~d~~~~~~~~yL~sRi~~f~F  552 (613)
T PHA02774        478 -----ADAKIALLDDATHPCWDYIDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVKAEDRYKYLHSRITVFEF  552 (613)
T ss_pred             -----ccCCEEEEecCcchHHHHHHHHHHHHcCCCcceeeecccCcccccCCCEEEecCCCcccchhhHHhhhhEEEEEC
Confidence                 145699999993322 112346777776432             124577788732   2234668888887766


Q ss_pred             cC-------------CCHHHHHHHHHHHHHHcCCC
Q psy17903        194 KP-------------LAENTMLTRLQYICEQESVM  215 (355)
Q Consensus       194 ~~-------------~~~~~~~~~l~~~~~~~~~~  215 (355)
                      +.             ++......++++...+..+.
T Consensus       553 ~n~~P~d~~G~P~f~ltd~~WKsFF~rlw~~LdL~  587 (613)
T PHA02774        553 PNPFPLDENGNPVFELTDANWKSFFERLWSQLDLS  587 (613)
T ss_pred             CCCCCcCCCCCEeeeeCchhHHHHHHHHHHHcCCC
Confidence            43             34566777777776665443

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=98.28  E-value=0.0001  Score=69.26  Aligned_cols=133  Identities=19%  Similarity=0.248  Sum_probs=79.0

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc-cchHHHHHHHHHHHHhhccCCCC
Q psy17903         52 EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD-RGIQVIRDKVKTFAQQTASGFNQ  130 (355)
Q Consensus        52 ~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-~~~~~i~~~i~~~~~~~~~~~~~  130 (355)
                      +...++.+.+..... .++|+||.+|||||+++.+.+.+...     .+.++..+. .......+....+......    
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            334444444444332 59999999999999998888876443     333333222 1222223333333322111    


Q ss_pred             CCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCC----ccccccccCCeeeEEecCCCHHHHHH
Q psy17903        131 DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYV----SCIIQPLTSRCSKFRFKPLAENTMLT  203 (355)
Q Consensus       131 ~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~----~~l~~~l~sr~~~i~~~~~~~~~~~~  203 (355)
                            +...+|+||++.... -+..+..+.+.+..  -++++++..    ....+.+.-|...+.+.|++-.|...
T Consensus        94 ------~~~yifLDEIq~v~~-W~~~lk~l~d~~~~--~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~  161 (398)
T COG1373          94 ------EKSYIFLDEIQNVPD-WERALKYLYDRGNL--DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLK  161 (398)
T ss_pred             ------CCceEEEecccCchh-HHHHHHHHHccccc--eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHh
Confidence                  123899999999853 34445555554433  344444432    34557788888899999999998865

>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=98.27  E-value=0.00012  Score=67.21  Aligned_cols=108  Identities=16%  Similarity=0.184  Sum_probs=65.5

Q ss_pred             CcEEEEEeCCCCCCHHHHHHHHHHhhhc--cCCccEEEEecCCccccccc----------------cCC-ee-eEEecCC
Q psy17903        137 PFKIVILDEADSMTHAAQAALRRTMEKE--TKSTRFCLICNYVSCIIQPL----------------TSR-CS-KFRFKPL  196 (355)
Q Consensus       137 ~~~vliiDe~d~l~~~~~~~Ll~~le~~--~~~~~~Il~~~~~~~l~~~l----------------~sr-~~-~i~~~~~  196 (355)
                      .+-||||||+|++.++....+++.+...  .+++++|++.+.. .+..++                ..+ .+ .+.++++
T Consensus       172 ~~iViiIDdLDR~~~~~i~~~l~~ik~~~~~~~i~~Il~~D~~-~l~~ai~~~~~~~~~~~~~~~yLeKiiq~~~~lP~~  250 (325)
T PF07693_consen  172 KRIVIIIDDLDRCSPEEIVELLEAIKLLLDFPNIIFILAFDPE-ILEKAIEKNYGEGFDEIDGREYLEKIIQVPFSLPPP  250 (325)
T ss_pred             ceEEEEEcchhcCCcHHHHHHHHHHHHhcCCCCeEEEEEecHH-HHHHHHHhhcCcccccccHHHHHHhhcCeEEEeCCC
Confidence            4558999999999998766666555432  2578888888632 111111                111 12 5888999


Q ss_pred             CHHHHHHHHHHHHHHcCCCC----C---------------HHHHHHHHH---HcCCCHHHHHHHHHHHHHh
Q psy17903        197 AENTMLTRLQYICEQESVMC----D---------------FKALETLVE---TSGGDMRRAITCLQSCARL  245 (355)
Q Consensus       197 ~~~~~~~~l~~~~~~~~~~~----~---------------~~~~~~l~~---~~~g~~r~~~~~l~~~~~~  245 (355)
                      +..++..++...+.......    .               ...+..+..   ...+|+|.+.+.+..+..+
T Consensus       251 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~npR~ikr~iN~~~~~  321 (325)
T PF07693_consen  251 SPSDLERYLNELLESLESETNESDDIETLSNSASNENLRIDEILNDIIDSIDFSIGNPRDIKRFINSLSLL  321 (325)
T ss_pred             CHHHHHHHHHHHHHHhhhccccccchhhhhhcchhhhhhHHHHHHHHHHhhhhcCCCHHHHHHHHHHHHHH
Confidence            99999888888765432211    1               122333333   2357888888877765543

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 [].

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.26  E-value=1.5e-05  Score=83.26  Aligned_cols=146  Identities=16%  Similarity=0.253  Sum_probs=98.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccC--CCCCC--CCCCCcEEEEEe
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASG--FNQDG--KPCPPFKIVILD  144 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~--~~~~~--~~~~~~~vliiD  144 (355)
                      +||.||+.+|||+.+..+++...     ..++.+|--+.   .++++.+..+.......  +..+.  ....++.-||+|
T Consensus       891 ~LiQGpTSSGKTSMI~yla~~tg-----hkfVRINNHEH---TdlqeYiGTyvTdd~G~lsFkEGvLVeAlR~GyWIVLD  962 (4600)
T COG5271         891 LLIQGPTSSGKTSMILYLARETG-----HKFVRINNHEH---TDLQEYIGTYVTDDDGSLSFKEGVLVEALRRGYWIVLD  962 (4600)
T ss_pred             EEEecCCCCCcchHHHHHHHHhC-----ccEEEecCccc---chHHHHhhceeecCCCceeeehhHHHHHHhcCcEEEee
Confidence            99999999999999999999973     35666665432   23334444433221110  00000  000133479999


Q ss_pred             CCCCCCHHHHHHHHHHhhhc--------------cCCccEEEEecC-C------ccccccccCCeeeEEecCCCHHHHHH
Q psy17903        145 EADSMTHAAQAALRRTMEKE--------------TKSTRFCLICNY-V------SCIIQPLTSRCSKFRFKPLAENTMLT  203 (355)
Q Consensus       145 e~d~l~~~~~~~Ll~~le~~--------------~~~~~~Il~~~~-~------~~l~~~l~sr~~~i~~~~~~~~~~~~  203 (355)
                      |....+.+..++|.++|++.              +++.. +|+|.+ +      ..+..+++.|+..++|...+++++..
T Consensus       963 ELNLApTDVLEaLNRLLDDNRelfIPETqevV~PHp~F~-lFATQNppg~YgGRK~LSrAFRNRFlE~hFddipedEle~ 1041 (4600)
T COG5271         963 ELNLAPTDVLEALNRLLDDNRELFIPETQEVVVPHPNFR-LFATQNPPGGYGGRKGLSRAFRNRFLEMHFDDIPEDELEE 1041 (4600)
T ss_pred             ccccCcHHHHHHHHHhhccccceecCCcceeeccCCCee-EEeecCCCccccchHHHHHHHHhhhHhhhcccCcHHHHHH
Confidence            99999999999999998752              33333 445543 3      23678999999999999999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHc
Q psy17903        204 RLQYICEQESVMCDFKALETLVETS  228 (355)
Q Consensus       204 ~l~~~~~~~~~~~~~~~~~~l~~~~  228 (355)
                      ++..     +.++.+.-+..+++..
T Consensus      1042 ILh~-----rc~iapSyakKiVeVy 1061 (4600)
T COG5271        1042 ILHG-----RCEIAPSYAKKIVEVY 1061 (4600)
T ss_pred             HHhc-----cCccCHHHHHHHHHHH
Confidence            9984     4567787777777654

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=98.26  E-value=8.7e-07  Score=81.17  Aligned_cols=139  Identities=21%  Similarity=0.220  Sum_probs=69.5

Q ss_pred             cccccHHHHHHHHHHHhcCC------------CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc--cchH
Q psy17903         46 DVIEQQEVVSVLKKCLSGAD------------LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD--RGIQ  111 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~~~------------~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--~~~~  111 (355)
                      .+.|++.++..+.=.+-++.            .-|+||.|.||+|||.+.+.+++-...      .+..++...  .+..
T Consensus        25 ~i~g~~~iK~aill~L~~~~~~~~~~~~~~r~~ihiLlvGdpg~gKS~ll~~~~~~~pr------~v~~~g~~~s~~gLt   98 (331)
T PF00493_consen   25 SIYGHEDIKKAILLQLFGGVEKNDPDGTRIRGNIHILLVGDPGTGKSQLLKYVAKLAPR------SVYTSGKGSSAAGLT   98 (331)
T ss_dssp             TTTT-HHHHHHHCCCCTT--SCCCCT-TEE--S--EEEECSCHHCHHHHHHCCCCT-SS------EEEEECCGSTCCCCC
T ss_pred             cCcCcHHHHHHHHHHHHhccccccccccccccccceeeccchhhhHHHHHHHHHhhCCc------eEEECCCCcccCCcc
Confidence            46788877765543332211            125999999999999999877544321      112221110  0000


Q ss_pred             --HHHHH-HHHHH-HhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc-------------cCCccEEEEe
Q psy17903        112 --VIRDK-VKTFA-QQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-------------TKSTRFCLIC  174 (355)
Q Consensus       112 --~i~~~-i~~~~-~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~-------------~~~~~~Il~~  174 (355)
                        ..++. -..+. ..+..       ..+++++++|||+|.+..+....|.+.||..             +..+.++.++
T Consensus        99 a~~~~d~~~~~~~leaGal-------vlad~GiccIDe~dk~~~~~~~~l~eaMEqq~isi~kagi~~~l~ar~svlaa~  171 (331)
T PF00493_consen   99 ASVSRDPVTGEWVLEAGAL-------VLADGGICCIDEFDKMKEDDRDALHEAMEQQTISIAKAGIVTTLNARCSVLAAA  171 (331)
T ss_dssp             EEECCCGGTSSECEEE-HH-------HHCTTSEEEECTTTT--CHHHHHHHHHHHCSCEEECTSSSEEEEE---EEEEEE
T ss_pred             ceeccccccceeEEeCCch-------hcccCceeeecccccccchHHHHHHHHHHcCeeccchhhhcccccchhhhHHHH
Confidence              00000 00000 00000       0025569999999999999999999999963             2346677777


Q ss_pred             cCCc-------------cccccccCCeeeEE--ecCCC
Q psy17903        175 NYVS-------------CIIQPLTSRCSKFR--FKPLA  197 (355)
Q Consensus       175 ~~~~-------------~l~~~l~sr~~~i~--~~~~~  197 (355)
                      |...             .+.++|.+|+..+.  ...++
T Consensus       172 NP~~g~~~~~~~~~~ni~l~~~LLSRFDLif~l~D~~d  209 (331)
T PF00493_consen  172 NPKFGRYDPNKSLSENINLPPPLLSRFDLIFLLRDKPD  209 (331)
T ss_dssp             --TT--S-TTS-CGCCT-S-CCCHCC-SEEECC--TTT
T ss_pred             hhhhhhcchhhhhHHhcccchhhHhhcCEEEEeccccc
Confidence            7432             24578889988443  34555

; 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.

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

Probab=98.25  E-value=3.6e-06  Score=63.88  Aligned_cols=72  Identities=21%  Similarity=0.413  Sum_probs=45.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCc---cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDM---YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDE  145 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~---~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe  145 (355)
                      +.|+||+|+|||++++.+++.+....   ....++..+..+.        ....+.               +.+++++||
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~~~~vy~~~~~~~--------~w~gY~---------------~q~vvi~DD   57 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPTKDSVYTRNPGDK--------FWDGYQ---------------GQPVVIIDD   57 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccCCCCcEEeCCCccc--------hhhccC---------------CCcEEEEee
Confidence            57999999999999999999886422   1122333233221        111111               234999999


Q ss_pred             CCCCCHH----HHHHHHHHhhh
Q psy17903        146 ADSMTHA----AQAALRRTMEK  163 (355)
Q Consensus       146 ~d~l~~~----~~~~Ll~~le~  163 (355)
                      +.....+    ....+++++..
T Consensus        58 ~~~~~~~~~~~~~~~l~~l~s~   79 (107)
T PF00910_consen   58 FGQDNDGYNYSDESELIRLISS   79 (107)
T ss_pred             cCccccccchHHHHHHHHHHhc
Confidence            9988754    45566666653

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

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.23  E-value=0.00036  Score=69.31  Aligned_cols=190  Identities=18%  Similarity=0.189  Sum_probs=111.2

Q ss_pred             CCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHH
Q psy17903         40 RPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (355)
Q Consensus        40 ~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~  119 (355)
                      +|......+-++...+.|.+..   ...-++|+-|.|+||||++-.++. ...+..+...+.++.++.....-+...+..
T Consensus        14 ~P~~~~~~v~R~rL~~~L~~~~---~~RL~li~APAGfGKttl~aq~~~-~~~~~~~v~Wlslde~dndp~rF~~yLi~a   89 (894)
T COG2909          14 RPVRPDNYVVRPRLLDRLRRAN---DYRLILISAPAGFGKTTLLAQWRE-LAADGAAVAWLSLDESDNDPARFLSYLIAA   89 (894)
T ss_pred             CCCCcccccccHHHHHHHhcCC---CceEEEEeCCCCCcHHHHHHHHHH-hcCcccceeEeecCCccCCHHHHHHHHHHH
Confidence            3444556666665555444331   223399999999999999999988 444444445556665553222222222111


Q ss_pred             HHHhhcc---------CCCC-------------CCCCCCCcEEEEEeCCCCCCHHHH-HHHHHHhhhccCCccEEEEecC
Q psy17903        120 FAQQTAS---------GFNQ-------------DGKPCPPFKIVILDEADSMTHAAQ-AALRRTMEKETKSTRFCLICNY  176 (355)
Q Consensus       120 ~~~~~~~---------~~~~-------------~~~~~~~~~vliiDe~d~l~~~~~-~~Ll~~le~~~~~~~~Il~~~~  176 (355)
                      .......         ....             +-..+.+.=.+||||.|.++.... ..+...++..|.++++|++|..
T Consensus        90 l~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~  169 (894)
T COG2909          90 LQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRS  169 (894)
T ss_pred             HHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEecc
Confidence            1100000         0000             000001122899999999987654 5566667777889999999875


Q ss_pred             Cccc-cccccCCeeeEEe----cCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHH
Q psy17903        177 VSCI-IQPLTSRCSKFRF----KPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAI  236 (355)
Q Consensus       177 ~~~l-~~~l~sr~~~i~~----~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~  236 (355)
                      ...+ ...++=|...+++    -.++.+|..+++...   .+..++...++.|...++|=+..+.
T Consensus       170 rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~---~~l~Ld~~~~~~L~~~teGW~~al~  231 (894)
T COG2909         170 RPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDR---GSLPLDAADLKALYDRTEGWAAALQ  231 (894)
T ss_pred             CCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHc---CCCCCChHHHHHHHhhcccHHHHHH
Confidence            4332 3334433332222    145678888877754   4588999999999999988665443

>PTZ00202 tuzin; Provisional

Probab=98.22  E-value=8e-05  Score=69.12  Aligned_cols=52  Identities=23%  Similarity=0.303  Sum_probs=43.6

Q ss_pred             CCCCCCcccccHHHHHHHHHHHhcCCCC--e-EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         40 RPKTIDDVIEQQEVVSVLKKCLSGADLP--H-FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        40 ~p~~~~~~vg~~~~~~~l~~~l~~~~~~--~-~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      -|....+++|++....+|...+......  . +.|+|++|+|||++++.+...+.
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            4666778999999999999999754432  2 89999999999999999998763

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.18  E-value=6.3e-05  Score=78.88  Aligned_cols=227  Identities=13%  Similarity=0.167  Sum_probs=131.9

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHH-H-----HHH--HHhhcc
Q psy17903         55 SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK-V-----KTF--AQQTAS  126 (355)
Q Consensus        55 ~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~-i-----~~~--~~~~~~  126 (355)
                      .++.+++.-++  .+++.|.||+|||+++.++|+..+.     ..+.+|-++.+..-++... +     .+|  ...+..
T Consensus      1534 ~rVlRAmqv~k--pilLEGsPGVGKTSlItaLAr~tG~-----kliRINLSeQTdL~DLfGsd~Pve~~Gef~w~dapfL 1606 (4600)
T COG5271        1534 RRVLRAMQVGK--PILLEGSPGVGKTSLITALARKTGK-----KLIRINLSEQTDLCDLFGSDLPVEEGGEFRWMDAPFL 1606 (4600)
T ss_pred             HHHHHHHhcCC--ceeecCCCCccHHHHHHHHHHHhcC-----ceEEeeccccchHHHHhCCCCCcccCceeEecccHHH
Confidence            34445555443  4899999999999999999999844     4556665554332211100 0     000  000000


Q ss_pred             CCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc--------------cCCccEEEEecCC-------cccccccc
Q psy17903        127 GFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE--------------TKSTRFCLICNYV-------SCIIQPLT  185 (355)
Q Consensus       127 ~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~--------------~~~~~~Il~~~~~-------~~l~~~l~  185 (355)
                      ...      .++.-|++||+...+....+.|...|+..              +++.++ |++.+|       .-+.+.+.
T Consensus      1607 ~am------r~G~WVlLDEiNLaSQSVlEGLNacLDhR~eayIPEld~~f~~HpnfrV-FAaqNPq~qggGRKgLPkSF~ 1679 (4600)
T COG5271        1607 HAM------RDGGWVLLDEINLASQSVLEGLNACLDHRREAYIPELDKTFDVHPNFRV-FAAQNPQDQGGGRKGLPKSFL 1679 (4600)
T ss_pred             HHh------hcCCEEEeehhhhhHHHHHHHHHHHHhhccccccccccceeeccCCeee-eeecCchhcCCCcccCCHHHh
Confidence            000      13457999999999888888887777632              234444 444333       23677899


Q ss_pred             CCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH---------------cCC-----CHHHHHHHHHHHHHh
Q psy17903        186 SRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVET---------------SGG-----DMRRAITCLQSCARL  245 (355)
Q Consensus       186 sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~---------------~~g-----~~r~~~~~l~~~~~~  245 (355)
                      .|+.+|.+..++.+++..+......    ++.++..-.++..               +.|     |+|..++.+..+-.+
T Consensus      1680 nRFsvV~~d~lt~dDi~~Ia~~~yp----~v~~d~~~kiik~ms~lqd~i~k~~~~g~~gsPwefnlrdTLRwl~llNq~ 1755 (4600)
T COG5271        1680 NRFSVVKMDGLTTDDITHIANKMYP----QVNEDWRLKIIKFMSRLQDNIEKDISFGSFGSPWEFNLRDTLRWLILLNQV 1755 (4600)
T ss_pred             hhhheEEecccccchHHHHHHhhCC----ccChHHHHHHHHHHHHHHHhhhhhhcccCCCCCeEEehHHHHHHHHHhhcc
Confidence            9999999999999999888775532    3445444333322               112     577777777766554


Q ss_pred             hCCCCCCHHHHHHHhCCCChHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        246 KGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVM  306 (355)
Q Consensus       246 ~~~~~It~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~  306 (355)
                      ..-..++..++.+.+-      ...+-...|.-++..++.+++. .|++..+.-.+...+.
T Consensus      1756 ~~~edvd~~dfid~~V------~~r~rtv~dr~rt~~l~~evfg-~~~~r~~~f~ls~~~~ 1809 (4600)
T COG5271        1756 GTLEDVDTSDFIDESV------VRRMRTVEDRVRTCELFKEVFG-DYEPRTIGFSLSSQCF 1809 (4600)
T ss_pred             CccccCCHHHHHHHHH------HHHhhhHhhhhHHHHHHHHHhc-ccCcccccccchhhHh
Confidence            4334455555443221      1111111455566677777765 5666666655555444

>PRK10536 hypothetical protein; Provisional

Probab=98.14  E-value=6.3e-05  Score=65.38  Aligned_cols=44  Identities=18%  Similarity=0.244  Sum_probs=33.7

Q ss_pred             CCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHH
Q psy17903         44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +..+.+.......+..++...  ..+++.||+|||||+++.+++.+
T Consensus        54 ~~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~   97 (262)
T PRK10536         54 TSPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAE   97 (262)
T ss_pred             CccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHH
Confidence            344556666666666677653  36999999999999999999985

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=98.13  E-value=1.9e-05  Score=60.68  Aligned_cols=56  Identities=20%  Similarity=0.290  Sum_probs=40.0

Q ss_pred             cccccHHHHHHHHHH----HhcCCCCe---EEEECCCCCCHHHHHHHHHHHhcCCccccceee
Q psy17903         46 DVIEQQEVVSVLKKC----LSGADLPH---FLFYGPPGTGKTSTMIAACHQLFGDMYRERILE  101 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~----l~~~~~~~---~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~  101 (355)
                      .+.||.-+.+.+.+.    +.+.....   +-|+|++|||||.+++.+++.++....+..++.
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~   88 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVH   88 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHHHhcccCCCcee
Confidence            578888666555444    44433222   669999999999999999999887655555543

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

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=98.05  E-value=9.4e-06  Score=74.88  Aligned_cols=116  Identities=19%  Similarity=0.191  Sum_probs=64.9

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCCcc-ccceeee----cCCC--c-cchHHHHHHHHHHHHhhccCCCCCCCCCCCc
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMY-RERILEL----NASD--D-RGIQVIRDKVKTFAQQTASGFNQDGKPCPPF  138 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~~~~-~~~~~~~----~~~~--~-~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~  138 (355)
                      .+++|||+.|+|||.+...+...+..... ...+.++    ...-  . ...+.+......++.              +.
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 KGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHEFMLDVHSRLHQLRGQDDPLPQVADELAK--------------ES  128 (362)
T ss_pred             ceEEEECCCCCchhHHHHHHHHhCCccccccccccHHHHHHHHHHHHHhCCCccHHHHHHHHHh--------------cC
Confidence            34999999999999999999998754211 1111000    0000  0 000111112222221              34


Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHhhhc-cCCccEEEEecCC-cc-------------ccccccCCeeeEEecCC
Q psy17903        139 KIVILDEADSMTHAAQAALRRTMEKE-TKSTRFCLICNYV-SC-------------IIQPLTSRCSKFRFKPL  196 (355)
Q Consensus       139 ~vliiDe~d~l~~~~~~~Ll~~le~~-~~~~~~Il~~~~~-~~-------------l~~~l~sr~~~i~~~~~  196 (355)
                      ++|++||++.-.....-.|.++++.. ...+++|.|+|.+ +.             .+..|+++|.++++...
T Consensus       129 ~lLcfDEF~V~DiaDAmil~rLf~~l~~~gvvlVaTSN~~P~~Ly~~gl~r~~Flp~I~~l~~~~~vv~ld~~  201 (362)
T PF03969_consen  129 RLLCFDEFQVTDIADAMILKRLFEALFKRGVVLVATSNRPPEDLYKNGLQRERFLPFIDLLKRRCDVVELDGG  201 (362)
T ss_pred             CEEEEeeeeccchhHHHHHHHHHHHHHHCCCEEEecCCCChHHHcCCcccHHHHHHHHHHHHhceEEEEecCC
Confidence            59999999876554433333333321 3567788888753 22             24567899999988765

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

>PHA02624 large T antigen; Provisional

Probab=98.05  E-value=2.7e-05  Score=75.00  Aligned_cols=116  Identities=22%  Similarity=0.273  Sum_probs=69.3

Q ss_pred             HHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCC
Q psy17903         55 SVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK  133 (355)
Q Consensus        55 ~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~  133 (355)
                      ..++.++++-...+ ++|+||+|+|||+++.++++.+.+.     .+.+|++.....         |--.+.        
T Consensus       419 ~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L~G~-----vlsVNsPt~ks~---------FwL~pl--------  476 (647)
T PHA02624        419 DILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLCGGK-----SLNVNCPPDKLN---------FELGCA--------  476 (647)
T ss_pred             HHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHcCCe-----EEEeeCCcchhH---------HHhhhh--------
Confidence            34444444433334 9999999999999999999999543     445665542111         111111        


Q ss_pred             CCCCcEEEEEeCCCCCCH-----------HHHHHHHHHhhhc-c-------CC------ccEEEEecCCccccccccCCe
Q psy17903        134 PCPPFKIVILDEADSMTH-----------AAQAALRRTMEKE-T-------KS------TRFCLICNYVSCIIQPLTSRC  188 (355)
Q Consensus       134 ~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~le~~-~-------~~------~~~Il~~~~~~~l~~~l~sr~  188 (355)
                        .+.+++++||+-.-..           +....|+..|+-. +       .+      +.+|+|+| ...+..+++-|+
T Consensus       477 --~D~~~~l~dD~t~~~~~~~~Lp~G~~~dNl~~lRn~LDG~V~v~ld~KH~n~~q~~~PPlliT~N-ey~iP~T~~~Rf  553 (647)
T PHA02624        477 --IDQFMVVFEDVKGQPADNKDLPSGQGMNNLDNLRDYLDGSVPVNLEKKHLNKRSQIFPPGIVTMN-EYLIPQTVKARF  553 (647)
T ss_pred             --hhceEEEeeeccccccccccCCcccccchhhHHHhhcCCCCccccchhccCchhccCCCeEEeec-CcccchhHHHHH
Confidence              1446999999953221           2235677777643 1       11      23455554 445667888887


Q ss_pred             e-eEEecC
Q psy17903        189 S-KFRFKP  195 (355)
Q Consensus       189 ~-~i~~~~  195 (355)
                      . .+.|.+
T Consensus       554 ~~~~~F~~  561 (647)
T PHA02624        554 AKVLDFKP  561 (647)
T ss_pred             HHhccccc
Confidence            6 677754

>PRK04296 thymidine kinase; Provisional

Probab=98.03  E-value=3.8e-05  Score=64.66  Aligned_cols=93  Identities=14%  Similarity=0.215  Sum_probs=51.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC-C-c---------cch-------HHHHHHHHHHHHhhccCCCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS-D-D---------RGI-------QVIRDKVKTFAQQTASGFNQ  130 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~-~-~---------~~~-------~~i~~~i~~~~~~~~~~~~~  130 (355)
                      .+++||+|+|||+++..++..+.....  .++.+.+. + .         .+.       ....+.+..+..  .     
T Consensus         5 ~litG~~GsGKTT~~l~~~~~~~~~g~--~v~i~k~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~--~-----   75 (190)
T PRK04296          5 EFIYGAMNSGKSTELLQRAYNYEERGM--KVLVFKPAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE--E-----   75 (190)
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHcCC--eEEEEeccccccccCCcEecCCCCcccceEeCChHHHHHHHHh--h-----
Confidence            689999999999999988887744322  22222210 0 0         000       011111111111  0     


Q ss_pred             CCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecC
Q psy17903        131 DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (355)
Q Consensus       131 ~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~  176 (355)
                      .    .+..+|+|||++.+..+....|.+.+..  ....+|+++..
T Consensus        76 ~----~~~dvviIDEaq~l~~~~v~~l~~~l~~--~g~~vi~tgl~  115 (190)
T PRK04296         76 G----EKIDCVLIDEAQFLDKEQVVQLAEVLDD--LGIPVICYGLD  115 (190)
T ss_pred             C----CCCCEEEEEccccCCHHHHHHHHHHHHH--cCCeEEEEecC
Confidence            0    1345999999999987766666666653  33445555543

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.95  E-value=0.00057  Score=62.04  Aligned_cols=48  Identities=19%  Similarity=0.229  Sum_probs=38.8

Q ss_pred             eEEecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHH
Q psy17903        190 KFRFKPLAENTMLTRLQYICEQESV---MCDFKALETLVETSGGDMRRAIT  237 (355)
Q Consensus       190 ~i~~~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~l~~~~~g~~r~~~~  237 (355)
                      .+++++++.+|+..++.......-+   ..++...+.+...++||+|++.+
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   35667788888888999998753

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).

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=97.92  E-value=0.0002  Score=62.83  Aligned_cols=185  Identities=18%  Similarity=0.127  Sum_probs=98.8

Q ss_pred             CCCcccccHHH---HHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHH
Q psy17903         43 TIDDVIEQQEV---VSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (355)
Q Consensus        43 ~~~~~vg~~~~---~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~  119 (355)
                      ...++++-+..   ...+.-.-+.|.  -..+||.+|.|||..++.++..-..    ..+.+.+.+.  ....+...+..
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--LVVVYGYAGLGKTQAAKNYAPSNPN----ALLIEADPSY--TALVLILIICA  141 (297)
T ss_pred             ccccccccchhHhHhhhhhhhhhcCc--eEEEeccccchhHHHHHhhcccCcc----ceeecCChhh--HHHHHHHHHHH
Confidence            44566766554   333333434443  4799999999999999999987421    1122222221  11111111100


Q ss_pred             HHHhhc-----------cCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCC-cc-------c
Q psy17903        120 FAQQTA-----------SGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYV-SC-------I  180 (355)
Q Consensus       120 ~~~~~~-----------~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~-~~-------l  180 (355)
                      ......           .... .    ...++|++||+++|...+.+.|++..++...  -+++.+++. .+       .
T Consensus       142 ~~~~~~~~~~~d~~~~~~~~l-~----~~~~~iivDEA~~L~~~ale~lr~i~d~~Gi--~~vLvG~prL~~~l~~~~~~  214 (297)
T COG2842         142 AAFGATDGTINDLTERLMIRL-R----DTVRLIIVDEADRLPYRALEELRRIHDKTGI--GVVLVGMPRLFKVLRRPEDE  214 (297)
T ss_pred             HHhcccchhHHHHHHHHHHHH-c----cCcceeeeehhhccChHHHHHHHHHHHhhCc--eEEEecChHHHhccccchHH
Confidence            000000           0000 0    1345999999999999999999999886554  344455433 11       1


Q ss_pred             cccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh
Q psy17903        181 IQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK  246 (355)
Q Consensus       181 ~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~  246 (355)
                      ...+.+|..   .+....++.++...+.....    ....++.+..+....+|++|.+...+.-+...+
T Consensus       215 ~~rl~srv~v~~~~~~~~~d~d~~~~~~~~~l----~~~~~~~v~~~~~~~~g~~~~L~~~l~~~~~~a  279 (297)
T COG2842         215 LSRLYSRVRVGKLLGEKFPDADELAEIAALVL----PTEDELVLMQVIKETEGNIRRLDKILAGAVGTA  279 (297)
T ss_pred             HHHHHHHhhhHhhhhhhhhhhHHHHHHHHhhC----ccchHHHHHHHHHhcchhHhHHHHHHhhhhhhh
Confidence            112223222   11112222233333333221    124667777788888999999998887666554

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=97.90  E-value=2.5e-05  Score=72.43  Aligned_cols=92  Identities=18%  Similarity=0.276  Sum_probs=52.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh--cCCccccceeeecCCCccchHHHHHHHHHHH----------Hh-hccC-CCCCCCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL--FGDMYRERILELNASDDRGIQVIRDKVKTFA----------QQ-TASG-FNQDGKP  134 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l--~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~----------~~-~~~~-~~~~~~~  134 (355)
                      ++|.|.||||||.+|-.+++.+  ........++..|....   ..++..+....          .. .... .......
T Consensus         4 ~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~---~~l~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   80 (352)
T PF09848_consen    4 ILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLR---NKLREQLAKKYNPKLKKSDFRKPTSFINNYSESDKE   80 (352)
T ss_pred             EEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHH---HHHHHHHhhhcccchhhhhhhhhHHHHhhccccccc
Confidence            7999999999999999999998  33333333444444321   22222221111          00 0000 0000111


Q ss_pred             CCCcEEEEEeCCCCCCHH--------HHHHHHHHhhh
Q psy17903        135 CPPFKIVILDEADSMTHA--------AQAALRRTMEK  163 (355)
Q Consensus       135 ~~~~~vliiDe~d~l~~~--------~~~~Ll~~le~  163 (355)
                      ...+.+|||||+|+|...        ..+.|..++..
T Consensus        81 ~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~  117 (352)
T PF09848_consen   81 KNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKR  117 (352)
T ss_pred             CCcCCEEEEehhHhhhhccccccccccHHHHHHHHhc
Confidence            136679999999999872        23567777765

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=97.88  E-value=0.00019  Score=60.65  Aligned_cols=99  Identities=18%  Similarity=0.208  Sum_probs=65.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADS  148 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~  148 (355)
                      ++|.|+-|+|||++.+.|......+..       ...  ...+..    ..+...               -++.+||++.
T Consensus        55 lvl~G~QG~GKStf~~~L~~~~~~d~~-------~~~--~~kd~~----~~l~~~---------------~iveldEl~~  106 (198)
T PF05272_consen   55 LVLVGKQGIGKSTFFRKLGPEYFSDSI-------NDF--DDKDFL----EQLQGK---------------WIVELDELDG  106 (198)
T ss_pred             eeEecCCcccHHHHHHHHhHHhccCcc-------ccC--CCcHHH----HHHHHh---------------HheeHHHHhh
Confidence            899999999999999999666432211       111  111211    122111               1899999999


Q ss_pred             CCHHHHHHHHHHhhh---------------ccCCccEEEEecCCccc-cccccCCeeeEEecC
Q psy17903        149 MTHAAQAALRRTMEK---------------ETKSTRFCLICNYVSCI-IQPLTSRCSKFRFKP  195 (355)
Q Consensus       149 l~~~~~~~Ll~~le~---------------~~~~~~~Il~~~~~~~l-~~~l~sr~~~i~~~~  195 (355)
                      +.....+.|..++..               .+..++||.+||..+-+ +++=-+|+..|++..
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            998888888777742               34567888889886644 345667777777765

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.87  E-value=0.00012  Score=59.60  Aligned_cols=24  Identities=29%  Similarity=0.618  Sum_probs=21.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|+||+|+|||+++..++.....
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~   25 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIAT   25 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHh
Confidence            689999999999999999998743

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.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.87  E-value=0.00012  Score=68.10  Aligned_cols=139  Identities=14%  Similarity=0.213  Sum_probs=69.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC----CccccceeeecCCCccchHHHHHHHHHHHHh---hccCCCC-C-----CCCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG----DMYRERILELNASDDRGIQVIRDKVKTFAQQ---TASGFNQ-D-----GKPC  135 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~----~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~---~~~~~~~-~-----~~~~  135 (355)
                      ++|+||+|+||||++..++..+..    ......++..|+........    +..++..   +...... .     -...
T Consensus       177 i~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQ----L~~~a~~lgvpv~~~~~~~~l~~~L~~~  252 (388)
T PRK12723        177 FILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQ----IQTYGDIMGIPVKAIESFKDLKEEITQS  252 (388)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHH----HHHHhhcCCcceEeeCcHHHHHHHHHHh
Confidence            999999999999999999987642    22333444544432212221    2222211   0000000 0     0000


Q ss_pred             CCcEEEEEeCCCCCCHHH--HHHHHHHhhhcc--CCccEEEEecCCccccccccCC-----eeeEEecCCCHHHHHHHHH
Q psy17903        136 PPFKIVILDEADSMTHAA--QAALRRTMEKET--KSTRFCLICNYVSCIIQPLTSR-----CSKFRFKPLAENTMLTRLQ  206 (355)
Q Consensus       136 ~~~~vliiDe~d~l~~~~--~~~Ll~~le~~~--~~~~~Il~~~~~~~l~~~l~sr-----~~~i~~~~~~~~~~~~~l~  206 (355)
                      .++.+|+||.+.++..+.  ...+..+++...  ..+.+|+.++....-...+..+     ...+-|..+++..-...+-
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            255699999999987542  355666665432  2455666554332211112111     1245566666655444444


Q ss_pred             HHHHH
Q psy17903        207 YICEQ  211 (355)
Q Consensus       207 ~~~~~  211 (355)
                      ..+..
T Consensus       333 ~~~~~  337 (388)
T PRK12723        333 SLIYE  337 (388)
T ss_pred             HHHHH
Confidence            44443

>KOG4658|consensus

Probab=97.87  E-value=0.00024  Score=73.04  Aligned_cols=187  Identities=11%  Similarity=0.049  Sum_probs=107.0

Q ss_pred             cccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC--Cccc-cceeeecCCCccchHHHHHHHHH-HHHh
Q psy17903         48 IEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG--DMYR-ERILELNASDDRGIQVIRDKVKT-FAQQ  123 (355)
Q Consensus        48 vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~--~~~~-~~~~~~~~~~~~~~~~i~~~i~~-~~~~  123 (355)
                      +|++..++.+.+.+-......+=+||..|+||||+++.+.+....  ..++ ...+.++.  ......+...+-. +...
T Consensus       161 VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk--~f~~~~iq~~Il~~l~~~  238 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSK--EFTTRKIQQTILERLGLL  238 (889)
T ss_pred             ccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcc--cccHHhHHHHHHHHhccC
Confidence            999999999999887766656999999999999999999998741  1111 11122222  2222222222211 1000


Q ss_pred             hccCC-------------CCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeee
Q psy17903        124 TASGF-------------NQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSK  190 (355)
Q Consensus       124 ~~~~~-------------~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~  190 (355)
                      .....             .-.+    ++-+|++||+  ..+.....+...+........+++||....--..+.. ++..
T Consensus       239 ~~~~~~~~~~~~~~~i~~~L~~----krfllvLDDI--W~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~-~~~~  311 (889)
T KOG4658|consen  239 DEEWEDKEEDELASKLLNLLEG----KRFLLVLDDI--WEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMG-VDYP  311 (889)
T ss_pred             CcccchhhHHHHHHHHHHHhcc----CceEEEEecc--cccccHHhcCCCCCCccCCeEEEEEeccHhhhhcccc-CCcc
Confidence            00000             0001    3449999998  3333333443333333334778888875543222222 2456


Q ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy17903        191 FRFKPLAENTMLTRLQYICEQESVMC---DFKALETLVETSGGDMRRAITCLQSCA  243 (355)
Q Consensus       191 i~~~~~~~~~~~~~l~~~~~~~~~~~---~~~~~~~l~~~~~g~~r~~~~~l~~~~  243 (355)
                      ++..-++.++.=..+++.+-.....-   -++....++..|+|-+-.+.-.-..++
T Consensus       312 ~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma  367 (889)
T KOG4658|consen  312 IEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLA  367 (889)
T ss_pred             ccccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhc
Confidence            67777788888777777764432222   256777788899888876655544433

>KOG0481|consensus

Probab=97.84  E-value=0.0013  Score=61.73  Aligned_cols=106  Identities=22%  Similarity=0.308  Sum_probs=63.4

Q ss_pred             cccccHHHHHHHHHHHhcCCC------------CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC--CCccchH
Q psy17903         46 DVIEQQEVVSVLKKCLSGADL------------PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA--SDDRGIQ  111 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~~~~------------~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~--~~~~~~~  111 (355)
                      .+.|+.++++.+.=.+-+|..            -++|+.|.||+.|+.+.+.+-+-.     . -.++-++  +...+..
T Consensus       332 SIfG~~DiKkAiaClLFgGsrK~LpDg~~lRGDINVLLLGDPgtAKSQlLKFvEkvs-----P-IaVYTSGKGSSAAGLT  405 (729)
T KOG0481|consen  332 SIFGHEDIKKAIACLLFGGSRKRLPDGVTLRGDINVLLLGDPGTAKSQLLKFVEKVS-----P-IAVYTSGKGSSAAGLT  405 (729)
T ss_pred             hhcCchhHHHHHHHHhhcCccccCCCcceeccceeEEEecCCchhHHHHHHHHHhcC-----c-eEEEecCCCcccccce
Confidence            467899998888877755421            139999999999999998876553     1 1122222  1111110


Q ss_pred             --HHHHHH-HHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhh
Q psy17903        112 --VIRDKV-KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEK  163 (355)
Q Consensus       112 --~i~~~i-~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~  163 (355)
                        .+++-. .+|...+      +....++++|++|||+|.|.++..-++-+.||.
T Consensus       406 ASV~RD~~tReFylEG------GAMVLADgGVvCIDEFDKMre~DRVAIHEAMEQ  454 (729)
T KOG0481|consen  406 ASVIRDPSTREFYLEG------GAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQ  454 (729)
T ss_pred             eeEEecCCcceEEEec------ceEEEecCCEEEeehhhccCchhhhHHHHHHHh
Confidence              111000 0110000      001114667999999999999888888888875

>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=97.81  E-value=6.6e-05  Score=63.39  Aligned_cols=108  Identities=13%  Similarity=0.197  Sum_probs=56.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCC------------CCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK------------PCP  136 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~------------~~~  136 (355)
                      ++|.||+|+||||.+-.++..+.....+..++..|.......+.++...+.+. .+.........            ...
T Consensus         4 i~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~-vp~~~~~~~~~~~~~~~~~l~~~~~~   82 (196)
T PF00448_consen    4 IALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILG-VPFYVARTESDPAEIAREALEKFRKK   82 (196)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHT-EEEEESSTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhc-cccchhhcchhhHHHHHHHHHHHhhc
Confidence            89999999999999999998876554444455555443333333322221111 01000000000            001


Q ss_pred             CcEEEEEeCCCCCCHH--HHHHHHHHhhhc-cCCccEEEEecCC
Q psy17903        137 PFKIVILDEADSMTHA--AQAALRRTMEKE-TKSTRFCLICNYV  177 (355)
Q Consensus       137 ~~~vliiDe~d~l~~~--~~~~Ll~~le~~-~~~~~~Il~~~~~  177 (355)
                      +..+|+||=+.+...+  ....|.++++.. +..+.+++.++..
T Consensus        83 ~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~  126 (196)
T PF00448_consen   83 GYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMG  126 (196)
T ss_dssp             TSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGG
T ss_pred             CCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccC
Confidence            3459999999877643  345555555543 4456666666543

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 ....

>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=97.81  E-value=0.00097  Score=59.06  Aligned_cols=152  Identities=16%  Similarity=0.260  Sum_probs=89.0

Q ss_pred             cccccHHHHHHHHH---HHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHH
Q psy17903         46 DVIEQQEVVSVLKK---CLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQ  122 (355)
Q Consensus        46 ~~vg~~~~~~~l~~---~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~  122 (355)
                      +++--+++++.+.+   .+...+ .|.|+.|..|+||.++++..+.-.     +..++.+......+..+.++.++....
T Consensus         9 ~lVlf~~ai~hi~ri~RvL~~~~-Gh~LLvG~~GsGr~sl~rLaa~i~-----~~~~~~i~~~~~y~~~~f~~dLk~~~~   82 (268)
T PF12780_consen    9 NLVLFDEAIEHIARISRVLSQPR-GHALLVGVGGSGRQSLARLAAFIC-----GYEVFQIEITKGYSIKDFKEDLKKALQ   82 (268)
T ss_dssp             -----HHHHHHHHHHHHHHCSTT-EEEEEECTTTSCHHHHHHHHHHHT-----TEEEE-TTTSTTTHHHHHHHHHHHHHH
T ss_pred             ceeeHHHHHHHHHHHHHHHcCCC-CCeEEecCCCccHHHHHHHHHHHh-----ccceEEEEeeCCcCHHHHHHHHHHHHH
Confidence            34555566655544   444332 469999999999999999776654     345666666665666677666666543


Q ss_pred             hhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHH---------------------HHH---------------------H
Q psy17903        123 QTASGFNQDGKPCPPFKIVILDEADSMTHAAQAA---------------------LRR---------------------T  160 (355)
Q Consensus       123 ~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~---------------------Ll~---------------------~  160 (355)
                      .....    +    ...+++++|.+.......+.                     +..                     +
T Consensus        83 ~ag~~----~----~~~vfll~d~qi~~~~fLe~in~LL~sGeip~LF~~eE~~~i~~~l~~~~~~~~~~~~~~~~~~~F  154 (268)
T PF12780_consen   83 KAGIK----G----KPTVFLLTDSQIVDESFLEDINSLLSSGEIPNLFTKEELDNIISSLREEAKAEGISDSRESLYEFF  154 (268)
T ss_dssp             HHHCS---------S-EEEEEECCCSSSCHHHHHHHHHHHCSS-TTTS-TCHHHHHHHHHHHHHHHCT--SSHHHHHHHH
T ss_pred             HHhcc----C----CCeEEEecCcccchHhHHHHHHHHHhCCCCCCCccHHHHHHHHHHhHHHHHHcCCCCchHHHHHHH
Confidence            32211    1    23478888876553321111                     111                     1


Q ss_pred             hhhccCCccEEEEecCCc-------cccccccCCeeeEEecCCCHHHHHHHHHHHHHH
Q psy17903        161 MEKETKSTRFCLICNYVS-------CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ  211 (355)
Q Consensus       161 le~~~~~~~~Il~~~~~~-------~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~  211 (355)
                      +++-..+..+|++-+...       +..|+|.++|.+..|.+.+.+.+..+-...+..
T Consensus       155 ~~rvr~nLHivl~~sp~~~~~r~~~~~fPaL~~~ctIdW~~~W~~eaL~~Va~~~l~~  212 (268)
T PF12780_consen  155 IERVRKNLHIVLCMSPVGPNFRDRCRSFPALVNCCTIDWFDPWPEEALLSVANKFLSD  212 (268)
T ss_dssp             HHHHCCCEEEEEEESTTTTCCCHHHHHHCCHHHHSEEEEEES--HHHHHHHHHHHCCH
T ss_pred             HHHHHhheeEEEEECCCCchHHHHHHhCcchhcccEEEeCCcCCHHHHHHHHHHHHHh
Confidence            122335566777665432       246889999999999999999988887766544

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.

>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=97.80  E-value=0.00021  Score=59.34  Aligned_cols=44  Identities=27%  Similarity=0.362  Sum_probs=35.9

Q ss_pred             ccHHHHHHHHHHHhcC-CCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         49 EQQEVVSVLKKCLSGA-DLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        49 g~~~~~~~l~~~l~~~-~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .|.+++..+.+.+... ..++++|.+|+|+|||.++-.++..+..
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            4677788888888776 5567999999999999999987777653

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 ....

>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=97.78  E-value=0.00073  Score=58.43  Aligned_cols=131  Identities=13%  Similarity=0.190  Sum_probs=72.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc---------------cchHHHH-------HHHHHHHHhhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD---------------RGIQVIR-------DKVKTFAQQTA  125 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~---------------~~~~~i~-------~~i~~~~~~~~  125 (355)
                      .+++.|++|+|||+++..+...+.....  .++-+.....               ...+.+.       +.+........
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~~~f~--~I~l~t~~~n~~~~~~i~p~~i~~~~~~e~le~~l~~~k~~I~k~~~k~~   92 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLRHKFD--HIFLITPEYNNEYYKYIWPDHIFKVFDKEELEYILIRQKEKIEKYIKKSP   92 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhcccCC--EEEEEecCCchhhhhhcchhhccccccHHHHHHHHHHHHHHHHHHhhhhc
Confidence            3899999999999999999987654321  1111111100               0111111       11122221111


Q ss_pred             cCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc-cCCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHH
Q psy17903        126 SGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-TKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTR  204 (355)
Q Consensus       126 ~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~-~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~  204 (355)
                      .     .+ ...+-+||+||+..-. -....+..++..+ +-++-+|+.+.....+.+.+|..+..+-+-+.+..++.-+
T Consensus        93 ~-----~k-~~~~~LiIlDD~~~~~-~k~~~l~~~~~~gRH~~is~i~l~Q~~~~lp~~iR~n~~y~i~~~~s~~dl~~i  165 (241)
T PF04665_consen   93 Q-----KK-NNPRFLIILDDLGDKK-LKSKILRQFFNNGRHYNISIIFLSQSYFHLPPNIRSNIDYFIIFNNSKRDLENI  165 (241)
T ss_pred             c-----cC-CCCCeEEEEeCCCCch-hhhHHHHHHHhcccccceEEEEEeeecccCCHHHhhcceEEEEecCcHHHHHHH
Confidence            0     11 1135599999986521 1223455555443 3456677788888888888988777554335676666544


Q ss_pred             HHH
Q psy17903        205 LQY  207 (355)
Q Consensus       205 l~~  207 (355)
                      ++.
T Consensus       166 ~~~  168 (241)
T PF04665_consen  166 YRN  168 (241)
T ss_pred             HHh
Confidence            443

This is thought to be an ATPase involved in viral DNA packaging [].

>KOG3347|consensus

Probab=97.73  E-value=1.6e-05  Score=62.20  Aligned_cols=26  Identities=31%  Similarity=0.556  Sum_probs=23.7

Q ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         65 DLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        65 ~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ..|++|++|.||+||||++.+++..+
T Consensus         6 ~~PNILvtGTPG~GKstl~~~lae~~   31 (176)
T KOG3347|consen    6 ERPNILVTGTPGTGKSTLAERLAEKT   31 (176)
T ss_pred             cCCCEEEeCCCCCCchhHHHHHHHHh
Confidence            35779999999999999999999887

>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=97.72  E-value=6.2e-05  Score=63.55  Aligned_cols=36  Identities=14%  Similarity=0.204  Sum_probs=21.9

Q ss_pred             cEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecC
Q psy17903        138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (355)
Q Consensus       138 ~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~  176 (355)
                      ..+|||||++++++.....++..   ...++.+|++++.
T Consensus       120 ~~~iIvDEaQN~t~~~~k~ilTR---~g~~skii~~GD~  155 (205)
T PF02562_consen  120 NAFIIVDEAQNLTPEELKMILTR---IGEGSKIIITGDP  155 (205)
T ss_dssp             SEEEEE-SGGG--HHHHHHHHTT---B-TT-EEEEEE--
T ss_pred             ceEEEEecccCCCHHHHHHHHcc---cCCCcEEEEecCc
Confidence            36999999999998776555444   4567788888864

; GO: 0005524 ATP binding; PDB: 3B85_A.

>COG3899 Predicted ATPase [General function prediction only]

Probab=97.72  E-value=0.0051  Score=63.47  Aligned_cols=104  Identities=13%  Similarity=0.101  Sum_probs=71.8

Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHhhhcc-----CCccEEEEecCCccccccccCC--eeeEEecCCCHHHHHHHHHHHHHH
Q psy17903        139 KIVILDEADSMTHAAQAALRRTMEKET-----KSTRFCLICNYVSCIIQPLTSR--CSKFRFKPLAENTMLTRLQYICEQ  211 (355)
Q Consensus       139 ~vliiDe~d~l~~~~~~~Ll~~le~~~-----~~~~~Il~~~~~~~l~~~l~sr--~~~i~~~~~~~~~~~~~l~~~~~~  211 (355)
                      -|+|+||+|...+...+.|-..|.+-+     .+.+++..+.. ..+.+..++.  ...+.+.|++..+....+...+..
T Consensus       156 lVi~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~-~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~  234 (849)
T COG3899         156 LVIVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLR-PTLGEILKSATNITTITLAPLSRADTNQLVAATLGC  234 (849)
T ss_pred             eEEEEecccccChhHHHHHHHHHHhcchhhhhccccccCCCcc-chhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCC
Confidence            499999999999888887777777554     11222211111 1111222222  347999999999999999988764


Q ss_pred             cCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        212 ESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       212 ~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                       ......+..+.+.+.+.||+-=+.+.++.+..
T Consensus       235 -~~~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~  266 (849)
T COG3899         235 -TKLLPAPLLELIFEKTKGNPFFIEEFLKALYE  266 (849)
T ss_pred             -cccccchHHHHHHHHhcCCCccHHHHHHHHHh
Confidence             24566788899999999999888877776665

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=97.71  E-value=8.2e-05  Score=63.64  Aligned_cols=20  Identities=55%  Similarity=0.835  Sum_probs=18.7

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~   88 (355)
                      +||||+||+|||++|+.++.
T Consensus        15 ~liyG~~G~GKtt~a~~~~~   34 (220)
T TIGR01618        15 YLIYGKPGTGKTSTIKYLPG   34 (220)
T ss_pred             EEEECCCCCCHHHHHHhcCC
Confidence            99999999999999999864

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.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.69  E-value=0.00056  Score=62.97  Aligned_cols=137  Identities=16%  Similarity=0.206  Sum_probs=70.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc--CCccccceeeecCCCccchHHHHHHHHHHHHhhccC---CCCC------CCCCCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF--GDMYRERILELNASDDRGIQVIRDKVKTFAQQTASG---FNQD------GKPCPP  137 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~---~~~~------~~~~~~  137 (355)
                      +.|.||+|+||||..-.+|..+.  ....+..++..|.-.-...+.+    +.++..-...   ....      -....+
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            99999999999999888888765  3444445555554332222222    2221110000   0000      000014


Q ss_pred             cEEEEEeCCCCCCHH--HHHHHHHHhhhc-cCCccEEEEecCCccccccccCCee-----eEEecCCCHHHHHHHHHHHH
Q psy17903        138 FKIVILDEADSMTHA--AQAALRRTMEKE-TKSTRFCLICNYVSCIIQPLTSRCS-----KFRFKPLAENTMLTRLQYIC  209 (355)
Q Consensus       138 ~~vliiDe~d~l~~~--~~~~Ll~~le~~-~~~~~~Il~~~~~~~l~~~l~sr~~-----~i~~~~~~~~~~~~~l~~~~  209 (355)
                      +++|+||=+.+-..+  ....|..++... +..+.+++.++....-+..+..++.     .+-|..+++.....-+-..+
T Consensus       282 ~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~~~~i~~~I~TKlDET~s~G~~~s~~  361 (407)
T COG1419         282 CDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFSLFPIDGLIFTKLDETTSLGNLFSLM  361 (407)
T ss_pred             CCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHhccCCcceeEEEcccccCchhHHHHHH
Confidence            569999988776543  345566665543 3455667766655444444433333     35556666544433333333

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.68  E-value=0.00024  Score=65.53  Aligned_cols=26  Identities=35%  Similarity=0.631  Sum_probs=23.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDM   94 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~   94 (355)
                      ++|.||+|+||||++..++..+....
T Consensus       244 I~LVGptGvGKTTTiaKLA~~L~~~G  269 (436)
T PRK11889        244 IALIGPTGVGKTTTLAKMAWQFHGKK  269 (436)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHcC
Confidence            89999999999999999999886443

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.66  E-value=0.00023  Score=59.07  Aligned_cols=30  Identities=30%  Similarity=0.589  Sum_probs=26.1

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCCccc
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYR   96 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~   96 (355)
                      +-++++|+||+||||+++.+++.+....+.
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~i~~   31 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQEIWR   31 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHhhhh
Confidence            448999999999999999999999776553

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

Probab=97.64  E-value=5.9e-05  Score=58.40  Aligned_cols=22  Identities=32%  Similarity=0.708  Sum_probs=21.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|+||+||||+++.+++.+
T Consensus         2 I~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999998

...

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=97.64  E-value=0.0002  Score=56.30  Aligned_cols=25  Identities=28%  Similarity=0.499  Sum_probs=21.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +++++||+|+|||+.+..++..+..
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~   26 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLD   26 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHh
Confidence            5899999999999999888887753

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=97.63  E-value=0.00065  Score=68.75  Aligned_cols=120  Identities=18%  Similarity=0.184  Sum_probs=66.5

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHH-------HHHHHH
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK-------VKTFAQ  122 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~-------i~~~~~  122 (355)
                      .+.+.+.+......   +.++|+|+||||||++++++.+.+........ +.+-++.......+.+.       +..+..
T Consensus       325 ~~~Q~~Ai~~~~~~---~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~-v~l~ApTg~AA~~L~e~~g~~a~Tih~lL~  400 (720)
T TIGR01448       325 SEEQKQALDTAIQH---KVVILTGGPGTGKTTITRAIIELAEELGGLLP-VGLAAPTGRAAKRLGEVTGLTASTIHRLLG  400 (720)
T ss_pred             CHHHHHHHHHHHhC---CeEEEECCCCCCHHHHHHHHHHHHHHcCCCce-EEEEeCchHHHHHHHHhcCCccccHHHHhh
Confidence            45555566655432   24899999999999999999888754320012 22222221112222211       111211


Q ss_pred             hhccCCCCC-CCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecC
Q psy17903        123 QTASGFNQD-GKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (355)
Q Consensus       123 ~~~~~~~~~-~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~  176 (355)
                      ......... .....+..+|||||+..+.......|++.+.   ..+.+|++++.
T Consensus       401 ~~~~~~~~~~~~~~~~~~llIvDEaSMvd~~~~~~Ll~~~~---~~~rlilvGD~  452 (720)
T TIGR01448       401 YGPDTFRHNHLEDPIDCDLLIVDESSMMDTWLALSLLAALP---DHARLLLVGDT  452 (720)
T ss_pred             ccCCccchhhhhccccCCEEEEeccccCCHHHHHHHHHhCC---CCCEEEEECcc
Confidence            111000000 0000145699999999999888777777653   46778888863

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.

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=97.63  E-value=0.00065  Score=66.91  Aligned_cols=105  Identities=22%  Similarity=0.354  Sum_probs=59.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCccc--cceeeecCCCccchHHHHHHHHHHH-----------------Hh--hcc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYR--ERILELNASDDRGIQVIRDKVKTFA-----------------QQ--TAS  126 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~~--~~~~~~~~~~~~~~~~i~~~i~~~~-----------------~~--~~~  126 (355)
                      ..+|+|+||||||+++..+...+......  ..-+.+-+.+..-...+.+.+....                 .+  ...
T Consensus       162 ~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~~l~~~~~~~~~~~~~a~TiHrlL  241 (586)
T TIGR01447       162 FSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVKNLAAAEALIAALPSEAVTIHRLL  241 (586)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhcccccchhhhhccccccchhhhhh
Confidence            38999999999999999988776431110  0123333333222233333322210                 00  000


Q ss_pred             CCCCC--------CCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecC
Q psy17903        127 GFNQD--------GKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (355)
Q Consensus       127 ~~~~~--------~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~  176 (355)
                      +....        ..+ -+..+|||||+..+.......|++.+   +..+.+|+.++.
T Consensus       242 g~~~~~~~~~~~~~~~-l~~dvlIiDEaSMvd~~l~~~ll~al---~~~~rlIlvGD~  295 (586)
T TIGR01447       242 GIKPDTKRFRHHERNP-LPLDVLVVDEASMVDLPLMAKLLKAL---PPNTKLILLGDK  295 (586)
T ss_pred             cccCCcchhhhcccCC-CcccEEEEcccccCCHHHHHHHHHhc---CCCCEEEEECCh
Confidence            00000        111 14579999999999988777777766   456788888863

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.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.63  E-value=0.00029  Score=62.47  Aligned_cols=35  Identities=20%  Similarity=0.238  Sum_probs=28.4

Q ss_pred             HHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         58 KKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        58 ~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ....+.++..+++|.||+|+||||+++.++..+..
T Consensus       103 ~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~~  137 (270)
T TIGR02858       103 PYLVRNNRVLNTLIISPPQCGKTTLLRDLARILST  137 (270)
T ss_pred             HHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccCC
Confidence            34445566678999999999999999999988753

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=97.62  E-value=0.00047  Score=62.97  Aligned_cols=25  Identities=36%  Similarity=0.487  Sum_probs=22.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      ++|.|++|+||||++..++..+...
T Consensus       143 i~~~G~~GvGKTTtiakLA~~l~~~  167 (336)
T PRK14974        143 IVFVGVNGTGKTTTIAKLAYYLKKN  167 (336)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            9999999999999999999887543

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.62  E-value=0.00063  Score=64.44  Aligned_cols=23  Identities=30%  Similarity=0.527  Sum_probs=21.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.||+|+||||++..++..+.
T Consensus       224 i~~vGptGvGKTTt~~kLA~~~~  246 (424)
T PRK05703        224 VALVGPTGVGKTTTLAKLAARYA  246 (424)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            89999999999999999988764

>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria

Probab=97.60  E-value=0.0032  Score=58.93  Aligned_cols=91  Identities=18%  Similarity=0.257  Sum_probs=60.2

Q ss_pred             cEEEEEeCCCCCCH--------HHHHHHHHHhhhc----cCCccEEEEecCC-----c---cccccccCCe---------
Q psy17903        138 FKIVILDEADSMTH--------AAQAALRRTMEKE----TKSTRFCLICNYV-----S---CIIQPLTSRC---------  188 (355)
Q Consensus       138 ~~vliiDe~d~l~~--------~~~~~Ll~~le~~----~~~~~~Il~~~~~-----~---~l~~~l~sr~---------  188 (355)
                      +=+|++||++.+-.        ...+.|+.++++.    .+++.|++++++.     .   .-+++|.+|.         
T Consensus       240 GLlI~lDE~e~l~kl~~~~~R~~~ye~lr~lidd~~~G~~~gL~~~~~gTPef~eD~rrGv~sY~AL~~RL~~~~~~~~~  319 (416)
T PF10923_consen  240 GLLILLDELENLYKLRNDQAREKNYEALRQLIDDIDQGRAPGLYFVFAGTPEFFEDGRRGVYSYEALAQRLAEEFFADDG  319 (416)
T ss_pred             ceEEEEechHHHHhcCChHHHHHHHHHHHHHHHHHhcCCCCceEEEEeeCHHHhhCccccccccHHHHHHHhcccccccc
Confidence            45899999987721        3357777777653    2456677766532     1   1245555442         


Q ss_pred             ------eeEEecCCCHHHHHHHHHHHHHH------cCCCCCHHHHHHHHHHc
Q psy17903        189 ------SKFRFKPLAENTMLTRLQYICEQ------ESVMCDFKALETLVETS  228 (355)
Q Consensus       189 ------~~i~~~~~~~~~~~~~l~~~~~~------~~~~~~~~~~~~l~~~~  228 (355)
                            ..+.+.+++.+++..++.++..-      ....++++.+..+++.+
T Consensus       320 ~~n~~~pvIrL~~l~~eel~~l~~klr~i~a~~~~~~~~v~d~~l~~~~~~~  371 (416)
T PF10923_consen  320 FDNLRAPVIRLQPLTPEELLELLEKLRDIYAEAYGYESRVDDEELKAFAQHV  371 (416)
T ss_pred             ccCccCceecCCCCCHHHHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHH
Confidence                  27899999999998887776542      23467888888887665

Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=97.59  E-value=0.00088  Score=66.19  Aligned_cols=104  Identities=19%  Similarity=0.271  Sum_probs=59.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCc-cccceeeecCCCccchHHHHHHHHHHH-----------------Hh--hccCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDM-YRERILELNASDDRGIQVIRDKVKTFA-----------------QQ--TASGF  128 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~i~~~i~~~~-----------------~~--~~~~~  128 (355)
                      .+|+|+|||||||++..+...+.... .....+.+-+++..-...+.+.+....                 .+  ...+.
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            89999999999999999888763311 011223333333222233333222100                 00  00111


Q ss_pred             CCC--------CCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecC
Q psy17903        129 NQD--------GKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (355)
Q Consensus       129 ~~~--------~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~  176 (355)
                      ...        ..+ -+..+|||||+..+.-.....|++.+   +.++++|+.++.
T Consensus       250 ~~~~~~~~~~~~~~-l~~dvlIvDEaSMvd~~lm~~ll~al---~~~~rlIlvGD~  301 (615)
T PRK10875        250 QPGSQRLRYHAGNP-LHLDVLVVDEASMVDLPMMARLIDAL---PPHARVIFLGDR  301 (615)
T ss_pred             CCCccchhhccccC-CCCCeEEEChHhcccHHHHHHHHHhc---ccCCEEEEecch
Confidence            100        011 13469999999999877777777766   456889988864

>KOG1051|consensus

Probab=97.58  E-value=0.00078  Score=68.19  Aligned_cols=171  Identities=16%  Similarity=0.150  Sum_probs=104.0

Q ss_pred             CCccccc-HHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCcccc-----ceeeecCC----CccchHHH
Q psy17903         44 IDDVIEQ-QEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRE-----RILELNAS----DDRGIQVI  113 (355)
Q Consensus        44 ~~~~vg~-~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~-----~~~~~~~~----~~~~~~~i  113 (355)
                      ++-++|+ +..++++.+.+......|-+|.|++|+|||.++.-+++.+..+....     .++.++..    ......++
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            5678887 77777777777665556689999999999999999999986533221     22333322    12223445


Q ss_pred             HHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHH-------HHHHHHHhhhccCCccEEEEecCC-----cccc
Q psy17903        114 RDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA-------QAALRRTMEKETKSTRFCLICNYV-----SCII  181 (355)
Q Consensus       114 ~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~-------~~~Ll~~le~~~~~~~~Il~~~~~-----~~l~  181 (355)
                      .+.++......-.+        .++-|++|||++.+....       ...+++.+..... +.+|.+|+..     -.-.
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            55555444321110        134599999999885421       2223333333222 6777766521     1246


Q ss_pred             ccccCCeeeEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHH
Q psy17903        182 QPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALET  223 (355)
Q Consensus       182 ~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~  223 (355)
                      |++.+|+..+.+.-|+.++...++.....+    .|..+++++...
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            899999999888889887766666554443    344455444333

>PRK13695 putative NTPase; Provisional

Probab=97.56  E-value=0.00099  Score=55.21  Aligned_cols=69  Identities=13%  Similarity=0.204  Sum_probs=42.7

Q ss_pred             cEEEEEeCCCCC---CHHHHHHHHHHhhhccCCccEEEEecCC--ccccccccCC--eeeEEecCCCHHHHHHHHHHHH
Q psy17903        138 FKIVILDEADSM---THAAQAALRRTMEKETKSTRFCLICNYV--SCIIQPLTSR--CSKFRFKPLAENTMLTRLQYIC  209 (355)
Q Consensus       138 ~~vliiDe~d~l---~~~~~~~Ll~~le~~~~~~~~Il~~~~~--~~l~~~l~sr--~~~i~~~~~~~~~~~~~l~~~~  209 (355)
                      ..++++||+..+   .....+.+...++.   ...+|++++..  ....+.+.++  +..+++.+-+.+++...+..+.
T Consensus        97 ~~~lllDE~~~~e~~~~~~~~~l~~~~~~---~~~~i~v~h~~~~~~~~~~i~~~~~~~i~~~~~~~r~~~~~~~~~~~  172 (174)
T PRK13695         97 ADVIIIDEIGKMELKSPKFVKAVEEVLDS---EKPVIATLHRRSVHPFVQEIKSRPGGRVYELTPENRDSLPFEILNRL  172 (174)
T ss_pred             CCEEEEECCCcchhhhHHHHHHHHHHHhC---CCeEEEEECchhhHHHHHHHhccCCcEEEEEcchhhhhHHHHHHHHH
Confidence            359999997554   33345666666642   23456666653  2344555555  4578888888888777766543

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.56  E-value=0.0014  Score=54.70  Aligned_cols=23  Identities=22%  Similarity=0.408  Sum_probs=21.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +++.|+||+||||+++.+++.++
T Consensus         2 i~i~G~pGsGKst~a~~la~~~~   24 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENFG   24 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            68999999999999999999873

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.

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=97.55  E-value=0.0005  Score=64.04  Aligned_cols=43  Identities=26%  Similarity=0.384  Sum_probs=33.5

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      |..+.+.+.+.+......++++.|+.|||||++.+++.+.+..
T Consensus         6 Q~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~   48 (364)
T PF05970_consen    6 QRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRS   48 (364)
T ss_pred             HHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhcc
Confidence            4556666666666544445999999999999999999998754

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.54  E-value=0.00061  Score=58.22  Aligned_cols=52  Identities=19%  Similarity=0.367  Sum_probs=34.2

Q ss_pred             HhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHH
Q psy17903         61 LSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (355)
Q Consensus        61 l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~  115 (355)
                      +.+|-++.  ++|+||||+|||+++..++......  ...++.++... ...+.+.+
T Consensus         5 l~GGi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~--g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237         5 LGGGVERGTITQIYGPPGSGKTNICMILAVNAARQ--GKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             hcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCC-CCHHHHHH
Confidence            44444434  9999999999999999998876433  23456666654 33344433

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

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.52  E-value=0.0013  Score=57.31  Aligned_cols=35  Identities=26%  Similarity=0.183  Sum_probs=26.5

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHh
Q psy17903         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        56 ~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .|-..+.+|-++.  ++++|+||+|||+++..++...
T Consensus        13 ~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~   49 (234)
T PRK06067         13 ELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGA   49 (234)
T ss_pred             HHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHH
Confidence            3445555554444  9999999999999999997654

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.51  E-value=0.0007  Score=54.77  Aligned_cols=42  Identities=14%  Similarity=0.219  Sum_probs=31.8

Q ss_pred             CcEEEEEeCCCCCCH---HHHHHHHHHhhhccCCccEEEEecCCc
Q psy17903        137 PFKIVILDEADSMTH---AAQAALRRTMEKETKSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d~l~~---~~~~~Ll~~le~~~~~~~~Il~~~~~~  178 (355)
                      .+.+||+||+-....   -..+.+++.+++.+..+-+|+|+....
T Consensus        95 ~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          95 EYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             CCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence            567999999965522   124668888988888999999998754

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.

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=97.49  E-value=0.0003  Score=71.45  Aligned_cols=115  Identities=15%  Similarity=0.234  Sum_probs=65.0

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHH-------HHHHHH
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK-------VKTFAQ  122 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~-------i~~~~~  122 (355)
                      .+.+...+...+...  ..++|.|++|||||++++++...+....+  .+.-+ ++...-...+.+.       +..+..
T Consensus       354 s~~Q~~Av~~i~~s~--~~~il~G~aGTGKTtll~~i~~~~~~~g~--~V~~~-ApTg~Aa~~L~~~~g~~a~Ti~~~~~  428 (744)
T TIGR02768       354 SEEQYEAVRHVTGSG--DIAVVVGRAGTGKSTMLKAAREAWEAAGY--RVIGA-ALSGKAAEGLQAESGIESRTLASLEY  428 (744)
T ss_pred             CHHHHHHHHHHhcCC--CEEEEEecCCCCHHHHHHHHHHHHHhCCC--eEEEE-eCcHHHHHHHHhccCCceeeHHHHHh
Confidence            455566666655442  24899999999999999999887654322  22222 2211111111110       111110


Q ss_pred             hhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEec
Q psy17903        123 QTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN  175 (355)
Q Consensus       123 ~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~  175 (355)
                      ..    ........+..+|||||+..+.......|+.....  ....+||+++
T Consensus       429 ~~----~~~~~~~~~~~llIvDEasMv~~~~~~~Ll~~~~~--~~~kliLVGD  475 (744)
T TIGR02768       429 AW----ANGRDLLSDKDVLVIDEAGMVGSRQMARVLKEAEE--AGAKVVLVGD  475 (744)
T ss_pred             hh----ccCcccCCCCcEEEEECcccCCHHHHHHHHHHHHh--cCCEEEEECC
Confidence            00    00001112557999999999998887777776553  3566777775

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.

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

Probab=97.49  E-value=7.7e-05  Score=59.56  Aligned_cols=23  Identities=30%  Similarity=0.631  Sum_probs=21.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +++.|+||+||||+++.+++.+.
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            68999999999999999998874

...

>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=97.48  E-value=0.00083  Score=56.20  Aligned_cols=23  Identities=35%  Similarity=0.414  Sum_probs=20.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++++||||+|||+++..++....
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~   24 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGL   24 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            68999999999999999887654

A related protein is found in archaea.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.46  E-value=0.0007  Score=62.92  Aligned_cols=49  Identities=24%  Similarity=0.458  Sum_probs=34.7

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC
Q psy17903         55 SVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (355)
Q Consensus        55 ~~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  105 (355)
                      ..|.+.+.+|-.+.  ++|+|+||+|||+++..++..+....  ..+++++..
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            45566666665555  99999999999999999998764321  245555543

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.

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=97.44  E-value=0.00048  Score=71.21  Aligned_cols=115  Identities=15%  Similarity=0.187  Sum_probs=64.1

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHH-------HHHHHHHH
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIR-------DKVKTFAQ  122 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~-------~~i~~~~~  122 (355)
                      .+.+...+...+....  .++|.|.+|||||++++.+...+....+  .++-+..+. .-...+.       ..+..+..
T Consensus       348 s~eQr~Av~~il~s~~--v~vv~G~AGTGKTT~l~~~~~~~e~~G~--~V~~~ApTG-kAA~~L~e~tGi~a~TI~sll~  422 (988)
T PRK13889        348 SGEQADALAHVTDGRD--LGVVVGYAGTGKSAMLGVAREAWEAAGY--EVRGAALSG-IAAENLEGGSGIASRTIASLEH  422 (988)
T ss_pred             CHHHHHHHHHHhcCCC--eEEEEeCCCCCHHHHHHHHHHHHHHcCC--eEEEecCcH-HHHHHHhhccCcchhhHHHHHh
Confidence            4455556665554332  4789999999999999888776543222  222221111 0001111       11222211


Q ss_pred             hhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEec
Q psy17903        123 QTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN  175 (355)
Q Consensus       123 ~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~  175 (355)
                      ....+    .....+..+|||||+..+.......|++..+.  ..+.+|++++
T Consensus       423 ~~~~~----~~~l~~~~vlIVDEASMv~~~~m~~LL~~a~~--~garvVLVGD  469 (988)
T PRK13889        423 GWGQG----RDLLTSRDVLVIDEAGMVGTRQLERVLSHAAD--AGAKVVLVGD  469 (988)
T ss_pred             hhccc----ccccccCcEEEEECcccCCHHHHHHHHHhhhh--CCCEEEEECC
Confidence            00000    00012456999999999998888888877653  3567787775

>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot)

Probab=97.43  E-value=0.00013  Score=61.54  Aligned_cols=58  Identities=12%  Similarity=0.156  Sum_probs=34.6

Q ss_pred             cEEEEEeCCCCCCHHHH------HHHHHHhhh-ccCCccEEEEecCCccccccccCCee-eEEecC
Q psy17903        138 FKIVILDEADSMTHAAQ------AALRRTMEK-ETKSTRFCLICNYVSCIIQPLTSRCS-KFRFKP  195 (355)
Q Consensus       138 ~~vliiDe~d~l~~~~~------~~Ll~~le~-~~~~~~~Il~~~~~~~l~~~l~sr~~-~i~~~~  195 (355)
                      ..+|||||++...+...      ......+.. .....-++++|.++..+.+.++..+. .+++..
T Consensus        80 ~~liviDEa~~~~~~r~~~~~~~~~~~~~l~~hRh~g~diiliTQ~~~~id~~ir~lve~~~~~~k  145 (193)
T PF05707_consen   80 GSLIVIDEAQNFFPSRSWKGKKVPEIIEFLAQHRHYGWDIILITQSPSQIDKFIRDLVEYHYHCRK  145 (193)
T ss_dssp             T-EEEETTGGGTSB---T-T----HHHHGGGGCCCTT-EEEEEES-GGGB-HHHHCCEEEEEEEEE
T ss_pred             CcEEEEECChhhcCCCccccccchHHHHHHHHhCcCCcEEEEEeCCHHHHhHHHHHHHheEEEEEe
Confidence            34999999998744221      233355543 34567788899999888888887766 444443

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=97.42  E-value=0.00098  Score=58.71  Aligned_cols=24  Identities=25%  Similarity=0.436  Sum_probs=21.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|+|+||+||||+|+.+++.+..
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~   25 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSE   25 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Confidence            689999999999999999998853

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=97.42  E-value=0.0057  Score=55.84  Aligned_cols=39  Identities=23%  Similarity=0.325  Sum_probs=32.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      +-|.|+||+||||++..+...+.....+..++.+|.+..
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            999999999999999999999876666667777777654

>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=97.41  E-value=0.0011  Score=60.66  Aligned_cols=118  Identities=25%  Similarity=0.309  Sum_probs=65.3

Q ss_pred             HHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCC
Q psy17903         53 VVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQD  131 (355)
Q Consensus        53 ~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~  131 (355)
                      .+..++.++++-...+ ++|+|||+||||.++..+.+-+.+....    ..|.......            .+.      
T Consensus       248 Fl~~lk~~Lkg~PKKnClvi~GPPdTGKS~F~~SLi~Fl~GkViS----f~Ns~ShFWL------------qPL------  305 (432)
T PF00519_consen  248 FLIALKQFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLKGKVIS----FVNSKSHFWL------------QPL------  305 (432)
T ss_dssp             HHHHHHHHHHTBTTSSEEEEESSCCCSHHHHHHHHHHHHTSEEE-----GGGTTSCGGG------------GGG------
T ss_pred             HHHHHHHHHhCCCcccEEEEECCCCCchhHHHHHHHHHhCCEEEE----ecCCCCcccc------------cch------
Confidence            3466777887644445 9999999999999999999998553221    1232221111            111      


Q ss_pred             CCCCCCcEEEEEeCCCCCCHHHH-HHHHHHhhhcc-------------CCccEEEEecCC---ccccccccCCeeeEEec
Q psy17903        132 GKPCPPFKIVILDEADSMTHAAQ-AALRRTMEKET-------------KSTRFCLICNYV---SCIIQPLTSRCSKFRFK  194 (355)
Q Consensus       132 ~~~~~~~~vliiDe~d~l~~~~~-~~Ll~~le~~~-------------~~~~~Il~~~~~---~~l~~~l~sr~~~i~~~  194 (355)
                          .+.|+-+|||+-.-.-+-. ..|++.|+..+             .-+.+++++|..   +.-..-|.||...++|+
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                1456899999843222211 23455554321             123456677732   22345688998888775


Q ss_pred             CC
Q psy17903        195 PL  196 (355)
Q Consensus       195 ~~  196 (355)
                      .+
T Consensus       382 n~  383 (432)
T PF00519_consen  382 NP  383 (432)
T ss_dssp             S-
T ss_pred             Cc
Confidence            43

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.

>PRK14532 adenylate kinase; Provisional

Probab=97.41  E-value=0.0038  Score=52.34  Aligned_cols=24  Identities=21%  Similarity=0.505  Sum_probs=21.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +++|.||||+||||+++.+++.++
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~g   25 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEERG   25 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            479999999999999999999873

>COG1485 Predicted ATPase [General function prediction only]

Probab=97.40  E-value=0.0005  Score=61.86  Aligned_cols=121  Identities=17%  Similarity=0.181  Sum_probs=61.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCc-cccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDM-YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEAD  147 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d  147 (355)
                      +++||+-|+|||.|...+...+.... ....+-       .....+.+.+................-..+.+|+++||++
T Consensus        68 lYl~GgVGrGKT~LMD~Fy~~lp~~~k~R~HFh-------~FM~~vH~~l~~l~g~~dpl~~iA~~~~~~~~vLCfDEF~  140 (367)
T COG1485          68 LYLWGGVGRGKTMLMDLFYESLPGERKRRLHFH-------RFMARVHQRLHTLQGQTDPLPPIADELAAETRVLCFDEFE  140 (367)
T ss_pred             EEEECCCCccHHHHHHHHHhhCCccccccccHH-------HHHHHHHHHHHHHcCCCCccHHHHHHHHhcCCEEEeeeee
Confidence            99999999999999999999885422 111100       0001111111111100000000000000255799999997


Q ss_pred             CCCHHHHHHHHHHhhhc-cCCccEEEEecCC-cc----------cc---ccccCCeeeEEecCC
Q psy17903        148 SMTHAAQAALRRTMEKE-TKSTRFCLICNYV-SC----------II---QPLTSRCSKFRFKPL  196 (355)
Q Consensus       148 ~l~~~~~~~Ll~~le~~-~~~~~~Il~~~~~-~~----------l~---~~l~sr~~~i~~~~~  196 (355)
                      .-.....--|.++++.. ..+++++.|+|.. +.          ++   ..|+++|.++.+..+
T Consensus       141 VtDI~DAMiL~rL~~~Lf~~GV~lvaTSN~~P~~LY~dGlqR~~FLP~I~li~~~~~v~~vD~~  204 (367)
T COG1485         141 VTDIADAMILGRLLEALFARGVVLVATSNTAPDNLYKDGLQRERFLPAIDLIKSHFEVVNVDGP  204 (367)
T ss_pred             ecChHHHHHHHHHHHHHHHCCcEEEEeCCCChHHhcccchhHHhhHHHHHHHHHheEEEEecCC
Confidence            66554433344444432 3456667677642 22          22   445778877666555

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

Probab=97.39  E-value=0.00073  Score=54.43  Aligned_cols=22  Identities=27%  Similarity=0.468  Sum_probs=20.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|+|+||+||||+++.+++.+
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhc
Confidence            6899999999999999999986

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

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.37  E-value=0.0015  Score=61.90  Aligned_cols=35  Identities=17%  Similarity=0.282  Sum_probs=26.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeec
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~  103 (355)
                      ++|+|++|+||||++..++..+....+...++..|
T Consensus        98 I~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D  132 (437)
T PRK00771         98 IMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAAD  132 (437)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCC
Confidence            99999999999999999999886544433333333

>PRK08118 topology modulation protein; Reviewed

Probab=97.37  E-value=0.00022  Score=58.72  Aligned_cols=25  Identities=20%  Similarity=0.302  Sum_probs=22.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .++|.||+|+||||+|+.+++.+..
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~   27 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNI   27 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4899999999999999999999843

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.36  E-value=0.00089  Score=59.28  Aligned_cols=22  Identities=18%  Similarity=0.105  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++++|+||+|||+++..++...
T Consensus        39 ~lI~G~pGtGKT~l~~qf~~~~   60 (259)
T TIGR03878        39 INITGVSDTGKSLMVEQFAVTQ   60 (259)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHH
Confidence            9999999999999999987764

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=97.32  E-value=0.0014  Score=54.64  Aligned_cols=38  Identities=26%  Similarity=0.424  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEECCCCCCHHHH-HHHHHHHh
Q psy17903         51 QEVVSVLKKCLSGADLPHFLFYGPPGTGKTST-MIAACHQL   90 (355)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~l-a~~l~~~l   90 (355)
                      +.+...+...+...  .++++.||+|+|||.. +..+.+.+
T Consensus        11 ~~Q~~~~~~~~~~~--~~~~i~~~~GsGKT~~~~~~~~~~~   49 (201)
T smart00487       11 PYQKEAIEALLSGL--RDVILAAPTGSGKTLAALLPALEAL   49 (201)
T ss_pred             HHHHHHHHHHHcCC--CcEEEECCCCCchhHHHHHHHHHHh
Confidence            33444444444332  4699999999999994 44444444

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.32  E-value=0.0014  Score=62.70  Aligned_cols=49  Identities=24%  Similarity=0.481  Sum_probs=34.9

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC
Q psy17903         55 SVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (355)
Q Consensus        55 ~~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  105 (355)
                      ..|.+.+.+|-.+.  ++|+|+||+|||+++..++......  ...+++++..
T Consensus        67 ~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~--g~~vlYvs~E  117 (446)
T PRK11823         67 GELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAA--GGKVLYVSGE  117 (446)
T ss_pred             HHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEcc
Confidence            45666666665555  9999999999999999999876422  2245555543

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=97.31  E-value=0.0021  Score=54.50  Aligned_cols=28  Identities=29%  Similarity=0.404  Sum_probs=24.1

Q ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         66 LPHFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        66 ~~~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      ..+.|+.||||+||||+.+-+++-+..+
T Consensus       137 ~lntLiigpP~~GKTTlLRdiaR~~s~g  164 (308)
T COG3854         137 WLNTLIIGPPQVGKTTLLRDIARLLSDG  164 (308)
T ss_pred             ceeeEEecCCCCChHHHHHHHHHHhhcc
Confidence            3458999999999999999999988643

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=97.31  E-value=0.0037  Score=57.50  Aligned_cols=50  Identities=24%  Similarity=0.493  Sum_probs=38.9

Q ss_pred             HHHHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC
Q psy17903         54 VSVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (355)
Q Consensus        54 ~~~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  106 (355)
                      +..+.+.+-+|-.+.  +||-|.||.||||+...++..+....   .++++.+.+
T Consensus        79 ~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~---~vLYVsGEE  130 (456)
T COG1066          79 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG---KVLYVSGEE  130 (456)
T ss_pred             hHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC---cEEEEeCCc
Confidence            456777788877776  99999999999999999999885432   566666654

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.30  E-value=0.0032  Score=60.44  Aligned_cols=23  Identities=30%  Similarity=0.602  Sum_probs=20.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||+|+||||++..++..+.
T Consensus       353 IaLVGPtGvGKTTtaakLAa~la  375 (559)
T PRK12727        353 IALVGPTGAGKTTTIAKLAQRFA  375 (559)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            89999999999999999988653

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=97.29  E-value=0.0042  Score=51.16  Aligned_cols=55  Identities=11%  Similarity=0.173  Sum_probs=36.8

Q ss_pred             cEEEEEeCC-CCCCHHHHHHHHHHhhhccC-CccEEEEecCCccccccccCCeeeEEe
Q psy17903        138 FKIVILDEA-DSMTHAAQAALRRTMEKETK-STRFCLICNYVSCIIQPLTSRCSKFRF  193 (355)
Q Consensus       138 ~~vliiDe~-d~l~~~~~~~Ll~~le~~~~-~~~~Il~~~~~~~l~~~l~sr~~~i~~  193 (355)
                      -.+++-||- .++.++....+++++++... .+.++++|.+. .+...++.|+..++-
T Consensus       156 P~vLlADEPTGNLDp~~s~~im~lfeeinr~GtTVl~ATHd~-~lv~~~~~rvl~l~~  212 (223)
T COG2884         156 PAVLLADEPTGNLDPDLSWEIMRLFEEINRLGTTVLMATHDL-ELVNRMRHRVLALED  212 (223)
T ss_pred             CCeEeecCCCCCCChHHHHHHHHHHHHHhhcCcEEEEEeccH-HHHHhccCcEEEEeC
Confidence            359999996 57888888888888887543 34455566544 355566777665543

>TIGR02012 tigrfam_recA protein RecA

Probab=97.29  E-value=0.0024  Score=57.85  Aligned_cols=36  Identities=28%  Similarity=0.368  Sum_probs=26.4

Q ss_pred             HHHHHHh-cCCCCe--EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         56 VLKKCLS-GADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        56 ~l~~~l~-~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .|...+. +|-++.  ++|+||||+|||+++..++....
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~   80 (321)
T TIGR02012        42 SLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQ   80 (321)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4445555 444333  99999999999999988777654

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=97.28  E-value=0.00026  Score=60.77  Aligned_cols=19  Identities=47%  Similarity=0.968  Sum_probs=17.7

Q ss_pred             eEEEECCCCCCHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAA   86 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l   86 (355)
                      .++|||+||+|||+++..+
T Consensus         5 ~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    5 KILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             EEEEECCCCCCHHHHHHhC
Confidence            3999999999999999888

>PRK06762 hypothetical protein; Provisional

Probab=97.28  E-value=0.0046  Score=50.69  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=21.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|+|++|+||||+|+.+++.+
T Consensus         5 i~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          5 IIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8999999999999999999997

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=97.27  E-value=0.0023  Score=55.59  Aligned_cols=22  Identities=23%  Similarity=0.214  Sum_probs=19.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++..++..+
T Consensus        27 ~~i~G~~G~GKTtl~~~~~~~~   48 (230)
T PRK08533         27 ILIEGDESTGKSILSQRLAYGF   48 (230)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            9999999999999987666655

>PF13245 AAA_19: Part of AAA domain

Probab=97.27  E-value=0.0012  Score=46.43  Aligned_cols=24  Identities=50%  Similarity=0.862  Sum_probs=17.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+++.||||+|||+++...+..+.
T Consensus        12 ~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen   12 LFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHH
Confidence            367799999999966555555543

>KOG1808|consensus

Probab=97.26  E-value=0.0013  Score=70.96  Aligned_cols=150  Identities=19%  Similarity=0.335  Sum_probs=94.7

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCC
Q psy17903         52 EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQD  131 (355)
Q Consensus        52 ~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~  131 (355)
                      .....+.++...+..| +||-||.|+|||+++..+++..+.     +++.++--..   .++++.+..+...........
T Consensus       427 ~~la~~~~a~~~~~~p-illqG~tssGKtsii~~la~~~g~-----~~vrinnheh---td~qeyig~y~~~~~g~l~fr  497 (1856)
T KOG1808|consen  427 KNLADLARAISSGKFP-ILLQGPTSSGKTSIIKELARATGK-----NIVRINNHEH---TDLQEYIGTYVADDNGDLVFR  497 (1856)
T ss_pred             HHHHHHHHHHhcCCCC-eEEecCcCcCchhHHHHHHHHhcc-----Cceehhcccc---chHHHHHHhhhcCCCCCeeee
Confidence            3345556666667655 899999999999999999999843     4455544332   233444443222111100000


Q ss_pred             -CC---CCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----CCcc--------EEEEecCC-------ccccccccCC
Q psy17903        132 -GK---PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----KSTR--------FCLICNYV-------SCIIQPLTSR  187 (355)
Q Consensus       132 -~~---~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----~~~~--------~Il~~~~~-------~~l~~~l~sr  187 (355)
                       +.   ..-++..+|+||++....+..++|.+++++..     .+.+        .++++-++       ..+..++++|
T Consensus       498 eg~LV~Alr~G~~~vlD~lnla~~dvL~aLnrllddnRel~ipe~~rlv~~h~~f~lfatqn~~~~y~grk~lsRa~~~r  577 (1856)
T KOG1808|consen  498 EGVLVQALRNGDWIVLDELNLAPHDVLEALNRLLDDNRELFIPETQRLVKAHPEFMLFATQNPPGTYGGRKILSRALRNR  577 (1856)
T ss_pred             hhHHHHHHHhCCEEEeccccccchHHHHHHHhhhhhhccccccccceeeccCcchhhhhhccCccccchhhhhhhccccc
Confidence             00   00134589999999999999999999998621     1221        12333222       2255788888


Q ss_pred             eeeEEecCCCHHHHHHHHHHHHH
Q psy17903        188 CSKFRFKPLAENTMLTRLQYICE  210 (355)
Q Consensus       188 ~~~i~~~~~~~~~~~~~l~~~~~  210 (355)
                      +..++|....++++..++..++.
T Consensus       578 f~e~~f~~~~e~e~~~i~~~~~~  600 (1856)
T KOG1808|consen  578 FIELHFDDIGEEELEEILEHRCG  600 (1856)
T ss_pred             chhhhhhhcCchhhhhhhccccc
Confidence            88999999999999888886653

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.26  E-value=0.0017  Score=59.77  Aligned_cols=25  Identities=32%  Similarity=0.529  Sum_probs=22.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      ++|.||.|+||||++..++..+...
T Consensus       209 i~lvGptGvGKTTt~akLA~~l~~~  233 (407)
T PRK12726        209 ISLIGQTGVGKTTTLVKLGWQLLKQ  233 (407)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHc
Confidence            8999999999999999999877443

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=97.24  E-value=0.0027  Score=52.36  Aligned_cols=23  Identities=22%  Similarity=0.163  Sum_probs=21.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+++.|++|+|||++|..++..+
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~   25 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS   25 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc
Confidence            37999999999999999999886

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=97.24  E-value=0.0021  Score=53.48  Aligned_cols=42  Identities=10%  Similarity=0.150  Sum_probs=31.0

Q ss_pred             CcEEEEEeCCCCCCHH---HHHHHHHHhhhccCCccEEEEecCCc
Q psy17903        137 PFKIVILDEADSMTHA---AQAALRRTMEKETKSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d~l~~~---~~~~Ll~~le~~~~~~~~Il~~~~~~  178 (355)
                      .+.+||+||+-....-   ..+.+++.|+..+..+-+|+|+....
T Consensus       115 ~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~p  159 (191)
T PRK05986        115 SYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGAP  159 (191)
T ss_pred             CCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCCC
Confidence            5679999998544221   13567888888888999999998654

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

Probab=97.24  E-value=0.0014  Score=57.40  Aligned_cols=26  Identities=23%  Similarity=0.404  Sum_probs=23.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      .++|.||+|+|||++++.+++.+...
T Consensus        18 r~~I~G~~G~GKTTLlr~I~n~l~~~   43 (249)
T cd01128          18 RGLIVAPPKAGKTTLLQSIANAITKN   43 (249)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccccc
Confidence            49999999999999999999987543

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.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.23  E-value=0.0046  Score=50.67  Aligned_cols=39  Identities=10%  Similarity=0.200  Sum_probs=30.1

Q ss_pred             CcEEEEEeCCC------CCCHHHHHHHHHHhhhccCCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD------SMTHAAQAALRRTMEKETKSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d------~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~  178 (355)
                      .+.+||+||+-      .++.   +.+++.|+..+..+-+|+|+....
T Consensus        97 ~~DlvVLDEi~~A~~~gli~~---~~v~~lL~~rp~~~evVlTGR~~p  141 (173)
T TIGR00708        97 ELDLVLLDELTYALKYGYLDV---EEVVEALQERPGHQHVIITGRGCP  141 (173)
T ss_pred             CCCEEEehhhHHHHHCCCcCH---HHHHHHHHhCCCCCEEEEECCCCC
Confidence            56799999996      3333   457788888899999999998654

Alternate name: corrinoid adenosyltransferase.

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=97.21  E-value=0.0008  Score=58.20  Aligned_cols=39  Identities=36%  Similarity=0.547  Sum_probs=27.9

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++...+.+..++....  -.++.||||||||+++..++..+
T Consensus         3 n~~Q~~Ai~~~~~~~~--~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen    3 NESQREAIQSALSSNG--ITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             -HHHHHHHHHHCTSSE---EEEE-STTSSHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHcCCC--CEEEECCCCCChHHHHHHHHHHh
Confidence            3456666766666542  27999999999999888888877

>cd01394 radB RadB

Probab=97.20  E-value=0.0059  Score=52.52  Aligned_cols=48  Identities=29%  Similarity=0.459  Sum_probs=33.8

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC
Q psy17903         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (355)
Q Consensus        56 ~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  105 (355)
                      .|...+.+|-.+.  ++|+|+||+|||+++..++......  ...++.++..
T Consensus         7 ~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~--g~~v~yi~~e   56 (218)
T cd01394           7 GLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQ--GKKVAYIDTE   56 (218)
T ss_pred             HHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEECC
Confidence            3455565554444  9999999999999999999887543  2345556554

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

>PRK13826 Dtr system oriT relaxase; Provisional

Probab=97.16  E-value=0.0012  Score=68.71  Aligned_cols=115  Identities=17%  Similarity=0.239  Sum_probs=64.3

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHH-------HHHHHHH
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD-------KVKTFAQ  122 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~-------~i~~~~~  122 (355)
                      .+.+...+.......  ...++.|++|+|||++++.+...+....+  .++-+-.+. .-...+.+       .+..+..
T Consensus       383 s~eQ~~Av~~i~~~~--r~~~v~G~AGTGKTt~l~~~~~~~e~~G~--~V~g~ApTg-kAA~~L~e~~Gi~a~TIas~ll  457 (1102)
T PRK13826        383 SDEQKTAIEHVAGPA--RIAAVVGRAGAGKTTMMKAAREAWEAAGY--RVVGGALAG-KAAEGLEKEAGIQSRTLSSWEL  457 (1102)
T ss_pred             CHHHHHHHHHHhccC--CeEEEEeCCCCCHHHHHHHHHHHHHHcCC--eEEEEcCcH-HHHHHHHHhhCCCeeeHHHHHh
Confidence            344444454443222  24899999999999999999887644322  233222211 11111111       0111110


Q ss_pred             hhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEec
Q psy17903        123 QTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN  175 (355)
Q Consensus       123 ~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~  175 (355)
                      ....+    ..+.....+|||||+..+.......|++..+.  ..+.+|++++
T Consensus       458 ~~~~~----~~~l~~~~vlVIDEAsMv~~~~m~~Ll~~~~~--~garvVLVGD  504 (1102)
T PRK13826        458 RWNQG----RDQLDNKTVFVLDEAGMVASRQMALFVEAVTR--AGAKLVLVGD  504 (1102)
T ss_pred             hhccC----ccCCCCCcEEEEECcccCCHHHHHHHHHHHHh--cCCEEEEECC
Confidence            00000    01112456999999999999888888888864  3467777775

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.16  E-value=0.0025  Score=59.61  Aligned_cols=22  Identities=32%  Similarity=0.712  Sum_probs=20.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.||+|+||||++..++..+
T Consensus       226 i~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        226 VFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8899999999999999999765

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=97.16  E-value=0.016  Score=53.19  Aligned_cols=38  Identities=21%  Similarity=0.289  Sum_probs=29.2

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         53 VVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        53 ~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ....|..+++.+  .+++|+|++|+||||+++++...+..
T Consensus       149 ~~~~L~~~v~~~--~nili~G~tgSGKTTll~aL~~~ip~  186 (332)
T PRK13900        149 IKEFLEHAVISK--KNIIISGGTSTGKTTFTNAALREIPA  186 (332)
T ss_pred             HHHHHHHHHHcC--CcEEEECCCCCCHHHHHHHHHhhCCC
Confidence            344455555543  36999999999999999999998754

>TIGR01613 primase_Cterm phage/plasmid primase, P4 family, C-terminal domain

Probab=97.13  E-value=0.014  Score=52.92  Aligned_cols=132  Identities=17%  Similarity=0.174  Sum_probs=70.7

Q ss_pred             Ccccc-cHHHHHHHHHHHh----cCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHH
Q psy17903         45 DDVIE-QQEVVSVLKKCLS----GADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV  117 (355)
Q Consensus        45 ~~~vg-~~~~~~~l~~~l~----~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i  117 (355)
                      +++.+ .+..+..+.+++.    .....+  ++++|+.|+|||+++..+..-++....     ....+.  ....+..  
T Consensus        48 ~~~~~~d~~~~~~l~~~lg~~L~~~~~~~~~~~l~G~g~nGKStl~~~l~~l~G~~~~-----~~~~~~--~~~~~~~--  118 (304)
T TIGR01613        48 LETFGGDNELIEYLQRVIGYSLTGNYTEQKLFFLYGNGGNGKSTFQNLLSNLLGDYAT-----TAVASL--KMNEFQE--  118 (304)
T ss_pred             HHHhCCCHHHHHHHHHHHhHHhcCCCCceEEEEEECCCCCcHHHHHHHHHHHhChhhc-----cCCcch--hhhhccC--
Confidence            44444 4445666666652    222222  999999999999999988766532210     000000  0000000  


Q ss_pred             HHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhh--------------ccCCccEEEEecCCccc---
Q psy17903        118 KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEK--------------ETKSTRFCLICNYVSCI---  180 (355)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~--------------~~~~~~~Il~~~~~~~l---  180 (355)
                      ..+.....          .++++++.||++.-.....+.|..+...              ......+|+++|....+   
T Consensus       119 ~~f~~a~l----------~gk~l~~~~E~~~~~~~~~~~lK~lt~gd~i~~~~k~k~~~~~~~~~~~i~~tN~~P~~~~~  188 (304)
T TIGR01613       119 HRFGLARL----------EGKRAVIGDEVQKGYRDDESTFKSLTGGDTITARFKNKDPFEFTPKFTLVQSTNHLPRIRGF  188 (304)
T ss_pred             CCchhhhh----------cCCEEEEecCCCCCccccHHhhhhhhcCCeEEeecccCCcEEEEEeeEEEEEcCCCCccCCC
Confidence            00000000          1556999999974322223334333321              12346788899976544   


Q ss_pred             cccccCCeeeEEecC
Q psy17903        181 IQPLTSRCSKFRFKP  195 (355)
Q Consensus       181 ~~~l~sr~~~i~~~~  195 (355)
                      ..++.+|..+|.|..
T Consensus       189 ~~a~~RR~~vi~f~~  203 (304)
T TIGR01613       189 DGGIKRRLRIIPFTK  203 (304)
T ss_pred             ChhheeeEEEEeccC
Confidence            467889999888853

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.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.12  E-value=0.0054  Score=55.69  Aligned_cols=36  Identities=28%  Similarity=0.382  Sum_probs=26.4

Q ss_pred             HHHHHHh-cCCCCe--EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         56 VLKKCLS-GADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        56 ~l~~~l~-~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .|...+. +|-++.  +.|+||||+|||+++..++....
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~   80 (325)
T cd00983          42 SLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQ   80 (325)
T ss_pred             HHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4445555 443333  89999999999999999887653

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK07261 topology modulation protein; Provisional

Probab=97.12  E-value=0.0016  Score=53.87  Aligned_cols=24  Identities=17%  Similarity=0.228  Sum_probs=21.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|.|++|+||||+++.+++.+..
T Consensus         3 i~i~G~~GsGKSTla~~l~~~~~~   26 (171)
T PRK07261          3 IAIIGYSGSGKSTLARKLSQHYNC   26 (171)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCC
Confidence            789999999999999999988743

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.11  E-value=0.0032  Score=54.79  Aligned_cols=63  Identities=13%  Similarity=0.114  Sum_probs=39.7

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCc----cccceeeecCCCccchHHHHHHHHH
Q psy17903         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDM----YRERILELNASDDRGIQVIRDKVKT  119 (355)
Q Consensus        57 l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~~~~~~~i~~~i~~  119 (355)
                      |...+.+|-.+.  +.|+||||+|||+++..++.......    ....++.++..+......+.+....
T Consensus         8 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~~~~~   76 (235)
T cd01123           8 LDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQIAER   76 (235)
T ss_pred             hHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHHHHHH
Confidence            344455554444  89999999999999999986542211    1246777777664445555544433

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 .

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=97.11  E-value=0.0026  Score=61.85  Aligned_cols=40  Identities=20%  Similarity=0.241  Sum_probs=31.8

Q ss_pred             cEEEEEeCC-CCCCHHHHHHHHHHhhhccCCccEEEEecCC
Q psy17903        138 FKIVILDEA-DSMTHAAQAALRRTMEKETKSTRFCLICNYV  177 (355)
Q Consensus       138 ~~vliiDe~-d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~  177 (355)
                      .+++|+||+ ..|.++.+..+...+.+.-+.+.+|-+++++
T Consensus       534 P~~v~LDEATsALDe~~e~~l~q~l~~~lp~~tvISV~Hr~  574 (604)
T COG4178         534 PKWVFLDEATSALDEETEDRLYQLLKEELPDATVISVGHRP  574 (604)
T ss_pred             CCEEEEecchhccChHHHHHHHHHHHhhCCCCEEEEeccch
Confidence            359999999 4667788899999999865677788777654

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=97.11  E-value=0.0041  Score=50.52  Aligned_cols=96  Identities=16%  Similarity=0.205  Sum_probs=53.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc-----------------chHHHHHHHHHHHHhhccCCCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR-----------------GIQVIRDKVKTFAQQTASGFNQ  130 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-----------------~~~~i~~~i~~~~~~~~~~~~~  130 (355)
                      .+.|.|+.|+|||++++.++..+...   ..-+.++.....                 +....+ .+. ++.....    
T Consensus        27 ~~~i~G~nGsGKStll~~l~g~~~~~---~G~i~~~~~~~~~~~~~~~~~~i~~~~qlS~G~~~-r~~-l~~~l~~----   97 (157)
T cd00267          27 IVALVGPNGSGKSTLLRAIAGLLKPT---SGEILIDGKDIAKLPLEELRRRIGYVPQLSGGQRQ-RVA-LARALLL----   97 (157)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC---ccEEEECCEEcccCCHHHHHhceEEEeeCCHHHHH-HHH-HHHHHhc----
Confidence            48999999999999999998765321   111233322110                 001111 000 0110000    


Q ss_pred             CCCCCCCcEEEEEeCCC-CCCHHHHHHHHHHhhhccC-CccEEEEecCCc
Q psy17903        131 DGKPCPPFKIVILDEAD-SMTHAAQAALRRTMEKETK-STRFCLICNYVS  178 (355)
Q Consensus       131 ~~~~~~~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~-~~~~Il~~~~~~  178 (355)
                            +.+++++||.. .+.......+.+.+.+... ...+++++++..
T Consensus        98 ------~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~  141 (157)
T cd00267          98 ------NPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPE  141 (157)
T ss_pred             ------CCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence                  23499999986 6666777777777765433 345666776654

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.

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases

Probab=97.10  E-value=0.00073  Score=58.73  Aligned_cols=22  Identities=23%  Similarity=0.445  Sum_probs=20.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|+||+|||++++.+....
T Consensus         1 ~vv~G~pGsGKSt~i~~~~~~~   22 (234)
T PF01443_consen    1 IVVHGVPGSGKSTLIKKLLKDR   22 (234)
T ss_pred             CEEEcCCCCCHHHHHHHHHHhc
Confidence            4799999999999999999883

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

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.10  E-value=0.0031  Score=55.11  Aligned_cols=35  Identities=26%  Similarity=0.253  Sum_probs=26.7

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHh
Q psy17903         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        56 ~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .|-+.+.+|-.+.  ++|+||||+|||+++..++...
T Consensus         9 ~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~   45 (237)
T TIGR03877         9 GMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNG   45 (237)
T ss_pred             hHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3455566665444  9999999999999998877654

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.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.09  E-value=0.0023  Score=59.27  Aligned_cols=22  Identities=36%  Similarity=0.629  Sum_probs=20.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.||+|+||||++..++..+
T Consensus       140 i~lvGptGvGKTTtiakLA~~~  161 (374)
T PRK14722        140 FALMGPTGVGKTTTTAKLAARC  161 (374)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            9999999999999999999875

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.09  E-value=0.0026  Score=60.10  Aligned_cols=55  Identities=24%  Similarity=0.252  Sum_probs=45.2

Q ss_pred             CCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccc
Q psy17903         40 RPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYR   96 (355)
Q Consensus        40 ~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~   96 (355)
                      ...+|+++...+.....+.+++....  . +|++||.|+||||+..++.+.++....+
T Consensus       233 ~~l~l~~Lg~~~~~~~~~~~~~~~p~--GliLvTGPTGSGKTTTLY~~L~~ln~~~~n  288 (500)
T COG2804         233 VILDLEKLGMSPFQLARLLRLLNRPQ--GLILVTGPTGSGKTTTLYAALSELNTPERN  288 (500)
T ss_pred             ccCCHHHhCCCHHHHHHHHHHHhCCC--eEEEEeCCCCCCHHHHHHHHHHHhcCCCce
Confidence            35568888888888888888887542  3 9999999999999999999999875543

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.08  E-value=0.0056  Score=51.84  Aligned_cols=24  Identities=33%  Similarity=0.555  Sum_probs=21.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|.||+|+||||++.++++.+..
T Consensus         4 ilI~GptGSGKTTll~~ll~~~~~   27 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYINK   27 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhh
Confidence            799999999999999999988753

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.

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

Probab=97.08  E-value=0.0067  Score=52.43  Aligned_cols=63  Identities=13%  Similarity=0.110  Sum_probs=39.6

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCc----cccceeeecCCCccchHHHHHHHH
Q psy17903         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDM----YRERILELNASDDRGIQVIRDKVK  118 (355)
Q Consensus        56 ~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~~~~~~~i~~~i~  118 (355)
                      .|.+.+.+|-.+.  +.|+||||+|||+++..++.......    ....++.++.........+.....
T Consensus         7 ~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~~~~~   75 (226)
T cd01393           7 ALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLVQLAV   75 (226)
T ss_pred             HHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHHHHHH
Confidence            3444555554444  99999999999999999987753221    123566777665444444444433

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.

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

Probab=97.08  E-value=0.0062  Score=49.50  Aligned_cols=27  Identities=33%  Similarity=0.535  Sum_probs=24.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      +.|+|.+|+||||+|.++.+.|....+
T Consensus        26 iW~TGLSGsGKSTiA~ale~~L~~~G~   52 (197)
T COG0529          26 IWFTGLSGSGKSTIANALEEKLFAKGY   52 (197)
T ss_pred             EEeecCCCCCHHHHHHHHHHHHHHcCC
Confidence            999999999999999999999976554

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.07  E-value=0.0047  Score=54.74  Aligned_cols=26  Identities=35%  Similarity=0.636  Sum_probs=22.9

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +.+.|.|++|+|||+++..++..+..
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~  101 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHG  101 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            35999999999999999999988754

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.06  E-value=0.00083  Score=55.43  Aligned_cols=24  Identities=21%  Similarity=0.254  Sum_probs=22.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|+|++|+|||++++.+++.+.
T Consensus         6 ~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          6 NIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhC
Confidence            499999999999999999999983

>PRK06696 uridine kinase; Validated

Probab=97.06  E-value=0.0011  Score=57.28  Aligned_cols=43  Identities=14%  Similarity=0.183  Sum_probs=32.7

Q ss_pred             cHHHHHHHHHHHhc--CCCCe-EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         50 QQEVVSVLKKCLSG--ADLPH-FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        50 ~~~~~~~l~~~l~~--~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +..++..|.+.+..  ...+. +.|.|++|+||||+|+.+++.+..
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~   48 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKK   48 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            35667777777743  22233 999999999999999999999854

>PRK04328 hypothetical protein; Provisional

Probab=97.05  E-value=0.0042  Score=54.67  Aligned_cols=35  Identities=26%  Similarity=0.237  Sum_probs=26.0

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHh
Q psy17903         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        56 ~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .|-+.+.+|-++.  ++++|+||+|||+++..++...
T Consensus        11 ~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~   47 (249)
T PRK04328         11 GMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNG   47 (249)
T ss_pred             hHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3445555554434  9999999999999999877663

>PRK03839 putative kinase; Provisional

Probab=97.05  E-value=0.00067  Score=56.54  Aligned_cols=22  Identities=32%  Similarity=0.517  Sum_probs=21.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|+||+||||+++.+++.+
T Consensus         3 I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          3 IAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999998

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=97.05  E-value=0.024  Score=45.09  Aligned_cols=22  Identities=27%  Similarity=0.528  Sum_probs=20.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.|++|+|||++++.+++.+
T Consensus         2 I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5799999999999999999998

>TIGR00416 sms DNA repair protein RadA

Probab=97.02  E-value=0.0049  Score=59.00  Aligned_cols=50  Identities=26%  Similarity=0.482  Sum_probs=35.9

Q ss_pred             HHHHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC
Q psy17903         54 VSVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (355)
Q Consensus        54 ~~~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  105 (355)
                      +..|.+.+.+|-.+.  ++|+|+||+|||+++..++..+....  ..+++++..
T Consensus        80 i~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g--~kvlYvs~E  131 (454)
T TIGR00416        80 FGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQ--MKVLYVSGE  131 (454)
T ss_pred             cHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcC--CcEEEEECc
Confidence            456667777666555  99999999999999999988764321  245555544

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>PRK14527 adenylate kinase; Provisional

Probab=97.01  E-value=0.007  Score=50.93  Aligned_cols=25  Identities=32%  Similarity=0.530  Sum_probs=22.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      -+++.||||+||||+++.+++.+..
T Consensus         8 ~i~i~G~pGsGKsT~a~~La~~~~~   32 (191)
T PRK14527          8 VVIFLGPPGAGKGTQAERLAQELGL   32 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3999999999999999999988743

>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=97.01  E-value=0.00062  Score=52.99  Aligned_cols=22  Identities=32%  Similarity=0.471  Sum_probs=20.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|++|+||||+++.|.+.+
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            6899999999999999999996

...

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.01  E-value=0.0062  Score=55.46  Aligned_cols=25  Identities=32%  Similarity=0.445  Sum_probs=22.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      ++|.||+|+||||++..++..+...
T Consensus       117 i~lvGpnGsGKTTt~~kLA~~l~~~  141 (318)
T PRK10416        117 ILVVGVNGVGKTTTIGKLAHKYKAQ  141 (318)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhc
Confidence            8899999999999999999987543

>PRK06547 hypothetical protein; Provisional

Probab=97.00  E-value=0.0016  Score=53.75  Aligned_cols=33  Identities=27%  Similarity=0.239  Sum_probs=25.8

Q ss_pred             HHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         60 CLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        60 ~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .+..+....++|.|++|+|||++++.+++.+..
T Consensus         9 ~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~~~   41 (172)
T PRK06547          9 RLCGGGMITVLIDGRSGSGKTTLAGALAARTGF   41 (172)
T ss_pred             HhhcCCCEEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            344444444999999999999999999998743

>PRK14528 adenylate kinase; Provisional

Probab=97.00  E-value=0.0034  Score=52.63  Aligned_cols=25  Identities=36%  Similarity=0.802  Sum_probs=22.4

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.+++.||||+||||+++.+++.++
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~~   26 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERLS   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3589999999999999999998873

>PRK09354 recA recombinase A; Provisional

Probab=97.00  E-value=0.0085  Score=54.87  Aligned_cols=36  Identities=28%  Similarity=0.370  Sum_probs=26.3

Q ss_pred             HHHHHHh-cCCCCe--EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         56 VLKKCLS-GADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        56 ~l~~~l~-~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .|-..+. +|-++.  +.|+||+|+|||+++..++....
T Consensus        47 ~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~   85 (349)
T PRK09354         47 ALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQ   85 (349)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4445555 443333  89999999999999998876653

>PRK13947 shikimate kinase; Provisional

Probab=97.00  E-value=0.00096  Score=55.02  Aligned_cols=25  Identities=28%  Similarity=0.251  Sum_probs=22.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +++|.|+||+|||++++.+++.+..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~   27 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSF   27 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            6899999999999999999999843

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=96.99  E-value=0.0021  Score=59.30  Aligned_cols=26  Identities=23%  Similarity=0.359  Sum_probs=23.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      ..+|.||+|+|||++++.+++.+...
T Consensus       171 R~lIvgppGvGKTTLaK~Ian~I~~n  196 (416)
T PRK09376        171 RGLIVAPPKAGKTVLLQNIANSITTN  196 (416)
T ss_pred             eEEEeCCCCCChhHHHHHHHHHHHhh
Confidence            48999999999999999999988543

>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=96.99  E-value=0.0035  Score=51.77  Aligned_cols=25  Identities=32%  Similarity=0.359  Sum_probs=22.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      ++++|++|+|||+++..++..+...
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~   27 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKK   27 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC
Confidence            6899999999999999999887543

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.

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.97  E-value=0.0082  Score=54.59  Aligned_cols=25  Identities=20%  Similarity=0.401  Sum_probs=22.5

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+++|.||+|+||||++++++..+.
T Consensus       145 ~~ili~G~tGsGKTTll~al~~~~~  169 (308)
T TIGR02788       145 KNIIISGGTGSGKTTFLKSLVDEIP  169 (308)
T ss_pred             CEEEEECCCCCCHHHHHHHHHccCC
Confidence            3699999999999999999998764

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.

>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid []

Probab=96.97  E-value=0.0017  Score=54.48  Aligned_cols=143  Identities=18%  Similarity=0.152  Sum_probs=63.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADS  148 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~  148 (355)
                      ++|+||+|+|||.++-.+++.++.     +++..|...-.  .       +....+  +........+-+| +++||-..
T Consensus         4 ~~i~GpT~tGKt~~ai~lA~~~g~-----pvI~~Driq~y--~-------~l~v~S--grp~~~el~~~~R-iyL~~r~l   66 (233)
T PF01745_consen    4 YLIVGPTGTGKTALAIALAQKTGA-----PVISLDRIQCY--P-------ELSVGS--GRPTPSELKGTRR-IYLDDRPL   66 (233)
T ss_dssp             EEEE-STTSSHHHHHHHHHHHH-------EEEEE-SGGG---G-------GGTTTT--T---SGGGTT-EE-EES----G
T ss_pred             EEEECCCCCChhHHHHHHHHHhCC-----CEEEecceecc--c-------cccccc--CCCCHHHHcccce-eeeccccc
Confidence            799999999999999999999843     44444432100  0       000000  0000000001234 77776432


Q ss_pred             ----CCH-HHHHHHHHHhhhccCCccEEEEecCCccccccc----c-CCee--eEEecCCCHHHHHHHHHHHHHHcC--C
Q psy17903        149 ----MTH-AAQAALRRTMEKETKSTRFCLICNYVSCIIQPL----T-SRCS--KFRFKPLAENTMLTRLQYICEQES--V  214 (355)
Q Consensus       149 ----l~~-~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l----~-sr~~--~i~~~~~~~~~~~~~l~~~~~~~~--~  214 (355)
                          ++. ++.+.|...+.+....--+|+-+...+-+..-.    . ..+.  +..++-++.+-.....+++.++.-  -
T Consensus        67 ~~G~i~a~ea~~~Li~~v~~~~~~~~~IlEGGSISLl~~m~~~~~w~~~f~w~i~rl~l~d~~~f~~ra~~Rv~~ML~p~  146 (233)
T PF01745_consen   67 SDGIINAEEAHERLISEVNSYSAHGGLILEGGSISLLNCMAQDPYWSLDFRWHIRRLRLPDEEVFMARAKRRVRQMLRPD  146 (233)
T ss_dssp             GG-S--HHHHHHHHHHHHHTTTTSSEEEEEE--HHHHHHHHH-TTTSSSSEEEEEE-----HHHHHHHHHHHHHHHHS--
T ss_pred             cCCCcCHHHHHHHHHHHHHhccccCceEEeCchHHHHHHHHhcccccCCCeEEEEEEECCChHHHHHHHHHHHHHhcCCC
Confidence                222 345667777777666667788776654322111    1 2222  444555666655555555555421  1


Q ss_pred             CCCHHHHHHHHHHc
Q psy17903        215 MCDFKALETLVETS  228 (355)
Q Consensus       215 ~~~~~~~~~l~~~~  228 (355)
                      .-.+..++.++...
T Consensus       147 ~~~~Sll~EL~~lW  160 (233)
T PF01745_consen  147 SSGPSLLEELVALW  160 (233)
T ss_dssp             SSS--HHHHHHHHH
T ss_pred             CCCCcHHHHHHHHH
Confidence            22345666666654

; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.96  E-value=0.016  Score=48.46  Aligned_cols=22  Identities=23%  Similarity=0.395  Sum_probs=20.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|+||+|+|||++++.+.+..
T Consensus         7 ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          7 FIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             EEEECCCCCCHHHHHHHHHhcC
Confidence            8999999999999999998875

>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]

Probab=96.96  E-value=0.0045  Score=61.22  Aligned_cols=227  Identities=16%  Similarity=0.151  Sum_probs=124.6

Q ss_pred             ccccCCCCCCcccccHHHHHHHHHH------HhcCCCCeEEEEC----CCCCCHHHHHHHHHHHhcC-C----cccccee
Q psy17903         36 VEKYRPKTIDDVIEQQEVVSVLKKC------LSGADLPHFLFYG----PPGTGKTSTMIAACHQLFG-D----MYRERIL  100 (355)
Q Consensus        36 ~~k~~p~~~~~~vg~~~~~~~l~~~------l~~~~~~~~ll~G----p~G~GKt~la~~l~~~l~~-~----~~~~~~~  100 (355)
                      .+..+|.+|.++.+++.........      ......-++..+|    ++|++++..+..+...... .    ..+..+.
T Consensus        95 ~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gv~~~~~~~iv~~~~~~~~~~~~~~~~~~~  174 (647)
T COG1067          95 VPAGRPESFSELLGQKAEEKAEYLSYLILLALLGPIEQQIILYGYNALLPGVLYAVAARIVLYEAKILKRSAVSVPKNFV  174 (647)
T ss_pred             ccccCCcchHHHHHhhhhHHHHHHhhhhHHHhhchhhhhhhhcccccccchhhHHHHHHHHHhhhhcccchhhhhhhhhh
Confidence            4455677888888877655444333      1112223478888    9999999998766555211 0    0011112


Q ss_pred             ee---cCCC-----ccchHHHHHHHHHHHHhh------ccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc--
Q psy17903        101 EL---NASD-----DRGIQVIRDKVKTFAQQT------ASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE--  164 (355)
Q Consensus       101 ~~---~~~~-----~~~~~~i~~~i~~~~~~~------~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~--  164 (355)
                      +.   +...     ....+.+...++.....+      .....++.--.+++++|||||+..|....+..+++.+.+.  
T Consensus       175 ~~~~~~~~p~v~a~~~~~~~LlG~Vr~~~~qG~l~~~~~~~i~pGaVHkAngGVLiIdei~lL~~~~~w~~LKa~~~k~~  254 (647)
T COG1067         175 ELSPLDGAPVVFATGAIADQLLGSVRHDPYQGGLGTTGHIRVKPGAVHKANGGVLIIDEIGLLAQPLQWKLLKALLDKEQ  254 (647)
T ss_pred             hhccccCCcEEecCCCChhhcceeEEEcCCCCccCCCCcccccCcccccccCcEEEEEhhhhhCcHHHHHHHHHHHhccc
Confidence            22   1110     001112222222111111      0000011111157789999999999977777777766542  


Q ss_pred             -------------------cCCccEEEEecCC--ccccccccCCee----eEEecCC---CHHHHHHHHHHHH----HH-
Q psy17903        165 -------------------TKSTRFCLICNYV--SCIIQPLTSRCS----KFRFKPL---AENTMLTRLQYIC----EQ-  211 (355)
Q Consensus       165 -------------------~~~~~~Il~~~~~--~~l~~~l~sr~~----~i~~~~~---~~~~~~~~l~~~~----~~-  211 (355)
                                         +..+.+|+.+|..  ..+.++..+|..    ...|...   +++...+.++.++    +. 
T Consensus       255 ~~~~~~~~s~~~~v~~e~vP~d~klI~~Gn~~~l~~l~~~~~~r~~g~~y~ae~~~~m~~~~~nr~k~~~~~~q~v~~d~  334 (647)
T COG1067         255 PIWGSSEPSSGAPVRPESVPLDLKLILAGNREDLEDLHEPDRSRIEGFGYEAEFEDTMPITDANRSKLVQFYVQELARDG  334 (647)
T ss_pred             cccCcCccccCcccCCCCcccceEEEeeCCHHHHHhhcccCHHHHhhcceEEEEcCCCCCChHHHHHHHHHHHHHHHhcC
Confidence                               2345677777743  345555555543    2455433   3444444444433    33 


Q ss_pred             cCCCCCHHHHHHHHHHc----------CCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCC
Q psy17903        212 ESVMCDFKALETLVETS----------GGDMRRAITCLQSCARLK---GGEGIVNEDVLEVTGV  262 (355)
Q Consensus       212 ~~~~~~~~~~~~l~~~~----------~g~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~~  262 (355)
                      .-..++.+++..|+..+          .-.+|.+.+.++.+...+   +...|+.++|++++..
T Consensus       335 ~ip~~~~~Av~~li~~a~R~Ag~~~~Ltl~~rdl~~lv~~A~~ia~~~~~~~I~ae~Ve~a~~~  398 (647)
T COG1067         335 NIPHLDKDAVEELIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEGRKLITAEDVEEALQK  398 (647)
T ss_pred             CCCCCCHHHHHHHHHHHHHhccccceeccCHHHHHHHHHHhhHHHhcCCcccCcHHHHHHHHHh
Confidence            33467888888877553          126888999998666655   3456999999998865

>PRK13808 adenylate kinase; Provisional

Probab=96.95  E-value=0.014  Score=53.13  Aligned_cols=24  Identities=29%  Similarity=0.569  Sum_probs=21.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +++|.||||+|||++++.|+..++
T Consensus         2 rIiv~GpPGSGK~T~a~~LA~~yg   25 (333)
T PRK13808          2 RLILLGPPGAGKGTQAQRLVQQYG   25 (333)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            379999999999999999999873

>PRK00625 shikimate kinase; Provisional

Probab=96.95  E-value=0.001  Score=54.94  Aligned_cols=24  Identities=33%  Similarity=0.336  Sum_probs=22.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +++|.|.||+||||+++.+++.+.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            489999999999999999999984

>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=96.95  E-value=0.00099  Score=45.95  Aligned_cols=22  Identities=27%  Similarity=0.431  Sum_probs=20.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.+.|++|+|||++++.+++.+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999997

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.

>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=96.94  E-value=0.0097  Score=47.58  Aligned_cols=94  Identities=15%  Similarity=0.141  Sum_probs=53.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC------ccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEE
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD------DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIV  141 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~------~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vl  141 (355)
                      .+.|.||.|+||||+++.++..+....   .-+.++...      ..+....+.. . .+..-..          +.+++
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~~~~~---G~i~~~~~~~i~~~~~lS~G~~~rv-~-laral~~----------~p~il   92 (144)
T cd03221          28 RIGLVGRNGAGKSTLLKLIAGELEPDE---GIVTWGSTVKIGYFEQLSGGEKMRL-A-LAKLLLE----------NPNLL   92 (144)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCCc---eEEEECCeEEEEEEccCCHHHHHHH-H-HHHHHhc----------CCCEE
Confidence            389999999999999999988753211   111111110      0111111111 1 1111111          23499


Q ss_pred             EEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCc
Q psy17903        142 ILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVS  178 (355)
Q Consensus       142 iiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~  178 (355)
                      ++||.. .+.......+.+.+.+..  ..+++++++.+
T Consensus        93 llDEP~~~LD~~~~~~l~~~l~~~~--~til~~th~~~  128 (144)
T cd03221          93 LLDEPTNHLDLESIEALEEALKEYP--GTVILVSHDRY  128 (144)
T ss_pred             EEeCCccCCCHHHHHHHHHHHHHcC--CEEEEEECCHH
Confidence            999985 667777778888887652  35666776654

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.

>PRK13709 conjugal transfer nickase/helicase TraI; Provisional

Probab=96.93  E-value=0.012  Score=64.48  Aligned_cols=123  Identities=17%  Similarity=0.202  Sum_probs=68.2

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC--CccccceeeecCCCccchHHHHH------HHHHHH
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG--DMYRERILELNASDDRGIQVIRD------KVKTFA  121 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~--~~~~~~~~~~~~~~~~~~~~i~~------~i~~~~  121 (355)
                      .+.....+..++.... ..++|.|.+|+|||++++.+...+..  ..-...++-+ ++...-...+.+      .+..+.
T Consensus       969 t~~Q~~Av~~il~s~d-r~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~gl-APTgrAAk~L~e~Gi~A~TI~s~L 1046 (1747)
T PRK13709        969 TSGQRAATRMILESTD-RFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGL-GPTHRAVGEMRSAGVDAQTLASFL 1046 (1747)
T ss_pred             CHHHHHHHHHHHhCCC-cEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEE-CCcHHHHHHHHhcCcchhhHHHHh
Confidence            4556666666665432 34899999999999999999887631  1111122222 221111111111      112221


Q ss_pred             HhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecC
Q psy17903        122 QQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (355)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~  176 (355)
                      ............+.....++||||+..+.......|++.++.  .++.+||+++.
T Consensus      1047 ~~~~~~~~~~~~~~~~~~llIVDEaSMv~~~~m~~Ll~~~~~--~garvVLVGD~ 1099 (1747)
T PRK13709       1047 HDTQLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAA--GGGRAVSSGDT 1099 (1747)
T ss_pred             cccccccccccCCCCCCcEEEEEccccccHHHHHHHHHhhhc--CCCEEEEecch
Confidence            110000000011112456999999999998888888888874  34678888863

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=96.92  E-value=0.0058  Score=55.37  Aligned_cols=22  Identities=27%  Similarity=0.369  Sum_probs=20.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|+||+||||+++.+++.+
T Consensus         5 iil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          5 ILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHC
Confidence            7899999999999999999987

>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=96.92  E-value=0.0065  Score=48.96  Aligned_cols=20  Identities=30%  Similarity=0.652  Sum_probs=19.0

Q ss_pred             EECCCCCCHHHHHHHHHHHh
Q psy17903         71 FYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        71 l~Gp~G~GKt~la~~l~~~l   90 (355)
                      |.||||+||+|+++.+++.+
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            68999999999999999997

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 ....

>PRK05973 replicative DNA helicase; Provisional

Probab=96.91  E-value=0.0062  Score=52.82  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=20.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.|+||+|||+++..++....
T Consensus        67 ~LIaG~PG~GKT~lalqfa~~~a   89 (237)
T PRK05973         67 VLLGARPGHGKTLLGLELAVEAM   89 (237)
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHH
Confidence            99999999999999999887653

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.91  E-value=0.0022  Score=50.31  Aligned_cols=24  Identities=29%  Similarity=0.270  Sum_probs=22.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|.|+.|+|||++++.+++.+..
T Consensus        25 i~l~G~lGaGKTtl~~~l~~~lg~   48 (133)
T TIGR00150        25 VLLKGDLGAGKTTLVQGLLQGLGI   48 (133)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHcCC
Confidence            899999999999999999999853

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.

>PRK14712 conjugal transfer nickase/helicase TraI; Provisional

Probab=96.90  E-value=0.012  Score=63.79  Aligned_cols=123  Identities=17%  Similarity=0.196  Sum_probs=67.6

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC--CccccceeeecCCCccchHHHH------HHHHHHH
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG--DMYRERILELNASDDRGIQVIR------DKVKTFA  121 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~--~~~~~~~~~~~~~~~~~~~~i~------~~i~~~~  121 (355)
                      .+.....+..++...+ ..++|.|.+|+|||++++.+...+..  +.....++-+ ++...-...+.      ..+..|.
T Consensus       837 t~~Qr~Av~~iLts~d-r~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~gl-APTgkAa~~L~e~Gi~A~TIasfL  914 (1623)
T PRK14712        837 TSGQRAATRMILETSD-RFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGL-GPTHRAVGEMRSAGVDAQTLASFL  914 (1623)
T ss_pred             CHHHHHHHHHHHhCCC-ceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEE-echHHHHHHHHHhCchHhhHHHHh
Confidence            4556666677776432 24899999999999999888776421  1011122222 11111111111      1122222


Q ss_pred             HhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecC
Q psy17903        122 QQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (355)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~  176 (355)
                      ............+..+..+|||||+..+.......|+..++.  ....+||+++.
T Consensus       915 ~~~~~~~~~~~~~~~~~~llIVDEASMV~~~~m~~ll~~~~~--~garvVLVGD~  967 (1623)
T PRK14712        915 HDTQLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAA--GGGRAVASGDT  967 (1623)
T ss_pred             ccccchhhcccCCCCCCcEEEEEccccccHHHHHHHHHhhhh--CCCEEEEEcch
Confidence            111000000011112456999999999998888888888874  34678888863

>PRK10263 DNA translocase FtsK; Provisional

Probab=96.89  E-value=0.017  Score=60.78  Aligned_cols=70  Identities=16%  Similarity=0.216  Sum_probs=43.7

Q ss_pred             cEEEEEeCCCCCCH----HHHHHHHHHhhhc-cCCccEEEEecCCcc--ccccccCCee-eEEecCCCHHHHHHHHHH
Q psy17903        138 FKIVILDEADSMTH----AAQAALRRTMEKE-TKSTRFCLICNYVSC--IIQPLTSRCS-KFRFKPLAENTMLTRLQY  207 (355)
Q Consensus       138 ~~vliiDe~d~l~~----~~~~~Ll~~le~~-~~~~~~Il~~~~~~~--l~~~l~sr~~-~i~~~~~~~~~~~~~l~~  207 (355)
                      +-||||||+..|..    +....|.++.... ...+.+|++|.+++.  +...|++.+. +|.|+--+..+-..+|-.
T Consensus      1141 ~IVVIIDE~AdLm~~~~kevE~lI~rLAqkGRAaGIHLILATQRPsvDVItg~IKAN~ptRIAfrVsS~~DSrtILd~ 1218 (1355)
T PRK10263       1141 YIVVLVDEFADLMMTVGKKVEELIARLAQKARAAGIHLVLATQRPSVDVITGLIKANIPTRIAFTVSSKIDSRTILDQ 1218 (1355)
T ss_pred             eEEEEEcChHHHHhhhhHHHHHHHHHHHHHhhhcCeEEEEEecCcccccchHHHHhhccceEEEEcCCHHHHHHhcCC
Confidence            45899999976643    2223344444433 356778888877652  4444666655 777877777777666643

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=96.89  E-value=0.0093  Score=51.13  Aligned_cols=21  Identities=19%  Similarity=0.368  Sum_probs=19.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~   88 (355)
                      .++|+||.|+|||++.+.++.
T Consensus        31 ~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          31 IMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             EEEEECCCCCChHHHHHHHHH
Confidence            389999999999999999884

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

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.87  E-value=0.0026  Score=57.44  Aligned_cols=49  Identities=27%  Similarity=0.355  Sum_probs=36.4

Q ss_pred             CCCCcccc----cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         42 KTIDDVIE----QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        42 ~~~~~~vg----~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .++++++-    .+.....|..+++.+  .+++|+|++|+||||+++++.+.+..
T Consensus       106 ~tl~~l~~~g~~~~~~~~~L~~~v~~~--~~ilI~G~tGSGKTTll~al~~~i~~  158 (299)
T TIGR02782       106 FTLDDYVEAGIMTAAQRDVLREAVLAR--KNILVVGGTGSGKTTLANALLAEIAK  158 (299)
T ss_pred             CCHHHHHhcCCCCHHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHHhhc
Confidence            35566652    234566777777643  36999999999999999999998743

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.

>TIGR00767 rho transcription termination factor Rho

Probab=96.87  E-value=0.0028  Score=58.79  Aligned_cols=26  Identities=23%  Similarity=0.354  Sum_probs=23.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      .++|.||+|+|||++++.+++.+...
T Consensus       170 ~~~IvG~~g~GKTtL~~~i~~~I~~n  195 (415)
T TIGR00767       170 RGLIVAPPKAGKTVLLQKIAQAITRN  195 (415)
T ss_pred             EEEEECCCCCChhHHHHHHHHhhccc
Confidence            39999999999999999999987544

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

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=96.87  E-value=0.0088  Score=51.34  Aligned_cols=48  Identities=17%  Similarity=0.216  Sum_probs=33.4

Q ss_pred             CcEEEEEeCC-CCCCHHHHHHHHHHhhhc---cCCccEEEEecCCccccccc
Q psy17903        137 PFKIVILDEA-DSMTHAAQAALRRTMEKE---TKSTRFCLICNYVSCIIQPL  184 (355)
Q Consensus       137 ~~~vliiDe~-d~l~~~~~~~Ll~~le~~---~~~~~~Il~~~~~~~l~~~l  184 (355)
                      +-.++|+||. +.|.......|++++++.   +..+.+|++|...+.+.+-+
T Consensus       189 ~P~LLiLDEP~~GLDl~~re~ll~~l~~~~~~~~~~~ll~VtHh~eEi~~~~  240 (257)
T COG1119         189 DPELLILDEPAQGLDLIAREQLLNRLEELAASPGAPALLFVTHHAEEIPPCF  240 (257)
T ss_pred             CCCEEEecCccccCChHHHHHHHHHHHHHhcCCCCceEEEEEcchhhccccc
Confidence            3359999995 556666667777777653   33566888898887776554

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.87  E-value=0.0024  Score=57.21  Aligned_cols=23  Identities=30%  Similarity=0.603  Sum_probs=21.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.||+|+||||++..++..+.
T Consensus       197 i~~vGptGvGKTTt~~kLa~~~~  219 (282)
T TIGR03499       197 IALVGPTGVGKTTTLAKLAARFV  219 (282)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            89999999999999999998874

>PRK07667 uridine kinase; Provisional

Probab=96.86  E-value=0.0026  Score=53.70  Aligned_cols=39  Identities=13%  Similarity=0.064  Sum_probs=28.2

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        57 l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      +.+.+...+...  +.|.|++|+||||+++.++..+.....
T Consensus         6 ~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~~~~~   46 (193)
T PRK07667          6 LINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMKQEGI   46 (193)
T ss_pred             HHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHHhCCC
Confidence            334444333333  889999999999999999999865433

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=96.86  E-value=0.0096  Score=54.22  Aligned_cols=47  Identities=21%  Similarity=0.337  Sum_probs=34.7

Q ss_pred             CCCCcccc----cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         42 KTIDDVIE----QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        42 ~~~~~~vg----~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++++++.    .+...+.|..+++.+  .+++|+|++|+||||++++++..+
T Consensus       122 ~tl~~l~~~g~~~~~~~~~L~~~v~~~--~~ilI~G~tGSGKTTll~aL~~~~  172 (319)
T PRK13894        122 FTLDQYVERGIMTAAQREAIIAAVRAH--RNILVIGGTGSGKTTLVNAIINEM  172 (319)
T ss_pred             CCHHHHHhcCCCCHHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHhh
Confidence            35566652    234556666666644  469999999999999999999875

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.85  E-value=0.015  Score=48.23  Aligned_cols=44  Identities=20%  Similarity=0.233  Sum_probs=30.4

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCccc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVSCI  180 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l  180 (355)
                      +.+++++||.- .|.......+.+.+.+......+|+++++...+
T Consensus       116 ~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~  160 (178)
T cd03247         116 DAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGI  160 (178)
T ss_pred             CCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHH
Confidence            44699999985 666677777777776554455677777766543

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.

>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=96.84  E-value=0.003  Score=56.03  Aligned_cols=74  Identities=23%  Similarity=0.310  Sum_probs=37.0

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCCccccceee-----ecCC---CccchHHHHHHHHHHHHhhccCCCCCCCCCCCc
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILE-----LNAS---DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPF  138 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~-----~~~~---~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~  138 (355)
                      |-++|+|-||+|||++|+.+...+....+...++.     ++..   +......++..+.........          ..
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~~~~~~~~y~~~~~Ek~~R~~l~s~v~r~ls----------~~   71 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDDSLGIDRNDYADSKKEKEARGSLKSAVERALS----------KD   71 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHHH-TTSSS--GGGHHHHHHHHHHHHHHHHT----------T-
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcccccccchhhhhchhhhHHHHHHHHHHHHHhhc----------cC
Confidence            44899999999999999999998865333221211     1111   112233444444444333322          22


Q ss_pred             EEEEEeCCCCCC
Q psy17903        139 KIVILDEADSMT  150 (355)
Q Consensus       139 ~vliiDe~d~l~  150 (355)
                      .+||+|+...+.
T Consensus        72 ~iVI~Dd~nYiK   83 (270)
T PF08433_consen   72 TIVILDDNNYIK   83 (270)
T ss_dssp             SEEEE-S---SH
T ss_pred             eEEEEeCCchHH
Confidence            499999998774

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.83  E-value=0.0012  Score=53.36  Aligned_cols=22  Identities=32%  Similarity=0.452  Sum_probs=20.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++++|.||+||||+++.+. .+
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~-~l   23 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR-EL   23 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH-Hh
Confidence            47899999999999999999 66

>PRK06217 hypothetical protein; Validated

Probab=96.83  E-value=0.0013  Score=54.92  Aligned_cols=25  Identities=24%  Similarity=0.240  Sum_probs=22.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .++|.|++|+||||+++.+++.++.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~   27 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDI   27 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC
Confidence            4899999999999999999999843

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.83  E-value=0.0092  Score=49.46  Aligned_cols=41  Identities=17%  Similarity=0.182  Sum_probs=27.8

Q ss_pred             cEEEEEeCCC-CCCHHHHHHHHHHhhhcc-CCccEEEEecCCc
Q psy17903        138 FKIVILDEAD-SMTHAAQAALRRTMEKET-KSTRFCLICNYVS  178 (355)
Q Consensus       138 ~~vliiDe~d-~l~~~~~~~Ll~~le~~~-~~~~~Il~~~~~~  178 (355)
                      .+++++||.- .+.......+.+.+.+.. ....+|+++++.+
T Consensus       108 p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~  150 (176)
T cd03238         108 GTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLD  150 (176)
T ss_pred             CCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            4699999974 566666777777766532 2455677777665

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.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.82  E-value=0.012  Score=48.24  Aligned_cols=97  Identities=19%  Similarity=0.225  Sum_probs=53.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc--h-HHHH--------------HHHHHHHHhhccCCCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG--I-QVIR--------------DKVKTFAQQTASGFNQ  130 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~--~-~~i~--------------~~i~~~~~~~~~~~~~  130 (355)
                      .+.|.||.|+||||+++.++......  . .-+.++..+...  . +..+              ..+. ++....     
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~~~~~--~-G~v~~~g~~~~~~~~~~~~~~~i~~~~qLS~G~~qrl~-laral~-----   98 (163)
T cd03216          28 VHALLGENGAGKSTLMKILSGLYKPD--S-GEILVDGKEVSFASPRDARRAGIAMVYQLSVGERQMVE-IARALA-----   98 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC--C-eEEEECCEECCcCCHHHHHhcCeEEEEecCHHHHHHHH-HHHHHh-----
Confidence            48999999999999999998765321  1 112232211110  0 0000              0000 010000     


Q ss_pred             CCCCCCCcEEEEEeCCC-CCCHHHHHHHHHHhhhcc-CCccEEEEecCCc
Q psy17903        131 DGKPCPPFKIVILDEAD-SMTHAAQAALRRTMEKET-KSTRFCLICNYVS  178 (355)
Q Consensus       131 ~~~~~~~~~vliiDe~d-~l~~~~~~~Ll~~le~~~-~~~~~Il~~~~~~  178 (355)
                           .+.+++++||.. .|.......+.+.+.+.. ....+|+++++..
T Consensus        99 -----~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~  143 (163)
T cd03216          99 -----RNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLD  143 (163)
T ss_pred             -----cCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence                 133599999975 566677777777776542 2445666776654

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.

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.81  E-value=0.0038  Score=57.47  Aligned_cols=30  Identities=20%  Similarity=0.253  Sum_probs=25.2

Q ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         64 ADLPHFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        64 ~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      |+....+|+||+|+|||++++.+++.+...
T Consensus       131 GkGQR~LIvG~pGtGKTTLl~~la~~i~~~  160 (380)
T PRK12608        131 GKGQRGLIVAPPRAGKTVLLQQIAAAVAAN  160 (380)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            444458999999999999999999988553

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.80  E-value=0.0045  Score=55.15  Aligned_cols=35  Identities=26%  Similarity=0.297  Sum_probs=25.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeec
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~  103 (355)
                      +.|.||+|+||||++..++..+.....+..++..|
T Consensus        75 i~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D  109 (272)
T TIGR00064        75 ILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGD  109 (272)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCC
Confidence            88889999999999999998875443333333333

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.

>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=96.80  E-value=0.0025  Score=53.06  Aligned_cols=42  Identities=17%  Similarity=0.267  Sum_probs=29.6

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccC--CccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETK--STRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~--~~~~Il~~~~~~  178 (355)
                      +.+++++||.- .|.......+.+.+.+...  ...+|+++++..
T Consensus       115 ~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~  159 (180)
T cd03214         115 EPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLN  159 (180)
T ss_pred             CCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            44699999975 6677777788887776433  456677777654

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.

>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase

Probab=96.79  E-value=0.004  Score=60.30  Aligned_cols=22  Identities=23%  Similarity=0.294  Sum_probs=20.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++++|+||+||||+|+.++...
T Consensus       372 Vil~G~pGSGKST~A~~l~~~~  393 (526)
T TIGR01663       372 VIAVGFPGAGKSHFCKKFFQPA  393 (526)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            9999999999999999999875

Note that the EC number for the kinase function is: 2.7.1.78

>KOG0479|consensus

Probab=96.79  E-value=0.0086  Score=57.28  Aligned_cols=142  Identities=18%  Similarity=0.167  Sum_probs=83.3

Q ss_pred             cccccHHHHHHHHHHHhcCC---------CC---eEEEECCCCCCHHHHHHHHHHHhcCCc----cccceeeecCCCccc
Q psy17903         46 DVIEQQEVVSVLKKCLSGAD---------LP---HFLFYGPPGTGKTSTMIAACHQLFGDM----YRERILELNASDDRG  109 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~~~---------~~---~~ll~Gp~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~~~~  109 (355)
                      .+.|++.+++.|.-++-+|.         ..   ++|+.|.|.+.|+.|.+.+.+......    ....-+-+.++-...
T Consensus       302 SI~GH~~vKkAillLLlGGvEk~L~NGshlRGDINiLlvGDPSvAKSQLLRyVLntAplAI~TTGRGSSGVGLTAAVTtD  381 (818)
T KOG0479|consen  302 SIYGHDYVKKAILLLLLGGVEKNLENGSHLRGDINILLVGDPSVAKSQLLRYVLNTAPLAIATTGRGSSGVGLTAAVTTD  381 (818)
T ss_pred             ccccHHHHHHHHHHHHhccceeccCCCceeccceeEEEecCchHHHHHHHHHHHhcccccccccCCCCCCccceeEEeec
Confidence            36799999888876664331         11   399999999999999999988642110    000001111110000


Q ss_pred             hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-------------CCccEEEEecC
Q psy17903        110 IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-------------KSTRFCLICNY  176 (355)
Q Consensus       110 ~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-------------~~~~~Il~~~~  176 (355)
                      .+.=...++.    +.       ...++++||+|||+|.|+.-..-++-++||+..             ..|-++.++|.
T Consensus       382 ~eTGERRLEA----GA-------MVLADRGVVCIDEFDKMsDiDRvAIHEVMEQqtVTIaKAGIHasLNARCSVlAAANP  450 (818)
T KOG0479|consen  382 QETGERRLEA----GA-------MVLADRGVVCIDEFDKMSDIDRVAIHEVMEQQTVTIAKAGIHASLNARCSVLAAANP  450 (818)
T ss_pred             cccchhhhhc----Cc-------eEEccCceEEehhcccccchhHHHHHHHHhcceEEeEeccchhhhccceeeeeecCc
Confidence            0000001111    10       111467799999999999988889999998642             34667777774


Q ss_pred             Cc-------------cccccccCCeee--EEecCCCH
Q psy17903        177 VS-------------CIIQPLTSRCSK--FRFKPLAE  198 (355)
Q Consensus       177 ~~-------------~l~~~l~sr~~~--i~~~~~~~  198 (355)
                      ..             .+...|.||+..  |.+...+.
T Consensus       451 vyG~Yd~~k~P~eNIgLpDSLLSRFDLlFv~lD~~d~  487 (818)
T KOG0479|consen  451 VYGQYDQSKTPMENIGLPDSLLSRFDLLFVVLDDIDA  487 (818)
T ss_pred             cccccCCCCChhhccCCcHHHHhhhcEEEEEeccccc
Confidence            31             145678899874  33344443

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=96.79  E-value=0.0097  Score=48.95  Aligned_cols=21  Identities=19%  Similarity=0.226  Sum_probs=19.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++++|++|+|||++|..++..
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~   22 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE   22 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            589999999999999999877

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.

>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=96.79  E-value=0.002  Score=58.53  Aligned_cols=50  Identities=20%  Similarity=0.270  Sum_probs=39.7

Q ss_pred             CCC-cccccHHHHHHHHHHHhc----CCCCe--EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         43 TID-DVIEQQEVVSVLKKCLSG----ADLPH--FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        43 ~~~-~~vg~~~~~~~l~~~l~~----~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .|+ ++.|.++.+.+|...++.    .....  ++|.||.|+|||++++.+.+.+..
T Consensus        58 ~f~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~  114 (358)
T PF08298_consen   58 FFEDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEE  114 (358)
T ss_pred             CccccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhhe
Confidence            355 899999999888777643    22222  999999999999999999998843

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.78  E-value=0.019  Score=46.18  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=21.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|+|++|+|||++++.++..+.
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            68999999999999999999984

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.76  E-value=0.0032  Score=55.89  Aligned_cols=51  Identities=25%  Similarity=0.376  Sum_probs=39.1

Q ss_pred             CCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         41 PKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +.+++++.-.+...+.|.+++.... ..++|.||+|+||||++.++...+..
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            3456666666777788888776432 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.

>cd04124 RabL2 RabL2 subfamily

Probab=96.76  E-value=0.0079  Score=48.93  Aligned_cols=23  Identities=13%  Similarity=0.190  Sum_probs=19.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+++.|++|+|||+++..+...-
T Consensus         2 ki~vvG~~~vGKTsli~~~~~~~   24 (161)
T cd04124           2 KIILLGDSAVGKSKLVERFLMDG   24 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999887643

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

>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=96.75  E-value=0.0018  Score=52.21  Aligned_cols=23  Identities=26%  Similarity=0.267  Sum_probs=21.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++++|++|+|||++++.+++.+.
T Consensus         2 i~l~G~~GsGKstla~~la~~l~   24 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALG   24 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999999983

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.

>KOG0086|consensus

Probab=96.75  E-value=0.02  Score=45.08  Aligned_cols=95  Identities=21%  Similarity=0.280  Sum_probs=57.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccc--------cce-------eeecCCCccchHHHHHHHHHHHHhhccCCCCCCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYR--------ERI-------LELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK  133 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~--------~~~-------~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~  133 (355)
                      +++.|+.|+||+.+...+.+.-..+..+        ..+       +.+...+..+.+.++.....+.....        
T Consensus        12 fl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGAA--------   83 (214)
T KOG0086|consen   12 FLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAA--------   83 (214)
T ss_pred             eEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhcccc--------
Confidence            7999999999999999888765443211        111       22222334455666665555543321        


Q ss_pred             CCCCcEEEEEeCCCCCCHHHHHHHHHHhhh----ccCCccEEEEecCCc
Q psy17903        134 PCPPFKIVILDEADSMTHAAQAALRRTMEK----ETKSTRFCLICNYVS  178 (355)
Q Consensus       134 ~~~~~~vliiDe~d~l~~~~~~~Ll~~le~----~~~~~~~Il~~~~~~  178 (355)
                          + -+++-|+  -+.+..++|-+.|.+    .+++.++|+++|..+
T Consensus        84 ----G-AlLVYD~--TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkD  125 (214)
T KOG0086|consen   84 ----G-ALLVYDI--TSRDSFNALTNWLTDARTLASPNIVVILCGNKKD  125 (214)
T ss_pred             ----c-eEEEEec--cchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhh
Confidence                1 3444444  356778888877765    356777888877543

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=96.75  E-value=0.0035  Score=50.57  Aligned_cols=53  Identities=19%  Similarity=0.256  Sum_probs=35.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC--CccchHHHHHHHHHHHHhh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS--DDRGIQVIRDKVKTFAQQT  124 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~--~~~~~~~i~~~i~~~~~~~  124 (355)
                      ++|+||+|||||++.+++|......   ...+.+.+.  ...+++.++..+....+.+
T Consensus        32 iaitGPSG~GKStllk~va~Lisp~---~G~l~f~Ge~vs~~~pea~Rq~VsY~~Q~p   86 (223)
T COG4619          32 IAITGPSGCGKSTLLKIVASLISPT---SGTLLFEGEDVSTLKPEAYRQQVSYCAQTP   86 (223)
T ss_pred             EEEeCCCCccHHHHHHHHHhccCCC---CceEEEcCccccccChHHHHHHHHHHHcCc
Confidence            8999999999999999999876322   122333333  3345667777666655443

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=96.75  E-value=0.012  Score=50.37  Aligned_cols=100  Identities=14%  Similarity=0.189  Sum_probs=56.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCccccc---------------eeeecCCCccchHHHHHHHHHHHHhhccCCCCCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRER---------------ILELNASDDRGIQVIRDKVKTFAQQTASGFNQDG  132 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~---------------~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~  132 (355)
                      .++++|++|+|||+++.++.+......+...               .+.+...+..+...++.....+...+        
T Consensus         7 kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~--------   78 (219)
T COG1100           7 KIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGA--------   78 (219)
T ss_pred             EEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCC--------
Confidence            3899999999999999999988765322111               11122234445566655554443322        


Q ss_pred             CCCCCcEEEEEeCCC-CCCHHHHHHHHHHhhhcc-CCccEEEEecCCcc
Q psy17903        133 KPCPPFKIVILDEAD-SMTHAAQAALRRTMEKET-KSTRFCLICNYVSC  179 (355)
Q Consensus       133 ~~~~~~~vliiDe~d-~l~~~~~~~Ll~~le~~~-~~~~~Il~~~~~~~  179 (355)
                          ..-+++.|..+ .-..+....+...+.+.. ....++++.|..+.
T Consensus        79 ----~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl  123 (219)
T COG1100          79 ----NGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDL  123 (219)
T ss_pred             ----CEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEeccccc
Confidence                22255666554 223333444444444333 35677778876553

>PRK13949 shikimate kinase; Provisional

Probab=96.75  E-value=0.0016  Score=53.68  Aligned_cols=24  Identities=29%  Similarity=0.314  Sum_probs=22.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +++|.|++|+|||++++.+++.+.
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            589999999999999999999983

>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=96.74  E-value=0.002  Score=57.52  Aligned_cols=51  Identities=24%  Similarity=0.389  Sum_probs=38.0

Q ss_pred             CCCcccccHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      +++++.-.......+.+++...  ...+++|.|++|+||||++.++...+...
T Consensus       102 sle~l~~~~~~~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~  154 (270)
T PF00437_consen  102 SLEDLGESGSIPEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPE  154 (270)
T ss_dssp             CHCCCCHTHHCHHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTT
T ss_pred             cHhhccCchhhHHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhcccc
Confidence            6778876665555666555543  12359999999999999999999988654

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 ....

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.73  E-value=0.0017  Score=54.30  Aligned_cols=26  Identities=19%  Similarity=0.276  Sum_probs=23.0

Q ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         66 LPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        66 ~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+-++|.|+||+||||+++.+++.++
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~~~g   28 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVEKYG   28 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34589999999999999999998873

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.

>COG3910 Predicted ATPase [General function prediction only]

Probab=96.72  E-value=0.036  Score=45.67  Aligned_cols=51  Identities=16%  Similarity=0.180  Sum_probs=35.8

Q ss_pred             CCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         40 RPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        40 ~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +|.+|++....=.+++.+..-++- +.|--+|.|+.|+||||++.+++-...
T Consensus        12 kve~~~eYp~slPa~r~l~~~LeF-~apIT~i~GENGsGKSTLLEaiA~~~~   62 (233)
T COG3910          12 KVESFEEYPFSLPAFRHLEERLEF-RAPITFITGENGSGKSTLLEAIAAGMG   62 (233)
T ss_pred             cccchhhCcccchHHHhhhhhccc-cCceEEEEcCCCccHHHHHHHHHhhcc
Confidence            455666666555566666653322 234479999999999999999998764

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

Probab=96.72  E-value=0.027  Score=45.44  Aligned_cols=74  Identities=18%  Similarity=0.262  Sum_probs=40.7

Q ss_pred             ECCCCCCHHHHHHHHHHHhcCCccccceee-ecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC
Q psy17903         72 YGPPGTGKTSTMIAACHQLFGDMYRERILE-LNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT  150 (355)
Q Consensus        72 ~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~-~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~  150 (355)
                      .+..||||||++.+|.+-+..  |.  .+. =|........-+...+..+...             +..+||+|--..+.
T Consensus         5 IAtiGCGKTTva~aL~~LFg~--wg--HvQnDnI~~k~~~~f~~~~l~~L~~~-------------~~~vViaDRNNh~~   67 (168)
T PF08303_consen    5 IATIGCGKTTVALALSNLFGE--WG--HVQNDNITGKRKPKFIKAVLELLAKD-------------THPVVIADRNNHQK   67 (168)
T ss_pred             ecCCCcCHHHHHHHHHHHcCC--CC--ccccCCCCCCCHHHHHHHHHHHHhhC-------------CCCEEEEeCCCchH
Confidence            578999999999999988742  21  111 1111112222333334433211             34599999887776


Q ss_pred             HHHHHHHHHHhhh
Q psy17903        151 HAAQAALRRTMEK  163 (355)
Q Consensus       151 ~~~~~~Ll~~le~  163 (355)
                      .+.. .|...++.
T Consensus        68 reR~-ql~~~~~~   79 (168)
T PF08303_consen   68 RERK-QLFEDVSQ   79 (168)
T ss_pred             HHHH-HHHHHHHH
Confidence            5433 44444443

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

>PRK14531 adenylate kinase; Provisional

Probab=96.71  E-value=0.0018  Score=54.15  Aligned_cols=24  Identities=38%  Similarity=0.735  Sum_probs=22.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+++.||||+||||+++.+++.++
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~g   27 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAHG   27 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            489999999999999999999974

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.70  E-value=0.0017  Score=53.84  Aligned_cols=23  Identities=35%  Similarity=0.715  Sum_probs=21.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.||||+||||+|+.+++.+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            37999999999999999999996

>PLN02674 adenylate kinase

Probab=96.70  E-value=0.032  Score=48.63  Aligned_cols=25  Identities=24%  Similarity=0.522  Sum_probs=22.7

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++++|.||||+||+|.++.+++.++
T Consensus        32 ~~i~l~G~PGsGKgT~a~~La~~~~   56 (244)
T PLN02674         32 KRLILIGPPGSGKGTQSPIIKDEYC   56 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHcC
Confidence            4599999999999999999999873

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=96.70  E-value=0.014  Score=48.05  Aligned_cols=43  Identities=26%  Similarity=0.345  Sum_probs=29.9

Q ss_pred             cEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCccc
Q psy17903        138 FKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVSCI  180 (355)
Q Consensus       138 ~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l  180 (355)
                      .+++++||-- .|.......+.+.+.+......+|+++++...+
T Consensus       115 p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~  158 (171)
T cd03228         115 PPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTI  158 (171)
T ss_pred             CCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHH
Confidence            3599999975 666677777777776654446677777766543

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.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.69  E-value=0.015  Score=55.71  Aligned_cols=23  Identities=35%  Similarity=0.603  Sum_probs=21.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.||.|+||||++..++..+.
T Consensus       259 i~LvGpnGvGKTTTiaKLA~~~~  281 (484)
T PRK06995        259 FALMGPTGVGKTTTTAKLAARCV  281 (484)
T ss_pred             EEEECCCCccHHHHHHHHHHHHH
Confidence            89999999999999999998763

>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI

Probab=96.68  E-value=0.015  Score=65.17  Aligned_cols=124  Identities=17%  Similarity=0.268  Sum_probs=70.3

Q ss_pred             cccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHH-------
Q psy17903         46 DVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVK-------  118 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~-------  118 (355)
                      .+.-.+.....+..++.+.. .-.+|.|++|+|||++++.+...+.....  .+.-+. +.......+.+...       
T Consensus       427 ~~~Ls~~Q~~Av~~il~s~~-~v~ii~G~aGTGKTt~l~~l~~~~~~~G~--~V~~lA-PTgrAA~~L~e~~g~~A~Ti~  502 (1960)
T TIGR02760       427 EFALSPSNKDAVSTLFTSTK-RFIIINGFGGTGSTEIAQLLLHLASEQGY--EIQIIT-AGSLSAQELRQKIPRLASTFI  502 (1960)
T ss_pred             cCCCCHHHHHHHHHHHhCCC-CeEEEEECCCCCHHHHHHHHHHHHHhcCC--eEEEEe-CCHHHHHHHHHHhcchhhhHH
Confidence            34445666777777776542 24899999999999999999988754332  233222 22111122221110       


Q ss_pred             HHHHhhcc--------CCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEec
Q psy17903        119 TFAQQTAS--------GFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN  175 (355)
Q Consensus       119 ~~~~~~~~--------~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~  175 (355)
                      .+......        ++.....+..+..+|||||+..+.......|++..+.  .+..+||.++
T Consensus       503 ~~l~~l~~~~~~~tv~~fl~~~~~l~~~~vlIVDEAsMl~~~~~~~Ll~~a~~--~garvVlvGD  565 (1960)
T TIGR02760       503 TWVKNLFNDDQDHTVQGLLDKSSPFSNKDIFVVDEANKLSNNELLKLIDKAEQ--HNSKLILLND  565 (1960)
T ss_pred             HHHHhhcccccchhHHHhhcccCCCCCCCEEEEECCCCCCHHHHHHHHHHHhh--cCCEEEEEcC
Confidence            00000000        0000011112456999999999998888888887763  3456676665

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.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.67  E-value=0.008  Score=54.76  Aligned_cols=63  Identities=14%  Similarity=0.105  Sum_probs=41.1

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCC----ccccceeeecCCCccchHHHHHHHH
Q psy17903         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGD----MYRERILELNASDDRGIQVIRDKVK  118 (355)
Q Consensus        56 ~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~----~~~~~~~~~~~~~~~~~~~i~~~i~  118 (355)
                      .+...+.+|-...  ++|+||||+|||+++..++.....+    ..+..+++++.......+.+.+...
T Consensus        83 ~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~~~  151 (310)
T TIGR02236        83 ELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMAE  151 (310)
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHHHH
Confidence            3445555553333  8999999999999999998775321    1223677888766555555554443

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.

>KOG3928|consensus

Probab=96.66  E-value=0.11  Score=48.03  Aligned_cols=50  Identities=8%  Similarity=0.048  Sum_probs=35.2

Q ss_pred             CeeeEEecCCCHHHHHHHHHHHHHHcCC--CC-CHHHHHHHHHHcCCCHHHHH
Q psy17903        187 RCSKFRFKPLAENTMLTRLQYICEQESV--MC-DFKALETLVETSGGDMRRAI  236 (355)
Q Consensus       187 r~~~i~~~~~~~~~~~~~l~~~~~~~~~--~~-~~~~~~~l~~~~~g~~r~~~  236 (355)
                      .+..++..+++.+|...++..+....=+  .+ .++....+.-.++||++...
T Consensus       402 pf~pi~v~nYt~~E~~~~i~YYl~~nwl~kkv~~Ee~~kql~fLSngNP~l~~  454 (461)
T KOG3928|consen  402 PFVPIEVENYTLDEFEALIDYYLQSNWLLKKVPGEENIKQLYFLSNGNPSLME  454 (461)
T ss_pred             CcCccccCCCCHHHHHHHHHHHHHhhHHHhhcCcccchhhhhhhcCCCHHHHH
Confidence            3447888999999999988877765321  22 35666777777899995443

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=96.66  E-value=0.0085  Score=48.99  Aligned_cols=21  Identities=33%  Similarity=0.496  Sum_probs=19.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++..+...
T Consensus         2 i~ivG~~~vGKTsli~~~~~~   22 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSE   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            689999999999999999875

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.

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

Probab=96.66  E-value=0.002  Score=52.48  Aligned_cols=26  Identities=23%  Similarity=0.199  Sum_probs=23.4

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .+++|.|++|+||||+.+.+++.++-
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~   28 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNL   28 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCC
Confidence            45899999999999999999999943

>TIGR00174 miaA tRNA isopentenyltransferase (miaA)

Probab=96.65  E-value=0.0087  Score=53.43  Aligned_cols=24  Identities=25%  Similarity=0.483  Sum_probs=21.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|.||+|+|||+++..+++.++.
T Consensus         2 i~i~G~t~~GKs~la~~l~~~~~~   25 (287)
T TIGR00174         2 IFIMGPTAVGKSQLAIQLAKKLNA   25 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCC
Confidence            689999999999999999999743

Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.

>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies

Probab=96.64  E-value=0.0037  Score=53.25  Aligned_cols=27  Identities=30%  Similarity=0.444  Sum_probs=21.4

Q ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         66 LPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        66 ~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .+|+++.|++|+|||++++.+...+..
T Consensus        38 ~~h~li~G~tgsGKS~~l~~ll~~l~~   64 (205)
T PF01580_consen   38 NPHLLIAGATGSGKSTLLRTLLLSLAL   64 (205)
T ss_dssp             S-SEEEE--TTSSHHHHHHHHHHHHHT
T ss_pred             CceEEEEcCCCCCccHHHHHHHHHHHH
Confidence            358999999999999999998888765

The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.64  E-value=0.0022  Score=53.19  Aligned_cols=25  Identities=24%  Similarity=0.221  Sum_probs=22.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .++|.|+||+||||+++.+++.+..
T Consensus         4 ~i~l~G~~gsGKst~a~~l~~~~~~   28 (175)
T cd00227           4 IIILNGGSSAGKSSIARALQSVLAE   28 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCC
Confidence            3899999999999999999998743

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

>PRK14530 adenylate kinase; Provisional

Probab=96.64  E-value=0.0019  Score=55.47  Aligned_cols=25  Identities=28%  Similarity=0.558  Sum_probs=22.8

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.++|.||||+||||+++.+++.+.
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~~   28 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEFG   28 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3589999999999999999999984

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.63  E-value=0.0014  Score=53.54  Aligned_cols=22  Identities=36%  Similarity=0.708  Sum_probs=20.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.||+|+||||+++.+++.+
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4789999999999999999997

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.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.62  E-value=0.0076  Score=52.12  Aligned_cols=47  Identities=23%  Similarity=0.436  Sum_probs=32.6

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC
Q psy17903         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (355)
Q Consensus        57 l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  105 (355)
                      |-+.+.+|-.+.  ++|+|+||+|||+++..++.......  ..++.++..
T Consensus        12 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~--~~v~yi~~e   60 (225)
T PRK09361         12 LDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNG--KKVIYIDTE   60 (225)
T ss_pred             HHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEECC
Confidence            445555554444  89999999999999999998764332  345555554

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.62  E-value=0.0017  Score=51.87  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=21.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.+.|||||||||+++.+++.++
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~g   25 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLG   25 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhC
Confidence            57899999999999999999984

>PF13337 Lon_2: Putative ATP-dependent Lon protease

Probab=96.62  E-value=0.04  Score=51.83  Aligned_cols=90  Identities=16%  Similarity=0.254  Sum_probs=51.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEAD  147 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d  147 (355)
                      |++=.||.|||||++-+.+...         ..-+++... ....+   +-....      ...|-. ..+.+|++||+.
T Consensus       210 NliELgPrGTGKS~vy~eiSp~---------~~liSGG~~-T~A~L---Fyn~~~------~~~GlV-~~~D~VafDEv~  269 (457)
T PF13337_consen  210 NLIELGPRGTGKSYVYKEISPY---------GILISGGQV-TVAKL---FYNMST------GQIGLV-GRWDVVAFDEVA  269 (457)
T ss_pred             ceEEEcCCCCCceeehhhcCcc---------cEEEECCCc-chHHh---eeeccC------Ccceee-eeccEEEEEecc
Confidence            5899999999999986655322         223333321 11111   101000      001111 145699999999


Q ss_pred             CCC---HHHHHHHHHHhhhcc---------CCccEEEEecCC
Q psy17903        148 SMT---HAAQAALRRTMEKET---------KSTRFCLICNYV  177 (355)
Q Consensus       148 ~l~---~~~~~~Ll~~le~~~---------~~~~~Il~~~~~  177 (355)
                      .+.   ++..+.|..+|+.+.         ...-+||.+|-.
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   455677888887542         345677888744

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.61  E-value=0.014  Score=56.65  Aligned_cols=37  Identities=24%  Similarity=0.232  Sum_probs=29.6

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         55 SVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        55 ~~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ..|.+.+.+|-.+.  +|+.||||+|||+++..++....
T Consensus       250 ~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~  288 (484)
T TIGR02655       250 VRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENAC  288 (484)
T ss_pred             HhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            44556666665555  99999999999999999988763

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.61  E-value=0.0063  Score=52.84  Aligned_cols=41  Identities=20%  Similarity=0.182  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         52 EVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        52 ~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .+.+.|..+......+. +.|.||+|+||||+++.++..+..
T Consensus        18 ~l~~~~~~~~~~~~~~~iigi~G~~GsGKTTl~~~L~~~l~~   59 (229)
T PRK09270         18 PLLRRLAALQAEPQRRTIVGIAGPPGAGKSTLAEFLEALLQQ   59 (229)
T ss_pred             HHHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            34455666655433344 999999999999999999998854

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.60  E-value=0.011  Score=55.70  Aligned_cols=25  Identities=28%  Similarity=0.382  Sum_probs=22.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      ++|+|++|+||||++..++..+...
T Consensus       103 i~lvG~~GvGKTTtaaKLA~~l~~~  127 (429)
T TIGR01425       103 IMFVGLQGSGKTTTCTKLAYYYQRK  127 (429)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC
Confidence            9999999999999999999887543

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.

>PRK10867 signal recognition particle protein; Provisional

Probab=96.60  E-value=0.024  Score=53.71  Aligned_cols=25  Identities=28%  Similarity=0.329  Sum_probs=22.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      ++++|++|+||||++..++..+...
T Consensus       103 I~~vG~~GsGKTTtaakLA~~l~~~  127 (433)
T PRK10867        103 IMMVGLQGAGKTTTAGKLAKYLKKK  127 (433)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHh
Confidence            9999999999999999999877543

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=96.59  E-value=0.011  Score=48.49  Aligned_cols=40  Identities=20%  Similarity=0.229  Sum_probs=28.7

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~  178 (355)
                      +.+++++||-. .+.......+.+.+.+.  ...+|+++++..
T Consensus       109 ~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~  149 (166)
T cd03223         109 KPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPS  149 (166)
T ss_pred             CCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChh
Confidence            34599999985 56677788888888765  245666777654

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=96.59  E-value=0.0053  Score=53.31  Aligned_cols=53  Identities=26%  Similarity=0.378  Sum_probs=35.1

Q ss_pred             HHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC
Q psy17903         54 VSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (355)
Q Consensus        54 ~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  106 (355)
                      .+.|..........+ +=|+||||.||||++.++...+.....+..++.+|++.
T Consensus        16 ~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSS   69 (266)
T PF03308_consen   16 RELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSS   69 (266)
T ss_dssp             HHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGG
T ss_pred             HHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCC
Confidence            344444443322234 88999999999999999999987666666777787765

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

Probab=96.57  E-value=0.0069  Score=54.76  Aligned_cols=24  Identities=33%  Similarity=0.602  Sum_probs=22.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|.||+|+|||+++..+++.+.+
T Consensus         7 i~i~GptgsGKt~la~~la~~~~~   30 (307)
T PRK00091          7 IVIVGPTASGKTALAIELAKRLNG   30 (307)
T ss_pred             EEEECCCCcCHHHHHHHHHHhCCC
Confidence            899999999999999999999854

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=96.56  E-value=0.026  Score=46.08  Aligned_cols=24  Identities=29%  Similarity=0.372  Sum_probs=20.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ..+++||.|+|||+++++++-.+.
T Consensus        23 ~~~i~G~NgsGKS~~l~~i~~~~~   46 (162)
T cd03227          23 LTIITGPNGSGKSTILDAIGLALG   46 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            489999999999999999766554

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.

>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=96.56  E-value=0.025  Score=46.76  Aligned_cols=42  Identities=17%  Similarity=0.258  Sum_probs=29.0

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhcc-CCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKET-KSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~-~~~~~Il~~~~~~  178 (355)
                      +.+++++||.- .|.......+.+.+.+.. ....+|+++++..
T Consensus       114 ~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~  157 (173)
T cd03246         114 NPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPE  157 (173)
T ss_pred             CCCEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            34599999975 667777777777776543 2456777777664

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

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=96.55  E-value=0.0046  Score=53.53  Aligned_cols=33  Identities=33%  Similarity=0.504  Sum_probs=24.4

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHH
Q psy17903         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        57 l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      |-+.+.+|-+++  ++++||||+|||+++..++..
T Consensus         8 LD~~l~GGip~gs~~li~G~~GsGKT~l~~q~l~~   42 (226)
T PF06745_consen    8 LDELLGGGIPKGSVVLISGPPGSGKTTLALQFLYN   42 (226)
T ss_dssp             HHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHhhcCCCCCCcEEEEEeCCCCCcHHHHHHHHHH
Confidence            344454554443  999999999999999887754

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=96.55  E-value=0.0027  Score=53.40  Aligned_cols=22  Identities=32%  Similarity=0.674  Sum_probs=21.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|+||+||||+++.+++.+
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999999986

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=96.54  E-value=0.032  Score=45.38  Aligned_cols=22  Identities=23%  Similarity=0.537  Sum_probs=19.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+++.|++|+|||+++.++...
T Consensus         4 ki~i~G~~~vGKSsli~~~~~~   25 (166)
T cd01869           4 KLLLIGDSGVGKSCLLLRFADD   25 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3899999999999999998764

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

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.53  E-value=0.0028  Score=52.56  Aligned_cols=26  Identities=27%  Similarity=0.257  Sum_probs=23.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      .++|.|++|+||||+++.+++.+...
T Consensus         9 ~I~i~G~~GsGKst~a~~l~~~l~~~   34 (176)
T PRK05541          9 VIWITGLAGSGKTTIAKALYERLKLK   34 (176)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            39999999999999999999998543

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.53  E-value=0.0082  Score=54.60  Aligned_cols=54  Identities=19%  Similarity=0.399  Sum_probs=38.1

Q ss_pred             ccccCCC--CCCcccc----cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         36 VEKYRPK--TIDDVIE----QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        36 ~~k~~p~--~~~~~vg----~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ..|+++.  ++++++.    .+.....|..+++.+  .+++|+|++|+||||+++++...+.
T Consensus       110 IRk~~~~~~tl~~lv~~g~~~~~~~~~L~~~v~~~--~nilI~G~tGSGKTTll~aL~~~i~  169 (323)
T PRK13833        110 IRRRASRLIPLDDYVTSKIMTEAQASVIRSAIDSR--LNIVISGGTGSGKTTLANAVIAEIV  169 (323)
T ss_pred             EECcCCCCCCHHHHHHcCCCCHHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHHHh
Confidence            4444433  4455552    234556677777754  3699999999999999999999874

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.52  E-value=0.014  Score=54.93  Aligned_cols=22  Identities=32%  Similarity=0.597  Sum_probs=20.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||+|+||||++..++..+
T Consensus       194 i~lvGpnG~GKTTtlakLA~~~  215 (420)
T PRK14721        194 YALIGPTGVGKTTTTAKLAARA  215 (420)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            9999999999999999998764

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.52  E-value=0.014  Score=49.45  Aligned_cols=25  Identities=28%  Similarity=0.270  Sum_probs=22.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      +-|.|++|+||||+++.++..+..+
T Consensus        11 IgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572          11 IGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             EEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            7899999999999999999999754

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.51  E-value=0.011  Score=54.07  Aligned_cols=64  Identities=17%  Similarity=0.161  Sum_probs=41.5

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCC----ccccceeeecCCCccchHHHHHHHH
Q psy17903         55 SVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGD----MYRERILELNASDDRGIQVIRDKVK  118 (355)
Q Consensus        55 ~~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~----~~~~~~~~~~~~~~~~~~~i~~~i~  118 (355)
                      ..+.+.+.+|-...  +.|+||||+|||+++..++......    ..+..+++++.......+.+.+...
T Consensus        89 ~~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~~  158 (317)
T PRK04301         89 KELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAE  158 (317)
T ss_pred             HHHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHHH
Confidence            34445555554444  8899999999999999998764321    1234677777766555555555443

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=96.51  E-value=0.004  Score=41.59  Aligned_cols=26  Identities=35%  Similarity=0.592  Sum_probs=23.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      ..+|+||.|+||||+..++.-.+.+.
T Consensus        25 ~tli~G~nGsGKSTllDAi~~~L~~~   50 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQTVLYGN   50 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHcCC
Confidence            48999999999999999999888654

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.50  E-value=0.016  Score=56.91  Aligned_cols=24  Identities=25%  Similarity=0.468  Sum_probs=21.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+.|.||+|+||||+++.+++...
T Consensus       363 ~vaIvG~SGsGKSTLl~lL~g~~~  386 (529)
T TIGR02868       363 RVAILGPSGSGKSTLLMLLTGLLD  386 (529)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            499999999999999999987653

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.50  E-value=0.0032  Score=54.50  Aligned_cols=24  Identities=21%  Similarity=0.425  Sum_probs=22.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.||||+||||+++.+++.++
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~g   31 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKEN   31 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            389999999999999999999973

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.49  E-value=0.0053  Score=51.45  Aligned_cols=39  Identities=21%  Similarity=0.200  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         51 QEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.....|...++.+.  .++|.||+|+||||++++++..+.
T Consensus        12 ~~~~~~l~~~v~~g~--~i~I~G~tGSGKTTll~aL~~~i~   50 (186)
T cd01130          12 PLQAAYLWLAVEARK--NILISGGTGSGKTTLLNALLAFIP   50 (186)
T ss_pred             HHHHHHHHHHHhCCC--EEEEECCCCCCHHHHHHHHHhhcC
Confidence            355666777777653  599999999999999999998764

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=96.48  E-value=0.0081  Score=51.92  Aligned_cols=34  Identities=29%  Similarity=0.266  Sum_probs=25.7

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHh
Q psy17903         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        57 l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      |.+.+.+|-++.  +++.|+||+|||+++..++...
T Consensus         5 LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~   40 (224)
T TIGR03880         5 LDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQG   40 (224)
T ss_pred             hHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            444555554333  9999999999999999888764

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>cd00876 Ras Ras family

Probab=96.48  E-value=0.016  Score=46.60  Aligned_cols=21  Identities=24%  Similarity=0.417  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++.++...
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

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

Probab=96.48  E-value=0.0028  Score=51.08  Aligned_cols=27  Identities=30%  Similarity=0.370  Sum_probs=24.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      +.|+|.+|+||||+|+++.+.|.....
T Consensus         5 IwltGlsGsGKtTlA~~L~~~L~~~g~   31 (156)
T PF01583_consen    5 IWLTGLSGSGKTTLARALERRLFARGI   31 (156)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence            899999999999999999999976544

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=96.48  E-value=0.04  Score=44.49  Aligned_cols=21  Identities=19%  Similarity=0.265  Sum_probs=19.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++..+...
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

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=96.47  E-value=0.005  Score=59.41  Aligned_cols=53  Identities=25%  Similarity=0.340  Sum_probs=41.3

Q ss_pred             CCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         40 RPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        40 ~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      .+.+++++.-.++..+.+...+.... .-++++||+|+||||++.++.+.+...
T Consensus       217 ~~~~l~~Lg~~~~~~~~l~~~~~~~~-GlilitGptGSGKTTtL~a~L~~l~~~  269 (486)
T TIGR02533       217 VRLDLETLGMSPELLSRFERLIRRPH-GIILVTGPTGSGKTTTLYAALSRLNTP  269 (486)
T ss_pred             CCCCHHHcCCCHHHHHHHHHHHhcCC-CEEEEEcCCCCCHHHHHHHHHhccCCC
Confidence            34567777667888888888886442 238999999999999999988887543

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>cd04110 Rab35 Rab35 subfamily

Probab=96.47  E-value=0.013  Score=49.60  Aligned_cols=23  Identities=26%  Similarity=0.508  Sum_probs=20.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+++.|++|+|||+++..+...-
T Consensus         8 kivvvG~~~vGKTsli~~l~~~~   30 (199)
T cd04110           8 KLLIIGDSGVGKSSLLLRFADNT   30 (199)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            39999999999999999997653

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

>PRK08233 hypothetical protein; Provisional

Probab=96.47  E-value=0.0024  Score=53.14  Aligned_cols=23  Identities=26%  Similarity=0.265  Sum_probs=21.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.|++|+||||+++.++..+.
T Consensus         6 I~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          6 ITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             EEEECCCCCCHHHHHHHHHhhCC
Confidence            78899999999999999999974

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=96.47  E-value=0.015  Score=57.82  Aligned_cols=42  Identities=24%  Similarity=0.366  Sum_probs=29.6

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~  178 (355)
                      +.+++++||.- .+.++....+.+.+.+...+..+|+++++.+
T Consensus       498 ~~~ililDEptsaLD~~t~~~i~~~l~~~~~~~tvI~VtHr~~  540 (582)
T PRK11176        498 DSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLS  540 (582)
T ss_pred             CCCEEEEECccccCCHHHHHHHHHHHHHHhCCCEEEEEecchH
Confidence            55799999985 5566666777777776555566777777663

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.46  E-value=0.011  Score=59.55  Aligned_cols=42  Identities=21%  Similarity=0.320  Sum_probs=30.0

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~  178 (355)
                      +.+|+++||+- .|..+....+...|.+...+..+|+++++..
T Consensus       627 ~P~ILlLDEaTSaLD~~sE~~I~~~L~~~~~~~T~I~IaHRl~  669 (709)
T COG2274         627 KPKILLLDEATSALDPETEAIILQNLLQILQGRTVIIIAHRLS  669 (709)
T ss_pred             CCCEEEEeCcccccCHhHHHHHHHHHHHHhcCCeEEEEEccch
Confidence            45699999995 5566666777777776665566777777654

>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=96.45  E-value=0.019  Score=47.65  Aligned_cols=96  Identities=16%  Similarity=0.143  Sum_probs=52.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC------Cc--cchHHHHHHHHHHHHhhccCCCCCCCCCCCcE
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS------DD--RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFK  139 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~------~~--~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~  139 (355)
                      .+.|.||.|+||||+++.++..+....   --+.++..      ..  .+... +..+. .+.....          +.+
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~~p~~---G~i~~~g~~i~~~~q~~~LSgGq-~qrv~-laral~~----------~p~   91 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQLIPNG---DNDEWDGITPVYKPQYIDLSGGE-LQRVA-IAAALLR----------NAT   91 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCCCC---cEEEECCEEEEEEcccCCCCHHH-HHHHH-HHHHHhc----------CCC
Confidence            388999999999999999998653211   11111110      00  01111 11111 1111110          234


Q ss_pred             EEEEeCCC-CCCHHHHHHHHHHhhhcc-C-CccEEEEecCCc
Q psy17903        140 IVILDEAD-SMTHAAQAALRRTMEKET-K-STRFCLICNYVS  178 (355)
Q Consensus       140 vliiDe~d-~l~~~~~~~Ll~~le~~~-~-~~~~Il~~~~~~  178 (355)
                      ++++||-- .|.......+.+.+.+.. . ...+|+++++..
T Consensus        92 lllLDEPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~  133 (177)
T cd03222          92 FYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLA  133 (177)
T ss_pred             EEEEECCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHH
Confidence            99999985 566677777777775532 1 245666776654

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	355
1sxj_D	353	Crystal Structure Of The Eukaryotic Clamp Loader (R		1e-84
2chq_A	319	Replication Factor C Adpnp Complex Length = 319		2e-65
1iqp_A	327	Crystal Structure Of The Clamp Loader Small Subunit		7e-64
2chg_A	226	Replication Factor C Domains 1 And 2 Length = 226		1e-60
1sxj_C	340	Crystal Structure Of The Eukaryotic Clamp Loader (R		1e-57
1sxj_B	323	Crystal Structure Of The Eukaryotic Clamp Loader (R		6e-55
1sxj_E	354	Crystal Structure Of The Eukaryotic Clamp Loader (R		4e-28
3u5z_B	324	Structure Of T4 Bacteriophage Clamp Loader Bound To		2e-19
1jr3_A	373	Crystal Structure Of The Processivity Clamp Loader		1e-12
3glh_B	376	Crystal Structure Of The E. Coli Clamp Loader Bound		1e-12
3glf_B	395	Crystal Structure Of The Ecoli Clamp Loader Bound T		1e-12
1xxi_B	368	Adp Bound E. Coli Clamp Loader Complex Length = 368		1e-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		2e-12
1sxj_A	516	Crystal Structure Of The Eukaryotic Clamp Loader (R		8e-12
3pvs_A	447	Structure And Biochemical Activities Of Escherichia		2e-05
1ixr_C	312	Ruva-Ruvb Complex Length = 312		1e-04
1ixs_B	318	Structure Of Ruvb Complexed With Ruva Domain Iii Le		1e-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 =  310 bits (793), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 158/321 (49%), Positives = 216/321 (67%), Gaps = 11/321 (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----LKGGEGIVNEDVLEVTGVIPN 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--FQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEK 322
              IE + KV S  F  ++KY+   +   +SA  + +Q H+  ++  +     K  I   
Sbjct: 266 DILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQISWL 325
Query: 323 LAECNARLQDGASEYIQILDL 343
           L   ++RL +G +E+IQ+L+L
Sbjct: 326 LFTTDSRLNNGTNEHIQLLNL 346

>pdb|2CHQ|A Chain A, Replication Factor C Adpnp Complex Length = 319

Iteration: 1
 Score =  246 bits (628), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 134/311 (43%), Positives = 192/311 (61%), Gaps = 16/311 (5%)
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 MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV 274
                 LE L+  SGGD R+AI  LQ  A +  GE +  + + ++T       + +L++ 
Sbjct: 180 KITEDGLEALIYISGGDFRKAINALQGAAAI--GEVVDADTIYQITATARPEEMTELIQT 237
Query: 275 ---DSFQVLEKYIEDLILE-AYSATQLFDQ-FHDIVMSASSLSDKQKALILEKLAECNAR 329
               +F    + ++ L++E   S   +  Q F +I+  +  + D  K  +++KL E + R
Sbjct: 238 ALKGNFMEARELLDRLMVEYGMSGEDIVAQLFREII--SMPIKDSLKVQLIDKLGEVDFR 295
Query: 330 LQDGASEYIQI 340
           L +GA+E IQ+
Sbjct: 296 LTEGANERIQL 306

>pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader Small Subunit From Pyrococcus Furiosus Length = 327

Iteration: 1
 Score =  240 bits (613), Expect = 7e-64,   Method: Compositional matrix adjust.
 Identities = 130/311 (41%), Positives = 185/311 (59%), Gaps = 14/311 (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 VMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKL-- 271
           +    + L+ ++  + GDMRRAI  LQ+ A L   + I +E+V  V        I ++  
Sbjct: 187 LELTEEGLQAILYIAEGDMRRAINILQAAAALD--KKITDENVFMVASRARPEDIREMML 244
Query: 272 --LKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNAR 329
             LK +  +  EK  E L+ +  S   +  Q H  V +   + + +K L+ +K+ E N R
Sbjct: 245 LALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFNL-PIEEPKKVLLADKIGEYNFR 303
Query: 330 LQDGASEYIQI 340
           L +GA+E IQ+
Sbjct: 304 LVEGANEIIQL 314

>pdb|2CHG|A Chain A, Replication Factor C Domains 1 And 2 Length = 226

Iteration: 1
 Score =  229 bits (585), Expect = 1e-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|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 (559), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 132/336 (39%), Positives = 193/336 (57%), Gaps = 32/336 (9%)
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-GEGIVNEDVLEVTGVIPNPWIEK 270
            +     A + L+E S GDMRR +  LQSC A L    E  +++DV+      P P    
Sbjct: 186 KLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPRP---- 241
Query: 271 LLKVDSFQVLEKYIEDLILEAY---------SATQLFDQFHDIV--MSASSLSDKQ-KAL 318
               D   VL+  +ED    A+             L D    IV  +    L +++ +  
Sbjct: 242 ---SDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVH 298
Query: 319 ILEKLAECNARLQDGASEYIQILDLGSIVIKANKTA 354
           +L KLA+    +  G ++ IQ    GS VI A K +
Sbjct: 299 LLTKLADIEYSISKGGNDQIQ----GSAVIGAIKAS 330

>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 =  211 bits (536), Expect = 6e-55,   Method: Compositional matrix adjust.
 Identities = 119/329 (36%), Positives = 184/329 (55%), Gaps = 21/329 (6%)
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 QESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEK 270
            E V      LE ++ T+ GDMR+AI  LQS      G G+VN D +      P+P I K
Sbjct: 181 LEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTV---AGHGLVNADNVFKIVDSPHPLIVK 237
Query: 271 LLKV-----DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAE 325
            + +     DS Q+L     DL  + YS+  +      +  + + + +  +  +++++  
Sbjct: 238 KMLLASNLEDSIQILR---TDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGL 294
Query: 326 CNARLQDGASEYIQILDLGSIVIKANKTA 354
            + R+ +G   Y+Q+  + + + K N  A
Sbjct: 295 THMRILEGVGTYLQLASMLAKIHKLNNKA 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 =  122 bits (305), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 102/340 (30%), Positives = 168/340 (49%), Gaps = 49/340 (14%)
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 CA-----RLKGGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYS 293
            A      LK    I+  D +    ++ +    K++K   V+S       + DL+     
Sbjct: 240 MALNNELALKSSSPIIKPDWI----IVIHKLTRKIVKERSVNSLIECRAVLYDLLAHCIP 295
Query: 294 ATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDG 333
           A  +  +    ++   +L+   K+ I+E  +  + RL  G
Sbjct: 296 ANIILKELTFSLLDVETLNTTNKSSIIEYSSVFDERLSLG 335

>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 = 93.2 bits (230), 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  RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEAD-SMTHAAQ 154
               + +N SD + I  +R  +  FA  +A+ F  DG+     K++++DE D S    +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|1JR3|A Chain A, Crystal Structure Of The Processivity Clamp Loader Gamma Complex Of E. Coli Dna Polymerase Iii Length = 373

Iteration: 1
 Score = 70.9 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: 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|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|3GLF|B Chain B, Crystal Structure Of The Ecoli Clamp Loader Bound To Primer-template Dna Length = 395

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: 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 = 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: 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 = 2e-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 = 67.8 bits (164), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 62/233 (26%), Positives = 97/233 (41%), Gaps = 37/233 (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-STRFCLICNYVSC-IIQPLTS 186
           N +GK      ++I+DE D M+   +  + +  +   K ST   LICN  +   ++P   
Sbjct: 144 NLNGKHF----VIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRPFDR 199
Query: 187 RCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL 239
            C   +F+    N++ +RL  I  +E    D   ++ L++T+ GD+R+ I  L
Sbjct: 200 VCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLL 252

>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli Mgsa Length = 447

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-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 = 1e-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 = 1e-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	355
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	1e-145
2chq_A	319	Replication factor C small subunit; DNA-binding pr	1e-144
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	1e-143
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	1e-142
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	1e-141
2chg_A	226	Replication factor C small subunit; DNA-binding pr	1e-125
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	1e-120
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	1e-114
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	1e-101
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	1e-25
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	1e-24
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	3e-23
3pvs_A	447	Replication-associated recombination protein A; ma	7e-15
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	3e-14
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	6e-14
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	3e-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	4e-08
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	1e-06
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	2e-06
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	2e-06
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	4e-06
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	5e-05
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	3e-04

>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 =  411 bits (1059), Expect = e-145
 Identities = 111/329 (33%), Positives = 183/329 (55%), Gaps = 9/329 (2%)

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 YICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNP 266
            I + E V      LE ++ T+ GDMR+AI  LQS     G   +  ++V ++       
Sbjct: 177 QIIKLEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVA--GHGLVNADNVFKIVDSPHPL 234

Query: 267 WIEKLLKVDSFQ-VLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAE 325
            ++K+L   + +  ++    DL  + YS+  +      +  + + + +  +  +++++  
Sbjct: 235 IVKKMLLASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGL 294

Query: 326 CNARLQDGASEYIQILDLGSIVIKANKTA 354
            + R+ +G   Y+Q+  + + + K N  A
Sbjct: 295 THMRILEGVGTYLQLASMLAKIHKLNNKA 323

>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 =  409 bits (1054), Expect = e-144
 Identities = 132/314 (42%), Positives = 188/314 (59%), Gaps = 14/314 (4%)

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 VMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLK 273
           V      LE L+  SGGD R+AI  LQ  A    GE +  + + ++T       + +L++
Sbjct: 179 VKITEDGLEALIYISGGDFRKAINALQGAAA--IGEVVDADTIYQITATARPEEMTELIQ 236

Query: 274 V---DSFQVLEKYIEDLILEA-YSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNAR 329
                +F    + ++ L++E   S   +  Q    ++S   + D  K  +++KL E + R
Sbjct: 237 TALKGNFMEARELLDRLMVEYGMSGEDIVAQLFREIIS-MPIKDSLKVQLIDKLGEVDFR 295

Query: 330 LQDGASEYIQILDL 343
           L +GA+E IQ+   
Sbjct: 296 LTEGANERIQLDAY 309

>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 =  407 bits (1047), Expect = e-143
 Identities = 128/330 (38%), Positives = 188/330 (56%), Gaps = 14/330 (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 YICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNP 266
           YI E E +    + L+ ++  + GDMRRAI  LQ+ A     + I +E+V  V       
Sbjct: 180 YIAENEGLELTEEGLQAILYIAEGDMRRAINILQAAAA--LDKKITDENVFMVASRARPE 237

Query: 267 WIEKLLKV----DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEK 322
            I +++ +    +  +  EK  E L+ +  S   +  Q H  V +   + + +K L+ +K
Sbjct: 238 DIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFN-LPIEEPKKVLLADK 296

Query: 323 LAECNARLQDGASEYIQILDLGSIVIKANK 352
           + E N RL +GA+E IQ+  L +      K
Sbjct: 297 IGEYNFRLVEGANEIIQLEALLAQFTLIGK 326

>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 =  404 bits (1040), Expect = e-142
 Identities = 115/335 (34%), Positives = 185/335 (55%), Gaps = 14/335 (4%)

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 TGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEA-YSATQLFDQFHDIVMSASSLSDKQ 315
            G      ++ +LK    D +      +  +      +   L +    I+      +++ 
Sbjct: 236 CGAPRPSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEET 295

Query: 316 KALILEKLAECNARLQDGASEYIQILDLGSIVIKA 350
           +  +L KLA+    +  G ++ IQ   +   +  +
Sbjct: 296 RVHLLTKLADIEYSISKGGNDQIQGSAVIGAIKAS 330

>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 =  404 bits (1039), Expect = e-141
 Identities = 153/341 (44%), Positives = 219/341 (64%), Gaps = 11/341 (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 KGGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFH 302
             G+ I +  V E+ GV+P+  + ++++      F  ++KY+   +   +SA  + +Q H
Sbjct: 246 GDGKNITSTQVEELAGVVPHDILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLH 305

Query: 303 DIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDL 343
           +  ++  +     K  I   L   ++RL +G +E+IQ+L+L
Sbjct: 306 EYYITNDNFDTNFKNQISWLLFTTDSRLNNGTNEHIQLLNL 346

>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 =  356 bits (917), Expect = e-125
 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

>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 =  349 bits (897), Expect = e-120
 Identities = 88/350 (25%), Positives = 159/350 (45%), Gaps = 33/350 (9%)

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-GVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYSATQLFDQ 300
                   +  +++    ++ +    K++K   V+S       + DL+     A  +  +
Sbjct: 243 NNELALKSSSPIIKPDWIIVIHKLTRKIVKERSVNSLIECRAVLYDLLAHCIPANIILKE 302

Query: 301 FHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA 350
               ++   +L+   K+ I+E  +  + RL  G      +    + V+  
Sbjct: 303 LTFSLLDVETLNTTNKSSIIEYSSVFDERLSLGNKAIFHLEGFIAKVMCC 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 =  335 bits (860), Expect = e-114
 Identities = 81/342 (23%), Positives = 137/342 (40%), Gaps = 43/342 (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 LKGGEGIVNEDVLEVTGVIPNPWIEKL---LKVDSFQVLEKYIEDLILEAYSATQLFDQF 301
               +G+++  +L +        I+ +   LK    + L              +    + 
Sbjct: 222 ----KGVLDAGILSLVTNDRGA-IDDVLESLKNKDVKQLRALAPKYA---ADYSWFVGKL 273

Query: 302 HDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDL 343
            + +   S ++ +    + E + E N      A+  + +  L
Sbjct: 274 AEEIY--SRVTPQSIIRMYEIVGENNQYHGIAANTELHLAYL 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 =  308 bits (791), Expect = e-101
 Identities = 75/363 (20%), Positives = 130/363 (35%), Gaps = 46/363 (12%)

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 LVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG-----VIPNPW--IEKLLKVDS 276
           L++T+ GD+R+ I  L + +     + I +E++ E++      +   P+    K+L    
Sbjct: 237 LIQTTRGDIRQVINLLSTIS--TTTKTINHENINEISKAWEKNIALKPFDIAHKMLDGQI 294

Query: 277 FQVLEKY------IEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARL 330
           +  +            L  + +  T L     +  +S      K     LE +AE    +
Sbjct: 295 YSDIGSRNFTLNDKIALYFDDFDFTPLM--IQENYLSTRPSVLKPGQSHLEAVAEAANCI 352

Query: 331 QDG 333
             G
Sbjct: 353 SLG 355

>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 =  104 bits (263), Expect = 1e-25
 Identities = 74/352 (21%), Positives = 138/352 (39%), Gaps = 76/352 (21%)

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 SCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV----DSFQVLEKYIEDLILEAYSATQ 296
                  G+ +  + V  + G + +     L++     +  +V+   I +          
Sbjct: 223 QAIASGDGQ-VSTQAVSAMLGTLDDDQALSLVEAMVEANGERVMAL-INEAAARGIEWEA 280

Query: 297 LFDQ----FHDIVM--SASSLSDKQKALILEKLAECNARL-QDGASEYIQIL 341
           L  +     H I M   + +      A I  ++ E    +       Y Q L
Sbjct: 281 LLVEMLGLLHRIAMVQLSPAALGNDMAAIELRMRELARTIPPTDIQLYYQTL 332

>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 = 99.6 bits (249), Expect = 1e-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

>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 = 3e-23
 Identities = 56/319 (17%), Positives = 92/319 (28%), Gaps = 55/319 (17%)

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 NPWIEKLLKV-------DSFQVLEKYIEDLILEAYSATQLF--DQFHDIVMSASSLSDKQ 315
           +     LL              L   + D +   + A Q+   D    +   A+ LS  +
Sbjct: 226 SGDWYSLLAALNHEQAPARLHWLATLLMDALKRHHGAAQVTNVDVPGLVAELANHLSPSR 285

Query: 316 KALILEKLAECNARLQDGA 334
              IL  +     +L    
Sbjct: 286 LQAILGDVCHIREQLMSVT 304

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli} Length = 447

 Score = 74.1 bits (183), Expect = 7e-15
 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 = 71.9 bits (176), Expect = 3e-14
 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---TCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLL 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 = 71.3 bits (174), Expect = 6e-14
 Identities = 47/310 (15%), Positives = 92/310 (29%), Gaps = 34/310 (10%)

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---VETSGGDMRRAITCLQSCARLKGGEGIVN-EDVLEV 259
               E        D + L  +        GD R+A+  L   A+L  G GI+  E V + 
Sbjct: 207 SKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLASGGGIIRKEHVDKA 266

Query: 260 TGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDI--VMSASSLSDKQKA 317
                   + +   V +     K     ++E+         + D+        LS ++ +
Sbjct: 267 IVDYEQERLIE--AVKALPFHYKLALRSLIESEDVMSAHKMYTDLCNKFKQKPLSYRRFS 324

Query: 318 LILEKLAECN 327
            I+ +L    
Sbjct: 325 DIISELDMFG 334

>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 = 67.2 bits (163), Expect = 3e-12
 Identities = 56/381 (14%), Positives = 107/381 (28%), Gaps = 102/381 (26%)

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-DFLSAATTTHISLDHHSMTLTPD 301

Query: 240 QS---CARLKGGEGIVNEDV----LEVTGVIP-----------------NPW----IEKL 271
           +      +       ++        EV    P                 + W     +KL
Sbjct: 302 EVKSLLLK------YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL 355

Query: 272 LKV--DSFQVLEKYIEDLILEAYSATQLFDQFHDI---VMSA--SSLSDKQKALILEKLA 324
             +   S  VLE        + +    +F     I   ++S     +      +++ KL 
Sbjct: 356 TTIIESSLNVLE---PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKL- 411

Query: 325 ECNARL--QDGASEYIQILDL 343
                L  +      I I  +
Sbjct: 412 -HKYSLVEKQPKESTISIPSI 431

>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 = 42.9 bits (100), Expect = 1e-04
 Identities = 54/370 (14%), Positives = 103/370 (27%), Gaps = 115/370 (31%)

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 CEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWI 268
            E    M  F+ +         D R     L+     K          +         W 
Sbjct: 484 IEHPERMTLFRMVFL-------DFR----FLEQ----K----------IRHDST---AWN 515

Query: 269 EKLLKVDSFQVLEKY--------------IEDLI--LEAYSATQLFDQFHDIVMSASSLS 312
                +++ Q L+ Y              +  ++  L       +  ++ D++  A  L 
Sbjct: 516 ASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIA--LM 573

Query: 313 DKQKALILEK 322
            + +A+  E 
Sbjct: 574 AEDEAIFEEA 583

>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 = 60.2 bits (145), Expect = 3e-10
 Identities = 54/336 (16%), Positives = 108/336 (32%), Gaps = 50/336 (14%)

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 ARL---KGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQ------VLEKYIEDLILEAYS 293
           A      G + I  EDV + +  +     E++L             + + ++       +
Sbjct: 251 AYAAQQNGRKHIAPEDVRKSSKEVLFGISEEVLIGLPLHEKLFLLAIVRSLKISHTPYIT 310

Query: 294 ATQLFDQFHDI--VMSASSLSDKQKALILEKLAECN 327
                + +  +            Q    L  L E  
Sbjct: 311 FGDAEESYKIVCEEYGERPRVHSQLWSYLNDLREKG 346

>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 = 54.7 bits (132), Expect = 1e-08
 Identities = 46/331 (13%), Positives = 108/331 (32%), Gaps = 71/331 (21%)

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 LEVTGVIPNPWIEKLLK--------VDSFQVLEKYIEDL--ILEAYSATQLFDQFHDIVM 306
           LE    + +     L           D+F ++++    +       S            +
Sbjct: 214 LERFSKVESKEFFALFDQVTNTITGKDAFLLIQRLTRIILHENTWESVEDQKSVSFLDSI 273

Query: 307 SASSLSDKQKALILEKLAECNARLQDGASEY 337
               +++    L L  +   +   + G + +
Sbjct: 274 LRVKIANLNNKLTLMNILAIHRERKRGVNAW 304

>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 = 53.1 bits (127), Expect = 4e-08
 Identities = 43/318 (13%), Positives = 105/318 (33%), Gaps = 41/318 (12%)

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 VTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAY-------SATQLFDQFHDI--VMSAS 309
               I    +  ++    F    K +   ++          +   +++ + +I   +   
Sbjct: 268 AKEEIERDRVRDIILTLPFH--SKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLGVE 325

Query: 310 SLSDKQKALILEKLAECN 327
           +++ ++ + I+ +L    
Sbjct: 326 AVTQRRVSDIINELDMVG 343

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix} Length = 387

 Score = 48.7 bits (115), Expect = 1e-06
 Identities = 47/324 (14%), Positives = 102/324 (31%), Gaps = 49/324 (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 VNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAY------SATQLFDQFHDI- 304
             E V      I    + ++  V +  +  K +   I+         S  ++++++ ++ 
Sbjct: 265 RREHVYSARAEIERDRVSEV--VRTLPLHAKLVLLSIMMLEDGGRPASTGEIYERYKELT 322

Query: 305 -VMSASSLSDKQKALILEKLAECN 327
             +    ++ ++ + I+ +L    
Sbjct: 323 STLGLEHVTLRRVSGIISELDMLG 346

>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 = 2e-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 = 2e-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

>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 = 4e-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 = 5e-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 = 41.4 bits (96), Expect = 3e-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	355
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
2chq_A	319	Replication factor C small subunit; DNA-binding pr	100.0
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	100.0
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	100.0
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	100.0
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	100.0
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	100.0
3pvs_A	447	Replication-associated recombination protein A; ma	100.0
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	100.0
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	100.0
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.98
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	99.98
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.97
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.96
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.95
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.94
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.94
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.91
3bos_A	242	Putative DNA replication factor; P-loop containing	99.91
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.91
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.9
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.89
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.89
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.88
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.88
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.88
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.88
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.87
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.87
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.87
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.86
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.86
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.86
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.86
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.85
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.85
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.85
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.85
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.84
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.84
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.84
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.83
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.83
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.83
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.83
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.82
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.82
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.81
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.81
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.81
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.81
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.8
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.79
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.78
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.77
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.76
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.76
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.76
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.76
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.75
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.74
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.74
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.73
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.72
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.72
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.71
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.71
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.71
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.7
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.69
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.67
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.63
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.62
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.62
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.59
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.59
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.58
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.57
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.56
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.55
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.54
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.52
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.49
3co5_A	143	Putative two-component system transcriptional RES	99.47
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.41
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.4
2fna_A	357	Conserved hypothetical protein; structural genomic	99.35
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.31
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	99.19
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	99.1
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	99.08
3f8t_A	506	Predicted ATPase involved in replication control,	99.07
1tue_A	212	Replication protein E1; helicase, replication, E1E	99.01
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.96
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.95
2qgz_A	308	Helicase loader, putative primosome component; str	98.91
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	98.8
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.71
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	98.62
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	98.62
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.62
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.37
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.3
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	98.27
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.19
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	98.1
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.0
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.94
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.84
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.67
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	97.65
1jql_B	140	DNA polymerase III, delta subunit; processivity cl	97.64
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	97.61
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.55
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	97.51
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	97.5
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.49
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.45
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.4
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.39
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	97.38
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.36
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	97.35
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.33
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	97.31
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.3
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.3
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.27
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.24
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	97.22
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.21
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.18
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.16
3b6e_A	216	Interferon-induced helicase C domain-containing P;	97.14
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.11
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.11
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.06
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	97.05
1nrj_B	218	SR-beta, signal recognition particle receptor beta	97.05
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.03
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.02
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.01
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	97.01
3io5_A	333	Recombination and repair protein; storage dimer, i	97.01
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	97.0
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.97
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.93
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.91
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.9
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.88
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	96.87
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	96.87
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.83
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.82
3h1t_A	590	Type I site-specific restriction-modification syst	96.82
1via_A	175	Shikimate kinase; structural genomics, transferase	96.82
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.81
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.81
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.75
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.75
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.74
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.74
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	96.7
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	96.7
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.68
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.68
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.67
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.67
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	96.65
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.65
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.65
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	96.63
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	96.63
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.61
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.61
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	96.57
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.54
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.53
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.51
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.51
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	96.5
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.5
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.46
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.46
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.46
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.46
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.45
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.44
1rif_A	282	DAR protein, DNA helicase UVSW; bacteriophage, REC	96.44
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.43
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.41
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	96.4
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.4
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.38
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.38
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	96.37
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.36
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.35
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.34
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.34
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.33
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.33
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.32
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.32
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.32
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.31
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.3
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.3
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.28
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.27
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	96.27
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.26
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.26
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.26
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.25
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.24
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.22
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.21
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.21
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	96.21
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.21
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.19
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.16
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.15
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	96.15
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.14
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.13
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.11
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.11
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.1
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	96.06
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.05
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.04
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	96.04
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.02
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.01
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.01
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.0
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.98
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.97
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	95.97
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	95.95
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.95
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.94
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.94
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.94
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.92
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	95.91
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	95.91
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.9
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	95.89
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.88
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.87
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.87
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	95.86
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.85
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.85
3bor_A	237	Human initiation factor 4A-II; translation initiat	95.84
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	95.84
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	95.82
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.82
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	95.81
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.81
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	95.81
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	95.79
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	95.76
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.76
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	95.75
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	95.74
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	95.73
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	95.73
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.72
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.72
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	95.72
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.71
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.71
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.7
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.7
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.69
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	95.68
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	95.67
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	95.67
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	95.63
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	95.63
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.61
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	95.6
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.6
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.59
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.58
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	95.56
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.54
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.53
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	95.52
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.51
2oca_A	510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	95.51
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.49
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.49
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.49
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.48
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.47
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.46
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	95.46
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.46
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	95.42
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.42
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.41
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.4
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	95.4
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.39
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.39
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.38
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.36
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	95.36
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.35
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	95.33
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	95.33
2xxa_A	433	Signal recognition particle protein; protein trans	95.33
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.28
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.28
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	95.28
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	95.27
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.27
3llu_A	196	RAS-related GTP-binding protein C; structural geno	95.26
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	95.22
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.2
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.2
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.19
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.18
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	95.18
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	95.16
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	95.14
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.14
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	95.12
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	95.12
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.11
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	95.1
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.08
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	95.07
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	95.07
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.06
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	95.05
2fh5_B	214	SR-beta, signal recognition particle receptor beta	95.05
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	95.05
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	95.02
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	94.99
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	94.98
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	94.98
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	94.97
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	94.96
2ged_A	193	SR-beta, signal recognition particle receptor beta	94.95
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.94
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.93
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	94.92
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	94.92
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	94.92
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	94.91
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	94.9
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	94.89
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.89
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.89
4f92_B	1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	94.88
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	94.88
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	94.86
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	94.83
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	94.82
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	94.82
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	94.81
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.75
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.75
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	94.73
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	94.71
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.71
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.71
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	94.7
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	94.69
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	93.7
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	94.68
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	94.66
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.65
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.63
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	94.61
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	94.58
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.57
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.56
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	94.55
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.54
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	94.51
2zpa_A	671	Uncharacterized protein YPFI; RNA modification enz	94.51
2xgj_A	1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	94.5
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	94.49
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.48
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	94.47
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	94.45
2z83_A	459	Helicase/nucleoside triphosphatase; hydrolase, mem	94.45
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	94.43
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	94.41
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.39
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.38
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	94.38
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	94.37
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	94.33
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.31
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	94.29
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	94.28
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.26
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.22
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	94.2
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	94.19
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.14
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	94.13
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.13
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.11
1z63_A	500	Helicase of the SNF2/RAD54 hamily; protein-DNA com	94.08
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.07
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	94.06
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	94.04
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	94.04
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	94.02
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	94.02
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	93.99
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	93.99
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	93.97
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	93.97
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.96
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	93.95
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	93.93
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.92
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	93.91
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	93.91
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.86
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	93.82
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	93.79
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.71
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	93.71
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.7
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	93.69
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	93.68
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	93.66
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.66
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	93.66
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	93.63
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.63
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	93.61
1g6h_A	257	High-affinity branched-chain amino acid transport	93.6
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.59
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	93.58
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.58
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	93.57
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	93.56
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	93.53
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	93.52
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.51
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	93.5
2og2_A	359	Putative signal recognition particle receptor; nuc	93.5
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	93.48
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	93.46
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	93.45
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.43
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	93.4
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	93.4
3sqw_A	579	ATP-dependent RNA helicase MSS116, mitochondrial;	93.39
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	93.38
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.38
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.36
2ghi_A	260	Transport protein; multidrug resistance protein, M	93.36
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.36
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	93.34
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.33
4a4z_A	997	Antiviral helicase SKI2; hydrolase, ATPase, mRNA d	93.32
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	93.31
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	93.29
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	93.29
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	93.29
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.29
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.28
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.26
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	93.22
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	93.2
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	93.19
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	93.16
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	93.15
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.15
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	93.13
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	93.12
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	93.09
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	93.09
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	93.09
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	93.08
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	93.05
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	93.04
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	93.04
1taf_B	70	TFIID TBP associated factor 62; transcription init	93.02
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	92.99
2jlq_A	451	Serine protease subunit NS3; ribonucleoprotein, nu	92.98
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	92.95
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	92.93
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	92.92
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	92.91
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	92.9

>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=4e-45  Score=336.18  Aligned_cols=322  Identities=36%  Similarity=0.626  Sum_probs=283.5

Q ss_pred             CCCCCCCCCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeee
Q psy17903         23 STSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILEL  102 (355)
Q Consensus        23 ~~~~~~~~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~  102 (355)
                      |++.+......||.+||||.+|++++|++++++.|..+++.++.+|++|+||+|+|||++++++++.+.+..+...+.++
T Consensus         3 ~~~~~~~~~~~~~~~k~rp~~~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~   82 (340)
T 1sxj_C            3 TSTEKRSKENLPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLEL   82 (340)
T ss_dssp             ---------CCCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEE
T ss_pred             CCCCCccccCCchHHHhCCCcHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEE
Confidence            34445555578999999999999999999999999999999999999999999999999999999999877666678899


Q ss_pred             cCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccc
Q psy17903        103 NASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQ  182 (355)
Q Consensus       103 ~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~  182 (355)
                      ++++..+.+.+++.+..+........       ++++++||||+|.++.+.++.|++++|+++.+++||+++|...++.+
T Consensus        83 ~~~~~~~~~~ir~~i~~~~~~~~~~~-------~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~  155 (340)
T 1sxj_C           83 NASDDRGIDVVRNQIKDFASTRQIFS-------KGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTP  155 (340)
T ss_dssp             CTTSCCSHHHHHTHHHHHHHBCCSSS-------CSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCH
T ss_pred             cCcccccHHHHHHHHHHHHhhcccCC-------CCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccch
Confidence            99887788888887777664321110       14679999999999999999999999999999999999999999999


Q ss_pred             cccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCC---CCCCHHHHHHH
Q psy17903        183 PLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGG---EGIVNEDVLEV  259 (355)
Q Consensus       183 ~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~---~~It~~~v~~~  259 (355)
                      ++++||..+.|.+++.+++.+++..+++.+++.+++++++.+++.++|++|++++.|+.++.+...   ..||.+++.++
T Consensus       156 ~i~sR~~~~~~~~l~~~~~~~~l~~~~~~~~~~i~~~~~~~i~~~s~G~~r~~~~~l~~~~~~~~~~~~~~it~~~v~~~  235 (340)
T 1sxj_C          156 ALLSQCTRFRFQPLPQEAIERRIANVLVHEKLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYEC  235 (340)
T ss_dssp             HHHTTSEEEECCCCCHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTTCHHHHHHHTTTTTTTTCSSSCCCBCHHHHHHH
T ss_pred             hHHhhceeEeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCcccccccHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999988765431   36999999999


Q ss_pred             hCCCChHHHHHHHhc---CCHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHHHHHHhhCCC
Q psy17903        260 TGVIPNPWIEKLLKV---DSFQVLEKYIEDLIL-EAYSATQLFDQFHDIVMSASSLS-DKQKALILEKLAECNARLQDGA  334 (355)
Q Consensus       260 ~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~-~g~~~~~i~~~l~~~~~~~~~~~-~~~~~~i~~~l~~~~~~l~~g~  334 (355)
                      +.......++++++.   ++...+..++++++. .|+++.+++..+.++++.. .++ ...+.++++.+++++++|+.|.
T Consensus       236 ~~~~~~~~i~~l~~~i~~~~~~~al~~l~~l~~~~g~~~~~i~~~l~~~~~~~-~~~~~~~~~~~~~~l~~~~~~l~~g~  314 (340)
T 1sxj_C          236 CGAPRPSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDY-ELQNEETRVHLLTKLADIEYSISKGG  314 (340)
T ss_dssp             TTCCCHHHHHHHHHHHHTSCHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTTS-CCSSHHHHHHHHHHHHHHHHHHTTCC
T ss_pred             hCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-cCCcHHHHHHHHHHHHHHHHHHHhCC
Confidence            999999999999887   889999999999998 9999999999999988654 577 8999999999999999999999


Q ss_pred             ChHHHHHHHHHHHHHHHh
Q psy17903        335 SEYIQILDLGSIVIKANK  352 (355)
Q Consensus       335 ~~~~~l~~~~~~~~~~~~  352 (355)
                      +..++||.|+.+++...+
T Consensus       315 ~~~l~le~l~~~l~~~~~  332 (340)
T 1sxj_C          315 NDQIQGSAVIGAIKASFE  332 (340)
T ss_dssp             CHHHHHHHHHHHHHHHCC
T ss_pred             ChHHHHHHHHHHHHHHhh
Confidence            999999999999987654

>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=2.8e-44  Score=332.21  Aligned_cols=323  Identities=46%  Similarity=0.788  Sum_probs=278.6

Q ss_pred             CCCCCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCC-ccccceeeecCC
Q psy17903         27 KTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD-MYRERILELNAS  105 (355)
Q Consensus        27 ~~~~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~-~~~~~~~~~~~~  105 (355)
                      .++....||.+||+|.+|++++|++++++.+..++..+..+|++|+||||+|||++++++++.+.+. .....+++++++
T Consensus        19 ~~~~~~~~~~~k~~p~~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~   98 (353)
T 1sxj_D           19 EQSLAQQPWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNAS   98 (353)
T ss_dssp             -------CHHHHTCCSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSS
T ss_pred             hhcccCccHHHhcCCCCHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccc
Confidence            3356678999999999999999999999999999999988889999999999999999999998542 234567888988


Q ss_pred             CccchHHHHHHHHHHHHhhccCCCC---CCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccc
Q psy17903        106 DDRGIQVIRDKVKTFAQQTASGFNQ---DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQ  182 (355)
Q Consensus       106 ~~~~~~~i~~~i~~~~~~~~~~~~~---~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~  182 (355)
                      +..+...+++.+..+..........   ...+..++++|||||+|.+....++.|++++++++..++||+++|.+..+.+
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~  178 (353)
T 1sxj_D           99 DERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIID  178 (353)
T ss_dssp             SCCCHHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCH
T ss_pred             cccchHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcc
Confidence            8777777776666655432111000   0011125679999999999999999999999999889999999999999999


Q ss_pred             cccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCC----CCCHHHHHH
Q psy17903        183 PLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGE----GIVNEDVLE  258 (355)
Q Consensus       183 ~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~----~It~~~v~~  258 (355)
                      ++++||..+.|.+++.+++..++..++..+++.+++++++.+++.++||+|.+++.++.++.+.+..    .||.++|.+
T Consensus       179 ~l~sR~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~~r~~~~~l~~~~~~~~~~~~~~~It~~~v~~  258 (353)
T 1sxj_D          179 PLASQCSKFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEE  258 (353)
T ss_dssp             HHHHHSEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSSCHHHHHHHHHHTHHHHHHHCSCCCCCHHHHHH
T ss_pred             hhhccCceEEeCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCccCccccHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999988775332    799999999


Q ss_pred             HhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCC
Q psy17903        259 VTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGAS  335 (355)
Q Consensus       259 ~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~  335 (355)
                      ++.......+++++++   ++...+..+++++...|+++..++..+.+++.....++...+.++++.+++++++|++|.|
T Consensus       259 ~~~~~~~~~~~~l~~~~~~~~~~~a~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~  338 (353)
T 1sxj_D          259 LAGVVPHDILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQISWLLFTTDSRLNNGTN  338 (353)
T ss_dssp             HHTCCCSHHHHHHHHHHHSCCHHHHHHHHHHHHHTSCCCTTHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTTCCC
T ss_pred             HhCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhCCC
Confidence            9998888888888887   8899999999999999999999999999999888789999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHH
Q psy17903        336 EYIQILDLGSIVIK  349 (355)
Q Consensus       336 ~~~~l~~~~~~~~~  349 (355)
                      +.++++.|+.+++.
T Consensus       339 ~~l~l~~~~~~~~~  352 (353)
T 1sxj_D          339 EHIQLLNLLVKISQ  352 (353)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHh
Confidence            99999999999874

>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=1.1e-42  Score=316.98  Aligned_cols=310  Identities=43%  Similarity=0.715  Sum_probs=276.9

Q ss_pred             CCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccch
Q psy17903         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (355)
Q Consensus        31 ~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  110 (355)
                      +..||.+||+|.+|++++|++.+++.+.+++..+..++++|+||+|+|||++++++++.+.+..+...++++++++..+.
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            35699999999999999999999999999999998888999999999999999999999877666667889998887676


Q ss_pred             HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeee
Q psy17903        111 QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSK  190 (355)
Q Consensus       111 ~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~  190 (355)
                      +.+++.+..+.......   .    +++++|||||+|.++.+.++.|++++++++.++++|++++...++.+++.+||..
T Consensus        83 ~~~~~~~~~~~~~~~~~---~----~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~  155 (319)
T 2chq_A           83 DVVRHKIKEFARTAPIG---G----APFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAV  155 (319)
T ss_dssp             TTSSHHHHHHHHSCCSS---S----CCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEE
T ss_pred             HHHHHHHHHHHhcCCCC---C----CCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeE
Confidence            66666666655222111   0    1467999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHHHHH
Q psy17903        191 FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEK  270 (355)
Q Consensus       191 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~~~~  270 (355)
                      +.|.+++.+++..++..++.++++.+++++++.+++.++||+|.+++.+++++..  ++.|+.+++.+++.......+++
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            9999999999999999999999999999999999999999999999999998874  46799999999999998888999


Q ss_pred             HHhc---CCHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHH
Q psy17903        271 LLKV---DSFQVLEKYIEDLIL-EAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSI  346 (355)
Q Consensus       271 l~~~---~~~~~~~~~l~~l~~-~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~  346 (355)
                      ++++   ++...+..++.+++. .|+++..++..+.+++... .++...+.++++.+++++++++.|.+..+++|.++.+
T Consensus       234 l~~~~~~~~~~~a~~~l~~l~~~~g~~~~~i~~~l~~~~~~l-~~~~~~l~~~~~~l~~~~~~lk~~~~~~~~le~l~~~  312 (319)
T 2chq_A          234 LIQTALKGNFMEARELLDRLMVEYGMSGEDIVAQLFREIISM-PIKDSLKVQLIDKLGEVDFRLTEGANERIQLDAYLAY  312 (319)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTS-CSCTTHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            8887   899999999999997 9999999999999988754 5888999999999999999999999999999999999


Q ss_pred             HHHH
Q psy17903        347 VIKA  350 (355)
Q Consensus       347 ~~~~  350 (355)
                      ++..
T Consensus       313 l~~~  316 (319)
T 2chq_A          313 LSTL  316 (319)
T ss_dssp             HHHT
T ss_pred             HHHh
Confidence            9864

>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=2.3e-42  Score=315.81  Aligned_cols=311  Identities=41%  Similarity=0.685  Sum_probs=278.7

Q ss_pred             CCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccch
Q psy17903         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (355)
Q Consensus        31 ~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  110 (355)
                      ...||.+||+|.+|++++|++++++.+..++..+..++++|+||+|+|||++|+++++.+.+..+...++++++++..+.
T Consensus        11 ~~~~~~~k~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~   90 (327)
T 1iqp_A           11 LEKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGI   90 (327)
T ss_dssp             TTSCHHHHTCCCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHH
T ss_pred             cCCchhhccCCCCHHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCch
Confidence            46799999999999999999999999999999998889999999999999999999999876655567888998877666


Q ss_pred             HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeee
Q psy17903        111 QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSK  190 (355)
Q Consensus       111 ~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~  190 (355)
                      +.+++.+..+........       +++++|||||+|.++.+.++.|++++++++.+++||++++...++.+++.+||..
T Consensus        91 ~~~~~~~~~~~~~~~~~~-------~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~  163 (327)
T 1iqp_A           91 NVIREKVKEFARTKPIGG-------ASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAI  163 (327)
T ss_dssp             HTTHHHHHHHHHSCCGGG-------CSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEE
T ss_pred             HHHHHHHHHHHhhCCcCC-------CCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcE
Confidence            666666666553221110       1467999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHHHHH
Q psy17903        191 FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEK  270 (355)
Q Consensus       191 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~~~~  270 (355)
                      +.|++++.+++..++..++..+++.+++++++.+++.++||+|.+++.+++++...  ..||.+++.+++....+..+++
T Consensus       164 ~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~~i~~~~v~~~~~~~~~~~i~~  241 (327)
T 1iqp_A          164 FRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGDMRRAINILQAAAALD--KKITDENVFMVASRARPEDIRE  241 (327)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--SEECHHHHHHHTTCCCHHHHHH
T ss_pred             EEecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHhcC--CCCCHHHHHHHHCCCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999887643  5799999999999999999999


Q ss_pred             HHhc---CCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHH
Q psy17903        271 LLKV---DSFQVLEKYIEDLI-LEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSI  346 (355)
Q Consensus       271 l~~~---~~~~~~~~~l~~l~-~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~  346 (355)
                      ++++   ++...+...+++++ ..|+++.+++..+.+++... .++...+.++++.+++++++++.|.+..++||.|+.+
T Consensus       242 l~~~~~~~~~~~~~~~~~~ll~~~g~~~~~i~~~l~~~~~~~-~~~~~~l~~~~~~l~~~~~~lk~~~~~~~~le~l~~~  320 (327)
T 1iqp_A          242 MMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFNL-PIEEPKKVLLADKIGEYNFRLVEGANEIIQLEALLAQ  320 (327)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHGGGS-SSCHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            8887   88999999999998 88999999999999987653 6899999999999999999999999999999999999


Q ss_pred             HHHHH
Q psy17903        347 VIKAN  351 (355)
Q Consensus       347 ~~~~~  351 (355)
                      ++...
T Consensus       321 l~~~~  325 (327)
T 1iqp_A          321 FTLIG  325 (327)
T ss_dssp             HHHHH
T ss_pred             HHHhh
Confidence            98764

>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=1.7e-42  Score=316.67  Aligned_cols=302  Identities=24%  Similarity=0.319  Sum_probs=253.6

Q ss_pred             CCCCCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC
Q psy17903         27 KTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (355)
Q Consensus        27 ~~~~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  105 (355)
                      +-.....+|.+||||++|++++|+++++..+.+++..+..++ +|++||||+|||++++++++.+     +..+++++++
T Consensus         8 ~~~~~~~~~~~k~rP~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l-----~~~~~~i~~~   82 (324)
T 3u61_B            8 TVNEKEHILEQKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV-----NADMMFVNGS   82 (324)
T ss_dssp             CCCTTCSSHHHHSCCCSTTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT-----TEEEEEEETT
T ss_pred             ccCcccchHHHhhCCCCHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh-----CCCEEEEccc
Confidence            334677899999999999999999999999999999998888 7888889999999999999998     4578889987


Q ss_pred             CccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC-HHHHHHHHHHhhhccCCccEEEEecCCccccccc
Q psy17903        106 DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT-HAAQAALRRTMEKETKSTRFCLICNYVSCIIQPL  184 (355)
Q Consensus       106 ~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~-~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l  184 (355)
                      +. +.+.+++.+..+.......        +++++|||||+|.++ .+.++.|++++++++.+++||+++|...++.+++
T Consensus        83 ~~-~~~~i~~~~~~~~~~~~~~--------~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l  153 (324)
T 3u61_B           83 DC-KIDFVRGPLTNFASAASFD--------GRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPL  153 (324)
T ss_dssp             TC-CHHHHHTHHHHHHHBCCCS--------SCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTH
T ss_pred             cc-CHHHHHHHHHHHHhhcccC--------CCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHH
Confidence            74 4777777777665442211        156799999999999 9999999999999999999999999999999999


Q ss_pred             cCCeeeEEecCCCHHH-------HHHHHHHHHHHcCCCCCH-HHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHH
Q psy17903        185 TSRCSKFRFKPLAENT-------MLTRLQYICEQESVMCDF-KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDV  256 (355)
Q Consensus       185 ~sr~~~i~~~~~~~~~-------~~~~l~~~~~~~~~~~~~-~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v  256 (355)
                      ++||..++|++|+.++       +..++...+..+++.+++ ++++.+++.++||+|.+++.|+.++   .++.||.+++
T Consensus       154 ~sR~~~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~gd~R~a~~~L~~~~---~~~~i~~~~v  230 (324)
T 3u61_B          154 QSRCRVITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGELDSYS---SKGVLDAGIL  230 (324)
T ss_dssp             HHHSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHHTCSCTTHHHHHHHHHG---GGTCBCC---
T ss_pred             HhhCcEEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHhCCCCHHHHHHHHHHHh---ccCCCCHHHH
Confidence            9999999999999877       456677777888999988 9999999999999999999999988   3457999999


Q ss_pred             HHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCC
Q psy17903        257 LEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDG  333 (355)
Q Consensus       257 ~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g  333 (355)
                      .+++..  .+.++++++.   ++...+..++++++.   ++..++..+..++..  .++...+.++++.++++|++|+.|
T Consensus       231 ~~~~~~--~~~i~~~~~~~~~~~~~~a~~~~~~l~~---~~~~i~~~l~~~~~~--~~~~~~l~~i~~~l~~~d~~l~~g  303 (324)
T 3u61_B          231 SLVTND--RGAIDDVLESLKNKDVKQLRALAPKYAA---DYSWFVGKLAEEIYS--RVTPQSIIRMYEIVGENNQYHGIA  303 (324)
T ss_dssp             -----------CHHHHHHHHTTCHHHHHHHHHHHSS---CHHHHHHHHHHHHHH--HSCHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHhCC--HHHHHHHHHHHHcCCHHHHHHHHHHhcc---CHHHHHHHHHHHHHH--hCCHHHHHHHHHHHHHHHHHHHhC
Confidence            988765  3455555554   899999999999876   899999999998877  689999999999999999999999


Q ss_pred             CChHHHHHHHHHHHHHHHh
Q psy17903        334 ASEYIQILDLGSIVIKANK  352 (355)
Q Consensus       334 ~~~~~~l~~~~~~~~~~~~  352 (355)
                      .++.++||.|++++|..++
T Consensus       304 ~~~~~~le~~~~~~~~~~~  322 (324)
T 3u61_B          304 ANTELHLAYLFIQLACEMQ  322 (324)
T ss_dssp             SCHHHHHHHHHHHHHHHCC
T ss_pred             CCHHHHHHHHHHHHHHhcc
Confidence            9999999999999998753

>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=1.3e-41  Score=310.39  Aligned_cols=315  Identities=33%  Similarity=0.559  Sum_probs=281.5

Q ss_pred             CCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccch
Q psy17903         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (355)
Q Consensus        31 ~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  110 (355)
                      ...||.++|+|.+|++++|++..++.|.+++..+..++++|+||+|+|||++++.+++.+.+..+...++++++++..+.
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            46799999999999999999999999999999998888999999999999999999999876655667889998887778


Q ss_pred             HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeee
Q psy17903        111 QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSK  190 (355)
Q Consensus       111 ~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~  190 (355)
                      +.+++.+..+.......  ..    +++++|||||+|.++.+.++.|++++++++.++++|++++...++.+++++||..
T Consensus        87 ~~i~~~~~~~~~~~~~~--~~----~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~  160 (323)
T 1sxj_B           87 DVVRNQIKHFAQKKLHL--PP----GKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAI  160 (323)
T ss_dssp             HHHHTHHHHHHHBCCCC--CT----TCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             HHHHHHHHHHHhccccC--CC----CCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceE
Confidence            88887777665321110  00    1367999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHHHHH
Q psy17903        191 FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEK  270 (355)
Q Consensus       191 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~~~~  270 (355)
                      +.|.+++.+++..++..++..+++.+++++++.+++.++||+|.+++.+++++...  +.|+.+++.+++.......+++
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            99999999999999999999999999999999999999999999999999988543  5799999999999998899999


Q ss_pred             HHhcCCHHHHHHHHHH-HHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        271 LLKVDSFQVLEKYIED-LILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       271 l~~~~~~~~~~~~l~~-l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                      +++.++...+..++.. ++..|+++.+++..+.+++.....++...+.++++.+.+++++++.|.|..++++.++.+++.
T Consensus       239 ~~~~~~~~~~l~~l~~dl~~~g~~~~~i~~~l~~~~~~l~~~~~~~l~~~l~~l~~~~~~l~~~~~~~l~le~l~~~~~~  318 (323)
T 1sxj_B          239 MLLASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMRILEGVGTYLQLASMLAKIHK  318 (323)
T ss_dssp             HHSCSSHHHHHHHHHHTTTTTTCCHHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHh
Confidence            9988888888888887 888899999999999998877544899999999999999999999999999999999999998


Q ss_pred             HHhh
Q psy17903        350 ANKT  353 (355)
Q Consensus       350 ~~~~  353 (355)
                      ..+.
T Consensus       319 ~~~~  322 (323)
T 1sxj_B          319 LNNK  322 (323)
T ss_dssp             HTTC
T ss_pred             hccC
Confidence            7654

>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=2e-41  Score=313.32  Aligned_cols=315  Identities=29%  Similarity=0.427  Sum_probs=250.0

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHH-hcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCcc----------------
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCL-SGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY----------------   95 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l-~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~----------------   95 (355)
                      .+|++||||++|++++|++.+++.+.+++ ..++.+|++|+||+|+|||++++++++.+.+...                
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            38999999999999999999999999999 8888888999999999999999999998754221                


Q ss_pred             --------ccceeeecCCCccchH--HHHHHHHHHHHhhccCCC--CCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhh
Q psy17903         96 --------RERILELNASDDRGIQ--VIRDKVKTFAQQTASGFN--QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEK  163 (355)
Q Consensus        96 --------~~~~~~~~~~~~~~~~--~i~~~i~~~~~~~~~~~~--~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~  163 (355)
                              ...++++++.+.....  .+++.+..+.........  ..+ ...+++++||||++.+..+.++.|++++++
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ls~-l~~~~~vlilDE~~~L~~~~~~~L~~~le~  160 (354)
T 1sxj_E           82 KLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDG-LAHRYKCVIINEANSLTKDAQAALRRTMEK  160 (354)
T ss_dssp             ----CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC-------------CCEEEEEECTTSSCHHHHHHHHHHHHH
T ss_pred             cceeeeecccceEEecHhhcCCcchHHHHHHHHHHHHhccccccccccc-cCCCCeEEEEeCccccCHHHHHHHHHHHHh
Confidence                    1123455544322111  355555544322111000  000 012567999999999999999999999999


Q ss_pred             ccCCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHHHHHH
Q psy17903        164 ETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCD-FKALETLVETSGGDMRRAITCLQSC  242 (355)
Q Consensus       164 ~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~l~~~~~g~~r~~~~~l~~~  242 (355)
                      ++.++.+|++|+++.++.+++++||..++|++++.+++..+++.+++++++.++ +++++.+++.++||+|.+++.++++
T Consensus       161 ~~~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~i~~~~~G~~r~a~~~l~~~  240 (354)
T 1sxj_E          161 YSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESM  240 (354)
T ss_dssp             STTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHHTTCHHHHHHHHTHH
T ss_pred             hcCCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            988999999999999999999999999999999999999999999999999999 9999999999999999999999998


Q ss_pred             HHhhCCCCCCHHHHHHHhCCCChHHHHHHHhc-------CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHH
Q psy17903        243 ARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV-------DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQ  315 (355)
Q Consensus       243 ~~~~~~~~It~~~v~~~~~~~~~~~~~~l~~~-------~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~  315 (355)
                      +.+.. +.||.+++  +......+.+++++++       +.+..+...+++++..|+++.+++.++..++.+.+.+++..
T Consensus       241 ~~~~~-~~i~~~~~--~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~  317 (354)
T 1sxj_E          241 ALNNE-LALKSSSP--IIKPDWIIVIHKLTRKIVKERSVNSLIECRAVLYDLLAHCIPANIILKELTFSLLDVETLNTTN  317 (354)
T ss_dssp             HHTTT-TEECSSCC--CCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHTTTTCTTSCHHH
T ss_pred             HHhCC-CCcCcCcC--CCCccHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCHHH
Confidence            87642 25665543  1111122456666665       33556777788888899999999999998887766799999


Q ss_pred             HHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHHHH
Q psy17903        316 KALILEKLAECNARLQDGASEYIQILDLGSIVIKAN  351 (355)
Q Consensus       316 ~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~~~  351 (355)
                      +.++++.++++|++++.|.++.++||.|+.++|..+
T Consensus       318 l~~~~~~l~~~d~~l~~g~~~~~~le~~~~~~~~~~  353 (354)
T 1sxj_E          318 KSSIIEYSSVFDERLSLGNKAIFHLEGFIAKVMCCL  353 (354)
T ss_dssp             HHHHHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999998764

>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=7.5e-38  Score=291.20  Aligned_cols=309  Identities=19%  Similarity=0.268  Sum_probs=264.9

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc---------------
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~---------------   95 (355)
                      ..+|.+||+|.+|++++|++++++.|.+++..++.+| ++|+||+|+|||++++++++.+.+...               
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            4689999999999999999999999999999998888 899999999999999999999865321               


Q ss_pred             ----ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEE
Q psy17903         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (355)
Q Consensus        96 ----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~I  171 (355)
                          ...++++++....+.+.++..+..+...+..         +++++|||||+|.++.+.++.|++++++++.++++|
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                0134556655444555566555443221111         156799999999999999999999999999999999


Q ss_pred             EEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy17903        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (355)
Q Consensus       172 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~I  251 (355)
                      ++++...++.+++++||..++|.+++.+++..++..++.+.|+.+++++++.+++.++||+|.+.+.++++..+. ++.|
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            999999999999999999999999999999999999999999999999999999999999999999999987764 5679


Q ss_pred             CHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------------
Q psy17903        252 VNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------------  307 (355)
Q Consensus       252 t~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------------  307 (355)
                      |.++|.+++.......+++++++   ++...+...+..+...|.++..++..+.++++.                     
T Consensus       233 ~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~g~~~~~~l~~l~~~~r~l~~~~~~~~~~~~~~~~~~~~  312 (373)
T 1jr3_A          233 STQAVSAMLGTLDDDQALSLVEAMVEANGERVMALINEAAARGIEWEALLVEMLGLLHRIAMVQLSPAALGNDMAAIELR  312 (373)
T ss_dssp             CHHHHHHHTTCCCHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHTTCTTCCCSGGGGTHHH
T ss_pred             cHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHhhcCccccccchhHHHH
Confidence            99999999999988888888887   899999999999999999998888776655542                     


Q ss_pred             ----cCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHHH
Q psy17903        308 ----ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  350 (355)
Q Consensus       308 ----~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~~  350 (355)
                          .+.++...+.++++.+.+++..+|.+.+..+.+|.++.+++..
T Consensus       313 ~~~~a~~~~~~~l~~~~~~l~~~~~~lk~~~~~~l~le~~ll~~~~~  359 (373)
T 1jr3_A          313 MRELARTIPPTDIQLYYQTLLIGRKELPYAPDRRMGVEMTLLRALAF  359 (373)
T ss_dssp             HHHHHHHSCHHHHHHHHHHHHHHHHHTTTSSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhc
Confidence                1347788888899999999999998899999999999999753

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=100.00  E-value=6.3e-33  Score=262.02  Aligned_cols=297  Identities=20%  Similarity=0.264  Sum_probs=233.8

Q ss_pred             CccccccCCCCCCcccccHHHH---HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVV---SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~---~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  109 (355)
                      .||.++|||.+|++++|+++++   ..|...+..+..++++|+||||||||++|+.+++.+     +..++.+++.. .+
T Consensus        14 ~pla~r~rP~~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~-----~~~f~~l~a~~-~~   87 (447)
T 3pvs_A           14 QPLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYA-----NADVERISAVT-SG   87 (447)
T ss_dssp             CCHHHHTCCCSTTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHT-----TCEEEEEETTT-CC
T ss_pred             CChHHHhCCCCHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHh-----CCCeEEEEecc-CC
Confidence            6999999999999999999999   899999999998889999999999999999999998     34567777655 45


Q ss_pred             hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEec--CCccccccccCC
Q psy17903        110 IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN--YVSCIIQPLTSR  187 (355)
Q Consensus       110 ~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~--~~~~l~~~l~sr  187 (355)
                      ...+++.+..........         .+++|||||+|.++...|+.|+..+++  ..+++|++|+  ....+.++|.+|
T Consensus        88 ~~~ir~~~~~a~~~~~~~---------~~~iLfIDEI~~l~~~~q~~LL~~le~--~~v~lI~att~n~~~~l~~aL~sR  156 (447)
T 3pvs_A           88 VKEIREAIERARQNRNAG---------RRTILFVDEVHRFNKSQQDAFLPHIED--GTITFIGATTENPSFELNSALLSR  156 (447)
T ss_dssp             HHHHHHHHHHHHHHHHTT---------CCEEEEEETTTCC------CCHHHHHT--TSCEEEEEESSCGGGSSCHHHHTT
T ss_pred             HHHHHHHHHHHHHhhhcC---------CCcEEEEeChhhhCHHHHHHHHHHHhc--CceEEEecCCCCcccccCHHHhCc
Confidence            666666665544332211         456999999999999999999999997  4567777774  345688999999


Q ss_pred             eeeEEecCCCHHHHHHHHHHHHHH-------cCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhC-C----CCCCHHH
Q psy17903        188 CSKFRFKPLAENTMLTRLQYICEQ-------ESVMCDFKALETLVETSGGDMRRAITCLQSCARLKG-G----EGIVNED  255 (355)
Q Consensus       188 ~~~i~~~~~~~~~~~~~l~~~~~~-------~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~-~----~~It~~~  255 (355)
                      |.++.|.+++.+++..++...+..       .++.+++++++.|++.++||+|.+++.|+.+..++. .    ..||.++
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    3699999


Q ss_pred             HHHHhCCCCh----------HHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Q psy17903        256 VLEVTGVIPN----------PWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEK  322 (355)
Q Consensus       256 v~~~~~~~~~----------~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~  322 (355)
                      +.+++.....          +.+..+.+.   .+.+.+..++.++++.|.++..|...+.+......+..+.....+...
T Consensus       237 v~~~l~~~~~~~dk~gd~~yd~isal~ksirgsd~daAl~~la~ml~~Gedp~~i~rrl~~~a~edig~a~p~a~~~~~~  316 (447)
T 3pvs_A          237 LTEIAGERSARFDNKGDRFYDLISALHKSVRGSAPDAALYWYARIITAGGDPLYVARRCLAIASEDVGNADPRAMQVAIA  316 (447)
T ss_dssp             HHHHHTCCCCC---CCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTGGGCTHHHHHHHH
T ss_pred             HHHHHhhhhhccCCccchHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCCChhHHHHHHH
Confidence            9999987642          344455544   789999999999999999999999999999987655555444444443


Q ss_pred             HHHHHHHhhCC-CChHHHHHHHHHHHH
Q psy17903        323 LAECNARLQDG-ASEYIQILDLGSIVI  348 (355)
Q Consensus       323 l~~~~~~l~~g-~~~~~~l~~~~~~~~  348 (355)
                      +..+-..  -| ..-++.|...+..++
T Consensus       317 ~~~~~~~--~g~pe~~~~l~~~~~~la  341 (447)
T 3pvs_A          317 AWDCFTR--VGPAEGERAIAQAIVYLA  341 (447)
T ss_dssp             HHHHHHH--SCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHH--hCCcHHHHHHHHHHHHHH
Confidence            3333333  46 366677777766665

>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=3.9e-34  Score=257.26  Aligned_cols=277  Identities=13%  Similarity=0.085  Sum_probs=223.1

Q ss_pred             ccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc-CCccccceeeecCCC-ccchHHHHHHHHHHHHhhcc
Q psy17903         49 EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF-GDMYRERILELNASD-DRGIQVIRDKVKTFAQQTAS  126 (355)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~-~~~~~~i~~~i~~~~~~~~~  126 (355)
                      ||+++++.|.+.+++++.+++|||||+|+|||++|+++++.+. +.....++.++++++ ..+++.+++.+..+...+..
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            7889999999999999855699999999999999999998743 111244778888875 68888999877766543322


Q ss_pred             CCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHH
Q psy17903        127 GFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQ  206 (355)
Q Consensus       127 ~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~  206 (355)
                               +++||+||||+|.|+.+++++|+++||+|+.+++||++|+++.++.++++||  .++|++++.+++..|+.
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                     2678999999999999999999999999999999999999999999999999  99999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH-------hhCCCCCCHHHHHHHhCCCChH--HHHHHHhc---
Q psy17903        207 YICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR-------LKGGEGIVNEDVLEVTGVIPNP--WIEKLLKV---  274 (355)
Q Consensus       207 ~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~-------~~~~~~It~~~v~~~~~~~~~~--~~~~l~~~---  274 (355)
                      +++     .++++++    ..+.||+|.+++.++....       +... .-+.++|..++....+.  .+++++++   
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            887     3666665    4578999999888853221       0000 11467777877776644  78999988   


Q ss_pred             CCHHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhC---CCChHHHHHHHHHHHHH
Q psy17903        275 DSFQVLEKYIEDLIL--EAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQD---GASEYIQILDLGSIVIK  349 (355)
Q Consensus       275 ~~~~~~~~~l~~l~~--~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~---g~~~~~~l~~~~~~~~~  349 (355)
                      ++...+...+++++.  .|+++.+++..+.+.+.....+.   +.+.++.++.+++++..   |.++.++|+.++.+++.
T Consensus       220 ~~~~~a~~~~~~l~~~~~g~~~~~~i~~~~r~l~~~~~~~---~~~~l~~~~~~~~~~~~k~~g~~~~lql~~l~~~~~~  296 (305)
T 2gno_A          220 VESKEFFALFDQVTNTITGKDAFLLIQRLTRIILHENTWE---SVEDQKSVSFLDSILRVKIANLNNKLTLMNILAIHRE  296 (305)
T ss_dssp             SCGGGHHHHHHHHHHHSCTHHHHHHHHHHHHHHHHTSCCC---SHHHHHHHHHHHHHHTCCGGGCCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHhhchhh---hHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHH
Confidence            999999999999998  89999888888888777543333   23456688888888888   89999999999999973

>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=100.00  E-value=5.9e-31  Score=240.82  Aligned_cols=284  Identities=17%  Similarity=0.160  Sum_probs=213.7

Q ss_pred             cccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc-------------------ccceeeecCC--
Q psy17903         48 IEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------------RERILELNAS--  105 (355)
Q Consensus        48 vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~~~~~--  105 (355)
                      -.+++..+.|.+.+++++.+| +||+||+|+|||++|+++++.+.+...                   ..++..+++.  
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            457888899999999999999 999999999999999999999986432                   1356677764  


Q ss_pred             -CccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccc
Q psy17903        106 -DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPL  184 (355)
Q Consensus       106 -~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l  184 (355)
                       ...+++.+++.+..+...+..         ++++|+||||+|.|+.+++++|+++||+++.+++||++|++++++.+++
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             456778888776654433221         2578999999999999999999999999999999999999999999999


Q ss_pred             cCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCC
Q psy17903        185 TSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIP  264 (355)
Q Consensus       185 ~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~  264 (355)
                      +|||..++|++++.+++.+|+..++     .+++++++.+++.++||+|.+++.++......  ..++.+.+..+.....
T Consensus       156 ~SRc~~~~~~~~~~~~~~~~L~~~~-----~~~~~~~~~l~~~s~G~~r~a~~~l~~~~~~~--~~~~~~~~~~~~~~~~  228 (334)
T 1a5t_A          156 RSRCRLHYLAPPPEQYAVTWLSREV-----TMSQDALLAALRLSAGSPGAALALFQGDNWQA--RETLCQALAYSVPSGD  228 (334)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHC-----CCCHHHHHHHHHHTTTCHHHHHHTTSSHHHHH--HHHHHHHHHHHHHHCC
T ss_pred             hhcceeeeCCCCCHHHHHHHHHHhc-----CCCHHHHHHHHHHcCCCHHHHHHHhccchHHH--HHHHHHHHHHHHhChH
Confidence            9999999999999999999999764     68899999999999999999999998654321  2344555555543111


Q ss_pred             hHHHHHHHhcCCHHHHHH----HHHHHHHcC-----CCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhh--CC
Q psy17903        265 NPWIEKLLKVDSFQVLEK----YIEDLILEA-----YSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQ--DG  333 (355)
Q Consensus       265 ~~~~~~l~~~~~~~~~~~----~l~~l~~~g-----~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~--~g  333 (355)
                      ...+.+.+...+...+..    ++++++...     +...+....+.+..   ..++...+.++++.+.+++.+++  .|
T Consensus       229 ~~~~~~~l~~~~~~~~l~~l~~~~rdll~~~~~~~~~~~~~~~~~~~~~a---~~~~~~~l~~~~~~l~~~~~~l~~~~~  305 (334)
T 1a5t_A          229 WYSLLAALNHEQAPARLHWLATLLMDALKRHHGAAQVTNVDVPGLVAELA---NHLSPSRLQAILGDVCHIREQLMSVTG  305 (334)
T ss_dssp             CGGGHHHHCSTTHHHHHHHHHHHHHHHTCC------CCCTTCHHHHHHHH---HHSCHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHHHHhccCCccccCHHHHHHHHHHH---HhCCHHHHHHHHHHHHHHHHHHHhcCC
Confidence            001112222234444333    333443221     11112223333322   24789999999999999999999  88


Q ss_pred             CChHHHHHHHHHHHHHH
Q psy17903        334 ASEYIQILDLGSIVIKA  350 (355)
Q Consensus       334 ~~~~~~l~~~~~~~~~~  350 (355)
                      .|..+++|.++.+++..
T Consensus       306 ~n~~l~le~ll~~l~~~  322 (334)
T 1a5t_A          306 INRELLITDLLLRIEHY  322 (334)
T ss_dssp             SSHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHh
Confidence            99999999999999764

>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=99.98  E-value=8.9e-31  Score=225.38  Aligned_cols=222  Identities=51%  Similarity=0.853  Sum_probs=194.6

Q ss_pred             CCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccch
Q psy17903         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (355)
Q Consensus        31 ~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  110 (355)
                      ...+|.++|+|..|++++|++..++.+.+++..+..++++|+||+|+|||++++.+++.+....+...++.+++....+.
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            34789999999999999999999999999999888778999999999999999999999876666667888888877777


Q ss_pred             HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeee
Q psy17903        111 QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSK  190 (355)
Q Consensus       111 ~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~  190 (355)
                      ..+...+..+.......       ..+..+|||||+|.+....++.|+.++++.+.++++|++++....+.+++.+|+..
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            76666666554331110       01456999999999999999999999999888899999999988899999999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhC
Q psy17903        191 FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG  261 (355)
Q Consensus       191 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~  261 (355)
                      +.|++++.+++..++...+...+..+++++++.+++.++||+|.+.+.++.++..+  +.||.++|+++++
T Consensus       156 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~l~~~l~~~~~~~--~~I~~~~v~~~~~  224 (226)
T 2chg_A          156 FRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIG--EVVDADTIYQITA  224 (226)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHHTC--SCBCHHHHHHHHH
T ss_pred             eecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcC--ceecHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999998865  7899999998875

>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=99.98  E-value=1.3e-31  Score=246.36  Aligned_cols=278  Identities=11%  Similarity=0.064  Sum_probs=229.7

Q ss_pred             HHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc-ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCC
Q psy17903         57 LKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKP  134 (355)
Q Consensus        57 l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~-~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~  134 (355)
                      +.+.++ ++.+| ||||||+|+||++.+..+++.+.+..+ ....+++++.  ..+   ++.+......+..+       
T Consensus         9 l~~~l~-~~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~--~~~---~~l~~~~~~~plf~-------   75 (343)
T 1jr3_D            9 LRAQLN-EGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDPN--TDW---NAIFSLCQAMSLFA-------   75 (343)
T ss_dssp             HHHHHH-HCCCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECCTT--CCH---HHHHHHHHHHHHCC-------
T ss_pred             HHHHHh-cCCCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEecCC--CCH---HHHHHHhcCcCCcc-------
Confidence            445566 45555 999999999999999999998764322 2234455532  233   44444443334332       


Q ss_pred             CCCcEEEEEeCCCC-CCHHHHHHHHHHhhhccCCccEEEEecCC------ccccccccCCeeeEEecCCCHHHHHHHHHH
Q psy17903        135 CPPFKIVILDEADS-MTHAAQAALRRTMEKETKSTRFCLICNYV------SCIIQPLTSRCSKFRFKPLAENTMLTRLQY  207 (355)
Q Consensus       135 ~~~~~vliiDe~d~-l~~~~~~~Ll~~le~~~~~~~~Il~~~~~------~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~  207 (355)
                        ++|+|+|||++. ++.+.+++|++++++++.+++||++++..      .++.+++.+||..++|.+++.+++..|++.
T Consensus        76 --~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~  153 (343)
T 1jr3_D           76 --SRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAA  153 (343)
T ss_dssp             --SCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHH
T ss_pred             --CCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHH
Confidence              678999999999 99999999999999999999999998763      458899999999999999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCChHHHHHHHhc---CCHHHHHHHH
Q psy17903        208 ICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---DSFQVLEKYI  284 (355)
Q Consensus       208 ~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~~~~~~~~l~~~---~~~~~~~~~l  284 (355)
                      +++++|+.+++++++.|++.++||+|.+.++|++++.+.+++.||.++|.+++.......+++++++   ++...+...+
T Consensus       154 ~~~~~g~~i~~~a~~~l~~~~~gdl~~~~~elekl~l~~~~~~It~e~V~~~~~~~~~~~if~l~~ai~~~d~~~al~~l  233 (343)
T 1jr3_D          154 RAKQLNLELDDAANQVLCYCYEGNLLALAQALERLSLLWPDGKLTLPRVEQAVNDAAHFTPFHWVDALLMGKSKRALHIL  233 (343)
T ss_dssp             HHHHTTCEECHHHHHHHHHSSTTCHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHCCCCHHHHHHHHTTSCHHHHHHHH
T ss_pred             HHHHcCCCCCHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999999999999999999999999999999876678999999999988877888999988   8899999999


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHh---------------------------------cCCCCHHHHHHHHHHHHHHHHHhh
Q psy17903        285 EDLILEAYSATQLFDQFHDIVMS---------------------------------ASSLSDKQKALILEKLAECNARLQ  331 (355)
Q Consensus       285 ~~l~~~g~~~~~i~~~l~~~~~~---------------------------------~~~~~~~~~~~i~~~l~~~~~~l~  331 (355)
                      ..+...|.++..++..+.++++.                                 .+.++...+.++++.+.++|..+|
T Consensus       234 ~~l~~~g~~~~~il~~l~~~~r~l~~~~~~~~~g~~~~i~~~l~i~~~~~~~~~~~~~~~s~~~L~~~l~~l~~~d~~lK  313 (343)
T 1jr3_D          234 QQLRLEGSEPVILLRTLQRELLLLVNLKRQSAHTPLRALFDKHRVWQNRRGMMGEALNRLSQTQLRQAVQLLTRTELTLK  313 (343)
T ss_dssp             TSSTTTTCCHHHHHHHHHHHHHHHHHHHTCSSSSCHHHHHHHHTCCSSHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCcHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHh
Confidence            98888899888888776655542                                 124667778889999999999999


Q ss_pred             CCC--ChHHHHHHHHHHHHH
Q psy17903        332 DGA--SEYIQILDLGSIVIK  349 (355)
Q Consensus       332 ~g~--~~~~~l~~~~~~~~~  349 (355)
                      +|.  +.++.||.++.+++.
T Consensus       314 ~~~~~~~~~~le~l~l~l~~  333 (343)
T 1jr3_D          314 QDYGQSVWAELEGLSLLLCH  333 (343)
T ss_dssp             HSSCSCHHHHHHHHHHHTTS
T ss_pred             CCCCCCHHHHHHHHHHHHcC
Confidence            983  678999999999863

>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=99.97  E-value=9.9e-29  Score=215.37  Aligned_cols=222  Identities=23%  Similarity=0.357  Sum_probs=180.1

Q ss_pred             CCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccc------------
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYR------------   96 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~------------   96 (355)
                      ....+|.++|+|..|++++|++..++.|..++..+..++ ++|+||+|+|||++++.+++.+......            
T Consensus         8 ~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (250)
T 1njg_A            8 MSYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCR   87 (250)
T ss_dssp             ---CCHHHHTCCCSGGGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHH
T ss_pred             hHHHHHhhccCCccHHHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHH
Confidence            346789999999999999999999999999999887766 9999999999999999999988643210            


Q ss_pred             -------cceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCcc
Q psy17903         97 -------ERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTR  169 (355)
Q Consensus        97 -------~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~  169 (355)
                             ..++.++.......+.+...+..+...     ...    .+..+|||||+|.+..+.++.|++.+++.+..++
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~  158 (250)
T 1njg_A           88 EIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYA-----PAR----GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVK  158 (250)
T ss_dssp             HHHTTCCSSEEEEETTCGGGHHHHHHHHHSCCCS-----CSS----SSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEE
T ss_pred             HHhccCCcceEEecCcccccHHHHHHHHHHhhhc-----hhc----CCceEEEEECcccccHHHHHHHHHHHhcCCCceE
Confidence                   123444444333333333332221100     001    1456999999999999999999999998888899


Q ss_pred             EEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCC
Q psy17903        170 FCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGE  249 (355)
Q Consensus       170 ~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~  249 (355)
                      +|++++....+.+++.+|+..++|++++.+++.+++..++...+..+++++++.+++.++|++|.+.+.++.+..++ .+
T Consensus       159 ~i~~t~~~~~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~~~~~~~~~~~~~~~-~~  237 (250)
T 1njg_A          159 FLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASG-DG  237 (250)
T ss_dssp             EEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHTTT-TS
T ss_pred             EEEEeCChHhCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcc-Cc
Confidence            99999998888899999999999999999999999999999999999999999999999999999999999987664 45


Q ss_pred             CCCHHHHHHHhC
Q psy17903        250 GIVNEDVLEVTG  261 (355)
Q Consensus       250 ~It~~~v~~~~~  261 (355)
                      .||.++++++++
T Consensus       238 ~i~~~~v~~~~~  249 (250)
T 1njg_A          238 QVSTQAVSAMLG  249 (250)
T ss_dssp             SBCHHHHHHHSC
T ss_pred             eecHHHHHHHhC
Confidence            899999998865

>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=99.96  E-value=6.7e-28  Score=232.81  Aligned_cols=226  Identities=27%  Similarity=0.423  Sum_probs=172.1

Q ss_pred             CCCCCCCccccccCCCCCCcccccHHHHHHHHHHHhcC-----------------CCCeEEEECCCCCCHHHHHHHHHHH
Q psy17903         27 KTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGA-----------------DLPHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        27 ~~~~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~-----------------~~~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .......+|++||+|.+|++++|++.+++.|.+++...                 ..+++||+||||+|||++|+++++.
T Consensus        21 ~~~~~~~lW~ekyrP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~  100 (516)
T 1sxj_A           21 PHMASDKLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQE  100 (516)
T ss_dssp             -----CCCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCccCCCcccccCCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            33456689999999999999999999999999998751                 2345999999999999999999999


Q ss_pred             hcCCccccceeeecCCCccchHHHHHHHHHHHHhh-ccCCCCCC----CCCCCcEEEEEeCCCCCCHHHH---HHHHHHh
Q psy17903         90 LFGDMYRERILELNASDDRGIQVIRDKVKTFAQQT-ASGFNQDG----KPCPPFKIVILDEADSMTHAAQ---AALRRTM  161 (355)
Q Consensus        90 l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~-~~~~~~~~----~~~~~~~vliiDe~d~l~~~~~---~~Ll~~l  161 (355)
                      +     +..++++++++......+...+....... ........    .......+|||||+|.+....+   +.|+.++
T Consensus       101 l-----~~~~i~in~s~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l  175 (516)
T 1sxj_A          101 L-----GYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFC  175 (516)
T ss_dssp             T-----TCEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHH
T ss_pred             c-----CCCEEEEeCCCcchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHH
Confidence            8     45788999988766554443332221110 00000000    0112557999999999976544   7788888


Q ss_pred             hhccCCccEEEEecCCc-cccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q psy17903        162 EKETKSTRFCLICNYVS-CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ  240 (355)
Q Consensus       162 e~~~~~~~~Il~~~~~~-~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~  240 (355)
                      +...  ..+|++++... ..++++.+||..+.|++|+.+++..++..++..+++.+++++++.|++.++||+|.+++.|+
T Consensus       176 ~~~~--~~iIli~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~~~l~~la~~s~GdiR~~i~~L~  253 (516)
T 1sxj_A          176 RKTS--TPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLS  253 (516)
T ss_dssp             HHCS--SCEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTTCHHHHHHHHT
T ss_pred             HhcC--CCEEEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHH
Confidence            8643  44666676543 45577999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhCCCCCCHHHHHHHhC
Q psy17903        241 SCARLKGGEGIVNEDVLEVTG  261 (355)
Q Consensus       241 ~~~~~~~~~~It~~~v~~~~~  261 (355)
                      .++.  +++.|+.+++.+++.
T Consensus       254 ~~~~--~~~~It~~~v~~~~~  272 (516)
T 1sxj_A          254 TIST--TTKTINHENINEISK  272 (516)
T ss_dssp             HHHH--HSSCCCTTHHHHHHH
T ss_pred             HHHh--cCCCCchHHHHHHHH
Confidence            8775  446799999887764

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.95  E-value=1.6e-26  Score=212.03  Aligned_cols=212  Identities=20%  Similarity=0.224  Sum_probs=168.2

Q ss_pred             CCCCCccccccCCCCCCcccccHHHHHHHHHHHhc-----CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeec
Q psy17903         29 RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (355)
Q Consensus        29 ~~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~  103 (355)
                      ......|.++|+|.+|++++|++.++..+..++..     ...+++||+||+|||||++|+++++.+     ...++.++
T Consensus        13 ~~~~~~~~~~~~p~~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~-----~~~~~~~~   87 (338)
T 3pfi_A           13 YSFDETYETSLRPSNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEM-----SANIKTTA   87 (338)
T ss_dssp             ----------CCCCSGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHT-----TCCEEEEE
T ss_pred             cchhhhhhhccCCCCHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHh-----CCCeEEec
Confidence            35667999999999999999999999999988864     334459999999999999999999997     34567777


Q ss_pred             CCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccC-----------------
Q psy17903        104 ASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK-----------------  166 (355)
Q Consensus       104 ~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~-----------------  166 (355)
                      +........+...+...               ++..+|||||++.+..+.++.|+..+++...                 
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            76554444444333220               1335999999999999999999999987531                 


Q ss_pred             -CccEEEEecCCccccccccCCe-eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        167 -STRFCLICNYVSCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       167 -~~~~Il~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                       .+++|++||....+.+++++|+ ..++|++|+.+++..++...+...+..+++++++.+++.++||+|.+.+.++.+..
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             2678889999888999999999 69999999999999999999999999999999999999999999999999998755


Q ss_pred             hh---CCCCCCHHHHHHHh
Q psy17903        245 LK---GGEGIVNEDVLEVT  260 (355)
Q Consensus       245 ~~---~~~~It~~~v~~~~  260 (355)
                      ++   +...|+.+++..++
T Consensus       233 ~a~~~~~~~i~~~~~~~~~  251 (338)
T 3pfi_A          233 FADVNDEEIITEKRANEAL  251 (338)
T ss_dssp             HHHHTTCSEECHHHHHHHH
T ss_pred             HHHhhcCCccCHHHHHHHH
Confidence            44   45679999988765

>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=99.94  E-value=4.8e-25  Score=200.86  Aligned_cols=208  Identities=22%  Similarity=0.227  Sum_probs=168.2

Q ss_pred             ccccccCCCCCCcccccHHHHHHHHHHHhc-----CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc
Q psy17903         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (355)
Q Consensus        34 ~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  108 (355)
                      +|.++|+|.+|++++|++..+..+..++..     ....+++|+||+|+|||++|+++++.+.     ..++.+++....
T Consensus         1 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~-----~~~~~~~~~~~~   75 (324)
T 1hqc_A            1 MEDLALRPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG-----VNLRVTSGPAIE   75 (324)
T ss_dssp             ----CCCCCSTTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHT-----CCEEEECTTTCC
T ss_pred             CCccccCcccHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhC-----CCEEEEeccccC
Confidence            467899999999999999999988888753     2334599999999999999999999983     356677776654


Q ss_pred             chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc------------------CCccE
Q psy17903        109 GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET------------------KSTRF  170 (355)
Q Consensus       109 ~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~------------------~~~~~  170 (355)
                      ....+...+..    .   .       ++..+|||||++.+....++.|+..+++..                  ..+++
T Consensus        76 ~~~~l~~~l~~----~---~-------~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~  141 (324)
T 1hqc_A           76 KPGDLAAILAN----S---L-------EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTL  141 (324)
T ss_dssp             SHHHHHHHHTT----T---C-------CTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEE
T ss_pred             ChHHHHHHHHH----h---c-------cCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEE
Confidence            44443332221    0   0       134599999999999999999999998753                  34678


Q ss_pred             EEEecCCccccccccCCe-eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---
Q psy17903        171 CLICNYVSCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK---  246 (355)
Q Consensus       171 Il~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~---  246 (355)
                      |+++|....+.+++.+|+ ..+.|.+|+.+++..++...+...+..+++++++.++..++|++|.+.+.++.+..++   
T Consensus       142 i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~a~~~  221 (324)
T 1hqc_A          142 IGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVA  221 (324)
T ss_dssp             EEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHSCSCHHHHHHHHHHHTTTSTTT
T ss_pred             EEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHh
Confidence            999998888999999999 5899999999999999999999889999999999999999999999999999887665   


Q ss_pred             CCCCCCHHHHHHHh
Q psy17903        247 GGEGIVNEDVLEVT  260 (355)
Q Consensus       247 ~~~~It~~~v~~~~  260 (355)
                      +...|+.+++..++
T Consensus       222 ~~~~i~~~~~~~~~  235 (324)
T 1hqc_A          222 GEEVITRERALEAL  235 (324)
T ss_dssp             SCSCCCHHHHHHHH
T ss_pred             cCCCCCHHHHHHHH
Confidence            35579999887765

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.94  E-value=4.5e-25  Score=204.64  Aligned_cols=226  Identities=18%  Similarity=0.242  Sum_probs=171.0

Q ss_pred             CCCCCccccccCCCC-CCcccccHHHHHH---HHHHHhcCCCC--eEEEECCCCCCHHHHHHHHHHHhcCCccccceeee
Q psy17903         29 RNKPVPWVEKYRPKT-IDDVIEQQEVVSV---LKKCLSGADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILEL  102 (355)
Q Consensus        29 ~~~~~~~~~k~~p~~-~~~~vg~~~~~~~---l~~~l~~~~~~--~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~  102 (355)
                      ......+.++++|.. |++++|++.++..   +.+.+..+..+  ++||+||||+|||++|+++++.+....   +++.+
T Consensus        27 ~~~~l~l~~~~~p~~~~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~---~~~~~  103 (368)
T 3uk6_A           27 HIRGLGLDDALEPRQASQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDT---PFTAI  103 (368)
T ss_dssp             TCCSCCBCTTSCBCSEETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSC---CEEEE
T ss_pred             hhhccCcccccCcCcchhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccC---Ccccc
Confidence            445678889999998 9999999998766   55666777665  599999999999999999999986421   23333


Q ss_pred             cCCCc--------------------------------------------------cc-----hHHHHHHHHHHHHhhccC
Q psy17903        103 NASDD--------------------------------------------------RG-----IQVIRDKVKTFAQQTASG  127 (355)
Q Consensus       103 ~~~~~--------------------------------------------------~~-----~~~i~~~i~~~~~~~~~~  127 (355)
                      ++...                                                  .+     ...++..+..+.......
T Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~  183 (368)
T 3uk6_A          104 AGSEIFSLEMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREE  183 (368)
T ss_dssp             EGGGGSCSSSCHHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhhcccchhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhh
Confidence            32110                                                  00     223333333322211100


Q ss_pred             CCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEec------------CCccccccccCCeeeEEecC
Q psy17903        128 FNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN------------YVSCIIQPLTSRCSKFRFKP  195 (355)
Q Consensus       128 ~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~------------~~~~l~~~l~sr~~~i~~~~  195 (355)
                          +.......+|||||+|.+..+.++.|++.++++...+ ++++++            .+..+.+++++||..+.|++
T Consensus       184 ----g~~~~~~~vl~IDEi~~l~~~~~~~L~~~le~~~~~~-~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~  258 (368)
T 3uk6_A          184 ----GKAEIIPGVLFIDEVHMLDIESFSFLNRALESDMAPV-LIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTP  258 (368)
T ss_dssp             ----TC---CBCEEEEESGGGSBHHHHHHHHHHTTCTTCCE-EEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECC
T ss_pred             ----ccccccCceEEEhhccccChHHHHHHHHHhhCcCCCe-eeeecccceeeeeccCCCCcccCCHHHHhhccEEEecC
Confidence                0000012399999999999999999999999877654 444554            24567899999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC-CCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCC
Q psy17903        196 LAENTMLTRLQYICEQESVMCDFKALETLVETSG-GDMRRAITCLQSCARLK---GGEGIVNEDVLEVTGV  262 (355)
Q Consensus       196 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~-g~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~~  262 (355)
                      |+.+++..+++.++...+..+++++++.+++.+. ||+|.+.+.++.+..++   +...||.++|.+++..
T Consensus       259 ~~~~e~~~il~~~~~~~~~~~~~~~l~~l~~~~~~G~~r~~~~ll~~a~~~A~~~~~~~It~~~v~~a~~~  329 (368)
T 3uk6_A          259 YSEKDTKQILRIRCEEEDVEMSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYSL  329 (368)
T ss_dssp             CCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Confidence            9999999999999999999999999999999998 99999999999987765   5678999999988764

>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=99.91  E-value=1.8e-23  Score=198.98  Aligned_cols=124  Identities=19%  Similarity=0.209  Sum_probs=111.8

Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEe---------cC----CccccccccCCeeeEEecCCCHHHHHHHH
Q psy17903        139 KIVILDEADSMTHAAQAALRRTMEKETKSTRFCLIC---------NY----VSCIIQPLTSRCSKFRFKPLAENTMLTRL  205 (355)
Q Consensus       139 ~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~---------~~----~~~l~~~l~sr~~~i~~~~~~~~~~~~~l  205 (355)
                      +|+||||+|.|+.++++.|++.||+++.. +||+++         .+    +..+.++++|||..++|++++.+++.+++
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            59999999999999999999999999888 678787         33    66788999999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCCC
Q psy17903        206 QYICEQESVMCDFKALETLVETS-GGDMRRAITCLQSCARLK---GGEGIVNEDVLEVTGVI  263 (355)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~~~  263 (355)
                      +.++..+++.++++++..++..+ .|++|.+++.++.+..++   +...|+.++|.+++...
T Consensus       376 ~~~~~~~~~~~~~~~~~~i~~~a~~g~~r~a~~ll~~a~~~A~~~~~~~v~~~~v~~~~~~~  437 (456)
T 2c9o_A          376 KIRAQTEGINISEEALNHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELF  437 (456)
T ss_dssp             HHHHHHHTCCBCHHHHHHHHHHHHHSCHHHHHHTHHHHHHHHHHTTCSSBCHHHHHHHHHHS
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHccCCCHHHHHHHHHHHHHHHhhcCCCccCHHHHHHHHHHh
Confidence            99999999999999999999999 999999999999885554   66789999999887544

>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=99.91  E-value=1.3e-23  Score=182.90  Aligned_cols=213  Identities=15%  Similarity=0.227  Sum_probs=165.2

Q ss_pred             CCCCccccccCC-CCCCcccc---cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC
Q psy17903         30 NKPVPWVEKYRP-KTIDDVIE---QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (355)
Q Consensus        30 ~~~~~~~~k~~p-~~~~~~vg---~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  105 (355)
                      ..+.+|..+|+| .+|+++++   +..++..+..++..+...+++|+||+|+|||++++++++.+....  ..++.+++.
T Consensus        12 ~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~--~~~~~~~~~   89 (242)
T 3bos_A           12 PLQLSLPVHLPDDETFTSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANELE--RRSFYIPLG   89 (242)
T ss_dssp             -CCCEEECCCCTTCSTTTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEEGG
T ss_pred             hhhcCCCCCCCCCCChhhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEEHH
Confidence            457899999999 68999997   357888999998876666799999999999999999999986542  245555554


Q ss_pred             CccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHH--HHHHHHHhhhccC-Cc-cEEEEecCCc---
Q psy17903        106 DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA--QAALRRTMEKETK-ST-RFCLICNYVS---  178 (355)
Q Consensus       106 ~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~--~~~Ll~~le~~~~-~~-~~Il~~~~~~---  178 (355)
                      +....  +...+..+               ....+|||||++.+....  ++.|+.+++.... .. .+|++++...   
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            32110  00000000               023499999999997655  7888888775432 22 4777777433   


Q ss_pred             -cccccccCCe---eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCC
Q psy17903        179 -CIIQPLTSRC---SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIV  252 (355)
Q Consensus       179 -~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~~~~It  252 (355)
                       ...+.+.+|+   ..+.|++|+.+++.+++...+...++.+++++++.+++.++||+|.+.+.++++..++  .+..||
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             3458899999   7999999999999999999999999999999999999999999999999999988776  456799


Q ss_pred             HHHHHHHhC
Q psy17903        253 NEDVLEVTG  261 (355)
Q Consensus       253 ~~~v~~~~~  261 (355)
                      .+++.+++.
T Consensus       233 ~~~v~~~l~  241 (242)
T 3bos_A          233 IPFVKEMLR  241 (242)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHhh
Confidence            999998764

>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=99.91  E-value=1.1e-22  Score=185.78  Aligned_cols=209  Identities=21%  Similarity=0.228  Sum_probs=162.3

Q ss_pred             ccccccCCCCCCcccccHHHHHHHHHHHhcC-----CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc
Q psy17903         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGA-----DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (355)
Q Consensus        34 ~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~-----~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  108 (355)
                      +|.++++|++|++++|++.+++.+...+..+     ...+++|+||+|+||||+++++++.+...     +...++....
T Consensus        14 ~~~~~lr~~~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~-----~~~~sg~~~~   88 (334)
T 1in4_A           14 SGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTN-----IHVTSGPVLV   88 (334)
T ss_dssp             ---CTTSCSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCC-----EEEEETTTCC
T ss_pred             HHHHHcCCccHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC-----EEEEechHhc
Confidence            6899999999999999999999988887643     33569999999999999999999998432     2233333322


Q ss_pred             chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc------------------CCccE
Q psy17903        109 GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET------------------KSTRF  170 (355)
Q Consensus       109 ~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~------------------~~~~~  170 (355)
                      ....+......   .  .          ..++++|||++.+.+..++.|+..++...                  ..+.+
T Consensus        89 ~~~~l~~~~~~---~--~----------~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~l  153 (334)
T 1in4_A           89 KQGDMAAILTS---L--E----------RGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  153 (334)
T ss_dssp             SHHHHHHHHHH---C--C----------TTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             CHHHHHHHHHH---c--c----------CCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEE
Confidence            22333222211   0  0          23499999999999888888887776432                  12456


Q ss_pred             EEEecCCccccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---
Q psy17903        171 CLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK---  246 (355)
Q Consensus       171 Il~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~---  246 (355)
                      +.+++.+..+.+++++||. .+.|.+++.+++.+++++.++..++.++++++..+++.+.|++|.+.+.|+.+..++   
T Consensus       154 i~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a~~~  233 (334)
T 1in4_A          154 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVV  233 (334)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHH
T ss_pred             EEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHc
Confidence            6778888889999999996 688999999999999999999889999999999999999999999999999876555   


Q ss_pred             CCCCCCHHHHHHHhCC
Q psy17903        247 GGEGIVNEDVLEVTGV  262 (355)
Q Consensus       247 ~~~~It~~~v~~~~~~  262 (355)
                      +.+.||.+++.+++..
T Consensus       234 ~~~~It~~~v~~al~~  249 (334)
T 1in4_A          234 KADRINTDIVLKTMEV  249 (334)
T ss_dssp             TCSSBCHHHHHHHHHH
T ss_pred             CCCCcCHHHHHHHHHH
Confidence            4568999999887753

>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=99.90  E-value=1e-21  Score=183.09  Aligned_cols=291  Identities=15%  Similarity=0.137  Sum_probs=198.6

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhc----CCCC--eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG----ADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~----~~~~--~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  105 (355)
                      ..+|..+|+|   ++++|++..++.+..++..    ....  +++|+||+|+|||++++.+++.+.... ...++.+++.
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            4578889998   6799999999988888764    2323  699999999999999999999985542 3467788876


Q ss_pred             CccchHH-HHHHHHHHHHhhccCCCCCC-----------CCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc----CCcc
Q psy17903        106 DDRGIQV-IRDKVKTFAQQTASGFNQDG-----------KPCPPFKIVILDEADSMTHAAQAALRRTMEKET----KSTR  169 (355)
Q Consensus       106 ~~~~~~~-i~~~i~~~~~~~~~~~~~~~-----------~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~----~~~~  169 (355)
                      ....... +......+.. .........           ....+..+|||||+|.+..+.+..|++.+++.+    .++.
T Consensus        83 ~~~~~~~~~~~l~~~l~~-~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~  161 (389)
T 1fnn_A           83 IYRNFTAIIGEIARSLNI-PFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIA  161 (389)
T ss_dssp             TCCSHHHHHHHHHHHTTC-CCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEE
T ss_pred             cCCCHHHHHHHHHHHhCc-cCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEE
Confidence            5443322 2221111100 000000000           000134599999999999999999999998654    4788


Q ss_pred             EEEEecCC---ccccccccCCee--eEEecCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHc---------CCCHH
Q psy17903        170 FCLICNYV---SCIIQPLTSRCS--KFRFKPLAENTMLTRLQYICEQE--SVMCDFKALETLVETS---------GGDMR  233 (355)
Q Consensus       170 ~Il~~~~~---~~l~~~l~sr~~--~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~~~l~~~~---------~g~~r  233 (355)
                      +|++++..   ..+.+.+.+|+.  .+.|++++.+++.+++...+...  ...+++++++.+++.+         +||+|
T Consensus       162 iI~~~~~~~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r  241 (389)
T 1fnn_A          162 LVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDAR  241 (389)
T ss_dssp             EEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHH
T ss_pred             EEEEECCchHHHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHH
Confidence            88888876   567788888877  69999999999999999998762  3478999999999999         89999


Q ss_pred             HHHHHHHHHHHhh---CCCCCCHHHHHHHhCCCChHHHHHHHhc--CCHHHHHHHHHHHH--HcC--CCHHHHHHHHHHH
Q psy17903        234 RAITCLQSCARLK---GGEGIVNEDVLEVTGVIPNPWIEKLLKV--DSFQVLEKYIEDLI--LEA--YSATQLFDQFHDI  304 (355)
Q Consensus       234 ~~~~~l~~~~~~~---~~~~It~~~v~~~~~~~~~~~~~~l~~~--~~~~~~~~~l~~l~--~~g--~~~~~i~~~l~~~  304 (355)
                      .+++.++.+...+   +...|+.+++.++........+.+.++.  .+...+...+..+.  ..|  .+...++..+...
T Consensus       242 ~~~~~l~~a~~~a~~~~~~~i~~~~v~~~~~~~~~~~~~~~l~~l~~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~  321 (389)
T 1fnn_A          242 LAIDILYRSAYAAQQNGRKHIAPEDVRKSSKEVLFGISEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIV  321 (389)
T ss_dssp             HHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHSCCCCHHHHHHSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHhhhhHHHHHHcCCHHHHHHHHHHHHHHhhccCCCccHHHHHHHHHHH
Confidence            9999999887665   4567999999877654433333444443  22233333344443  233  4556666666655


Q ss_pred             HHhc--CCCCHHHHHHHHHHHHHHH
Q psy17903        305 VMSA--SSLSDKQKALILEKLAECN  327 (355)
Q Consensus       305 ~~~~--~~~~~~~~~~i~~~l~~~~  327 (355)
                      +...  ..++.....++++.|....
T Consensus       322 ~~~~~~~~~~~~~~~~~l~~L~~~g  346 (389)
T 1fnn_A          322 CEEYGERPRVHSQLWSYLNDLREKG  346 (389)
T ss_dssp             HHHTTCCCCCHHHHHHHHHHHHHTT
T ss_pred             HHHcCCCCCCHHHHHHHHHHHHhCC
Confidence            5432  2345666666666666544

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.89  E-value=3.4e-22  Score=186.11  Aligned_cols=230  Identities=18%  Similarity=0.225  Sum_probs=166.6

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhc----CCCCeEEEECCCCCCHHHHHHHHHHHhcCC----ccccceeeecC
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG----ADLPHFLFYGPPGTGKTSTMIAACHQLFGD----MYRERILELNA  104 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~----~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~----~~~~~~~~~~~  104 (355)
                      .+|..+|.|   ++++|++..++.+..++..    +...+++|+||+|+|||++++.+++.+...    ..+..++.+++
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            456667777   6799999999999998854    344459999999999999999999987432    11346778887


Q ss_pred             CCccchHHHHHH-HHH------------------HHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH--HHHHHHHHhhh
Q psy17903        105 SDDRGIQVIRDK-VKT------------------FAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--AQAALRRTMEK  163 (355)
Q Consensus       105 ~~~~~~~~i~~~-i~~------------------~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~--~~~~Ll~~le~  163 (355)
                      ........+... +..                  +....    ...    ....+|||||+|.+...  .++.|..+++.
T Consensus        87 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l----~~~----~~~~vlilDEi~~l~~~~~~~~~l~~l~~~  158 (387)
T 2v1u_A           87 RHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRL----SRL----RGIYIIVLDEIDFLPKRPGGQDLLYRITRI  158 (387)
T ss_dssp             TTSCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHH----TTS----CSEEEEEEETTTHHHHSTTHHHHHHHHHHG
T ss_pred             CcCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHH----hcc----CCeEEEEEccHhhhcccCCCChHHHhHhhc
Confidence            664433222111 111                  10000    000    13459999999999776  66777666654


Q ss_pred             c-----cCCccEEEEecCC---ccccccccCCe--eeEEecCCCHHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHcC--
Q psy17903        164 E-----TKSTRFCLICNYV---SCIIQPLTSRC--SKFRFKPLAENTMLTRLQYICEQ--ESVMCDFKALETLVETSG--  229 (355)
Q Consensus       164 ~-----~~~~~~Il~~~~~---~~l~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~~~~l~~~~~--  229 (355)
                      .     ...+++|++++..   ..+.+++.+|+  ..+.|++++.+++..++...+..  .+..+++++++.+++.++  
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     4567888888876   56788899998  68999999999999999999876  567789999999999998  


Q ss_pred             -CCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCCCChHHHHHHHh
Q psy17903        230 -GDMRRAITCLQSCARLK---GGEGIVNEDVLEVTGVIPNPWIEKLLK  273 (355)
Q Consensus       230 -g~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~~~~~~~~~~l~~  273 (355)
                       ||+|.+++.++.+...+   +...|+.+++.+++.........+.+.
T Consensus       239 ~G~~r~~~~~l~~a~~~a~~~~~~~i~~~~v~~a~~~~~~~~~~~~~~  286 (387)
T 2v1u_A          239 HGDARRALDLLRVAGEIAERRREERVRREHVYSARAEIERDRVSEVVR  286 (387)
T ss_dssp             SCCHHHHHHHHHHHHHHHHHTTCSCBCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHhhchHHHHHH
Confidence             99999999999887765   456799999998876553333333333

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.89  E-value=1e-21  Score=183.35  Aligned_cols=210  Identities=18%  Similarity=0.165  Sum_probs=156.7

Q ss_pred             ccccccCCCCCCcccccHHHHHHHHHHHhc------------CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceee
Q psy17903         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSG------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILE  101 (355)
Q Consensus        34 ~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~------------~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~  101 (355)
                      .|.++|+|.+|++++|++.+++.|..++..            ....++||+||||||||++|+++++.+     +..++.
T Consensus       104 ~~~~~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~-----~~~~~~  178 (389)
T 3vfd_A          104 EIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAES-----NATFFN  178 (389)
T ss_dssp             TTBCCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHT-----TCEEEE
T ss_pred             hhhccCCCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhh-----cCcEEE
Confidence            699999999999999999999999988721            123459999999999999999999997     456788


Q ss_pred             ecCCCccch------HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC-----------HHHHHHHHHHhhhc
Q psy17903        102 LNASDDRGI------QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT-----------HAAQAALRRTMEKE  164 (355)
Q Consensus       102 ~~~~~~~~~------~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~-----------~~~~~~Ll~~le~~  164 (355)
                      +++.+..+.      ..+...+......             ...+|||||+|.+.           ...++.|+..++..
T Consensus       179 v~~~~l~~~~~g~~~~~~~~~~~~a~~~-------------~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~  245 (389)
T 3vfd_A          179 ISAASLTSKYVGEGEKLVRALFAVAREL-------------QPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGV  245 (389)
T ss_dssp             ECSCCC-------CHHHHHHHHHHHHHS-------------SSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHH
T ss_pred             eeHHHhhccccchHHHHHHHHHHHHHhc-------------CCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcc
Confidence            888764321      1222222222211             22499999999883           33456677777643


Q ss_pred             ----cCCccEEEEecCCccccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q psy17903        165 ----TKSTRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL  239 (355)
Q Consensus       165 ----~~~~~~Il~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l  239 (355)
                          ...+++|++||.+..+.+++.+||. .+.|+.|+.++...+++.++...+..++++.+..++..+.|..+..++.|
T Consensus       246 ~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~~~~la~~~~g~~~~~l~~L  325 (389)
T 3vfd_A          246 QSAGDDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTAL  325 (389)
T ss_dssp             C-----CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCCSCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             cccCCCCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHH
Confidence                3467888899999999999999996 79999999999999999999999999999999999999999877666555


Q ss_pred             HHHHH-hh---------------CCCCCCHHHHHHHhC
Q psy17903        240 QSCAR-LK---------------GGEGIVNEDVLEVTG  261 (355)
Q Consensus       240 ~~~~~-~~---------------~~~~It~~~v~~~~~  261 (355)
                      ...+. .+               ....|+.+++..++.
T Consensus       326 ~~~a~~~~~rel~~~~~~~~~~~~~~~i~~~d~~~al~  363 (389)
T 3vfd_A          326 AKDAALGPIRELKPEQVKNMSASEMRNIRLSDFTESLK  363 (389)
T ss_dssp             HHHHTTHHHHTSCCC---CCSSSCCCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhhhhhccchhhcCCcCHHHHHHHHH
Confidence            43332 21               123567777766554

>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=99.88  E-value=1.9e-21  Score=181.09  Aligned_cols=291  Identities=16%  Similarity=0.122  Sum_probs=186.8

Q ss_pred             CCCccccccCCCCCCcccccHHHHHHHHHHHh----cCCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-----c-cccee
Q psy17903         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLS----GADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----Y-RERIL  100 (355)
Q Consensus        31 ~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~----~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-----~-~~~~~  100 (355)
                      ...+|..+|+|   ++++|++..++.+..++.    .+..++++|+||+|+|||++++.+++.+....     . ...++
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            35688999998   679999999988886664    33344599999999999999999999874321     1 45677


Q ss_pred             eecCCCcc-chHH-HHHHHHHHHHhhccCCCCCC---------CCCCCcEEEEEeCCCCCCHHH-HHH-HHHHhhhccCC
Q psy17903        101 ELNASDDR-GIQV-IRDKVKTFAQQTASGFNQDG---------KPCPPFKIVILDEADSMTHAA-QAA-LRRTMEKETKS  167 (355)
Q Consensus       101 ~~~~~~~~-~~~~-i~~~i~~~~~~~~~~~~~~~---------~~~~~~~vliiDe~d~l~~~~-~~~-Ll~~le~~~~~  167 (355)
                      .+++.... .... +...+..+............         .......+|||||+|.+.... ++. +..+++.. .+
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            78765433 2221 22222221100000000000         000012399999999986542 445 44455444 67


Q ss_pred             ccEEEEecCC---ccccccccCCe-eeEEecCCCHHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHcC---CCHHHHHHH
Q psy17903        168 TRFCLICNYV---SCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQ--ESVMCDFKALETLVETSG---GDMRRAITC  238 (355)
Q Consensus       168 ~~~Il~~~~~---~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~~~~l~~~~~---g~~r~~~~~  238 (355)
                      +++|++++..   ..+.+++.+|+ ..+.|++++.+++..++..++..  .+..+++++++.+++.++   ||+|.+++.
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            8889999876   56788888884 69999999999999999999875  456789999999999988   999999999


Q ss_pred             HHHHHHhhC-CCCCCHHHHHHHhCCCChHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc--CCCCHHH
Q psy17903        239 LQSCARLKG-GEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSA--SSLSDKQ  315 (355)
Q Consensus       239 l~~~~~~~~-~~~It~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~--~~~~~~~  315 (355)
                      ++.+...+. ...|+.+++.+++.........+.++.-+ ...+.++..+.. +....++...+...+...  ...+...
T Consensus       245 l~~a~~~a~~~~~i~~~~v~~~~~~~~~~~~~~~~~~l~-~~~~~~l~al~~-~~~~~~~~~~~~~~~~~~g~~~~~~~~  322 (384)
T 2qby_B          245 LFRAAQLASGGGIIRKEHVDKAIVDYEQERLIEAVKALP-FHYKLALRSLIE-SEDVMSAHKMYTDLCNKFKQKPLSYRR  322 (384)
T ss_dssp             HHHHHHHTTSSSCCCHHHHHHHHHHHHHHHHHHHHHSSC-HHHHHHHHHHHT-CCBHHHHHHHHHHHHHHTTCCCCCHHH
T ss_pred             HHHHHHHhcCCCccCHHHHHHHHHHHhcchHHHHHHcCC-HHHHHHHHHHHH-hcccChHHHHHHHHHHHcCCCCCCHHH
Confidence            999887764 36799999998876654444444443222 333344444443 222123333333333321  2345555


Q ss_pred             HHHHHHHHHHHH
Q psy17903        316 KALILEKLAECN  327 (355)
Q Consensus       316 ~~~i~~~l~~~~  327 (355)
                      ..++++.|....
T Consensus       323 ~~~~l~~L~~~g  334 (384)
T 2qby_B          323 FSDIISELDMFG  334 (384)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCC
Confidence            555555555443

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.88  E-value=6.5e-21  Score=174.85  Aligned_cols=213  Identities=19%  Similarity=0.256  Sum_probs=150.3

Q ss_pred             CCCCccccccCCCCCCcccccHHHHHHHHHHHhc-----------C-CCCe-EEEECCCCCCHHHHHHHHHHHhcCCccc
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------A-DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYR   96 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----------~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~   96 (355)
                      .-..+..++-...+|+++.|.+++++.|++.+.-           | ..|. +|||||||||||.+|+++|+++     +
T Consensus       133 ~~~~~~~~~~p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~-----~  207 (405)
T 4b4t_J          133 LVSLMMVEKVPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT-----D  207 (405)
T ss_dssp             CTTSCEEECSCSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHH-----T
T ss_pred             hhhhccccCCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhh-----C
Confidence            3344555555556899999999999999887631           2 2333 9999999999999999999998     4


Q ss_pred             cceeeecCCCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------------HHHHH
Q psy17903         97 ERILELNASDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAA  156 (355)
Q Consensus        97 ~~~~~~~~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------------~~~~~  156 (355)
                      .+++.+++++...      ...++..+.......         |    -||||||+|.+..              ...+.
T Consensus       208 ~~f~~v~~s~l~sk~vGese~~vr~lF~~Ar~~a---------P----~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~  274 (405)
T 4b4t_J          208 CKFIRVSGAELVQKYIGEGSRMVRELFVMAREHA---------P----SIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLE  274 (405)
T ss_dssp             CEEEEEEGGGGSCSSTTHHHHHHHHHHHHHHHTC---------S----EEEEEESSSCCTTSCSCSSSGGGGHHHHHHHH
T ss_pred             CCceEEEhHHhhccccchHHHHHHHHHHHHHHhC---------C----ceEeeecchhhccCCCCCCCCCcHHHHHHHHH
Confidence            5677777765322      234444444433322         1    2999999999843              12455


Q ss_pred             HHHHhhh--ccCCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-
Q psy17903        157 LRRTMEK--ETKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-  230 (355)
Q Consensus       157 Ll~~le~--~~~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-  230 (355)
                      |+..|+.  ...++++|++||.++.+++++.+  |+. .|+|+.|+.++..++++.++++.++. ++..++.|++.+.| 
T Consensus       275 lL~~lDg~~~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~-~dvdl~~lA~~t~G~  353 (405)
T 4b4t_J          275 LLNQLDGFETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLT-RGINLRKVAEKMNGC  353 (405)
T ss_dssp             HHHHHHTTTCCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCC-SSCCHHHHHHHCCSC
T ss_pred             HHHhhhccCCCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCC-ccCCHHHHHHHCCCC
Confidence            6666663  34567889999999999999988  554 89999999999999999887654432 12247888888876 


Q ss_pred             CHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        231 DMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       231 ~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      +.+.+.+.+..++..+   +...|+.+|+..++.
T Consensus       354 SGADi~~l~~eA~~~Air~~~~~vt~~Df~~Al~  387 (405)
T 4b4t_J          354 SGADVKGVCTEAGMYALRERRIHVTQEDFELAVG  387 (405)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence            3444444455444433   456799999988764

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.88  E-value=4.4e-21  Score=172.56  Aligned_cols=215  Identities=17%  Similarity=0.160  Sum_probs=160.7

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhc------------CCCCeEEEECCCCCCHHHHHHHHHHHhcCCcccccee
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERIL  100 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~------------~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~  100 (355)
                      ..|.++|+|.+|++++|++.+++.|.+.+..            ....+++|+||||||||++|+++++.+     ..+++
T Consensus         9 ~~~~~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~-----~~~~~   83 (297)
T 3b9p_A            9 DEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATEC-----SATFL   83 (297)
T ss_dssp             TTTBCCSSCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHT-----TCEEE
T ss_pred             HHhccCCCCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHh-----CCCeE
Confidence            3578899999999999999999999988743            122349999999999999999999997     34566


Q ss_pred             eecCCCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC-----------HHHHHHHHHHhhh
Q psy17903        101 ELNASDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT-----------HAAQAALRRTMEK  163 (355)
Q Consensus       101 ~~~~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~-----------~~~~~~Ll~~le~  163 (355)
                      .+++++...      ...++..+......             ...+|||||+|.+.           ...++.|+..++.
T Consensus        84 ~i~~~~l~~~~~~~~~~~~~~~~~~~~~~-------------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~  150 (297)
T 3b9p_A           84 NISAASLTSKYVGDGEKLVRALFAVARHM-------------QPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDG  150 (297)
T ss_dssp             EEESTTTSSSSCSCHHHHHHHHHHHHHHT-------------CSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHH
T ss_pred             EeeHHHHhhcccchHHHHHHHHHHHHHHc-------------CCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhc
Confidence            777765321      12222222222111             23599999999884           3445677877776


Q ss_pred             cc-----CCccEEEEecCCccccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHH-
Q psy17903        164 ET-----KSTRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAI-  236 (355)
Q Consensus       164 ~~-----~~~~~Il~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~-  236 (355)
                      .+     ..+++|++||.++.+.+++.+||. .+.++.|+.++...+++..+...+..+++++++.+++.+.|..+..+ 
T Consensus       151 ~~~~~~~~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~~la~~~~g~~~~~l~  230 (297)
T 3b9p_A          151 LPGNPDGDRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLT  230 (297)
T ss_dssp             CC------CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSCCSCHHHHHHHHHHTTTCCHHHHH
T ss_pred             ccccCCCCcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHH
Confidence            54     347788899999999999999985 78999999999999999999988888999999999999999877555 


Q ss_pred             HHHHHHHHhh---------------CCCCCCHHHHHHHhCCCCh
Q psy17903        237 TCLQSCARLK---------------GGEGIVNEDVLEVTGVIPN  265 (355)
Q Consensus       237 ~~l~~~~~~~---------------~~~~It~~~v~~~~~~~~~  265 (355)
                      +.++.++..+               ....|+.+++..++....+
T Consensus       231 ~l~~~a~~~a~r~~~~~~~~~~~~~~~~~i~~~d~~~a~~~~~~  274 (297)
T 3b9p_A          231 ALAKDAALEPIRELNVEQVKCLDISAMRAITEQDFHSSLKRIRR  274 (297)
T ss_dssp             HHHHHHTTHHHHTCC--------CCCCCCCCHHHHHHHTTSCCC
T ss_pred             HHHHHHHHHHHHHHhhhhcccccccccCCcCHHHHHHHHHHcCC
Confidence            4444433222               1246899999988877654

>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=99.88  E-value=1.1e-21  Score=180.58  Aligned_cols=193  Identities=15%  Similarity=0.176  Sum_probs=138.3

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHh----------c-CCCC-eEEEECCCCCCHHHHHHHHHHHhcCCcccccee
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLS----------G-ADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERIL  100 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~----------~-~~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~  100 (355)
                      ..|..++.+.+|++++|++.+++.|.+.+.          . ...+ ++||+||||||||++|+++++.+.     .+++
T Consensus        39 ~~~~~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~-----~~~~  113 (355)
T 2qp9_X           39 SAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEAN-----STFF  113 (355)
T ss_dssp             --------CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHT-----CEEE
T ss_pred             hhhcccCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhC-----CCEE
Confidence            456678888999999999999999998873          1 2222 399999999999999999999983     4566


Q ss_pred             eecCCCcc------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH-----------HHHHHHHHhhh
Q psy17903        101 ELNASDDR------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-----------AQAALRRTMEK  163 (355)
Q Consensus       101 ~~~~~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~-----------~~~~Ll~~le~  163 (355)
                      .+++++..      ....++..+......             ...||||||+|.+...           .++.|+..|+.
T Consensus       114 ~v~~~~l~~~~~g~~~~~~~~~f~~a~~~-------------~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~  180 (355)
T 2qp9_X          114 SVSSSDLVSKWMGESEKLVKQLFAMAREN-------------KPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNG  180 (355)
T ss_dssp             EEEHHHHHSCC---CHHHHHHHHHHHHHT-------------SSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHH
T ss_pred             EeeHHHHhhhhcchHHHHHHHHHHHHHHc-------------CCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhc
Confidence            66654321      112222222222111             2349999999998632           35677777764


Q ss_pred             ---ccCCccEEEEecCCccccccccCCe-eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHH
Q psy17903        164 ---ETKSTRFCLICNYVSCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITC  238 (355)
Q Consensus       164 ---~~~~~~~Il~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~  238 (355)
                         ....+++|++||.++.+.+++.+|+ ..+.++.|+.++...+++.++...+..+++..++.|++.+.| +.+.+.+.
T Consensus       181 ~~~~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~~~~l~~la~~t~G~sg~dl~~l  260 (355)
T 2qp9_X          181 VGNDSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVV  260 (355)
T ss_dssp             CC---CCEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBCCCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             ccccCCCeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHcCCCCHHHHHHH
Confidence               3456888889999999999999999 489999999999999999999888777899999999999988 55566665


Q ss_pred             HHHHH
Q psy17903        239 LQSCA  243 (355)
Q Consensus       239 l~~~~  243 (355)
                      ++.+.
T Consensus       261 ~~~A~  265 (355)
T 2qp9_X          261 VKDAL  265 (355)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55544

>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=99.87  E-value=2.3e-21  Score=176.33  Aligned_cols=193  Identities=15%  Similarity=0.188  Sum_probs=145.8

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHh----------cCC-C-CeEEEECCCCCCHHHHHHHHHHHhcCCccccce
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLS----------GAD-L-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERI   99 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~----------~~~-~-~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~   99 (355)
                      ...|..++.+.+|++++|++.+++.|...+.          .+. . .++||+||||||||++|+++++.+     +.++
T Consensus         5 ~~~~~~~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~-----~~~~   79 (322)
T 3eie_A            5 FTAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA-----NSTF   79 (322)
T ss_dssp             -CCSEEECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHH-----TCEE
T ss_pred             ccceeecCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHH-----CCCE
Confidence            3468889999999999999999999998872          222 2 249999999999999999999997     4456


Q ss_pred             eeecCCCccc--h----HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHhh
Q psy17903        100 LELNASDDRG--I----QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTME  162 (355)
Q Consensus       100 ~~~~~~~~~~--~----~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~le  162 (355)
                      +.+++++...  .    ..++..+......             ...+|||||+|.+..           ..++.|+..++
T Consensus        80 ~~v~~~~l~~~~~g~~~~~~~~~f~~a~~~-------------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~  146 (322)
T 3eie_A           80 FSVSSSDLVSKWMGESEKLVKQLFAMAREN-------------KPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMN  146 (322)
T ss_dssp             EEEEHHHHHTTTGGGHHHHHHHHHHHHHHT-------------SSEEEEEECGGGGSCC------CCTHHHHHHHHHHHG
T ss_pred             EEEchHHHhhcccchHHHHHHHHHHHHHhc-------------CCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhc
Confidence            6777654211  1    1222222222211             234999999998854           23567777776


Q ss_pred             h---ccCCccEEEEecCCccccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHH
Q psy17903        163 K---ETKSTRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAIT  237 (355)
Q Consensus       163 ~---~~~~~~~Il~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~  237 (355)
                      .   ....+++|++||.++.+.+++++|+. .+.|+.|+.++...+++..+...+..++++.++.|+..+.| +.+.+.+
T Consensus       147 ~~~~~~~~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~l~~la~~t~g~sg~di~~  226 (322)
T 3eie_A          147 GVGNDSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAV  226 (322)
T ss_dssp             GGGTSCCCEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCCCCHHHHHHHHHTTTTCCHHHHHH
T ss_pred             cccccCCceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCCCCHHHHHHHHHHcCCCCHHHHHH
Confidence            3   34567888899999999999999995 78999999999999999999888888899999999999977 4555555


Q ss_pred             HHHHH
Q psy17903        238 CLQSC  242 (355)
Q Consensus       238 ~l~~~  242 (355)
                      .++.+
T Consensus       227 l~~~a  231 (322)
T 3eie_A          227 VVKDA  231 (322)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55444

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.87  E-value=1.4e-21  Score=176.83  Aligned_cols=212  Identities=16%  Similarity=0.170  Sum_probs=158.1

Q ss_pred             CCCCccccccCCCCC-------C-cccccHHHHHHHHHHHh---------------cCCCCeEEEECCCCCCHHHHHHHH
Q psy17903         30 NKPVPWVEKYRPKTI-------D-DVIEQQEVVSVLKKCLS---------------GADLPHFLFYGPPGTGKTSTMIAA   86 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~-------~-~~vg~~~~~~~l~~~l~---------------~~~~~~~ll~Gp~G~GKt~la~~l   86 (355)
                      +.+.++.+.|++..+       + +++|++.+++.|.+++.               .....++||+||||||||++|+++
T Consensus         8 ~~~~~~~~~~~~~~~~~~~~~l~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~l   87 (309)
T 3syl_A            8 PTSIDLRAEYEGSGAKEVLEELDRELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKM   87 (309)
T ss_dssp             CSCCCHHHHHHHTTHHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHH
T ss_pred             CCCCCCChhhccccHHHHHHHHHHHccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHH
Confidence            334566777776653       3 68999999999887764               223335999999999999999999


Q ss_pred             HHHhcCCcc--ccceeeecCCCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCC---------
Q psy17903         87 CHQLFGDMY--RERILELNASDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM---------  149 (355)
Q Consensus        87 ~~~l~~~~~--~~~~~~~~~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l---------  149 (355)
                      ++.+.....  ..+++.+++.+...      ...+...+...                ...+|||||+|.+         
T Consensus        88 a~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~~----------------~~~vl~iDEid~l~~~~~~~~~  151 (309)
T 3syl_A           88 AGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRA----------------MGGVLFIDEAYYLYRPDNERDY  151 (309)
T ss_dssp             HHHHHHTTSSSSCCEEEECGGGTCCSSTTCHHHHHHHHHHHH----------------TTSEEEEETGGGSCCCC---CC
T ss_pred             HHHHHhcCCcCCCcEEEEcHHHhhhhcccccHHHHHHHHHhc----------------CCCEEEEEChhhhccCCCcccc
Confidence            999854322  33567777654311      11122222211                1139999999977         


Q ss_pred             CHHHHHHHHHHhhhccCCccEEEEecCCc-----cccccccCCe-eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHH
Q psy17903        150 THAAQAALRRTMEKETKSTRFCLICNYVS-----CIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALET  223 (355)
Q Consensus       150 ~~~~~~~Ll~~le~~~~~~~~Il~~~~~~-----~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  223 (355)
                      ....++.|+..+++...++++|++++...     .+.+++++|+ ..++|++|+.+++..+++.++.+.+..+++++++.
T Consensus       152 ~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~  231 (309)
T 3syl_A          152 GQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETA  231 (309)
T ss_dssp             THHHHHHHHHHHHHCTTTCEEEEEECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHHHTTCEECHHHHHH
T ss_pred             cHHHHHHHHHHHhcCCCCEEEEEeCChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            77889999999999888889999987542     2468999999 69999999999999999999999999999999999


Q ss_pred             HHHH--------cCCCHHHHHHHHHHHHHhh-------CCCCCCHHHHH
Q psy17903        224 LVET--------SGGDMRRAITCLQSCARLK-------GGEGIVNEDVL  257 (355)
Q Consensus       224 l~~~--------~~g~~r~~~~~l~~~~~~~-------~~~~It~~~v~  257 (355)
                      ++..        ..||+|.+.+.++.+...+       .++.++.+++.
T Consensus       232 l~~~~~~~~~~~~~gn~r~l~~~l~~a~~~~~~r~~~~~~~~~~~~~l~  280 (309)
T 3syl_A          232 LRAYIGLRRNQPHFANARSIRNALDRARLRQANRLFTASSGPLDARALS  280 (309)
T ss_dssp             HHHHHHHHTTSSSCCHHHHHHHHHHHHHHHHHHHHHHC---CEEHHHHH
T ss_pred             HHHHHHHhccCCCCCcHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHh
Confidence            9886        4599999999999887422       23556666654

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.87  E-value=2.8e-20  Score=171.13  Aligned_cols=215  Identities=20%  Similarity=0.226  Sum_probs=150.5

Q ss_pred             CCCCCCCccccccCCCCCCcccccHHHHHHHHHHHh-----------cC-CCCe-EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         27 KTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLS-----------GA-DLPH-FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        27 ~~~~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~-----------~~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      ..+.-..+..++-...+|+++.|.+++++.|.+.+.           .| ..|. +|||||||||||++|+++|+++   
T Consensus       164 ~d~~~~~~~~~~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~---  240 (437)
T 4b4t_I          164 ADPMVSVMKMDKSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT---  240 (437)
T ss_dssp             SSCCCCCCEEESSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH---
T ss_pred             cCCcceeeeeccCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh---
Confidence            334445556666566799999999999999988763           12 2333 9999999999999999999998   


Q ss_pred             ccccceeeecCCCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------------HH
Q psy17903         94 MYRERILELNASDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AA  153 (355)
Q Consensus        94 ~~~~~~~~~~~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------------~~  153 (355)
                        +.+++.+++++...      ...++..+.......         |    -||||||+|.+..              ..
T Consensus       241 --~~~fi~v~~s~l~sk~vGesek~ir~lF~~Ar~~a---------P----~IIfiDEiDai~~~R~~~~~~~~~~~~~~  305 (437)
T 4b4t_I          241 --SATFLRIVGSELIQKYLGDGPRLCRQIFKVAGENA---------P----SIVFIDEIDAIGTKRYDSNSGGEREIQRT  305 (437)
T ss_dssp             --TCEEEEEESGGGCCSSSSHHHHHHHHHHHHHHHTC---------S----EEEEEEEESSSSCCCSCSSCSSCCHHHHH
T ss_pred             --CCCEEEEEHHHhhhccCchHHHHHHHHHHHHHhcC---------C----cEEEEehhhhhcccCCCCCCCccHHHHHH
Confidence              45677777665322      123444444333322         1    2999999998843              12


Q ss_pred             HHHHHHHhhh--ccCCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHH
Q psy17903        154 QAALRRTMEK--ETKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVET  227 (355)
Q Consensus       154 ~~~Ll~~le~--~~~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~~~~l~~~  227 (355)
                      ...|+..++.  ...++++|++||.++.+++++.+  |+. .|+|+.|+.++..++++.++++..  ++++ .++.|++.
T Consensus       306 l~~LL~~lDg~~~~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~--l~~dvdl~~LA~~  383 (437)
T 4b4t_I          306 MLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMN--LSEDVNLETLVTT  383 (437)
T ss_dssp             HHHHHHHHHHCCCSSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSC--BCSCCCHHHHHHH
T ss_pred             HHHHHHHhhCcCCCCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCC--CCCcCCHHHHHHh
Confidence            3455555553  34567899999999999999998  554 799999999999999998886544  3332 37888888


Q ss_pred             cCC-CHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        228 SGG-DMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       228 ~~g-~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      +.| +.+.+.+.+..++..+   +...|+.+|+.+++.
T Consensus       384 T~GfSGADI~~l~~eA~~~Air~~~~~It~eDf~~Al~  421 (437)
T 4b4t_I          384 KDDLSGADIQAMCTEAGLLALRERRMQVTAEDFKQAKE  421 (437)
T ss_dssp             CCSCCHHHHHHHHHHHHHHHHHTTCSCBCHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHH
Confidence            866 3444444454444433   456799999988764

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.86  E-value=1.1e-20  Score=166.26  Aligned_cols=208  Identities=14%  Similarity=0.094  Sum_probs=151.8

Q ss_pred             ccccccCCCCCCcccccHHHHHHHHHHHhc-----------CC-CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceee
Q psy17903         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------AD-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILE  101 (355)
Q Consensus        34 ~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----------~~-~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~  101 (355)
                      +|.+++++.+|++++|.+.+++.+.+.+..           .. ..+++|+||+|+|||++++++++.+.     .+++.
T Consensus         1 ~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~-----~~~~~   75 (257)
T 1lv7_A            1 MLTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK-----VPFFT   75 (257)
T ss_dssp             CEEECSSCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHT-----CCEEE
T ss_pred             CCCccCCCCCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcC-----CCEEE
Confidence            589999999999999999999888776532           12 23499999999999999999999873     34667


Q ss_pred             ecCCCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------------HHHHHHHHHh
Q psy17903        102 LNASDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTM  161 (355)
Q Consensus       102 ~~~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------------~~~~~Ll~~l  161 (355)
                      +++.+...      ...++..+......             ...++||||+|.+..              ...+.++..+
T Consensus        76 i~~~~~~~~~~~~~~~~~~~~~~~a~~~-------------~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l  142 (257)
T 1lv7_A           76 ISGSDFVEMFVGVGASRVRDMFEQAKKA-------------APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEM  142 (257)
T ss_dssp             ECSCSSTTSCCCCCHHHHHHHHHHHHTT-------------CSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHH
T ss_pred             EeHHHHHHHhhhhhHHHHHHHHHHHHHc-------------CCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHh
Confidence            77665321      22333333332211             124999999976642              2345566666


Q ss_pred             hh--ccCCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCC-CHHH
Q psy17903        162 EK--ETKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVETSGG-DMRR  234 (355)
Q Consensus       162 e~--~~~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~~~~l~~~~~g-~~r~  234 (355)
                      +.  ....+++|++||.++.+.+++.+  |+. .+.|+.|+.++..++++..++...  ++++ ....++..+.| +.|.
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            64  24467788899999889899887  654 789999999999999988876543  3333 36678888999 9999


Q ss_pred             HHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        235 AITCLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       235 ~~~~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      +.+.++.+..++   +...|+.+++.+++.
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            999998887665   356899999988764

>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=99.86  E-value=3.1e-20  Score=171.17  Aligned_cols=190  Identities=15%  Similarity=0.154  Sum_probs=143.8

Q ss_pred             cccccCCCCCCcccccHHHHHHHHHHHhc------------CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeee
Q psy17903         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSG------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILEL  102 (355)
Q Consensus        35 ~~~k~~p~~~~~~vg~~~~~~~l~~~l~~------------~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~  102 (355)
                      +.++++|.+|++++|++.+++.|.+.+..            ....++||+||||||||++|+++++.+     +.+++.+
T Consensus        74 i~~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~-----~~~~~~i  148 (357)
T 3d8b_A           74 IMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS-----GATFFSI  148 (357)
T ss_dssp             TBCCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT-----TCEEEEE
T ss_pred             cccCCCCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc-----CCeEEEE
Confidence            66788999999999999999999988742            223349999999999999999999997     3466777


Q ss_pred             cCCCccch------HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHhhh--
Q psy17903        103 NASDDRGI------QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEK--  163 (355)
Q Consensus       103 ~~~~~~~~------~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~le~--  163 (355)
                      ++++....      ..++..+......             ...+|||||+|.+..           ..++.|+..++.  
T Consensus       149 ~~~~l~~~~~g~~~~~~~~~~~~a~~~-------------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~  215 (357)
T 3d8b_A          149 SASSLTSKWVGEGEKMVRALFAVARCQ-------------QPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGAT  215 (357)
T ss_dssp             EGGGGCCSSTTHHHHHHHHHHHHHHHT-------------CSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC--
T ss_pred             ehHHhhccccchHHHHHHHHHHHHHhc-------------CCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhccc
Confidence            77653221      1222222221111             235999999988732           345667777764  


Q ss_pred             --ccCCccEEEEecCCccccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHH
Q psy17903        164 --ETKSTRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCL  239 (355)
Q Consensus       164 --~~~~~~~Il~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l  239 (355)
                        ....+++|++||.+..+.+++++|+. .+.++.|+.++...++...+...+..++++.++.+++.+.| +.+.+.+.+
T Consensus       216 ~~~~~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~l~~la~~t~G~s~~dl~~l~  295 (357)
T 3d8b_A          216 TSSEDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLC  295 (357)
T ss_dssp             --CCCCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBCCCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             ccCCCCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCCccHHHHHHHHHHcCCCCHHHHHHHH
Confidence              23567888899999999999999997 78999999999999999999988888999999999999988 444444444


Q ss_pred             HHH
Q psy17903        240 QSC  242 (355)
Q Consensus       240 ~~~  242 (355)
                      +.+
T Consensus       296 ~~a  298 (357)
T 3d8b_A          296 REA  298 (357)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.86  E-value=2.9e-20  Score=173.08  Aligned_cols=213  Identities=20%  Similarity=0.234  Sum_probs=148.6

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHh-----------cC-CCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccce
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLS-----------GA-DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERI   99 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~-----------~~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~   99 (355)
                      .+-.++-.+.+|+++.|.+++++.|.+.+.           .| ..|. +|||||||||||++|+++|+++     +.++
T Consensus       169 ~~~~~~~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~-----~~~f  243 (434)
T 4b4t_M          169 AMEVDEKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT-----NATF  243 (434)
T ss_dssp             CCEEESSCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH-----TCEE
T ss_pred             hcccCCCCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHh-----CCCE
Confidence            344455455689999999999999987752           12 2333 9999999999999999999998     4467


Q ss_pred             eeecCCCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------H---HHHHHHH
Q psy17903        100 LELNASDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------A---AQAALRR  159 (355)
Q Consensus       100 ~~~~~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~---~~~~Ll~  159 (355)
                      +.+++++...      ...++..+.......+             -||||||+|.+..           .   ....|+.
T Consensus       244 ~~v~~s~l~~~~vGese~~ir~lF~~A~~~aP-------------~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~  310 (434)
T 4b4t_M          244 LKLAAPQLVQMYIGEGAKLVRDAFALAKEKAP-------------TIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLN  310 (434)
T ss_dssp             EEEEGGGGCSSCSSHHHHHHHHHHHHHHHHCS-------------EEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHH
T ss_pred             EEEehhhhhhcccchHHHHHHHHHHHHHhcCC-------------eEEeecchhhhhhccCCCCCCCchHHHHHHHHHHH
Confidence            7777765321      2334444443333221             2999999997721           1   2345666


Q ss_pred             Hhhhc--cCCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHH
Q psy17903        160 TMEKE--TKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMR  233 (355)
Q Consensus       160 ~le~~--~~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r  233 (355)
                      .|+..  ..++++|++||.++.+++++.+  |+. .|+|+.|+.++..++++.++++....- +-.++.|++.+.| +.+
T Consensus       311 ~ldg~~~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~-dvdl~~lA~~t~G~sGA  389 (434)
T 4b4t_M          311 QLDGFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDD-DINWQELARSTDEFNGA  389 (434)
T ss_dssp             HHTTSCSSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCS-CCCHHHHHHHCSSCCHH
T ss_pred             HhhccCCCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCC-cCCHHHHHHhCCCCCHH
Confidence            66643  3457788899999999999988  554 799999999999999998887754321 1236778888866 444


Q ss_pred             HHHHHHHHHHHhh---CCCCCCHHHHHHHhCCCC
Q psy17903        234 RAITCLQSCARLK---GGEGIVNEDVLEVTGVIP  264 (355)
Q Consensus       234 ~~~~~l~~~~~~~---~~~~It~~~v~~~~~~~~  264 (355)
                      .+.+.+..++..+   +...|+.+|+.+++....
T Consensus       390 Di~~l~~eA~~~a~r~~~~~i~~~Df~~Al~~v~  423 (434)
T 4b4t_M          390 QLKAVTVEAGMIALRNGQSSVKHEDFVEGISEVQ  423 (434)
T ss_dssp             HHHHHHHHHHHHHHHHTCSSBCHHHHHHHHHSCS
T ss_pred             HHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHh
Confidence            4445444444333   567899999998886553

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.86  E-value=4.9e-20  Score=171.66  Aligned_cols=209  Identities=19%  Similarity=0.211  Sum_probs=146.0

Q ss_pred             ccccccCCCCCCcccccHHHHHHHHHHHhc-----------C-CCCe-EEEECCCCCCHHHHHHHHHHHhcCCcccccee
Q psy17903         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------A-DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERIL  100 (355)
Q Consensus        34 ~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----------~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~  100 (355)
                      +..++-...+|+++.|.+++++.|.+.+.-           | ..|. +|||||||||||++|+++|+++     +.+++
T Consensus       170 ~~~~~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~-----~~~~~  244 (437)
T 4b4t_L          170 MTSFEQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATI-----GANFI  244 (437)
T ss_dssp             CEEEESCSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH-----TCEEE
T ss_pred             eeeccCCCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHh-----CCCEE
Confidence            334443445899999999999999887631           2 2333 9999999999999999999998     44677


Q ss_pred             eecCCCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------------HHHHHHHHH
Q psy17903        101 ELNASDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRT  160 (355)
Q Consensus       101 ~~~~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------------~~~~~Ll~~  160 (355)
                      .+++++..+      ...++..+.......         |    -||||||+|.+..              ...+.|+..
T Consensus       245 ~v~~s~l~sk~~Gese~~ir~~F~~A~~~~---------P----~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~  311 (437)
T 4b4t_L          245 FSPASGIVDKYIGESARIIREMFAYAKEHE---------P----CIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQ  311 (437)
T ss_dssp             EEEGGGTCCSSSSHHHHHHHHHHHHHHHSC---------S----EEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHH
T ss_pred             EEehhhhccccchHHHHHHHHHHHHHHhcC---------C----ceeeeecccccccccccCCCCcchHHHHHHHHHHHH
Confidence            777765322      123333333322221         2    2999999998842              124567777


Q ss_pred             hhhc--cCCccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHH
Q psy17903        161 MEKE--TKSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRR  234 (355)
Q Consensus       161 le~~--~~~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~  234 (355)
                      |+..  ..++++|++||.++.+++++.++++   .|+|+.|+.++...+++.++.+.... ++..+..+++.+.| +.+.
T Consensus       312 lDg~~~~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~-~d~dl~~lA~~t~G~sGAD  390 (437)
T 4b4t_L          312 MDGFDNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKT-GEFDFEAAVKMSDGFNGAD  390 (437)
T ss_dssp             HHSSSCTTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBC-SCCCHHHHHHTCCSCCHHH
T ss_pred             hhcccCCCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCC-cccCHHHHHHhCCCCCHHH
Confidence            7643  3467889999999999999988754   79999999999999999888765432 22236788888876 4444


Q ss_pred             HHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        235 AITCLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       235 ~~~~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      +.+.+..++..+   +...|+.+|+.+++.
T Consensus       391 i~~l~~eA~~~air~~~~~i~~~d~~~Al~  420 (437)
T 4b4t_L          391 IRNCATEAGFFAIRDDRDHINPDDLMKAVR  420 (437)
T ss_dssp             HHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            444554444433   556799999987764

>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=99.85  E-value=7.7e-21  Score=179.66  Aligned_cols=214  Identities=14%  Similarity=0.184  Sum_probs=158.2

Q ss_pred             cCCC-CCCccc-cc--HHHHHHHHHHHhcCC-CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHH
Q psy17903         39 YRPK-TIDDVI-EQ--QEVVSVLKKCLSGAD-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVI  113 (355)
Q Consensus        39 ~~p~-~~~~~v-g~--~~~~~~l~~~l~~~~-~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i  113 (355)
                      ..|. +|++++ |+  ......+..++.... .++++|+||+|+|||++++++++.+........++.+++...  ...+
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            4454 788888 53  344566666666543 455999999999999999999998854333445667666542  1111


Q ss_pred             HHHHH-----HHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--HHHHHHHHHhhhc-cCCccEEEEecCC-cc---cc
Q psy17903        114 RDKVK-----TFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKE-TKSTRFCLICNYV-SC---II  181 (355)
Q Consensus       114 ~~~i~-----~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--~~~~~Ll~~le~~-~~~~~~Il~~~~~-~~---l~  181 (355)
                      ...+.     .+.... .     .    ...+|||||++.+..  ..++.|+..++.. .....+|++++.+ ..   +.
T Consensus       176 ~~~~~~~~~~~~~~~~-~-----~----~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~  245 (440)
T 2z4s_A          176 VDSMKEGKLNEFREKY-R-----K----KVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQ  245 (440)
T ss_dssp             HHHHHTTCHHHHHHHH-T-----T----TCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCC
T ss_pred             HHHHHcccHHHHHHHh-c-----C----CCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHH
Confidence            11111     111110 0     0    224999999999986  6788888888753 3345667777753 32   67


Q ss_pred             ccccCCe---eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHH
Q psy17903        182 QPLTSRC---SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDV  256 (355)
Q Consensus       182 ~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~--~~~~It~~~v  256 (355)
                      +++.+||   ..+.|.+|+.++...+++..+...++.+++++++.|+..++||+|.+.+.|+.+..++  .+..||.+++
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            8999998   5899999999999999999999999999999999999999999999999999988776  4567999999


Q ss_pred             HHHhCCCC
Q psy17903        257 LEVTGVIP  264 (355)
Q Consensus       257 ~~~~~~~~  264 (355)
                      .+++....
T Consensus       326 ~~~l~~~~  333 (440)
T 2z4s_A          326 ILLLKDFI  333 (440)
T ss_dssp             HHHTSTTT
T ss_pred             HHHHHHHh
Confidence            99998765

>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=99.85  E-value=2.3e-20  Score=173.63  Aligned_cols=280  Identities=15%  Similarity=0.219  Sum_probs=180.6

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhc----CCCCeEEEECCCCCCHHHHHHHHHHHhcCCcc-ccceeeecCCC
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG----ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-RERILELNASD  106 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~----~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~-~~~~~~~~~~~  106 (355)
                      ..+|..+|+|   ++++|++..++.+.+++..    +....++|+||+|+|||++++.+++.+..... ...++.+++..
T Consensus        10 ~~~l~~~~~p---~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~   86 (386)
T 2qby_A           10 REYLLPDYIP---DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQ   86 (386)
T ss_dssp             GGGGSSSCCC---SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHH
T ss_pred             hhhCCCccCC---CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCC
Confidence            3456677877   6789999999999998874    33345999999999999999999998743211 23455666432


Q ss_pred             ccc----------------------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC----HHHHHHHHHH
Q psy17903        107 DRG----------------------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT----HAAQAALRRT  160 (355)
Q Consensus       107 ~~~----------------------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~----~~~~~~Ll~~  160 (355)
                      ...                      ...+...+......       .+    ...+|||||++.+.    .+....|++.
T Consensus        87 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~-------~~----~~~vlilDE~~~l~~~~~~~~l~~l~~~  155 (386)
T 2qby_A           87 IDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRD-------YG----SQVVIVLDEIDAFVKKYNDDILYKLSRI  155 (386)
T ss_dssp             HCSHHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHT-------CC----SCEEEEEETHHHHHHSSCSTHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhc-------cC----CeEEEEEcChhhhhccCcCHHHHHHhhc
Confidence            111                      11222222222211       01    24599999999885    3445666666


Q ss_pred             hhh-ccCCccEEEEecCC---ccccccccCCe--eeEEecCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHcC---
Q psy17903        161 MEK-ETKSTRFCLICNYV---SCIIQPLTSRC--SKFRFKPLAENTMLTRLQYICEQE--SVMCDFKALETLVETSG---  229 (355)
Q Consensus       161 le~-~~~~~~~Il~~~~~---~~l~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~~~l~~~~~---  229 (355)
                      ++. ....+.+|++++..   ..+.+.+.+|+  ..+.|++++.+++.+++...+...  ...+++++++.+++.++   
T Consensus       156 ~~~~~~~~~~~I~~~~~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  235 (386)
T 2qby_A          156 NSEVNKSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREH  235 (386)
T ss_dssp             HHSCCC--EEEEEEESCGGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTT
T ss_pred             hhhcCCCeEEEEEEECCCChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhc
Confidence            654 24467788888866   45677888888  689999999999999999988753  36789999999999988   


Q ss_pred             CCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCCCChHHHHHHHhcCCHHHHHHHHHHHH---HcC---CCHHHHHHH
Q psy17903        230 GDMRRAITCLQSCARLK---GGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLI---LEA---YSATQLFDQ  300 (355)
Q Consensus       230 g~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~l~---~~g---~~~~~i~~~  300 (355)
                      ||+|.+++.++.+...+   +...|+.+++.+++.........+.+.. .......++..+.   ..|   ++..+++..
T Consensus       236 G~~r~~~~ll~~a~~~a~~~~~~~i~~~~v~~a~~~~~~~~~~~~~~~-l~~~~~~il~ai~~~~~~g~~~~~~~~l~~~  314 (386)
T 2qby_A          236 GDARRALDLLRVSGEIAERMKDTKVKEEYVYMAKEEIERDRVRDIILT-LPFHSKLVLMAVVSISSEENVVSTTGAVYET  314 (386)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHHHHHHHHHHHT-SCHHHHHHHHHHHHHC-----CEEHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHHHhhchHHHHHHc-CCHHHHHHHHHHHHHHhcCCCceeHHHHHHH
Confidence            99999999998887655   4468999999988765543333333332 2222233333332   123   223555555


Q ss_pred             HHHHHHhc--CCCCHHHHHHHHHHHHHH
Q psy17903        301 FHDIVMSA--SSLSDKQKALILEKLAEC  326 (355)
Q Consensus       301 l~~~~~~~--~~~~~~~~~~i~~~l~~~  326 (355)
                      +...+...  ...+.......++.|...
T Consensus       315 ~~~~~~~~g~~~~~~~~~~~~l~~L~~~  342 (386)
T 2qby_A          315 YLNICKKLGVEAVTQRRVSDIINELDMV  342 (386)
T ss_dssp             HHHHHHHHTCCCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCCHHHHHHHHHHHHhC
Confidence            54444322  223445555666665544

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.85  E-value=1.1e-19  Score=168.82  Aligned_cols=211  Identities=17%  Similarity=0.184  Sum_probs=145.6

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHh-----------cC-CCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccc
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLS-----------GA-DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRER   98 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~-----------~~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~   98 (355)
                      ..+-.++-...+|+++.|.+++++.|++.+.           -| ..|. +|||||||||||++|+++|+++     +.+
T Consensus       196 ~~m~v~e~P~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~-----~~~  270 (467)
T 4b4t_H          196 TMMTVEEKPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRT-----DAT  270 (467)
T ss_dssp             CCCEEESSCSCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHH-----TCE
T ss_pred             ceeeecCCCCCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhcc-----CCC
Confidence            3444555444689999999999999988762           12 3333 9999999999999999999998     446


Q ss_pred             eeeecCCCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------------HHHHHHH
Q psy17903         99 ILELNASDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALR  158 (355)
Q Consensus        99 ~~~~~~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------------~~~~~Ll  158 (355)
                      ++.+++++..+      ...++..+.......         |    -||||||+|.+..              .....|+
T Consensus       271 fi~vs~s~L~sk~vGesek~ir~lF~~Ar~~a---------P----~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL  337 (467)
T 4b4t_H          271 FIRVIGSELVQKYVGEGARMVRELFEMARTKK---------A----CIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELI  337 (467)
T ss_dssp             EEEEEGGGGCCCSSSHHHHHHHHHHHHHHHTC---------S----EEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHH
T ss_pred             eEEEEhHHhhcccCCHHHHHHHHHHHHHHhcC---------C----ceEeecccccccccccCcCCCccHHHHHHHHHHH
Confidence            77777665322      233444444333321         1    2999999998842              1234455


Q ss_pred             HHhhh--ccCCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Q psy17903        159 RTMEK--ETKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DM  232 (355)
Q Consensus       159 ~~le~--~~~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~  232 (355)
                      ..|+.  ....+++|++||.++.+++++.+  |+. .|+|+.|+.++..++++.+++...+.- +-.++.|++.+.| +.
T Consensus       338 ~~lDg~~~~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~-dvdl~~LA~~T~GfSG  416 (467)
T 4b4t_H          338 TQLDGFDPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVER-GIRWELISRLCPNSTG  416 (467)
T ss_dssp             HHHHSSCCTTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCS-SCCHHHHHHHCCSCCH
T ss_pred             HHhhccCCCCcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCC-CCCHHHHHHHCCCCCH
Confidence            55553  23467788999999999999987  654 899999999999999998886544321 1236778888876 33


Q ss_pred             HHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        233 RRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       233 r~~~~~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      +.+.+.+..++..+   +...|+.+|+.+++.
T Consensus       417 ADI~~l~~eAa~~Air~~~~~it~~Df~~Al~  448 (467)
T 4b4t_H          417 AELRSVCTEAGMFAIRARRKVATEKDFLKAVD  448 (467)
T ss_dssp             HHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCccCHHHHHHHHH
Confidence            44444444443333   566789999887653

>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=99.85  E-value=4.2e-20  Score=166.91  Aligned_cols=206  Identities=19%  Similarity=0.231  Sum_probs=146.7

Q ss_pred             CcccccHHHHHHHHHHHhc--------------CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc-
Q psy17903         45 DDVIEQQEVVSVLKKCLSG--------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG-  109 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~--------------~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~-  109 (355)
                      +.++|++.+++.+...+..              ....+++|+||||||||++|+++++.+.     ..++.++++.... 
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~-----~~~~~i~~~~~~~~   89 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN-----APFIKVEATKFTEV   89 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT-----CCEEEEEGGGGSSC
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC-----CCEEEEcchhcccC
Confidence            3589999999999887754              2234599999999999999999999983     3566666654321 


Q ss_pred             -------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHH------------HHHHHHHhhhc------
Q psy17903        110 -------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA------------QAALRRTMEKE------  164 (355)
Q Consensus       110 -------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~------------~~~Ll~~le~~------  164 (355)
                             ...+...+..... .....       ....+|||||+|.+..+.            ++.|+..++..      
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~-~~~~~-------~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~  161 (310)
T 1ofh_A           90 GYVGKEVDSIIRDLTDSAGG-AIDAV-------EQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKH  161 (310)
T ss_dssp             CSGGGSTTHHHHHHHHTTTT-CHHHH-------HHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETT
T ss_pred             CccCccHHHHHHHHHHHhhH-HHhhc-------cCCCEEEEEChhhcCccccccccchhHHHHHHHHHHHhcCCeEeccc
Confidence                   1122222211000 00000       013499999999997654            78899999863      


Q ss_pred             ----cCCccEEEEe----cCCccccccccCCee-eEEecCCCHHHHHHHHHH-----------HHHHcC--CCCCHHHHH
Q psy17903        165 ----TKSTRFCLIC----NYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQY-----------ICEQES--VMCDFKALE  222 (355)
Q Consensus       165 ----~~~~~~Il~~----~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~-----------~~~~~~--~~~~~~~~~  222 (355)
                          ...++||+++    +.+..+.+++.+||. .+.|++|+.+++..+++.           .+...+  +.+++++++
T Consensus       162 ~~~~~~~~~~i~~~~~~~~~~~~l~~~l~~R~~~~i~~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  241 (310)
T 1ofh_A          162 GMVKTDHILFIASGAFQVARPSDLIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVK  241 (310)
T ss_dssp             EEEECTTCEEEEEECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHHTTCEEEECHHHHH
T ss_pred             ccccCCcEEEEEcCCcccCCcccCCHHHHhhCCceEEcCCcCHHHHHHHHHhhHHHHHHHHHHHHHhcCCeeccCHHHHH
Confidence                2356777774    355678899999996 699999999999999883           233344  368999999


Q ss_pred             HHHHHc--------CCCHHHHHHHHHHHHHh-----h-C-CC--CCCHHHHHHHhCCC
Q psy17903        223 TLVETS--------GGDMRRAITCLQSCARL-----K-G-GE--GIVNEDVLEVTGVI  263 (355)
Q Consensus       223 ~l~~~~--------~g~~r~~~~~l~~~~~~-----~-~-~~--~It~~~v~~~~~~~  263 (355)
                      .|++.+        .||+|.+.+.++.+...     . . +.  .||.+++.+++...
T Consensus       242 ~l~~~~~~~~~~~~~g~~R~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~v~~~l~~~  299 (310)
T 1ofh_A          242 KIAEAAFRVNEKTENIGARRLHTVMERLMDKISFSASDMNGQTVNIDAAYVADALGEV  299 (310)
T ss_dssp             HHHHHHHHHHHHSCCCTTHHHHHHHHHHSHHHHHHGGGCTTCEEEECHHHHHHHTCSS
T ss_pred             HHHHHhhhhcccccccCcHHHHHHHHHHHHhhhcCCccccCCEEEEeeHHHHHHHHhh
Confidence            999988        79999999999987621     1 1 22  49999999988755

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.84  E-value=1.6e-19  Score=163.84  Aligned_cols=189  Identities=14%  Similarity=0.149  Sum_probs=139.8

Q ss_pred             cccCCCCCCcccccHHHHHHHHHHHh----------cCC-C-CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC
Q psy17903         37 EKYRPKTIDDVIEQQEVVSVLKKCLS----------GAD-L-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (355)
Q Consensus        37 ~k~~p~~~~~~vg~~~~~~~l~~~l~----------~~~-~-~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  104 (355)
                      .++.+.+|++++|++.+++.|.+.+.          ++. . .++|||||||||||++|+++++.+.+    ..++.+++
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            45567789999999999999998773          112 2 24999999999999999999999732    24566666


Q ss_pred             CCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHhhh---c
Q psy17903        105 SDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEK---E  164 (355)
Q Consensus       105 ~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~le~---~  164 (355)
                      ++...      ...++..+......             ...+|||||+|.+..           ...+.|+..++.   .
T Consensus        80 ~~l~~~~~g~~~~~~~~lf~~a~~~-------------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~  146 (322)
T 1xwi_A           80 SDLVSKWLGESEKLVKNLFQLAREN-------------KPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVD  146 (322)
T ss_dssp             CSSCCSSCCSCHHHHHHHHHHHHHT-------------SSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSC
T ss_pred             HHHHhhhhhHHHHHHHHHHHHHHhc-------------CCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhccccc
Confidence            54321      22333333322211             234999999999832           345667777764   3


Q ss_pred             cCCccEEEEecCCccccccccCCe-eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHHHH
Q psy17903        165 TKSTRFCLICNYVSCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGD-MRRAITCLQSC  242 (355)
Q Consensus       165 ~~~~~~Il~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~-~r~~~~~l~~~  242 (355)
                      ...+++|++||.++.+.+++++|+ ..+.++.|+.++...+++.++...+..+++..++.|++.+.|. .+.+.+.++.+
T Consensus       147 ~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~A  226 (322)
T 1xwi_A          147 NDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDA  226 (322)
T ss_dssp             CTTEEEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBCCCHHHHHHHHHTCTTCCHHHHHHHHHHH
T ss_pred             CCCEEEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            456788889999999999999999 4899999999999999999998887788999999999999875 44444444443

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.84  E-value=8.6e-20  Score=163.07  Aligned_cols=206  Identities=15%  Similarity=0.183  Sum_probs=144.6

Q ss_pred             cccCCCCCCcccccHHHHHHHHHHHhc-------------CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeec
Q psy17903         37 EKYRPKTIDDVIEQQEVVSVLKKCLSG-------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (355)
Q Consensus        37 ~k~~p~~~~~~vg~~~~~~~l~~~l~~-------------~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~  103 (355)
                      ....+.+|++++|++.+++.|.+.+..             ....++||+||||||||++|+++++.+     +..++.++
T Consensus         9 ~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~-----~~~~~~v~   83 (285)
T 3h4m_A            9 DERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATET-----NATFIRVV   83 (285)
T ss_dssp             ESSCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHT-----TCEEEEEE
T ss_pred             cCCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHh-----CCCEEEEe
Confidence            344456899999999999999888743             233449999999999999999999997     33556666


Q ss_pred             CCCccc--h----HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCC-----------CHHHHHHHHHHhhh---
Q psy17903        104 ASDDRG--I----QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM-----------THAAQAALRRTMEK---  163 (355)
Q Consensus       104 ~~~~~~--~----~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l-----------~~~~~~~Ll~~le~---  163 (355)
                      +.+...  .    ..+...+......             ...+|||||+|.+           ....+..|..+++.   
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~  150 (285)
T 3h4m_A           84 GSELVKKFIGEGASLVKDIFKLAKEK-------------APSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDG  150 (285)
T ss_dssp             GGGGCCCSTTHHHHHHHHHHHHHHHT-------------CSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHT
T ss_pred             hHHHHHhccchHHHHHHHHHHHHHHc-------------CCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhC
Confidence            544211  1    1222222222211             2249999999987           33455566555543   


Q ss_pred             --ccCCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHH
Q psy17903        164 --ETKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAIT  237 (355)
Q Consensus       164 --~~~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~  237 (355)
                        ....+++|+++|.+..+.+++.+  |+. .+.|++|+.++..++++..+...+.. .+..+..++..+.| +.+.+.+
T Consensus       151 ~~~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~  229 (285)
T 3h4m_A          151 FDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLA-EDVNLEEIAKMTEGCVGAELKA  229 (285)
T ss_dssp             TCSSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHHCTTCCHHHHHH
T ss_pred             CCCCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCC-CcCCHHHHHHHcCCCCHHHHHH
Confidence              33467888899999989999988  775 79999999999999999988765543 23346777777766 5556666


Q ss_pred             HHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        238 CLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       238 ~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      .++.+...+   +...|+.+++.+++.
T Consensus       230 l~~~a~~~a~~~~~~~I~~~d~~~al~  256 (285)
T 3h4m_A          230 ICTEAGMNAIRELRDYVTMDDFRKAVE  256 (285)
T ss_dssp             HHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCcCCHHHHHHHHH
Confidence            665554443   556799999988764

>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=99.84  E-value=2.9e-19  Score=157.50  Aligned_cols=203  Identities=15%  Similarity=0.081  Sum_probs=136.8

Q ss_pred             CCCCCcccccHHHHHHHHHHHhc------------CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc
Q psy17903         41 PKTIDDVIEQQEVVSVLKKCLSG------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~l~~------------~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  108 (355)
                      +.+|++++|++.+++.+.+++..            ....++||+||||+|||++|+++++.+.     .+++.+++.+..
T Consensus         2 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~-----~~~~~~~~~~~~   76 (262)
T 2qz4_A            2 GVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQ-----VPFLAMAGAEFV   76 (262)
T ss_dssp             CCCTTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHT-----CCEEEEETTTTS
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhC-----CCEEEechHHHH
Confidence            35799999999999888876631            1223499999999999999999999983     356677766532


Q ss_pred             c------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH------------HHH---HHHHHHhhh--cc
Q psy17903        109 G------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH------------AAQ---AALRRTMEK--ET  165 (355)
Q Consensus       109 ~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~------------~~~---~~Ll~~le~--~~  165 (355)
                      .      ...+...+......             ...+|||||+|.+..            ..+   +.|+..++.  ..
T Consensus        77 ~~~~~~~~~~~~~~~~~a~~~-------------~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~  143 (262)
T 2qz4_A           77 EVIGGLGAARVRSLFKEARAR-------------APCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTT  143 (262)
T ss_dssp             SSSTTHHHHHHHHHHHHHHHT-------------CSEEEEEECC-------------------CHHHHHHHHHHHTCCTT
T ss_pred             hhccChhHHHHHHHHHHHHhc-------------CCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCC
Confidence            1      12233333322211             224999999999842            222   334444443  23


Q ss_pred             CCccEEEEecCCccccccccC--Ce-eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCC-HHHHHHHHH
Q psy17903        166 KSTRFCLICNYVSCIIQPLTS--RC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKA-LETLVETSGGD-MRRAITCLQ  240 (355)
Q Consensus       166 ~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~l~~~~~g~-~r~~~~~l~  240 (355)
                      ..+++|+++|.+..+.+++.+  |+ ..+.|++|+.++..++++..+...+...+.+. ...++..+.|. .+.+.+.++
T Consensus       144 ~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l~~  223 (262)
T 2qz4_A          144 DHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICN  223 (262)
T ss_dssp             CCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHHHH
Confidence            467888889988888899988  88 48999999999999999999998888777664 57788888775 457777777


Q ss_pred             HHHHhh---CCCCCCHHHHHHHhC
Q psy17903        241 SCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       241 ~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      .++..+   +...|+.+++.+++.
T Consensus       224 ~a~~~a~~~~~~~i~~~d~~~a~~  247 (262)
T 2qz4_A          224 EAALHAAREGHTSVHTLNFEYAVE  247 (262)
T ss_dssp             HHHTC--------CCBCCHHHHHH
T ss_pred             HHHHHHHHcCCCCCCHHHHHHHHH
Confidence            666554   245677777766553

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.83  E-value=3.3e-19  Score=165.87  Aligned_cols=210  Identities=20%  Similarity=0.245  Sum_probs=145.1

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhc-----------C-CCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccce
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------A-DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERI   99 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----------~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~   99 (355)
                      .+..++-...+|+++.|.+++++.|.+.+.-           | ..|. +|||||||||||++|+++|+++     +.++
T Consensus       160 ~~~~~~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~-----~~~~  234 (428)
T 4b4t_K          160 VMGENEKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANST-----KAAF  234 (428)
T ss_dssp             CCEEESSCSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHH-----TCEE
T ss_pred             hccCCCCCCCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCe
Confidence            3344443445899999999999999887631           2 2333 9999999999999999999998     4567


Q ss_pred             eeecCCCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------------HHHHHHHH
Q psy17903        100 LELNASDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRR  159 (355)
Q Consensus       100 ~~~~~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------------~~~~~Ll~  159 (355)
                      +.+++++..+      ...++..+.......         |    -+|||||+|.+..              ...+.|+.
T Consensus       235 ~~v~~~~l~~~~~Ge~e~~ir~lF~~A~~~a---------P----~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~  301 (428)
T 4b4t_K          235 IRVNGSEFVHKYLGEGPRMVRDVFRLARENA---------P----SIIFIDEVDSIATKRFDAQTGSDREVQRILIELLT  301 (428)
T ss_dssp             EEEEGGGTCCSSCSHHHHHHHHHHHHHHHTC---------S----EEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHH
T ss_pred             EEEecchhhccccchhHHHHHHHHHHHHHcC---------C----CeeechhhhhhhccccCCCCCCChHHHHHHHHHHH
Confidence            7777665321      234454444433321         1    2999999986621              23466777


Q ss_pred             Hhhh--ccCCccEEEEecCCccccccccC--Cee-eEEec-CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Q psy17903        160 TMEK--ETKSTRFCLICNYVSCIIQPLTS--RCS-KFRFK-PLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DM  232 (355)
Q Consensus       160 ~le~--~~~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~  232 (355)
                      .|+.  ...++++|++||.++.+++++.+  |+. .|+|+ .|+.++...+++.++++..+. ++..++.++..+.| +.
T Consensus       302 ~ldg~~~~~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~-~~~dl~~lA~~t~G~sg  380 (428)
T 4b4t_K          302 QMDGFDQSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLA-PEADLDSLIIRNDSLSG  380 (428)
T ss_dssp             HHHHSCSSCSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBC-TTCCHHHHHHHTTTCCH
T ss_pred             HhhCCCCCCCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCC-cccCHHHHHHHCCCCCH
Confidence            7764  34567889999999999999988  444 68895 789999999999888765432 12237888888866 34


Q ss_pred             HHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        233 RRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       233 r~~~~~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      +.+.+.+..++..+   +...|+.+|+.+++.
T Consensus       381 adi~~l~~eA~~~a~r~~~~~i~~~d~~~A~~  412 (428)
T 4b4t_K          381 AVIAAIMQEAGLRAVRKNRYVILQSDLEEAYA  412 (428)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH
Confidence            44444454444433   556799999987753

>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=99.83  E-value=2.2e-19  Score=170.00  Aligned_cols=194  Identities=14%  Similarity=0.155  Sum_probs=143.7

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHh----------c-CCC-CeEEEECCCCCCHHHHHHHHHHHhcCCcccccee
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLS----------G-ADL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERIL  100 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~----------~-~~~-~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~  100 (355)
                      ..+..++.+.+|++++|++.+++.|.+.+.          . ... .++||+||||||||++|+++++.+.    ..+++
T Consensus       122 ~~i~~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~----~~~~~  197 (444)
T 2zan_A          122 GAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN----NSTFF  197 (444)
T ss_dssp             --CBCCCCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCC----SSEEE
T ss_pred             cceeccCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcC----CCCEE
Confidence            455667888899999999999999998872          1 122 3499999999999999999999973    23566


Q ss_pred             eecCCCccch------HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC-----------HHHHHHHHHHhhh
Q psy17903        101 ELNASDDRGI------QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT-----------HAAQAALRRTMEK  163 (355)
Q Consensus       101 ~~~~~~~~~~------~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~-----------~~~~~~Ll~~le~  163 (355)
                      .+++++....      ..++..+......             ...||||||+|.+.           ...++.|+..++.
T Consensus       198 ~v~~~~l~~~~~g~~~~~~~~~f~~a~~~-------------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~  264 (444)
T 2zan_A          198 SISSSDLVSKWLGESEKLVKNLFQLAREN-------------KPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQG  264 (444)
T ss_dssp             EECCC---------CCCTHHHHHHHHHHS-------------CSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTC
T ss_pred             EEeHHHHHhhhcchHHHHHHHHHHHHHHc-------------CCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhC
Confidence            6776543211      1233333222211             23499999999983           2456778877765


Q ss_pred             ---ccCCccEEEEecCCccccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHH
Q psy17903        164 ---ETKSTRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITC  238 (355)
Q Consensus       164 ---~~~~~~~Il~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~  238 (355)
                         ....++||++||.++.+.+++++||. .+.++.|+.++...+++.++...+..+++..++.|+..+.| +.+.+.+.
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               35678889999999999999999995 88999999999999999999887777899999999999988 55555555


Q ss_pred             HHHHH
Q psy17903        239 LQSCA  243 (355)
Q Consensus       239 l~~~~  243 (355)
                      ++.++
T Consensus       345 ~~~a~  349 (444)
T 2zan_A          345 VRDAL  349 (444)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55544

>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=99.83  E-value=4e-20  Score=168.38  Aligned_cols=202  Identities=16%  Similarity=0.200  Sum_probs=144.4

Q ss_pred             CCCccc-c--cHHHHHHHHHHHhcCC--CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHH
Q psy17903         43 TIDDVI-E--QQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV  117 (355)
Q Consensus        43 ~~~~~v-g--~~~~~~~l~~~l~~~~--~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i  117 (355)
                      +|++++ |  +......+..++....  .++++|+||+|+|||++++++++.+...  ...++.+++.+.  ...+...+
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            688887 4  4555667777776643  3459999999999999999999988543  335667766442  11111111


Q ss_pred             H-----HHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--HHHHHHHHHhhhc-cCCccEEEEecCC-c---ccccccc
Q psy17903        118 K-----TFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKE-TKSTRFCLICNYV-S---CIIQPLT  185 (355)
Q Consensus       118 ~-----~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--~~~~~Ll~~le~~-~~~~~~Il~~~~~-~---~l~~~l~  185 (355)
                      .     .+.... .          ...+|||||++.+..  ..++.++..++.. .....+|++++.. .   .+.+++.
T Consensus        85 ~~~~~~~~~~~~-~----------~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~  153 (324)
T 1l8q_A           85 KKGTINEFRNMY-K----------SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLV  153 (324)
T ss_dssp             HHTCHHHHHHHH-H----------TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHH
T ss_pred             HcCcHHHHHHHh-c----------CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhh
Confidence            1     111100 0          124999999999986  6677787777643 2334566666543 3   4778999


Q ss_pred             CCe---eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-------hCCCCC-CHH
Q psy17903        186 SRC---SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL-------KGGEGI-VNE  254 (355)
Q Consensus       186 sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~-------~~~~~I-t~~  254 (355)
                      +|+   ..++|++ +.++...+++..+...++.+++++++.++..+ ||+|.+.+.++.+..+       .+...| |.+
T Consensus       154 sR~~~~~~i~l~~-~~~e~~~il~~~~~~~~~~l~~~~l~~l~~~~-g~~r~l~~~l~~~~~~~~~~l~~~~~~~i~t~~  231 (324)
T 1l8q_A          154 SRFEGGILVEIEL-DNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-KNVREIEGKIKLIKLKGFEGLERKERKERDKLM  231 (324)
T ss_dssp             HHHHTSEEEECCC-CHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-SSHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHH
T ss_pred             hcccCceEEEeCC-CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhC-CCHHHHHHHHHHHHHcCHHHhccccccCCCCHH
Confidence            998   6899999 99999999999999999999999999999999 9999999999998876       112245 666


Q ss_pred             HHHHHhC
Q psy17903        255 DVLEVTG  261 (355)
Q Consensus       255 ~v~~~~~  261 (355)
                      ++.+++.
T Consensus       232 ~i~~~~~  238 (324)
T 1l8q_A          232 QIVEFVA  238 (324)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6665543

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.83  E-value=3.3e-20  Score=169.43  Aligned_cols=219  Identities=15%  Similarity=0.122  Sum_probs=155.2

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHH
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQV  112 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  112 (355)
                      .+|.++++|..+++++|+++++..+...+..+  .+++|+||||+|||++|+++++.+..     .+..+++........
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            36899999999999999999999998888765  37999999999999999999998843     345555532222111


Q ss_pred             HHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc-----------cCCccEEEEecCCc---
Q psy17903        113 IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-----------TKSTRFCLICNYVS---  178 (355)
Q Consensus       113 i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~-----------~~~~~~Il~~~~~~---  178 (355)
                      +......-......... .+..  ...++||||++.++++.++.|+..+++.           +..+++|.++|...   
T Consensus        88 l~g~~~~~~~~~~~~~~-~g~l--~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np~~~~~  164 (331)
T 2r44_A           88 LIGTMIYNQHKGNFEVK-KGPV--FSNFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNPVEQEG  164 (331)
T ss_dssp             HHEEEEEETTTTEEEEE-ECTT--CSSEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECTTCCSC
T ss_pred             cCCceeecCCCCceEec-cCcc--cccEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCCCcccC
Confidence            11000000000000000 0000  1249999999999999999999999864           33455665666332   


Q ss_pred             --cccccccCCee-eEEecCCCHHHHHHHHHHHHHH----------------------cCCCCCHHHHHHHHHHc-----
Q psy17903        179 --CIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQ----------------------ESVMCDFKALETLVETS-----  228 (355)
Q Consensus       179 --~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~----------------------~~~~~~~~~~~~l~~~~-----  228 (355)
                        .+.+++.+||. .+.+.+|+.++..++++..+..                      .++.+++++++++++.+     
T Consensus       165 ~~~l~~~l~~Rf~~~i~i~~p~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~v~~~~~~~~~i~~~~~~~r~  244 (331)
T 2r44_A          165 TYPLPEAQVDRFMMKIHLTYLDKESELEVMRRVSNMNFNYQVQKIVSKNDVLEIRNEINKVTISESLEKYIIELVFATRF  244 (331)
T ss_dssp             CCCCCHHHHTTSSEEEECCCCCHHHHHHHHHHHHCTTCCCCCCCCSCHHHHHHHHHHHHTCBCCHHHHHHHHHHHHHHHS
T ss_pred             cccCCHHHHhheeEEEEcCCCCHHHHHHHHHhccccCcchhccccCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhc
Confidence              37899999998 5999999999999999988754                      26778999999987654     


Q ss_pred             CC---------------CHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        229 GG---------------DMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       229 ~g---------------~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      .+               ++|.+.+.++.+..++   +...|+.+++.+++.
T Consensus       245 ~~~~~~~~~~~~~~~~~s~R~~~~ll~~a~a~A~l~g~~~v~~~dv~~~~~  295 (331)
T 2r44_A          245 PAEYGLEAEASYILYGASTRAAINLNRVAKAMAFFNNRDYVLPEDIKEVAY  295 (331)
T ss_dssp             GGGGTCHHHHHHEEECCCHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHHH
T ss_pred             cccccccccccccccCcChhHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            22               6999988887665443   556799999988653

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.82  E-value=1e-19  Score=173.42  Aligned_cols=196  Identities=16%  Similarity=0.201  Sum_probs=143.3

Q ss_pred             CCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-----cccceeeecC
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNA  104 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~  104 (355)
                      .....|.++|+|..|++++|++..+..+.+.+.....+++||+||||||||++|+++++.+....     .+..++.+++
T Consensus       165 ~~~~~l~~~~r~~~ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~  244 (468)
T 3pxg_A          165 SLARDLTAIAKEDSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM  244 (468)
T ss_dssp             SSCCBHHHHTTSSCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC--
T ss_pred             HHHHHHHHHHhcCCCCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeC
Confidence            34678999999999999999999999999999887777899999999999999999999985422     2345666666


Q ss_pred             CCc-cc--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCc---
Q psy17903        105 SDD-RG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVS---  178 (355)
Q Consensus       105 ~~~-~~--~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~---  178 (355)
                      ... .+  ...+...+......             +..+||||    ...+.++.|+..|++  ..+++|++||...   
T Consensus       245 ~~~~~g~~e~~~~~~~~~~~~~-------------~~~iLfiD----~~~~a~~~L~~~L~~--g~v~vI~at~~~e~~~  305 (468)
T 3pxg_A          245 GTKYRGEFEDRLKKVMDEIRQA-------------GNIILFID----AAIDASNILKPSLAR--GELQCIGATTLDEYRK  305 (468)
T ss_dssp             --------CTTHHHHHHHHHTC-------------CCCEEEEC----C--------CCCTTS--SSCEEEEECCTTTTHH
T ss_pred             CccccchHHHHHHHHHHHHHhc-------------CCeEEEEe----CchhHHHHHHHhhcC--CCEEEEecCCHHHHHH
Confidence            511 11  12233333333211             22399999    455677888888884  4678888888765   


Q ss_pred             --cccccccCCeeeEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCCC------HHHHHHHHHHHHH
Q psy17903        179 --CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGGD------MRRAITCLQSCAR  244 (355)
Q Consensus       179 --~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~g~------~r~~~~~l~~~~~  244 (355)
                        .+.+++.+||..+.|++|+.++...+++.++..    .++.++++++..++..+.+.      ++++++.++.++.
T Consensus       306 ~~~~~~al~~Rf~~i~v~~p~~e~~~~iL~~~~~~~~~~~~~~i~~~al~~l~~~s~~~~~~~~lp~~ai~ll~~a~~  383 (468)
T 3pxg_A          306 YIEKDAALERRFQPIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGS  383 (468)
T ss_dssp             HHTTCSHHHHSEEEEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHHH
T ss_pred             HhhcCHHHHHhCccceeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhccCcCCcHHHHHHHHHHH
Confidence              478999999999999999999999999988766    78899999999998876433      5678888877654

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.82  E-value=6.1e-19  Score=158.09  Aligned_cols=198  Identities=8%  Similarity=0.075  Sum_probs=138.2

Q ss_pred             ccccHHHHHHHHHH----HhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCC-----ccccceeeecCCCccchHHHH-HH
Q psy17903         47 VIEQQEVVSVLKKC----LSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD-----MYRERILELNASDDRGIQVIR-DK  116 (355)
Q Consensus        47 ~vg~~~~~~~l~~~----l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~-----~~~~~~~~~~~~~~~~~~~i~-~~  116 (355)
                      +.|+++.+..|...    +..+..++++|+||||||||++++.+++++...     ...+.++++||........+. ..
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I  101 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKI  101 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHH
Confidence            77888777766544    556777779999999999999999999998532     124578899987754433222 22


Q ss_pred             HHHHHHhhccC----------CCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc---cCCccEEEEecCCcc----
Q psy17903        117 VKTFAQQTASG----------FNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE---TKSTRFCLICNYVSC----  179 (355)
Q Consensus       117 i~~~~~~~~~~----------~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~---~~~~~~Il~~~~~~~----  179 (355)
                      ..++.......          ............||+|||+|.+.  .|+.|+.+++.+   ...+.+|+++|..+.    
T Consensus       102 ~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~--~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~~~~  179 (318)
T 3te6_A          102 WFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL--SEKILQYFEKWISSKNSKLSIICVGGHNVTIREQ  179 (318)
T ss_dssp             HHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC--CTHHHHHHHHHHHCSSCCEEEEEECCSSCCCHHH
T ss_pred             HHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh--cchHHHHHHhcccccCCcEEEEEEecCcccchhh
Confidence            22221000000          00000000134599999999998  667777777642   345678888887542    


Q ss_pred             ccccccCCe--eeEEecCCCHHHHHHHHHHHHHHcCC-----------------------------------CCCHHHHH
Q psy17903        180 IIQPLTSRC--SKFRFKPLAENTMLTRLQYICEQESV-----------------------------------MCDFKALE  222 (355)
Q Consensus       180 l~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~~~~-----------------------------------~~~~~~~~  222 (355)
                      +.++++||+  ..+.|+|++.+|+.+++++++....-                                   .+++++++
T Consensus       180 L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~ai~  259 (318)
T 3te6_A          180 INIMPSLKAHFTEIKLNKVDKNELQQMIITRLKSLLKPFHVKVNDKKEMTIYNNIREGQNQKIPDNVIVINHKINNKITQ  259 (318)
T ss_dssp             HHTCHHHHTTEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECTTCCEEECCCC--------CTTEEEECEECCHHHHH
T ss_pred             cchhhhccCCceEEEeCCCCHHHHHHHHHHHHHhhhccccccccccccccccccccccccccccccccccccccCHHHHH
Confidence            557788887  57999999999999999999986321                                   36999999


Q ss_pred             HHHH---HcCCCHHHHHHHHHHHHHhh
Q psy17903        223 TLVE---TSGGDMRRAITCLQSCARLK  246 (355)
Q Consensus       223 ~l~~---~~~g~~r~~~~~l~~~~~~~  246 (355)
                      .+++   ...||+|++++.|+.+...+
T Consensus       260 ~~A~~vA~~~GD~R~Al~ilr~A~~~a  286 (318)
T 3te6_A          260 LIAKNVANVSGSTEKAFKICEAAVEIS  286 (318)
T ss_dssp             HHHHHHHHHHCSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhCChHHHHHHHHHHHHHHH
Confidence            9998   46899999999999988765

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.81  E-value=5.7e-19  Score=158.89  Aligned_cols=211  Identities=15%  Similarity=0.153  Sum_probs=144.6

Q ss_pred             CcccccHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHH
Q psy17903         45 DDVIEQQEVVSVLKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQ  122 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~--~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~  122 (355)
                      ++++|++..+..+.+.+..  ....++||+||+|||||++|+++++.....  ..+++.+||+.... ..+...+.....
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            4689999988888877754  223349999999999999999999986432  34678888876422 111111100000


Q ss_pred             hhccCCCCCCCCC----CCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-------ccc
Q psy17903        123 QTASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SCI  180 (355)
Q Consensus       123 ~~~~~~~~~~~~~----~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-------~~l  180 (355)
                      ....+... ....    ++..+|||||++.++.+.|..|++.+++..           .++++|++||..       ..+
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 GAFTGADK-RREGRFVEADGGTLFLDEIGDISPLMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAEEVSAGRF  157 (304)
T ss_dssp             SCCC---C-CCCCHHHHHTTSEEEEESCTTCCHHHHHHHHHHHHSSBCCBTTBCCCCBCCCEEEEEESSCHHHHHHHTSS
T ss_pred             cccCchhh-hhcCHHHhcCCCEEEEeccccCCHHHHHHHHHHHhcCEeeecCCcccccCCeEEEEecCccHHHHHHhCCc
Confidence            00000000 0000    234599999999999999999999998753           457899999864       234


Q ss_pred             cccccCCee--eEEecCCC--HHHHHHHHHHHHH----HcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCC
Q psy17903        181 IQPLTSRCS--KFRFKPLA--ENTMLTRLQYICE----QES---VMCDFKALETLVETS-GGDMRRAITCLQSCARLKGG  248 (355)
Q Consensus       181 ~~~l~sr~~--~i~~~~~~--~~~~~~~l~~~~~----~~~---~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~~~  248 (355)
                      .+.|..|+.  .++++|+.  .+++..++...+.    ..+   ..+++++++.|..++ +||+|.+.+.++.+...+.+
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            567777864  56677777  4666666555443    333   568999999999886 99999999999999888777


Q ss_pred             CCCCHHHHHHH
Q psy17903        249 EGIVNEDVLEV  259 (355)
Q Consensus       249 ~~It~~~v~~~  259 (355)
                      ..|+.+++...
T Consensus       238 ~~i~~~~l~~~  248 (304)
T 1ojl_A          238 EYISERELPLA  248 (304)
T ss_dssp             SSBCGGGSCGG
T ss_pred             CcccHHhhhhh
Confidence            78888877543

>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=99.81  E-value=1.1e-18  Score=164.90  Aligned_cols=207  Identities=22%  Similarity=0.232  Sum_probs=148.2

Q ss_pred             cccc-cCCCCCCcccccHHHHHHHHHHHhc-----------CCCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceee
Q psy17903         35 WVEK-YRPKTIDDVIEQQEVVSVLKKCLSG-----------ADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILE  101 (355)
Q Consensus        35 ~~~k-~~p~~~~~~vg~~~~~~~l~~~l~~-----------~~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~  101 (355)
                      |.+. ..+.+|++++|++.++..+.+.+..           ...+ +++|+||||||||++|++++..+     +.+++.
T Consensus         5 ~~~~~~~~~~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~-----~~~f~~   79 (476)
T 2ce7_A            5 YKPSGNKRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA-----NVPFFH   79 (476)
T ss_dssp             CCCCCSCCCCGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH-----TCCEEE
T ss_pred             eccCCCCCCCHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc-----CCCeee
Confidence            4444 3445899999999999888876532           2233 49999999999999999999987     345667


Q ss_pred             ecCCCcc------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------------HHHHHHHHHh
Q psy17903        102 LNASDDR------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTM  161 (355)
Q Consensus       102 ~~~~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------------~~~~~Ll~~l  161 (355)
                      +++++..      +...++..+......             ...+|||||+|.+..              ..++.|+..|
T Consensus        80 is~~~~~~~~~g~~~~~~r~lf~~A~~~-------------~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~l  146 (476)
T 2ce7_A           80 ISGSDFVELFVGVGAARVRDLFAQAKAH-------------APCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEM  146 (476)
T ss_dssp             EEGGGTTTCCTTHHHHHHHHHHHHHHHT-------------CSEEEEEETGGGTCCC---------CHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHhcccHHHHHHHHHHHHhc-------------CCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHH
Confidence            7665432      112333333332221             124999999998843              2356677777


Q ss_pred             hh--ccCCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCCCH-HH
Q psy17903        162 EK--ETKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVETSGGDM-RR  234 (355)
Q Consensus       162 e~--~~~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~~~~l~~~~~g~~-r~  234 (355)
                      +.  ....+++|.+||.++.+.+++.+  |+. .+.+++|+.++..++++..++...  +.++ .+..++..++|+. +.
T Consensus       147 d~~~~~~~viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~--l~~~v~l~~la~~t~G~sgad  224 (476)
T 2ce7_A          147 DGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKP--LAEDVNLEIIAKRTPGFVGAD  224 (476)
T ss_dssp             HHSCGGGTEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSC--BCTTCCHHHHHHTCTTCCHHH
T ss_pred             hccCCCCCEEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCC--CcchhhHHHHHHhcCCCcHHH
Confidence            63  24567888899999889888876  554 789999999999999988876543  3332 3777899999987 78


Q ss_pred             HHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        235 AITCLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       235 ~~~~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      +.+.++.++..+   +...|+.+++.+++.
T Consensus       225 L~~lv~~Aal~A~~~~~~~I~~~dl~~al~  254 (476)
T 2ce7_A          225 LENLVNEAALLAAREGRDKITMKDFEEAID  254 (476)
T ss_dssp             HHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCeecHHHHHHHHH
Confidence            888888776655   346799999987764

>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=99.81  E-value=3.4e-19  Score=163.82  Aligned_cols=220  Identities=13%  Similarity=0.086  Sum_probs=144.1

Q ss_pred             CCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC------Ccccc----------------
Q psy17903         40 RPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG------DMYRE----------------   97 (355)
Q Consensus        40 ~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~------~~~~~----------------   97 (355)
                      +|.+|++++|++.++..+...+......++||+||||||||++|+++++.+..      ..++.                
T Consensus        19 ~~~~f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (350)
T 1g8p_A           19 PVFPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTN   98 (350)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCSCCC
T ss_pred             CCCCchhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCccccccccccccccccccccchhhhhccc
Confidence            56789999999998877666554444456999999999999999999998753      11100                


Q ss_pred             ------ceeeecCCCccchHHHHHH--HHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc-----
Q psy17903         98 ------RILELNASDDRGIQVIRDK--VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-----  164 (355)
Q Consensus        98 ------~~~~~~~~~~~~~~~i~~~--i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~-----  164 (355)
                            .++.+....  ....+...  +..................+...+|||||++.++.+.++.|+..+++.     
T Consensus        99 ~~~~~~~~~~~~~~~--~~~~l~g~~~~~~~~~~~~~~~~~g~~~~a~~~vl~iDEi~~l~~~~~~~Ll~~le~~~~~~~  176 (350)
T 1g8p_A           99 VIRKPTPVVDLPLGV--SEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENVVE  176 (350)
T ss_dssp             EEEECCCEEEECTTC--CHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSEEEEC
T ss_pred             cccCCCcccccCCCc--chhhheeechhhhhhcCCceeecCceeeecCCCEEEEeChhhCCHHHHHHHHHHHhcCceEEE
Confidence                  111111100  01111100  000000000000000000012469999999999999999999999864     


Q ss_pred             --------cCCccEEEEecCCc-cccccccCCeee-EEecCCC-HHHHHHHHHHH-------------------------
Q psy17903        165 --------TKSTRFCLICNYVS-CIIQPLTSRCSK-FRFKPLA-ENTMLTRLQYI-------------------------  208 (355)
Q Consensus       165 --------~~~~~~Il~~~~~~-~l~~~l~sr~~~-i~~~~~~-~~~~~~~l~~~-------------------------  208 (355)
                              +..+++|+++|... .+.+++.+||.. +.+++|+ .++..+++..+                         
T Consensus       177 ~~g~~~~~~~~~~li~~~n~~~~~l~~~L~~R~~~~~~l~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~i  256 (350)
T 1g8p_A          177 RDGLSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQI  256 (350)
T ss_dssp             CTTCCEEEECCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHH
T ss_pred             ecceEEeeCCceEEEEEeCCCCCCCCHHHHhhcceEEEcCCCCcHHHHHHHHHHHHhcccCchhhccccccchHHHHHHH
Confidence                    23567787888644 788999999975 9999995 54444665442                         


Q ss_pred             ----HHHcCCCCCHHHHHHHHHHcCC----CHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        209 ----CEQESVMCDFKALETLVETSGG----DMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       209 ----~~~~~~~~~~~~~~~l~~~~~g----~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                          ....++.+++++++.|++.+.+    ++|.+.+.++.+..++   +...|+.+++.+++.
T Consensus       257 ~~~~~~~~~~~ls~~~~~~l~~~~~~~~~~~~R~~~~ll~~a~~~A~~~~~~~v~~~~v~~a~~  320 (350)
T 1g8p_A          257 LEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARALAALEGATAVGRDHLKRVAT  320 (350)
T ss_dssp             HHHHHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHHH
T ss_pred             HHHHHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence                2234568999999999988755    8999999998776554   445699999987664

>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=99.81  E-value=1.9e-19  Score=159.19  Aligned_cols=212  Identities=17%  Similarity=0.183  Sum_probs=139.1

Q ss_pred             CCCcccccHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHH
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~--~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  120 (355)
                      +|++++|++..+..+.+.+..  ....+++|+||+|||||++|+++++.+...  ..+++.++++... .+.+...+...
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            689999999888877766643  222459999999999999999999987433  2467888887642 22221111100


Q ss_pred             HHhhccCCC--CCCC-CCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc-----------cCCccEEEEecCC-------cc
Q psy17903        121 AQQTASGFN--QDGK-PCPPFKIVILDEADSMTHAAQAALRRTMEKE-----------TKSTRFCLICNYV-------SC  179 (355)
Q Consensus       121 ~~~~~~~~~--~~~~-~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~-----------~~~~~~Il~~~~~-------~~  179 (355)
                      ......+..  ..+. ..++..+|||||++.++.+.|+.|+..+++.           +.++++|+++|..       ..
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 0013459999999999999999999999864           3467899999864       23


Q ss_pred             ccccccCCee--eEEecCCCH--HHHHHHHHH----HHHHcCC----CCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhh
Q psy17903        180 IIQPLTSRCS--KFRFKPLAE--NTMLTRLQY----ICEQESV----MCDFKALETLVETS-GGDMRRAITCLQSCARLK  246 (355)
Q Consensus       180 l~~~l~sr~~--~i~~~~~~~--~~~~~~l~~----~~~~~~~----~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~  246 (355)
                      +.+.+.+|+.  .+.++++..  +++..++..    .+...+.    .+++++++.|.... +||+|.+.+.++.+...+
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            5678888885  577777765  566655444    3444454    68999999998764 999999999999998877


Q ss_pred             CCCCCCHHHHH
Q psy17903        247 GGEGIVNEDVL  257 (355)
Q Consensus       247 ~~~~It~~~v~  257 (355)
                      .+..|+.+++.
T Consensus       241 ~~~~i~~~~l~  251 (265)
T 2bjv_A          241 GTSDYPLDDII  251 (265)
T ss_dssp             CCSSSCBCCCC
T ss_pred             CCCcCcHHHcc
Confidence            76778776653

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.80  E-value=4.4e-19  Score=160.38  Aligned_cols=186  Identities=16%  Similarity=0.243  Sum_probs=140.4

Q ss_pred             CcccccHHHHHHHHHHHhcCC--------CC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHH
Q psy17903         45 DDVIEQQEVVSVLKKCLSGAD--------LP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~~--------~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~  115 (355)
                      ++++|++.+++.+...+..+.        .. +++|+||+|||||++|+++++.+.....  .++.++++..........
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            468899999999988886531        22 4999999999999999999999865432  466666654332221111


Q ss_pred             HH---------------HHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCcc
Q psy17903        116 KV---------------KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTR  169 (355)
Q Consensus       116 ~i---------------~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~  169 (355)
                      .+               ......            ..+.+|||||+|.++.+.++.|++.|+++.           .+++
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               111110            134699999999999999999999998754           3566


Q ss_pred             EEEEecC--------------------------CccccccccCCe-eeEEecCCCHHHHHHHHHHHHHHc---------C
Q psy17903        170 FCLICNY--------------------------VSCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQE---------S  213 (355)
Q Consensus       170 ~Il~~~~--------------------------~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~---------~  213 (355)
                      +|+++|.                          ...+.+++.+|+ ..+.|.||+.+++..++...+.+.         .
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            8999987                          345778899999 589999999999999998876642         3


Q ss_pred             CCCCHHHHHHHHHHc---CCCHHHHHHHHHHHHH
Q psy17903        214 VMCDFKALETLVETS---GGDMRRAITCLQSCAR  244 (355)
Q Consensus       214 ~~~~~~~~~~l~~~~---~g~~r~~~~~l~~~~~  244 (355)
                      ..+++++++.|++.+   +||+|.+.+.++.+..
T Consensus       243 ~~~~~~~~~~l~~~~~~~~gn~R~L~~~i~~~~~  276 (311)
T 4fcw_A          243 LELTEAAKDFLAERGYDPVFGARPLRRVIQRELE  276 (311)
T ss_dssp             EEECHHHHHHHHHHSCBTTTBTTTHHHHHHHHTH
T ss_pred             EEeCHHHHHHHHHhCCCccCCchhHHHHHHHHHH
Confidence            568999999999865   5999999999987665

>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=99.79  E-value=2.2e-18  Score=155.08  Aligned_cols=188  Identities=19%  Similarity=0.182  Sum_probs=130.3

Q ss_pred             cccCCCCCCcccccHHHHHHHHHHHhc-----------C-CCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeec
Q psy17903         37 EKYRPKTIDDVIEQQEVVSVLKKCLSG-----------A-DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (355)
Q Consensus        37 ~k~~p~~~~~~vg~~~~~~~l~~~l~~-----------~-~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~  103 (355)
                      .++.+.+|++++|.+.+++.|.+++..           + ..+ +++|+||||||||++|+++++.+.     .+++.++
T Consensus         7 ~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~-----~~~i~v~   81 (301)
T 3cf0_A            7 VEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQ-----ANFISIK   81 (301)
T ss_dssp             EECCCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTT-----CEEEEEC
T ss_pred             ccCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhC-----CCEEEEE
Confidence            345667899999999999999888753           1 223 399999999999999999999973     4566776


Q ss_pred             CCCcc------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH--------------HHHHHHHHhhh
Q psy17903        104 ASDDR------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTMEK  163 (355)
Q Consensus       104 ~~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~--------------~~~~Ll~~le~  163 (355)
                      +++..      ....++..+......             ...+|||||+|.+...              .++.|+..++.
T Consensus        82 ~~~l~~~~~g~~~~~~~~~f~~a~~~-------------~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~  148 (301)
T 3cf0_A           82 GPELLTMWFGESEANVREIFDKARQA-------------APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDG  148 (301)
T ss_dssp             HHHHHHHHHTTCTTHHHHHHHHHHHT-------------CSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHS
T ss_pred             hHHHHhhhcCchHHHHHHHHHHHHhc-------------CCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhc
Confidence            54321      111223333322211             2249999999987653              35778888874


Q ss_pred             --ccCCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHH
Q psy17903        164 --ETKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAIT  237 (355)
Q Consensus       164 --~~~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~  237 (355)
                        ...++++|++||.++.+.+++.+  |+. .+.|+.|+.++..++++..++..+.. .+..++.++..+.| +.+.+.+
T Consensus       149 ~~~~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~-~~~~~~~la~~~~g~sg~dl~~  227 (301)
T 3cf0_A          149 MSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTE  227 (301)
T ss_dssp             SCTTSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBC-SSCCHHHHHHTCSSCCHHHHHH
T ss_pred             ccCCCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCC-ccchHHHHHHHcCCCCHHHHHH
Confidence              24568889999999999999887  774 79999999999999999988776543 12234556666644 3345555


Q ss_pred             HHHHHH
Q psy17903        238 CLQSCA  243 (355)
Q Consensus       238 ~l~~~~  243 (355)
                      .++.++
T Consensus       228 l~~~a~  233 (301)
T 3cf0_A          228 ICQRAC  233 (301)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            554443

>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=99.78  E-value=7.5e-20  Score=161.99  Aligned_cols=210  Identities=17%  Similarity=0.169  Sum_probs=142.5

Q ss_pred             cccCCCCCCcccccHHHHHHHHHHHh-----------cCCCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC
Q psy17903         37 EKYRPKTIDDVIEQQEVVSVLKKCLS-----------GADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (355)
Q Consensus        37 ~k~~p~~~~~~vg~~~~~~~l~~~l~-----------~~~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  104 (355)
                      .++.+.+|++++|++.+++.+.+.+.           +...+ +++|+||||||||++|+++++.+..     +++.+++
T Consensus         3 ~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~-----~~~~v~~   77 (268)
T 2r62_A            3 AEKPNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHV-----PFFSMGG   77 (268)
T ss_dssp             CCCCCCCSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTC-----CCCCCCS
T ss_pred             ccCCCCCHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCC-----CEEEech
Confidence            35667789999999999988887765           22333 3999999999999999999999843     3444554


Q ss_pred             CCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHH---------------HHHHHHHhhh
Q psy17903        105 SDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA---------------QAALRRTMEK  163 (355)
Q Consensus       105 ~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~---------------~~~Ll~~le~  163 (355)
                      .+...      ...++..+......             ...+|||||+|.+....               ++.|+..++.
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~a~~~-------------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~  144 (268)
T 2r62_A           78 SSFIEMFVGLGASRVRDLFETAKKQ-------------APSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDG  144 (268)
T ss_dssp             CTTTTSCSSSCSSSSSTTHHHHHHS-------------CSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTC
T ss_pred             HHHHHhhcchHHHHHHHHHHHHHhc-------------CCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhC
Confidence            43211      11111222222111             12399999999996532               3456666664


Q ss_pred             cc---CCccEEEEecCCccccccccC--Ce-eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHH
Q psy17903        164 ET---KSTRFCLICNYVSCIIQPLTS--RC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAI  236 (355)
Q Consensus       164 ~~---~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~  236 (355)
                      ..   ..+++|+++|.+..+.+++.+  |+ ..+.|++|+.++..++++..++..... ++..++.++..+.| +.+.+.
T Consensus       145 ~~~~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~~g~dl~  223 (268)
T 2r62_A          145 FGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLA-NDVNLQEVAKLTAGLAGADLA  223 (268)
T ss_dssp             SSCSCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCC-SSCCTTTTTSSSCSSCHHHHH
T ss_pred             cccCCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCC-CccCHHHHHHHcCCCCHHHHH
Confidence            32   236777788888888888888  44 378999999999999999887654322 22235667777766 456777


Q ss_pred             HHHHHHHHhh---CCCCCCHHHHHHHhCCCCh
Q psy17903        237 TCLQSCARLK---GGEGIVNEDVLEVTGVIPN  265 (355)
Q Consensus       237 ~~l~~~~~~~---~~~~It~~~v~~~~~~~~~  265 (355)
                      +.++.+...+   +...|+.+++.+++....+
T Consensus       224 ~l~~~a~~~a~~~~~~~i~~~~~~~a~~~~~~  255 (268)
T 2r62_A          224 NIINEAALLAGRNNQKEVRQQHLKEAVERGIA  255 (268)
T ss_dssp             HHHHHHHHTTSSSCCCSCCHHHHHTSCTTCCC
T ss_pred             HHHHHHHHHHHHhccCCcCHHHHHHHHHHHhh
Confidence            8888777665   3467999999988876544

>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=99.77  E-value=4.2e-18  Score=162.25  Aligned_cols=216  Identities=16%  Similarity=0.129  Sum_probs=150.1

Q ss_pred             cccCCCCCCcccccHHHHHHHHHHHhc-------------CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeec
Q psy17903         37 EKYRPKTIDDVIEQQEVVSVLKKCLSG-------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (355)
Q Consensus        37 ~k~~p~~~~~~vg~~~~~~~l~~~l~~-------------~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~  103 (355)
                      +.+++..|++++|++.+++.|.+.+..             ....++||+||||||||++|+++++.+     +.+++.++
T Consensus       196 ~~~~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~-----~~~fv~vn  270 (489)
T 3hu3_A          196 ESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLIN  270 (489)
T ss_dssp             HHHTCCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC-----SSEEEEEE
T ss_pred             cccCCCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh-----CCCEEEEE
Confidence            456777899999999999999888753             222349999999999999999999987     44677777


Q ss_pred             CCCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHhhhc--
Q psy17903        104 ASDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEKE--  164 (355)
Q Consensus       104 ~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~le~~--  164 (355)
                      +++...      ...++..+......             ...+|||||+|.+..           ..++.|+..|+..  
T Consensus       271 ~~~l~~~~~g~~~~~~~~~f~~A~~~-------------~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~  337 (489)
T 3hu3_A          271 GPEIMSKLAGESESNLRKAFEEAEKN-------------APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQ  337 (489)
T ss_dssp             HHHHHTSCTTHHHHHHHHHHHHHHHT-------------CSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCT
T ss_pred             chHhhhhhcchhHHHHHHHHHHHHhc-------------CCcEEEecchhhhccccccccchHHHHHHHHHHHHhhcccc
Confidence            654211      12223333322211             124999999976643           5678899998853  


Q ss_pred             cCCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHH
Q psy17903        165 TKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGD-MRRAITCLQ  240 (355)
Q Consensus       165 ~~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~-~r~~~~~l~  240 (355)
                      ...+++|.+||.+..+.+++++  |+. .+.|+.|+.++..++++.+++...... +..+..++..+.|. .+.+.+.++
T Consensus       338 ~~~v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~-~~~l~~la~~t~g~s~~dL~~L~~  416 (489)
T 3hu3_A          338 RAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLAD-DVDLEQVANETHGHVGADLAALCS  416 (489)
T ss_dssp             TSCEEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCT-TCCHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CCceEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcc-hhhHHHHHHHccCCcHHHHHHHHH
Confidence            4567888899999999999998  444 799999999999999998876554332 23467788888774 444555555


Q ss_pred             HHHHhh--CC------------------CCCCHHHHHHHhCCCChHHHHHH
Q psy17903        241 SCARLK--GG------------------EGIVNEDVLEVTGVIPNPWIEKL  271 (355)
Q Consensus       241 ~~~~~~--~~------------------~~It~~~v~~~~~~~~~~~~~~l  271 (355)
                      .++..+  ..                  ..|+.+++.+++....++.+.++
T Consensus       417 ~A~~~a~r~~~~~i~~~~~~~~~~~~~~~~vt~edf~~Al~~~~ps~~re~  467 (489)
T 3hu3_A          417 EAALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRET  467 (489)
T ss_dssp             HHHHHHHHTTTTTCCTTCSSCCHHHHHHCCBCHHHHHHHHTSHHHHHHHGG
T ss_pred             HHHHHHHHhccccccccccccchhhcccCcCCHHHHHHHHHhCCchhhhcc
Confidence            554443  11                  13677777777776655544433

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.76  E-value=1.4e-18  Score=145.24  Aligned_cols=163  Identities=17%  Similarity=0.183  Sum_probs=115.7

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-----cccceeeecCCCc
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNASDD  107 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~~  107 (355)
                      .+|.++|+|..|++++|+++.++.+.+.+..+...+++|+||+|+|||++++.+++.+....     ....++.+++...
T Consensus        10 ~~l~~~~~~~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (195)
T 1jbk_A           10 IDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGAL   89 (195)
T ss_dssp             EEHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHH
T ss_pred             HHHHHHHhhccccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHH
Confidence            57999999999999999999999999999887767799999999999999999999985421     1234455554321


Q ss_pred             c----chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH--------HHHHHHHHhhhccCCccEEEEec
Q psy17903        108 R----GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------AQAALRRTMEKETKSTRFCLICN  175 (355)
Q Consensus       108 ~----~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~--------~~~~Ll~~le~~~~~~~~Il~~~  175 (355)
                      .    ........+..........        ....+|||||+|.+...        .++.|..+++.  ..+.+|++++
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~--~~~~~i~~~~  159 (195)
T 1jbk_A           90 VAGAKYRGEFEERLKGVLNDLAKQ--------EGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATT  159 (195)
T ss_dssp             HTTTCSHHHHHHHHHHHHHHHHHS--------TTTEEEEEETGGGGTT------CCCCHHHHHHHHHT--TSCCEEEEEC
T ss_pred             hccCCccccHHHHHHHHHHHHhhc--------CCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhcc--CCeEEEEeCC
Confidence            1    1112222222221111000        03359999999999632        25667777764  4567888887


Q ss_pred             CCc-----cccccccCCeeeEEecCCCHHHHHHHH
Q psy17903        176 YVS-----CIIQPLTSRCSKFRFKPLAENTMLTRL  205 (355)
Q Consensus       176 ~~~-----~l~~~l~sr~~~i~~~~~~~~~~~~~l  205 (355)
                      ...     .+.+++.+||..+.|.+|+.++..+++
T Consensus       160 ~~~~~~~~~~~~~l~~r~~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          160 LDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHHHHHhcCHHHHHHhceeecCCCCHHHHHHHh
Confidence            654     577999999999999999999987664

>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=99.76  E-value=2.6e-18  Score=175.24  Aligned_cols=201  Identities=15%  Similarity=0.135  Sum_probs=142.3

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-----cccceeeecCCC
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNASD  106 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~  106 (355)
                      ..+|.++|+|.+|++++|++..+..+.+.+..+..++++|+||||+|||++++.+++.+....     .+..++.+++..
T Consensus       157 ~~~l~~~~r~~~ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~  236 (854)
T 1qvr_A          157 GIDLTRLAAEGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGS  236 (854)
T ss_dssp             EEEHHHHHHTTCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--
T ss_pred             HHhHHHHHhcCCCcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHH
Confidence            467999999999999999999999999999888777899999999999999999999984321     134567777654


Q ss_pred             ccc----h----HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC--------HHHHHHHHHHhhhccCCccE
Q psy17903        107 DRG----I----QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT--------HAAQAALRRTMEKETKSTRF  170 (355)
Q Consensus       107 ~~~----~----~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~--------~~~~~~Ll~~le~~~~~~~~  170 (355)
                      ...    .    ..+...+......        +    ...+|||||+|.+.        .+..+.|...++.  ..+.+
T Consensus       237 l~~g~~~~g~~~~~l~~~~~~~~~~--------~----~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~--~~i~~  302 (854)
T 1qvr_A          237 LLAGAKYRGEFEERLKAVIQEVVQS--------Q----GEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRL  302 (854)
T ss_dssp             ---------CHHHHHHHHHHHHHTT--------C----SSEEEEECCC-------------------HHHHHT--TCCCE
T ss_pred             hhccCccchHHHHHHHHHHHHHHhc--------C----CCeEEEEecHHHHhccCCccchHHHHHHHHHHHhC--CCeEE
Confidence            321    1    1122222222211        0    23499999999997        3445677778874  35677


Q ss_pred             EEEecCCc----cccccccCCeeeEEecCCCHHHHHHHHHHHHH----HcCCCCCHHHHHHHHHHcCC------CHHHHH
Q psy17903        171 CLICNYVS----CIIQPLTSRCSKFRFKPLAENTMLTRLQYICE----QESVMCDFKALETLVETSGG------DMRRAI  236 (355)
Q Consensus       171 Il~~~~~~----~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~----~~~~~~~~~~~~~l~~~~~g------~~r~~~  236 (355)
                      |++|+...    .+.+++.+||..+.|++|+.++...+++..+.    ..++.++++++..++..+.|      -+.+++
T Consensus       303 I~at~~~~~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~~~~~~~~~~~~i~~~al~~~~~ls~r~i~~~~lp~kai  382 (854)
T 1qvr_A          303 IGATTLDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAI  382 (854)
T ss_dssp             EEEECHHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHH
T ss_pred             EEecCchHHhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhhhhhhhhhcCCCCCHHHHHHHHHHHhhhcccccChHHHH
Confidence            88887543    36789999999999999999999999987765    35788999999999887743      378888


Q ss_pred             HHHHHHHHhh
Q psy17903        237 TCLQSCARLK  246 (355)
Q Consensus       237 ~~l~~~~~~~  246 (355)
                      +.++.++...
T Consensus       383 ~lldea~a~~  392 (854)
T 1qvr_A          383 DLIDEAAARL  392 (854)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8887766543

>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=99.76  E-value=2.3e-17  Score=166.58  Aligned_cols=222  Identities=15%  Similarity=0.117  Sum_probs=157.3

Q ss_pred             CCCCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCcc-----ccceeee
Q psy17903         28 TRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-----RERILEL  102 (355)
Q Consensus        28 ~~~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~-----~~~~~~~  102 (355)
                      -.....+|.++|+|..|++++|++..+..+.+.+......+++|+||||||||++|+.+++.+.+...     +..++.+
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            34456789999999999999999999999999998877778999999999999999999999854221     2234444


Q ss_pred             cCCCcc----chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC---------HHHHHHHHHHhhhccCCcc
Q psy17903        103 NASDDR----GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT---------HAAQAALRRTMEKETKSTR  169 (355)
Q Consensus       103 ~~~~~~----~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~---------~~~~~~Ll~~le~~~~~~~  169 (355)
                      +.....    ....+...+..........         ...+|||||+|.+.         .+..+.|...+++  ..++
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    1112222222222111110         23599999999982         3345556666664  4567


Q ss_pred             EEEEecCC-----ccccccccCCeeeEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHH
Q psy17903        170 FCLICNYV-----SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGG------DMRR  234 (355)
Q Consensus       170 ~Il~~~~~-----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~g------~~r~  234 (355)
                      +|++++..     ....+++.+|+..+.|.+|+.++...+++..+..    .++.++++++..++..+.|      .+..
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            77787753     2356889999999999999999999999887765    6888999999998887644      3557


Q ss_pred             HHHHHHHHHHhh-------CCCCCCHHHHHHHh
Q psy17903        235 AITCLQSCARLK-------GGEGIVNEDVLEVT  260 (355)
Q Consensus       235 ~~~~l~~~~~~~-------~~~~It~~~v~~~~  260 (355)
                      +++.++.++...       ....|+.+++.+++
T Consensus       398 ~i~lld~a~~~~~~~~~~~~~~~v~~~di~~~~  430 (758)
T 1r6b_X          398 AIDVIDEAGARARLMPVSKRKKTVNVADIESVV  430 (758)
T ss_dssp             HHHHHHHHHHHHHHSSSCCCCCSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccccccCCccCHHHHHHHH
Confidence            777776655432       24568999998775

>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=99.76  E-value=3.8e-18  Score=165.19  Aligned_cols=211  Identities=18%  Similarity=0.233  Sum_probs=140.4

Q ss_pred             CcccccHHHHHHHHHHHh------cCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHH
Q psy17903         45 DDVIEQQEVVSVLKKCLS------GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVK  118 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~------~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~  118 (355)
                      ++++|++++...+...+.      ....++++|+||||||||+++++++..+.     ..+..+++........+.....
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~-----~~~~~i~~~~~~~~~~~~g~~~  155 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLG-----RKFVRISLGGVRDESEIRGHRR  155 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHT-----CEEEEECCCC------------
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcC-----CCeEEEEecccchhhhhhhHHH
Confidence            458899999888766542      12234599999999999999999999983     3455666544322211111111


Q ss_pred             HHHHhh----ccCCCCCCCCCCCcEEEEEeCCCCCCHH----HHHHHHHHhhhcc---------------CCccEEEEec
Q psy17903        119 TFAQQT----ASGFNQDGKPCPPFKIVILDEADSMTHA----AQAALRRTMEKET---------------KSTRFCLICN  175 (355)
Q Consensus       119 ~~~~~~----~~~~~~~~~~~~~~~vliiDe~d~l~~~----~~~~Ll~~le~~~---------------~~~~~Il~~~  175 (355)
                      .+....    ...... ..  ....++||||+|.+..+    .++.|++.|+...               .+++||+++|
T Consensus       156 ~~ig~~~~~~~~~~~~-a~--~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN  232 (543)
T 3m6a_A          156 TYVGAMPGRIIQGMKK-AG--KLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATAN  232 (543)
T ss_dssp             --------CHHHHHHT-TC--SSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECS
T ss_pred             HHhccCchHHHHHHHH-hh--ccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEeccC
Confidence            100000    000000 00  12349999999999887    4588888887432               4578899999


Q ss_pred             CCccccccccCCeeeEEecCCCHHHHHHHHHHHHHH-----c-----CCCCCHHHHHHHHHHc--CCCHHHHHHHHHHHH
Q psy17903        176 YVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ-----E-----SVMCDFKALETLVETS--GGDMRRAITCLQSCA  243 (355)
Q Consensus       176 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~-----~-----~~~~~~~~~~~l~~~~--~g~~r~~~~~l~~~~  243 (355)
                      ....+.++|++||..+.|++|+.++...+++.++..     .     ++.++++++..++..+  +|++|.+.+.++.++
T Consensus       233 ~~~~l~~aL~~R~~vi~~~~~~~~e~~~Il~~~l~~~~~~~~~~~~~~i~i~~~~l~~l~~~~~~~~~vR~L~~~i~~~~  312 (543)
T 3m6a_A          233 NLATIPGPLRDRMEIINIAGYTEIEKLEIVKDHLLPKQIKEHGLKKSNLQLRDQAILDIIRYYTREAGVRSLERQLAAIC  312 (543)
T ss_dssp             STTTSCHHHHHHEEEEECCCCCHHHHHHHHHHTHHHHHHHHTTCCGGGCEECHHHHHHHHHHHCCCSSSHHHHHHHHHHH
T ss_pred             ccccCCHHHHhhcceeeeCCCCHHHHHHHHHHHHHHHHHHHcCCCcccccCCHHHHHHHHHhCChhhchhHHHHHHHHHH
Confidence            999999999999999999999999999998887632     2     4567899999988754  489999998887765


Q ss_pred             Hhh---------CCCCCCHHHHHHHhCCC
Q psy17903        244 RLK---------GGEGIVNEDVLEVTGVI  263 (355)
Q Consensus       244 ~~~---------~~~~It~~~v~~~~~~~  263 (355)
                      ..+         +...|+.+++.++++..
T Consensus       313 ~~aa~~~~~~~~~~~~It~~~l~~~Lg~~  341 (543)
T 3m6a_A          313 RKAAKAIVAEERKRITVTEKNLQDFIGKR  341 (543)
T ss_dssp             HHHHHHHHTTCCSCCEECTTTTHHHHCSC
T ss_pred             HHHHHHHHhcCCcceecCHHHHHHHhCCc
Confidence            543         12358899999888654

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.75  E-value=2.1e-17  Score=157.18  Aligned_cols=214  Identities=20%  Similarity=0.186  Sum_probs=147.6

Q ss_pred             CCCccccccCCCCCCcccccHHHHHHHHHHHhc-----------CCCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccc
Q psy17903         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------ADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRER   98 (355)
Q Consensus        31 ~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----------~~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~   98 (355)
                      ....|.+. .+.+|++++|+++++..+.+.+..           ...+ +++|+||||||||+++++++..+.     ..
T Consensus        18 ~~~~~~~~-~~~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~-----~~   91 (499)
T 2dhr_A           18 RARVLTEA-PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR-----VP   91 (499)
T ss_dssp             CCEEECSC-CCCCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTT-----CC
T ss_pred             cceeeccC-CCCCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC-----CC
Confidence            33455555 677899999999999888776531           1223 399999999999999999999873     45


Q ss_pred             eeeecCCCccc--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------------HHHHHHHHHhh
Q psy17903         99 ILELNASDDRG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTME  162 (355)
Q Consensus        99 ~~~~~~~~~~~--~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------------~~~~~Ll~~le  162 (355)
                      ++.+++++...  .......+.......     ....+    .++||||+|.+..              ...+.|+..|+
T Consensus        92 ~i~i~g~~~~~~~~g~~~~~v~~lfq~a-----~~~~p----~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ld  162 (499)
T 2dhr_A           92 FITASGSDFVEMFVGVGAARVRDLFETA-----KRHAP----CIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMD  162 (499)
T ss_dssp             EEEEEGGGGTSSCTTHHHHHHHHHTTTS-----SSSSS----CEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGG
T ss_pred             EEEEehhHHHHhhhhhHHHHHHHHHHHH-----HhcCC----CEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhc
Confidence            67777765321  111122222211111     00112    3999999988742              23455666665


Q ss_pred             hcc--CCccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCCH-HHH
Q psy17903        163 KET--KSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKA-LETLVETSGGDM-RRA  235 (355)
Q Consensus       163 ~~~--~~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~l~~~~~g~~-r~~  235 (355)
                      ...  ..++++.++|.++.+.+++.++++   .+.++.|+.++..++++..++  +..+++++ +..++..+.|+. +.+
T Consensus       163 g~~~~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~--~~~l~~dv~l~~lA~~t~G~~gadL  240 (499)
T 2dhr_A          163 GFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKRTPGFVGADL  240 (499)
T ss_dssp             GCCSSCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTS--SSCCCCSSTTHHHHTTSCSCCHHHH
T ss_pred             ccccCccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHh--cCCCChHHHHHHHHHhcCCCCHHHH
Confidence            432  345666777888888899988654   899999999999999987654  34555443 788899999988 888


Q ss_pred             HHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        236 ITCLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       236 ~~~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      .+.++.++.++   +...|+.+++.+++.
T Consensus       241 ~~lv~~Aa~~A~~~~~~~It~~dl~~al~  269 (499)
T 2dhr_A          241 ENLLNEAALLAAREGRRKITMKDLEEAAD  269 (499)
T ss_dssp             HHHHHHHHHHHTTTCCSSCCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCccCHHHHHHHHH
Confidence            89998887765   235799999987663

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.74  E-value=2e-17  Score=166.98  Aligned_cols=196  Identities=16%  Similarity=0.199  Sum_probs=142.3

Q ss_pred             CCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-----cccceeeecC
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNA  104 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~  104 (355)
                      ....+|.++|+|..+++++|++..++.+...+.....+++||+||||||||++|+++++.+....     .+..++.+++
T Consensus       165 ~~~~~l~~~~~~~~ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~  244 (758)
T 3pxi_A          165 SLARDLTAIAKEDSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM  244 (758)
T ss_dssp             SSCCBHHHHTTSSCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC--
T ss_pred             HHHHHHHHHHhhCCCCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc
Confidence            34678999999999999999999999999999888878899999999999999999999985422     2334555555


Q ss_pred             CCc-cc--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCc---
Q psy17903        105 SDD-RG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVS---  178 (355)
Q Consensus       105 ~~~-~~--~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~---  178 (355)
                      ... .+  ...++..+......             ...+||||    ...+.++.|+..|++  ..+++|++||...   
T Consensus       245 g~~~~G~~e~~l~~~~~~~~~~-------------~~~iLfiD----~~~~~~~~L~~~l~~--~~v~~I~at~~~~~~~  305 (758)
T 3pxi_A          245 GTKYRGEFEDRLKKVMDEIRQA-------------GNIILFID----AAIDASNILKPSLAR--GELQCIGATTLDEYRK  305 (758)
T ss_dssp             --------CTTHHHHHHHHHTC-------------CCCEEEEC----C--------CCCTTS--SSCEEEEECCTTTTHH
T ss_pred             cccccchHHHHHHHHHHHHHhc-------------CCEEEEEc----CchhHHHHHHHHHhc--CCEEEEeCCChHHHHH
Confidence            111 00  11333333333221             22399999    445677888888883  4678888888765   


Q ss_pred             --cccccccCCeeeEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHHHHHHHHH
Q psy17903        179 --CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGG------DMRRAITCLQSCAR  244 (355)
Q Consensus       179 --~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~~g------~~r~~~~~l~~~~~  244 (355)
                        .+.+++++||..+.|++|+.++...+++..+..    .++.++++++..++..+.+      .++.++..++.++.
T Consensus       306 ~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~~~~~~~~~~~i~~~al~~~~~~s~~~i~~~~~p~~ai~ll~~a~~  383 (758)
T 3pxi_A          306 YIEKDAALERRFQPIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGS  383 (758)
T ss_dssp             HHTTCSHHHHSEEEEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHHH
T ss_pred             HhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcccccCcCCcHHHHHHHHHHH
Confidence              578999999999999999999999999977665    6788999999999887633      45778888876654

>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=99.74  E-value=4e-17  Score=144.72  Aligned_cols=179  Identities=13%  Similarity=0.229  Sum_probs=121.0

Q ss_pred             CcccccHHHHHHHHH-------HHh---cCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc-c--h-
Q psy17903         45 DDVIEQQEVVSVLKK-------CLS---GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR-G--I-  110 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~-------~l~---~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-~--~-  110 (355)
                      ..++|++..+..+..       .+.   .....++||+||||||||++|+++++.+     +.+++.+++++.. +  . 
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~-----~~~~~~i~~~~~~~g~~~~  107 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES-----NFPFIKICSPDKMIGFSET  107 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH-----TCSEEEEECGGGCTTCCHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHh-----CCCEEEEeCHHHhcCCchH
Confidence            457787766554443       343   2222349999999999999999999997     3456666665421 1  1 


Q ss_pred             ---HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCC----------CHHHHHHHHHHhhh---ccCCccEEEEe
Q psy17903        111 ---QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM----------THAAQAALRRTMEK---ETKSTRFCLIC  174 (355)
Q Consensus       111 ---~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l----------~~~~~~~Ll~~le~---~~~~~~~Il~~  174 (355)
                         ..++..+.....             ....+|||||+|.+          ....++.|...++.   ....+++|+++
T Consensus       108 ~~~~~~~~~~~~~~~-------------~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~tt  174 (272)
T 1d2n_A          108 AKCQAMKKIFDDAYK-------------SQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTT  174 (272)
T ss_dssp             HHHHHHHHHHHHHHT-------------SSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEE
T ss_pred             HHHHHHHHHHHHHHh-------------cCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEec
Confidence               222222222211             03469999999987          44556677777764   33456677788


Q ss_pred             cCCccccc-cccCC-eeeEEecCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-----CHHHHHHHHHHHHHhh
Q psy17903        175 NYVSCIIQ-PLTSR-CSKFRFKPLAE-NTMLTRLQYICEQESVMCDFKALETLVETSGG-----DMRRAITCLQSCARLK  246 (355)
Q Consensus       175 ~~~~~l~~-~l~sr-~~~i~~~~~~~-~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-----~~r~~~~~l~~~~~~~  246 (355)
                      |.+..+.+ .+.+| +..+.+++++. +++..++...     ..++++++..+++.+.|     |+|++++.++.+...+
T Consensus       175 n~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~-----~~~~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~~~~  249 (272)
T 1d2n_A          175 SRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELL-----GNFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMD  249 (272)
T ss_dssp             SCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHH-----TCSCHHHHHHHHHHHTTSEEEECHHHHHHHHHHHTTSC
T ss_pred             CChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhc-----CCCCHHHHHHHHHHhcCCCccccHHHHHHHHHHHhhhc
Confidence            87766655 57778 46889988887 6666666542     35789999999999988     9999999999876543

>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=99.73  E-value=1.5e-16  Score=139.54  Aligned_cols=209  Identities=19%  Similarity=0.156  Sum_probs=137.2

Q ss_pred             ccccCCCCCCcccccHHHHHHHHHHHhc-----------CCC-CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeec
Q psy17903         36 VEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------ADL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (355)
Q Consensus        36 ~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----------~~~-~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~  103 (355)
                      ...+.+.+|++++|.++++..+.+....           ... ++++|+||+|+|||+++++++..+.     ..++.++
T Consensus         7 ~~~~~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~-----~~~i~~~   81 (254)
T 1ixz_A            7 LTEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR-----VPFITAS   81 (254)
T ss_dssp             -CCCCSCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT-----CCEEEEE
T ss_pred             ccCCCCCCHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhC-----CCEEEee
Confidence            3455567899999999888877765431           122 2399999999999999999999873     3455555


Q ss_pred             CCCccc--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------------HHHHHHHHHhhhcc--
Q psy17903        104 ASDDRG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTMEKET--  165 (355)
Q Consensus       104 ~~~~~~--~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------------~~~~~Ll~~le~~~--  165 (355)
                      +.+...  .......+..........         ...++++||+|.+..              ...+.++..|+...  
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            432110  111111122111111000         124999999986621              12345555555333  


Q ss_pred             CCccEEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCCH-HHHHHHHH
Q psy17903        166 KSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKA-LETLVETSGGDM-RRAITCLQ  240 (355)
Q Consensus       166 ~~~~~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~l~~~~~g~~-r~~~~~l~  240 (355)
                      ...+++.+++.++.+.+++.++++   .+.++.|+.++..++++..++  +..++++. +..++..+.|+. +.+.+.++
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            234566677888889999988543   789999999999999987764  34454433 778999998876 77888888


Q ss_pred             HHHHhh---CCCCCCHHHHHHHh
Q psy17903        241 SCARLK---GGEGIVNEDVLEVT  260 (355)
Q Consensus       241 ~~~~~~---~~~~It~~~v~~~~  260 (355)
                      .++..+   +...|+.+++.+++
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            776654   34679999998875

>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=99.72  E-value=6.1e-17  Score=150.29  Aligned_cols=207  Identities=18%  Similarity=0.199  Sum_probs=136.0

Q ss_pred             cccccHHHHHHHHHHHh----c-------------------------C-CCCeEEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         46 DVIEQQEVVSVLKKCLS----G-------------------------A-DLPHFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~----~-------------------------~-~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      .++||+.+++.|..++.    .                         . ...+++|+||||||||++|+++++.+.    
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~----   97 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLD----   97 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTT----
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhC----
Confidence            47999999998887762    1                         1 123599999999999999999999983    


Q ss_pred             ccceeeecCCCccch----HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH--------------HHHHH
Q psy17903         96 RERILELNASDDRGI----QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAAL  157 (355)
Q Consensus        96 ~~~~~~~~~~~~~~~----~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~--------------~~~~L  157 (355)
                       .+++.+++......    ......+............     .+...+|||||+|.+...              .++.|
T Consensus        98 -~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~-----~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~L  171 (376)
T 1um8_A           98 -IPIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQ-----KAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQAL  171 (376)
T ss_dssp             -CCEEEEEGGGCC--------CTHHHHHHHHHTTTCHH-----HHTTSEEEEETGGGC--------------CHHHHHHH
T ss_pred             -CCEEEecchhhhhcCcCCccHHHHHHHHHhhccchhh-----hcCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHH
Confidence             34556665442211    0111111111111000000     002349999999999887              89999


Q ss_pred             HHHhhhcc---------------------CCccEEEEecC----------------------------------------
Q psy17903        158 RRTMEKET---------------------KSTRFCLICNY----------------------------------------  176 (355)
Q Consensus       158 l~~le~~~---------------------~~~~~Il~~~~----------------------------------------  176 (355)
                      +..|+...                     .++++|+++|.                                        
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            99998542                     34567777651                                        


Q ss_pred             -CccccccccCCe-eeEEecCCCHHHHHHHHHH----HHH---------HcCCCCCHHHHHHHHHHcC---CCHHHHHHH
Q psy17903        177 -VSCIIQPLTSRC-SKFRFKPLAENTMLTRLQY----ICE---------QESVMCDFKALETLVETSG---GDMRRAITC  238 (355)
Q Consensus       177 -~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~----~~~---------~~~~~~~~~~~~~l~~~~~---g~~r~~~~~  238 (355)
                       ...+.+.+.+|+ ..+.|++++.+++..++..    +++         ..++.+++++++.|++.+.   ||+|.+.+.
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             012457788998 5899999999999998862    211         1245689999999998864   999999999


Q ss_pred             HHHHHHhh-----C--C--CCCCHHHHHHHhCC
Q psy17903        239 LQSCARLK-----G--G--EGIVNEDVLEVTGV  262 (355)
Q Consensus       239 l~~~~~~~-----~--~--~~It~~~v~~~~~~  262 (355)
                      ++++....     .  .  -.||.+++.+....
T Consensus       332 le~~~~~~~~~~~~~~~~~~~i~~~~v~~~~~~  364 (376)
T 1um8_A          332 IEDFCLDIMFDLPKLKGSEVRITKDCVLKQAEP  364 (376)
T ss_dssp             HHHHHHHHHHTGGGGTTSEEEECHHHHTTSSCC
T ss_pred             HHHHHHHHHhhccCCCCCEEEEeHHHhcCCCCc
Confidence            98876532     1  1  14888888775543

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.72  E-value=2.4e-17  Score=161.97  Aligned_cols=226  Identities=20%  Similarity=0.238  Sum_probs=152.7

Q ss_pred             ccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc-----
Q psy17903         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR-----  108 (355)
Q Consensus        34 ~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-----  108 (355)
                      ....+|+|+.|++++|++.+++.+...+..+.  +++|+||+|+|||++|++++..+.........+..+..+..     
T Consensus        30 ~~~~~~rp~~l~~i~G~~~~l~~l~~~i~~g~--~vll~Gp~GtGKTtlar~ia~~l~~~~~~~~~~~~~~~~~~~p~i~  107 (604)
T 3k1j_A           30 TEEIEVPEKLIDQVIGQEHAVEVIKTAANQKR--HVLLIGEPGTGKSMLGQAMAELLPTETLEDILVFPNPEDENMPRIK  107 (604)
T ss_dssp             GGGSCCCSSHHHHCCSCHHHHHHHHHHHHTTC--CEEEECCTTSSHHHHHHHHHHTSCCSSCEEEEEECCTTCTTSCEEE
T ss_pred             cCcccccccccceEECchhhHhhccccccCCC--EEEEEeCCCCCHHHHHHHHhccCCcccCCeEEEeCCcccccCCcEE
Confidence            44679999999999999999999999999873  79999999999999999999987543321111111111100     


Q ss_pred             -----chHHHHHHHHHHHHh--------------------------------------------hcc-------CCCCCC
Q psy17903        109 -----GIQVIRDKVKTFAQQ--------------------------------------------TAS-------GFNQDG  132 (355)
Q Consensus       109 -----~~~~i~~~i~~~~~~--------------------------------------------~~~-------~~~~~~  132 (355)
                           ....+.+........                                            +..       +....+
T Consensus       108 ~~p~g~~~~~~e~~~~~~~~~~~~r~~~~~~~~~~~~~nl~v~~~~~~~~~~v~~~~~~~~~L~G~~~~~~~~~g~~~~g  187 (604)
T 3k1j_A          108 TVPACQGRRIVEKYREKAKSQESVKSSNMRLKSTVLVPKLLVDNCGRTKAPFIDATGAHAGALLGDVRHDPFQSGGLGTP  187 (604)
T ss_dssp             EEETTHHHHHHHHHHHHHHHHTCC-----------CCCEEEECCTTCSSCCEEECTTCCHHHHHCEECCCCC----CCCC
T ss_pred             EEecchHHHHHHHHHHhhccchhhhhhcccccccccccceeeccccCCCCCEEEcCCCCHHhcCceEEechhhcCCcccc
Confidence                 001111111110000                                            000       000000


Q ss_pred             -----CC----CCCcEEEEEeCCCCCCHHHHHHHHHHhhhc---------------------cCCccEEEEecCC--ccc
Q psy17903        133 -----KP----CPPFKIVILDEADSMTHAAQAALRRTMEKE---------------------TKSTRFCLICNYV--SCI  180 (355)
Q Consensus       133 -----~~----~~~~~vliiDe~d~l~~~~~~~Ll~~le~~---------------------~~~~~~Il~~~~~--~~l  180 (355)
                           .+    .++.+++||||++.+++..|+.|++.|++.                     +.++++|+++|..  ..+
T Consensus       188 ~~~~i~~g~~~~a~~gvL~LDEi~~l~~~~q~~Ll~~Le~~~~~~~g~~~~~~~~~l~~~~~p~~~~vI~atn~~~~~~l  267 (604)
T 3k1j_A          188 AHERVEPGMIHRAHKGVLFIDEIATLSLKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVLVAAGNLDTVDKM  267 (604)
T ss_dssp             GGGGEECCHHHHTTTSEEEETTGGGSCHHHHHHHHHHHHHSEECCBCSCTTSGGGGCBCSCEECCCEEEEEECHHHHHHS
T ss_pred             ccccccCceeeecCCCEEEEechhhCCHHHHHHHHHHHHcCcEEecccccccccccCCCCccceeEEEEEecCHHHHhhc
Confidence                 00    024469999999999999999999999843                     2356789999865  578


Q ss_pred             cccccCCee----eEEecCC---CHHHHHHHHHHHHHHc-----CCCCCHHHHHHHHHHc---CC-------CHHHHHHH
Q psy17903        181 IQPLTSRCS----KFRFKPL---AENTMLTRLQYICEQE-----SVMCDFKALETLVETS---GG-------DMRRAITC  238 (355)
Q Consensus       181 ~~~l~sr~~----~i~~~~~---~~~~~~~~l~~~~~~~-----~~~~~~~~~~~l~~~~---~g-------~~r~~~~~  238 (355)
                      .++|.+||.    .+.|+..   ..+.+..+++..++..     ...++++++..|++.+   .|       ++|.+.+.
T Consensus       268 ~~~l~~R~~v~~i~i~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ls~eAl~~Li~~~~r~~g~r~~l~~~~R~l~~l  347 (604)
T 3k1j_A          268 HPALRSRIRGYGYEVYMRTTMPDTIENRRKLVQFVAQEVKRDGKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDLGGI  347 (604)
T ss_dssp             CHHHHHHHHHHSEEEECCSEEECCHHHHHHHHHHHHHHHHHHCSSCCBBHHHHHHHHHHHHHTTCSTTEEECCHHHHHHH
T ss_pred             CHHHHHHhhccceEeeccccccCCHHHHHHHHHHHHHHHhhccCcccCCHHHHHHHHHHHhhhhccccccccCHHHHHHH
Confidence            999999994    5565432   4555666665555432     2578999999998865   56       69999999


Q ss_pred             HHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        239 LQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       239 l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      ++.+..++   +...|+.+++.+++.
T Consensus       348 lr~A~~~A~~~~~~~I~~edv~~A~~  373 (604)
T 3k1j_A          348 VRAAGDIAVKKGKKYVEREDVIEAVK  373 (604)
T ss_dssp             HHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHHhcCcccccHHHHHHHHH
Confidence            98876554   556899999998874

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.71  E-value=2.8e-16  Score=139.75  Aligned_cols=205  Identities=20%  Similarity=0.155  Sum_probs=134.7

Q ss_pred             CCCCCCcccccHHHHHHHHHHHhc-----------CCC-CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         40 RPKTIDDVIEQQEVVSVLKKCLSG-----------ADL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        40 ~p~~~~~~vg~~~~~~~l~~~l~~-----------~~~-~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      .+.+|++++|.++++..+.+....           ... ++++|+||+|+|||+++++++..+.     ..++.+++.+.
T Consensus        35 ~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~-----~~~i~~~~~~~  109 (278)
T 1iy2_A           35 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR-----VPFITASGSDF  109 (278)
T ss_dssp             CCCCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTT-----CCEEEEEHHHH
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcC-----CCEEEecHHHH
Confidence            566899999999998887766531           122 2499999999999999999999873     34555554321


Q ss_pred             cc--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC-----------HH---HHHHHHHHhhhcc--CCcc
Q psy17903        108 RG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT-----------HA---AQAALRRTMEKET--KSTR  169 (355)
Q Consensus       108 ~~--~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~-----------~~---~~~~Ll~~le~~~--~~~~  169 (355)
                      ..  .......+..........         ...++++||+|.+.           ..   ..+.++..++...  ...+
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            10  111111121111111100         12499999998652           11   1233444444322  2345


Q ss_pred             EEEEecCCccccccccCCee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCCCH-HHHHHHHHHHHH
Q psy17903        170 FCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVETSGGDM-RRAITCLQSCAR  244 (355)
Q Consensus       170 ~Il~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~~~~l~~~~~g~~-r~~~~~l~~~~~  244 (355)
                      ++.+++.++.+.+++.++++   .+.|++|+.++..++++..++.  ..++++ .+..++..+.|+. +.+.+.++.++.
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 VMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARG--KPLAEDVDLALLAKRTPGFVGADLENLLNEAAL  258 (278)
T ss_dssp             EEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTT--SCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHH
T ss_pred             EEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHcc--CCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            66677888888999887443   7999999999999999877643  445443 3778899999987 677788887766


Q ss_pred             hh---CCCCCCHHHHHHHh
Q psy17903        245 LK---GGEGIVNEDVLEVT  260 (355)
Q Consensus       245 ~~---~~~~It~~~v~~~~  260 (355)
                      ++   +...|+.+++.+++
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            54   34679999998875

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.71  E-value=8.9e-18  Score=139.79  Aligned_cols=154  Identities=14%  Similarity=0.137  Sum_probs=110.3

Q ss_pred             CCCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-----cccceeeecC
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNA  104 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~  104 (355)
                      ....+|.++|+|..|++++|++..+..+.+.+..+...+++|+||+|+|||++++.+++.+....     ....++.+++
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            45678999999999999999999999999999887777799999999999999999999985421     1234445443


Q ss_pred             CCcc----chHH----HHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC---------HHHHHHHHHHhhhccCC
Q psy17903        105 SDDR----GIQV----IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT---------HAAQAALRRTMEKETKS  167 (355)
Q Consensus       105 ~~~~----~~~~----i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~---------~~~~~~Ll~~le~~~~~  167 (355)
                      ....    ....    +...+......        +    ...+|||||+|.+.         .+.++.|...++.  ..
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~----~~~vl~iDe~~~l~~~~~~~~~~~~~~~~l~~~~~~--~~  152 (187)
T 2p65_A           87 SSLIAGAKYRGDFEERLKSILKEVQDA--------E----GQVVMFIDEIHTVVGAGAVAEGALDAGNILKPMLAR--GE  152 (187)
T ss_dssp             HHHHHHCCSHHHHHHHHHHHHHHHHHT--------T----TSEEEEETTGGGGSSSSSSCTTSCCTHHHHHHHHHT--TC
T ss_pred             HHhhcCCCchhHHHHHHHHHHHHHHhc--------C----CceEEEEeCHHHhcccccccccchHHHHHHHHHHhc--CC
Confidence            3211    1111    22222222211        0    23599999999986         3445667777764  45


Q ss_pred             ccEEEEecCCc-----cccccccCCeeeEEecCCC
Q psy17903        168 TRFCLICNYVS-----CIIQPLTSRCSKFRFKPLA  197 (355)
Q Consensus       168 ~~~Il~~~~~~-----~l~~~l~sr~~~i~~~~~~  197 (355)
                      +++|++++...     .+.+++.+||..+.+.+|+
T Consensus       153 ~~ii~~~~~~~~~~~~~~~~~l~~R~~~i~i~~p~  187 (187)
T 2p65_A          153 LRCIGATTVSEYRQFIEKDKALERRFQQILVEQPS  187 (187)
T ss_dssp             SCEEEEECHHHHHHHTTTCHHHHHHEEEEECCSCC
T ss_pred             eeEEEecCHHHHHHHHhccHHHHHhcCcccCCCCC
Confidence            77888888654     5789999999999998875

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.71  E-value=6.4e-17  Score=163.23  Aligned_cols=186  Identities=21%  Similarity=0.310  Sum_probs=137.6

Q ss_pred             CcccccHHHHHHHHHHHhcCC-------CC--eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHH-H
Q psy17903         45 DDVIEQQEVVSVLKKCLSGAD-------LP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVI-R  114 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~~-------~~--~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i-~  114 (355)
                      +.++|++.++..+...+....       .|  ++||+||||||||++|+++++.+.+..  .+++.+|++........ .
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       12  599999999999999999999986543  36778887654322100 1


Q ss_pred             HHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc-----------cCCccEEEEecCCcc----
Q psy17903        115 DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-----------TKSTRFCLICNYVSC----  179 (355)
Q Consensus       115 ~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~-----------~~~~~~Il~~~~~~~----  179 (355)
                      ..+.......            .+.+|||||++.+.++.++.|++.|++.           ..++++|++||....    
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            2349999999999999999999999973           346789999985432    


Q ss_pred             --------ccccccCCe-eeEEecCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHH---cCCCHHHHHHH
Q psy17903        180 --------IIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQE---------SVMCDFKALETLVET---SGGDMRRAITC  238 (355)
Q Consensus       180 --------l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~~~~~~~~~l~~~---~~g~~r~~~~~  238 (355)
                              +.|.+.+|+ ..+.|++++.+++..++...+...         .+.++++++++|++.   .+|++|.+.+.
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                    678899999 699999999999999988877642         456899999999875   47899999999


Q ss_pred             HHHHHH
Q psy17903        239 LQSCAR  244 (355)
Q Consensus       239 l~~~~~  244 (355)
                      +++...
T Consensus       717 i~~~v~  722 (758)
T 3pxi_A          717 IQKHVE  722 (758)
T ss_dssp             HHHHTH
T ss_pred             HHHHHH
Confidence            987543

>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=99.70  E-value=1.7e-16  Score=160.30  Aligned_cols=182  Identities=18%  Similarity=0.216  Sum_probs=135.5

Q ss_pred             CcccccHHHHHHHHHHHhcC--------CCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccch-----
Q psy17903         45 DDVIEQQEVVSVLKKCLSGA--------DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI-----  110 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~--------~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~-----  110 (355)
                      +.++|++.++..+...+...        ++. ++||+||||||||++|+++++.+.     .+++.++++.....     
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~-----~~~~~i~~s~~~~~~~~~~  532 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG-----IELLRFDMSEYMERHTVSR  532 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT-----CEEEEEEGGGCSSSSCCSS
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhc-----CCEEEEechhhcchhhHhh
Confidence            46889999998888777532        122 499999999999999999999983     35666666542110     


Q ss_pred             -----------HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCc
Q psy17903        111 -----------QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KST  168 (355)
Q Consensus       111 -----------~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~  168 (355)
                                 +.- ..+......            +++.+|||||++.+.++.++.|+..|+++.           .++
T Consensus       533 l~g~~~g~~g~~~~-~~l~~~~~~------------~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~  599 (758)
T 1r6b_X          533 LIGAPPGYVGFDQG-GLLTDAVIK------------HPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNV  599 (758)
T ss_dssp             SCCCCSCSHHHHHT-THHHHHHHH------------CSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTE
T ss_pred             hcCCCCCCcCcccc-chHHHHHHh------------CCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCe
Confidence                       100 011111111            134699999999999999999999999753           457


Q ss_pred             cEEEEecCCc-------------------------cccccccCCe-eeEEecCCCHHHHHHHHHHHHHHc---------C
Q psy17903        169 RFCLICNYVS-------------------------CIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQE---------S  213 (355)
Q Consensus       169 ~~Il~~~~~~-------------------------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~---------~  213 (355)
                      ++|+++|...                         .+.+++.+|+ ..+.|++++.+++..++...+.+.         .
T Consensus       600 ~iI~tsN~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~  679 (758)
T 1r6b_X          600 VLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVS  679 (758)
T ss_dssp             EEEEEECSSCC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEE
T ss_pred             EEEEecCcchhhhhhcccCccccchHHHHHHHHHHhcCHHHHhhCCcceeeCCCCHHHHHHHHHHHHHHHHHHHHHCCcE
Confidence            7999998632                         5678899999 589999999999999999887632         3


Q ss_pred             CCCCHHHHHHHHHHc---CCCHHHHHHHHHHHHH
Q psy17903        214 VMCDFKALETLVETS---GGDMRRAITCLQSCAR  244 (355)
Q Consensus       214 ~~~~~~~~~~l~~~~---~g~~r~~~~~l~~~~~  244 (355)
                      +.+++++++.|++.+   +++.|.+.+.++....
T Consensus       680 ~~~~~~a~~~l~~~~~~~~~g~R~l~~~i~~~~~  713 (758)
T 1r6b_X          680 LEVSQEARNWLAEKGYDRAMGARPMARVIQDNLK  713 (758)
T ss_dssp             EEECHHHHHHHHHHHCBTTTBTTTHHHHHHHHHT
T ss_pred             EEeCHHHHHHHHHhCCCcCCCchHHHHHHHHHHH
Confidence            568999999999876   5558888888887654

>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=99.69  E-value=2.3e-15  Score=141.15  Aligned_cols=226  Identities=19%  Similarity=0.202  Sum_probs=145.1

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHH-hc---C---CCCeEEE--ECCCCCCHHHHHHHHHHHhcCC----ccccce
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCL-SG---A---DLPHFLF--YGPPGTGKTSTMIAACHQLFGD----MYRERI   99 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l-~~---~---~~~~~ll--~Gp~G~GKt~la~~l~~~l~~~----~~~~~~   99 (355)
                      .++...|.|   +.++|++..++.|..++ ..   +   ...+++|  +||+|+|||++++.+++.+...    .....+
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            344455666   57899999998888887 42   2   3334889  9999999999999999987431    012345


Q ss_pred             eeecCCCccchHHHH-HHHHHHHHhhccCCCCC-C----------CCCCCcEEEEEeCCCCCC------HHHHHHHHHHh
Q psy17903        100 LELNASDDRGIQVIR-DKVKTFAQQTASGFNQD-G----------KPCPPFKIVILDEADSMT------HAAQAALRRTM  161 (355)
Q Consensus       100 ~~~~~~~~~~~~~i~-~~i~~~~~~~~~~~~~~-~----------~~~~~~~vliiDe~d~l~------~~~~~~Ll~~l  161 (355)
                      +.+++........+. ..+..+. ......... .          .......+|||||+|.+.      .+.+..|++.+
T Consensus        90 ~~~~~~~~~~~~~~~~~l~~~l~-~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~  168 (412)
T 1w5s_A           90 AYVNAFNAPNLYTILSLIVRQTG-YPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVH  168 (412)
T ss_dssp             EEEEGGGCCSHHHHHHHHHHHHT-CCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC-CCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHH
Confidence            666653322222211 1111110 000000000 0          000134599999999984      35566667777


Q ss_pred             hhcc-----CCccEEEEecCCc---ccc---ccccCCe-eeEEecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHH
Q psy17903        162 EKET-----KSTRFCLICNYVS---CII---QPLTSRC-SKFRFKPLAENTMLTRLQYICEQES--VMCDFKALETLVET  227 (355)
Q Consensus       162 e~~~-----~~~~~Il~~~~~~---~l~---~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~--~~~~~~~~~~l~~~  227 (355)
                      ++.+     ..+.+|++++...   .+.   +.+.++. ..+.|++++.+++.+++...+...+  ..+++++++.+++.
T Consensus       169 ~~~~~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~  248 (412)
T 1w5s_A          169 EEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDV  248 (412)
T ss_dssp             HHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHH
T ss_pred             HhcccCCCCceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHH
Confidence            6543     4566777776543   223   4444543 2499999999999999998876533  35789999999999


Q ss_pred             cC------CCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCC
Q psy17903        228 SG------GDMRRAITCLQSCARLK---GGEGIVNEDVLEVTGV  262 (355)
Q Consensus       228 ~~------g~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~~  262 (355)
                      ++      |+++.+.+.++.+...+   +...++.+++..++..
T Consensus       249 ~~~~~~~~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~  292 (412)
T 1w5s_A          249 YGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSE  292 (412)
T ss_dssp             HCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHH
T ss_pred             HHHhccCCCcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            99      99999999988765443   3457888888876643

>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=99.67  E-value=8.3e-17  Score=164.17  Aligned_cols=186  Identities=18%  Similarity=0.258  Sum_probs=138.7

Q ss_pred             CcccccHHHHHHHHHHHhcCC--------C-CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHH
Q psy17903         45 DDVIEQQEVVSVLKKCLSGAD--------L-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~~--------~-~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~  115 (355)
                      +.++|++.++..+...+....        . .+++|+||+|||||++|+++++.+.+..  .+++.++++..........
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            468999999999888875421        1 2499999999999999999999986643  3677888875432211110


Q ss_pred             H---------------HHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCcc
Q psy17903        116 K---------------VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTR  169 (355)
Q Consensus       116 ~---------------i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~  169 (355)
                      .               +......            ..+.+|||||++.+.++.++.|+.+|+++.           .+++
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            0               0010000            134699999999999999999999999763           3567


Q ss_pred             EEEEecCC--------------------------ccccccccCCe-eeEEecCCCHHHHHHHHHHHHHHc---------C
Q psy17903        170 FCLICNYV--------------------------SCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQE---------S  213 (355)
Q Consensus       170 ~Il~~~~~--------------------------~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~---------~  213 (355)
                      +|++||..                          ..+.+.+.+|+ ..+.|.|++.+++..++...+...         .
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            89999861                          23557788898 578899999999999988776631         3


Q ss_pred             CCCCHHHHHHHHHHc---CCCHHHHHHHHHHHHH
Q psy17903        214 VMCDFKALETLVETS---GGDMRRAITCLQSCAR  244 (355)
Q Consensus       214 ~~~~~~~~~~l~~~~---~g~~r~~~~~l~~~~~  244 (355)
                      +.+++++++.|++.+   +||+|.+.+.+++...
T Consensus       784 ~~~~~~a~~~L~~~~~~~~gn~R~L~~~i~~~~~  817 (854)
T 1qvr_A          784 LELTEAAKDFLAERGYDPVFGARPLRRVIQRELE  817 (854)
T ss_dssp             EEECHHHHHHHHHHHCBTTTBTSTHHHHHHHHTH
T ss_pred             EEECHHHHHHHHHcCCCCCCChHHHHHHHHHHHH
Confidence            468999999999875   5999999999988654

>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=99.63  E-value=1.1e-15  Score=141.05  Aligned_cols=205  Identities=18%  Similarity=0.199  Sum_probs=132.9

Q ss_pred             cccccHHHHHHHHHHHh-------------cC--CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccch
Q psy17903         46 DVIEQQEVVSVLKKCLS-------------GA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~-------------~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  110 (355)
                      .++|++.+++.+...+.             ..  ...++||+||||||||++|+++++.+     +.+++.++++.....
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~-----~~~~~~~~~~~l~~~   90 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL-----DVPFTMADATTLTEA   90 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHT-----TCCEEEEEHHHHTTC
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHc-----CCCEEEechHHhccc
Confidence            36899999999988872             11  22349999999999999999999998     345677776543211


Q ss_pred             H----HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH--------------HHHHHHHHhhhc--------
Q psy17903        111 Q----VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTMEKE--------  164 (355)
Q Consensus       111 ~----~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~--------------~~~~Ll~~le~~--------  164 (355)
                      .    .....+............     .+...+|||||+|.+...              .++.|++.|+..        
T Consensus        91 ~~~g~~~~~~~~~~~~~~~~~~~-----~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~~~~~  165 (363)
T 3hws_A           91 GYVGEDVENIIQKLLQKCDYDVQ-----KAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQG  165 (363)
T ss_dssp             HHHHHHHTHHHHHHHHHTTTCHH-----HHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC--------
T ss_pred             ccccccHHHHHHHHHHHhhhhHH-----hcCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCceeeccCcc
Confidence            1    111111111111000000     002249999999988765              799999999821        


Q ss_pred             -------------cCCccEEEEecCC----------cc-----------------------------------ccccccC
Q psy17903        165 -------------TKSTRFCLICNYV----------SC-----------------------------------IIQPLTS  186 (355)
Q Consensus       165 -------------~~~~~~Il~~~~~----------~~-----------------------------------l~~~l~s  186 (355)
                                   ..+..||++++..          .+                                   +.+.+.+
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                         1234556665531          11                                   5678889


Q ss_pred             Cee-eEEecCCCHHHHHHHHHH----HH-------HHcC--CCCCHHHHHHHHHH---cCCCHHHHHHHHHHHHHhh---
Q psy17903        187 RCS-KFRFKPLAENTMLTRLQY----IC-------EQES--VMCDFKALETLVET---SGGDMRRAITCLQSCARLK---  246 (355)
Q Consensus       187 r~~-~i~~~~~~~~~~~~~l~~----~~-------~~~~--~~~~~~~~~~l~~~---~~g~~r~~~~~l~~~~~~~---  246 (355)
                      |+. .+.|.+++.+++.+++..    ..       ...+  +.+++++++.|++.   .+++.|.+.+.++++....   
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            988 556999999999888775    22       2123  45799999999864   3788899999998876533   


Q ss_pred             --CC-C----CCCHHHHHHHh
Q psy17903        247 --GG-E----GIVNEDVLEVT  260 (355)
Q Consensus       247 --~~-~----~It~~~v~~~~  260 (355)
                        .. .    .||.+.|++..
T Consensus       326 ~~~~~~~~~~~I~~~~v~~~~  346 (363)
T 3hws_A          326 LPSMEDVEKVVIDESVIDGQS  346 (363)
T ss_dssp             TTTCCCSEEEECHHHHTTCCS
T ss_pred             cccccCCceeEEcHHHHhCcC
Confidence              12 1    36666666544

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.62  E-value=8.8e-15  Score=139.31  Aligned_cols=211  Identities=12%  Similarity=0.108  Sum_probs=133.8

Q ss_pred             CcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHH--HHHHHH
Q psy17903         45 DDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK--VKTFAQ  122 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~--i~~~~~  122 (355)
                      ..++|++++++.+...+..+.  ++||+||||||||++|+++++.+...   ..+...++... ....+...  ......
T Consensus        22 ~~ivGq~~~i~~l~~al~~~~--~VLL~GpPGtGKT~LAraLa~~l~~~---~~f~~~~~~~~-t~~dL~G~~~~~~~~~   95 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKFAFQNA---RAFEYLMTRFS-TPEEVFGPLSIQALKD   95 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHTC--EEEEECCSSSSHHHHHHHGGGGBSSC---CEEEEECCTTC-CHHHHHCCBC------
T ss_pred             hhhHHHHHHHHHHHHHHhcCC--eeEeecCchHHHHHHHHHHHHHHhhh---hHHHHHHHhcC-CHHHhcCcccHHHHhh
Confidence            358899999999988887663  79999999999999999999987432   12333333221 11221110  000000


Q ss_pred             hhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc----------CCccEEEEecCCcc---ccccccCCee
Q psy17903        123 QTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET----------KSTRFCLICNYVSC---IIQPLTSRCS  189 (355)
Q Consensus       123 ~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~----------~~~~~Il~~~~~~~---l~~~l~sr~~  189 (355)
                      .+.......+ ......++||||++.+++..++.|+..|++..          +...+|++||....   ..+++.+|+.
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 EGRYERLTSG-YLPEAEIVFLDEIWKAGPAILNTLLTAINERQFRNGAHVEKIPMRLLVAASNELPEADSSLEALYDRML  174 (500)
T ss_dssp             ----CBCCTT-SGGGCSEEEEESGGGCCHHHHHHHHHHHHSSEEECSSSEEECCCCEEEEEESSCCCTTCTTHHHHTTCC
T ss_pred             chhHHhhhcc-CCCcceeeeHHhHhhhcHHHHHHHHHHHHHHhccCCCCcCCcchhhhhhccccCCCccccHHHHHHHHH
Confidence            0000000011 00012389999999999999999999997532          11234778875332   4468888875


Q ss_pred             -eEEecCCCH-HHHHHHHHHHHH-----------------------HcCCCCCHHHHHHHHHHc----------CCCHHH
Q psy17903        190 -KFRFKPLAE-NTMLTRLQYICE-----------------------QESVMCDFKALETLVETS----------GGDMRR  234 (355)
Q Consensus       190 -~i~~~~~~~-~~~~~~l~~~~~-----------------------~~~~~~~~~~~~~l~~~~----------~g~~r~  234 (355)
                       .+.+++|+. ++...++.....                       -.++.+++++++++++..          +.+.|.
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 566666654321                       136778999999888765          558888


Q ss_pred             HHHHHHHH---HHhhCCCCCCHHHHHHHhCCC
Q psy17903        235 AITCLQSC---ARLKGGEGIVNEDVLEVTGVI  263 (355)
Q Consensus       235 ~~~~l~~~---~~~~~~~~It~~~v~~~~~~~  263 (355)
                      +...+..+   +.+.+...|+.+|+. ++...
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            76666544   334467789999998 55443

>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=99.62  E-value=3e-15  Score=149.04  Aligned_cols=173  Identities=20%  Similarity=0.227  Sum_probs=122.7

Q ss_pred             CCCCCcccccHHHHHHHHHHHhc-----------C-CCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         41 PKTIDDVIEQQEVVSVLKKCLSG-----------A-DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~l~~-----------~-~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      ..+|+++.|.+++++.|++.+.-           + ..| ++|||||||||||++|+++++++     +.+++.+++++.
T Consensus       200 ~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el-----g~~~~~v~~~~l  274 (806)
T 3cf2_A          200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGPEI  274 (806)
T ss_dssp             SCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT-----TCEEEEEEHHHH
T ss_pred             CCChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh-----CCeEEEEEhHHh
Confidence            35799999999999999887631           1 223 39999999999999999999997     446777776542


Q ss_pred             cc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH-----------HHHHHHHHHhhhc--cCCc
Q psy17903        108 RG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEKE--TKST  168 (355)
Q Consensus       108 ~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~-----------~~~~~Ll~~le~~--~~~~  168 (355)
                      .+      ...++..+......             ..-||||||+|.+.+           ...+.|+..|+..  ..++
T Consensus       275 ~sk~~gese~~lr~lF~~A~~~-------------~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V  341 (806)
T 3cf2_A          275 MSKLAGESESNLRKAFEEAEKN-------------APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHV  341 (806)
T ss_dssp             HSSCTTHHHHHHHHHHHHHTTS-------------CSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCE
T ss_pred             hcccchHHHHHHHHHHHHHHHc-------------CCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCE
Confidence            21      12333333332211             123999999999853           2345677777643  3457


Q ss_pred             cEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCH
Q psy17903        169 RFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDM  232 (355)
Q Consensus       169 ~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~  232 (355)
                      ++|.+||.++.+.+++++  |+. .|+++.|+.++..++++.+++..... ++..+..++..+.|-.
T Consensus       342 ~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~-~dvdl~~lA~~T~Gfs  407 (806)
T 3cf2_A          342 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHGHV  407 (806)
T ss_dssp             EEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEEC-TTCCHHHHHHHCCSCC
T ss_pred             EEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCC-cccCHHHHHHhcCCCC
Confidence            788899999999999998  554 79999999999999999776543222 2234777888887643

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.59  E-value=7.8e-14  Score=123.38  Aligned_cols=212  Identities=15%  Similarity=0.133  Sum_probs=126.8

Q ss_pred             CCCCCcccccHHHHHHHHHHHh------------cCCCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         41 PKTIDDVIEQQEVVSVLKKCLS------------GADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~l~------------~~~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      ..+|+++.|.+++++.|.+.+.            +-..+ +++|+||+|+|||+++++++..+.     ..++.+++.+.
T Consensus         6 ~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~-----~~~i~i~g~~l   80 (274)
T 2x8a_A            6 NVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESG-----LNFISVKGPEL   80 (274)
T ss_dssp             ------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTT-----CEEEEEETTTT
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcC-----CCEEEEEcHHH
Confidence            4579999999999999887542            11222 399999999999999999999873     24677776653


Q ss_pred             cc--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH-----------HHHHHHHHhhhc--cCCccEEE
Q psy17903        108 RG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-----------AQAALRRTMEKE--TKSTRFCL  172 (355)
Q Consensus       108 ~~--~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~-----------~~~~Ll~~le~~--~~~~~~Il  172 (355)
                      ..  .......+..........         ...++++||++.+...           ..+.++..|...  ...++++.
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  122222222221111000         1238999999987421           234455555432  23456677


Q ss_pred             EecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHc-CCCCC-HHHHHHHHHH--cCC-CHHHHHHHHHHHHH
Q psy17903        173 ICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQE-SVMCD-FKALETLVET--SGG-DMRRAITCLQSCAR  244 (355)
Q Consensus       173 ~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~-~~~~~-~~~~~~l~~~--~~g-~~r~~~~~l~~~~~  244 (355)
                      ++|.++.+++++.+  |+. .+.++.|+.++..++++.+++.. ...++ +..+..++..  +.| +...+.+.++.++.
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            88899999999987  554 78999999999999999887542 22222 2235556653  223 23333333333322


Q ss_pred             hh--------------CCCCCCHHHHHHHhCCCChH
Q psy17903        245 LK--------------GGEGIVNEDVLEVTGVIPNP  266 (355)
Q Consensus       245 ~~--------------~~~~It~~~v~~~~~~~~~~  266 (355)
                      .+              +...|+.+|+.+++....++
T Consensus       232 ~a~~~~~~~~~~~~~~~~~~i~~~df~~al~~~~ps  267 (274)
T 2x8a_A          232 CALRQEMARQKSGNEKGELKVSHKHFEEAFKKVRSS  267 (274)
T ss_dssp             HHHHHHC-----------CCBCHHHHHHHHTTCCCC
T ss_pred             HHHHHHHhhccccccccCCeecHHHHHHHHHHhcCC
Confidence            11              12368999999998877654

>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=99.59  E-value=2.3e-14  Score=133.11  Aligned_cols=212  Identities=16%  Similarity=0.150  Sum_probs=141.9

Q ss_pred             CCcccccHHHHHHHHHHHhcCCC--CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHH
Q psy17903         44 IDDVIEQQEVVSVLKKCLSGADL--PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFA  121 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~~~~~--~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~  121 (355)
                      ++.++|.+..+..+.+.+..-..  .+++|+|++|+||+++|++++......  ..+++.+||+... .+.+...+....
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            55788888777777766654221  239999999999999999999875432  3478899988632 222221111111


Q ss_pred             HhhccCCCCCCCCC----CCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-------cc
Q psy17903        122 QQTASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SC  179 (355)
Q Consensus       122 ~~~~~~~~~~~~~~----~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-------~~  179 (355)
                      .....+... .++.    +++++||+||++.|+.+.|..|+++|++..           .++++|++||..       ..
T Consensus       213 ~g~~tga~~-~~~g~~~~a~~gtlfldei~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~~~~g~  291 (387)
T 1ny5_A          213 KGAFTGAVS-SKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVKEGK  291 (387)
T ss_dssp             TTSSTTCCS-CBCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHHTTS
T ss_pred             CCCCCCccc-ccCCceeeCCCcEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCCCCHHHHHHcCC
Confidence            111111000 0111    355699999999999999999999998632           367899988853       22


Q ss_pred             ccccccCCee--eEEecCCCH--HHHHHHHHHHHH----HcCC---CCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhC
Q psy17903        180 IIQPLTSRCS--KFRFKPLAE--NTMLTRLQYICE----QESV---MCDFKALETLVETS-GGDMRRAITCLQSCARLKG  247 (355)
Q Consensus       180 l~~~l~sr~~--~i~~~~~~~--~~~~~~l~~~~~----~~~~---~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~~  247 (355)
                      +.+.+..|..  .++++|+.+  +++..++...+.    +.+.   .+++++++.|..+. +||+|.+.|.++.++..+.
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            3344444443  566666654  666655554443    3343   47899999998765 9999999999999998887


Q ss_pred             CCCCCHHHHHHH
Q psy17903        248 GEGIVNEDVLEV  259 (355)
Q Consensus       248 ~~~It~~~v~~~  259 (355)
                      +..|+.+++...
T Consensus       372 ~~~i~~~~l~~~  383 (387)
T 1ny5_A          372 GKFIDRGELSCL  383 (387)
T ss_dssp             SSEECHHHHHHH
T ss_pred             CCcCcHHHCcHh
Confidence            778998887543

>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=99.58  E-value=4.3e-14  Score=131.84  Aligned_cols=127  Identities=20%  Similarity=0.208  Sum_probs=92.8

Q ss_pred             cEEEEEeCCCCCCH------------HHHHHHHHHhhhc----------cCCccEEEEe----cCCccccccccCCeee-
Q psy17903        138 FKIVILDEADSMTH------------AAQAALRRTMEKE----------TKSTRFCLIC----NYVSCIIQPLTSRCSK-  190 (355)
Q Consensus       138 ~~vliiDe~d~l~~------------~~~~~Ll~~le~~----------~~~~~~Il~~----~~~~~l~~~l~sr~~~-  190 (355)
                      ..++++||+|.+..            ..|++|++.||..          ..++.||+++    ..+..++|.+.+|+.+ 
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            45899999998853            2678999999852          3456677776    2444477999999985 


Q ss_pred             EEecCCCHHHHHHHHH-----------HHHHHcC--CCCCHHHHHHHHHH--------cCCCHHHHHHHHHHHHHhh---
Q psy17903        191 FRFKPLAENTMLTRLQ-----------YICEQES--VMCDFKALETLVET--------SGGDMRRAITCLQSCARLK---  246 (355)
Q Consensus       191 i~~~~~~~~~~~~~l~-----------~~~~~~~--~~~~~~~~~~l~~~--------~~g~~r~~~~~l~~~~~~~---  246 (355)
                      +.|++++.+++..++.           ..+..++  +.++++++..|++.        -+...|.+.+.++++....   
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            8999999999999983           1222234  46899999999985        3588888888888766432   


Q ss_pred             --C--CC--CCCHHHHHHHhCCCC
Q psy17903        247 --G--GE--GIVNEDVLEVTGVIP  264 (355)
Q Consensus       247 --~--~~--~It~~~v~~~~~~~~  264 (355)
                        .  ..  .||.+.|.+.++...
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  378888888776553

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.57  E-value=6.6e-15  Score=117.65  Aligned_cols=132  Identities=17%  Similarity=0.186  Sum_probs=91.2

Q ss_pred             cccccHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHh
Q psy17903         46 DVIEQQEVVSVLKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQ  123 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~--~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~  123 (355)
                      +++|++..+..+.+.++.  ....+++|+||+|||||++|+++++.....  ..+++ +++............+...   
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~--~~~~v-~~~~~~~~~~~~~~~~~~a---   75 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGRNA--QGEFV-YRELTPDNAPQLNDFIALA---   75 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSSTTT--TSCCE-EEECCTTTSSCHHHHHHHH---
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCCcc--CCCEE-EECCCCCcchhhhcHHHHc---
Confidence            688999999888887753  223359999999999999999999876432  23566 7776543322222222221   


Q ss_pred             hccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCc-------cccccccCCee--eEEec
Q psy17903        124 TASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVS-------CIIQPLTSRCS--KFRFK  194 (355)
Q Consensus       124 ~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~-------~l~~~l~sr~~--~i~~~  194 (355)
                                   +..+|||||+|.++.+.|..|+..|+....++++|++||...       .+.+.+..|+.  .++++
T Consensus        76 -------------~~g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~~~~~~~~~~~~~~~L~~rl~~~~i~lP  142 (145)
T 3n70_A           76 -------------QGGTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDTSLVELAASNHIIAELYYCFAMTQIACL  142 (145)
T ss_dssp             -------------TTSCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESSCHHHHHHHSCCCHHHHHHHHHHEEECC
T ss_pred             -------------CCcEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCcCHHHHHHcCCCCHHHHHHhcCCEEeCC
Confidence                         123899999999999999999999988788899999998642       23445555543  45665


Q ss_pred             CC
Q psy17903        195 PL  196 (355)
Q Consensus       195 ~~  196 (355)
                      |+
T Consensus       143 pL  144 (145)
T 3n70_A          143 PL  144 (145)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=99.56  E-value=1.5e-14  Score=133.36  Aligned_cols=203  Identities=18%  Similarity=0.186  Sum_probs=136.0

Q ss_pred             CcccccHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHH
Q psy17903         45 DDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQ  122 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~  122 (355)
                      ..++|++..+..+...+...  ....++++|++|+||+.+|+.+++......   .++.+||..... +.+...+.....
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            35788887777666655321  223499999999999999999998864432   388999986422 222111111110


Q ss_pred             hhccCCCCCCCCC----CCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCC-------ccc
Q psy17903        123 QTASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SCI  180 (355)
Q Consensus       123 ~~~~~~~~~~~~~----~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~-------~~l  180 (355)
                      ....+.. ..++.    +++++||+||++.|+.+.|..|+++|++..           .++++|.+||..       ..+
T Consensus       205 g~~tga~-~~~~g~~~~a~~gtlfldei~~l~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~v~~g~f  283 (368)
T 3dzd_A          205 GAFTGAL-TRKKGKLELADQGTLFLDEVGELDQRVQAKLLRVLETGSFTRLGGNQKIEVDIRVISATNKNLEEEIKKGNF  283 (368)
T ss_dssp             CSSSSCC-CCEECHHHHTTTSEEEEETGGGSCHHHHHHHHHHHHHSEECCBTCCCBEECCCEEEEEESSCHHHHHHTTSS
T ss_pred             cccCCcc-cccCChHhhcCCCeEEecChhhCCHHHHHHHHHHHHhCCcccCCCCcceeeeeEEEEecCCCHHHHHHcCCc
Confidence            0111000 00000    345699999999999999999999998642           357789988854       234


Q ss_pred             cccccCCee--eEEecCCCH--HHHHHHHHHHHH----HcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCC
Q psy17903        181 IQPLTSRCS--KFRFKPLAE--NTMLTRLQYICE----QES---VMCDFKALETLVETS-GGDMRRAITCLQSCARLKGG  248 (355)
Q Consensus       181 ~~~l~sr~~--~i~~~~~~~--~~~~~~l~~~~~----~~~---~~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~~~  248 (355)
                      .+.|..|+.  .++++|+.+  +++..++...+.    +.+   ..+++++++.|..+. +||+|++.|.++.++..+.+
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            455666665  566888876  677666555543    333   458999999999875 99999999999999887766


Q ss_pred             CCCC
Q psy17903        249 EGIV  252 (355)
Q Consensus       249 ~~It  252 (355)
                      +.|+
T Consensus       364 ~~i~  367 (368)
T 3dzd_A          364 EVIK  367 (368)
T ss_dssp             SBCC
T ss_pred             CccC
Confidence            6554

>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=99.55  E-value=5.4e-15  Score=147.19  Aligned_cols=180  Identities=20%  Similarity=0.233  Sum_probs=111.6

Q ss_pred             CCCCCcccccHHHHHHHHHHHhc-----------CC-CC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         41 PKTIDDVIEQQEVVSVLKKCLSG-----------AD-LP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~l~~-----------~~-~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      ..+|+++.|.+++++.|.+.+.-           +. .+ ++|||||||||||.+|++++.++     +.+++.+++++.
T Consensus       473 ~v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~-----~~~f~~v~~~~l  547 (806)
T 3cf2_A          473 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC-----QANFISIKGPEL  547 (806)
T ss_dssp             CCCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTT-----TCEEEECCHHHH
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHh-----CCceEEeccchh
Confidence            34799999999999999887631           22 22 29999999999999999999998     445666655432


Q ss_pred             ------cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH--------------HHHHHHHHhhhc--c
Q psy17903        108 ------RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTMEKE--T  165 (355)
Q Consensus       108 ------~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~--------------~~~~Ll~~le~~--~  165 (355)
                            .+...++..+.......         |    -||||||+|.+...              ..+.|+..|+..  .
T Consensus       548 ~s~~vGese~~vr~lF~~Ar~~~---------P----~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~  614 (806)
T 3cf2_A          548 LTMWFGESEANVREIFDKARQAA---------P----CVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK  614 (806)
T ss_dssp             HTTTCSSCHHHHHHHHHHHHTTC---------S----EEEECSCGGGCC--------------CHHHHHHHHHHHSSCSS
T ss_pred             hccccchHHHHHHHHHHHHHHcC---------C----ceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCC
Confidence                  12234555554433221         1    29999999998532              246677777743  3


Q ss_pred             CCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc----CCCHHHHHHH
Q psy17903        166 KSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETS----GGDMRRAITC  238 (355)
Q Consensus       166 ~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~----~g~~r~~~~~  238 (355)
                      .++++|.+||.++.+++++.+  |+. .++|+.|+.++..++++.++++..+. ++..++.|++.+    +.|+..+.+.
T Consensus       615 ~~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~-~~~dl~~la~~t~g~SGadi~~l~~~  693 (806)
T 3cf2_A          615 KNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEICQR  693 (806)
T ss_dssp             SSEEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--C-CC----------------CHHHHHHH
T ss_pred             CCEEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCCHHHHHHHHHH
Confidence            456777789999999999988  665 79999999999999998777544332 122356666654    4566665544


Q ss_pred             H
Q psy17903        239 L  239 (355)
Q Consensus       239 l  239 (355)
                      .
T Consensus       694 A  694 (806)
T 3cf2_A          694 A  694 (806)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.54  E-value=1.5e-13  Score=122.90  Aligned_cols=149  Identities=15%  Similarity=0.233  Sum_probs=94.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEE
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIV  141 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vl  141 (355)
                      .+|||||||||||++|+++++.+     +.+++.+++++...      ...++..+........     ..    ...||
T Consensus        38 ~lLl~GppGtGKT~la~aiA~~l-----~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~-----~~----~~~vl  103 (293)
T 3t15_A           38 ILGIWGGKGQGKSFQCELVFRKM-----GINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIR-----KG----NMCCL  103 (293)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHH-----TCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHHT-----TS----SCCCE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHHh-----cC----CCeEE
Confidence            39999999999999999999998     34566666543211      1223333333211100     11    12399


Q ss_pred             EEeCCCCCCH-------------HHHHHHHHHhhh-------------ccCCccEEEEecCCccccccccC--CeeeEEe
Q psy17903        142 ILDEADSMTH-------------AAQAALRRTMEK-------------ETKSTRFCLICNYVSCIIQPLTS--RCSKFRF  193 (355)
Q Consensus       142 iiDe~d~l~~-------------~~~~~Ll~~le~-------------~~~~~~~Il~~~~~~~l~~~l~s--r~~~i~~  193 (355)
                      +|||+|.+.+             ..++.|+..|+.             ...++++|++||.++.+.+++++  |+..+.+
T Consensus       104 ~iDEiD~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~al~R~~R~d~~i~  183 (293)
T 3t15_A          104 FINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW  183 (293)
T ss_dssp             EEECCC--------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CHHHHHHHEEEEEE
T ss_pred             EEechhhhcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHHHhCCCCCceeEe
Confidence            9999998865             134778888762             23468899999999999999986  5543333


Q ss_pred             cCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-CCCHH
Q psy17903        194 KPLAENTMLTRLQYICEQESVMCDFKALETLVETS-GGDMR  233 (355)
Q Consensus       194 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~-~g~~r  233 (355)
                       .|+.++..++++.++...+  ++.+.+..+.... +.++.
T Consensus       184 -~P~~~~r~~Il~~~~~~~~--~~~~~l~~~~~~~~~~~l~  221 (293)
T 3t15_A          184 -APTREDRIGVCTGIFRTDN--VPAEDVVKIVDNFPGQSID  221 (293)
T ss_dssp             -CCCHHHHHHHHHHHHGGGC--CCHHHHHHHHHHSCSCCHH
T ss_pred             -CcCHHHHHHHHHHhccCCC--CCHHHHHHHhCCCCcccHH
Confidence             5699999999998887654  4566666665544 44553

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.52  E-value=1.3e-14  Score=141.58  Aligned_cols=209  Identities=17%  Similarity=0.131  Sum_probs=129.4

Q ss_pred             CcccccHHHHHHHHHHHhcCCCC-----------eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHH
Q psy17903         45 DDVIEQQEVVSVLKKCLSGADLP-----------HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVI  113 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~~~~~~-----------~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i  113 (355)
                      ..++|++.++..+.-.+.++...           |+||+||||||||++|+++++.+....+.... ..++.+..+.. .
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~-~~~~~~l~~~~-~  372 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTGK-GSTAAGLTAAV-V  372 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTCSCEECCCTT-CSTTTTSEEEC-S
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhCCCceecCCC-cccccccccee-e
Confidence            46889999988887777666311           69999999999999999999887432211000 01111110000 0


Q ss_pred             HHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-------------CCccEEEEecCCc--
Q psy17903        114 RDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-------------KSTRFCLICNYVS--  178 (355)
Q Consensus       114 ~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-------------~~~~~Il~~~~~~--  178 (355)
                      ...   +  .............+++.+++|||+|.+.++.++.|+..|++..             ..+.+|.++|...  
T Consensus       373 ~~~---~--~g~~~~~~G~l~~A~~gil~IDEid~l~~~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp~~G~  447 (595)
T 3f9v_A          373 REK---G--TGEYYLEAGALVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKFGR  447 (595)
T ss_dssp             SGG---G--TSSCSEEECHHHHHSSSEECCTTTTCCCSHHHHHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECCTTCC
T ss_pred             ecc---c--cccccccCCeeEecCCCcEEeehhhhCCHhHhhhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCCcCCc
Confidence            000   0  0000000000000123499999999999999999999998642             3567888888764  


Q ss_pred             -----------cccccccCCee-eEEecCCCHHHHHHHHHHHHHHc-------------------------CCCCCHHHH
Q psy17903        179 -----------CIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQE-------------------------SVMCDFKAL  221 (355)
Q Consensus       179 -----------~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~-------------------------~~~~~~~~~  221 (355)
                                 .+.+++.+|+. .+.+.+++..+...+.+++....                         ...+++++.
T Consensus       448 ~~~~~~~~~ni~l~~aLl~RFDl~~~~~~~~~~e~~~i~~~il~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~  527 (595)
T 3f9v_A          448 YISERPVSDNINLPPTILSRFDLIFILKDQPGEQDRELANYILDVHSGKSTKNIIDIDTLRKYIAYARKYVTPKITSEAK  527 (595)
T ss_dssp             SCTTSCSCTTTCSCSSSGGGCSCCEEECCTTHHHHHHHHHHHHTTTCCCSSSSTTCCTTTHHHHHHHHHHHCCCCCCCTH
T ss_pred             cCcccCchhccCCCHHHHhhCeEEEEeCCCCCHHHHHHHHHHHHHhhccccccCCCHHHHHHHHHHHHHhCCCCCCHHHH
Confidence                       78899999994 45555555444444444444321                         225666677


Q ss_pred             HHHHHH---------------cCCCHHHHHHHHHHHHH---hhCCCCCCHHHHHHHh
Q psy17903        222 ETLVET---------------SGGDMRRAITCLQSCAR---LKGGEGIVNEDVLEVT  260 (355)
Q Consensus       222 ~~l~~~---------------~~g~~r~~~~~l~~~~~---~~~~~~It~~~v~~~~  260 (355)
                      +.|.+.               .++++|.+.+.++.+..   +.+...|+.+|+.+++
T Consensus       528 ~~l~~~y~~lR~~~~~~~~~~~~~s~R~l~~lirla~a~A~l~~~~~V~~~dv~~Ai  584 (595)
T 3f9v_A          528 NLITDFFVEMRKKSSETPDSPILITPRQLEALIRISEAYAKMALKAEVTREDAERAI  584 (595)
T ss_dssp             HHHHHHHTTSSCSCCBCSSSCBCSSTTTTTHHHHHHHHHHHTTSSCCSSHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhccCCCccccccHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHH
Confidence            777765               46788887777765533   3367789999998876

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.49  E-value=2e-12  Score=118.18  Aligned_cols=177  Identities=17%  Similarity=0.152  Sum_probs=121.2

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc------chHHHHHH
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR------GIQVIRDK  116 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~------~~~~i~~~  116 (355)
                      ..+.++|++..++.|.+++..+  +.++|+||+|+|||++++.+++...       .+.+++....      ....+...
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            3467999999999999999875  5699999999999999999998851       3333332111      11111111


Q ss_pred             ---------------------------------------HHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH------
Q psy17903        117 ---------------------------------------VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH------  151 (355)
Q Consensus       117 ---------------------------------------i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~------  151 (355)
                                                             +.......            +..+|||||++.+..      
T Consensus        81 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~------------~~~vlvlDe~~~~~~~~~~~~  148 (350)
T 2qen_A           81 LQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEEL------------GEFIVAFDEAQYLRFYGSRGG  148 (350)
T ss_dssp             HHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHH------------SCEEEEEETGGGGGGBTTTTT
T ss_pred             HHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhcc------------CCEEEEEeCHHHHhccCccch
Confidence                                                   11111000            134899999999863      


Q ss_pred             -HHHHHHHHHhhhccCCccEEEEecCCc---c------ccccccCCe-eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHH
Q psy17903        152 -AAQAALRRTMEKETKSTRFCLICNYVS---C------IIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKA  220 (355)
Q Consensus       152 -~~~~~Ll~~le~~~~~~~~Il~~~~~~---~------l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  220 (355)
                       +....|...++.. .++.+|+++....   .      ...++..|. ..+.+.+++.++..+++...+...+..++++.
T Consensus       149 ~~~~~~L~~~~~~~-~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~~~~~  227 (350)
T 2qen_A          149 KELLALFAYAYDSL-PNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDVPENE  227 (350)
T ss_dssp             HHHHHHHHHHHHHC-TTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHH
T ss_pred             hhHHHHHHHHHHhc-CCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHH
Confidence             3445555555543 4677777775431   1      122344343 48999999999999999988887788899999


Q ss_pred             HHHHHHHcCCCHHHHHHHHHH
Q psy17903        221 LETLVETSGGDMRRAITCLQS  241 (355)
Q Consensus       221 ~~~l~~~~~g~~r~~~~~l~~  241 (355)
                      +..+...++|++..+......
T Consensus       228 ~~~i~~~tgG~P~~l~~~~~~  248 (350)
T 2qen_A          228 IEEAVELLDGIPGWLVVFGVE  248 (350)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHH
Confidence            999999999999876665544

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.47  E-value=8.7e-14  Score=110.82  Aligned_cols=128  Identities=10%  Similarity=0.123  Sum_probs=86.7

Q ss_pred             cccccHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHh
Q psy17903         46 DVIEQQEVVSVLKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQ  123 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~--~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~  123 (355)
                      +++|++..++.+.+.+..  ....+++|+||+|||||++|+++++...      +++.+++..... ......+.    .
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~~------~~~~~~~~~~~~-~~~~~~~~----~   73 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNGT------PWVSPARVEYLI-DMPMELLQ----K   73 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTTS------CEECCSSTTHHH-HCHHHHHH----H
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC------CeEEechhhCCh-HhhhhHHH----h
Confidence            578999998888877753  2334599999999999999999988752      678888876321 11111111    1


Q ss_pred             hccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc-cCCccEEEEecCC-cc----ccccccCCee--eEEecC
Q psy17903        124 TASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-TKSTRFCLICNYV-SC----IIQPLTSRCS--KFRFKP  195 (355)
Q Consensus       124 ~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~-~~~~~~Il~~~~~-~~----l~~~l~sr~~--~i~~~~  195 (355)
                      .            +..+|||||+|.++.+.|..|++.+++. ..++++|++||.. ..    +.+.+..|..  .++++|
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            2239999999999999999999999876 3567888888854 32    2334444433  456655


Q ss_pred             C
Q psy17903        196 L  196 (355)
Q Consensus       196 ~  196 (355)
                      +
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=99.35  E-value=2.4e-11  Score=111.27  Aligned_cols=189  Identities=19%  Similarity=0.185  Sum_probs=117.9

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc-----cchHHHHHHH
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD-----RGIQVIRDKV  117 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-----~~~~~i~~~i  117 (355)
                      ..+.++|++..++.|.+ +..   +.++|+||+|+|||++++.+++.+..     ..+.+++...     .....+...+
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~l   81 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELNL-----PYIYLDLRKFEERNYISYKDFLLEL   81 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcCC-----CEEEEEchhhccccCCCHHHHHHHH
Confidence            34678999999999999 765   57999999999999999999998732     2344444321     1111111111


Q ss_pred             HHHHHh-------------hc-----cC----C-----CCCC--------CCCC-CcEEEEEeCCCCCCH----HHHHHH
Q psy17903        118 KTFAQQ-------------TA-----SG----F-----NQDG--------KPCP-PFKIVILDEADSMTH----AAQAAL  157 (355)
Q Consensus       118 ~~~~~~-------------~~-----~~----~-----~~~~--------~~~~-~~~vliiDe~d~l~~----~~~~~L  157 (355)
                      ......             ..     ..    .     ....        ...+ +.-+|||||+|.+..    +....|
T Consensus        82 ~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~~l  161 (357)
T 2fna_A           82 QKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPAL  161 (357)
T ss_dssp             HHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHH
T ss_pred             HHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHHHH
Confidence            111000             00     00    0     0000        0000 234899999999753    233444


Q ss_pred             HHHhhhccCCccEEEEecCCc---c------ccccccCCe-eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q psy17903        158 RRTMEKETKSTRFCLICNYVS---C------IIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVET  227 (355)
Q Consensus       158 l~~le~~~~~~~~Il~~~~~~---~------l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~  227 (355)
                      ....+.. .++.+|+++....   .      ...++..|. ..+.+.+++.++..+++...+...+...++.  ..+...
T Consensus       162 ~~~~~~~-~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~--~~i~~~  238 (357)
T 2fna_A          162 AYAYDNL-KRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKDY--EVVYEK  238 (357)
T ss_dssp             HHHHHHC-TTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCCH--HHHHHH
T ss_pred             HHHHHcC-CCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCcH--HHHHHH
Confidence            4444433 3567787776532   1      112355554 6899999999999999998887667666554  788899


Q ss_pred             cCCCHHHHHHHHHHHH
Q psy17903        228 SGGDMRRAITCLQSCA  243 (355)
Q Consensus       228 ~~g~~r~~~~~l~~~~  243 (355)
                      ++|++..+......+.
T Consensus       239 t~G~P~~l~~~~~~~~  254 (357)
T 2fna_A          239 IGGIPGWLTYFGFIYL  254 (357)
T ss_dssp             HCSCHHHHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHHHc
Confidence            9999998776665543

>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=99.31  E-value=2.5e-12  Score=106.45  Aligned_cols=131  Identities=14%  Similarity=0.226  Sum_probs=79.9

Q ss_pred             ccccCCCCCCcccc----cHHHHHHHHHHHhcCCC---CeEEEECCCCCCHHHHHHHHHHHhc-CCccccceeeecCCCc
Q psy17903         36 VEKYRPKTIDDVIE----QQEVVSVLKKCLSGADL---PHFLFYGPPGTGKTSTMIAACHQLF-GDMYRERILELNASDD  107 (355)
Q Consensus        36 ~~k~~p~~~~~~vg----~~~~~~~l~~~l~~~~~---~~~ll~Gp~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~  107 (355)
                      .++|++.+|+++++    +..+++.+.+++.+...   ..++|+||+|+|||++++++++.+. ....  .++.++..  
T Consensus         1 ~~r~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~--~~~~~~~~--   76 (180)
T 3ec2_A            1 AKRYWNANLDTYHPKNVSQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGI--RGYFFDTK--   76 (180)
T ss_dssp             CCSCTTCCSSSCCCCSHHHHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCC--CCCEEEHH--
T ss_pred             CchhhhCccccccCCCHHHHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCC--eEEEEEHH--
Confidence            36899999999986    45666777777765432   3499999999999999999999884 1111  22222221  


Q ss_pred             cchHHHHHHHH-HHHHhhccCC-CCCCCCCCCcEEEEEeCCC--CCCHHHHHHHHHHhhhcc-CCccEEEEecCCc
Q psy17903        108 RGIQVIRDKVK-TFAQQTASGF-NQDGKPCPPFKIVILDEAD--SMTHAAQAALRRTMEKET-KSTRFCLICNYVS  178 (355)
Q Consensus       108 ~~~~~i~~~i~-~~~~~~~~~~-~~~~~~~~~~~vliiDe~d--~l~~~~~~~Ll~~le~~~-~~~~~Il~~~~~~  178 (355)
                          .+...+. .+........ ...    .+..+|||||++  .+.+..+..|..+++... ....+|++||...
T Consensus        77 ----~~~~~~~~~~~~~~~~~~~~~~----~~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~~~  144 (180)
T 3ec2_A           77 ----DLIFRLKHLMDEGKDTKFLKTV----LNSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNYSL  144 (180)
T ss_dssp             ----HHHHHHHHHHHHTCCSHHHHHH----HTCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCCCS
T ss_pred             ----HHHHHHHHHhcCchHHHHHHHh----cCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCCCh
Confidence                1111111 1111000000 000    022499999998  566777778888776543 4566788888654

>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=99.19  E-value=3.9e-11  Score=114.01  Aligned_cols=147  Identities=16%  Similarity=0.186  Sum_probs=81.7

Q ss_pred             CCCCCCCCCCccccccCCCCCCccc-ccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeee
Q psy17903         24 TSGKTRNKPVPWVEKYRPKTIDDVI-EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILEL  102 (355)
Q Consensus        24 ~~~~~~~~~~~~~~k~~p~~~~~~v-g~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~  102 (355)
                      +|..-+....||.+||||.+|+++- +|..++..+...+..+. ++++|.|++|||||+++..++..+..... ..++.+
T Consensus         3 ~~~~~~~~~~~~~~~~~p~~~~~Ln~~Q~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l~~~~~-~~il~~   80 (459)
T 3upu_A            3 SSHHHHHHSSGLVPRGSHMTFDDLTEGQKNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEALISTGE-TGIILA   80 (459)
T ss_dssp             ------------------CCSSCCCHHHHHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHHHHTTC-CCEEEE
T ss_pred             CCCCCCCccCCCccccCCCccccCCHHHHHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHHHhcCC-ceEEEe
Confidence            4555666778999999999999997 78888888888888765 37999999999999999999998854322 112222


Q ss_pred             cCCCccchHHHHHHH-------HHHHHhhccCCC-------CCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCc
Q psy17903        103 NASDDRGIQVIRDKV-------KTFAQQTASGFN-------QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKST  168 (355)
Q Consensus       103 ~~~~~~~~~~i~~~i-------~~~~~~~~~~~~-------~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~  168 (355)
                       +........+++.+       ..+.........       .........++|||||++.++...+..|+..+.   ...
T Consensus        81 -a~T~~Aa~~l~~~~~~~~~T~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiDE~~~~~~~~~~~l~~~~~---~~~  156 (459)
T 3upu_A           81 -APTHAAKKILSKLSGKEASTIHSILKINPVTYEENVLFEQKEVPDLAKCRVLICDEVSMYDRKLFKILLSTIP---PWC  156 (459)
T ss_dssp             -ESSHHHHHHHHHHHSSCEEEHHHHHTEEEEECSSCEEEEECSCCCCSSCSEEEESCGGGCCHHHHHHHHHHSC---TTC
T ss_pred             -cCcHHHHHHHHhhhccchhhHHHHhccCcccccccchhcccccccccCCCEEEEECchhCCHHHHHHHHHhcc---CCC
Confidence             22222223333222       111111100000       001111246799999999999988888888875   455


Q ss_pred             cEEEEecC
Q psy17903        169 RFCLICNY  176 (355)
Q Consensus       169 ~~Il~~~~  176 (355)
                      .++++++.
T Consensus       157 ~~~~vGD~  164 (459)
T 3upu_A          157 TIIGIGDN  164 (459)
T ss_dssp             EEEEEECT
T ss_pred             EEEEECCH
Confidence            67777754

>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=99.10  E-value=2.7e-10  Score=98.83  Aligned_cols=137  Identities=18%  Similarity=0.205  Sum_probs=88.0

Q ss_pred             HHHHHHHHHhcC-CCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCC
Q psy17903         53 VVSVLKKCLSGA-DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQ  130 (355)
Q Consensus        53 ~~~~l~~~l~~~-~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~  130 (355)
                      ....+..++++. ... +++|+||||||||.++.++++.+.-      +-.++....           .+.....     
T Consensus        89 ~~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~~l------~G~vn~~~~-----------~f~l~~~-----  146 (267)
T 1u0j_A           89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVPF------YGCVNWTNE-----------NFPFNDC-----  146 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSSC------EEECCTTCS-----------SCTTGGG-----
T ss_pred             HHHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhhcc------cceeecccc-----------ccccccc-----
Confidence            345677777765 323 4999999999999999999997411      111122110           0000000     


Q ss_pred             CCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhh--------hcc-----CCccEEEEecC-C----------ccccccccC
Q psy17903        131 DGKPCPPFKIVILDEADSMTHAAQAALRRTME--------KET-----KSTRFCLICNY-V----------SCIIQPLTS  186 (355)
Q Consensus       131 ~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le--------~~~-----~~~~~Il~~~~-~----------~~l~~~l~s  186 (355)
                           .++++++.||+. +..+.++.+.++++        ...     ..+.+|++||. .          ....++|++
T Consensus       147 -----~~k~i~l~Ee~~-~~~d~~~~lr~i~~G~~~~id~K~k~~~~v~~tPvIitsN~~i~~~~~g~~~s~~~~~~L~s  220 (267)
T 1u0j_A          147 -----VDKMVIWWEEGK-MTAKVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQD  220 (267)
T ss_dssp             -----SSCSEEEECSCC-EETTTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTEEECTTHHHHHT
T ss_pred             -----cccEEEEecccc-chhHHHHHHHHHhCCCcEEEecCcCCcccccCCCEEEEecCCcccccccCccchhhhHHHhh
Confidence                 133466655555 44566677888887        322     45678888885 2          245688999


Q ss_pred             CeeeEEec--------CCCHHHHHHHHHHHHHHcCCCCCH
Q psy17903        187 RCSKFRFK--------PLAENTMLTRLQYICEQESVMCDF  218 (355)
Q Consensus       187 r~~~i~~~--------~~~~~~~~~~l~~~~~~~~~~~~~  218 (355)
                      ||..+.|.        +++.+++..++. .++.+..++++
T Consensus       221 R~~~f~F~~~~p~~~~~lt~~~~~~f~~-w~~~~~~~~~~  259 (267)
T 1u0j_A          221 RMFKFELTRRLDHDFGKVTKQEVKDFFR-WAKDHVVEVEH  259 (267)
T ss_dssp             TEEEEECCSCCCTTSCCCCHHHHHHHHH-HHHHTCCCCCC
T ss_pred             hEEEEECCCcCCcccCCCCHHHHHHHHH-HHHHcCCCCcc
Confidence            99999998        899999999998 44666666543

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=99.08  E-value=1.7e-10  Score=97.10  Aligned_cols=124  Identities=11%  Similarity=0.164  Sum_probs=74.1

Q ss_pred             cccccCCCCCCcccccH----HHHHHHHHHHhcCCC----CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC
Q psy17903         35 WVEKYRPKTIDDVIEQQ----EVVSVLKKCLSGADL----PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (355)
Q Consensus        35 ~~~k~~p~~~~~~vg~~----~~~~~l~~~l~~~~~----~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  106 (355)
                      +..+|++.+|+++++.+    .+++.+.+++.....    .+++|+||+|+|||++++++++.+.....  .++.+++.+
T Consensus        15 ~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~--~~~~~~~~~   92 (202)
T 2w58_A           15 MPREILRASLSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNV--SSLIVYVPE   92 (202)
T ss_dssp             SCGGGGCCCTTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTC--CEEEEEHHH
T ss_pred             CCHHHHcCCHhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCC--eEEEEEhHH
Confidence            44567888999999754    355667777765421    46999999999999999999999864332  344444322


Q ss_pred             ccchHHH---------HHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH--HHHHHH-HHhhhc-cCCccEEEE
Q psy17903        107 DRGIQVI---------RDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--AQAALR-RTMEKE-TKSTRFCLI  173 (355)
Q Consensus       107 ~~~~~~i---------~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~--~~~~Ll-~~le~~-~~~~~~Il~  173 (355)
                      .  ...+         ...+..+.               ...+|||||++.....  .+..++ .+++.. .....+|++
T Consensus        93 ~--~~~~~~~~~~~~~~~~~~~~~---------------~~~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~t  155 (202)
T 2w58_A           93 L--FRELKHSLQDQTMNEKLDYIK---------------KVPVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFT  155 (202)
T ss_dssp             H--HHHHHHC---CCCHHHHHHHH---------------HSSEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEE
T ss_pred             H--HHHHHHHhccchHHHHHHHhc---------------CCCEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEE
Confidence            1  0111         01111111               1139999999775433  244344 355433 345678888


Q ss_pred             ecCC
Q psy17903        174 CNYV  177 (355)
Q Consensus       174 ~~~~  177 (355)
                      +|..
T Consensus       156 sn~~  159 (202)
T 2w58_A          156 SNFD  159 (202)
T ss_dssp             ESSC
T ss_pred             cCCC
Confidence            8854

>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=99.07  E-value=2.1e-09  Score=99.90  Aligned_cols=204  Identities=15%  Similarity=0.052  Sum_probs=123.1

Q ss_pred             ccccHHHHHHHHHHHhcCC-----CCeEEEECCCCCCHHHHHHHH-HHHhcCCccccceeeecCCCccchHHHHHHHHHH
Q psy17903         47 VIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTSTMIAA-CHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (355)
Q Consensus        47 ~vg~~~~~~~l~~~l~~~~-----~~~~ll~Gp~G~GKt~la~~l-~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  120 (355)
                      ++|++.++..|.-.+-+|.     ..|+||.|+||+ ||.+|+++ ++.+..    ..+....++...+   +...+.. 
T Consensus       215 I~G~e~vK~aLll~L~GG~~k~rgdihVLL~G~PGt-KS~Lar~i~~~i~pR----~~ft~g~~ss~~g---Lt~s~r~-  285 (506)
T 3f8t_A          215 LPGAEEVGKMLALQLFSCVGKNSERLHVLLAGYPVV-CSEILHHVLDHLAPR----GVYVDLRRTELTD---LTAVLKE-  285 (506)
T ss_dssp             STTCHHHHHHHHHHHTTCCSSGGGCCCEEEESCHHH-HHHHHHHHHHHTCSS----EEEEEGGGCCHHH---HSEEEEE-
T ss_pred             cCCCHHHHHHHHHHHcCCccccCCceeEEEECCCCh-HHHHHHHHHHHhCCC----eEEecCCCCCccC---ceEEEEc-
Confidence            8899999888887776663     226999999999 99999999 655421    1122222111000   0000000 


Q ss_pred             HHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc---------cCCccEEEEecCCc-----------cc
Q psy17903        121 AQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE---------TKSTRFCLICNYVS-----------CI  180 (355)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~---------~~~~~~Il~~~~~~-----------~l  180 (355)
                       ..+ .....+.-..+++.++++||++.+++..|.+|++.||+.         +..+.+|.++|...           .+
T Consensus       286 -~tG-~~~~~G~l~LAdgGvl~lDEIn~~~~~~qsaLlEaMEe~~VtI~G~~lparf~VIAA~NP~~~yd~~~s~~~~~L  363 (506)
T 3f8t_A          286 -DRG-WALRAGAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTVDGIALNARCAVLAAINPGEQWPSDPPIARIDL  363 (506)
T ss_dssp             -SSS-EEEEECHHHHTTTSEEEEECCTTCCHHHHHHHHHHHHHSEEEETTEEEECCCEEEEEECCCC--CCSCGGGGCCS
T ss_pred             -CCC-cccCCCeeEEcCCCeeehHhhhhCCHHHHHHHHHHHhCCcEEECCEEcCCCeEEEEEeCcccccCCCCCccccCC
Confidence             000 000000000034569999999999999999999999964         45677888888643           56


Q ss_pred             cccccCCeeeEE--ec-------------CCCHHHHHHHHHHHH-HHcCCCCCHHHHHHHHHHc----------------
Q psy17903        181 IQPLTSRCSKFR--FK-------------PLAENTMLTRLQYIC-EQESVMCDFKALETLVETS----------------  228 (355)
Q Consensus       181 ~~~l~sr~~~i~--~~-------------~~~~~~~~~~l~~~~-~~~~~~~~~~~~~~l~~~~----------------  228 (355)
                      .+++.+|+..+.  ..             .++.+++.+++...- ......+++++.+++++..                
T Consensus       364 p~alLDRFDLi~i~~d~pd~e~d~e~~~~~ls~e~L~~yi~~ar~~~~~p~ls~ea~~yI~~~y~~tR~~~~~~~~~~~~  443 (506)
T 3f8t_A          364 DQDFLSHFDLIAFLGVDPRPGEPEEQDTEVPSYTLLRRYLLYAIREHPAPELTEEARKRLEHWYETRREEVEERLGMGLP  443 (506)
T ss_dssp             CHHHHTTCSEEEETTC--------------CCHHHHHHHHHHHHHHCSCCEECHHHHHHHHHHHHHHHHHHHHHHHTTCC
T ss_pred             ChHHhhheeeEEEecCCCChhHhhcccCCCCCHHHHHHHHHHHHhcCCCceeCHHHHHHHHHHHHHHhcCcccccccccc
Confidence            778999985322  12             234455555555332 1235678898888776431                


Q ss_pred             --CCCHHHHHHHHH---HHHHhhCCCCCCHHHHHHHhC
Q psy17903        229 --GGDMRRAITCLQ---SCARLKGGEGIVNEDVLEVTG  261 (355)
Q Consensus       229 --~g~~r~~~~~l~---~~~~~~~~~~It~~~v~~~~~  261 (355)
                        +-++|.+..+++   ..+.+.+...++.+|+.+++.
T Consensus       444 ~~giSpR~leaLiRlA~A~A~L~gR~~V~~eDV~~Ai~  481 (506)
T 3f8t_A          444 TLPVTRRQLESVERLAKAHARMRLSDDVEPEDVDIAAE  481 (506)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHHHHHHcCcCCCCHHHHHHHHH
Confidence              234565555554   334444677888888887763

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=99.01  E-value=1.1e-09  Score=90.77  Aligned_cols=118  Identities=23%  Similarity=0.335  Sum_probs=71.4

Q ss_pred             HHHHHHHHHHhcCCCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCC
Q psy17903         52 EVVSVLKKCLSGADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQ  130 (355)
Q Consensus        52 ~~~~~l~~~l~~~~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~  130 (355)
                      ..+..|+.++++-... +++||||||+|||++|.++++.+.+...  .+  .+....            +. ....    
T Consensus        43 ~f~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l~g~i~--~f--ans~s~------------f~-l~~l----  101 (212)
T 1tue_A           43 TFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVI--SF--VNSTSH------------FW-LEPL----  101 (212)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEEC--CC--CCSSSC------------GG-GGGG----
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhCCCee--eE--Eeccch------------hh-hccc----
Confidence            4456777777752212 4999999999999999999999854221  11  111110            00 0000    


Q ss_pred             CCCCCCCcEEEEEeCCCCCCHHH-HHHHHHHhhhcc-------------CCccEEEEecCC---ccccccccCCeeeEEe
Q psy17903        131 DGKPCPPFKIVILDEADSMTHAA-QAALRRTMEKET-------------KSTRFCLICNYV---SCIIQPLTSRCSKFRF  193 (355)
Q Consensus       131 ~~~~~~~~~vliiDe~d~l~~~~-~~~Ll~~le~~~-------------~~~~~Il~~~~~---~~l~~~l~sr~~~i~~  193 (355)
                           .+.++++|||++.-..+. ...+...++..+             ....+|++||..   ....+.|.||+..+.|
T Consensus       102 -----~~~kIiiLDEad~~~~~~~d~~lrn~ldG~~~~iD~Khr~~~~~~~~PlIITtN~~~~~~~~~~~L~SRi~~f~F  176 (212)
T 1tue_A          102 -----TDTKVAMLDDATTTCWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLESRITVFEF  176 (212)
T ss_dssp             -----TTCSSEEEEEECHHHHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHTSCEEEEC
T ss_pred             -----CCCCEEEEECCCchhHHHHHHHHHHHhCCCcccHHHhhcCccccCCCCEEEecCCCcccccchhhhhhhEEEEEc
Confidence                 134599999998432122 234555555431             134688899853   3455789999998888


Q ss_pred             cC
Q psy17903        194 KP  195 (355)
Q Consensus       194 ~~  195 (355)
                      +.
T Consensus       177 ~~  178 (212)
T 1tue_A          177 PN  178 (212)
T ss_dssp             CS
T ss_pred             CC
Confidence            63

>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=98.96  E-value=4e-09  Score=116.83  Aligned_cols=150  Identities=16%  Similarity=0.169  Sum_probs=101.3

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCC-CC-
Q psy17903         56 VLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQD-GK-  133 (355)
Q Consensus        56 ~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~-~~-  133 (355)
                      .+..++..+  .++||+||||||||++|+.+....    .+..++.++.+.......+...+.............. +. 
T Consensus      1259 ll~~~l~~~--~~vLL~GPpGtGKT~la~~~l~~~----~~~~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~~~P~ 1332 (2695)
T 4akg_A         1259 IFYDLLNSK--RGIILCGPPGSGKTMIMNNALRNS----SLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPK 1332 (2695)
T ss_dssp             HHHHHHHHT--CEEEEECSTTSSHHHHHHHHHHSC----SSCEEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEEEEEB
T ss_pred             HHHHHHHCC--CeEEEECCCCCCHHHHHHHHHhcC----CCCceEEEEeecCCCHHHHHHHHHHHhhhccccCCccccCC
Confidence            344555555  369999999999999997776553    2345667777776666666666654322110000000 00 


Q ss_pred             CCCCcEEEEEeCCCCCCH------HHHHHHHHHhhhcc------------CCccEEEEecCCc-----cccccccCCeee
Q psy17903        134 PCPPFKIVILDEADSMTH------AAQAALRRTMEKET------------KSTRFCLICNYVS-----CIIQPLTSRCSK  190 (355)
Q Consensus       134 ~~~~~~vliiDe~d~l~~------~~~~~Ll~~le~~~------------~~~~~Il~~~~~~-----~l~~~l~sr~~~  190 (355)
                      +.+.+-|+||||++.-..      ...+.|+..++...            .++.+|.++|.+.     .+.+++.+|+..
T Consensus      1333 ~~gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllRrf~v 1412 (2695)
T 4akg_A         1333 SDIKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAI 1412 (2695)
T ss_dssp             SSSSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHTTEEE
T ss_pred             CCCceEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhheeeE
Confidence            011334999999876533      35667777776421            2467888898873     688999999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHH
Q psy17903        191 FRFKPLAENTMLTRLQYICEQ  211 (355)
Q Consensus       191 i~~~~~~~~~~~~~l~~~~~~  211 (355)
                      +.++.|+.+++..++..++..
T Consensus      1413 i~i~~P~~~~l~~I~~~il~~ 1433 (2695)
T 4akg_A         1413 LYLGYPSGKSLSQIYEIYYKA 1433 (2695)
T ss_dssp             EECCCCTTTHHHHHHHHHHHH
T ss_pred             EEeCCCCHHHHHHHHHHHHHH
Confidence            999999999999999988764

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.95  E-value=1.1e-09  Score=87.32  Aligned_cols=99  Identities=16%  Similarity=0.186  Sum_probs=66.2

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCC
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA  146 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~  146 (355)
                      ..++|+||+|+|||+++++++..+...  ....+.+++.+....        .+..              +.+++||||+
T Consensus        37 ~~~~l~G~~G~GKTtL~~~i~~~~~~~--g~~~~~~~~~~~~~~--------~~~~--------------~~~lLilDE~   92 (149)
T 2kjq_A           37 QFIYVWGEEGAGKSHLLQAWVAQALEA--GKNAAYIDAASMPLT--------DAAF--------------EAEYLAVDQV   92 (149)
T ss_dssp             SEEEEESSSTTTTCHHHHHHHHHHHTT--TCCEEEEETTTSCCC--------GGGG--------------GCSEEEEEST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhc--CCcEEEEcHHHhhHH--------HHHh--------------CCCEEEEeCc
Confidence            349999999999999999999988542  223566666543222        0000              2249999999


Q ss_pred             CCCCHHHHHHHHHHhhhccC--CccEEEEecCC-ccc--cccccCCee
Q psy17903        147 DSMTHAAQAALRRTMEKETK--STRFCLICNYV-SCI--IQPLTSRCS  189 (355)
Q Consensus       147 d~l~~~~~~~Ll~~le~~~~--~~~~Il~~~~~-~~l--~~~l~sr~~  189 (355)
                      +.+....+..|..+++....  .+++|++++.. ..+  .+.+.||+.
T Consensus        93 ~~~~~~~~~~l~~li~~~~~~g~~~iiits~~~p~~l~~~~~L~SRl~  140 (149)
T 2kjq_A           93 EKLGNEEQALLFSIFNRFRNSGKGFLLLGSEYTPQQLVIREDLRTRMA  140 (149)
T ss_dssp             TCCCSHHHHHHHHHHHHHHHHTCCEEEEEESSCTTTSSCCHHHHHHGG
T ss_pred             cccChHHHHHHHHHHHHHHHcCCcEEEEECCCCHHHccccHHHHHHHh
Confidence            99987778888888765322  23367788743 222  278888875

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.91  E-value=6.1e-10  Score=99.98  Aligned_cols=131  Identities=16%  Similarity=0.198  Sum_probs=70.4

Q ss_pred             ccccCCCCCCcccccH----HHHHHHHHHHhcCC---CCeEEEECCCCCCHHHHHHHHHHHhc-CCccccceeeecCCCc
Q psy17903         36 VEKYRPKTIDDVIEQQ----EVVSVLKKCLSGAD---LPHFLFYGPPGTGKTSTMIAACHQLF-GDMYRERILELNASDD  107 (355)
Q Consensus        36 ~~k~~p~~~~~~vg~~----~~~~~l~~~l~~~~---~~~~ll~Gp~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~  107 (355)
                      ...+++.+|+++++..    .++..+.+++....   ..+++|+||+|+|||+++.++++.+. ....  .++.+++++ 
T Consensus       115 ~~~~~~~tfd~f~~~~~~~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~--~v~~~~~~~-  191 (308)
T 2qgz_A          115 PKSYRHIHLSDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGV--STTLLHFPS-  191 (308)
T ss_dssp             CGGGGSCCGGGSCCCSHHHHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCC--CEEEEEHHH-
T ss_pred             CHHHHhCCHhhCcCCChHHHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCC--cEEEEEHHH-
Confidence            3455678999998633    35556667776532   34699999999999999999999885 4322  333333321 


Q ss_pred             cchHHHHHHHHH-HHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--HHHHHHHH-Hhhhc-cCCccEEEEecCC
Q psy17903        108 RGIQVIRDKVKT-FAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRR-TMEKE-TKSTRFCLICNYV  177 (355)
Q Consensus       108 ~~~~~i~~~i~~-~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--~~~~~Ll~-~le~~-~~~~~~Il~~~~~  177 (355)
                           +...+.. +.........  . ......+|||||++....  ..++.|+. +++.. .....+|++||..
T Consensus       192 -----l~~~l~~~~~~~~~~~~~--~-~~~~~~lLiiDdig~~~~~~~~~~~ll~~ll~~r~~~~~~~IitSN~~  258 (308)
T 2qgz_A          192 -----FAIDVKNAISNGSVKEEI--D-AVKNVPVLILDDIGAEQATSWVRDEVLQVILQYRMLEELPTFFTSNYS  258 (308)
T ss_dssp             -----HHHHHHCCCC----CCTT--H-HHHTSSEEEEETCCC------CTTTTHHHHHHHHHHHTCCEEEEESSC
T ss_pred             -----HHHHHHHHhccchHHHHH--H-HhcCCCEEEEcCCCCCCCCHHHHHHHHHHHHHHHHHCCCcEEEECCCC
Confidence                 1111100 0000000000  0 000224999999976543  22333433 55432 2345688888853

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=98.80  E-value=1.4e-07  Score=92.44  Aligned_cols=189  Identities=12%  Similarity=0.098  Sum_probs=104.3

Q ss_pred             CCCCCCcccccHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHhc--CCccccceeeecCCCccchHHHHH
Q psy17903         40 RPKTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLF--GDMYRERILELNASDDRGIQVIRD  115 (355)
Q Consensus        40 ~p~~~~~~vg~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~~~i~~  115 (355)
                      -|.....++|++..++.|.+.+...  ..+.+.|+||+|+|||++|..+++...  ...+...++.++.... ....+..
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            3566678999999999999999743  223399999999999999999875321  1111111222222211 1111111


Q ss_pred             HHHHHHHhhcc-CCCCCCCCC----------------CCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCc
Q psy17903        116 KVKTFAQQTAS-GFNQDGKPC----------------PPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVS  178 (355)
Q Consensus       116 ~i~~~~~~~~~-~~~~~~~~~----------------~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~  178 (355)
                      .+......... .......+.                ..+-+|||||++..  .    .+..+   +..+.+|+||....
T Consensus       198 ~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~--~----~l~~l---~~~~~ilvTsR~~~  268 (591)
T 1z6t_A          198 KLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS--W----VLKAF---DSQCQILLTTRDKS  268 (591)
T ss_dssp             HHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCH--H----HHHTT---CSSCEEEEEESCGG
T ss_pred             HHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCH--H----HHHHh---cCCCeEEEECCCcH
Confidence            11111110000 000000000                02239999999762  1    12222   45677777776543


Q ss_pred             cccccccCCeeeEEe---cCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q psy17903        179 CIIQPLTSRCSKFRF---KPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSC  242 (355)
Q Consensus       179 ~l~~~l~sr~~~i~~---~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~  242 (355)
                      .. ..+.  ...+.+   .+++.++..+++...+... ..-.++....|++.++|.+-.+......+
T Consensus       269 ~~-~~~~--~~~~~v~~l~~L~~~ea~~L~~~~~~~~-~~~~~~~~~~i~~~~~G~PLal~~~a~~l  331 (591)
T 1z6t_A          269 VT-DSVM--GPKYVVPVESSLGKEKGLEILSLFVNMK-KADLPEQAHSIIKECKGSPLVVSLIGALL  331 (591)
T ss_dssp             GG-TTCC--SCEEEEECCSSCCHHHHHHHHHHHHTSC-GGGSCTHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HH-HhcC--CCceEeecCCCCCHHHHHHHHHHHhCCC-cccccHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            21 1111  223333   5899999999998876431 11124567889999999998776655444

>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=1.1e-06  Score=97.89  Aligned_cols=168  Identities=20%  Similarity=0.203  Sum_probs=115.0

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCC
Q psy17903         53 VVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDG  132 (355)
Q Consensus        53 ~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~  132 (355)
                      ....+..++..+.  ..++.||+|||||++++.+++.+     ...++.+||.+......+...+......+        
T Consensus       634 ~~~tl~~Al~~~~--~~~l~GpaGtGKTe~vk~LA~~l-----g~~~v~~nc~e~ld~~~lg~~~~g~~~~G--------  698 (2695)
T 4akg_A          634 GFATLTDSLHQKY--GGCFFGPAGTGKTETVKAFGQNL-----GRVVVVFNCDDSFDYQVLSRLLVGITQIG--------  698 (2695)
T ss_dssp             HHHHHHHHHHTTC--EEEEECCTTSCHHHHHHHHHHTT-----TCCCEEEETTSSCCHHHHHHHHHHHHHHT--------
T ss_pred             HHHHHHHHHHhCC--CCcccCCCCCCcHHHHHHHHHHh-----CCcEEEEECCCCCChhHhhHHHHHHHhcC--------
Confidence            3445555555442  47899999999999999999998     44677899998888777766666655443        


Q ss_pred             CCCCCcEEEEEeCCCCCCHHHHHHHH-------HHhhhc-------------cCCccEEEEecC----CccccccccCCe
Q psy17903        133 KPCPPFKIVILDEADSMTHAAQAALR-------RTMEKE-------------TKSTRFCLICNY----VSCIIQPLTSRC  188 (355)
Q Consensus       133 ~~~~~~~vliiDe~d~l~~~~~~~Ll-------~~le~~-------------~~~~~~Il~~~~----~~~l~~~l~sr~  188 (355)
                            -.+++||++++..+.+..+.       ..+.+.             ++.+.++++.|.    ...+.+++++||
T Consensus       699 ------aw~~~DE~nr~~~evLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPgy~g~~eLP~~Lk~~F  772 (2695)
T 4akg_A          699 ------AWGCFDEFNRLDEKVLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKSF  772 (2695)
T ss_dssp             ------CEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEECCCSSSSCCCCHHHHTTE
T ss_pred             ------CEeeehhhhhcChHHHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCCCccCcccccHHHHhhe
Confidence                  28999999999998776662       222211             234445556662    345788999999


Q ss_pred             eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-------------cCCCHHHHHHHHHHHHH
Q psy17903        189 SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVET-------------SGGDMRRAITCLQSCAR  244 (355)
Q Consensus       189 ~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~-------------~~g~~r~~~~~l~~~~~  244 (355)
                      +.+.+..|+.+.+.+++...   .|....+.....++..             ..-.+|.+...|..+..
T Consensus       773 r~v~m~~Pd~~~i~ei~l~s---~Gf~~a~~la~kiv~~~~l~~e~ls~q~hydfglRalksvL~~ag~  838 (2695)
T 4akg_A          773 REFSMKSPQSGTIAEMILQI---MGFEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNCSP  838 (2695)
T ss_dssp             EEEECCCCCHHHHHHHHHHH---HHCSSHHHHHHHHHHHHHHHHHHSCCCTTCCCSHHHHHHHHHHHHH
T ss_pred             EEEEeeCCCHHHHHHHHHHh---cCCCchHHHHHHHHHHHHHHHHHhCcCCcccccHHHHHHHHHHHHH
Confidence            99999999999888886533   3454444444433321             12467887777765543

>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=98.62  E-value=2.4e-06  Score=90.59  Aligned_cols=190  Identities=11%  Similarity=0.078  Sum_probs=109.6

Q ss_pred             CCCCCCcccccHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHh--cCCccccceeeecCCCccchH---H
Q psy17903         40 RPKTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQL--FGDMYRERILELNASDDRGIQ---V  112 (355)
Q Consensus        40 ~p~~~~~~vg~~~~~~~l~~~l~~~--~~~~~ll~Gp~G~GKt~la~~l~~~l--~~~~~~~~~~~~~~~~~~~~~---~  112 (355)
                      -|.....++|++..++.|.+.+...  ...-+.|+|+.|+|||++|+.+++..  ....+...++.++.+......   .
T Consensus       119 ~p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~  198 (1249)
T 3sfz_A          119 VPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMK  198 (1249)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHH
T ss_pred             CCCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHH
Confidence            4566678999999999999998543  22238899999999999999887653  122122223334433321111   1


Q ss_pred             HHHHHHHHHHhhccCCC-C--------------CCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCC
Q psy17903        113 IRDKVKTFAQQTASGFN-Q--------------DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYV  177 (355)
Q Consensus       113 i~~~i~~~~~~~~~~~~-~--------------~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~  177 (355)
                      +................ .              .++  .++-+|||||++..  .   .    ++.....+.+|+||...
T Consensus       199 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~--~~~~LlvlDd~~~~--~---~----~~~~~~~~~ilvTtR~~  267 (1249)
T 3sfz_A          199 LQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRK--HPRSLLILDDVWDP--W---V----LKAFDNQCQILLTTRDK  267 (1249)
T ss_dssp             HHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSS--SCSCEEEEESCCCH--H---H----HTTTCSSCEEEEEESST
T ss_pred             HHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhcc--CCCEEEEEecCCCH--H---H----HHhhcCCCEEEEEcCCH
Confidence            11111111110000000 0              000  02349999999853  1   1    22224567788777655


Q ss_pred             ccccccccCCeeeEEecC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q psy17903        178 SCIIQPLTSRCSKFRFKP-LAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSC  242 (355)
Q Consensus       178 ~~l~~~l~sr~~~i~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~  242 (355)
                      .-. ..+......+.+.+ ++.++..+.+...+....-. .++....|++.++|.+-.+......+
T Consensus       268 ~~~-~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~-~~~~~~~i~~~~~glPLal~~~~~~l  331 (1249)
T 3sfz_A          268 SVT-DSVMGPKHVVPVESGLGREKGLEILSLFVNMKKED-LPAEAHSIIKECKGSPLVVSLIGALL  331 (1249)
T ss_dssp             TTT-TTCCSCBCCEECCSSCCHHHHHHHHHHHHTSCSTT-CCTHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHH-HhhcCCceEEEecCCCCHHHHHHHHHHhhCCChhh-CcHHHHHHHHHhCCCHHHHHHHHHHh
Confidence            322 12223334677875 99999999998776433222 23567889999999987766555444

>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=98.62  E-value=6.7e-07  Score=86.75  Aligned_cols=181  Identities=15%  Similarity=0.126  Sum_probs=102.6

Q ss_pred             cccHHHHHHHHHHHhcC---CCCeEEEECCCCCCHHHHHHHHHHH---hcCCccccceeeecCCCcc--chH-HHHHHHH
Q psy17903         48 IEQQEVVSVLKKCLSGA---DLPHFLFYGPPGTGKTSTMIAACHQ---LFGDMYRERILELNASDDR--GIQ-VIRDKVK  118 (355)
Q Consensus        48 vg~~~~~~~l~~~l~~~---~~~~~ll~Gp~G~GKt~la~~l~~~---l~~~~~~~~~~~~~~~~~~--~~~-~i~~~i~  118 (355)
                      +|++..++.|.+++..+   ....+.|+|+.|+|||++|+.+++.   -....+. ..+.++.+...  +.. .....+.
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   2233999999999999999999972   2222222 22333433321  222 2222233


Q ss_pred             HHHHhhc---cCCCCCC-----------CCCCC-cEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCcccccc
Q psy17903        119 TFAQQTA---SGFNQDG-----------KPCPP-FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQP  183 (355)
Q Consensus       119 ~~~~~~~---~~~~~~~-----------~~~~~-~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~  183 (355)
                      .......   ......+           .-..+ +-+||+||++...  .. .+.    . ...+.+|+||.... +...
T Consensus       210 ~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~--~~-~~~----~-~~gs~ilvTTR~~~-v~~~  280 (549)
T 2a5y_B          210 MLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEE--TI-RWA----Q-ELRLRCLVTTRDVE-ISNA  280 (549)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHH--HH-HHH----H-HTTCEEEEEESBGG-GGGG
T ss_pred             HHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCch--hh-ccc----c-cCCCEEEEEcCCHH-HHHH
Confidence            2221100   0000000           00012 4599999998742  11 221    1 14566777776533 2222


Q ss_pred             ccCCeeeEEecCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHH
Q psy17903        184 LTSRCSKFRFKPLAENTMLTRLQYICEQESV-MCDFKALETLVETSGGDMRRAITC  238 (355)
Q Consensus       184 l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~~~~l~~~~~g~~r~~~~~  238 (355)
                      .......+.+++++.++..+++.+.+..... .-.++....|++.|+|.+-.+...
T Consensus       281 ~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~  336 (549)
T 2a5y_B          281 ASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMF  336 (549)
T ss_dssp             CCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHH
Confidence            2222357999999999999998877432211 111346788999999998776544

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.62  E-value=5.5e-07  Score=100.79  Aligned_cols=184  Identities=15%  Similarity=0.143  Sum_probs=116.9

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCC-CCCCCC
Q psy17903         56 VLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGF-NQDGKP  134 (355)
Q Consensus        56 ~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~-~~~~~~  134 (355)
                      .+..++..+  .++||+||+|||||+++..+...+.    +..++.++.+.......+...+........... .....|
T Consensus      1296 ll~~ll~~~--~pvLL~GptGtGKT~li~~~L~~l~----~~~~~~infS~~Tta~~l~~~~e~~~e~~~~~~~G~~~~p 1369 (3245)
T 3vkg_A         1296 VLHAWLSEH--RPLILCGPPGSGKTMTLTSTLRAFP----DFEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGETVLRP 1369 (3245)
T ss_dssp             HHHHHHHTT--CCCEEESSTTSSHHHHHHHHGGGCT----TEEEEEECCCTTCCHHHHHHHHHHHEEEEECTTSCEEEEE
T ss_pred             HHHHHHHCC--CcEEEECCCCCCHHHHHHHHHHhCC----CCceEEEEeeCCCCHHHHHHHHhhcceEEeccCCCcccCC
Confidence            445556654  3589999999999998877665542    335678888888887777766654321110000 000011


Q ss_pred             --CCCcEEEEEeCCCCCCHH------HHHHHHHHhhhc------------cCCccEEEEecCC-----ccccccccCCee
Q psy17903        135 --CPPFKIVILDEADSMTHA------AQAALRRTMEKE------------TKSTRFCLICNYV-----SCIIQPLTSRCS  189 (355)
Q Consensus       135 --~~~~~vliiDe~d~l~~~------~~~~Ll~~le~~------------~~~~~~Il~~~~~-----~~l~~~l~sr~~  189 (355)
                        .+++-|+||||++.-..+      ..+.|+.+++..            ..++.||.++|.+     ..+.+++.+|+.
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              113458999999865432      566777777642            1356688888865     347889999999


Q ss_pred             eEEecCCCHHHHHHHHHHHHHHcCC------CCCHHHHHHHHHH---------------cCCCHHHHHHHHHHHHHh
Q psy17903        190 KFRFKPLAENTMLTRLQYICEQESV------MCDFKALETLVET---------------SGGDMRRAITCLQSCARL  245 (355)
Q Consensus       190 ~i~~~~~~~~~~~~~l~~~~~~~~~------~~~~~~~~~l~~~---------------~~g~~r~~~~~l~~~~~~  245 (355)
                      .+.+..|+.+.+..++..+....-.      .+.+..++..++.               .--|+|.+.+.++-+...
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            9999999999999998776553211      1223333333321               123888888888776553

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=98.37  E-value=3.7e-06  Score=68.91  Aligned_cols=66  Identities=14%  Similarity=0.264  Sum_probs=45.9

Q ss_pred             EEEEEeCCC---CCCHHHHHHHHHHhhhccCCccEEEEec--CCccccccccCC--eeeEEecCCCHHHHHHHHH
Q psy17903        139 KIVILDEAD---SMTHAAQAALRRTMEKETKSTRFCLICN--YVSCIIQPLTSR--CSKFRFKPLAENTMLTRLQ  206 (355)
Q Consensus       139 ~vliiDe~d---~l~~~~~~~Ll~~le~~~~~~~~Il~~~--~~~~l~~~l~sr--~~~i~~~~~~~~~~~~~l~  206 (355)
                      +++++||++   .+....++.+.+.+++.  ...+|++++  +...+...+.+|  |.++++.+.+.+++...+.
T Consensus       101 ~llilDEigp~~~ld~~~~~~l~~~l~~~--~~~~i~~~H~~h~~~~~~~i~~r~~~~i~~~~~~~r~~~~~~l~  173 (178)
T 1ye8_A          101 KVIIIDEIGKMELFSKKFRDLVRQIMHDP--NVNVVATIPIRDVHPLVKEIRRLPGAVLIELTPENRDVILEDIL  173 (178)
T ss_dssp             CEEEECCCSTTGGGCHHHHHHHHHHHTCT--TSEEEEECCSSCCSHHHHHHHTCTTCEEEECCTTTTTTHHHHHH
T ss_pred             CEEEEeCCCCcccCCHHHHHHHHHHHhcC--CCeEEEEEccCCCchHHHHHHhcCCcEEEEecCcCHHHHHHHHH
Confidence            499999964   45567788899999873  333555663  334466777777  7899998888766655544

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.30  E-value=6.7e-07  Score=74.63  Aligned_cols=58  Identities=16%  Similarity=0.160  Sum_probs=39.8

Q ss_pred             EEEEEeCCCCCCH---HH--HHHHHHHhhhc-cCCccEEEEecCCccccccccCCee-eEEecCC
Q psy17903        139 KIVILDEADSMTH---AA--QAALRRTMEKE-TKSTRFCLICNYVSCIIQPLTSRCS-KFRFKPL  196 (355)
Q Consensus       139 ~vliiDe~d~l~~---~~--~~~Ll~~le~~-~~~~~~Il~~~~~~~l~~~l~sr~~-~i~~~~~  196 (355)
                      .+|||||++.+.+   +.  ...++..++.. .....+|++++.+..+..+++.|.. .+++.++
T Consensus        89 ~vliIDEAq~l~~~~~~~~e~~rll~~l~~~r~~~~~iil~tq~~~~l~~~lr~ri~~~~~l~~~  153 (199)
T 2r2a_A           89 SIVIVDEAQDVWPARSAGSKIPENVQWLNTHRHQGIDIFVLTQGPKLLDQNLRTLVRKHYHIASN  153 (199)
T ss_dssp             CEEEETTGGGTSBCCCTTCCCCHHHHGGGGTTTTTCEEEEEESCGGGBCHHHHTTEEEEEEEEEC
T ss_pred             eEEEEEChhhhccCccccchhHHHHHHHHhcCcCCeEEEEECCCHHHHhHHHHHHhheEEEEcCc
Confidence            4999999999832   11  11344555433 3455678889888888889999987 6677653

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=98.27  E-value=2e-05  Score=80.18  Aligned_cols=43  Identities=21%  Similarity=0.288  Sum_probs=36.3

Q ss_pred             ccccHHHHHHHHHHHhcC-CCCeEEEECCCCCCHHHHHHHHHHH
Q psy17903         47 VIEQQEVVSVLKKCLSGA-DLPHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        47 ~vg~~~~~~~l~~~l~~~-~~~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+|++..++.|.+++... ..+-+.|+|+.|+|||++|+.+++.
T Consensus       130 ~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d  173 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLS  173 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHh
Confidence            389999999999998763 3334999999999999999999864

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.19  E-value=0.00012  Score=82.47  Aligned_cols=169  Identities=17%  Similarity=0.143  Sum_probs=114.1

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCC
Q psy17903         54 VSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK  133 (355)
Q Consensus        54 ~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~  133 (355)
                      ...|..++..+.  ...+.||+|||||.+++.+++.++     ..++.+||++..+...+...+...+..+.        
T Consensus       594 y~tl~~Al~~~~--gg~~~GPaGtGKTet~k~La~~lg-----r~~~vfnC~~~~d~~~~g~i~~G~~~~Ga--------  658 (3245)
T 3vkg_A          594 YLTLTQALESRM--GGNPFGPAGTGKTETVKALGSQLG-----RFVLVFCCDEGFDLQAMSRIFVGLCQCGA--------  658 (3245)
T ss_dssp             HHHHHHHHHTTC--EEEEECSTTSSHHHHHHHHHHHTT-----CCEEEEECSSCCCHHHHHHHHHHHHHHTC--------
T ss_pred             HHHHHHHHHhcC--CCCCCCCCCCCHHHHHHHHHHHhC-----CeEEEEeCCCCCCHHHHHHHHhhHhhcCc--------
Confidence            344555555432  257999999999999999999994     45678899887777766666666555432        


Q ss_pred             CCCCcEEEEEeCCCCCCHHHHHHHHHHhh-------h---------c-----cCCccEEEEecC----CccccccccCCe
Q psy17903        134 PCPPFKIVILDEADSMTHAAQAALRRTME-------K---------E-----TKSTRFCLICNY----VSCIIQPLTSRC  188 (355)
Q Consensus       134 ~~~~~~vliiDe~d~l~~~~~~~Ll~~le-------~---------~-----~~~~~~Il~~~~----~~~l~~~l~sr~  188 (355)
                            -.++||++++..+....+...+.       .         +     ...+.++++.|.    ...+.+.+++++
T Consensus       659 ------W~cfDEfNrl~~~vLSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr~eLP~nLk~lF  732 (3245)
T 3vkg_A          659 ------WGCFDEFNRLEERILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGRSNLPDNLKKLF  732 (3245)
T ss_dssp             ------EEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGCCCSCHHHHTTE
T ss_pred             ------EEEehhhhcCCHHHHHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCcccChHHHHhhc
Confidence                  67999999999877655544332       1         1     123455555563    346888999999


Q ss_pred             eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-------------cCCCHHHHHHHHHHHHHhh
Q psy17903        189 SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVET-------------SGGDMRRAITCLQSCARLK  246 (355)
Q Consensus       189 ~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~-------------~~g~~r~~~~~l~~~~~~~  246 (355)
                      +.|.+..|+.+.+.+++..   ..|+.-.......++..             ..-.+|.+...|..+..+.
T Consensus       733 r~v~m~~Pd~~~i~ei~L~---s~Gf~~a~~La~k~~~~~~l~~e~LS~Q~HYDfGLRalKsVL~~AG~lk  800 (3245)
T 3vkg_A          733 RSMAMIKPDREMIAQVMLY---SQGFKTAEVLAGKIVPLFKLCQEQLSAQSHYDFGLRALKSVLVSAGGIK  800 (3245)
T ss_dssp             EEEECCSCCHHHHHHHHHH---TTTCSCHHHHHHHHHHHHHHHHHSSCCCTTCCCSHHHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHHHH
Confidence            9999999999998888643   35655444444433321             1235888888887665443

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=98.10  E-value=4.5e-07  Score=74.84  Aligned_cols=36  Identities=8%  Similarity=0.095  Sum_probs=25.7

Q ss_pred             CcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEec
Q psy17903        137 PFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN  175 (355)
Q Consensus       137 ~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~  175 (355)
                      +..+|+|||++.++++..+.|....+.   +..+|+++.
T Consensus        76 ~~dvviIDE~Q~~~~~~~~~l~~l~~~---~~~Vi~~Gl  111 (184)
T 2orw_A           76 DTRGVFIDEVQFFNPSLFEVVKDLLDR---GIDVFCAGL  111 (184)
T ss_dssp             TEEEEEECCGGGSCTTHHHHHHHHHHT---TCEEEEEEE
T ss_pred             CCCEEEEECcccCCHHHHHHHHHHHHC---CCCEEEEee
Confidence            456999999999987777777666664   344555554

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=98.00  E-value=3.1e-05  Score=68.82  Aligned_cols=21  Identities=24%  Similarity=0.281  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|+||||+|||+++..++..
T Consensus       126 iLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          126 VIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             EEEECSCSSSHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHh
Confidence            899999999999999999987

>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=97.94  E-value=3.3e-05  Score=74.94  Aligned_cols=119  Identities=21%  Similarity=0.271  Sum_probs=68.3

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHH-------HHHHH
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV-------KTFAQ  122 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i-------~~~~~  122 (355)
                      .+.+...+...+..   +.++|+|+||||||+++..++..+.....  .++ +-+........+.+.+       ..+..
T Consensus       191 ~~~Q~~Av~~~~~~---~~~~I~G~pGTGKTt~i~~l~~~l~~~g~--~Vl-~~ApT~~Aa~~L~e~~~~~a~Tih~ll~  264 (574)
T 3e1s_A          191 SEEQASVLDQLAGH---RLVVLTGGPGTGKSTTTKAVADLAESLGL--EVG-LCAPTGKAARRLGEVTGRTASTVHRLLG  264 (574)
T ss_dssp             CHHHHHHHHHHTTC---SEEEEECCTTSCHHHHHHHHHHHHHHTTC--CEE-EEESSHHHHHHHHHHHTSCEEEHHHHTT
T ss_pred             CHHHHHHHHHHHhC---CEEEEEcCCCCCHHHHHHHHHHHHHhcCC--eEE-EecCcHHHHHHhHhhhcccHHHHHHHHc
Confidence            45566666665532   35999999999999999999988754332  222 2222222223333221       11111


Q ss_pred             hhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCC
Q psy17903        123 QTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYV  177 (355)
Q Consensus       123 ~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~  177 (355)
                      ..............+..+|||||+..+.......|++.+.   ....+|++++..
T Consensus       265 ~~~~~~~~~~~~~~~~dvlIIDEasml~~~~~~~Ll~~~~---~~~~lilvGD~~  316 (574)
T 3e1s_A          265 YGPQGFRHNHLEPAPYDLLIVDEVSMMGDALMLSLLAAVP---PGARVLLVGDTD  316 (574)
T ss_dssp             EETTEESCSSSSCCSCSEEEECCGGGCCHHHHHHHHTTSC---TTCEEEEEECTT
T ss_pred             CCcchhhhhhcccccCCEEEEcCccCCCHHHHHHHHHhCc---CCCEEEEEeccc
Confidence            1100000000011245799999999999888877877664   456778777643

>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=97.84  E-value=3.8e-05  Score=65.04  Aligned_cols=24  Identities=33%  Similarity=0.354  Sum_probs=21.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++++||+|+||||++..++..+..
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            899999999999999888887754

>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=97.67  E-value=0.00029  Score=57.95  Aligned_cols=99  Identities=13%  Similarity=0.164  Sum_probs=59.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC-Cccch-----------------------------HHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS-DDRGI-----------------------------QVIRDKV  117 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~-~~~~~-----------------------------~~i~~~i  117 (355)
                      .+++|+++|.||||+|-.++-...+..++.-++.+... ...+.                             ......+
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            49999999999999999988877655444333322211 00011                             1111111


Q ss_pred             HHHHHhhccCCCCCCCCCCCcEEEEEeCC------CCCCHHHHHHHHHHhhhccCCccEEEEecCCc
Q psy17903        118 KTFAQQTASGFNQDGKPCPPFKIVILDEA------DSMTHAAQAALRRTMEKETKSTRFCLICNYVS  178 (355)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~vliiDe~------d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~  178 (355)
                      .........         ..+.+||+||+      +.+..   +.++..+.+.+...-+|+|++...
T Consensus       110 ~~a~~~l~~---------~~yDlvILDEi~~al~~g~l~~---~ev~~~l~~Rp~~~~vIlTGr~ap  164 (196)
T 1g5t_A          110 QHGKRMLAD---------PLLDMVVLDELTYMVAYDYLPL---EEVISALNARPGHQTVIITGRGCH  164 (196)
T ss_dssp             HHHHHHTTC---------TTCSEEEEETHHHHHHTTSSCH---HHHHHHHHTSCTTCEEEEECSSCC
T ss_pred             HHHHHHHhc---------CCCCEEEEeCCCccccCCCCCH---HHHHHHHHhCcCCCEEEEECCCCc
Confidence            111111110         15679999999      44544   357778888888889999998754

>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=97.65  E-value=0.00039  Score=59.48  Aligned_cols=38  Identities=26%  Similarity=0.315  Sum_probs=29.1

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+.+...+..+++.+   +++++||+|+|||.++..++..+
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            455555666666543   48999999999999999888775

>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=97.64  E-value=0.00025  Score=55.37  Aligned_cols=122  Identities=8%  Similarity=0.019  Sum_probs=76.8

Q ss_pred             HHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCC-ccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCC
Q psy17903         58 KKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD-MYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCP  136 (355)
Q Consensus        58 ~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~-~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~  136 (355)
                      .+.++++-.|-|||||+.-.-....+.++.+.+... ....+++.+++.  ...+.   .+......+.++         
T Consensus        10 ~~~l~~~~~pvyll~G~E~~l~~~~~~~i~~~~~~~~~~e~~~~~~~~~--~~~~~---l~~~~~s~slF~---------   75 (140)
T 1jql_B           10 RAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDPN--TDWNA---IFSLCQAMSLFA---------   75 (140)
T ss_dssp             HHHHHHCCCSEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEECCCCSTT--CCHHH---HHHHHHCCCTTC---------
T ss_pred             HHHHhccCCceEEEEcCcHHHHHHHHHHHHHHHHHCCCcceeEEEecCC--CCHHH---HHHHHhcCCCCC---------
Confidence            344444444459999999766666667776655422 222234444441  33333   344444444443         


Q ss_pred             CcEEEEEeCCCC-CCHHHHHHHHHHhhhccCCccEEEEecCC------ccccccccCCeeeEEe
Q psy17903        137 PFKIVILDEADS-MTHAAQAALRRTMEKETKSTRFCLICNYV------SCIIQPLTSRCSKFRF  193 (355)
Q Consensus       137 ~~~vliiDe~d~-l~~~~~~~Ll~~le~~~~~~~~Il~~~~~------~~l~~~l~sr~~~i~~  193 (355)
                      ++|+|+|.+.+. +..+..+.|..+++.++..+++|++....      .++.+++.+.+..+.+
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            788999999765 55566788999999999899999887543      2466667666666654

>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=97.61  E-value=0.00036  Score=68.27  Aligned_cols=105  Identities=21%  Similarity=0.283  Sum_probs=58.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCC--ccccceeeecCCCccchHHHHHHHHHHHHhh----------------ccC--
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGD--MYRERILELNASDDRGIQVIRDKVKTFAQQT----------------ASG--  127 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~--~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~----------------~~~--  127 (355)
                      .++++|+||||||+++..+...+...  .....+ .+-++...-...+.+.+.......                ...  
T Consensus       166 ~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~v-ll~APTg~AA~~L~e~~~~~~~~l~l~~~~~~~~~~~~~Tih~ll  244 (608)
T 1w36_D          166 ISVISGGPGTGKTTTVAKLLAALIQMADGERCRI-RLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEDASTLHRLL  244 (608)
T ss_dssp             EEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCE-EEEBSSHHHHHHHHHHHTHHHHHSSCCSCCCCSCSCCCBTTTSCC
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeE-EEEeCChhHHHHHHHHHHHHHhcCCCCHHHHhccchhhhhhHhhh
Confidence            59999999999999999888877421  111122 222333222333333333221100                000  


Q ss_pred             -CC--------CCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCC
Q psy17903        128 -FN--------QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYV  177 (355)
Q Consensus       128 -~~--------~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~  177 (355)
                       ..        ....+ -..++|||||++.+.......|++.+   +....+|+.++..
T Consensus       245 ~~~~~~~~~~~~~~~~-l~~d~lIIDEAsml~~~~~~~Ll~~l---~~~~~liLvGD~~  299 (608)
T 1w36_D          245 GAQPGSQRLRHHAGNP-LHLDVLVVDEASMIDLPMMSRLIDAL---PDHARVIFLGDRD  299 (608)
T ss_dssp             -----------CTTSC-CSCSEEEECSGGGCBHHHHHHHHHTC---CTTCEEEEEECTT
T ss_pred             ccCCCchHHHhccCCC-CCCCEEEEechhhCCHHHHHHHHHhC---CCCCEEEEEcchh
Confidence             00        00011 14569999999988876666776665   4567788888643

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.55  E-value=0.00028  Score=76.59  Aligned_cols=37  Identities=24%  Similarity=0.317  Sum_probs=27.1

Q ss_pred             HHHHHh-cCC--CCeEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         57 LKKCLS-GAD--LPHFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        57 l~~~l~-~~~--~~~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      |...+. .|-  ...++|+||||||||++|.+++.+....
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            445555 332  2249999999999999999998876543

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=97.51  E-value=0.00041  Score=58.41  Aligned_cols=27  Identities=30%  Similarity=0.463  Sum_probs=23.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      +++.|++|+|||+++..++..+.....
T Consensus         9 I~~~~kgGvGKTt~a~~la~~l~~~G~   35 (228)
T 2r8r_A            9 VFLGAAPGVGKTYAMLQAAHAQLRQGV   35 (228)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCC
Confidence            999999999999999999998765433

>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=97.50  E-value=0.0028  Score=60.67  Aligned_cols=70  Identities=19%  Similarity=0.239  Sum_probs=49.3

Q ss_pred             CcEEEEEeCCCCCCH----HHHHHHHHHhhhc-cCCccEEEEecCCc--cccccccCCee-eEEecCCCHHHHHHHHH
Q psy17903        137 PFKIVILDEADSMTH----AAQAALRRTMEKE-TKSTRFCLICNYVS--CIIQPLTSRCS-KFRFKPLAENTMLTRLQ  206 (355)
Q Consensus       137 ~~~vliiDe~d~l~~----~~~~~Ll~~le~~-~~~~~~Il~~~~~~--~l~~~l~sr~~-~i~~~~~~~~~~~~~l~  206 (355)
                      .+-+|||||++.+..    +....|.++.... ...+.+|++|..+.  .+...+++.+. .+.|..-+..+...++.
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            346899999998743    3445555666554 34567788887776  56667777776 78888888888877764

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.49  E-value=0.00021  Score=57.96  Aligned_cols=21  Identities=29%  Similarity=0.395  Sum_probs=19.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.|+||+||||+++.+++.
T Consensus         5 I~i~G~~GsGKST~a~~L~~~   25 (181)
T 1ly1_A            5 ILTIGCPGSGKSTWAREFIAK   25 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEecCCCCCHHHHHHHHHhh
Confidence            899999999999999999983

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=97.45  E-value=0.0014  Score=54.94  Aligned_cols=32  Identities=31%  Similarity=0.453  Sum_probs=24.1

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHH
Q psy17903         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        57 l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~   88 (355)
                      |...+.++-.+.  ++|+||+|+|||+++..++.
T Consensus         9 LD~~l~Ggi~~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A            9 LDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             HHHHTTSSBCTTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            344444333333  99999999999999999998

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.40  E-value=0.00056  Score=55.01  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.|++|+||||+++.+ +.+
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            4889999999999999999 665

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.39  E-value=0.00031  Score=59.43  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=20.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|+||+|+|||++++.++..+.
T Consensus        26 ~~i~G~~GsGKTtl~~~l~~~~~   48 (235)
T 2w0m_A           26 IALTGEPGTGKTIFSLHFIAKGL   48 (235)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            89999999999999999997653

>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=97.38  E-value=0.00025  Score=59.17  Aligned_cols=101  Identities=9%  Similarity=0.052  Sum_probs=49.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc--cchHHHHHHHHHHHHhhc-cCCCCCC--CCCCCcEEEEE
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD--RGIQVIRDKVKTFAQQTA-SGFNQDG--KPCPPFKIVIL  143 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--~~~~~i~~~i~~~~~~~~-~~~~~~~--~~~~~~~vlii  143 (355)
                      .+++|+.|+|||+.+..++........+  ++-+.....  .+...+...+.. ..... .....+.  ....+..+|+|
T Consensus        31 ~vitG~MgsGKTT~lL~~a~r~~~~g~k--Vli~k~~~d~R~ge~~i~s~~g~-~~~a~~~~~~~~~~~~~~~~~dvViI  107 (214)
T 2j9r_A           31 EVICGSMFSGKSEELIRRVRRTQFAKQH--AIVFKPCIDNRYSEEDVVSHNGL-KVKAVPVSASKDIFKHITEEMDVIAI  107 (214)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCC--EEEEECC------------------CCEEECSSGGGGGGGCCSSCCEEEE
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCE--EEEEEeccCCcchHHHHHhhcCC-eeEEeecCCHHHHHHHHhcCCCEEEE
Confidence            7799999999999998888776543332  332322211  111112111110 00000 0000000  00013569999


Q ss_pred             eCCCCCCHHHHHHHHHHhhhccCCccEEEEec
Q psy17903        144 DEADSMTHAAQAALRRTMEKETKSTRFCLICN  175 (355)
Q Consensus       144 De~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~  175 (355)
                      ||++.++++..+.+..+.+   .+..+|+++-
T Consensus       108 DEaQF~~~~~V~~l~~l~~---~~~~Vi~~Gl  136 (214)
T 2j9r_A          108 DEVQFFDGDIVEVVQVLAN---RGYRVIVAGL  136 (214)
T ss_dssp             CCGGGSCTTHHHHHHHHHH---TTCEEEEEEC
T ss_pred             ECcccCCHHHHHHHHHHhh---CCCEEEEEec
Confidence            9999998776654444333   2456666665

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=97.36  E-value=0.004  Score=52.10  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=21.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.|++|+||||+++.+++.+.
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            78999999999999999998873

>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=97.35  E-value=0.00049  Score=56.73  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=20.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+++||.|+|||+.+..+++...
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            89999999999999988888764

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=97.33  E-value=0.00086  Score=60.80  Aligned_cols=36  Identities=28%  Similarity=0.385  Sum_probs=26.2

Q ss_pred             HHHHHHh-cCCCCe--EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         56 VLKKCLS-GADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        56 ~l~~~l~-~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .|...+. +|-.+.  ++|+||||+|||+++..++....
T Consensus        48 ~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~~~   86 (349)
T 2zr9_A           48 SLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ   86 (349)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3444454 333333  99999999999999999987654

>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=97.31  E-value=0.00078  Score=61.64  Aligned_cols=25  Identities=36%  Similarity=0.440  Sum_probs=22.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .++|+||+|+||||+++.++..+.+
T Consensus       171 ~i~l~G~~GsGKSTl~~~l~~~~~g  195 (377)
T 1svm_A          171 YWLFKGPIDSGKTTLAAALLELCGG  195 (377)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhhcCC
Confidence            3999999999999999999988643

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=97.30  E-value=0.0014  Score=59.40  Aligned_cols=37  Identities=16%  Similarity=0.199  Sum_probs=27.8

Q ss_pred             HHHHHHHh-cCCCCe--EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         55 SVLKKCLS-GADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        55 ~~l~~~l~-~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ..|...+. +|-.+.  ++|+||||+|||+++..++..+.
T Consensus        47 ~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~   86 (356)
T 3hr8_A           47 LAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQ   86 (356)
T ss_dssp             HHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34555565 443333  99999999999999999998764

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=97.30  E-value=0.001  Score=60.41  Aligned_cols=23  Identities=26%  Similarity=0.442  Sum_probs=21.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|+|+||+|||+++..++....
T Consensus        66 i~I~G~pGsGKTtLal~la~~~~   88 (356)
T 1u94_A           66 VEIYGPESSGKTTLTLQVIAAAQ   88 (356)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            99999999999999999988764

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=97.27  E-value=0.002  Score=58.69  Aligned_cols=36  Identities=31%  Similarity=0.336  Sum_probs=26.3

Q ss_pred             HHHHHHh-cCCCCe--EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         56 VLKKCLS-GADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        56 ~l~~~l~-~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .|...+. +|-.+.  ++|+|+||+|||+++..++....
T Consensus        61 ~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~~~   99 (366)
T 1xp8_A           61 SLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQ   99 (366)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHHHH
Confidence            4455554 332222  89999999999999999988764

>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=97.24  E-value=0.002  Score=55.83  Aligned_cols=24  Identities=25%  Similarity=0.369  Sum_probs=21.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|+||+||||+++.+++.+.
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

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=97.22  E-value=0.00045  Score=56.72  Aligned_cols=24  Identities=21%  Similarity=0.218  Sum_probs=20.5

Q ss_pred             EEEECCCCCCHH-HHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKT-STMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt-~la~~l~~~l~~   92 (355)
                      +++|||.|+||| .|.+++.+....
T Consensus        23 ~fiyG~MgsGKTt~Ll~~i~n~~~~   47 (195)
T 1w4r_A           23 QVILGPMFSGKSTELMRRVRRFQIA   47 (195)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHc
Confidence            899999999999 788888877644

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=97.21  E-value=0.0059  Score=52.23  Aligned_cols=23  Identities=26%  Similarity=0.642  Sum_probs=21.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.||||+||||+++.+++.+
T Consensus        31 ~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           31 RYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            39999999999999999999987

>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=97.18  E-value=0.0056  Score=56.99  Aligned_cols=27  Identities=30%  Similarity=0.441  Sum_probs=23.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      +++.|++|+||||++..++..+.....
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            999999999999999999998865433

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.16  E-value=0.0045  Score=51.70  Aligned_cols=23  Identities=22%  Similarity=0.384  Sum_probs=21.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.|++|+||||+++.+++.+.
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~~   25 (216)
T 3fb4_A            3 IVLMGLPGAGKGTQAEQIIEKYE   25 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999999873

>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=97.14  E-value=0.00071  Score=56.46  Aligned_cols=39  Identities=21%  Similarity=0.330  Sum_probs=28.0

Q ss_pred             ccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         49 EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      -.+.+...+..++.+   .++++.+|+|+|||.++...+...
T Consensus        34 l~~~Q~~~i~~~~~~---~~~li~~~tGsGKT~~~~~~~~~~   72 (216)
T 3b6e_A           34 LRPYQMEVAQPALEG---KNIIICLPTGSGKTRVAVYIAKDH   72 (216)
T ss_dssp             CCHHHHHHHHHHHTT---CCEEEECSCHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHhcC---CCEEEEcCCCCCHHHHHHHHHHHH
Confidence            345555555555543   359999999999999988777654

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=97.11  E-value=0.001  Score=71.51  Aligned_cols=24  Identities=25%  Similarity=0.410  Sum_probs=21.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +++|||||||||++|.+++.+-..
T Consensus      1085 ~l~~G~~g~GKT~la~~~~~~~~~ 1108 (1706)
T 3cmw_A         1085 VEIYGPESSGKTTLTLQVIAAAQR 1108 (1706)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCChHHHHHHHHHHhhh
Confidence            999999999999999999987643

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.11  E-value=0.0026  Score=54.22  Aligned_cols=22  Identities=36%  Similarity=0.341  Sum_probs=19.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|+||+|+|||+++..++...
T Consensus        26 ~~i~G~~GsGKTtl~~~~~~~~   47 (247)
T 2dr3_A           26 VLLSGGPGTGKTIFSQQFLWNG   47 (247)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8999999999999998887665

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.06  E-value=0.00049  Score=56.17  Aligned_cols=25  Identities=24%  Similarity=0.207  Sum_probs=22.9

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.++|.|++|+||||+++.+++.+.
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~~l~   30 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAKLTK   30 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4599999999999999999999983

>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=97.05  E-value=0.0006  Score=63.48  Aligned_cols=22  Identities=23%  Similarity=0.335  Sum_probs=20.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|+|+||+||||+++.+++.+
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

>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=97.05  E-value=0.0027  Score=53.07  Aligned_cols=27  Identities=26%  Similarity=0.404  Sum_probs=23.1

Q ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         65 DLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        65 ~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ..++++|.|++|+|||+++.++.....
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            445699999999999999999988653

>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=97.03  E-value=0.0042  Score=52.27  Aligned_cols=23  Identities=26%  Similarity=0.429  Sum_probs=21.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||+|+||||+++.++..+.
T Consensus        19 i~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           19 YIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhccCC
Confidence            89999999999999999998763

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.02  E-value=0.00052  Score=55.62  Aligned_cols=24  Identities=17%  Similarity=0.213  Sum_probs=22.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|+|++|+||||+++.+++.+.
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            389999999999999999999973

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=97.01  E-value=0.0056  Score=55.44  Aligned_cols=22  Identities=23%  Similarity=0.268  Sum_probs=21.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|+||+|+|||+++..++...
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            9999999999999999999876

>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=97.01  E-value=0.0045  Score=58.75  Aligned_cols=69  Identities=16%  Similarity=0.228  Sum_probs=45.0

Q ss_pred             cEEEEEeCCCCCCHHH----HHHHHHHhhhcc-CCccEEEEecCCc--cccccccCCee-eEEecCCCHHHHHHHHH
Q psy17903        138 FKIVILDEADSMTHAA----QAALRRTMEKET-KSTRFCLICNYVS--CIIQPLTSRCS-KFRFKPLAENTMLTRLQ  206 (355)
Q Consensus       138 ~~vliiDe~d~l~~~~----~~~Ll~~le~~~-~~~~~Il~~~~~~--~l~~~l~sr~~-~i~~~~~~~~~~~~~l~  206 (355)
                      +-+|+|||+..+....    .+.+..+..... ..+.+|++|..+.  .+...+++.+. .+.|.--+..+...++.
T Consensus       298 ~ivlvIDE~~~ll~~~~~~~~~~l~~Lar~gRa~GI~LIlaTQrp~~dvl~~~i~~n~~~RI~lrv~s~~dsr~ilg  374 (512)
T 2ius_A          298 YIVVLVDEFADLMMTVGKKVEELIARLAQKARAAGIHLVLATQRPSVDVITGLIKANIPTRIAFTVSSKIDSRTILD  374 (512)
T ss_dssp             EEEEEEETHHHHHHHHHHHHHHHHHHHHHHCGGGTEEEEEEESCCCTTTSCHHHHHHCCEEEEECCSSHHHHHHHHS
T ss_pred             cEEEEEeCHHHHHhhhhHHHHHHHHHHHHHhhhCCcEEEEEecCCccccccHHHHhhcCCeEEEEcCCHHHHHHhcC
Confidence            3489999997665422    233333334333 3677788888776  35556666665 78888888888877765

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=97.01  E-value=0.0024  Score=56.55  Aligned_cols=50  Identities=14%  Similarity=0.180  Sum_probs=31.8

Q ss_pred             HHHHHHh----cCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC
Q psy17903         56 VLKKCLS----GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (355)
Q Consensus        56 ~l~~~l~----~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  105 (355)
                      .|...+.    +|-.+. ++|+||||+|||+++..++...........++.++..
T Consensus        13 ~LD~~LGg~~~GGl~~GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E   67 (333)
T 3io5_A           13 MMNIALSGEITGGMQSGLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSE   67 (333)
T ss_dssp             HHHHHHHSSTTCCBCSEEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESS
T ss_pred             HHHHHhCCCCCCCCcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecc
Confidence            4455565    444444 8999999999999998887765421112234455544

>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=97.00  E-value=0.00076  Score=56.85  Aligned_cols=102  Identities=9%  Similarity=0.131  Sum_probs=49.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhc-cCCCCCCC-CCCCcEEEEEeCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTA-SGFNQDGK-PCPPFKIVILDEA  146 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~-~~~~~~~~-~~~~~~vliiDe~  146 (355)
                      .+++|+.|+|||+.+...+........+.-++.....+..+ ..+...+.. ..... .....+.. ...+..+|+|||+
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            88999999999988776666654433322222211111112 222111100 00000 00000000 0013459999999


Q ss_pred             CCCCHHHHHHHHHHhhhccCCccEEEEecC
Q psy17903        147 DSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (355)
Q Consensus       147 d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~  176 (355)
                      +.+..  ...+.+.+.+  .+..+|+++-+
T Consensus       100 QF~~~--v~el~~~l~~--~gi~VI~~GL~  125 (234)
T 2orv_A          100 QFFPD--IVEFCEAMAN--AGKTVIVAALD  125 (234)
T ss_dssp             GGCTT--HHHHHHHHHH--TTCEEEEECCS
T ss_pred             hhhhh--HHHHHHHHHh--CCCEEEEEecc
Confidence            99974  6667777776  34566767654

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.97  E-value=0.00069  Score=61.06  Aligned_cols=39  Identities=21%  Similarity=0.425  Sum_probs=31.1

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         53 VVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        53 ~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++..+...+..+..++++|.|++|+||||+++.++..+.
T Consensus        11 il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~   49 (359)
T 2ga8_A           11 VLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIIN   49 (359)
T ss_dssp             HHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            344444555667777799999999999999999999884

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.93  E-value=0.00073  Score=54.27  Aligned_cols=24  Identities=17%  Similarity=0.185  Sum_probs=22.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999999984

>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=96.91  E-value=0.0007  Score=55.40  Aligned_cols=25  Identities=28%  Similarity=0.363  Sum_probs=22.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .++|.|++|+||||+++.+++.+..
T Consensus         5 ~I~i~G~~GsGKsT~~~~L~~~l~~   29 (192)
T 1kht_A            5 VVVVTGVPGVGSTTSSQLAMDNLRK   29 (192)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4899999999999999999998854

>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=96.90  E-value=0.006  Score=56.70  Aligned_cols=27  Identities=26%  Similarity=0.276  Sum_probs=23.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      +++.|++|+||||++..++..+.....
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            899999999999999999988854433

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.88  E-value=0.0088  Score=54.23  Aligned_cols=45  Identities=29%  Similarity=0.364  Sum_probs=30.6

Q ss_pred             CCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+++++... ..+   .+++.... ..++|.||+|+||||++++++..+.
T Consensus       104 ~~l~~lg~~-~~l---~~l~~~~~-g~i~I~GptGSGKTTlL~~l~g~~~  148 (356)
T 3jvv_A          104 LTMEELGMG-EVF---KRVSDVPR-GLVLVTGPTGSGKSTTLAAMLDYLN  148 (356)
T ss_dssp             CCTTTTTCC-HHH---HHHHHCSS-EEEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             CCHHHcCCh-HHH---HHHHhCCC-CEEEEECCCCCCHHHHHHHHHhccc
Confidence            356666443 333   33333221 1499999999999999999998874

>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=96.87  E-value=0.0076  Score=51.17  Aligned_cols=20  Identities=25%  Similarity=0.375  Sum_probs=16.6

Q ss_pred             eEEEECCCCCCHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAAC   87 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~   87 (355)
                      .+++.||+|+|||+++..+.
T Consensus        78 ~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           78 VVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCcHHhHHHHH
Confidence            59999999999998765544

>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=96.87  E-value=0.0085  Score=50.13  Aligned_cols=23  Identities=30%  Similarity=0.382  Sum_probs=18.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++++.+|+|+|||..+...+-..
T Consensus        53 ~~li~~~TGsGKT~~~~~~~~~~   75 (220)
T 1t6n_A           53 DVLCQAKSGMGKTAVFVLATLQQ   75 (220)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEECCCCCchhhhhhHHHHHh
Confidence            59999999999998776655544

>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=96.83  E-value=0.00099  Score=54.12  Aligned_cols=24  Identities=33%  Similarity=0.559  Sum_probs=22.3

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.++|+|++|+||||+++.+++.+
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHh
Confidence            349999999999999999999997

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.82  E-value=0.00098  Score=53.46  Aligned_cols=25  Identities=28%  Similarity=0.327  Sum_probs=22.7

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+++|.|++|+||||+++.+++.++
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3499999999999999999999984

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=96.82  E-value=0.0017  Score=63.28  Aligned_cols=42  Identities=21%  Similarity=0.231  Sum_probs=29.2

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      |..++..+.+.+..+. .++++.+|+|+|||..+-.++..+..
T Consensus       183 Q~~ai~~~~~~~~~~~-~~~ll~~~TGsGKT~~~~~~~~~l~~  224 (590)
T 3h1t_A          183 QQIAINRAVQSVLQGK-KRSLITMATGTGKTVVAFQISWKLWS  224 (590)
T ss_dssp             HHHHHHHHHHHHHTTC-SEEEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCC-CceEEEecCCCChHHHHHHHHHHHHh
Confidence            3444445544454443 45899999999999998888877643

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.82  E-value=0.00085  Score=54.26  Aligned_cols=24  Identities=29%  Similarity=0.416  Sum_probs=22.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            589999999999999999999983

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=96.81  E-value=0.0067  Score=53.52  Aligned_cols=22  Identities=27%  Similarity=0.332  Sum_probs=20.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|+||+||||+++.+++.+
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            8999999999999999999864

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.81  E-value=0.00087  Score=55.54  Aligned_cols=25  Identities=28%  Similarity=0.277  Sum_probs=22.8

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ..++|.|++|+||||+++.+++.+.
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~~l~   50 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFARKLN   50 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            3599999999999999999999983

>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=96.75  E-value=0.0011  Score=54.08  Aligned_cols=24  Identities=25%  Similarity=0.351  Sum_probs=22.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.++
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg   27 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALG   27 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcC
Confidence            489999999999999999999884

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.75  E-value=0.001  Score=54.48  Aligned_cols=26  Identities=23%  Similarity=0.294  Sum_probs=23.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      .++|.|++|+||||+++.+++.+...
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            37899999999999999999998643

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.74  E-value=0.0025  Score=56.14  Aligned_cols=22  Identities=45%  Similarity=0.643  Sum_probs=21.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.||||+||||+++.+++.+
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            9999999999999999999886

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.74  E-value=0.0012  Score=56.93  Aligned_cols=23  Identities=35%  Similarity=0.550  Sum_probs=21.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.||+|+||||+++.+++.+.
T Consensus         4 i~I~G~~GSGKSTla~~La~~~~   26 (253)
T 2ze6_A            4 HLIYGPTCSGKTDMAIQIAQETG   26 (253)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhcCC
Confidence            78999999999999999999984

>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=96.70  E-value=0.0098  Score=54.23  Aligned_cols=22  Identities=23%  Similarity=0.317  Sum_probs=17.5

Q ss_pred             CeEEEECCCCCCHHHHHHHHHH
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~   88 (355)
                      .++++.+|+|+|||..+...+-
T Consensus        45 ~~~lv~a~TGsGKT~~~~~~~~   66 (395)
T 3pey_A           45 RNMIAQSQSGTGKTAAFSLTML   66 (395)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            4699999999999987654443

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=96.70  E-value=0.0041  Score=61.26  Aligned_cols=41  Identities=29%  Similarity=0.370  Sum_probs=32.1

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++.+.+++...+...  +-.||.||||||||+++-.+...+..
T Consensus       191 N~~Q~~AV~~al~~~--~~~lI~GPPGTGKT~ti~~~I~~l~~  231 (646)
T 4b3f_X          191 DTSQKEAVLFALSQK--ELAIIHGPPGTGKTTTVVEIILQAVK  231 (646)
T ss_dssp             CHHHHHHHHHHHHCS--SEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhcCC--CceEEECCCCCCHHHHHHHHHHHHHh
Confidence            678888888888643  34799999999999987777766644

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.68  E-value=0.001  Score=53.53  Aligned_cols=24  Identities=29%  Similarity=0.477  Sum_probs=22.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+.|.||+|+||||+++.++..+.
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            489999999999999999999873

>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=96.68  E-value=0.0014  Score=53.57  Aligned_cols=23  Identities=39%  Similarity=0.530  Sum_probs=21.5

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ..++|+|++|+||||+++.+++.
T Consensus        11 ~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           11 INILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            35999999999999999999998

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.67  E-value=0.0054  Score=53.10  Aligned_cols=23  Identities=30%  Similarity=0.585  Sum_probs=21.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.||+|+||||+++.++..+.
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            99999999999999999998763

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.67  E-value=0.0057  Score=66.70  Aligned_cols=25  Identities=24%  Similarity=0.429  Sum_probs=22.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      ++++||||||||+++.+++.+....
T Consensus      1084 vll~G~~GtGKT~la~~~~~ea~k~ 1108 (2050)
T 3cmu_A         1084 VEIYGPESSGKTTLTLQVIAAAQRE 1108 (2050)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHc
Confidence            9999999999999999999876543

>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=96.65  E-value=0.0069  Score=53.61  Aligned_cols=50  Identities=16%  Similarity=0.255  Sum_probs=31.0

Q ss_pred             CCCCcccccHHHHHHHHH---------------HHhcCCCCeEEEECCCCCCHHHHHH-HHHHHhc
Q psy17903         42 KTIDDVIEQQEVVSVLKK---------------CLSGADLPHFLFYGPPGTGKTSTMI-AACHQLF   91 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~---------------~l~~~~~~~~ll~Gp~G~GKt~la~-~l~~~l~   91 (355)
                      .+|+++--.+..++.|..               .+..+...++++.+|+|+|||.... .+...+.
T Consensus        92 ~~f~~l~l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~~~~~~~l~~a~TGsGKT~a~~lp~l~~l~  157 (300)
T 3fmo_B           92 KSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVE  157 (300)
T ss_dssp             CCSGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHHTSSSCCCEEEECCTTSSHHHHHHHHHHHHCC
T ss_pred             CCHhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCCeEEEECCCCCCccHHHHHHHHHhhh
Confidence            467777656665555432               2223323469999999999998743 4444443

>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=96.65  E-value=0.0012  Score=54.04  Aligned_cols=22  Identities=36%  Similarity=0.481  Sum_probs=21.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|++|+||||+++.+++.+
T Consensus         8 I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            8 IIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            8999999999999999999987

>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=96.65  E-value=0.0039  Score=53.00  Aligned_cols=34  Identities=26%  Similarity=0.201  Sum_probs=25.3

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHh
Q psy17903         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        57 l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      |...+..+-.+.  ++|+||+|+|||+++..++...
T Consensus        13 LD~~l~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~   48 (243)
T 1n0w_A           13 LDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTC   48 (243)
T ss_dssp             HHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHHhhcCCCcCCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            344444443333  8999999999999999999863

>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=96.63  E-value=0.0085  Score=64.49  Aligned_cols=36  Identities=25%  Similarity=0.314  Sum_probs=26.6

Q ss_pred             HHHHHHh-cCCCCe--EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         56 VLKKCLS-GADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        56 ~l~~~l~-~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .|.+.+. +|-.+.  ++|+||||+|||+++..++....
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            4444444 333233  99999999999999999988764

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=96.63  E-value=0.0045  Score=57.47  Aligned_cols=96  Identities=20%  Similarity=0.199  Sum_probs=51.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhcc--------C--CCCCCCCCCCc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTAS--------G--FNQDGKPCPPF  138 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~--------~--~~~~~~~~~~~  138 (355)
                      .++.|+||+|||+++..+++.       ...+.+.+. ....+.+++.+.........        .  ........-+.
T Consensus       164 ~~I~G~aGsGKTt~I~~~~~~-------~~~lVlTpT-~~aa~~l~~kl~~~~~~~~~~~~V~T~dsfL~~~~~~~~~~~  235 (446)
T 3vkw_A          164 VLVDGVPGCGKTKEILSRVNF-------EEDLILVPG-RQAAEMIRRRANASGIIVATKDNVRTVDSFLMNYGKGARCQF  235 (446)
T ss_dssp             EEEEECTTSCHHHHHHHHCCT-------TTCEEEESC-HHHHHHHHHHHTTTSCCCCCTTTEEEHHHHHHTTTSSCCCCC
T ss_pred             EEEEcCCCCCHHHHHHHHhcc-------CCeEEEeCC-HHHHHHHHHHhhhcCccccccceEEEeHHhhcCCCCCCCCcC
Confidence            899999999999999877642       112222222 22233444333210000000        0  00000000125


Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecC
Q psy17903        139 KIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (355)
Q Consensus       139 ~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~  176 (355)
                      ++|||||+..+.......++..+.   . ..+|+.++.
T Consensus       236 d~liiDE~sm~~~~~l~~l~~~~~---~-~~vilvGD~  269 (446)
T 3vkw_A          236 KRLFIDEGLMLHTGCVNFLVEMSL---C-DIAYVYGDT  269 (446)
T ss_dssp             SEEEEETGGGSCHHHHHHHHHHTT---C-SEEEEEECT
T ss_pred             CEEEEeCcccCCHHHHHHHHHhCC---C-CEEEEecCc
Confidence            699999999998887777766553   2 567777754

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.61  E-value=0.0017  Score=53.82  Aligned_cols=24  Identities=25%  Similarity=0.261  Sum_probs=22.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
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            499999999999999999999983

>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=96.61  E-value=0.0015  Score=52.52  Aligned_cols=24  Identities=21%  Similarity=0.228  Sum_probs=22.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
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            489999999999999999999883

>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=96.57  E-value=0.0085  Score=49.48  Aligned_cols=19  Identities=26%  Similarity=0.398  Sum_probs=15.7

Q ss_pred             CeEEEECCCCCCHHHHHHH
Q psy17903         67 PHFLFYGPPGTGKTSTMIA   85 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~   85 (355)
                      .++++.+|+|+|||..+..
T Consensus        41 ~~~lv~apTGsGKT~~~~~   59 (206)
T 1vec_A           41 RDILARAKNGTGKSGAYLI   59 (206)
T ss_dssp             CCEEEECCSSSTTHHHHHH
T ss_pred             CCEEEECCCCCchHHHHHH
Confidence            3599999999999976553

>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=96.54  E-value=0.0017  Score=53.68  Aligned_cols=24  Identities=33%  Similarity=0.665  Sum_probs=22.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
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            399999999999999999999883

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.53  E-value=0.0028  Score=52.85  Aligned_cols=40  Identities=18%  Similarity=0.199  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHhcC-CCCe-EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         52 EVVSVLKKCLSGA-DLPH-FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        52 ~~~~~l~~~l~~~-~~~~-~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++++.|...+... .... +.|.||+|+||||+++.++..+.
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            3555565555433 2222 89999999999999999999875

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.51  E-value=0.0016  Score=53.02  Aligned_cols=22  Identities=36%  Similarity=0.791  Sum_probs=21.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|++|+||||+++.+++.+
T Consensus         7 I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            7 VIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8999999999999999999987

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.51  E-value=0.002  Score=51.53  Aligned_cols=24  Identities=17%  Similarity=0.137  Sum_probs=21.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            378999999999999999999884

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A

Probab=96.50  E-value=0.0089  Score=50.12  Aligned_cols=23  Identities=43%  Similarity=0.536  Sum_probs=17.5

Q ss_pred             eEEEECCCCCCHHHH-HHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTST-MIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~l-a~~l~~~l   90 (355)
                      ++++.+|+|+|||.. +..+...+
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

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.50  E-value=0.0017  Score=52.85  Aligned_cols=22  Identities=14%  Similarity=0.303  Sum_probs=20.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||+|+||||+++.++..+
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            8999999999999999999875

>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=96.46  E-value=0.0022  Score=53.91  Aligned_cols=25  Identities=24%  Similarity=0.514  Sum_probs=22.6

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ..++|.|++|+||||+++.+++.+.
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            3489999999999999999999884

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.46  E-value=0.0038  Score=51.68  Aligned_cols=41  Identities=17%  Similarity=0.143  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHhcCCC--Ce-EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         51 QEVVSVLKKCLSGADL--PH-FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        51 ~~~~~~l~~~l~~~~~--~~-~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+.++.|.+.+.....  +. +.|.|++|+||||+++.++..+.
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            3455666666654322  22 99999999999999999998873

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.46  E-value=0.0022  Score=53.07  Aligned_cols=23  Identities=26%  Similarity=0.484  Sum_probs=21.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+.|.||+|+||||+++.++..+
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            48999999999999999999987

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.46  E-value=0.0027  Score=54.78  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=21.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.|+||+||||+++.+++.+.
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

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.45  E-value=0.0019  Score=53.05  Aligned_cols=25  Identities=20%  Similarity=0.301  Sum_probs=22.6

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ..++|.|++|+||||+++.+++.+.
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            3599999999999999999999873

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.44  E-value=0.0019  Score=53.85  Aligned_cols=22  Identities=32%  Similarity=0.699  Sum_probs=21.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.||||+||+|.|+.+++.+
T Consensus         3 Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999997

>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=96.44  E-value=0.021  Score=49.87  Aligned_cols=39  Identities=8%  Similarity=0.014  Sum_probs=28.7

Q ss_pred             ccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         49 EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      -.+.+.+.+..++..   .+.++.+|+|+|||..+..++...
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            455566666666664   246889999999999997777654

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.43  E-value=0.002  Score=52.79  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=21.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.|++|+||||+++.+++.+.
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            89999999999999999999873

>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=96.41  E-value=0.011  Score=53.94  Aligned_cols=23  Identities=26%  Similarity=0.456  Sum_probs=20.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||+|+||||+++.++....
T Consensus        32 ~~llGpsGsGKSTLLr~iaGl~~   54 (381)
T 3rlf_A           32 VVFVGPSGCGKSTLLRMIAGLET   54 (381)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEcCCCchHHHHHHHHHcCCC
Confidence            88999999999999999998653

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=96.40  E-value=0.015  Score=47.97  Aligned_cols=23  Identities=26%  Similarity=0.336  Sum_probs=17.5

Q ss_pred             eEEEECCCCCCHHHHHHH-HHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIA-ACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~-l~~~l   90 (355)
                      ++++.+|+|+|||..+.. +...+
T Consensus        40 ~~li~~~TGsGKT~~~~~~~~~~l   63 (207)
T 2gxq_A           40 DLIGQARTGTGKTLAFALPIAERL   63 (207)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             CEEEECCCCChHHHHHHHHHHHHH
Confidence            599999999999987444 44443

>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=96.40  E-value=0.018  Score=52.38  Aligned_cols=42  Identities=12%  Similarity=0.229  Sum_probs=27.9

Q ss_pred             CcEEEEEeCC-CCCCHHHHHHHHHHhhhccC--CccEEEEecCCc
Q psy17903        137 PFKIVILDEA-DSMTHAAQAALRRTMEKETK--STRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~-d~l~~~~~~~Ll~~le~~~~--~~~~Il~~~~~~  178 (355)
                      +.+++++||- ..|.......++..|.+...  ...+|++|++..
T Consensus       159 ~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~~  203 (372)
T 1v43_A          159 EPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLKVTTIYVTHDQV  203 (372)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHH
T ss_pred             CCCEEEEcCCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            4569999996 45666666677666654321  456777887654

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.38  E-value=0.0021  Score=53.39  Aligned_cols=24  Identities=25%  Similarity=0.206  Sum_probs=22.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|.|++|+||||+++.+++.+..
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            899999999999999999999854

>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=96.38  E-value=0.02  Score=51.91  Aligned_cols=42  Identities=14%  Similarity=0.210  Sum_probs=29.5

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhcc--CCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKET--KSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~--~~~~~Il~~~~~~  178 (355)
                      +.+++++||.- .|.+..+..++++|.+..  ....+|++|.+..
T Consensus       181 ~P~lLLlDEPTs~LD~~~~~~i~~lL~~l~~~~g~Tii~vTHdl~  225 (366)
T 3tui_C          181 NPKVLLCDQATSALDPATTRSILELLKDINRRLGLTILLITHEMD  225 (366)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHSCCEEEEEESCHH
T ss_pred             CCCEEEEECCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEecCHH
Confidence            44699999974 567777777777776542  2456777887654

>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=96.37  E-value=0.01  Score=54.65  Aligned_cols=39  Identities=26%  Similarity=0.395  Sum_probs=23.3

Q ss_pred             CcEEEEEeCCCCCCHHH-HHHHHHHhhhccCCccEEEEec
Q psy17903        137 PFKIVILDEADSMTHAA-QAALRRTMEKETKSTRFCLICN  175 (355)
Q Consensus       137 ~~~vliiDe~d~l~~~~-~~~Ll~~le~~~~~~~~Il~~~  175 (355)
                      ..++|||||+|.+.... ...+...+........+|+.+.
T Consensus       183 ~~~~vViDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~SA  222 (414)
T 3eiq_A          183 YIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSA  222 (414)
T ss_dssp             TCCEEEECSHHHHHHTTTHHHHHHHHTTSCTTCEEEEECS
T ss_pred             cCcEEEEECHHHhhccCcHHHHHHHHHhCCCCCeEEEEEE
Confidence            35699999999874322 2344555555445555555543

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.36  E-value=0.0025  Score=53.69  Aligned_cols=25  Identities=16%  Similarity=0.231  Sum_probs=22.7

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ..++|.|++|+||||+++.+++.+.
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3499999999999999999999984

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.35  E-value=0.0023  Score=52.97  Aligned_cols=24  Identities=25%  Similarity=0.386  Sum_probs=22.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+.|.||+|+||||+++.++..+.
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            389999999999999999999884

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.34  E-value=0.0024  Score=53.61  Aligned_cols=24  Identities=21%  Similarity=0.386  Sum_probs=22.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
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            489999999999999999999983

>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=96.34  E-value=0.016  Score=51.41  Aligned_cols=24  Identities=25%  Similarity=0.368  Sum_probs=22.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|.||+|+||||++..++..+..
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            889999999999999999988753

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.33  E-value=0.0021  Score=52.83  Aligned_cols=24  Identities=21%  Similarity=0.328  Sum_probs=22.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
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            499999999999999999999883

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.33  E-value=0.0021  Score=53.42  Aligned_cols=22  Identities=23%  Similarity=0.540  Sum_probs=21.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.||+|+||||+++.+++.+
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            8999999999999999999987

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.32  E-value=0.0025  Score=53.58  Aligned_cols=22  Identities=23%  Similarity=0.508  Sum_probs=21.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.||||+||+|.|+.+++.+
T Consensus        32 I~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           32 IFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             EEEECCTTCCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7889999999999999999997

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.32  E-value=0.004  Score=51.76  Aligned_cols=26  Identities=19%  Similarity=0.258  Sum_probs=23.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      .++|.|++|+||||+++.+++.+...
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

>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=96.32  E-value=0.01  Score=53.58  Aligned_cols=50  Identities=20%  Similarity=0.153  Sum_probs=32.4

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCc----cccceeeecCCC
Q psy17903         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDM----YRERILELNASD  106 (355)
Q Consensus        57 l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~  106 (355)
                      |...+.+|-.+.  ++|+||||+|||+++..++.......    ....++.++...
T Consensus       111 LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~  166 (343)
T 1v5w_A          111 FDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTEN  166 (343)
T ss_dssp             HHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSS
T ss_pred             HHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            444444443333  89999999999999999998742211    123456666554

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.31  E-value=0.0023  Score=52.23  Aligned_cols=24  Identities=29%  Similarity=0.407  Sum_probs=22.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|.|++|+||||+++.++..+..
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            899999999999999999998853

>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=96.30  E-value=0.0026  Score=51.30  Aligned_cols=22  Identities=32%  Similarity=0.685  Sum_probs=21.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|++|+||||+++.++..+
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            8999999999999999999887

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.30  E-value=0.0025  Score=52.58  Aligned_cols=24  Identities=21%  Similarity=0.401  Sum_probs=22.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            378999999999999999999984

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.28  E-value=0.0027  Score=52.53  Aligned_cols=23  Identities=22%  Similarity=0.398  Sum_probs=21.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.|++|+||||+++.+++.+
T Consensus        17 ~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           17 VIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            38999999999999999999987

>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=96.27  E-value=0.0025  Score=52.09  Aligned_cols=24  Identities=21%  Similarity=0.371  Sum_probs=22.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
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            389999999999999999999873

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=96.27  E-value=0.0014  Score=54.63  Aligned_cols=25  Identities=8%  Similarity=0.174  Sum_probs=20.0

Q ss_pred             CcEEEEEeCCCCCCHHHHHHHHHHh
Q psy17903        137 PFKIVILDEADSMTHAAQAALRRTM  161 (355)
Q Consensus       137 ~~~vliiDe~d~l~~~~~~~Ll~~l  161 (355)
                      +..+|+|||++.++++..+.+..+.
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            3459999999999987777776666

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.26  E-value=0.012  Score=52.49  Aligned_cols=48  Identities=13%  Similarity=0.110  Sum_probs=31.7

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC
Q psy17903         55 SVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (355)
Q Consensus        55 ~~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  105 (355)
                      ..|.+.+ .|-.+.  ++|.|+||+|||+++..++.......  ..++.++..
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            3444444 443333  99999999999999999987764332  244555443

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.26  E-value=0.0043  Score=51.96  Aligned_cols=46  Identities=15%  Similarity=0.198  Sum_probs=36.2

Q ss_pred             ccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         47 VIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        47 ~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +-.+.+..+.+.........+.++|.|++|+||||++..++..+..
T Consensus        11 l~~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~~~   56 (221)
T 2wsm_A           11 LAENKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERIGN   56 (221)
T ss_dssp             CHHHHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHHTT
T ss_pred             HhhcHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            3355666777777776666667999999999999999999998743

>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=96.26  E-value=0.0035  Score=53.22  Aligned_cols=24  Identities=25%  Similarity=0.548  Sum_probs=22.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
T Consensus        18 ~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           18 RAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            499999999999999999999983

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.25  E-value=0.0016  Score=52.89  Aligned_cols=24  Identities=33%  Similarity=0.371  Sum_probs=18.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
T Consensus         7 ~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            7 IIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             EEEEECCC----CHHHHHHHHHST
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            489999999999999999999874

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.24  E-value=0.0023  Score=54.14  Aligned_cols=24  Identities=21%  Similarity=0.385  Sum_probs=22.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
T Consensus         9 ~I~l~G~~GsGKsT~a~~La~~l~   32 (227)
T 1zd8_A            9 RAVIMGAPGSGKGTVSSRITTHFE   32 (227)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            499999999999999999999873

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.22  E-value=0.0022  Score=52.43  Aligned_cols=22  Identities=32%  Similarity=0.533  Sum_probs=20.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.||+|+||||+++.++...
T Consensus        12 i~l~G~~GsGKSTl~~~La~~~   33 (191)
T 1zp6_A           12 LLLSGHPGSGKSTIAEALANLP   33 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHHTCS
T ss_pred             EEEECCCCCCHHHHHHHHHhcc
Confidence            8999999999999999998763

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.21  E-value=0.003  Score=51.73  Aligned_cols=23  Identities=26%  Similarity=0.511  Sum_probs=21.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|+||+|+||||+++.+....
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            38999999999999999999885

>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=96.21  E-value=0.0098  Score=49.97  Aligned_cols=23  Identities=22%  Similarity=0.219  Sum_probs=21.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||+|+||||+++.++..+.
T Consensus        28 ~~l~G~nGsGKSTll~~l~g~~~   50 (231)
T 4a74_A           28 TEVFGEFGSGKTQLAHTLAVMVQ   50 (231)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            99999999999999999998653

>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=96.21  E-value=0.013  Score=52.86  Aligned_cols=34  Identities=21%  Similarity=0.293  Sum_probs=23.1

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         55 SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        55 ~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ..+..++.++  .++++.+|+|+|||..+...+...
T Consensus        35 ~~i~~~~~~~--~~~l~~~~TGsGKT~~~~~~~~~~   68 (367)
T 1hv8_A           35 KVIPLFLNDE--YNIVAQARTGSGKTASFAIPLIEL   68 (367)
T ss_dssp             HHHHHHHHTC--SEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHhCCC--CCEEEECCCCChHHHHHHHHHHHH
Confidence            3334444432  369999999999999876655544

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.21  E-value=0.0034  Score=55.90  Aligned_cols=24  Identities=29%  Similarity=0.484  Sum_probs=22.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.||+|+|||+++..+++.+.
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            389999999999999999999983

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.19  E-value=0.0072  Score=50.73  Aligned_cols=44  Identities=23%  Similarity=0.286  Sum_probs=33.7

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      +++....++........+.++|.|.+|+|||+++..++......
T Consensus        22 ~~~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~~~   65 (226)
T 2hf9_A           22 NKRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLKDK   65 (226)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHTTT
T ss_pred             hHHHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            34455666666665555669999999999999999999987543

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.16  E-value=0.04  Score=51.73  Aligned_cols=23  Identities=17%  Similarity=0.340  Sum_probs=21.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.|+||+|||+++..++..+.
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            99999999999999999998764

>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=96.15  E-value=0.037  Score=50.74  Aligned_cols=24  Identities=29%  Similarity=0.483  Sum_probs=18.1

Q ss_pred             CeEEEECCCCCCHHHHHH-HHHHHh
Q psy17903         67 PHFLFYGPPGTGKTSTMI-AACHQL   90 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~-~l~~~l   90 (355)
                      .++++.+|+|+|||..+. .+...+
T Consensus        65 ~~~lv~apTGsGKT~~~~~~~~~~~   89 (412)
T 3fht_A           65 QNLIAQSQSGTGKTAAFVLAMLSQV   89 (412)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             CeEEEECCCCchHHHHHHHHHHHHh
Confidence            459999999999998763 344444

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.14  E-value=0.0035  Score=51.28  Aligned_cols=23  Identities=30%  Similarity=0.346  Sum_probs=21.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.|++|+||||+++.+++.+.
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

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.13  E-value=0.0079  Score=52.93  Aligned_cols=23  Identities=39%  Similarity=0.729  Sum_probs=21.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.|++|+||||+++.++..+.
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            89999999999999999999875

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.11  E-value=0.0032  Score=52.66  Aligned_cols=24  Identities=17%  Similarity=0.258  Sum_probs=21.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~g   25 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKYG   25 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            378999999999999999999873

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.11  E-value=0.0035  Score=53.67  Aligned_cols=24  Identities=25%  Similarity=0.503  Sum_probs=22.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+.|.||+|+||||+++.+++.++
T Consensus        29 ~i~l~G~~GsGKSTl~k~La~~lg   52 (246)
T 2bbw_A           29 RAVILGPPGSGKGTVCQRIAQNFG   52 (246)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            499999999999999999998874

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.10  E-value=0.0036  Score=52.83  Aligned_cols=23  Identities=26%  Similarity=0.459  Sum_probs=21.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.|++|+||||+++.+++.+.
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            78999999999999999999873

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=96.06  E-value=0.064  Score=41.90  Aligned_cols=22  Identities=18%  Similarity=0.342  Sum_probs=19.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++..+...-
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

>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=96.05  E-value=0.027  Score=50.51  Aligned_cols=37  Identities=19%  Similarity=0.324  Sum_probs=29.4

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         53 VVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        53 ~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.+.+.-.+..|.  .++|.||+|+||||+++.++..+.
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            5556666666554  589999999999999999998764

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.04  E-value=0.0036  Score=52.13  Aligned_cols=26  Identities=15%  Similarity=0.193  Sum_probs=23.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      .++|.|++|+||||+++.+++.+...
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            49999999999999999999987543

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=96.04  E-value=0.012  Score=54.77  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=21.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||++..++..+.
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            399999999999999999999874

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.02  E-value=0.0038  Score=52.07  Aligned_cols=23  Identities=26%  Similarity=0.391  Sum_probs=21.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||+|+||||+++.++..+.
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            89999999999999999998863

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.01  E-value=0.024  Score=53.06  Aligned_cols=36  Identities=19%  Similarity=0.262  Sum_probs=27.1

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         55 SVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        55 ~~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ..|...+ +|-.+.  ++|.|+||+|||+++..++....
T Consensus       188 ~~LD~~l-gGl~~G~l~ii~G~pg~GKT~lal~ia~~~a  225 (444)
T 2q6t_A          188 KELDQLI-GTLGPGSLNIIAARPAMGKTAFALTIAQNAA  225 (444)
T ss_dssp             HHHHHHH-CCCCTTCEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             Hhhhhhc-CCcCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            3444555 444344  99999999999999999988764

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.01  E-value=0.0039  Score=50.91  Aligned_cols=22  Identities=36%  Similarity=0.682  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.||+|+||||+++.++...
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

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.00  E-value=0.0042  Score=52.26  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=21.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+.|.||+|+||||+++.+++.+
T Consensus         7 ~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            7 VITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.98  E-value=0.08  Score=50.16  Aligned_cols=24  Identities=29%  Similarity=0.375  Sum_probs=21.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|.|++|+||||++..++..+..
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            899999999999999999988754

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=95.97  E-value=0.012  Score=54.09  Aligned_cols=38  Identities=13%  Similarity=0.079  Sum_probs=26.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCc----cccceeeecCCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDM----YRERILELNASD  106 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~  106 (355)
                      +.|+||+|+|||+++..++-......    .....+.++...
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            99999999999999998875432211    123456666654

>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=95.97  E-value=0.0091  Score=47.23  Aligned_cols=22  Identities=27%  Similarity=0.379  Sum_probs=20.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++..+...-
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            8999999999999999998764

>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=95.95  E-value=0.016  Score=47.10  Aligned_cols=24  Identities=29%  Similarity=0.476  Sum_probs=21.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+|||+++..+...-.
T Consensus        25 ki~v~G~~~~GKSsli~~l~~~~~   48 (191)
T 3dz8_A           25 KLLIIGNSSVGKTSFLFRYADDTF   48 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEEECCCCcCHHHHHHHHhcCCC
Confidence            399999999999999999988653

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.95  E-value=0.0042  Score=51.35  Aligned_cols=22  Identities=41%  Similarity=0.646  Sum_probs=20.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||+|+||||+++.++..+
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            8899999999999999999875

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=95.94  E-value=0.013  Score=52.43  Aligned_cols=38  Identities=16%  Similarity=0.183  Sum_probs=27.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCc----cccceeeecCCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDM----YRERILELNASD  106 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~  106 (355)
                      ++|+||||+|||+++..++.......    ....++.++...
T Consensus       110 ~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~  151 (324)
T 2z43_A          110 TEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEG  151 (324)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             EEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            99999999999999999998753220    123455666554

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=95.94  E-value=0.015  Score=53.98  Aligned_cols=50  Identities=18%  Similarity=0.279  Sum_probs=35.0

Q ss_pred             CCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .+++++.-.......|.+.+. .....++|.||+|+||||++++++..+..
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            345666545555556666653 21113899999999999999999998854

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.94  E-value=0.0071  Score=51.96  Aligned_cols=38  Identities=16%  Similarity=0.174  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHhc---CCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         52 EVVSVLKKCLSG---ADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        52 ~~~~~l~~~l~~---~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+++.+.-.+..   +  ..+.|.|++|+||||+++.+++.+.
T Consensus        33 ~~l~~~~~~i~~~l~g--~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           33 QILKKKAEEVKPYLNG--RSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             HHHHHHHHTTHHHHTT--CCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             hhhhhhhhhhhhhcCC--CEEEEECCCCCCHHHHHHHHHHhcC
Confidence            445555444443   3  3599999999999999999999883

>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=95.92  E-value=0.0055  Score=49.58  Aligned_cols=22  Identities=32%  Similarity=0.413  Sum_probs=21.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.|++|+||||+++.++..+
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            8899999999999999999987

>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=95.91  E-value=0.012  Score=50.93  Aligned_cols=18  Identities=28%  Similarity=0.453  Sum_probs=15.2

Q ss_pred             eEEEECCCCCCHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIA   85 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~   85 (355)
                      ++++.+|+|+|||..+..
T Consensus        93 ~~lv~a~TGsGKT~~~~l  110 (262)
T 3ly5_A           93 DLLAAAKTGSGKTLAFLI  110 (262)
T ss_dssp             CCEECCCTTSCHHHHHHH
T ss_pred             cEEEEccCCCCchHHHHH
Confidence            589999999999987543

>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=95.91  E-value=0.053  Score=51.08  Aligned_cols=25  Identities=28%  Similarity=0.433  Sum_probs=18.2

Q ss_pred             CCeEEEECCCCCCHHHHHH-HHHHHh
Q psy17903         66 LPHFLFYGPPGTGKTSTMI-AACHQL   90 (355)
Q Consensus        66 ~~~~ll~Gp~G~GKt~la~-~l~~~l   90 (355)
                      ..++++.||+|+|||..+. .+...+
T Consensus       131 ~~~~l~~a~TGsGKT~~~~l~il~~l  156 (479)
T 3fmp_B          131 PQNLIAQSQSGTGKTAAFVLAMLSQV  156 (479)
T ss_dssp             CCEEEEECCSSSSHHHHHHHHHHTTC
T ss_pred             CCcEEEEcCCCCchhHHHHHHHHHHH
Confidence            3469999999999998743 344333

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=95.90  E-value=0.0038  Score=51.58  Aligned_cols=23  Identities=22%  Similarity=0.378  Sum_probs=21.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.|++|+||||+++.+++.+
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            48999999999999999999987

>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=95.89  E-value=0.065  Score=48.71  Aligned_cols=23  Identities=30%  Similarity=0.371  Sum_probs=17.9

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .++++.+|+|+|||..+...+-.
T Consensus        46 ~~~lv~a~TGsGKT~~~~~~~~~   68 (391)
T 1xti_A           46 MDVLCQAKSGMGKTAVFVLATLQ   68 (391)
T ss_dssp             CCEEEECSSCSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCcHHHHHHHHHHH
Confidence            35999999999999876554443

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.87  E-value=0.0048  Score=51.04  Aligned_cols=23  Identities=22%  Similarity=0.369  Sum_probs=21.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+.|.||+|+||||+++.++..+
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            38999999999999999999876

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.87  E-value=0.083  Score=45.24  Aligned_cols=24  Identities=29%  Similarity=0.361  Sum_probs=22.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+.|.||+|+||||+++.+++.++
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            489999999999999999999874

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=95.86  E-value=0.011  Score=47.97  Aligned_cols=22  Identities=27%  Similarity=0.585  Sum_probs=19.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|++|+|||++++.+....
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            9999999999999998776654

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=95.85  E-value=0.0082  Score=48.20  Aligned_cols=36  Identities=17%  Similarity=0.172  Sum_probs=26.8

Q ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceee
Q psy17903         66 LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILE  101 (355)
Q Consensus        66 ~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~  101 (355)
                      .+-+.|.|++|+||||++..++..+....++..++.
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik   39 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   39 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEE
Confidence            344899999999999999999998854433333333

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=95.85  E-value=0.0051  Score=50.78  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=20.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.||+|+||||+++.+++..
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

>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=95.84  E-value=0.018  Score=48.79  Aligned_cols=18  Identities=33%  Similarity=0.464  Sum_probs=15.2

Q ss_pred             eEEEECCCCCCHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIA   85 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~   85 (355)
                      ++++.+|+|+|||..+..
T Consensus        69 ~~li~apTGsGKT~~~~l   86 (237)
T 3bor_A           69 DVIAQAQSGTGKTATFAI   86 (237)
T ss_dssp             CEEECCCSSHHHHHHHHH
T ss_pred             CEEEECCCCCcHHHHHHH
Confidence            599999999999987543

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=95.84  E-value=0.011  Score=48.27  Aligned_cols=23  Identities=17%  Similarity=0.354  Sum_probs=20.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+++.|++|+|||+++.++...-
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

>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=95.82  E-value=0.026  Score=47.42  Aligned_cols=18  Identities=28%  Similarity=0.506  Sum_probs=15.2

Q ss_pred             eEEEECCCCCCHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIA   85 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~   85 (355)
                      ++++.+|+|+|||..+..
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

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.82  E-value=0.0059  Score=50.46  Aligned_cols=23  Identities=22%  Similarity=0.486  Sum_probs=21.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+.|.||+|+||||+++.+...+
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            38999999999999999999876

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=95.81  E-value=0.026  Score=45.59  Aligned_cols=25  Identities=16%  Similarity=0.232  Sum_probs=21.0

Q ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Q psy17903         65 DLPHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        65 ~~~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ....+++.|++|+|||+++.++...
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            3334999999999999999999853

>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=95.81  E-value=0.0084  Score=52.91  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=21.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.||+|+|||+++..+++.+.
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            88999999999999999999974

>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=95.81  E-value=0.1  Score=47.80  Aligned_cols=21  Identities=29%  Similarity=0.368  Sum_probs=16.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~   88 (355)
                      ++++.+|+|+|||..+...+-
T Consensus        76 ~~lv~a~TGsGKT~~~~~~~~   96 (410)
T 2j0s_A           76 DVIAQSQSGTGKTATFSISVL   96 (410)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCchHHHHHHHH
Confidence            599999999999977654443

>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=95.79  E-value=0.045  Score=51.07  Aligned_cols=37  Identities=22%  Similarity=0.242  Sum_probs=26.9

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+.+.+.+..++.+    ++++.+|+|+|||..+-.++...
T Consensus        11 ~~~Q~~~i~~~~~~----~~ll~~~tG~GKT~~~~~~~~~~   47 (494)
T 1wp9_A           11 RIYQEVIYAKCKET----NCLIVLPTGLGKTLIAMMIAEYR   47 (494)
T ss_dssp             CHHHHHHHHHGGGS----CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHhhC----CEEEEcCCCCCHHHHHHHHHHHH
Confidence            34455555555543    68999999999999988876665

>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=95.76  E-value=0.027  Score=48.20  Aligned_cols=18  Identities=22%  Similarity=0.379  Sum_probs=15.3

Q ss_pred             CeEEEECCCCCCHHHHHH
Q psy17903         67 PHFLFYGPPGTGKTSTMI   84 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~   84 (355)
                      .++++.+|+|+|||..+.
T Consensus        81 ~~~lv~a~TGsGKT~~~~   98 (249)
T 3ber_A           81 RDIIGLAETGSGKTGAFA   98 (249)
T ss_dssp             CCEEEECCTTSCHHHHHH
T ss_pred             CCEEEEcCCCCCchhHhH
Confidence            359999999999998754

>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=95.76  E-value=0.028  Score=44.76  Aligned_cols=22  Identities=27%  Similarity=0.380  Sum_probs=20.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++..+...-
T Consensus        10 i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A           10 VILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            9999999999999999998653

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=95.75  E-value=0.015  Score=47.06  Aligned_cols=22  Identities=36%  Similarity=0.495  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|++|+|||+++..+...-
T Consensus        14 i~v~G~~~~GKSsli~~l~~~~   35 (195)
T 3bc1_A           14 FLALGDSGVGKTSVLYQYTDGK   35 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            9999999999999999998743

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=95.74  E-value=0.029  Score=56.38  Aligned_cols=22  Identities=27%  Similarity=0.427  Sum_probs=18.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+++.||+|+|||+++..++..
T Consensus       111 ~vii~gpTGSGKTtllp~ll~~  132 (773)
T 2xau_A          111 IMVFVGETGSGKTTQIPQFVLF  132 (773)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5999999999999977666544

>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=95.73  E-value=0.023  Score=44.64  Aligned_cols=23  Identities=17%  Similarity=0.317  Sum_probs=20.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+++.|++|+|||+++..+...-
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

>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=95.73  E-value=0.0083  Score=47.37  Aligned_cols=23  Identities=22%  Similarity=0.468  Sum_probs=20.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+++.|++|+|||+++..+....
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            38999999999999999998754

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=95.72  E-value=0.02  Score=53.47  Aligned_cols=36  Identities=28%  Similarity=0.494  Sum_probs=27.4

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         53 VVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        53 ~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +++.|..+.++.   .++|+|++|+|||+++..++....
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            555555554433   489999999999999999987754

>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=95.72  E-value=0.019  Score=51.20  Aligned_cols=35  Identities=34%  Similarity=0.449  Sum_probs=25.6

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHh
Q psy17903         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        56 ~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .|...+.+|-.+.  ++|+||||+|||+++..++...
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  9999999999999999999763

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=95.71  E-value=0.019  Score=45.74  Aligned_cols=23  Identities=17%  Similarity=0.384  Sum_probs=20.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+++.|++|+|||+++.++...-
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

>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=95.71  E-value=0.0068  Score=51.42  Aligned_cols=24  Identities=33%  Similarity=0.369  Sum_probs=22.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+.|.||+|+||||+++.+++.+.
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            489999999999999999999983

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.70  E-value=0.0081  Score=49.39  Aligned_cols=22  Identities=23%  Similarity=0.220  Sum_probs=21.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|+|++|+||||+++.+++.+
T Consensus        15 IgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           15 IGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            8899999999999999999986

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.70  E-value=0.0069  Score=50.48  Aligned_cols=24  Identities=25%  Similarity=0.408  Sum_probs=22.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
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            389999999999999999999874

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.69  E-value=0.0053  Score=54.90  Aligned_cols=25  Identities=24%  Similarity=0.340  Sum_probs=22.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .++|.||+|+|||+++..+++.+.+
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            3899999999999999999999853

>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=95.68  E-value=0.088  Score=48.07  Aligned_cols=22  Identities=27%  Similarity=0.409  Sum_probs=17.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++++.+|+|+|||..+...+-.
T Consensus        60 ~~li~a~TGsGKT~~~~~~~~~   81 (400)
T 1s2m_A           60 DILARAKNGTGKTAAFVIPTLE   81 (400)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEECCCCcHHHHHHHHHHHH
Confidence            4899999999999876554443

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=95.67  E-value=0.018  Score=61.38  Aligned_cols=60  Identities=13%  Similarity=0.284  Sum_probs=39.3

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCcccccc----ccCCeeeEEecCC
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQP----LTSRCSKFRFKPL  196 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~----l~sr~~~i~~~~~  196 (355)
                      +.+|+++||+- .+..+....+.+.+++...+..+|+++++.+.+..+    +.+.++++++..+
T Consensus      1235 ~~~ILiLDEaTSaLD~~tE~~Iq~~l~~~~~~~TvI~IAHRLsTi~~aD~I~Vld~G~IvE~Gth 1299 (1321)
T 4f4c_A         1235 NPKILLLDEATSALDTESEKVVQEALDRAREGRTCIVIAHRLNTVMNADCIAVVSNGTIIEKGTH 1299 (1321)
T ss_dssp             CCSEEEEESCCCSTTSHHHHHHHHHHTTTSSSSEEEEECSSSSTTTTCSEEEEESSSSEEEEECH
T ss_pred             CCCEEEEeCccccCCHHHHHHHHHHHHHHcCCCEEEEeccCHHHHHhCCEEEEEECCEEEEECCH
Confidence            44699999985 344455566777777666666777788776543221    3456677877654

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=95.67  E-value=0.045  Score=44.94  Aligned_cols=23  Identities=17%  Similarity=0.231  Sum_probs=20.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.|++|+|||+++..+...-
T Consensus        31 ki~vvG~~~vGKSsli~~l~~~~   53 (201)
T 2hup_A           31 KLVLVGDASVGKTCVVQRFKTGA   53 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhhCC
Confidence            39999999999999999997643

>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=95.63  E-value=0.073  Score=45.13  Aligned_cols=23  Identities=35%  Similarity=0.472  Sum_probs=17.2

Q ss_pred             eEEEECCCCCCHHHHHH-HHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMI-AACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~-~l~~~l   90 (355)
                      ++++.+|+|+|||..+. .+...+
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            59999999999998743 334444

>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=95.63  E-value=0.015  Score=48.69  Aligned_cols=22  Identities=27%  Similarity=0.380  Sum_probs=20.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|.+|+|||+++..+...-
T Consensus        16 ivlvGd~~VGKTsLi~r~~~~~   37 (216)
T 4dkx_A           16 LVFLGEQSVGKTSLITRFMYDS   37 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCcCHHHHHHHHHhCC
Confidence            8999999999999999988653

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=95.61  E-value=0.0074  Score=51.89  Aligned_cols=23  Identities=22%  Similarity=0.160  Sum_probs=21.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.|++|+||||+++.+++.+.
T Consensus        25 I~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           25 IGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            89999999999999999999874

>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=95.60  E-value=0.0035  Score=51.91  Aligned_cols=40  Identities=15%  Similarity=0.093  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         51 QEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+..+.+.+.......-.+++.|++|+|||+++..+....
T Consensus        15 ~~~~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           15 VPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             ---------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             ccchhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            3334444444433333349999999999999999998653

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=95.60  E-value=0.0064  Score=50.26  Aligned_cols=22  Identities=23%  Similarity=0.243  Sum_probs=20.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+.|.|++|+||||+++.++. +
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 6

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.59  E-value=0.0093  Score=53.47  Aligned_cols=24  Identities=25%  Similarity=0.452  Sum_probs=22.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.||+|+|||+++..++..+.
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            389999999999999999999984

>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=95.58  E-value=0.0083  Score=49.59  Aligned_cols=24  Identities=25%  Similarity=0.274  Sum_probs=22.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+.|.|++|+||||+++.+++.++
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            488999999999999999999884

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=95.56  E-value=0.035  Score=46.27  Aligned_cols=19  Identities=26%  Similarity=0.354  Sum_probs=15.7

Q ss_pred             eEEEECCCCCCHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAA   86 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l   86 (355)
                      ++++.+|+|+|||..+...
T Consensus        43 ~~lv~a~TGsGKT~~~~~~   61 (219)
T 1q0u_A           43 SMVGQSQTGTGKTHAYLLP   61 (219)
T ss_dssp             CEEEECCSSHHHHHHHHHH
T ss_pred             CEEEECCCCChHHHHHHHH
Confidence            5899999999999875443

>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=95.54  E-value=0.051  Score=51.20  Aligned_cols=24  Identities=25%  Similarity=0.200  Sum_probs=22.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +++.|.||+||||+++.+++.+..
T Consensus        42 IvlvGlpGsGKSTia~~La~~l~~   65 (469)
T 1bif_A           42 IVMVGLPARGKTYISKKLTRYLNF   65 (469)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhc
Confidence            999999999999999999998753

>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=95.53  E-value=0.088  Score=46.28  Aligned_cols=24  Identities=29%  Similarity=0.447  Sum_probs=21.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +.+.|++|+||||++..++..+..
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            778899999999999999988753

>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=95.52  E-value=0.04  Score=51.84  Aligned_cols=39  Identities=26%  Similarity=0.284  Sum_probs=29.6

Q ss_pred             ccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         49 EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      -.+.+.+.+..++..+   .+++.||+|+|||..+..++...
T Consensus        94 l~~~Q~~ai~~i~~~~---~~ll~~~TGsGKT~~~l~~i~~~  132 (472)
T 2fwr_A           94 LRDYQEKALERWLVDK---RGCIVLPTGSGKTHVAMAAINEL  132 (472)
T ss_dssp             BCHHHHHHHHHHTTTT---EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHhcC---CEEEEeCCCCCHHHHHHHHHHHc
Confidence            3556666666666543   48999999999999998877766

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=95.51  E-value=0.012  Score=47.47  Aligned_cols=37  Identities=24%  Similarity=0.301  Sum_probs=26.7

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeec
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~  103 (355)
                      +-+.|.|++|+||||++..+...+.........+..+
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~l~~~g~~v~~i~~~   43 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHT   43 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhccccCCceeEEeeC
Confidence            4589999999999999999998875333333334433

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4}

Probab=95.51  E-value=0.074  Score=50.49  Aligned_cols=38  Identities=8%  Similarity=0.018  Sum_probs=27.7

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+.+...+..++..   .+.+++||+|+|||..+..++...
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            44555555555554   358999999999999987776654

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=95.49  E-value=0.0084  Score=53.02  Aligned_cols=23  Identities=30%  Similarity=0.462  Sum_probs=21.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.||+|+|||+++..+++.+.
T Consensus         6 i~i~GptgsGKt~la~~La~~~~   28 (322)
T 3exa_A            6 VAIVGPTAVGKTKTSVMLAKRLN   28 (322)
T ss_dssp             EEEECCTTSCHHHHHHHHHHTTT
T ss_pred             EEEECCCcCCHHHHHHHHHHhCc
Confidence            78999999999999999999874

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=95.49  E-value=0.023  Score=44.81  Aligned_cols=21  Identities=19%  Similarity=0.415  Sum_probs=19.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++.++...
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

>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=95.49  E-value=0.024  Score=51.42  Aligned_cols=37  Identities=24%  Similarity=0.336  Sum_probs=27.4

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeec
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~  103 (355)
                      +.+.|+|++|+||||++..++..+.....+..++..+
T Consensus        80 ~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~D  116 (355)
T 3p32_A           80 HRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAVD  116 (355)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEecC
Confidence            3499999999999999999998875443333344443

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.48  E-value=0.063  Score=48.13  Aligned_cols=23  Identities=26%  Similarity=0.364  Sum_probs=21.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.|+||+|||+++..++....
T Consensus        49 iiIaG~pG~GKTt~al~ia~~~a   71 (338)
T 4a1f_A           49 VIIGARPSMGKTSLMMNMVLSAL   71 (338)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHH
Confidence            99999999999999999988764

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=95.47  E-value=0.0038  Score=51.97  Aligned_cols=23  Identities=17%  Similarity=0.202  Sum_probs=21.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.|++|+||||+++.+++.+.
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            68999999999999999999885

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=95.46  E-value=0.007  Score=50.14  Aligned_cols=20  Identities=25%  Similarity=0.209  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~   88 (355)
                      +.|.|++|+||||+++.++.
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

>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=95.46  E-value=0.059  Score=42.18  Aligned_cols=23  Identities=22%  Similarity=0.234  Sum_probs=20.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+++.|++|+|||+++..+...-
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            37899999999999999998764

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.46  E-value=0.017  Score=51.51  Aligned_cols=23  Identities=22%  Similarity=0.111  Sum_probs=21.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||+|+||||+++.+...+.
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            89999999999999999998875

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=95.42  E-value=0.033  Score=54.56  Aligned_cols=40  Identities=38%  Similarity=0.490  Sum_probs=31.0

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++.+...+...+..   +..+|.||||||||+++..++..+..
T Consensus       182 n~~Q~~av~~~l~~---~~~li~GppGTGKT~~~~~~i~~l~~  221 (624)
T 2gk6_A          182 NHSQVYAVKTVLQR---PLSLIQGPPGTGKTVTSATIVYHLAR  221 (624)
T ss_dssp             CHHHHHHHHHHHTC---SEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHhcC---CCeEEECCCCCCHHHHHHHHHHHHHH
Confidence            56667777766642   35899999999999999888887653

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.42  E-value=0.009  Score=49.64  Aligned_cols=23  Identities=26%  Similarity=0.197  Sum_probs=21.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||+|+||||+++.++..+.
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            88999999999999999999874

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.41  E-value=0.0077  Score=48.45  Aligned_cols=17  Identities=24%  Similarity=0.512  Sum_probs=16.1

Q ss_pred             EEEECCCCCCHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIA   85 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~   85 (355)
                      +.|.||+|+||||+++.
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

>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=95.40  E-value=0.019  Score=44.97  Aligned_cols=23  Identities=22%  Similarity=0.397  Sum_probs=20.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+++.|++|+|||+++..+...-
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            38999999999999999998754

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=95.40  E-value=0.032  Score=45.69  Aligned_cols=23  Identities=17%  Similarity=0.317  Sum_probs=20.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.|++|+|||+++..+...-
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

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=95.39  E-value=0.02  Score=46.40  Aligned_cols=22  Identities=23%  Similarity=0.406  Sum_probs=20.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++..++..-
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            9999999999999999998753

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=95.39  E-value=0.011  Score=47.03  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=21.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||.|+||||+++.++..+
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            8899999999999999999987

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=95.38  E-value=0.01  Score=50.25  Aligned_cols=24  Identities=38%  Similarity=0.686  Sum_probs=22.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|.|++|+||||+++.+++.+..
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            899999999999999999999854

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.36  E-value=0.0095  Score=50.00  Aligned_cols=22  Identities=23%  Similarity=0.555  Sum_probs=20.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||+|+||||+++.++..+
T Consensus        26 ~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           26 LVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            8999999999999999999876

>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=95.36  E-value=0.03  Score=44.96  Aligned_cols=22  Identities=18%  Similarity=0.323  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|++|+|||+++..+...-
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

>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=95.35  E-value=0.0095  Score=55.07  Aligned_cols=23  Identities=22%  Similarity=0.192  Sum_probs=20.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+.|.||+|+||||++++++...
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            48899999999999999998743

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=95.33  E-value=0.032  Score=46.27  Aligned_cols=22  Identities=27%  Similarity=0.436  Sum_probs=19.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .++|.|++|+|||+++.++...
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            3999999999999999998754

>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=95.33  E-value=0.023  Score=44.72  Aligned_cols=22  Identities=18%  Similarity=0.359  Sum_probs=20.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++.++...-
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            8999999999999999998654

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.33  E-value=0.24  Score=46.00  Aligned_cols=25  Identities=28%  Similarity=0.296  Sum_probs=22.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      +++.|++|+||||++..++..+...
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            8889999999999999999988643

>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=95.28  E-value=0.0081  Score=49.38  Aligned_cols=23  Identities=26%  Similarity=0.424  Sum_probs=21.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.||+|+|||++|..+++...
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

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=95.28  E-value=0.011  Score=49.18  Aligned_cols=22  Identities=18%  Similarity=0.469  Sum_probs=20.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||+|+||||+++.++..+
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            8899999999999999999886

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=95.28  E-value=0.068  Score=43.16  Aligned_cols=22  Identities=18%  Similarity=0.163  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|++|+|||+++..+...-
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            9999999999999999998653

>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=95.27  E-value=0.089  Score=55.22  Aligned_cols=39  Identities=21%  Similarity=0.243  Sum_probs=27.7

Q ss_pred             ccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHH
Q psy17903         49 EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAAC   87 (355)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~   87 (355)
                      .|..++..+...+.++...+++++||+|+|||..+...+
T Consensus       607 ~Q~~ai~~il~~~~~g~p~d~ll~~~TGsGKT~val~aa  645 (1151)
T 2eyq_A          607 DQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAA  645 (1151)
T ss_dssp             HHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCcCcEEEECCCCCCHHHHHHHHH
Confidence            345555555555556665579999999999998876444

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.27  E-value=0.011  Score=49.17  Aligned_cols=42  Identities=33%  Similarity=0.464  Sum_probs=29.3

Q ss_pred             ccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHH
Q psy17903         38 KYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        38 k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ..+|+++    |+..+++.    +..|.  .+.|.||.|+||||+++.++..
T Consensus         4 ~i~pk~~----g~~~~l~~----i~~Ge--~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A            4 VIRPKTL----GQKHYVDA----IDTNT--IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CCCCCSH----HHHHHHHH----HHHCS--EEEEECCTTSSTTHHHHHHHHH
T ss_pred             ccccCCH----hHHHHHHh----ccCCC--EEEEECCCCCCHHHHHHHHhcC
Confidence            3467765    33334433    34342  3789999999999999999876

>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=95.26  E-value=0.13  Score=41.79  Aligned_cols=22  Identities=27%  Similarity=0.425  Sum_probs=19.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+++.|++|+|||++++.+...
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            4999999999999999877664

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=95.22  E-value=0.034  Score=44.99  Aligned_cols=23  Identities=22%  Similarity=0.362  Sum_probs=20.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.|++|+|||+++..+...-
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            39999999999999999998653

>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=95.20  E-value=0.066  Score=51.91  Aligned_cols=42  Identities=21%  Similarity=0.388  Sum_probs=28.6

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~  178 (355)
                      +.+++++||.- .+.+.....+.+.+.+...+..+|+++++..
T Consensus       498 ~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~tvi~itH~~~  540 (582)
T 3b5x_A          498 DAPVLILDEATSALDTESERAIQAALDELQKNKTVLVIAHRLS  540 (582)
T ss_pred             CCCEEEEECccccCCHHHHHHHHHHHHHHcCCCEEEEEecCHH
Confidence            45799999985 5566666667777765444555677777654

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.20  E-value=0.11  Score=48.40  Aligned_cols=47  Identities=13%  Similarity=0.130  Sum_probs=31.1

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC
Q psy17903         55 SVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (355)
Q Consensus        55 ~~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  104 (355)
                      ..|.+.+ +|-.+.  ++|.|+||+|||+++..++......  +..++.++.
T Consensus       185 ~~LD~~l-gGl~~G~liiIaG~pG~GKTtlal~ia~~~a~~--g~~vl~fSl  233 (444)
T 3bgw_A          185 TELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDN--DDVVNLHSL  233 (444)
T ss_dssp             HHHHHHH-SSBCSSCEEEEEECSSSSHHHHHHHHHHHHHHT--TCEEEEECS
T ss_pred             HHHHhhc-CCCCCCcEEEEEeCCCCChHHHHHHHHHHHHHc--CCEEEEEEC
Confidence            3344444 343333  9999999999999999998876433  224444444

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.19  E-value=0.013  Score=47.93  Aligned_cols=69  Identities=16%  Similarity=0.210  Sum_probs=40.7

Q ss_pred             CcEEEEEeCCCCC---CHHHHHHHHHHhhhccCCccEEE-Ee--cCC-ccccccccC--CeeeEEecCCCHHHHHHHHHH
Q psy17903        137 PFKIVILDEADSM---THAAQAALRRTMEKETKSTRFCL-IC--NYV-SCIIQPLTS--RCSKFRFKPLAENTMLTRLQY  207 (355)
Q Consensus       137 ~~~vliiDe~d~l---~~~~~~~Ll~~le~~~~~~~~Il-~~--~~~-~~l~~~l~s--r~~~i~~~~~~~~~~~~~l~~  207 (355)
                      +..++|+||++.+   .....+.|.++++...  ++++. ++  ++. ..+...+..  .+.++.+.+-+.+.+..-+..
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            4569999998766   3456777888887542  33331 12  232 234455544  356888877676655555443

>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=95.18  E-value=0.055  Score=45.51  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=17.4

Q ss_pred             eEEEECCCCCCHHHHH-HHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTM-IAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la-~~l~~~l   90 (355)
                      ++++.+|+|+|||... ..+...+
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            5999999999999874 3344444

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=95.16  E-value=0.058  Score=45.48  Aligned_cols=18  Identities=28%  Similarity=0.381  Sum_probs=15.3

Q ss_pred             eEEEECCCCCCHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIA   85 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~   85 (355)
                      ++++.+|+|+|||..+..
T Consensus        64 ~~li~a~TGsGKT~~~~~   81 (236)
T 2pl3_A           64 DVLGAAKTGSGKTLAFLV   81 (236)
T ss_dssp             CEEEECCTTSCHHHHHHH
T ss_pred             CEEEEeCCCCcHHHHHHH
Confidence            599999999999986543

>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=95.14  E-value=0.025  Score=44.48  Aligned_cols=22  Identities=18%  Similarity=0.455  Sum_probs=20.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++.++...-
T Consensus         6 i~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999998753

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=95.14  E-value=0.011  Score=48.60  Aligned_cols=21  Identities=19%  Similarity=0.172  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +.|.|++|+||||+++.+++.
T Consensus        11 I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A           11 IGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             EEEEECTTSCHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHC
Confidence            899999999999999999986

>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=95.12  E-value=0.0088  Score=48.40  Aligned_cols=22  Identities=18%  Similarity=0.268  Sum_probs=20.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++..+...-
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

>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=95.12  E-value=0.037  Score=44.50  Aligned_cols=22  Identities=23%  Similarity=0.419  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++.++...-
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            8999999999999999998654

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=95.11  E-value=0.0095  Score=49.37  Aligned_cols=22  Identities=23%  Similarity=0.215  Sum_probs=20.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.|++|+||||+++.+++.+
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            8899999999999999999875

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=95.10  E-value=0.028  Score=45.75  Aligned_cols=21  Identities=33%  Similarity=0.455  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.|++|+|||+++..+...
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            999999999999999998754

>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=95.08  E-value=0.042  Score=45.89  Aligned_cols=26  Identities=23%  Similarity=0.284  Sum_probs=23.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDM   94 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~   94 (355)
                      +.|.|++|+||||.++.+++.+....
T Consensus         9 i~~eG~~gsGKsT~~~~l~~~l~~~~   34 (213)
T 4edh_A            9 VTLEGPEGAGKSTNRDYLAERLRERG   34 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHTTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence            89999999999999999999986543

>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=95.07  E-value=0.046  Score=49.71  Aligned_cols=23  Identities=39%  Similarity=0.495  Sum_probs=17.1

Q ss_pred             eEEEECCCCCCHHHHHH-HHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMI-AACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~-~l~~~l   90 (355)
                      ++++.+|+|+|||..+. .+...+
T Consensus        60 ~~lv~~~TGsGKT~~~~~~~~~~l   83 (394)
T 1fuu_A           60 DVLAQAQSGTGKTGTFSIAALQRI   83 (394)
T ss_dssp             CEEECCCSSHHHHHHHHHHHHHHC
T ss_pred             CEEEECCCCChHHHHHHHHHHHHh
Confidence            58999999999998743 334443

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=95.07  E-value=0.03  Score=45.85  Aligned_cols=23  Identities=22%  Similarity=0.504  Sum_probs=20.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.|++|+|||+++..+...-
T Consensus        30 ki~v~G~~~~GKSsli~~l~~~~   52 (199)
T 2p5s_A           30 KIVLAGDAAVGKSSFLMRLCKNE   52 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHhCC
Confidence            49999999999999999998653

>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=95.06  E-value=0.15  Score=48.46  Aligned_cols=24  Identities=8%  Similarity=-0.047  Sum_probs=21.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|.|+||+|||+++..++.....
T Consensus       245 ~li~G~pG~GKT~lal~~a~~~a~  268 (503)
T 1q57_A          245 IMVTSGSGMVMSTFVRQQALQWGT  268 (503)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHTT
T ss_pred             EEEeecCCCCchHHHHHHHHHHHH
Confidence            999999999999999999988753

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=95.05  E-value=0.029  Score=45.95  Aligned_cols=22  Identities=27%  Similarity=0.377  Sum_probs=19.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|++|+|||+++..+...-
T Consensus        11 i~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A           11 ILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEECSTTSSHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            9999999999999999987653

>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=95.05  E-value=0.072  Score=43.96  Aligned_cols=24  Identities=25%  Similarity=0.259  Sum_probs=21.2

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ..+++.|++|+|||+++.++...-
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

>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=95.05  E-value=0.012  Score=49.05  Aligned_cols=22  Identities=18%  Similarity=0.311  Sum_probs=20.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|++|+|||+++..+...-
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

>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=95.02  E-value=0.086  Score=44.65  Aligned_cols=18  Identities=22%  Similarity=0.355  Sum_probs=15.3

Q ss_pred             eEEEECCCCCCHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIA   85 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~   85 (355)
                      ++++.+|+|+|||.....
T Consensus        68 ~~l~~apTGsGKT~~~~l   85 (242)
T 3fe2_A           68 DMVGVAQTGSGKTLSYLL   85 (242)
T ss_dssp             CEEEEECTTSCHHHHHHH
T ss_pred             CEEEECCCcCHHHHHHHH
Confidence            599999999999987543

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=94.99  E-value=0.0082  Score=51.14  Aligned_cols=21  Identities=33%  Similarity=0.385  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|+|+||+|||+++..++..
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            999999999999999887654

>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=94.98  E-value=0.023  Score=47.25  Aligned_cols=21  Identities=29%  Similarity=0.468  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++..+...
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            999999999999999999854

>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19

Probab=94.98  E-value=0.08  Score=53.04  Aligned_cols=40  Identities=20%  Similarity=0.191  Sum_probs=31.2

Q ss_pred             ccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHH
Q psy17903         49 EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~   88 (355)
                      .|..++..+...+..+...++++.||+|+|||..+...+-
T Consensus       372 ~Q~~ai~~I~~~l~~~~~~~~Ll~a~TGSGKTlvall~il  411 (780)
T 1gm5_A          372 AQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAIL  411 (780)
T ss_dssp             HHHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccccCCCcEEEEcCCCCCHHHHHHHHHH
Confidence            5777777777777766656799999999999998765443

>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=94.97  E-value=0.032  Score=47.35  Aligned_cols=25  Identities=20%  Similarity=0.392  Sum_probs=22.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      +.|.|++|+||||.++.+++.+...
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            8999999999999999999998543

>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=94.96  E-value=0.026  Score=44.37  Aligned_cols=21  Identities=29%  Similarity=0.466  Sum_probs=18.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~   88 (355)
                      .+++.|++|+|||+++.++..
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

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=94.95  E-value=0.034  Score=45.09  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+++.|++|+|||+++..+...-
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

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.94  E-value=0.018  Score=48.08  Aligned_cols=23  Identities=22%  Similarity=0.446  Sum_probs=21.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+.|.|++|+|||++++.+++.+
T Consensus         5 ~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            5 NIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            38999999999999999999987

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=94.93  E-value=0.064  Score=47.95  Aligned_cols=24  Identities=33%  Similarity=0.504  Sum_probs=22.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +.|.||+|+||||+++.++..+..
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            999999999999999999988753

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.92  E-value=0.049  Score=52.90  Aligned_cols=43  Identities=19%  Similarity=0.283  Sum_probs=29.6

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCcc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVSC  179 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~  179 (355)
                      +.+++++||.- .+.+.....+.+.+.+...+..+|+++++...
T Consensus       497 ~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~tvi~itH~l~~  540 (587)
T 3qf4_A          497 KPKVLILDDCTSSVDPITEKRILDGLKRYTKGCTTFIITQKIPT  540 (587)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHHHSTTCEEEEEESCHHH
T ss_pred             CCCEEEEECCcccCCHHHHHHHHHHHHHhCCCCEEEEEecChHH
Confidence            44699999985 55666666777776655445667778876543

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=94.92  E-value=0.015  Score=48.54  Aligned_cols=20  Identities=25%  Similarity=0.331  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~   88 (355)
                      +.|.|++|+||||+++.++.
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

>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=94.92  E-value=0.03  Score=44.96  Aligned_cols=22  Identities=23%  Similarity=0.461  Sum_probs=20.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|++|+|||+++.++....
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            8999999999999999998653

>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=94.91  E-value=0.022  Score=45.50  Aligned_cols=22  Identities=23%  Similarity=0.398  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++..+...-
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            9999999999999999998754

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=94.90  E-value=0.026  Score=53.58  Aligned_cols=44  Identities=14%  Similarity=0.101  Sum_probs=31.7

Q ss_pred             ccHHHHHHHHHHHh--cCCCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         49 EQQEVVSVLKKCLS--GADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        49 g~~~~~~~l~~~l~--~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ..+++.+.+.+...  ......++|.|.+|+||||+++++++.+..
T Consensus       376 ~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          376 SYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             SCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             cChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            34555566666552  112223999999999999999999999963

>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=94.89  E-value=0.057  Score=54.35  Aligned_cols=40  Identities=38%  Similarity=0.490  Sum_probs=30.8

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .+.+...+...+..   +..+|.||||||||+++..++..+..
T Consensus       358 n~~Q~~Av~~~l~~---~~~lI~GppGTGKT~ti~~~i~~l~~  397 (800)
T 2wjy_A          358 NHSQVYAVKTVLQR---PLSLIQGPPGTGKTVTSATIVYHLAR  397 (800)
T ss_dssp             CHHHHHHHHHHHTS---SEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHhccC---CeEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            55666677666642   35899999999999999888887653

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.89  E-value=0.0067  Score=53.39  Aligned_cols=23  Identities=13%  Similarity=0.161  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||+|+||||+++.+++.+.
T Consensus         8 IgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            8 ISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             EEEESCC---CCTHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            88999999999999999999874

>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=94.89  E-value=0.027  Score=49.72  Aligned_cols=22  Identities=41%  Similarity=0.650  Sum_probs=21.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|+||+|+||||+++.++..+
T Consensus       129 vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          129 LAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHhhhc
Confidence            8999999999999999999987

>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B

Probab=94.88  E-value=0.091  Score=57.29  Aligned_cols=41  Identities=17%  Similarity=0.181  Sum_probs=26.0

Q ss_pred             CCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHH
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAA   86 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l   86 (355)
                      ..|..+  ++-+.+.+...+..+  .++++.+|+|+|||.++...
T Consensus       922 ~~f~~f--npiQ~q~~~~l~~~~--~nvlv~APTGSGKTliaela  962 (1724)
T 4f92_B          922 DKFPFF--NPIQTQVFNTVYNSD--DNVFVGAPTGSGKTICAEFA  962 (1724)
T ss_dssp             TTCSBC--CHHHHHHHHHHHSCC--SCEEEECCTTSCCHHHHHHH
T ss_pred             hcCCCC--CHHHHHHHHHHhcCC--CcEEEEeCCCCCchHHHHHH
Confidence            345443  233334444444443  36999999999999988643

>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=94.88  E-value=0.041  Score=43.91  Aligned_cols=21  Identities=24%  Similarity=0.513  Sum_probs=19.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++..+...
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

>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=94.86  E-value=0.036  Score=45.04  Aligned_cols=22  Identities=23%  Similarity=0.363  Sum_probs=20.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++..+...-
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            9999999999999999998754

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=94.83  E-value=0.094  Score=42.26  Aligned_cols=23  Identities=26%  Similarity=0.369  Sum_probs=20.6

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +.+++.|++|+|||+++..+...
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            35999999999999999998765

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=94.82  E-value=0.04  Score=45.96  Aligned_cols=26  Identities=23%  Similarity=0.201  Sum_probs=23.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      -+.|.|++|+||||.++.+++.+...
T Consensus         5 ~i~~eG~~gsGKsT~~~~l~~~l~~~   30 (213)
T 4tmk_A            5 YIVIEGLEGAGKTTARNVVVETLEQL   30 (213)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            38899999999999999999998643

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=94.82  E-value=0.019  Score=49.07  Aligned_cols=23  Identities=17%  Similarity=0.098  Sum_probs=21.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +-|.||.|+||||+++.++..++
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            88999999999999999999763

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=94.81  E-value=0.029  Score=45.56  Aligned_cols=22  Identities=23%  Similarity=0.508  Sum_probs=20.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|++|+|||+++.++...-
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            9999999999999999998754

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.75  E-value=0.011  Score=50.08  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=14.5

Q ss_pred             EEEECCCCCCHHHHHHHHH-HHh
Q psy17903         69 FLFYGPPGTGKTSTMIAAC-HQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~-~~l   90 (355)
                      +.|.||+|+||||+++.++ ..+
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            8899999999999999999 765

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=94.75  E-value=0.048  Score=48.30  Aligned_cols=23  Identities=22%  Similarity=0.160  Sum_probs=21.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||+|+||||+++.++..+.
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            88999999999999999999874

>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=94.73  E-value=0.037  Score=44.53  Aligned_cols=22  Identities=23%  Similarity=0.395  Sum_probs=19.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+++.|++|+|||+++.++...
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

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=94.71  E-value=0.026  Score=46.55  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.|++|+|||+++..+....
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            39999999999999999998754

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=94.71  E-value=0.019  Score=50.20  Aligned_cols=21  Identities=29%  Similarity=0.338  Sum_probs=19.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|+|++|+||||+++.++ .+
T Consensus        78 I~I~G~~GSGKSTva~~La-~l   98 (281)
T 2f6r_A           78 LGLTGISGSGKSSVAQRLK-NL   98 (281)
T ss_dssp             EEEEECTTSCHHHHHHHHH-HH
T ss_pred             EEEECCCCCCHHHHHHHHH-HC
Confidence            8999999999999999999 44

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=94.71  E-value=0.018  Score=50.19  Aligned_cols=23  Identities=22%  Similarity=0.296  Sum_probs=21.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|+||+|+|||+++..++..+.
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            89999999999999999998664

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=94.70  E-value=0.022  Score=54.27  Aligned_cols=40  Identities=20%  Similarity=0.165  Sum_probs=32.1

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ...+++.+.-.+..+.  .++|.||+|+||||++++++..+.
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            4566677777777664  489999999999999999988764

>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=94.69  E-value=0.022  Score=52.12  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=21.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.||+|+|||+++..+++.+.
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            78999999999999999999984

>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=93.70  E-value=0.0056  Score=50.54  Aligned_cols=32  Identities=16%  Similarity=0.173  Sum_probs=23.3

Q ss_pred             HHHHhcCCCCeEEEECCCCCCHHHHHHHHHHH
Q psy17903         58 KKCLSGADLPHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        58 ~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+.+...+.-.+++.|++|+|||+++..+...
T Consensus        22 ~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~   53 (204)
T 3th5_A           22 ENLYFQGQAIKCVVVGDGAVGKTCLLISYTTN   53 (204)
Confidence            33333333335999999999999999888754

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=94.68  E-value=0.033  Score=54.03  Aligned_cols=43  Identities=19%  Similarity=0.319  Sum_probs=28.8

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCcc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVSC  179 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~  179 (355)
                      +.+++++||.- .+.+.....+.+.+.+......+|+++++...
T Consensus       495 ~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~t~i~itH~l~~  538 (578)
T 4a82_A          495 NPPILILDEATSALDLESESIIQEALDVLSKDRTTLIVAHRLST  538 (578)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHTTTSEEEEECSSGGG
T ss_pred             CCCEEEEECccccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHH
Confidence            34699999984 55666666677766654444556777877654

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=94.66  E-value=0.043  Score=46.10  Aligned_cols=25  Identities=28%  Similarity=0.304  Sum_probs=22.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .+.|.|++|+||||+++.+++.+..
T Consensus        23 ~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           23 FITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3899999999999999999998854

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.65  E-value=0.02  Score=44.73  Aligned_cols=23  Identities=22%  Similarity=0.361  Sum_probs=20.6

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +.+++.|++|+|||+++..+...
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            35899999999999999999875

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.63  E-value=0.023  Score=48.23  Aligned_cols=24  Identities=17%  Similarity=0.318  Sum_probs=21.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+.|.|++|+||||+++.++..++
T Consensus        18 ~i~i~G~~gsGKst~~~~l~~~lg   41 (236)
T 1q3t_A           18 QIAIDGPASSGKSTVAKIIAKDFG   41 (236)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            389999999999999999999873

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=94.61  E-value=0.012  Score=47.38  Aligned_cols=38  Identities=18%  Similarity=0.188  Sum_probs=26.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  105 (355)
                      .+.|.|++|+||||+++.++..+....++...+.+++.
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~~~~~g~~~G~I~~dg~   41 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPILRERGLRVAVVKRHAH   41 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHHHHTTCCEEEEEC---
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhhcCCceEEEEEcCc
Confidence            47899999999999999999987543222334555544

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=94.58  E-value=0.071  Score=49.62  Aligned_cols=21  Identities=24%  Similarity=0.243  Sum_probs=17.0

Q ss_pred             CeEEEECCCCCCHHHHH-HHHH
Q psy17903         67 PHFLFYGPPGTGKTSTM-IAAC   87 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la-~~l~   87 (355)
                      .++++.||+|+|||..+ ..+.
T Consensus         3 ~~~lv~a~TGsGKT~~~l~~~l   24 (431)
T 2v6i_A            3 ELTVLDLHPGAGKTRRVLPQLV   24 (431)
T ss_dssp             CEEEEECCTTSCTTTTHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            35899999999999986 4444

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=94.57  E-value=0.022  Score=50.60  Aligned_cols=23  Identities=22%  Similarity=0.121  Sum_probs=21.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||+|+||||+++.++..+.
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            88999999999999999999875

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=94.56  E-value=0.061  Score=47.51  Aligned_cols=24  Identities=29%  Similarity=0.344  Sum_probs=22.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +.|.||.|+||||+++.++..+..
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            889999999999999999998754

>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD; ATP-binding, hydrolase, nucleotide-binding, RNA binding protein, structural genomics; 1.90A {Sulfolobus tokodaii}

Probab=94.55  E-value=0.19  Score=44.45  Aligned_cols=22  Identities=18%  Similarity=0.315  Sum_probs=17.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++++.+|+|+|||..+...+-.
T Consensus        33 ~~lv~~~TGsGKT~~~~~~~~~   54 (337)
T 2z0m_A           33 NVVVRAKTGSGKTAAYAIPILE   54 (337)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEcCCCCcHHHHHHHHHHh
Confidence            5999999999999877655544

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=94.54  E-value=0.022  Score=45.92  Aligned_cols=24  Identities=29%  Similarity=0.263  Sum_probs=21.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .+|+||.|+|||++++++.-.+..
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            789999999999999999988753

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=94.51  E-value=0.084  Score=44.62  Aligned_cols=23  Identities=22%  Similarity=0.335  Sum_probs=20.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.|++|+|||+++.++...-
T Consensus        31 ~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           31 RIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            49999999999999999998653

>2zpa_A Uncharacterized protein YPFI; RNA modification enzyme, RNA helicase, acetyltransferase, GCN5 acetyltransferase; HET: ACO ADP; 2.35A {Escherichia coli K12}

Probab=94.51  E-value=0.14  Score=50.04  Aligned_cols=97  Identities=14%  Similarity=0.111  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCC
Q psy17903         52 EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQD  131 (355)
Q Consensus        52 ~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~  131 (355)
                      +..+.+..++.... ...+|+|++|.|||+++-.++..+...      +.+.++.......+.+....    ......++
T Consensus       179 dQ~~al~~~~~~~~-~~~vlta~RGRGKSa~lG~~~a~~~~~------~~vtAP~~~a~~~l~~~~~~----~i~~~~Pd  247 (671)
T 2zpa_A          179 EQQQLLKQLMTMPP-GVAAVTAARGRGKSALAGQLISRIAGR------AIVTAPAKASTDVLAQFAGE----KFRFIAPD  247 (671)
T ss_dssp             HHHHHHHHHTTCCS-EEEEEEECTTSSHHHHHHHHHHHSSSC------EEEECSSCCSCHHHHHHHGG----GCCBCCHH
T ss_pred             HHHHHHHHHHHhhh-CeEEEecCCCCCHHHHHHHHHHHHHhC------cEEECCCHHHHHHHHHHhhC----CeEEeCch
Confidence            44445555544321 248999999999999999999887432      24445555555554443221    11000000


Q ss_pred             C--CCCCCcEEEEEeCCCCCCHHHHHHHHH
Q psy17903        132 G--KPCPPFKIVILDEADSMTHAAQAALRR  159 (355)
Q Consensus       132 ~--~~~~~~~vliiDe~d~l~~~~~~~Ll~  159 (355)
                      .  .......+|||||+-.+.......|+.
T Consensus       248 ~~~~~~~~~dlliVDEAAaIp~pll~~ll~  277 (671)
T 2zpa_A          248 ALLASDEQADWLVVDEAAAIPAPLLHQLVS  277 (671)
T ss_dssp             HHHHSCCCCSEEEEETGGGSCHHHHHHHHT
T ss_pred             hhhhCcccCCEEEEEchhcCCHHHHHHHHh
Confidence            0  000123599999999998765555544

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae}

Probab=94.50  E-value=0.21  Score=51.64  Aligned_cols=53  Identities=15%  Similarity=0.025  Sum_probs=30.3

Q ss_pred             CccccccCCCCCCcc--cccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHH
Q psy17903         33 VPWVEKYRPKTIDDV--IEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~--vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~   88 (355)
                      .+|.+...|.....+  --.+.+.+.+..+.. +  .++++.+|+|+|||..+.....
T Consensus        69 ~~~~~~~~p~~~~~~~f~L~~~Q~eai~~l~~-g--~~vLV~apTGSGKTlva~lai~  123 (1010)
T 2xgj_A           69 TPIAEHKRVNEARTYPFTLDPFQDTAISCIDR-G--ESVLVSAHTSAGKTVVAEYAIA  123 (1010)
T ss_dssp             CCGGGCCCSSCSCCCSSCCCHHHHHHHHHHHH-T--CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCCcccChhhHHhCCCCCCHHHHHHHHHHHc-C--CCEEEECCCCCChHHHHHHHHH
Confidence            456555545321111  123344444544443 3  3699999999999998754333

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=94.49  E-value=0.29  Score=40.49  Aligned_cols=24  Identities=29%  Similarity=0.632  Sum_probs=21.0

Q ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Q psy17903         66 LPHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        66 ~~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+.++|.|++|+|||+++.++...
T Consensus        29 ~~~i~v~G~~~~GKSslin~l~~~   52 (223)
T 4dhe_A           29 QPEIAFAGRSNAGKSTAINVLCNQ   52 (223)
T ss_dssp             SCEEEEEESCHHHHHHHHHHHTTC
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCC
Confidence            345999999999999999998765

>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=94.48  E-value=0.022  Score=50.09  Aligned_cols=23  Identities=17%  Similarity=0.176  Sum_probs=21.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.||+|+|||++++.++..+.
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            89999999999999999998864

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=94.47  E-value=0.037  Score=55.08  Aligned_cols=20  Identities=30%  Similarity=0.468  Sum_probs=17.0

Q ss_pred             CeEEEECCCCCCHHHHHHHH
Q psy17903         67 PHFLFYGPPGTGKTSTMIAA   86 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l   86 (355)
                      .++++.||+|+|||+.+...
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

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=94.45  E-value=0.023  Score=45.54  Aligned_cols=22  Identities=23%  Similarity=0.329  Sum_probs=20.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .++|.|++|+|||++|..+.+.
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            3999999999999999999885

>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=94.45  E-value=0.11  Score=48.83  Aligned_cols=23  Identities=22%  Similarity=0.267  Sum_probs=17.6

Q ss_pred             eEEEECCCCCCHHHH-HHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTST-MIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~l-a~~l~~~l   90 (355)
                      ++++.||+|+|||.. +..+...+
T Consensus        23 ~vlv~a~TGsGKT~~~~l~il~~~   46 (459)
T 2z83_A           23 MTVLDLHPGSGKTRKILPQIIKDA   46 (459)
T ss_dssp             EEEECCCTTSCTTTTHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHH
Confidence            599999999999997 44444443

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.43  E-value=0.052  Score=44.10  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=20.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+++.|++|+|||+++.++...
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

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=94.41  E-value=0.061  Score=48.57  Aligned_cols=24  Identities=29%  Similarity=0.427  Sum_probs=21.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+.|.|+||+||||+..++...+.
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            399999999999999999998764

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.39  E-value=0.02  Score=48.32  Aligned_cols=24  Identities=33%  Similarity=0.515  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|.|++|+||||.++.+++.+..
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

>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=94.38  E-value=0.025  Score=51.60  Aligned_cols=23  Identities=30%  Similarity=0.585  Sum_probs=21.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.||+|+||||+++.++..+.
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            99999999999999999999764

>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=94.38  E-value=0.023  Score=54.24  Aligned_cols=23  Identities=26%  Similarity=0.284  Sum_probs=21.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +++.|.||+||||+++.+++.+.
T Consensus        38 IvlvGlpGSGKSTia~~La~~L~   60 (520)
T 2axn_A           38 IVMVGLPARGKTYISKKLTRYLN   60 (520)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            89999999999999999999874

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=94.37  E-value=0.2  Score=50.05  Aligned_cols=23  Identities=22%  Similarity=0.271  Sum_probs=20.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.||.|+||||+.+.++...
T Consensus       578 i~~I~GpNGsGKSTlLr~iagl~  600 (765)
T 1ewq_A          578 LVLITGPNMAGKSTFLRQTALIA  600 (765)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCChHHHHHHHHhhh
Confidence            38999999999999999998754

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=94.33  E-value=0.027  Score=46.19  Aligned_cols=22  Identities=18%  Similarity=0.351  Sum_probs=20.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.|++|+|||++++.++...
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            8999999999999999998764

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.31  E-value=0.021  Score=51.88  Aligned_cols=35  Identities=26%  Similarity=0.376  Sum_probs=27.4

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         55 SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        55 ~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.+.-.+..|.  .++|.||+|+||||++++++..+.
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  489999999999999999998764

>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=94.29  E-value=0.015  Score=48.52  Aligned_cols=21  Identities=29%  Similarity=0.398  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++..+...
T Consensus        18 i~v~G~~~~GKSsli~~~~~~   38 (221)
T 3gj0_A           18 LVLVGDGGTGKTTFVKRHLTG   38 (221)
T ss_dssp             EEEEECTTSSHHHHHTTBHHH
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            999999999999999994443

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.28  E-value=0.1  Score=50.82  Aligned_cols=43  Identities=23%  Similarity=0.299  Sum_probs=29.1

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCcc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVSC  179 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~  179 (355)
                      +.+++++||.- .+.+.....+.+.+.+...+..+|+++++.+.
T Consensus       509 ~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~t~i~itH~l~~  552 (598)
T 3qf4_B          509 NPKILILDEATSNVDTKTEKSIQAAMWKLMEGKTSIIIAHRLNT  552 (598)
T ss_dssp             CCSEEEECCCCTTCCHHHHHHHHHHHHHHHTTSEEEEESCCTTH
T ss_pred             CCCEEEEECCccCCCHHHHHHHHHHHHHHcCCCEEEEEecCHHH
Confidence            34699999985 55666666666666654445567778877654

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=94.26  E-value=0.025  Score=46.10  Aligned_cols=23  Identities=22%  Similarity=0.437  Sum_probs=20.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.|++|+|||++++.++....
T Consensus        32 v~lvG~~g~GKSTLl~~l~~~~~   54 (191)
T 1oix_A           32 VVLIGDSGVGKSNLLSRFTRNEF   54 (191)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSCC
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            89999999999999999987653

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=94.22  E-value=0.022  Score=48.42  Aligned_cols=42  Identities=7%  Similarity=0.218  Sum_probs=28.4

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccC--CccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETK--STRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~--~~~~Il~~~~~~  178 (355)
                      +.+++++||-- .|.+.....+.+.+.+...  ...+|++|++..
T Consensus       163 ~p~llllDEPts~LD~~~~~~i~~~l~~l~~~~g~tvi~vtHd~~  207 (235)
T 3tif_A          163 NPPIILADQPTWALDSKTGEKIMQLLKKLNEEDGKTVVVVTHDIN  207 (235)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHCCEEEEECSCHH
T ss_pred             CCCEEEEeCCcccCCHHHHHHHHHHHHHHHHHcCCEEEEEcCCHH
Confidence            44699999974 5566777777777765422  456777787764

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=94.20  E-value=0.041  Score=52.83  Aligned_cols=43  Identities=19%  Similarity=0.176  Sum_probs=31.2

Q ss_pred             cHHHHHHHHHHHh--cCCCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         50 QQEVVSVLKKCLS--GADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        50 ~~~~~~~l~~~l~--~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .+++...+.....  ......++|+|++|+||||+++.+++.+..
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            4556666666652  222223899999999999999999998753

>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=94.19  E-value=0.28  Score=51.22  Aligned_cols=22  Identities=27%  Similarity=0.176  Sum_probs=17.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++++||+|+|||..+...+..
T Consensus       201 dvLV~ApTGSGKTlva~l~i~~  222 (1108)
T 3l9o_A          201 SVLVSAHTSAGKTVVAEYAIAQ  222 (1108)
T ss_dssp             CEEEECCSSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCChHHHHHHHHHH
Confidence            5999999999999987554443

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=94.14  E-value=0.46  Score=43.89  Aligned_cols=25  Identities=28%  Similarity=0.436  Sum_probs=22.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      +.+.|+.|+||||++..++..+...
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            8888999999999999999988643

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=94.13  E-value=0.028  Score=47.91  Aligned_cols=42  Identities=10%  Similarity=0.155  Sum_probs=28.3

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccC--CccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETK--STRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~--~~~~Il~~~~~~  178 (355)
                      +.+++++||-- .|.+.....+.+.+.+...  ...+|+++++..
T Consensus       144 ~p~lllLDEPts~LD~~~~~~~~~~l~~l~~~~g~tvi~vtHd~~  188 (240)
T 2onk_A          144 QPRLLLLDEPLSAVDLKTKGVLMEELRFVQREFDVPILHVTHDLI  188 (240)
T ss_dssp             CCSSBEEESTTSSCCHHHHHHHHHHHHHHHHHHTCCEEEEESCHH
T ss_pred             CCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            44699999974 5667777777777765421  455677777654

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.13  E-value=0.026  Score=47.95  Aligned_cols=23  Identities=13%  Similarity=0.086  Sum_probs=21.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.|++|+||||+++.+++.+.
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            89999999999999999999974

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.11  E-value=0.032  Score=49.31  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=21.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||.|+||||+++.++..+.
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            88999999999999999999874

>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex, hydrolase/DNA complex complex; 3.00A {Sulfolobus solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A

Probab=94.08  E-value=0.16  Score=48.03  Aligned_cols=40  Identities=20%  Similarity=0.009  Sum_probs=27.6

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      |.+.+..+......+  .+.++.-+.|+|||..+-+++..+.
T Consensus        42 Q~~~v~~l~~~~~~~--~~~ilad~~GlGKT~~ai~~i~~~~   81 (500)
T 1z63_A           42 QIKGFSWMRFMNKLG--FGICLADDMGLGKTLQTIAVFSDAK   81 (500)
T ss_dssp             HHHHHHHHHHHHHTT--CCEEECCCTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCC--CCEEEEeCCCCcHHHHHHHHHHHHH
Confidence            444444444433433  2588999999999999888877764

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.07  E-value=0.036  Score=46.76  Aligned_cols=23  Identities=22%  Similarity=0.407  Sum_probs=21.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +-|.|+||+||||.++.+++.+.
T Consensus        11 ~~~~G~pGsGKsT~a~~L~~~~g   33 (230)
T 3gmt_A           11 LILLGAPGAGKGTQANFIKEKFG   33 (230)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             eeeECCCCCCHHHHHHHHHHHhC
Confidence            88999999999999999999884

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=94.06  E-value=0.033  Score=46.00  Aligned_cols=28  Identities=11%  Similarity=0.008  Sum_probs=24.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      -+.|.|+.|+|||++++.+++.++...+
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            3899999999999999999999954433

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=94.04  E-value=0.022  Score=46.72  Aligned_cols=22  Identities=14%  Similarity=0.205  Sum_probs=4.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .++|.|++|+|||+++..+...
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            3999999999999999998876

>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=94.04  E-value=0.29  Score=46.96  Aligned_cols=18  Identities=28%  Similarity=0.403  Sum_probs=14.9

Q ss_pred             CeEEEECCCCCCHHHHHH
Q psy17903         67 PHFLFYGPPGTGKTSTMI   84 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~   84 (355)
                      .++++.+|+|+|||..+.
T Consensus       112 ~~~lv~apTGsGKTl~~~  129 (563)
T 3i5x_A          112 HDVIARAKTGTGKTFAFL  129 (563)
T ss_dssp             EEEEEECCTTSCHHHHHH
T ss_pred             CeEEEECCCCCCccHHHH
Confidence            359999999999998643

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=94.02  E-value=0.023  Score=47.94  Aligned_cols=22  Identities=18%  Similarity=0.241  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||.|+||||+++.++..+
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            7899999999999999998765

>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=93.99  E-value=0.063  Score=57.22  Aligned_cols=24  Identities=17%  Similarity=0.229  Sum_probs=21.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+.|.||.|+||||+++.+.+.+.
T Consensus       446 ~vaivG~sGsGKSTll~ll~~~~~  469 (1321)
T 4f4c_A          446 TVALVGSSGCGKSTIISLLLRYYD  469 (1321)
T ss_dssp             EEEEEECSSSCHHHHHHHHTTSSC
T ss_pred             EEEEEecCCCcHHHHHHHhccccc
Confidence            389999999999999999988763

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=93.99  E-value=0.068  Score=45.79  Aligned_cols=35  Identities=29%  Similarity=0.423  Sum_probs=26.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  104 (355)
                      +++.|.+|+||||++..++..+. ...+..++..+.
T Consensus        17 ~~~~GkgGvGKTTl~~~La~~l~-~g~~v~vvd~D~   51 (262)
T 1yrb_A           17 VVFVGTAGSGKTTLTGEFGRYLE-DNYKVAYVNLDT   51 (262)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT-TTSCEEEEECCS
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHH-CCCeEEEEeCCC
Confidence            89999999999999999999886 444334444443

>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=93.97  E-value=0.026  Score=47.98  Aligned_cols=43  Identities=12%  Similarity=0.092  Sum_probs=29.1

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhh---hccCCccEEEEecCCcc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTME---KETKSTRFCLICNYVSC  179 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le---~~~~~~~~Il~~~~~~~  179 (355)
                      +.+++++||.- .|.+.....+.+.+.   +......+|+++.+...
T Consensus       145 ~p~lllLDEPts~LD~~~~~~i~~~l~~~~~~~~~~tviivtH~~~~  191 (237)
T 2cbz_A          145 NADIYLFDDPLSAVDAHVGKHIFENVIGPKGMLKNKTRILVTHSMSY  191 (237)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHTTSTTSTTTTSEEEEECSCSTT
T ss_pred             CCCEEEEeCcccccCHHHHHHHHHHHHHHHhhcCCCEEEEEecChHH
Confidence            34699999975 566777788888773   22234567777877653

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=93.97  E-value=0.038  Score=43.27  Aligned_cols=24  Identities=33%  Similarity=0.393  Sum_probs=21.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .+|+||.|+|||+++.++.-.+.+
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            799999999999999999987744

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=93.96  E-value=0.027  Score=47.12  Aligned_cols=22  Identities=36%  Similarity=0.551  Sum_probs=20.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||.|+||||+++.++..+
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            7899999999999999998765

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=93.95  E-value=0.062  Score=54.10  Aligned_cols=38  Identities=34%  Similarity=0.489  Sum_probs=28.4

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++.+...+...+.   .+.++|.||||||||+++..+...+
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            4666667766654   2358999999999999987776654

>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=93.93  E-value=0.39  Score=49.00  Aligned_cols=20  Identities=20%  Similarity=0.300  Sum_probs=18.3

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~   88 (355)
                      ++|+||.|+||||+++.++-
T Consensus       665 ~~ItGpNGsGKSTlLr~ial  684 (934)
T 3thx_A          665 HIITGPNMGGKSTYIRQTGV  684 (934)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999999843

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=93.92  E-value=0.028  Score=45.40  Aligned_cols=21  Identities=24%  Similarity=0.491  Sum_probs=19.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~   88 (355)
                      .++|.|++|+|||++++.++.
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            389999999999999999986

>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=93.91  E-value=0.031  Score=45.21  Aligned_cols=21  Identities=24%  Similarity=0.256  Sum_probs=19.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++++|++|+|||++|..++..
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

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=93.91  E-value=0.035  Score=46.44  Aligned_cols=25  Identities=28%  Similarity=0.215  Sum_probs=22.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .+.|.|++|+||||.++.+++.+..
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

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=93.86  E-value=0.036  Score=43.82  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=19.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+.|.|++|+|||+++.+++..
T Consensus         5 ~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            5 EIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3899999999999999999863

>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=93.82  E-value=0.036  Score=48.82  Aligned_cols=23  Identities=26%  Similarity=0.554  Sum_probs=21.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.|++|+||||++..++..+.
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            89999999999999999998875

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=93.79  E-value=0.037  Score=48.08  Aligned_cols=23  Identities=17%  Similarity=0.336  Sum_probs=21.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||+|+||||+++.++....
T Consensus         5 v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            5 IMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            78999999999999999998763

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.71  E-value=0.03  Score=48.36  Aligned_cols=22  Identities=18%  Similarity=0.291  Sum_probs=20.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||.|+||||+++.++..+
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            8899999999999999998765

>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=93.71  E-value=0.039  Score=43.71  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=19.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+++.|++|+|||+++.++...
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            3999999999999999998754

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=93.70  E-value=0.038  Score=47.40  Aligned_cols=42  Identities=19%  Similarity=0.222  Sum_probs=29.0

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhcc-CCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKET-KSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~-~~~~~Il~~~~~~  178 (355)
                      +.+++++||.- .|.+.....+.+.+.+.. ....+|+++++..
T Consensus       161 ~p~lllLDEPts~LD~~~~~~l~~~l~~l~~~g~tvi~vtHd~~  204 (250)
T 2d2e_A          161 EPTYAVLDETDSGLDIDALKVVARGVNAMRGPNFGALVITHYQR  204 (250)
T ss_dssp             CCSEEEEECGGGTTCHHHHHHHHHHHHHHCSTTCEEEEECSSSG
T ss_pred             CCCEEEEeCCCcCCCHHHHHHHHHHHHHHHhcCCEEEEEecCHH
Confidence            34699999974 566777777777776543 3456777787654

>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=93.69  E-value=0.43  Score=48.62  Aligned_cols=21  Identities=24%  Similarity=0.332  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.||.|+||||+.+.++.-
T Consensus       676 ~~ItGPNGaGKSTlLr~i~~i  696 (918)
T 3thx_B          676 MIITGPNMGGKSSYIKQVALI  696 (918)
T ss_dssp             EEEESCCCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCchHHHHHHHHHH
Confidence            899999999999999988643

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=93.68  E-value=0.052  Score=52.44  Aligned_cols=23  Identities=22%  Similarity=0.161  Sum_probs=21.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.|++|+||||+++.+++.+.
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            89999999999999999999985

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=93.66  E-value=0.056  Score=42.98  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=20.4

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ..+++.|++|+|||+++.++...
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            45999999999999999999764

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=93.66  E-value=0.032  Score=48.62  Aligned_cols=44  Identities=11%  Similarity=0.209  Sum_probs=30.0

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhcc--CCccEEEEecCCccc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKET--KSTRFCLICNYVSCI  180 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~--~~~~~Il~~~~~~~l  180 (355)
                      +.+++++||-- .|.+.....+.+.+.+..  ....+|+++.+...+
T Consensus       161 ~P~lLlLDEPts~LD~~~~~~i~~~l~~l~~~~g~tvi~vtHdl~~~  207 (275)
T 3gfo_A          161 EPKVLILDEPTAGLDPMGVSEIMKLLVEMQKELGITIIIATHDIDIV  207 (275)
T ss_dssp             CCSEEEEECTTTTCCHHHHHHHHHHHHHHHHHHCCEEEEEESCCSSG
T ss_pred             CCCEEEEECccccCCHHHHHHHHHHHHHHHhhCCCEEEEEecCHHHH
Confidence            44699999964 567777777777776543  245677788776543

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=93.66  E-value=0.034  Score=50.31  Aligned_cols=22  Identities=23%  Similarity=0.359  Sum_probs=20.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||.|+||||+++.++...
T Consensus        33 ~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           33 LFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCchHHHHHHHHhcCC
Confidence            8899999999999999999865

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=93.63  E-value=0.044  Score=43.18  Aligned_cols=22  Identities=27%  Similarity=0.481  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++..+...-
T Consensus         9 i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            9 VVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEECcCCCCHHHHHHHHHcCC
Confidence            9999999999999999998653

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=93.63  E-value=0.039  Score=47.85  Aligned_cols=42  Identities=19%  Similarity=0.316  Sum_probs=29.8

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhcc-CCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKET-KSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~-~~~~~Il~~~~~~  178 (355)
                      +.+++++||-- .|.+.....+.+++.+.. ....+|+++.+..
T Consensus       182 ~p~lLlLDEPts~LD~~~~~~l~~~l~~l~~~g~tviivtHd~~  225 (267)
T 2zu0_C          182 EPELCILDESDSGLDIDALKVVADGVNSLRDGKRSFIIVTHYQR  225 (267)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHTTCCSSCEEEEECSSGG
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEeeCHH
Confidence            44699999975 567777888888877643 2456777777654

>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A

Probab=93.61  E-value=0.087  Score=52.31  Aligned_cols=19  Identities=26%  Similarity=0.291  Sum_probs=16.4

Q ss_pred             CeEEEECCCCCCHHHHHHH
Q psy17903         67 PHFLFYGPPGTGKTSTMIA   85 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~   85 (355)
                      .++++.||+|+|||+.+..
T Consensus        41 ~~~lv~apTGsGKT~~~~l   59 (702)
T 2p6r_A           41 KNLLLAMPTAAGKTLLAEM   59 (702)
T ss_dssp             SCEEEECSSHHHHHHHHHH
T ss_pred             CcEEEEcCCccHHHHHHHH
Confidence            3699999999999999843

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=93.60  E-value=0.033  Score=47.97  Aligned_cols=43  Identities=14%  Similarity=0.187  Sum_probs=29.2

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhcc-CCccEEEEecCCcc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKET-KSTRFCLICNYVSC  179 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~-~~~~~Il~~~~~~~  179 (355)
                      +.+++++||-- .|.+.....+.+.+.+.. ....+|+++++...
T Consensus       171 ~p~lllLDEPts~LD~~~~~~l~~~l~~l~~~g~tvi~vtHd~~~  215 (257)
T 1g6h_A          171 NPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDI  215 (257)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCCST
T ss_pred             CCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEEecCHHH
Confidence            44699999974 566777777777776542 24567777877654

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=93.59  E-value=0.034  Score=47.63  Aligned_cols=42  Identities=29%  Similarity=0.388  Sum_probs=28.4

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~  178 (355)
                      +.+++++||.- .|.+.....+.+.+.+......+|+++.+..
T Consensus       163 ~p~lllLDEPts~LD~~~~~~i~~~l~~~~~g~tviivtH~~~  205 (247)
T 2ff7_A          163 NPKILIFDEATSALDYESEHVIMRNMHKICKGRTVIIIAHRLS  205 (247)
T ss_dssp             CCSEEEECCCCSCCCHHHHHHHHHHHHHHHTTSEEEEECSSGG
T ss_pred             CCCEEEEeCCcccCCHHHHHHHHHHHHHHcCCCEEEEEeCCHH
Confidence            44699999975 5566667777777665433556777777654

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=93.58  E-value=0.034  Score=47.50  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=20.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||.|+||||+++.++..+
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            8999999999999999998765

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=93.58  E-value=0.034  Score=47.37  Aligned_cols=42  Identities=14%  Similarity=0.215  Sum_probs=27.8

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhcc-CCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKET-KSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~-~~~~~Il~~~~~~  178 (355)
                      +.+++++||-- .|.+.....+.+.+.+.. ....+|+++++..
T Consensus       157 ~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~g~tvi~vtHd~~  200 (240)
T 1ji0_A          157 RPKLLMMDEPSLGLAPILVSEVFEVIQKINQEGTTILLVEQNAL  200 (240)
T ss_dssp             CCSEEEEECTTTTCCHHHHHHHHHHHHHHHHTTCCEEEEESCHH
T ss_pred             CCCEEEEcCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEecCHH
Confidence            44699999974 566677777777766542 3455667777653

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=93.57  E-value=0.043  Score=52.70  Aligned_cols=23  Identities=30%  Similarity=0.515  Sum_probs=22.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.|++|+||||+++.++..+.
T Consensus       372 I~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          372 VFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHH
T ss_pred             EEEECCCCChHHHHHHHHHHhhc
Confidence            89999999999999999999985

>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=93.56  E-value=0.046  Score=43.57  Aligned_cols=23  Identities=30%  Similarity=0.434  Sum_probs=20.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+++.|++|+|||+++..+...-
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            39999999999999999998754

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=93.53  E-value=0.035  Score=46.93  Aligned_cols=42  Identities=10%  Similarity=0.078  Sum_probs=28.4

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHH-hhhccCCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRT-MEKETKSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~-le~~~~~~~~Il~~~~~~  178 (355)
                      +.+++++||.- .|.+.....+.+. +.+......+|+++++..
T Consensus       148 ~p~lllLDEPts~LD~~~~~~i~~~l~~~~~~~~tvi~vtH~~~  191 (229)
T 2pze_A          148 DADLYLLDSPFGYLDVLTEKEIFESCVCKLMANKTRILVTSKME  191 (229)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHCCCCCTTTSEEEEECCCHH
T ss_pred             CCCEEEEECcccCCCHHHHHHHHHHHHHHhhCCCEEEEEcCChH
Confidence            45699999974 5667777788775 444333456777777654

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=93.52  E-value=0.043  Score=43.18  Aligned_cols=22  Identities=23%  Similarity=0.519  Sum_probs=19.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+++.|++|+|||+++..+...
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

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=93.51  E-value=0.035  Score=48.01  Aligned_cols=22  Identities=23%  Similarity=0.398  Sum_probs=20.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||.|+||||+++.++..+
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            8899999999999999998765

>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=93.50  E-value=0.016  Score=50.04  Aligned_cols=24  Identities=13%  Similarity=0.014  Sum_probs=21.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.|++|+||||+++.+++.+.
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            389999999999999999998873

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=93.50  E-value=0.047  Score=49.40  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=21.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||.|+||||+++.++..+.
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            89999999999999999999874

>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=93.48  E-value=0.36  Score=45.98  Aligned_cols=36  Identities=25%  Similarity=0.481  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         52 EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        52 ~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+...+..++.+   .++++.+|+|+|||..+...+...
T Consensus        11 ~Q~~~i~~~~~~---~~~l~~~~tGsGKT~~~~~~~~~~   46 (556)
T 4a2p_A           11 YQIELAQPAING---KNALICAPTGSGKTFVSILICEHH   46 (556)
T ss_dssp             HHHHHHHHHHTT---CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcC---CCEEEEcCCCChHHHHHHHHHHHH
Confidence            344444444443   358999999999998876655443

>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=93.46  E-value=0.038  Score=50.19  Aligned_cols=23  Identities=13%  Similarity=0.141  Sum_probs=21.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||+|+||||+++.++..+.
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            89999999999999999999864

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=93.45  E-value=0.056  Score=48.15  Aligned_cols=24  Identities=29%  Similarity=0.512  Sum_probs=22.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +.|.|++|+||||++..++..+..
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            889999999999999999998754

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.43  E-value=0.043  Score=49.58  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=20.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||.|+||||+++.++..+
T Consensus        44 ~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           44 VGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            8899999999999999999765

>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=93.40  E-value=0.048  Score=42.93  Aligned_cols=21  Identities=19%  Similarity=0.298  Sum_probs=18.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~   88 (355)
                      .+++.|++|+|||+++..+..
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

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*

Probab=93.40  E-value=0.08  Score=52.75  Aligned_cols=24  Identities=33%  Similarity=0.438  Sum_probs=18.4

Q ss_pred             CeEEEECCCCCCHHHHH-HHHHHHh
Q psy17903         67 PHFLFYGPPGTGKTSTM-IAACHQL   90 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la-~~l~~~l   90 (355)
                      .++++.||+|+|||..+ ..+.+.+
T Consensus        40 ~~~lv~apTGsGKT~~~~l~il~~~   64 (720)
T 2zj8_A           40 KNALISIPTASGKTLIAEIAMVHRI   64 (720)
T ss_dssp             CEEEEECCGGGCHHHHHHHHHHHHH
T ss_pred             CcEEEEcCCccHHHHHHHHHHHHHH
Confidence            46999999999999988 3444443

>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA dependent ATPase, RNA helicase; HET: ANP; 1.91A {Saccharomyces cerevisiae S288C}

Probab=93.39  E-value=0.44  Score=45.98  Aligned_cols=32  Identities=25%  Similarity=0.278  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHH
Q psy17903         52 EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMI   84 (355)
Q Consensus        52 ~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~   84 (355)
                      .+.+.+..++.. ....+++.+|+|+|||..+.
T Consensus        47 ~Q~~~i~~il~~-~~~dvlv~apTGsGKTl~~~   78 (579)
T 3sqw_A           47 VQQKTIKPILSS-EDHDVIARAKTGTGKTFAFL   78 (579)
T ss_dssp             HHHHHHHHHHCS-SSEEEEEECCTTSCHHHHHH
T ss_pred             HHHHHHHHHHcc-CCCeEEEEcCCCcHHHHHHH
Confidence            344444444432 22359999999999998643

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=93.38  E-value=0.038  Score=48.04  Aligned_cols=42  Identities=24%  Similarity=0.347  Sum_probs=29.4

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccC--CccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETK--STRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~--~~~~Il~~~~~~  178 (355)
                      +.+++++||.- .|.......+.+.+.+...  ...+|+++.+..
T Consensus       174 ~p~lllLDEPts~LD~~~~~~i~~~l~~~~~~~g~tviivtHd~~  218 (271)
T 2ixe_A          174 KPRLLILDNATSALDAGNQLRVQRLLYESPEWASRTVLLITQQLS  218 (271)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHCTTTTTSEEEEECSCHH
T ss_pred             CCCEEEEECCccCCCHHHHHHHHHHHHHHHhhcCCEEEEEeCCHH
Confidence            44699999974 5667777788888776532  456777777654

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=93.38  E-value=0.038  Score=47.36  Aligned_cols=22  Identities=23%  Similarity=0.463  Sum_probs=20.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||.|+||||+++.++..+
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            8899999999999999998765

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=93.36  E-value=0.038  Score=47.55  Aligned_cols=42  Identities=12%  Similarity=0.248  Sum_probs=28.1

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhcc-CCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKET-KSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~-~~~~~Il~~~~~~  178 (355)
                      +.+++++||-- .|.+.....+.+++.+.. ....+|+++.+..
T Consensus       164 ~p~lllLDEPts~LD~~~~~~l~~~l~~l~~~g~tiiivtHd~~  207 (256)
T 1vpl_A          164 NPRLAILDEPTSGLDVLNAREVRKILKQASQEGLTILVSSHNML  207 (256)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEEECCHH
T ss_pred             CCCEEEEeCCccccCHHHHHHHHHHHHHHHhCCCEEEEEcCCHH
Confidence            44699999975 666777777777766542 2455677777653

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=93.36  E-value=0.038  Score=47.66  Aligned_cols=43  Identities=28%  Similarity=0.392  Sum_probs=29.2

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCcc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVSC  179 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~  179 (355)
                      +.+++++||.- .|.+.....+.+.+.+......+|+++++...
T Consensus       173 ~p~lllLDEPts~LD~~~~~~i~~~l~~l~~~~tviivtH~~~~  216 (260)
T 2ghi_A          173 DPKIVIFDEATSSLDSKTEYLFQKAVEDLRKNRTLIIIAHRLST  216 (260)
T ss_dssp             CCSEEEEECCCCTTCHHHHHHHHHHHHHHTTTSEEEEECSSGGG
T ss_pred             CCCEEEEECccccCCHHHHHHHHHHHHHhcCCCEEEEEcCCHHH
Confidence            34699999974 56666677777777654444567777877553

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=93.36  E-value=0.038  Score=47.88  Aligned_cols=42  Identities=17%  Similarity=0.241  Sum_probs=28.1

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhcc--CCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKET--KSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~--~~~~~Il~~~~~~  178 (355)
                      +.+++++||-- .|.+..+..+.+.+.+..  ....+|+++++..
T Consensus       165 ~p~lLllDEPts~LD~~~~~~i~~~l~~l~~~~~~tvi~vtHdl~  209 (266)
T 4g1u_C          165 TPRWLFLDEPTSALDLYHQQHTLRLLRQLTRQEPLAVCCVLHDLN  209 (266)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHHHHSSEEEEEECSCHH
T ss_pred             CCCEEEEeCccccCCHHHHHHHHHHHHHHHHcCCCEEEEEEcCHH
Confidence            56799999974 566677777777776542  2345677777654

>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=93.34  E-value=0.69  Score=40.58  Aligned_cols=21  Identities=19%  Similarity=0.294  Sum_probs=19.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +.|.|.||+||||++.++...
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            899999999999999999865

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=93.33  E-value=0.045  Score=49.53  Aligned_cols=22  Identities=32%  Similarity=0.588  Sum_probs=20.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||.|+||||+++.++...
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           32 VALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEcCCCchHHHHHHHHHCCC
Confidence            7899999999999999999765

>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation, exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB: 4a4k_A

Probab=93.32  E-value=0.12  Score=53.36  Aligned_cols=34  Identities=12%  Similarity=-0.039  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHH
Q psy17903         52 EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        52 ~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~   88 (355)
                      .+.+.+..++. +  .++++.||+|+|||..+.....
T Consensus        43 ~Q~~aI~~il~-g--~~vlv~apTGsGKTlv~~~~i~   76 (997)
T 4a4z_A           43 FQKEAVYHLEQ-G--DSVFVAAHTSAGKTVVAEYAIA   76 (997)
T ss_dssp             HHHHHHHHHHT-T--CEEEEECCTTSCSHHHHHHHHH
T ss_pred             HHHHHHHHHHc-C--CCEEEEECCCCcHHHHHHHHHH
Confidence            33444444443 3  3699999999999986544433

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=93.31  E-value=0.053  Score=43.92  Aligned_cols=24  Identities=25%  Similarity=0.426  Sum_probs=20.9

Q ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Q psy17903         66 LPHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        66 ~~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ...+++.|++|+|||+++..+...
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

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=93.29  E-value=0.051  Score=42.79  Aligned_cols=22  Identities=23%  Similarity=0.454  Sum_probs=19.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+++.|++|+|||+++..+...
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

>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=93.29  E-value=0.055  Score=42.64  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=19.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+++.|++|+|||+++..+...
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

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=93.29  E-value=0.039  Score=48.13  Aligned_cols=22  Identities=27%  Similarity=0.458  Sum_probs=20.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||.|+||||+++.++..+
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            8899999999999999998765

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.29  E-value=0.046  Score=49.54  Aligned_cols=22  Identities=23%  Similarity=0.542  Sum_probs=20.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||.|+||||+++.++..+
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           32 MALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCchHHHHHHHHhcCC
Confidence            7899999999999999999765

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.28  E-value=0.051  Score=43.75  Aligned_cols=21  Identities=24%  Similarity=0.426  Sum_probs=19.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.|++|+|||+++..++..
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            999999999999999999864

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=93.26  E-value=0.06  Score=44.62  Aligned_cols=23  Identities=39%  Similarity=0.732  Sum_probs=21.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.|+.|+||||.++.+++.+.
T Consensus         5 I~~EG~dGsGKsTq~~~L~~~L~   27 (205)
T 4hlc_A            5 ITFEGPEGSGKTTVINEVYHRLV   27 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHH
Confidence            78999999999999999999985

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=93.22  E-value=0.053  Score=52.69  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=21.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.|.+|+||||+++.+++.+.
T Consensus        55 IvLtGlsGSGKSTlAr~La~~L~   77 (630)
T 1x6v_B           55 VWLTGLSGAGKTTVSMALEEYLV   77 (630)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHH
Confidence            99999999999999999999983

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=93.20  E-value=0.41  Score=45.48  Aligned_cols=35  Identities=20%  Similarity=0.378  Sum_probs=23.4

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         53 VVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        53 ~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +...+..++.+   .++++.+|+|+|||..+...+...
T Consensus         9 Q~~~i~~~~~~---~~~l~~~~tGsGKT~~~~~~~~~~   43 (555)
T 3tbk_A            9 QLELALPAKKG---KNTIICAPTGCGKTFVSLLICEHH   43 (555)
T ss_dssp             HHHHHHHHHTT---CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCC---CCEEEEeCCCChHHHHHHHHHHHH
Confidence            33444444433   359999999999998876655443

>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=93.19  E-value=0.057  Score=43.73  Aligned_cols=23  Identities=22%  Similarity=0.362  Sum_probs=20.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.|++|+|||+++..+...-
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

>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=93.16  E-value=0.053  Score=43.08  Aligned_cols=21  Identities=29%  Similarity=0.431  Sum_probs=19.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++..+...
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            999999999999999999864

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=93.15  E-value=0.043  Score=47.52  Aligned_cols=43  Identities=26%  Similarity=0.291  Sum_probs=29.4

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhcc-CCccEEEEecCCcc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKET-KSTRFCLICNYVSC  179 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~-~~~~~Il~~~~~~~  179 (355)
                      +.+++++||-- .|.+.....+.+.+.+.. ....+|+++++...
T Consensus       156 ~p~lllLDEPts~LD~~~~~~l~~~l~~l~~~g~tii~vtHd~~~  200 (266)
T 2yz2_A          156 EPDILILDEPLVGLDREGKTDLLRIVEKWKTLGKTVILISHDIET  200 (266)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCCTT
T ss_pred             CCCEEEEcCccccCCHHHHHHHHHHHHHHHHcCCEEEEEeCCHHH
Confidence            44699999975 566777777777776542 24567777876553

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=93.15  E-value=0.05  Score=49.55  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=20.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||.|+||||+++.++..+
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           32 MILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCcHHHHHHHHHHcCC
Confidence            8899999999999999999765

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=93.13  E-value=0.057  Score=50.81  Aligned_cols=23  Identities=35%  Similarity=0.444  Sum_probs=21.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.|+.|+||||+++.++..+.
T Consensus       296 I~LVGpNGSGKTTLl~~LAgll~  318 (503)
T 2yhs_A          296 ILMVGVNGVGKTTTIGKLARQFE  318 (503)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCcccHHHHHHHHHHHhh
Confidence            88999999999999999998874

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=93.12  E-value=0.037  Score=51.17  Aligned_cols=37  Identities=22%  Similarity=0.220  Sum_probs=28.5

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         54 VSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        54 ~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++.+.-.+..|..+++.|.||+|+|||||++.++...
T Consensus        30 L~~vsl~i~~Gei~~vaLvG~nGaGKSTLln~L~G~~   66 (427)
T 2qag_B           30 DQLVNKSVSQGFCFNILCVGETGLGKSTLMDTLFNTK   66 (427)
T ss_dssp             HHHHHHSCC-CCEEEEEEECSTTSSSHHHHHHHHTSC
T ss_pred             cCCCceEecCCCeeEEEEECCCCCCHHHHHHHHhCcc
Confidence            5555555667765558999999999999999998753

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=93.09  E-value=0.051  Score=43.19  Aligned_cols=21  Identities=24%  Similarity=0.363  Sum_probs=19.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++..+...
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            999999999999999999864

>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=93.09  E-value=0.054  Score=43.10  Aligned_cols=22  Identities=23%  Similarity=0.381  Sum_probs=20.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++.++...-
T Consensus        12 i~v~G~~~~GKssli~~l~~~~   33 (181)
T 2fn4_A           12 LVVVGGGGVGKSALTIQFIQSY   33 (181)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            9999999999999999998763

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=93.09  E-value=0.044  Score=47.10  Aligned_cols=42  Identities=14%  Similarity=0.213  Sum_probs=28.9

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccC--CccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETK--STRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~--~~~~Il~~~~~~  178 (355)
                      +.+++++||.- .|.+.....+.+.+.+...  ...+|+++++..
T Consensus       146 ~p~lllLDEPts~LD~~~~~~l~~~l~~l~~~~g~tvi~vtHd~~  190 (253)
T 2nq2_C          146 ECKLILLDEPTSALDLANQDIVLSLLIDLAQSQNMTVVFTTHQPN  190 (253)
T ss_dssp             TCSEEEESSSSTTSCHHHHHHHHHHHHHHHHTSCCEEEEEESCHH
T ss_pred             CCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEecCHH
Confidence            44699999975 5677777777777765432  455677787654

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=93.08  E-value=0.068  Score=43.98  Aligned_cols=26  Identities=23%  Similarity=0.278  Sum_probs=22.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDM   94 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~   94 (355)
                      +.|.|+.|+||||.++.+++.+....
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~g   28 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKRG   28 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC
Confidence            57899999999999999999986543

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=93.05  E-value=0.072  Score=47.83  Aligned_cols=23  Identities=35%  Similarity=0.393  Sum_probs=21.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.|++|+||||+++.++..+.
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            89999999999999999998764

>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=93.04  E-value=0.061  Score=43.43  Aligned_cols=22  Identities=14%  Similarity=0.070  Sum_probs=20.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|++|+|||+++..+...-
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

>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=93.04  E-value=0.22  Score=43.73  Aligned_cols=24  Identities=29%  Similarity=0.268  Sum_probs=21.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +.+.|++|+||||++..++..+..
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            888999999999999999988753

>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=93.02  E-value=0.38  Score=32.02  Aligned_cols=58  Identities=14%  Similarity=0.076  Sum_probs=48.0

Q ss_pred             HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhC
Q psy17903        204 RLQYICEQESV-MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG  261 (355)
Q Consensus       204 ~l~~~~~~~~~-~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~  261 (355)
                      .++.+++..|+ .+++++...|++...--++++.+..-+....++...++.+||..++.
T Consensus        11 ~v~~iaes~Gi~~lsddaa~~LA~dvEyr~~eI~qeA~kfmrHakRk~Lt~~DI~~Alk   69 (70)
T 1taf_B           11 SMKVIAESIGVGSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             HHHHHHHHTTCCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             HHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHc
Confidence            45666777888 79999999999988878888888887777777888999999998764

>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=92.99  E-value=0.057  Score=43.31  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++..+...-
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            9999999999999999998654

>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=92.98  E-value=0.3  Score=45.64  Aligned_cols=20  Identities=25%  Similarity=0.326  Sum_probs=15.3

Q ss_pred             eEEEECCCCCCHHHH-HHHHH
Q psy17903         68 HFLFYGPPGTGKTST-MIAAC   87 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~l-a~~l~   87 (355)
                      .+++.||+|+|||.. +..+.
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            369999999999983 44443

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.95  E-value=0.053  Score=43.38  Aligned_cols=21  Identities=29%  Similarity=0.419  Sum_probs=18.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~   88 (355)
                      .+++.|++|+|||+++..+..
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            499999999999999988763

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=92.93  E-value=0.048  Score=47.10  Aligned_cols=41  Identities=22%  Similarity=0.187  Sum_probs=30.0

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCcc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVSC  179 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~  179 (355)
                      +.+++++||-- .|.+.....+.+.+.+...  .+|+++++...
T Consensus       146 ~p~lllLDEPts~LD~~~~~~l~~~L~~~~~--tviivtHd~~~  187 (263)
T 2pjz_A          146 QPEIVGLDEPFENVDAARRHVISRYIKEYGK--EGILVTHELDM  187 (263)
T ss_dssp             CCSEEEEECTTTTCCHHHHHHHHHHHHHSCS--EEEEEESCGGG
T ss_pred             CCCEEEEECCccccCHHHHHHHHHHHHHhcC--cEEEEEcCHHH
Confidence            45699999974 5677788888888877655  56667776543

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=92.92  E-value=0.056  Score=43.10  Aligned_cols=21  Identities=29%  Similarity=0.461  Sum_probs=19.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.|++|+|||+++.+++..
T Consensus         7 i~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            7 VVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999999865

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=92.91  E-value=0.11  Score=47.60  Aligned_cols=38  Identities=16%  Similarity=0.294  Sum_probs=28.2

Q ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC
Q psy17903         66 LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (355)
Q Consensus        66 ~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  105 (355)
                      .+|+++.||+|+|||++++.++..+...  ...++.++..
T Consensus        35 ~~~~~i~G~~G~GKs~~~~~~~~~~~~~--~~~~~~~D~~   72 (392)
T 4ag6_A           35 NSNWTILAKPGAGKSFTAKMLLLREYMQ--GSRVIIIDPE   72 (392)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHHHTT--TCCEEEEESS
T ss_pred             cCceEEEcCCCCCHHHHHHHHHHHHHHC--CCEEEEEeCC
Confidence            4579999999999999999999877543  2234445543

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=92.90  E-value=0.066  Score=43.28  Aligned_cols=22  Identities=18%  Similarity=0.338  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++..+...-
T Consensus        24 i~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           24 LAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCcHHHHHHHHHhCC
Confidence            9999999999999999998754

---

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	355
d1iqpa2	231	c.37.1.20 (A:2-232) Replication factor C {Archaeon	4e-50
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	1e-49
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	5e-49
d1sxjb2	224	c.37.1.20 (B:7-230) Replication factor C4 {Baker's	5e-48
d1sxjc2	227	c.37.1.20 (C:12-238) Replication factor C3 {Baker'	9e-46
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	6e-33
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	6e-32
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	3e-28
d2gnoa2	198	c.37.1.20 (A:11-208) gamma subunit of DNA polymera	6e-27
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	1e-26
d1sxjd1	91	a.80.1.1 (D:263-353) Replication factor C2 {Baker'	3e-18
d1a5ta2	207	c.37.1.20 (A:1-207) delta prime subunit of DNA pol	8e-17
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	2e-16
d1sxjc1	95	a.80.1.1 (C:239-333) Replication factor C3 {Baker'	7e-15
d1sxjb1	92	a.80.1.1 (B:231-322) Replication factor C4 {Baker'	1e-13
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	3e-13
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	2e-11
d1iqpa1	95	a.80.1.1 (A:233-327) Replication factor C {Archaeo	2e-11
d1g8pa_	333	c.37.1.20 (A:) ATPase subunit of magnesium chelata	2e-05
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	1e-04
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	7e-04
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 (418), Expect = 4e-50
 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

>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 =  164 bits (415), Expect = 1e-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

>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 (412), Expect = 5e-49
 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

>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 =  159 bits (403), Expect = 5e-48
 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

>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 (388), Expect = 9e-46
 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

>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 (302), Expect = 6e-33
 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

>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 =  118 bits (295), Expect = 6e-32
 Identities = 52/254 (20%), Positives = 102/254 (40%), Gaps = 31/254 (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 IVNEDVLEVTGVIP 264
           I +E++ E++    
Sbjct: 237 INHENINEISKAWE 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 (270), Expect = 3e-28
 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 =  103 bits (258), Expect = 6e-27
 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 (258), Expect = 1e-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 = 76.4 bits (188), Expect = 3e-18
 Identities = 19/90 (21%), Positives = 46/90 (51%), Gaps = 3/90 (3%)

Query: 263 IPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALI 319
           +P+  + ++++      F  ++KY+   +   +SA  + +Q H+  ++  +     K  I
Sbjct: 1   VPHDILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQI 60

Query: 320 LEKLAECNARLQDGASEYIQILDLGSIVIK 349
              L   ++RL +G +E+IQ+L+L   + +
Sbjct: 61  SWLLFTTDSRLNNGTNEHIQLLNLLVKISQ 90

>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 = 75.9 bits (185), Expect = 8e-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 = 77.4 bits (190), Expect = 2e-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 = 67.5 bits (165), Expect = 7e-15
 Identities = 12/87 (13%), Positives = 33/87 (37%), Gaps = 4/87 (4%)

Query: 268 IEKLLKV---DSFQVLEKYIEDLILE-AYSATQLFDQFHDIVMSASSLSDKQKALILEKL 323
           ++ +LK    D +      +  +      +   L +    I+      +++ +  +L KL
Sbjct: 6   LKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLLTKL 65

Query: 324 AECNARLQDGASEYIQILDLGSIVIKA 350
           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 = 63.7 bits (155), Expect = 1e-13
 Identities = 12/86 (13%), Positives = 41/86 (47%), Gaps = 1/86 (1%)

Query: 268 IEKLLKVDSFQ-VLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAEC 326
           ++K+L   + +  ++    DL  + YS+  +      +  + + + +  +  +++++   
Sbjct: 6   VKKMLLASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLT 65

Query: 327 NARLQDGASEYIQILDLGSIVIKANK 352
           + 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 = 3e-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 = 2e-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 = 57.5 bits (139), Expect = 2e-11
 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 1/76 (1%)

Query: 268 IEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECN 327
           +   LK +  +  EK  E L+ +  S   +  Q H  V +   + + +K L+ +K+ E N
Sbjct: 11  MLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFN-LPIEEPKKVLLADKIGEYN 69

Query: 328 ARLQDGASEYIQILDL 343
            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 = 2e-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 = 41.4 bits (96), Expect = 1e-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 = 7e-04
 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 = 19/140 (13%), Positives = 36/140 (25%), Gaps = 9/140 (6%)

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 RRTMEKETKSTRFCLICNYV 177
           R T      +T         
Sbjct: 119 RTTDVPIQTATMLQAKGYET 138

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	355
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	100.0
d1sxjc2	227	Replication factor C3 {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	100.0
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.97
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.97
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.96
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.96
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.9
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.88
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.87
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.83
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.81
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.77
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.73
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.73
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.72
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	99.71
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.62
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.59
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.55
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.54
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.54
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.53
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.49
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.49
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.38
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.23
d1sxjd1	91	Replication factor C2 {Baker's yeast (Saccharomyce	99.12
d1sxjb1	92	Replication factor C4 {Baker's yeast (Saccharomyce	99.09
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.09
d1iqpa1	95	Replication factor C {Archaeon Pyrococcus furiosus	99.06
d1sxjc1	95	Replication factor C3 {Baker's yeast (Saccharomyce	99.01
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	98.99
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.98
d1sxje1	99	Replication factor C5 {Baker's yeast (Saccharomyce	98.53
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.48
d1tuea_	205	Replication protein E1 helicase domain {Human papi	98.34
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.26
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	98.06
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	98.06
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.94
d1jqlb_	140	delta subunit of DNA polymerase III, N-domain {Esc	97.89
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.84
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.81
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	97.78
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.76
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.75
d1jr3d1	127	delta subunit {Escherichia coli [TaxId: 562]}	97.72
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.71
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.67
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.67
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.62
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.57
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.56
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	97.54
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.54
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.52
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.51
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.5
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.45
d1jr3a1	126	gamma subunit {Escherichia coli [TaxId: 562]}	97.45
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.44
d1okkd2	207	GTPase domain of the signal recognition particle r	97.42
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.41
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.38
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.38
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.38
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.37
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.32
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.32
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.24
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.21
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	97.17
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.11
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.05
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.04
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.01
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.0
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.0
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.96
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.96
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.96
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.95
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	96.95
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.95
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.89
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.86
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.84
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.82
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.82
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.81
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.8
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.8
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	96.8
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.71
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.7
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.69
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.69
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.61
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.56
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.52
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.51
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.5
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.48
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.43
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	96.43
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.4
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	96.39
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.39
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.37
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	96.37
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.33
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	96.31
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.31
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	96.26
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.26
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	96.24
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.21
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.18
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	96.15
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	96.1
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.08
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	96.07
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	96.06
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	96.06
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	96.03
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	96.02
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	96.01
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	96.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	96.0
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	96.0
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	95.96
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	95.91
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.9
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.87
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	95.86
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.79
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.76
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	95.75
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.74
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.74
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.71
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.66
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.64
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.62
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.62
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.6
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.58
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	95.55
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	95.54
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	95.51
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.5
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.49
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.47
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.46
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.45
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	95.41
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	95.38
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	95.37
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	95.3
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.3
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	95.25
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.13
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	95.08
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	95.04
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	95.03
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.98
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	94.94
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.88
d1nrjb_	209	Signal recognition particle receptor beta-subunit	94.85
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.84
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.79
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.75
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.74
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	94.72
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.7
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.67
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	94.53
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.44
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.37
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.34
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	94.3
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.3
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.29
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.27
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.27
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.2
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	94.18
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.13
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.12
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.09
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.99
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.96
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	93.94
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.87
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.85
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.84
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.83
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	93.78
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.78
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	93.77
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	93.75
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.74
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.74
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	93.72
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	93.7
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	93.69
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.6
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	93.57
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.56
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	93.46
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	93.44
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	93.42
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	93.38
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	93.33
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.24
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	93.23
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	93.19
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.17
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	93.13
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	93.06
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	93.04
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	93.0
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	92.92
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.92
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	92.89
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	92.88
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	92.84
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	92.7
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.58
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	92.52
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	92.47
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	92.2
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.17
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	92.01
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	91.9
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.79
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	91.79
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	91.71
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	91.68
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	91.59
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	91.57
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	91.48
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	91.43
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	91.19
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	91.18
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	91.17
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	91.16
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	91.09
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.06
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	90.97
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	90.93
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	90.93
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	90.9
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	90.52
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.52
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	90.47
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	90.37
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	90.36
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	90.32
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	89.84
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	89.75
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	89.71
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	89.42
d1tafb_	70	TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta	89.3
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	88.72
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	88.57
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	88.23
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	87.88
d1xpua3	289	Transcription termination factor Rho, ATPase domai	87.87
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	87.58
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	87.43
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	87.38
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	87.16
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	87.15
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	86.38
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	86.36
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	84.56
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	83.88
d2huec1	82	Histone H4 {African clawed frog (Xenopus laevis) [	83.85
d1ry6a_	330	Kinesin {Malaria parasite (Plasmodium falciparum)	83.62
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	83.47
d1htaa_	68	Archaeal histone {Archaeon Methanothermus fervidus	83.19
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	82.99
d1z63a1	230	Helicase of the SNF2/Rad54 hamily {Sulfolobus solf	82.08
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	80.41
d1goja_	354	Kinesin {Neurospora crassa [TaxId: 5141]}	80.23
d1tafa_	68	TAF(II)42 {Fruit fly (Drosophila melanogaster) [Ta	80.01

>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=1.7e-40  Score=285.46  Aligned_cols=223  Identities=42%  Similarity=0.679  Sum_probs=202.7

Q ss_pred             CCCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccch
Q psy17903         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (355)
Q Consensus        31 ~~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  110 (355)
                      ++.||+|||||++|++++||+++++.|+.++++++.+|+||+||||+|||++|+.+++++.+.....+++++++++..+.
T Consensus         1 ~~~pw~eKyrP~~~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~   80 (224)
T d1sxjb2           1 LQLPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGI   80 (224)
T ss_dssp             CCCCHHHHTCCSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSH
T ss_pred             CCCchHhHhCCCCHHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCc
Confidence            46899999999999999999999999999999999999999999999999999999999988777778999999999998


Q ss_pred             HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeee
Q psy17903        111 QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSK  190 (355)
Q Consensus       111 ~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~  190 (355)
                      ..+...+..+........      ...++++|+||+|.++...++.|+..+++++.+++++++++...++.++++|||..
T Consensus        81 ~~i~~~~~~~~~~~~~~~------~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~  154 (224)
T d1sxjb2          81 DVVRNQIKHFAQKKLHLP------PGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAI  154 (224)
T ss_dssp             HHHHTHHHHHHHBCCCCC------TTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             eehhhHHHHHHHhhccCC------CcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHH
Confidence            888887777765432211      12567999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhC
Q psy17903        191 FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG  261 (355)
Q Consensus       191 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~  261 (355)
                      ++|++|+.+++..++..+++++++.+++++++.++..++||+|.+++.||.+...  .+.|+.++|.+++.
T Consensus       155 i~~~~~~~~~i~~~l~~i~~~e~~~i~~~~l~~I~~~s~Gd~R~ai~~Lq~~~~~--~~~i~~~~i~~~~d  223 (224)
T d1sxjb2         155 LRYSKLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVAG--HGLVNADNVFKIVD  223 (224)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HSSBCHHHHHHHHT
T ss_pred             hhhcccchhhhHHHHHHHHHhcccCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHc--CCCcCHHHHHHHhC
Confidence            9999999999999999999999999999999999999999999999999987764  36899998887764

>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=5.3e-40  Score=282.91  Aligned_cols=223  Identities=46%  Similarity=0.811  Sum_probs=199.8

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchH
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ  111 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~  111 (355)
                      +.||+|||||++|++++||+++++.|+.+++.+..||+|||||+|+|||++|+++++++.+..+...+.+.+.++..+.+
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            36899999999999999999999999999999999999999999999999999999999887776778899999888887


Q ss_pred             HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeeeE
Q psy17903        112 VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKF  191 (355)
Q Consensus       112 ~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i  191 (355)
                      .................       .+++++||||+|.+....++.|++.+++++.+++++++++...++.+++++||..+
T Consensus        81 ~~~~~~~~~~~~~~~~~-------~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i  153 (227)
T d1sxjc2          81 VVRNQIKDFASTRQIFS-------KGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRF  153 (227)
T ss_dssp             HHHTHHHHHHHBCCSSS-------CSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             eeecchhhccccccccC-------CCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhh
Confidence            76665555443322111       15679999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        192 RFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       192 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      .|.+++.+++..++.+++..+++.+++++++.+++.++||+|.+++.||.+....   +...||.++|.++++
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            9999999999999999999999999999999999999999999999999876554   346799999999876

>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=9.6e-39  Score=276.85  Aligned_cols=217  Identities=25%  Similarity=0.394  Sum_probs=192.0

Q ss_pred             cccccCCCCCCcccccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc------------------
Q psy17903         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY------------------   95 (355)
Q Consensus        35 ~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~------------------   95 (355)
                      +++||||++|++++||+++++.|..++++++.|| +|||||+|+|||++|+.+++.+.+...                  
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            5799999999999999999999999999999988 999999999999999999999875321                  


Q ss_pred             -ccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEe
Q psy17903         96 -RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLIC  174 (355)
Q Consensus        96 -~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~  174 (355)
                       ..++++++.++..+++.+++.++.+......         ++++++||||+|.|+.++++.|++.||+++.+++||++|
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             1246788888878888887665544222111         256899999999999999999999999999999999999


Q ss_pred             cCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHH
Q psy17903        175 NYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNE  254 (355)
Q Consensus       175 ~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~  254 (355)
                      |+..++.++++|||..+.|.+++.+++..++..++..++..+++++++.++..++||+|++++.|+.+... +.+.|+.+
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            99999999999999999999999999999999999999999999999999999999999999999886554 45689999


Q ss_pred             HHHHHhC
Q psy17903        255 DVLEVTG  261 (355)
Q Consensus       255 ~v~~~~~  261 (355)
                      +|.++++
T Consensus       232 ~v~~~lg  238 (239)
T d1njfa_         232 AVSAMLG  238 (239)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhC
Confidence            9999875

>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=4.2e-38  Score=271.68  Aligned_cols=220  Identities=49%  Similarity=0.838  Sum_probs=197.8

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchH
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ  111 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~  111 (355)
                      ..||++||+|++|++++|++++++.|..++++++.+|+||+||||+|||++|+++++++.++....+++++|+++..+.+
T Consensus        11 ~~~w~~ky~P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~~~   90 (231)
T d1iqpa2          11 EKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGIN   90 (231)
T ss_dssp             TSCHHHHTCCCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHH
T ss_pred             hchHHHHhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccchh
Confidence            47899999999999999999999999999999999999999999999999999999999887777889999999887777


Q ss_pred             HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeeeE
Q psy17903        112 VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKF  191 (355)
Q Consensus       112 ~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i  191 (355)
                      .++..............       ...+++++||+|.+..+.++.|+..++.+..++++|+++|...++.+++++||..+
T Consensus        91 ~~~~~~~~~~~~~~~~~-------~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i  163 (231)
T d1iqpa2          91 VIREKVKEFARTKPIGG-------ASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIF  163 (231)
T ss_dssp             TTHHHHHHHHHSCCGGG-------CSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEE
T ss_pred             HHHHHHHHHHhhhhccC-------CCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccc
Confidence            76666665543332211       14579999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHh
Q psy17903        192 RFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVT  260 (355)
Q Consensus       192 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~  260 (355)
                      .|.+++..++..+++.++.++++.+++++++.+++.++||+|.+++.|+.++..  .+.||.++|.++.
T Consensus       164 ~~~~~~~~~~~~~l~~~~~~e~i~i~~~~l~~I~~~~~gdiR~ai~~Lq~~~~~--~~~it~e~v~~v~  230 (231)
T d1iqpa2         164 RFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGDMRRAINILQAAAAL--DKKITDENVFMVA  230 (231)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CSEECHHHHHHHT
T ss_pred             cccccchhhHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHc--CCCcCHHHHHhhh
Confidence            999999999999999999999999999999999999999999999999987764  4679999988764

>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=7.2e-37  Score=264.79  Aligned_cols=228  Identities=57%  Similarity=0.973  Sum_probs=195.1

Q ss_pred             ccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCC-ccccceeeecCCCccchHH
Q psy17903         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD-MYRERILELNASDDRGIQV  112 (355)
Q Consensus        34 ~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~-~~~~~~~~~~~~~~~~~~~  112 (355)
                      ||++||||++|++++||+++++.|+.++++++.++++|+||+|+|||++++++++++.+. .......+++.+...+...
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            899999999999999999999999999999999999999999999999999999998542 2345677888888777776


Q ss_pred             HHHHHHHHHHhhccCCCCC---CCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCee
Q psy17903        113 IRDKVKTFAQQTASGFNQD---GKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCS  189 (355)
Q Consensus       113 i~~~i~~~~~~~~~~~~~~---~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~  189 (355)
                      +...+..+...........   ......++++||||+|.++.+.++.++..++.+..++.+|++++...++.+++++||.
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            6666665544332211100   0111356799999999999999999999999999999999999999999999999999


Q ss_pred             eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh----CCCCCCHHHHHHHhC
Q psy17903        190 KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK----GGEGIVNEDVLEVTG  261 (355)
Q Consensus       190 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~----~~~~It~~~v~~~~~  261 (355)
                      .+.|.+++.+++..++..++.++++.+++++++.+++.++||+|.+++.||.++..+    .++.||.++|+++++
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            999999999999999999999999999999999999999999999999999775543    356799999999875

>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=100.00  E-value=1.4e-32  Score=239.88  Aligned_cols=211  Identities=34%  Similarity=0.537  Sum_probs=162.0

Q ss_pred             cccccCCCCCCcccccHHHHHHHHHHHhcCC-CCeEEEECCCCCCHHHHHHHHHHHhcCCcccc----------------
Q psy17903         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGAD-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRE----------------   97 (355)
Q Consensus        35 ~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~-~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~----------------   97 (355)
                      |+|||||++|++++|++++.+.|+.++..+. .+++|||||||+|||++|+++++.+.......                
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            9999999999999999999999999997765 45699999999999999999999985422110                


Q ss_pred             --------ceeeecCCCcc--chHHHHHHHHHHHHhhccC-CCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccC
Q psy17903         98 --------RILELNASDDR--GIQVIRDKVKTFAQQTASG-FNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK  166 (355)
Q Consensus        98 --------~~~~~~~~~~~--~~~~i~~~i~~~~~~~~~~-~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~  166 (355)
                              ....+...+..  ........+.......... ..........+++++|||+|.++.+.++.|++.+++++.
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                    01112222111  1112222222221111110 001111113567999999999999999999999999999


Q ss_pred             CccEEEEecCCccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q psy17903        167 STRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCD-FKALETLVETSGGDMRRAITCLQSCARL  245 (355)
Q Consensus       167 ~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~l~~~~~g~~r~~~~~l~~~~~~  245 (355)
                      +++||++||+.+++.+++++||..++|++|+.+++.+++..+++.+++.++ +++++.++..++||+|++++.||.++..
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 6888999999999999999999987763

>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=99.97  E-value=4.5e-31  Score=230.33  Aligned_cols=221  Identities=26%  Similarity=0.403  Sum_probs=169.3

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhc-----------------CCCCeEEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~-----------------~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      .+|++||||++|++++|+++.++.|..++..                 +..+++|||||||||||++|+++++++     
T Consensus         2 ~lW~eky~P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~-----   76 (253)
T d1sxja2           2 KLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----   76 (253)
T ss_dssp             CCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT-----
T ss_pred             CccccCcCCCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH-----
Confidence            5899999999999999999999999998853                 334569999999999999999999998     


Q ss_pred             ccceeeecCCCccchHHHHHHHHHHHHhhccCC-----CCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc-cCCcc
Q psy17903         96 RERILELNASDDRGIQVIRDKVKTFAQQTASGF-----NQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-TKSTR  169 (355)
Q Consensus        96 ~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~-----~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~-~~~~~  169 (355)
                      +..++++++++..+...+...+..+........     ...........++++||++.+....+..+...++.. .....
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~~~  156 (253)
T d1sxja2          77 GYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTP  156 (253)
T ss_dssp             TCEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSC
T ss_pred             HhhhhccccccchhhHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchhhhhHHHhhhhcccccc
Confidence            446778888887766666554433222111000     000111125679999999999887766655555432 22334


Q ss_pred             EEEEecC-CccccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCC
Q psy17903        170 FCLICNY-VSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGG  248 (355)
Q Consensus       170 ~Il~~~~-~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~  248 (355)
                      ++++++. ....++++++||..++|.+|+.+++..+++.++.++++.+++++++.|++.++||+|.+++.|+.+...  .
T Consensus       157 ii~i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~~~l~~i~~~s~GDiR~ai~~L~~~~~~--~  234 (253)
T d1sxja2         157 LILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLSTISTT--T  234 (253)
T ss_dssp             EEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTTCHHHHHHHHTHHHHH--S
T ss_pred             cccccccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCCHHHHHHHHHhCCCcHHHHHHHHHHHHHc--C
Confidence            5555553 455677899999999999999999999999999999999999999999999999999999999987763  4


Q ss_pred             CCCCHHHHHHHh
Q psy17903        249 EGIVNEDVLEVT  260 (355)
Q Consensus       249 ~~It~~~v~~~~  260 (355)
                      +.|+.+++.++.
T Consensus       235 ~~i~~~~~~~~~  246 (253)
T d1sxja2         235 KTINHENINEIS  246 (253)
T ss_dssp             SCCCTTHHHHHH
T ss_pred             CCCCHHHHHHHh
Confidence            678888777654

>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=99.97  E-value=6.6e-29  Score=214.52  Aligned_cols=203  Identities=21%  Similarity=0.237  Sum_probs=170.3

Q ss_pred             ccCCCCCCcccccHHHHHHHHHHHh-----cCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHH
Q psy17903         38 KYRPKTIDDVIEQQEVVSVLKKCLS-----GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQV  112 (355)
Q Consensus        38 k~~p~~~~~~vg~~~~~~~l~~~l~-----~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  112 (355)
                      -.||++|++++||+++++.|..+++     +...+|+|||||||||||++|+++++++.     .++..+++.+......
T Consensus         2 ~~RP~~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~-----~~~~~~~~~~~~~~~~   76 (238)
T d1in4a2           2 FLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQ-----TNIHVTSGPVLVKQGD   76 (238)
T ss_dssp             TTSCSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHT-----CCEEEEETTTCCSHHH
T ss_pred             CCCCCcHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccC-----CCcccccCcccccHHH
Confidence            4699999999999999999998875     33467799999999999999999999984     4566788877766665


Q ss_pred             HHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc------------------cCCccEEEEe
Q psy17903        113 IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE------------------TKSTRFCLIC  174 (355)
Q Consensus       113 i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~------------------~~~~~~Il~~  174 (355)
                      +...+....               .+.++++||++.+.+..++.++..++..                  ..+++||++|
T Consensus        77 ~~~~~~~~~---------------~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at  141 (238)
T d1in4a2          77 MAAILTSLE---------------RGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGAT  141 (238)
T ss_dssp             HHHHHHHCC---------------TTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEE
T ss_pred             HHHHHHhhc---------------cCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEec
Confidence            554433211               2348999999999999999998888753                  2367899999


Q ss_pred             cCCccccccccCCee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---CCCC
Q psy17903        175 NYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK---GGEG  250 (355)
Q Consensus       175 ~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~---~~~~  250 (355)
                      +......+++++||. .+.|++++.+++..+++.++..++..+++++++.+++.++||+|.+++.|+.+...+   +...
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 579999999999999999999999999999999999999999999999999875433   5677


Q ss_pred             CCHHHHHHHh
Q psy17903        251 IVNEDVLEVT  260 (355)
Q Consensus       251 It~~~v~~~~  260 (355)
                      ||.+.+.+++
T Consensus       222 it~~~~~~al  231 (238)
T d1in4a2         222 INTDIVLKTM  231 (238)
T ss_dssp             BCHHHHHHHH
T ss_pred             cCHHHHHHHH
Confidence            9999888765

>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=99.96  E-value=4.5e-28  Score=209.39  Aligned_cols=204  Identities=21%  Similarity=0.200  Sum_probs=166.0

Q ss_pred             cCCCCCCcccccHHHHHHHHHHHhc-----CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHH
Q psy17903         39 YRPKTIDDVIEQQEVVSVLKKCLSG-----ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVI  113 (355)
Q Consensus        39 ~~p~~~~~~vg~~~~~~~l~~~l~~-----~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i  113 (355)
                      .||++|++++||+++++.|+.++..     ...+|+|||||||+|||++|+++++++.     .++...+++........
T Consensus         3 ~RP~~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~-----~~~~~~~~~~~~~~~~~   77 (239)
T d1ixsb2           3 LRPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG-----VNLRVTSGPAIEKPGDL   77 (239)
T ss_dssp             CCCCSGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHT-----CCEEEEETTTCCSHHHH
T ss_pred             cCCCCHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhC-----CCeEeccCCccccchhh
Confidence            4999999999999999999988853     3466799999999999999999999983     45667777766554443


Q ss_pred             HHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc------------------cCCccEEEEec
Q psy17903        114 RDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE------------------TKSTRFCLICN  175 (355)
Q Consensus       114 ~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~------------------~~~~~~Il~~~  175 (355)
                      ...+...    .          ....++++||+|.+....++.++..+++.                  ...+++|++|+
T Consensus        78 ~~~~~~~----~----------~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  143 (239)
T d1ixsb2          78 AAILANS----L----------EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATT  143 (239)
T ss_dssp             HHHHHTT----C----------CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEES
T ss_pred             HHHHHhh----c----------cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeecc
Confidence            3332221    1          02349999999999999999999888752                  23466777787


Q ss_pred             CCcc-ccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---CCCCC
Q psy17903        176 YVSC-IIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK---GGEGI  251 (355)
Q Consensus       176 ~~~~-l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~---~~~~I  251 (355)
                      +... ..+.++++|..+.|.+++.+++..++..++..+++.++++.+..++..++||+|.+++.|+.+..++   +.+.|
T Consensus       144 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~~~~~l~~ia~~s~gd~R~a~~~l~~~~~~a~~~~~~~I  223 (239)
T d1ixsb2         144 RPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVI  223 (239)
T ss_dssp             CCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCCCBCHHHHHHHHHHTTSSHHHHHHHHHHHHHHHTTSCCSCB
T ss_pred             CcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCCccchHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhCCCCc
Confidence            7655 4566778889999999999999999999999999999999999999999999999999999887655   45779


Q ss_pred             CHHHHHHHhC
Q psy17903        252 VNEDVLEVTG  261 (355)
Q Consensus       252 t~~~v~~~~~  261 (355)
                      |.+.+.+++.
T Consensus       224 t~~~~~~~l~  233 (239)
T d1ixsb2         224 TRERALEALA  233 (239)
T ss_dssp             CHHHHHHHHH
T ss_pred             CHHHHHHHHh
Confidence            9999887763

>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=99.96  E-value=1.6e-28  Score=206.90  Aligned_cols=179  Identities=22%  Similarity=0.264  Sum_probs=149.8

Q ss_pred             cccHHHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc-------------------ccceeeecCC--
Q psy17903         48 IEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------------RERILELNAS--  105 (355)
Q Consensus        48 vg~~~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~~~~~--  105 (355)
                      -+++.+.+.|.+.+..++.|| +||+||+|+|||++|+.+++.+.+...                   ...+..+...  
T Consensus         5 Pw~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~   84 (207)
T d1a5ta2           5 PWLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKG   84 (207)
T ss_dssp             GGGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTT
T ss_pred             cccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhc
Confidence            367889999999999999999 999999999999999999999864321                   1233444332  


Q ss_pred             -CccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccc
Q psy17903        106 -DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPL  184 (355)
Q Consensus       106 -~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l  184 (355)
                       .....+.+++.+..+...+..         +++|++||||+|.|+.+++++|+++||+++.+++||++|++.+++.++|
T Consensus        85 ~~~i~~~~ir~l~~~~~~~~~~---------~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI  155 (207)
T d1a5ta2          85 KNTLGVDAVREVTEKLNEHARL---------GGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATL  155 (207)
T ss_dssp             CSSBCHHHHHHHHHHTTSCCTT---------SSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHH
T ss_pred             ccccccchhhHHhhhhhhcccc---------CccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhh
Confidence             234567777666554332221         2578999999999999999999999999999999999999999999999


Q ss_pred             cCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q psy17903        185 TSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ  240 (355)
Q Consensus       185 ~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~  240 (355)
                      +|||..+.|.+++.+++..+++     +...++++++..+++.++||+|.+++.||
T Consensus       156 ~SRc~~i~~~~~~~~~~~~~L~-----~~~~~~~~~~~~i~~~s~Gs~r~al~~le  206 (207)
T d1a5ta2         156 RSRCRLHYLAPPPEQYAVTWLS-----REVTMSQDALLAALRLSAGSPGAALALFQ  206 (207)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHH-----HHCCCCHHHHHHHHHHTTTCHHHHHHTTS
T ss_pred             cceeEEEecCCCCHHHHHHHHH-----HcCCCCHHHHHHHHHHcCCCHHHHHHHhC
Confidence            9999999999999999999986     34678999999999999999999999875

>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=99.90  E-value=1.4e-23  Score=174.58  Aligned_cols=137  Identities=16%  Similarity=0.151  Sum_probs=116.1

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCC-ccccceeeecCCC-ccchHHHHHHHHHHHHhhccCCCC
Q psy17903         53 VVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD-MYRERILELNASD-DRGIQVIRDKVKTFAQQTASGFNQ  130 (355)
Q Consensus        53 ~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~-~~~~~~~~~~~~~-~~~~~~i~~~i~~~~~~~~~~~~~  130 (355)
                      +++.++++++++..+++||+||+|+|||++|..+++.+... ....+++++++.. ..+++.+++....+...+..    
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            46778999999988889999999999999999999988653 2234688887654 46889999876655443322    


Q ss_pred             CCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccccccCCeeeEEecCCCH
Q psy17903        131 DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAE  198 (355)
Q Consensus       131 ~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~  198 (355)
                           +++||+||||+|.|+.+++++|+++||+|+.+++||++|+++.++.++++|||..+.|++|..
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                 267899999999999999999999999999999999999999999999999999999987754

>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=99.88  E-value=4.5e-22  Score=171.09  Aligned_cols=200  Identities=23%  Similarity=0.255  Sum_probs=137.6

Q ss_pred             CCCCcccccHHHHHHHHHHHh-----------cCCCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc
Q psy17903         42 KTIDDVIEQQEVVSVLKKCLS-----------GADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (355)
Q Consensus        42 ~~~~~~vg~~~~~~~l~~~l~-----------~~~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  109 (355)
                      .+|++++|.+++++.|.+.+.           +...+ ++||+||||||||++|+++++++     +.+++.+++++..+
T Consensus         6 ~~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~-----~~~~~~i~~~~l~~   80 (247)
T d1ixza_           6 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA-----RVPFITASGSDFVE   80 (247)
T ss_dssp             CCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT-----TCCEEEEEHHHHHH
T ss_pred             CcHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc-----CCCEEEEEhHHhhh
Confidence            389999999999988876551           12223 39999999999999999999997     45677777755321


Q ss_pred             --h----HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------------HHHHHHHHHhhhc--cCC
Q psy17903        110 --I----QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTMEKE--TKS  167 (355)
Q Consensus       110 --~----~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------------~~~~~Ll~~le~~--~~~  167 (355)
                        +    ..++..+.....         ..|    -||+|||+|.+..              ...+.|+..|+..  ...
T Consensus        81 ~~~g~~~~~l~~~f~~a~~---------~~p----~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~  147 (247)
T d1ixza_          81 MFVGVGAARVRDLFETAKR---------HAP----CIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTA  147 (247)
T ss_dssp             SCTTHHHHHHHHHHHHHTT---------SSS----EEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCC
T ss_pred             ccccHHHHHHHHHHHHHHH---------cCC----EEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCC
Confidence              1    223332222111         112    2999999997632              1245667777643  345


Q ss_pred             ccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHH
Q psy17903        168 TRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSCA  243 (355)
Q Consensus       168 ~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~  243 (355)
                      +++|++||.++.+.+++++  |+. .++|++|+.++..++++..+...... .+..+..+++.+.| ..+.+.+.++.+.
T Consensus       148 vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~-~~~~~~~la~~t~g~s~~di~~lv~~A~  226 (247)
T d1ixza_         148 IVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLA-EDVDLALLAKRTPGFVGADLENLLNEAA  226 (247)
T ss_dssp             EEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHH
T ss_pred             EEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCc-cccCHHHHHHHCCCCCHHHHHHHHHHHH
Confidence            6777889999999999984  664 89999999999999999888765433 33347788888876 3334444444333


Q ss_pred             Hh---hCCCCCCHHHHHHHh
Q psy17903        244 RL---KGGEGIVNEDVLEVT  260 (355)
Q Consensus       244 ~~---~~~~~It~~~v~~~~  260 (355)
                      ..   .+...|+.+|+.+++
T Consensus       227 l~a~~~~~~~i~~~d~~~A~  246 (247)
T d1ixza_         227 LLAAREGRRKITMKDLEEAA  246 (247)
T ss_dssp             HHHHHTTCSSBCHHHHHHHT
T ss_pred             HHHHHcCCCCcCHHHHHHhh
Confidence            32   255789999999875

>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=99.87  E-value=2.7e-21  Score=166.89  Aligned_cols=206  Identities=16%  Similarity=0.162  Sum_probs=144.6

Q ss_pred             cccCCCCCCcccccHHHHHHHHHHHh-----------cCCCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC
Q psy17903         37 EKYRPKTIDDVIEQQEVVSVLKKCLS-----------GADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (355)
Q Consensus        37 ~k~~p~~~~~~vg~~~~~~~l~~~l~-----------~~~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  104 (355)
                      +.--..+|++++|.+++++.|.+.+.           +...+ ++|||||||||||++|+++++++     +.+++.+++
T Consensus         4 ~~~~~~t~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~-----~~~~~~i~~   78 (256)
T d1lv7a_           4 EDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA-----KVPFFTISG   78 (256)
T ss_dssp             ECSSCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH-----TCCEEEECS
T ss_pred             CCCCCCCHHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc-----CCCEEEEEh
Confidence            33344589999999999988877652           12223 39999999999999999999998     456778887


Q ss_pred             CCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------------HHHHHHHHHhhh-
Q psy17903        105 SDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTMEK-  163 (355)
Q Consensus       105 ~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------------~~~~~Ll~~le~-  163 (355)
                      ++..+      ...++..+......         .|    -||+|||+|.+..              ...+.|+..++. 
T Consensus        79 ~~l~~~~~g~~~~~l~~~f~~A~~~---------~P----~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~  145 (256)
T d1lv7a_          79 SDFVEMFVGVGASRVRDMFEQAKKA---------AP----CIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGF  145 (256)
T ss_dssp             CSSTTSCCCCCHHHHHHHHHHHHTT---------CS----EEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHhhhcchhHHHHHHHHHHHHHHHc---------CC----EEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCC
Confidence            66432      23455544443322         12    2999999987632              124567777764 


Q ss_pred             -ccCCccEEEEecCCccccccccC--Ce-eeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHH
Q psy17903        164 -ETKSTRFCLICNYVSCIIQPLTS--RC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITC  238 (355)
Q Consensus       164 -~~~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~  238 (355)
                       ....+.+|.+||.++.+.+++++  |+ ..+.|++|+.++..++++....+.++. .+..+..+++.+.| +.+.+.+.
T Consensus       146 ~~~~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~-~~~~~~~la~~t~G~s~adi~~l  224 (256)
T d1lv7a_         146 EGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLA-PDIDAAIIARGTPGFSGADLANL  224 (256)
T ss_dssp             CSSSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTCTTCCHHHHHHH
T ss_pred             CCCCCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcC-cccCHHHHHHhCCCCCHHHHHHH
Confidence             34457788899999999999986  66 489999999999999999888665544 34456778888876 44555555


Q ss_pred             HHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        239 LQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       239 l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      ++.++..+   +...|+.+++.+++.
T Consensus       225 ~~~A~~~a~~~~~~~i~~~d~~~Al~  250 (256)
T d1lv7a_         225 VNEAALFAARGNKRVVSMVEFEKAKD  250 (256)
T ss_dssp             HHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCccCHHHHHHHHH
Confidence            55443332   456789999987753

>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=99.83  E-value=1.1e-18  Score=152.21  Aligned_cols=215  Identities=18%  Similarity=0.228  Sum_probs=153.8

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~------~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  105 (355)
                      ..++...|+|.+   ++|++..++.+.+++..      ...++++|+||||+|||++++.+++.+.... ...++.+++.
T Consensus         6 ~~~l~~~y~p~~---l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~-~~~~~~~~~~   81 (276)
T d1fnna2           6 DSVFSPSYVPKR---LPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKT-TARFVYINGF   81 (276)
T ss_dssp             GGGGSTTCCCSC---CTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSC-CCEEEEEETT
T ss_pred             cccCCCCCCCCC---CCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhccc-CCcEEEecch
Confidence            346788999865   68999988888887753      2345699999999999999999999985432 3345556554


Q ss_pred             CccchHHHH----------------------HHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhh
Q psy17903        106 DDRGIQVIR----------------------DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEK  163 (355)
Q Consensus       106 ~~~~~~~i~----------------------~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~  163 (355)
                      .........                      ..+.......           ....++++|+++.+.......+...+..
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~d~~~~~~~~~~~~~~~~  150 (276)
T d1fnna2          82 IYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRER-----------DLYMFLVLDDAFNLAPDILSTFIRLGQE  150 (276)
T ss_dssp             TCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHT-----------TCCEEEEEETGGGSCHHHHHHHHHHTTC
T ss_pred             hhhhhhhhhhhhHHhhhhhhhhhccchhHHHHHHHHHHhhc-----------ccccccchhHHHHhhhhhhhhHHHHHhc
Confidence            432222111                      1111111110           1345888999999988777666655543


Q ss_pred             ----ccCCccEEEEecCC---ccccccccCCee--eEEecCCCHHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHc----
Q psy17903        164 ----ETKSTRFCLICNYV---SCIIQPLTSRCS--KFRFKPLAENTMLTRLQYICEQ--ESVMCDFKALETLVETS----  228 (355)
Q Consensus       164 ----~~~~~~~Il~~~~~---~~l~~~l~sr~~--~i~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~~~~l~~~~----  228 (355)
                          ....+.+|++++..   ..+.+.+.+|+.  .+.|.+++.+++.+++.++++.  ....+++++++.+++.+    
T Consensus       151 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~~~~~  230 (276)
T d1fnna2         151 ADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQT  230 (276)
T ss_dssp             HHHHSSCCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSS
T ss_pred             cccccccceEEeecCCchhhhhhcchhhhhhhcchhccccchhHHHHHHHHHHHHHHhcccccccHHHHHHHHHHhhhhh
Confidence                23446677777764   456777888764  6899999999999999998876  34458999999998763    


Q ss_pred             -----CCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        229 -----GGDMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       229 -----~g~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                           +||+|.+++.++.+...+   +...|+.++|+++..
T Consensus       231 ~~~~~~G~~R~a~~ll~~a~~~A~~~~~~~I~~edv~~A~~  271 (276)
T d1fnna2         231 PLDTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSK  271 (276)
T ss_dssp             TTCTTSCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             hhhhcCCCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence                 799999999999876655   557899999998764

>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=99.81  E-value=3.4e-19  Score=154.43  Aligned_cols=169  Identities=21%  Similarity=0.251  Sum_probs=119.4

Q ss_pred             CCCcccccHHHHHHHHHHHhc-----------C-CCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc-
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSG-----------A-DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR-  108 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~-----------~-~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-  108 (355)
                      +|++++|.+++++.|++.+..           | ..+ .+|||||||||||++++++++++     ..+++.+++++.. 
T Consensus         2 ~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~-----~~~~~~i~~~~l~~   76 (258)
T d1e32a2           2 GYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGPEIMS   76 (258)
T ss_dssp             CGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHT-----TCEEEEECHHHHTT
T ss_pred             ChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHh-----CCeEEEEEchhhcc
Confidence            699999999999999887521           2 223 39999999999999999999998     4456666654321 


Q ss_pred             -----chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH-----------HHHHHHHHhh--hccCCccE
Q psy17903        109 -----GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-----------AQAALRRTME--KETKSTRF  170 (355)
Q Consensus       109 -----~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~-----------~~~~Ll~~le--~~~~~~~~  170 (355)
                           ....++..+......             ..-||+|||+|.+...           ....++..+.  ....++.+
T Consensus        77 ~~~g~~~~~l~~~f~~A~~~-------------~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlv  143 (258)
T d1e32a2          77 KLAGESESNLRKAFEEAEKN-------------APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIV  143 (258)
T ss_dssp             SCTTHHHHHHHHHHHHHHHT-------------CSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEE
T ss_pred             cccccHHHHHHHHHHHHHhc-------------CCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccE
Confidence                 123344333332222             1129999999999642           1233343333  23445778


Q ss_pred             EEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q psy17903        171 CLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG  230 (355)
Q Consensus       171 Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g  230 (355)
                      |++||.++.+.+++++  |+. .++|+.|+.++...+++..+++.... ++..+..|++.+.|
T Consensus       144 i~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~-~~~~~~~la~~t~G  205 (258)
T d1e32a2         144 MAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHG  205 (258)
T ss_dssp             EEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBC-TTCCHHHHHHHCTT
T ss_pred             EEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccc-cccchhhhhhcccC
Confidence            8899999999999987  564 89999999999999999887654332 22247888988877

>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=99.77  E-value=1.3e-17  Score=146.25  Aligned_cols=216  Identities=19%  Similarity=0.195  Sum_probs=143.4

Q ss_pred             CCccccccCCCCCCcccccHHHHHHHHHHH----hcCCCC-----eEEEECCCCCCHHHHHHHHHHHhcCC----ccccc
Q psy17903         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCL----SGADLP-----HFLFYGPPGTGKTSTMIAACHQLFGD----MYRER   98 (355)
Q Consensus        32 ~~~~~~k~~p~~~~~~vg~~~~~~~l~~~l----~~~~~~-----~~ll~Gp~G~GKt~la~~l~~~l~~~----~~~~~   98 (355)
                      ..+|.++|+|..   +.|++..++.|.+++    ..+..+     +++|+||||||||++++++++.+...    .....
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            457899999864   678877777766554    333322     26789999999999999999998531    12233


Q ss_pred             eeeecCCCccchHH----------------------HHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC------
Q psy17903         99 ILELNASDDRGIQV----------------------IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT------  150 (355)
Q Consensus        99 ~~~~~~~~~~~~~~----------------------i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~------  150 (355)
                      +.++++........                      +...+.......           ....++++||+|.+.      
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~~iide~d~l~~~~~~~  151 (287)
T d1w5sa2          83 QAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVE-----------NHYLLVILDEFQSMLSSPRIA  151 (287)
T ss_dssp             EEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHH-----------TCEEEEEEESTHHHHSCTTSC
T ss_pred             eeeeccccccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhc-----------cCccccceeEEEEeccccccc
Confidence            44444443222211                      111111111110           134588999998763      


Q ss_pred             HHHHHHHHHHhhhc-----cCCccEEEEecCCc------cccccccCC-eeeEEecCCCHHHHHHHHHHHHHHc--CCCC
Q psy17903        151 HAAQAALRRTMEKE-----TKSTRFCLICNYVS------CIIQPLTSR-CSKFRFKPLAENTMLTRLQYICEQE--SVMC  216 (355)
Q Consensus       151 ~~~~~~Ll~~le~~-----~~~~~~Il~~~~~~------~l~~~l~sr-~~~i~~~~~~~~~~~~~l~~~~~~~--~~~~  216 (355)
                      .+....+...++..     .....+|++++...      ...+.+.+| +..++|++++.+++.+++..+++..  ...+
T Consensus       152 ~~~~~~l~~l~~~l~~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~  231 (287)
T d1w5sa2         152 AEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVW  231 (287)
T ss_dssp             HHHHHHHHTHHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSC
T ss_pred             hhHHHHHHHHHHhcchhhcccceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhhccCCC
Confidence            34445555554432     23455666665442      234566655 5699999999999999999998764  3458


Q ss_pred             CHHHHHHHHHHc------CCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy17903        217 DFKALETLVETS------GGDMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (355)
Q Consensus       217 ~~~~~~~l~~~~------~g~~r~~~~~l~~~~~~~---~~~~It~~~v~~~~~  261 (355)
                      ++++++.+++.+      .||+|++++.|+.+...+   +...||.++|++++.
T Consensus       232 ~~~al~~ia~~~~~~~~~~gd~R~ai~~l~~a~~~A~~~~~~~It~~~V~~A~~  285 (287)
T d1w5sa2         232 EPRHLELISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVS  285 (287)
T ss_dssp             CHHHHHHHHHHHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccccCCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHh
Confidence            999999999876      699999999998877665   567899999998764

>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=99.73  E-value=3e-18  Score=148.82  Aligned_cols=185  Identities=19%  Similarity=0.211  Sum_probs=120.8

Q ss_pred             CC-CCCcccccHHHHHHHHHHHh-----------cCCC--CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC
Q psy17903         41 PK-TIDDVIEQQEVVSVLKKCLS-----------GADL--PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (355)
Q Consensus        41 p~-~~~~~vg~~~~~~~l~~~l~-----------~~~~--~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  106 (355)
                      |+ +|++++|.+++++.|.+.+.           .|..  .++|||||||||||++++++++++     +.+++.+++++
T Consensus         2 p~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~-----~~~~~~~~~~~   76 (265)
T d1r7ra3           2 PQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC-----QANFISIKGPE   76 (265)
T ss_dssp             CCCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT-----TCEEEEECHHH
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHh-----CCcEEEEEHHH
Confidence            55 89999999988877776652           1322  239999999999999999999998     44566666543


Q ss_pred             cc------chHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH--------------HHHHHHHHhhhc--
Q psy17903        107 DR------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTMEKE--  164 (355)
Q Consensus       107 ~~------~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~--------------~~~~Ll~~le~~--  164 (355)
                      ..      ....++..+.......             .-+|+|||+|.+...              ..+.|+..|+..  
T Consensus        77 l~~~~~~~~~~~l~~~f~~A~~~~-------------p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  143 (265)
T d1r7ra3          77 LLTMWFGESEANVREIFDKARQAA-------------PCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST  143 (265)
T ss_dssp             HHTSCTTTHHHHHHHHHHHHHHTC-------------SEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC----
T ss_pred             hhhccccchHHHHHHHHHHHHhcC-------------CcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCC
Confidence            21      1233433333332221             129999999988532              235666666532  


Q ss_pred             cCCccEEEEecCCccccccccC--Cee-eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHH
Q psy17903        165 TKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQ  240 (355)
Q Consensus       165 ~~~~~~Il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~  240 (355)
                      ...+++|++||.++.+.+++++  |+. .++|++|+.++..++++..+++.... .+..++.++..+.| +.+.+.+.++
T Consensus       144 ~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~-~~~~l~~la~~t~g~s~~di~~lv~  222 (265)
T d1r7ra3         144 KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEICQ  222 (265)
T ss_dssp             --CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC-----CCCCHHHHHHHCSSCCHHHHHHHH
T ss_pred             CCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCch-hhhhHHHHHhcCCCCCHHHHHHHHH
Confidence            3346788889999999999986  554 89999999999999998776542221 12245677777655 3334444444


Q ss_pred             HHHH
Q psy17903        241 SCAR  244 (355)
Q Consensus       241 ~~~~  244 (355)
                      .+..
T Consensus       223 ~A~~  226 (265)
T d1r7ra3         223 RACK  226 (265)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4433

>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=99.73  E-value=6.1e-17  Score=135.69  Aligned_cols=187  Identities=17%  Similarity=0.242  Sum_probs=127.2

Q ss_pred             CCCccc-c--cHHHHHHHHHHHhcCCCC--eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc--hHHHHH
Q psy17903         43 TIDDVI-E--QQEVVSVLKKCLSGADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG--IQVIRD  115 (355)
Q Consensus        43 ~~~~~v-g--~~~~~~~l~~~l~~~~~~--~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~--~~~i~~  115 (355)
                      +|++++ |  +..+...+.++++.....  .++||||+|+|||++++++++++.....  .++.++..+...  ...+..
T Consensus         8 tFdnF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~   85 (213)
T d1l8qa2           8 TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGY--RVIYSSADDFAQAMVEHLKK   85 (213)
T ss_dssp             CSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTC--CEEEEEHHHHHHHHHHHHHH
T ss_pred             ChhhccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCcc--ceEEechHHHHHHHHHHHHc
Confidence            788876 4  455667777777653322  3999999999999999999999865433  344544432110  000000


Q ss_pred             -HHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC--HHHHHHHHHHhhhc-cCCccEEEEecCC-c---cccccccCC
Q psy17903        116 -KVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT--HAAQAALRRTMEKE-TKSTRFCLICNYV-S---CIIQPLTSR  187 (355)
Q Consensus       116 -~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~--~~~~~~Ll~~le~~-~~~~~~Il~~~~~-~---~l~~~l~sr  187 (355)
                       ....+.... .          ...+|+|||+|.+.  +..+..|..++... .....+|++++.+ .   ...+.|+||
T Consensus        86 ~~~~~~~~~~-~----------~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SR  154 (213)
T d1l8qa2          86 GTINEFRNMY-K----------SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSR  154 (213)
T ss_dssp             TCHHHHHHHH-H----------TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHH
T ss_pred             cchhhHHHHH-h----------hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHH
Confidence             001111100 0          22399999999985  45566777776642 2445667777643 2   245778888


Q ss_pred             ee---eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy17903        188 CS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (355)
Q Consensus       188 ~~---~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~  244 (355)
                      +.   .+.++ |+.++..+++++.+...|+.++++++++|++.+ .|+|.+...|..+..
T Consensus       155 L~~g~~~~i~-p~d~~~~~iL~~~a~~rgl~l~~~v~~yl~~~~-~~~R~L~~~l~~l~l  212 (213)
T d1l8qa2         155 FEGGILVEIE-LDNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-KNVREIEGKIKLIKL  212 (213)
T ss_dssp             HHTSEEEECC-CCHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-SSHHHHHHHHHHHHH
T ss_pred             hhCceEEEEC-CCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHhc-CcHHHHHHHHHHhhc
Confidence            65   77785 678889999999999999999999999999987 689998888876653

>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=99.72  E-value=5.2e-16  Score=133.24  Aligned_cols=217  Identities=15%  Similarity=0.128  Sum_probs=154.8

Q ss_pred             CccccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-----cccceeeecCCCc
Q psy17903         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNASDD  107 (355)
Q Consensus        33 ~~~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~~  107 (355)
                      ..|.++-+-..++.++|+++.++++.+.+.....++++|.||||+|||++++.+++.+....     .+..++.++....
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            44556666667889999999999999999888878899999999999999999999876432     1234666665432


Q ss_pred             ----cchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH---------HHHHHHHHHhhhccCCccEEEEe
Q psy17903        108 ----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH---------AAQAALRRTMEKETKSTRFCLIC  174 (355)
Q Consensus       108 ----~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~---------~~~~~Ll~~le~~~~~~~~Il~~  174 (355)
                          .....+.+.+.........         .+.-|+||||++.+..         +..+.|..+|.+  ....+|.+|
T Consensus        86 iag~~~~g~~e~r~~~i~~~~~~---------~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~r--g~i~vIgat  154 (268)
T d1r6bx2          86 LAGTKYRGDFEKRFKALLKQLEQ---------DTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--GKIRVIGST  154 (268)
T ss_dssp             -CCCCCSSCHHHHHHHHHHHHSS---------SSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS--CCCEEEEEE
T ss_pred             hccCccchhHHHHHHHHHHHhhc---------cCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhC--CCCeEEEeC
Confidence                1123333333332222111         0334899999999932         345566667773  457778777


Q ss_pred             cCC-----ccccccccCCeeeEEecCCCHHHHHHHHHHHHH----HcCCCCCHHHHHHHHHHc------CCCHHHHHHHH
Q psy17903        175 NYV-----SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICE----QESVMCDFKALETLVETS------GGDMRRAITCL  239 (355)
Q Consensus       175 ~~~-----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~----~~~~~~~~~~~~~l~~~~------~g~~r~~~~~l  239 (355)
                      +..     ..-.++|.+|+..|.+.+|+.++...+++....    ..++.++++++..+++.+      ..-|.+++..|
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            632     234688999999999999999999999887543    468999999999988765      35689999999


Q ss_pred             HHHHHhh-------CCCCCCHHHHHHHh
Q psy17903        240 QSCARLK-------GGEGIVNEDVLEVT  260 (355)
Q Consensus       240 ~~~~~~~-------~~~~It~~~v~~~~  260 (355)
                      +.++...       ....|+.+|+..++
T Consensus       235 Dea~a~~~~~~~~~~~~~i~~~di~~~i  262 (268)
T d1r6bx2         235 DEAGARARLMPVSKRKKTVNVADIESVV  262 (268)
T ss_dssp             HHHHHHHHHSSSCCCCCSCCHHHHHHHH
T ss_pred             HHHHHHHHhhccccCcccCCHHHHHHHH
Confidence            8876543       23457777776654

>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=99.71  E-value=1.2e-16  Score=136.95  Aligned_cols=211  Identities=15%  Similarity=0.130  Sum_probs=141.5

Q ss_pred             cccccHHHHHHHHHHHhcCC--CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHh
Q psy17903         46 DVIEQQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQ  123 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~~~--~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~  123 (355)
                      ++||++..++.+.+.++...  ..+++|+||+||||+.+|++++......  ...++.+++....... ....+......
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s~~~--~~~~~~~~~~~~~~~~-~~~~lfg~~~~   77 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLSDRS--KEPFVALNVASIPRDI-FEAELFGYEKG   77 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHSTTT--TSCEEEEETTTSCHHH-HHHHHHCBCTT
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCCc--ccccccchhhhhhhcc-cHHHhcCcccC
Confidence            57899988888877776532  2239999999999999999999865332  3467777776543222 11111110000


Q ss_pred             hccCCCCC--CC-CCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccEEEEecCCc-------cccc
Q psy17903        124 TASGFNQD--GK-PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYVS-------CIIQ  182 (355)
Q Consensus       124 ~~~~~~~~--~~-~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~Il~~~~~~-------~l~~  182 (355)
                      ...+....  +. ..+++++|||||+|.|+...|..|+.++++..           .++++|++++..-       .+.+
T Consensus        78 ~~~~~~~~~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~~~~~~~~~~~RlI~~s~~~l~~l~~~~~f~~  157 (247)
T d1ny5a2          78 AFTGAVSSKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVKEGKFRE  157 (247)
T ss_dssp             SSTTCCSCBCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHHTTSSCH
T ss_pred             CcCCcccccCCHHHccCCCEEEEeChHhCCHHHHHHHHHHHHhCCEEECCCCCceecCeEEEEecCCCHHHHHHcCCCcH
Confidence            00000000  00 00244589999999999999999999997532           2567888887531       2344


Q ss_pred             cccCCee--eEEecCCC--HHHHHHHHHHHHH----HcCC---CCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCCCC
Q psy17903        183 PLTSRCS--KFRFKPLA--ENTMLTRLQYICE----QESV---MCDFKALETLVETS-GGDMRRAITCLQSCARLKGGEG  250 (355)
Q Consensus       183 ~l~sr~~--~i~~~~~~--~~~~~~~l~~~~~----~~~~---~~~~~~~~~l~~~~-~g~~r~~~~~l~~~~~~~~~~~  250 (355)
                      .|..|+.  .+.++|+.  .+++..++...+.    +.+.   .+++++++.|..+. +||++++.+.++.++..+.+..
T Consensus       158 ~L~~~l~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~ls~~al~~L~~~~WPGNl~EL~~~l~~a~~~~~~~~  237 (247)
T d1ny5a2         158 DLYYRLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSYPWYGNVRELKNVIERAVLFSEGKF  237 (247)
T ss_dssp             HHHHHHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHSCCTTHHHHHHHHHHHHHHHCCSSE
T ss_pred             HHHhhcCeeeecCCChhhchhhHhhhhhhhhhhhhhhcCCCCCCCCHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCCe
Confidence            4555543  57777775  4677666555544    3343   47899999998865 9999999999999998888888


Q ss_pred             CCHHHHHHH
Q psy17903        251 IVNEDVLEV  259 (355)
Q Consensus       251 It~~~v~~~  259 (355)
                      |+.+|+-.+
T Consensus       238 I~~~dl~~l  246 (247)
T d1ny5a2         238 IDRGELSCL  246 (247)
T ss_dssp             ECHHHHHHH
T ss_pred             ECHHHcccc
Confidence            999998765

>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=99.62  E-value=7.3e-15  Score=125.60  Aligned_cols=175  Identities=14%  Similarity=0.223  Sum_probs=107.9

Q ss_pred             CCcccccHHHHHHHHHH-------HhcCC-CC--eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCcc----c
Q psy17903         44 IDDVIEQQEVVSVLKKC-------LSGAD-LP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR----G  109 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~-------l~~~~-~~--~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~----~  109 (355)
                      .+.++|+.+.++.+.+.       ++++. .|  ++|||||||||||++|+++|+++     +.+++.+++++..    +
T Consensus         8 ~~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~-----~~~~~~i~~~~~~~g~~~   82 (246)
T d1d2na_           8 MNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES-----NFPFIKICSPDKMIGFSE   82 (246)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH-----TCSEEEEECGGGCTTCCH
T ss_pred             ccCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcc-----cccccccccccccccccc
Confidence            45677766555443322       23322 12  29999999999999999999998     4567777765421    1


Q ss_pred             ---hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCC----------HHHHHHHHHHhhhccC---CccEEEE
Q psy17903        110 ---IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT----------HAAQAALRRTMEKETK---STRFCLI  173 (355)
Q Consensus       110 ---~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~----------~~~~~~Ll~~le~~~~---~~~~Il~  173 (355)
                         ...++..+......             ..-||||||+|.+.          ....+.|+..++....   .+++|.+
T Consensus        83 ~~~~~~i~~if~~A~~~-------------~p~il~iDEid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~t  149 (246)
T d1d2na_          83 TAKCQAMKKIFDDAYKS-------------QLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGT  149 (246)
T ss_dssp             HHHHHHHHHHHHHHHTS-------------SEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEE
T ss_pred             cchhhhhhhhhhhhhhc-------------ccceeehhhhhhHhhhcccccchhHHHHHHHHHHhcCCCccccceeeeec
Confidence               12344433333221             12399999998763          2345677777765432   3667788


Q ss_pred             ecCCcccccc-ccCCee-eEEecCCC-HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-----CHHHHHHHHHH
Q psy17903        174 CNYVSCIIQP-LTSRCS-KFRFKPLA-ENTMLTRLQYICEQESVMCDFKALETLVETSGG-----DMRRAITCLQS  241 (355)
Q Consensus       174 ~~~~~~l~~~-l~sr~~-~i~~~~~~-~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-----~~r~~~~~l~~  241 (355)
                      ||.++.+.++ +++|+. .++++.++ .+++..++...     ..+++.....+++.+.|     .++.++..++.
T Consensus       150 Tn~~~~ld~~~~~~rF~~~i~~P~~~~r~~il~~l~~~-----~~~~~~~~~~i~~~~~g~~~~~~ik~ll~~ie~  220 (246)
T d1d2na_         150 TSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELL-----GNFKDKERTTIAQQVKGKKVWIGIKKLLMLIEM  220 (246)
T ss_dssp             ESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHH-----TCSCHHHHHHHHHHHTTSEEEECHHHHHHHHHH
T ss_pred             cCChhhccchhhcCccceEEecCCchhHHHHHHHHHhc-----cCCChHHHHHHHHHcCCCccchhHHHHHHHHHH
Confidence            8888777654 667765 57775443 44555544432     34677777777777765     36666666554

>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=99.59  E-value=1.2e-14  Score=131.68  Aligned_cols=202  Identities=16%  Similarity=0.138  Sum_probs=136.4

Q ss_pred             cccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-----cccceeeecCCCccc
Q psy17903         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNASDDRG  109 (355)
Q Consensus        35 ~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~~~~  109 (355)
                      ++++-+-..++.++|++..++++.+.+.....++.+|.||||+|||+++..+++.+..+.     .+..++.++......
T Consensus        12 l~~~a~~g~ld~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~a   91 (387)
T d1qvra2          12 LTRLAAEGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA   91 (387)
T ss_dssp             HHHHHHTTCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----
T ss_pred             HHHHHHcCCCCCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhc
Confidence            344445567889999999999999999887777789999999999999999999875432     123567777654321


Q ss_pred             ----hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCH--------HHHHHHHHHhhhccCCccEEEEecCC
Q psy17903        110 ----IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------AAQAALRRTMEKETKSTRFCLICNYV  177 (355)
Q Consensus       110 ----~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~--------~~~~~Ll~~le~~~~~~~~Il~~~~~  177 (355)
                          ...+.+.+..........        .+.-|+||||+|.+..        +..+.|..+|..  ..+.+|.+|+..
T Consensus        92 g~~~~g~~e~r~~~i~~~~~~~--------~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~r--g~~~~I~~tT~~  161 (387)
T d1qvra2          92 GAKYRGEFEERLKAVIQEVVQS--------QGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRLIGATTLD  161 (387)
T ss_dssp             ------CHHHHHHHHHHHHHTT--------CSSEEEEECCC-------------------HHHHHT--TCCCEEEEECHH
T ss_pred             ccCcchhHHHHHHHHHHHhccC--------CCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhC--CCcceeeecCHH
Confidence                123333333222111100        0123799999999943        345777888875  456777777632


Q ss_pred             ----ccccccccCCeeeEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHc------CCCHHHHHHHHHHHH
Q psy17903        178 ----SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETS------GGDMRRAITCLQSCA  243 (355)
Q Consensus       178 ----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~l~~~~------~g~~r~~~~~l~~~~  243 (355)
                          ..-.++|.+|+..|.+.+|+.++...+|+.....    .++.++++++...++.+      ..-|.+++..|+.++
T Consensus       162 ey~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~~~~e~~h~v~~~~~ai~~~v~ls~ryi~~r~~PdKAidlld~a~  241 (387)
T d1qvra2         162 EYREIEKDPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAA  241 (387)
T ss_dssp             HHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHH
T ss_pred             HHHHhcccHHHHHhcccccCCCCcHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHhcccccccccChhhHHHHHHHHH
Confidence                1236899999999999999999999998877653    58999999999988775      367999999999877


Q ss_pred             Hhh
Q psy17903        244 RLK  246 (355)
Q Consensus       244 ~~~  246 (355)
                      ...
T Consensus       242 a~~  244 (387)
T d1qvra2         242 ARL  244 (387)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>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=99.55  E-value=2.3e-14  Score=128.49  Aligned_cols=219  Identities=15%  Similarity=0.155  Sum_probs=125.8

Q ss_pred             CCC-CCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC-------Ccc----------------
Q psy17903         40 RPK-TIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-------DMY----------------   95 (355)
Q Consensus        40 ~p~-~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~-------~~~----------------   95 (355)
                      ||. .|.+++||+.++..|.-.+-.....|+||+||||||||++|++++.-+..       ...                
T Consensus         1 ~~~~~f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~iLp~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (333)
T d1g8pa_           1 RPVFPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLST   80 (333)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCSCC
T ss_pred             CCCCChhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHHhCCCchhhccCccccCccccccchhhcccc
Confidence            455 69999999999987765443222247999999999999999999986621       000                


Q ss_pred             -----ccceeeecCCCccchHHHHHH--HHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc---
Q psy17903         96 -----RERILELNASDDRGIQVIRDK--VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET---  165 (355)
Q Consensus        96 -----~~~~~~~~~~~~~~~~~i~~~--i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~---  165 (355)
                           ..+++....  ......+...  +......+......+.-..++++|+++||++.+.++.++.|+..||+..   
T Consensus        81 ~~~~~~~~~~~~~~--~~~~~~l~G~~d~~~~~~~g~~~~~~G~l~~A~~gvl~iDEi~~~~~~~~~aLl~~me~~~v~i  158 (333)
T d1g8pa_          81 NVIRKPTPVVDLPL--GVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENVV  158 (333)
T ss_dssp             CEEEECCCEEEECT--TCCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSEEEE
T ss_pred             CcccccCceeeccC--CCCcccccCcchhhhccccCcceeeccccccccccEeecccHHHHHHHHHHHHhhhhcCCeEEe
Confidence                 000111110  0111111100  0000000000000000000245699999999999999999999999643   


Q ss_pred             ----------CCccEEEEecC-CccccccccCCee-eEEecCCCH-HHHHHHHHHH------------------------
Q psy17903        166 ----------KSTRFCLICNY-VSCIIQPLTSRCS-KFRFKPLAE-NTMLTRLQYI------------------------  208 (355)
Q Consensus       166 ----------~~~~~Il~~~~-~~~l~~~l~sr~~-~i~~~~~~~-~~~~~~l~~~------------------------  208 (355)
                                ..+.++.++|. ..++.+++.+|+. .+.+..+.. ++...++...                        
T Consensus       159 ~r~g~~~~~p~~f~liaa~Np~~~~l~~~llDRf~~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  238 (333)
T d1g8pa_         159 ERDGLSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQ  238 (333)
T ss_dssp             CCTTCCEEEECCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHH
T ss_pred             cccCceecCCCCEEEEEecCccccccccchhhhhcceeeccCcchhhHHHHHHHhhhhcccChHHHHHHHHHHHHHHHHH
Confidence                      34556666664 3568899999987 566665542 2221111110                        


Q ss_pred             -----HHHcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHHH---HHhhCCCCCCHHHHHHHh
Q psy17903        209 -----CEQESVMCDFKALETLVETS---GG-DMRRAITCLQSC---ARLKGGEGIVNEDVLEVT  260 (355)
Q Consensus       209 -----~~~~~~~~~~~~~~~l~~~~---~g-~~r~~~~~l~~~---~~~~~~~~It~~~v~~~~  260 (355)
                           ..-..+.++++....++...   +. ++|.....++.+   +.+.+...|+.+||.+++
T Consensus       239 ~~~~~~~l~~v~~~~~~~~~~~~~~~~~~~~S~R~~~~llrvArtiA~L~gr~~V~~~di~~a~  302 (333)
T d1g8pa_         239 ILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARALAALEGATAVGRDHLKRVA  302 (333)
T ss_dssp             HHHHHHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHH
T ss_pred             HHHHhhcccceecCHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence                 01123556666666655443   22 677776666544   344477889999998854

>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=99.54  E-value=5.7e-15  Score=130.78  Aligned_cols=148  Identities=21%  Similarity=0.255  Sum_probs=94.8

Q ss_pred             cccccHHHHHHHHHHHhc--------------CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccch-
Q psy17903         46 DVIEQQEVVSVLKKCLSG--------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI-  110 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~--------------~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~-  110 (355)
                      .++||+++++.+...+.+              ....++||+||||||||.+|+++++.+.     .+++.+++++.... 
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~-----~~~~~i~~s~~~~~~   89 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN-----APFIKVEATKFTEVG   89 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT-----CCEEEEEGGGGSSCC
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccc-----cchhcccccccccce
Confidence            368999999999876621              1234499999999999999999999984     34566666543211 


Q ss_pred             -------HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH------------HHHHHHHHhhhc-------
Q psy17903        111 -------QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA------------AQAALRRTMEKE-------  164 (355)
Q Consensus       111 -------~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~------------~~~~Ll~~le~~-------  164 (355)
                             ..++..... +......   ..    ...|||+||+|.+.+.            .++.|+..++..       
T Consensus        90 ~~~~~~~~~~~~~f~~-a~~~~~~---~~----~~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~~~~  161 (309)
T d1ofha_          90 YVGKEVDSIIRDLTDS-AGGAIDA---VE----QNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHG  161 (309)
T ss_dssp             SGGGSTTHHHHHHHHT-TTTCHHH---HH----HHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTE
T ss_pred             eEeeeccccccccchh-hhccccc---cc----CCceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEecCCe
Confidence                   112221111 0000000   00    0129999999998642            456688878632       


Q ss_pred             ---cCCccEEEEe----cCCccccccccCCee-eEEecCCCHHHHHHHHH
Q psy17903        165 ---TKSTRFCLIC----NYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQ  206 (355)
Q Consensus       165 ---~~~~~~Il~~----~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~  206 (355)
                         ..++.||+++    +.+..+.|.++.|.. .+.|.+|+..++.+++.
T Consensus       162 ~i~~s~ilfi~~ga~~~~~~~~~~p~l~~R~~~~i~~~~~~~~~~~~Il~  211 (309)
T d1ofha_         162 MVKTDHILFIASGAFQVARPSDLIPELQGRLPIRVELTALSAADFERILT  211 (309)
T ss_dssp             EEECTTCEEEEEECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHH
T ss_pred             EEEccceeEEeccchhhcCcccchhhhhhhhheeeeccCCCHHHHHHHHH
Confidence               1234455442    345668888988886 68999999999988864

>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=99.54  E-value=3.5e-14  Score=125.63  Aligned_cols=169  Identities=18%  Similarity=0.328  Sum_probs=120.3

Q ss_pred             cccccHHHHHHHHHHHhc-------CCCC--eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHH--
Q psy17903         46 DVIEQQEVVSVLKKCLSG-------ADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIR--  114 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~-------~~~~--~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~--  114 (355)
                      .++||+++++.+.+.+..       ...|  .++|+||+|+|||.+|+.+++.+.+..  .+++.+++++......+.  
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~--~~~~~~~~~~~~~~~~~~~L  101 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTE--EAMIRIDMTEYMEKHAVSRL  101 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSG--GGEEEECTTTCCSSGGGGGC
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCC--cceEEEeccccccchhhhhh
Confidence            578999999888776632       1222  289999999999999999999986543  357777776543321111  


Q ss_pred             -------------HHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhcc-----------CCccE
Q psy17903        115 -------------DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRF  170 (355)
Q Consensus       115 -------------~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~-----------~~~~~  170 (355)
                                   ..+......            .++.||++||+|.+.++.++.|+.+++++.           .++++
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                         011111111            134599999999999999999999998641           35778


Q ss_pred             EEEecCC--------------------------ccccccccCCee-eEEecCCCHHHHHHHHHHHHHH-------cC--C
Q psy17903        171 CLICNYV--------------------------SCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQ-------ES--V  214 (355)
Q Consensus       171 Il~~~~~--------------------------~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~-------~~--~  214 (355)
                      |+++|--                          ..+.|.+..|+. ++.|.+++.+++.+++...+.+       .+  +
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            8888731                          235677888887 6689999999999987755543       22  4


Q ss_pred             CCCHHHHHHHHHHc
Q psy17903        215 MCDFKALETLVETS  228 (355)
Q Consensus       215 ~~~~~~~~~l~~~~  228 (355)
                      .+++++++.|++.+
T Consensus       250 ~i~~~~~~~L~~~~  263 (315)
T d1qvra3         250 ELTEAAKDFLAERG  263 (315)
T ss_dssp             EECHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHhC
Confidence            67899999999874

>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=99.53  E-value=8e-14  Score=123.44  Aligned_cols=167  Identities=17%  Similarity=0.217  Sum_probs=116.7

Q ss_pred             CcccccHHHHHHHHHHHh-------c-CCCC-eEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccch-----
Q psy17903         45 DDVIEQQEVVSVLKKCLS-------G-ADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI-----  110 (355)
Q Consensus        45 ~~~vg~~~~~~~l~~~l~-------~-~~~~-~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~-----  110 (355)
                      +.++||+++++.+...+.       . .++. .++|+||+|+|||.+|+.+++.+..     +++.+|+++....     
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~-----~~i~~d~s~~~~~~~~~~   96 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI-----ELLRFDMSEYMERHTVSR   96 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTC-----EEEEEEGGGCSSSSCCSS
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhccC-----CeeEeccccccchhhhhh
Confidence            358999999998887763       1 1222 2999999999999999999999843     4555655432111     


Q ss_pred             ---------H-HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhc-----------cCCcc
Q psy17903        111 ---------Q-VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-----------TKSTR  169 (355)
Q Consensus       111 ---------~-~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~-----------~~~~~  169 (355)
                               . .....+.......            ++.++++||+|.+.++.++.|+..++++           -.+++
T Consensus        97 l~g~~~gy~g~~~~~~l~~~~~~~------------~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~i  164 (315)
T d1r6bx3          97 LIGAPPGYVGFDQGGLLTDAVIKH------------PHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVV  164 (315)
T ss_dssp             SCCCCSCSHHHHHTTHHHHHHHHC------------SSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEE
T ss_pred             hcccCCCccccccCChhhHHHHhC------------ccchhhhcccccccchHhhhhHHhhccceecCCCCCccCccceE
Confidence                     0 0001111111111            4459999999999999999999999863           24677


Q ss_pred             EEEEecCCc-------------------------cccccccCCee-eEEecCCCHHHHHHHHHHHHHH-------c--CC
Q psy17903        170 FCLICNYVS-------------------------CIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQ-------E--SV  214 (355)
Q Consensus       170 ~Il~~~~~~-------------------------~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~-------~--~~  214 (355)
                      +|+++|--.                         .+.|.+..|.. ++.|.+++.+++.+++...+..       .  .+
T Consensus       165 iI~Tsnig~~~i~~~~~~~~~~~~~~~~~~~l~~~f~pEflnRid~ii~f~~l~~~~~~~I~~~~l~~~~~~l~~~~i~l  244 (315)
T d1r6bx3         165 LVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSL  244 (315)
T ss_dssp             EEEEECSSCC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEE
T ss_pred             EEeccchhhHHHHhhhccchhhhhhHhHHHHHHHhcCHHHHhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhcCcch
Confidence            888887211                         24566778886 7899999999998887665542       2  24


Q ss_pred             CCCHHHHHHHHHHc
Q psy17903        215 MCDFKALETLVETS  228 (355)
Q Consensus       215 ~~~~~~~~~l~~~~  228 (355)
                      .++++++++++..+
T Consensus       245 ~~~~~a~~~l~~~~  258 (315)
T d1r6bx3         245 EVSQEARNWLAEKG  258 (315)
T ss_dssp             EECHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHhC
Confidence            57899999998764

>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=99.49  E-value=1.1e-13  Score=112.24  Aligned_cols=161  Identities=17%  Similarity=0.194  Sum_probs=113.5

Q ss_pred             cccccCCCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-----cccceeeecCCC---
Q psy17903         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNASD---  106 (355)
Q Consensus        35 ~~~k~~p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~---  106 (355)
                      ++++.+...++.++|+++.++++.+.+......|++|.||||+|||++++.+++.+..+.     .+..+++++.+.   
T Consensus        12 lt~~a~~g~ld~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiA   91 (195)
T d1jbka_          12 LTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVA   91 (195)
T ss_dssp             HHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHT
T ss_pred             HHHHHHcCCCCCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhc
Confidence            345556667889999999999999999988878899999999999999999999886422     234567776543   


Q ss_pred             -ccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCCCHH--------HHHHHHHHhhhccCCccEEEEecCC
Q psy17903        107 -DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------AQAALRRTMEKETKSTRFCLICNYV  177 (355)
Q Consensus       107 -~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l~~~--------~~~~Ll~~le~~~~~~~~Il~~~~~  177 (355)
                       ......+.+.+..........        .+.-|+||||++.+...        ..+.|..+|++  ....+|.+|+..
T Consensus        92 g~~~rG~~E~rl~~il~e~~~~--------~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~r--g~l~~IgatT~e  161 (195)
T d1jbka_          92 GAKYRGEFEERLKGVLNDLAKQ--------EGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTLD  161 (195)
T ss_dssp             TTCSHHHHHHHHHHHHHHHHHS--------TTTEEEEEETGGGGTT------CCCCHHHHHHHHHT--TSCCEEEEECHH
T ss_pred             cCCccHHHHHHHHHHHHHHhcC--------CCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhC--CCceEEecCCHH
Confidence             222333444333322211000        02238999999999532        23778888884  456777777632


Q ss_pred             -----ccccccccCCeeeEEecCCCHHHHHHHH
Q psy17903        178 -----SCIIQPLTSRCSKFRFKPLAENTMLTRL  205 (355)
Q Consensus       178 -----~~l~~~l~sr~~~i~~~~~~~~~~~~~l  205 (355)
                           -.-.++|.+|+..|.+..|+.++...+|
T Consensus       162 ey~~~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         162 EYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHHHHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence                 2347899999999999999999887654

>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=99.49  E-value=2.8e-13  Score=121.86  Aligned_cols=187  Identities=18%  Similarity=0.201  Sum_probs=113.1

Q ss_pred             cccccHHHHHHHHHHHh------------------------------cCCCCeEEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         46 DVIEQQEVVSVLKKCLS------------------------------GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~------------------------------~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      .++||+++++.+..++.                              .....++||.||+|||||.+|+++++.+     
T Consensus        18 ~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~-----   92 (364)
T d1um8a_          18 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL-----   92 (364)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT-----
T ss_pred             eecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhc-----
Confidence            58899999988876652                              1223349999999999999999999986     


Q ss_pred             ccceeeecCCCccchHHH----HHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCCC--------------CHHHHHHH
Q psy17903         96 RERILELNASDDRGIQVI----RDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM--------------THAAQAAL  157 (355)
Q Consensus        96 ~~~~~~~~~~~~~~~~~i----~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~l--------------~~~~~~~L  157 (355)
                      +.+++.++++........    ...+............     .+++.+|++||++..              .++.++.|
T Consensus        93 ~~~~ir~D~s~~~e~gyvg~dv~~~i~~l~~~~~~~v~-----~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~l  167 (364)
T d1um8a_          93 DIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQ-----KAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQAL  167 (364)
T ss_dssp             TCCEEEEEGGGCC--------CTHHHHHHHHHTTTCHH-----HHTTSEEEEETGGGC--------------CHHHHHHH
T ss_pred             ccceeehhhhhcccchhhHhhhccchhhhhhhchhHHH-----HhhcccchhhhhhhhccccccccccccccchHHHHhh
Confidence            335666666554332111    1111221111100000     013459999999994              45679999


Q ss_pred             HHHhhhcc-------------CCccEEEEecC------------------------------------------------
Q psy17903        158 RRTMEKET-------------KSTRFCLICNY------------------------------------------------  176 (355)
Q Consensus       158 l~~le~~~-------------~~~~~Il~~~~------------------------------------------------  176 (355)
                      ++.++...             .+.+++.++|-                                                
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             12222222221                                                


Q ss_pred             -CccccccccCCee-eEEecCCCHHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHc---CCCHHHHHHH
Q psy17903        177 -VSCIIQPLTSRCS-KFRFKPLAENTMLTRLQY-----------ICEQESV--MCDFKALETLVETS---GGDMRRAITC  238 (355)
Q Consensus       177 -~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~-----------~~~~~~~--~~~~~~~~~l~~~~---~g~~r~~~~~  238 (355)
                       ...+.|.+..|.. ++.|.+++.+++.+++..           .++.+|+  .+++++++.|++.+   +--.|.+...
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             0013455666765 689999999999998852           2333455  56899999999864   3344555555


Q ss_pred             HHHH
Q psy17903        239 LQSC  242 (355)
Q Consensus       239 l~~~  242 (355)
                      ++++
T Consensus       328 ie~~  331 (364)
T d1um8a_         328 IEDF  331 (364)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5554

>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=99.38  E-value=1.1e-14  Score=131.04  Aligned_cols=168  Identities=15%  Similarity=0.062  Sum_probs=91.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADS  148 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~  148 (355)
                      ++||||||||||++|.++++.+     +..++++|+++..+...+..........................++++||+|.
T Consensus       157 ~~~~g~~~~gk~~~~~~~~~~~-----~~~~i~in~s~~rs~~~l~~~~~~~~~l~d~~~~~~~~~~~~~~~~~~DeiD~  231 (362)
T d1svma_         157 WLFKGPIDSGKTTLAAALLELC-----GGKALNVNLPLDRLNFELGVAIDQFLVVFEDVKGTGGESRDLPSGQGINNLDN  231 (362)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH-----CCEEECCSSCTTTHHHHHGGGTTCSCEEETTCCCSTTTTTTCCCCSHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHc-----CCCEEEEECcchhhHHHHHhHHHHHHHHHHHHHHhhhhccCCCCeEEEehHhh
Confidence            9999999999999999999999     44678888887544332221111000000000000000000113556666665


Q ss_pred             CCHHHHHHHHHHhhhcc------CCccEEEEecCCcc-ccccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHH
Q psy17903        149 MTHAAQAALRRTMEKET------KSTRFCLICNYVSC-IIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKAL  221 (355)
Q Consensus       149 l~~~~~~~Ll~~le~~~------~~~~~Il~~~~~~~-l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  221 (355)
                      |...........++...      ....+|++||+... +..+++.++.++.+.++.......++..+++++.+..+.+.+
T Consensus       232 l~~~~dg~~~~~~~~~~~~~~~~~~~p~i~ttN~~~~~~~r~~Rf~~~i~~~~~~~~~~~~~~l~~i~~~~~l~~~~~~L  311 (362)
T d1svma_         232 LRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNEYSVPKTLQARFVKQIDFRPKDYLKHCLERSEFLLEKRIIQSGIALL  311 (362)
T ss_dssp             THHHHHCSSCEEECCSSSCCEEECCCCEEEEECSCCCCHHHHTTEEEEEECCCCHHHHHHHHTCTHHHHTTCTTCHHHHH
T ss_pred             cccccCCcchhhhhhhhhchhhhccCCceeecccccccccccccCceEEeecCCCcHHHHHHHHHHHhcccCCCCCHHHH
Confidence            53221111101111111      12347888886432 333344444444455555566667788888888888887777


Q ss_pred             HHHH-HHcCCCHHHHHHHHHH
Q psy17903        222 ETLV-ETSGGDMRRAITCLQS  241 (355)
Q Consensus       222 ~~l~-~~~~g~~r~~~~~l~~  241 (355)
                      ..+. ..+++|++.+++.+..
T Consensus       312 ~~li~~~s~~D~~~~i~~~~~  332 (362)
T d1svma_         312 LMLIWYRPVAEFAQSIQSRIV  332 (362)
T ss_dssp             HHHHHHSCGGGSCGGGHHHHH
T ss_pred             HHHccCCCHHHHHHHHHHHHH
Confidence            6544 5567788888776643

>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=99.23  E-value=2e-10  Score=99.11  Aligned_cols=191  Identities=17%  Similarity=0.179  Sum_probs=110.8

Q ss_pred             CCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeec---CCCccchHHHHHHHHH
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN---ASDDRGIQVIRDKVKT  119 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~---~~~~~~~~~i~~~i~~  119 (355)
                      +-++++|+++.++.|.+.    ..++++|+||+|+|||++++.+++.+.....   ++...   .........+...+..
T Consensus        10 ~~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~---~i~~~~~~~~~~~~~~~~~~~~~~   82 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINELNLPYI---YLDLRKFEERNYISYKDFLLELQK   82 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHHTCCEE---EEEGGGGTTCSCCCHHHHHHHHHH
T ss_pred             ChhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHCCCCeE---EEEeccccccccccHHHHHHHHHH
Confidence            568999999999888763    3346999999999999999999998743221   11111   1111111211111111


Q ss_pred             HHHhh-----------cc-------C------CCCCC------------CCCCCcEEEEEeCCCCCCHHH----HHHHHH
Q psy17903        120 FAQQT-----------AS-------G------FNQDG------------KPCPPFKIVILDEADSMTHAA----QAALRR  159 (355)
Q Consensus       120 ~~~~~-----------~~-------~------~~~~~------------~~~~~~~vliiDe~d~l~~~~----~~~Ll~  159 (355)
                      .....           ..       .      .....            .......++++||++.+....    ...|..
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~~~l~~  162 (283)
T d2fnaa2          83 EINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPALAY  162 (283)
T ss_dssp             HHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHHHH
T ss_pred             HhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchHHHHHHHHH
Confidence            10000           00       0      00000            000234589999998875422    233333


Q ss_pred             HhhhccCCccEEEEecCCcc---c-------cccccCCeeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Q psy17903        160 TMEKETKSTRFCLICNYVSC---I-------IQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSG  229 (355)
Q Consensus       160 ~le~~~~~~~~Il~~~~~~~---l-------~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~  229 (355)
                      .... ...+.+++++.....   +       .+....+...+.+.+++.++..+++.+.+...++..+  .++.+.+.++
T Consensus       163 ~~~~-~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~--~~~~i~~~~~  239 (283)
T d2fnaa2         163 AYDN-LKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFK--DYEVVYEKIG  239 (283)
T ss_dssp             HHHH-CTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCC--CHHHHHHHHC
T ss_pred             HHHh-hhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHH--HHHHHHHHhC
Confidence            3333 334455555543211   1       1222334568999999999999999999988776554  4678999999


Q ss_pred             CCHHHHHHHHHHHH
Q psy17903        230 GDMRRAITCLQSCA  243 (355)
Q Consensus       230 g~~r~~~~~l~~~~  243 (355)
                      |++..+......+.
T Consensus       240 G~P~~L~~~~~~~~  253 (283)
T d2fnaa2         240 GIPGWLTYFGFIYL  253 (283)
T ss_dssp             SCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            99986555444443

>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=99.12  E-value=3e-10  Score=80.75  Aligned_cols=86  Identities=22%  Similarity=0.422  Sum_probs=78.0

Q ss_pred             ChHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHH
Q psy17903        264 PNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQI  340 (355)
Q Consensus       264 ~~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l  340 (355)
                      +++.+.++++.   +++..+...+++++..||+..+++.++.+++.....+++..+.+++..+++++++|..|.++++||
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            34456666666   999999999999999999999999999998877667999999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy17903        341 LDLGSIVIK  349 (355)
Q Consensus       341 ~~~~~~~~~  349 (355)
                      ..+++++++
T Consensus        82 ~~lla~i~~   90 (91)
T d1sxjd1          82 LNLLVKISQ   90 (91)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHc
Confidence            999999975

>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=99.09  E-value=6.7e-10  Score=78.91  Aligned_cols=88  Identities=11%  Similarity=0.231  Sum_probs=78.9

Q ss_pred             ChHHHHHHHhcCCHHHHHHHHHHH-HHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHH
Q psy17903        264 PNPWIEKLLKVDSFQVLEKYIEDL-ILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILD  342 (355)
Q Consensus       264 ~~~~~~~l~~~~~~~~~~~~l~~l-~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~  342 (355)
                      .++.+.+++..+++..+...++++ .+.||+..+++.++.+++.....+++..+.++++.+++++++|..|.++++||..
T Consensus         2 ~P~~I~~il~~~~f~~a~~~l~~~l~~~Gys~~DIi~~l~~~i~~~~~~~e~~k~~il~~la~~~~rl~~G~~e~lQL~~   81 (92)
T d1sxjb1           2 HPLIVKKMLLASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMRILEGVGTYLQLAS   81 (92)
T ss_dssp             CHHHHHHHHSCSSHHHHHHHHHHTTTTTTCCHHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHHHHHHTTCCCHHHHHH
T ss_pred             CHHHHHHHHHhCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHcCCCcHHHHHH
Confidence            456777788778999999999885 4789999999999999998766789999999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy17903        343 LGSIVIKAN  351 (355)
Q Consensus       343 ~~~~~~~~~  351 (355)
                      +++++++..
T Consensus        82 lla~i~~i~   90 (92)
T d1sxjb1          82 MLAKIHKLN   90 (92)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHh
Confidence            999998764

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=99.09  E-value=8.9e-11  Score=102.56  Aligned_cols=119  Identities=13%  Similarity=0.147  Sum_probs=71.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccc------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEE
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVI  142 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vli  142 (355)
                      +||+||||||||.+|++++.++...   .+++.+++++..+      ...++..+......               .|||
T Consensus       126 ~l~~G~pG~GKT~la~ala~~~~~~---~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~~---------------~ilf  187 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEALGGK---DKYATVRFGEPLSGYNTDFNVFVDDIARAMLQH---------------RVIV  187 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHHHHTT---SCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHC---------------SEEE
T ss_pred             EEEECCCCccHHHHHHHHHHHhcCC---CCeEEEEhhHhhhcccchHHHHHHHHHHHHhhc---------------cEEE
Confidence            6779999999999999999998542   2456667665322      23455554443221               1999


Q ss_pred             EeCCCCCCHH------------HHHHHHHHhhh--ccCCccEEEEecCCccccccc----cC--Ce-eeEEecCCCHHHH
Q psy17903        143 LDEADSMTHA------------AQAALRRTMEK--ETKSTRFCLICNYVSCIIQPL----TS--RC-SKFRFKPLAENTM  201 (355)
Q Consensus       143 iDe~d~l~~~------------~~~~Ll~~le~--~~~~~~~Il~~~~~~~l~~~l----~s--r~-~~i~~~~~~~~~~  201 (355)
                      |||+|.+...            ..+.|+.-|+.  ...++++|.+||. ..+.+++    .+  |+ ..+.+.+|+.+..
T Consensus       188 ~DEid~~~~~r~~~~~~~~~~r~v~~lL~e~dg~~~~~~v~viaatN~-~~~~~~i~~~~~r~~Rf~~~v~v~~pd~~~r  266 (321)
T d1w44a_         188 IDSLKNVIGAAGGNTTSGGISRGAFDLLSDIGAMAASRGCVVIASLNP-TSNDDKIVELVKEASRSNSTSLVISTDVDGE  266 (321)
T ss_dssp             EECCTTTC-----------CCHHHHHHHHHHHHHHHHHTCEEEEECCC-CCCCHHHHHHHHHHHHHSCSEEEEECSSTTE
T ss_pred             eehhhhhccccccCCCCCcchhhhhhhhhhccccccCCCeEEEEeCCC-cccccchhhhhhccCcccceeecCCCChHHH
Confidence            9999999542            23455555542  2345777777774 3333332    22  22 2566667776655


Q ss_pred             HHHHH
Q psy17903        202 LTRLQ  206 (355)
Q Consensus       202 ~~~l~  206 (355)
                      ..++.
T Consensus       267 ~~il~  271 (321)
T d1w44a_         267 WQVLT  271 (321)
T ss_dssp             EEEEE
T ss_pred             HHHHH
Confidence            44443

>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=99.06  E-value=1.5e-09  Score=77.60  Aligned_cols=87  Identities=22%  Similarity=0.345  Sum_probs=78.3

Q ss_pred             ChHHHHHHHhc---CCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHH
Q psy17903        264 PNPWIEKLLKV---DSFQVLEKYIEDLI-LEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQ  339 (355)
Q Consensus       264 ~~~~~~~l~~~---~~~~~~~~~l~~l~-~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~  339 (355)
                      .|+.+.++++.   +++..++..+++++ ..|+++.+|+.++.+++... ++++..+.+++..+++++++|..|.++++|
T Consensus         3 ~P~~I~~il~~~l~~~f~~a~~~l~~l~~~~G~s~~dIl~~l~~~v~~~-~~~~~~k~~ll~~la~~d~rL~~G~~e~iQ   81 (95)
T d1iqpa1           3 RPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFNL-PIEEPKKVLLADKIGEYNFRLVEGANEIIQ   81 (95)
T ss_dssp             CHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHGGGS-SSCHHHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             CcHHHHHHHHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhc-CCCHHHHHHHHHHHHHHHHHHHcCCChHHH
Confidence            46677777776   99999999999985 57999999999999988765 699999999999999999999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy17903        340 ILDLGSIVIKAN  351 (355)
Q Consensus       340 l~~~~~~~~~~~  351 (355)
                      |+.|+++++..-
T Consensus        82 L~alla~~~~i~   93 (95)
T d1iqpa1          82 LEALLAQFTLIG   93 (95)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998653

>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=99.01  E-value=3.1e-09  Score=75.99  Aligned_cols=88  Identities=14%  Similarity=0.180  Sum_probs=76.9

Q ss_pred             ChHHHHHHHhc---CCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHH
Q psy17903        264 PNPWIEKLLKV---DSFQVLEKYIEDLI-LEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQ  339 (355)
Q Consensus       264 ~~~~~~~l~~~---~~~~~~~~~l~~l~-~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~  339 (355)
                      .++.+.++++.   +++..++..+++++ +.|+++.+|+.++.+++......++..+.++++.+++++++|..|.++++|
T Consensus         2 ~P~~I~~il~~~l~~~f~~a~~~l~~l~~~~G~s~~dIl~~l~~~i~~~~~~~~~~k~~ll~~la~~e~rL~~G~~e~lQ   81 (95)
T d1sxjc1           2 RPSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLLTKLADIEYSISKGGNDQIQ   81 (95)
T ss_dssp             CHHHHHHHHHHHHTSCHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHHHHTTCCCHHHH
T ss_pred             CHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHcCCCcHHH
Confidence            35566667766   99999999999987 569999999999999988875556778899999999999999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy17903        340 ILDLGSIVIKAN  351 (355)
Q Consensus       340 l~~~~~~~~~~~  351 (355)
                      |..+++.++..+
T Consensus        82 L~~lla~~~~~~   93 (95)
T d1sxjc1          82 GSAVIGAIKASF   93 (95)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHh
Confidence            999999997654

>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=98.99  E-value=1.2e-08  Score=88.03  Aligned_cols=184  Identities=15%  Similarity=0.109  Sum_probs=106.0

Q ss_pred             cccccHHHHHHHHHHHhcC-CC-C-eEEEECCCCCCHHHHHHHHHHHhcC--CccccceeeecCCCccchHHHHHHHHHH
Q psy17903         46 DVIEQQEVVSVLKKCLSGA-DL-P-HFLFYGPPGTGKTSTMIAACHQLFG--DMYRERILELNASDDRGIQVIRDKVKTF  120 (355)
Q Consensus        46 ~~vg~~~~~~~l~~~l~~~-~~-~-~~ll~Gp~G~GKt~la~~l~~~l~~--~~~~~~~~~~~~~~~~~~~~i~~~i~~~  120 (355)
                      .++|++..++.|...+... .. . .+.|+|+.|+|||++|+.+.+....  .......+-++.+.......+...+...
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            4679999999998887542 22 2 2889999999999999999887421  1111122233333333333333333322


Q ss_pred             HHhhccC----CCCCCCC--------------CCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCCccccc
Q psy17903        121 AQQTASG----FNQDGKP--------------CPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQ  182 (355)
Q Consensus       121 ~~~~~~~----~~~~~~~--------------~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~  182 (355)
                      .......    .......              ...+-++|+||+...  ....    .+.  ...+.+|+||.+. .+..
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~--~~~~----~~~--~~~srilvTTR~~-~v~~  171 (277)
T d2a5yb3         101 LMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQE--ETIR----WAQ--ELRLRCLVTTRDV-EISN  171 (277)
T ss_dssp             HHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCH--HHHH----HHH--HTTCEEEEEESBG-GGGG
T ss_pred             HHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHH--hhhh----hhc--ccCceEEEEeehH-HHHH
Confidence            2111000    0000000              013448999999742  2222    222  2245666666544 4445


Q ss_pred             cccCCeeeEEecCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHH
Q psy17903        183 PLTSRCSKFRFKPLAENTMLTRLQYICEQESV-MCDFKALETLVETSGGDMRRAITC  238 (355)
Q Consensus       183 ~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~~~~l~~~~~g~~r~~~~~  238 (355)
                      .+...+..+++++++.++..+.+...+..... .-.++..+.+++.|+|.|-.+.-.
T Consensus       172 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~i  228 (277)
T d2a5yb3         172 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMF  228 (277)
T ss_dssp             GCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHH
Confidence            56667778999999999999998765432221 112456788999999999665443

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=98.98  E-value=2.9e-08  Score=90.80  Aligned_cols=125  Identities=22%  Similarity=0.212  Sum_probs=79.3

Q ss_pred             EEEEEeCCCCCC------------HHHHHHHHHHhhhcc----------CCccEEEEec----CCccccccccCCee-eE
Q psy17903        139 KIVILDEADSMT------------HAAQAALRRTMEKET----------KSTRFCLICN----YVSCIIQPLTSRCS-KF  191 (355)
Q Consensus       139 ~vliiDe~d~l~------------~~~~~~Ll~~le~~~----------~~~~~Il~~~----~~~~l~~~l~sr~~-~i  191 (355)
                      .++++||++...            ...+..++..++...          .+..+|..+.    .+.-+.|.+.-|.. ++
T Consensus       251 ~~~~~dei~k~~~~~~~~g~d~~~eg~~~~ll~~~e~~~v~~~~~~~~~~~~l~i~~~~~~~~~~~gliPEliGRlPi~v  330 (443)
T d1g41a_         251 GIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGRLPIRV  330 (443)
T ss_dssp             CEEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSSCCGGGSCHHHHTTCCEEE
T ss_pred             CccccchhhhhhhcccCCCCCcccchhhhhhhhhccccccccccccccccchhhccccchhhcccccchhhhccceEEEE
Confidence            478899988663            134556666665321          1223333322    12347888999976 78


Q ss_pred             EecCCCHHHHHHHHH-----------HHHHHcCCC--CCHHHHHHHHHHcC--------CCHHHHHHHHHHHHHhh----
Q psy17903        192 RFKPLAENTMLTRLQ-----------YICEQESVM--CDFKALETLVETSG--------GDMRRAITCLQSCARLK----  246 (355)
Q Consensus       192 ~~~~~~~~~~~~~l~-----------~~~~~~~~~--~~~~~~~~l~~~~~--------g~~r~~~~~l~~~~~~~----  246 (355)
                      .|.+++.+++.++|.           ..+..+|+.  +++++++.+++.+-        -..|.+...++++-.-.    
T Consensus       331 ~L~~L~~~dL~rILtEPknsLikQy~~lf~~~gv~L~ft~~al~~iA~~A~~~n~~~~~~GAR~Lr~i~E~~l~~~~f~~  410 (443)
T d1g41a_         331 ELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLMDKISFSA  410 (443)
T ss_dssp             ECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCCCGGGHHHHHHHHHHHHHHHHG
T ss_pred             EccCccHHHHHHHHHhhhhhHHHHHHHHHhhcCcEEEEcHHHHHHHHHHHHHhhhhcccCCchHHHHHHHHHHHHHhccC
Confidence            999999999998874           233345665  58999999987652        24577777777663311    


Q ss_pred             ---CC--CCCCHHHHHHHhCCC
Q psy17903        247 ---GG--EGIVNEDVLEVTGVI  263 (355)
Q Consensus       247 ---~~--~~It~~~v~~~~~~~  263 (355)
                         ..  -.||.+.|.+.+...
T Consensus       411 p~~~~~~v~Id~~~v~~~l~~~  432 (443)
T d1g41a_         411 SDMNGQTVNIDAAYVADALGEV  432 (443)
T ss_dssp             GGCTTCEEEECHHHHHHHHTTT
T ss_pred             CCCCCCEEEECHHHHHhhhhch
Confidence               11  247788887777554

>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=98.53  E-value=3.5e-07  Score=64.15  Aligned_cols=75  Identities=15%  Similarity=0.187  Sum_probs=67.8

Q ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHHHH
Q psy17903        277 FQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKAN  351 (355)
Q Consensus       277 ~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~~~  351 (355)
                      ..+++..+|+|+.+++++..|+..+...+....+.++.-+.++++..+.++++++.|....++||+|++++|..+
T Consensus        24 L~~iR~~lYeLL~~cIpp~~Ilk~L~~~Ll~~~~~d~~lk~eii~~aa~yE~Rl~~GsK~IfHLEaFvAkfM~~l   98 (99)
T d1sxje1          24 LIECRAVLYDLLAHCIPANIILKELTFSLLDVETLNTTNKSSIIEYSSVFDERLSLGNKAIFHLEGFIAKVMCCL   98 (99)
T ss_dssp             HHHHHHHHHHHHTTTCCHHHHHHHHHHTTTTCTTSCHHHHHHHHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhhc
Confidence            345788999999999999999999998886544678888899999999999999999999999999999999876

>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=98.48  E-value=2e-07  Score=74.23  Aligned_cols=25  Identities=28%  Similarity=0.457  Sum_probs=22.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +++|.||+|+||||+++.++..+..
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            4899999999999999999998853

>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=98.34  E-value=1.3e-06  Score=69.75  Aligned_cols=117  Identities=23%  Similarity=0.338  Sum_probs=70.7

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCC
Q psy17903         52 EVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQ  130 (355)
Q Consensus        52 ~~~~~l~~~l~~~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~  130 (355)
                      ..+..|+.++++....+ ++|+|||++|||+++.++++.+.+..     +....+..           .|.-.+.     
T Consensus        38 ~Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~v-----is~~N~~s-----------~F~Lq~l-----   96 (205)
T d1tuea_          38 TFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAV-----ISFVNSTS-----------HFWLEPL-----   96 (205)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEE-----CCCCCSSS-----------CGGGGGG-----
T ss_pred             HHHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHhCCEE-----EeccCCCC-----------Ccccccc-----
Confidence            44567778886543334 99999999999999999999985422     12111110           1111111     


Q ss_pred             CCCCCCCcEEEEEeCCCCCCHHHHHH-HHHHhhhcc-------------CCccEEEEecCC---ccccccccCCeeeEEe
Q psy17903        131 DGKPCPPFKIVILDEADSMTHAAQAA-LRRTMEKET-------------KSTRFCLICNYV---SCIIQPLTSRCSKFRF  193 (355)
Q Consensus       131 ~~~~~~~~~vliiDe~d~l~~~~~~~-Ll~~le~~~-------------~~~~~Il~~~~~---~~l~~~l~sr~~~i~~  193 (355)
                           .+.+++++||+......-.+. +...++..+             ..+.+|+++|..   +.-.+.|.+|...++|
T Consensus        97 -----~~~kv~l~dD~t~~~~~~~d~~lK~ll~G~~vsvd~KhK~~vqi~~pPliITsN~~~~~~d~~~~L~sRi~~f~F  171 (205)
T d1tuea_          97 -----TDTKVAMLDDATTTCWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLESRITVFEF  171 (205)
T ss_dssp             -----TTCSSEEEEEECHHHHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHTSCEEEEC
T ss_pred             -----cCCeEEEEeccccchHHHHHHHHHhccCCCeeeeecccCCcccccCCCEEEEcCCCCCccccchhhhheEEEEEC
Confidence                 145699999986655443343 444554210             123466777743   2345678999999888


Q ss_pred             c
Q psy17903        194 K  194 (355)
Q Consensus       194 ~  194 (355)
                      +
T Consensus       172 ~  172 (205)
T d1tuea_         172 P  172 (205)
T ss_dssp             C
T ss_pred             C
Confidence            7

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=98.26  E-value=4.3e-07  Score=77.41  Aligned_cols=58  Identities=26%  Similarity=0.448  Sum_probs=39.9

Q ss_pred             CCCcccccHHHHHHHHHHHhc---CCCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCC
Q psy17903         43 TIDDVIEQQEVVSVLKKCLSG---ADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~l~~---~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  105 (355)
                      +|.+.-+++...+.+......   ...|. +||+||||||||++|++++.++..     +++.+|++
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~~~~~-----~~~~i~~d   66 (273)
T d1gvnb_           5 NFTDKQFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQG-----NVIVIDND   66 (273)
T ss_dssp             CCCHHHHHHHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHTTT-----CCEEECTH
T ss_pred             ccChHHHHHHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHHHhhc-----ceEEEecH
Confidence            344554555555666555433   33344 999999999999999999999844     45566653

>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=98.06  E-value=1.7e-05  Score=60.83  Aligned_cols=22  Identities=27%  Similarity=0.332  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|+|+||+||||+|+.+++..
T Consensus         5 Iii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            7899999999999999998765

>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=98.06  E-value=2.6e-05  Score=68.94  Aligned_cols=122  Identities=15%  Similarity=0.135  Sum_probs=66.5

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCc-cccceeeecCCCccchHHHHHHHHHHHHhhccCC
Q psy17903         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-YRERILELNASDDRGIQVIRDKVKTFAQQTASGF  128 (355)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~  128 (355)
                      .+.....+...+.+   +-.+|+||||||||+++..+...+.... ....-+.+-++.......+.+.+...........
T Consensus       150 ~~~Q~~A~~~al~~---~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~~~~~~~~~~~~  226 (359)
T d1w36d1         150 INWQKVAAAVALTR---RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESLGKALRQLPLTD  226 (359)
T ss_dssp             CCHHHHHHHHHHTB---SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHHTHHHHHSSCCS
T ss_pred             ccHHHHHHHHHHcC---CeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHHHHHHhhcCchh
Confidence            34455556666543   2489999999999999877666553211 1111233333333333444444333221111000


Q ss_pred             C--------------------------CCCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhhccCCccEEEEecCC
Q psy17903        129 N--------------------------QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYV  177 (355)
Q Consensus       129 ~--------------------------~~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~  177 (355)
                      .                          ......-+..+|||||+..++......++..+   +.+..+|++++..
T Consensus       227 ~~~~~~~~~~~t~~~ll~~~~~~~~~~~~~~~~l~~d~lIIDEaSmv~~~l~~~ll~~~---~~~~~lILvGD~~  298 (359)
T d1w36d1         227 EQKKRIPEDASTLHRLLGAQPGSQRLRHHAGNPLHLDVLVVDEASMIDLPMMSRLIDAL---PDHARVIFLGDRD  298 (359)
T ss_dssp             CCCCSCSCCCBTTTSCC-----------CTTSCCSCSEEEECSGGGCBHHHHHHHHHTC---CTTCEEEEEECTT
T ss_pred             hhhhhhhhhhhHHHHHHhhhhcchHHHHhhhcccccceeeehhhhccCHHHHHHHHHHh---cCCCEEEEECChh
Confidence            0                          00000014569999999999877666666555   4567888888643

>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=97.94  E-value=3.9e-06  Score=66.41  Aligned_cols=80  Identities=15%  Similarity=0.143  Sum_probs=46.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEeCCCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADS  148 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~vliiDe~d~  148 (355)
                      ++++|+||+||||+|+.++...       .+..++..+......+...+.....              .++.+|+|... 
T Consensus        17 iil~G~pGsGKST~a~~l~~~~-------~~~~i~~D~~~~~~~~~~~~~~~l~--------------~g~~vIiD~t~-   74 (172)
T d1yj5a2          17 VVAVGFPGAGKSTFIQEHLVSA-------GYVHVNRDTLGSWQRCVSSCQAALR--------------QGKRVVIDNTN-   74 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHTGGG-------TCEEEEHHHHCSHHHHHHHHHHHHH--------------TTCCEEEESCC-
T ss_pred             EEEECCCCCCHHHHHHHHHHhc-------CCEEEchHHHHHHHHHHHHHHHHHH--------------CCCCceeeCcC-
Confidence            9999999999999999887654       2333443333333333333333332              12357888665 


Q ss_pred             CCHHHHHHHHHHhhhccCCccE
Q psy17903        149 MTHAAQAALRRTMEKETKSTRF  170 (355)
Q Consensus       149 l~~~~~~~Ll~~le~~~~~~~~  170 (355)
                      ........++....+....+.+
T Consensus        75 ~~~~~R~~~~~~a~~~~~~~~~   96 (172)
T d1yj5a2          75 PDVPSRARYIQCAKDAGVPCRC   96 (172)
T ss_dssp             CSHHHHHHHHHHHHHHTCCEEE
T ss_pred             CCHHHHHHHHHHHHhcCCCEEE
Confidence            4445555666665554433333

>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=97.89  E-value=2.6e-05  Score=59.17  Aligned_cols=124  Identities=10%  Similarity=0.041  Sum_probs=82.4

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCcccc-ceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCCC
Q psy17903         56 VLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRE-RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKP  134 (355)
Q Consensus        56 ~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~-~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~  134 (355)
                      +|.+.++++-.|-|+|||+...-+..+...+.+.+..+.... .....+  .....+.   .+......+.++       
T Consensus         8 ~L~~~l~k~l~~vyll~G~E~~L~~~~~~~i~~~~~~~~~~~~~~~~~~--~~~~~~~---l~~~~~t~slF~-------   75 (140)
T d1jqlb_           8 QLRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSID--PNTDWNA---IFSLCQAMSLFA-------   75 (140)
T ss_dssp             GHHHHHHHCCCSEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEECCCCS--TTCCHHH---HHHHHHCCCTTC-------
T ss_pred             HHHHHHhcCCCcEEEEEcChHHHHHHHHHHHHHHHHhCCcceeeeeccc--ccCCHHH---HHHHHcCCCccc-------
Confidence            456667766444499999998888888888877765443321 222222  2233333   334443444332       


Q ss_pred             CCCcEEEEEeCCCCCC-HHHHHHHHHHhhhccCCccEEEEecCCc------cccccccCCeeeEEe
Q psy17903        135 CPPFKIVILDEADSMT-HAAQAALRRTMEKETKSTRFCLICNYVS------CIIQPLTSRCSKFRF  193 (355)
Q Consensus       135 ~~~~~vliiDe~d~l~-~~~~~~Ll~~le~~~~~~~~Il~~~~~~------~l~~~l~sr~~~i~~  193 (355)
                        ++++|+|++.+... ....+.|.++++.++.++++|+.++..+      ++.+++.+++.+|.+
T Consensus        76 --~krli~i~~~~~~~~k~~~~~L~~~~~~~~~~~~lii~~~~~~k~~~~~k~~K~l~k~g~vI~C  139 (140)
T d1jqlb_          76 --SRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTC  139 (140)
T ss_dssp             --CCEEEEEECCTTCSCTTHHHHHHHHHHHCCSSCCEEEECSSCCTTGGGSHHHHHHGGGCEEEEC
T ss_pred             --CcEEEEEEcCCCCCcHHHHHHHHHHHhCCCCCEEEEEEcCCCCchhhhhHHHHHHHhCCeEEeC
Confidence              77899999987655 4556789999999999999999887543      356777787777765

>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=97.84  E-value=1.6e-05  Score=64.42  Aligned_cols=32  Identities=28%  Similarity=0.337  Sum_probs=25.8

Q ss_pred             CCCCe-EEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         64 ADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        64 ~~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      +..|+ ++|.||+|+||||.+-.+|..+.....
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~   38 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFEQQGK   38 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHHTTTC
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCC
Confidence            34466 889999999999999999988765443

>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=97.81  E-value=1.3e-05  Score=65.01  Aligned_cols=148  Identities=9%  Similarity=0.068  Sum_probs=69.3

Q ss_pred             CCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCCCCC-----------
Q psy17903         66 LPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK-----------  133 (355)
Q Consensus        66 ~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~-----------  133 (355)
                      .|+ ++|.||+|+||||++-.+|..+.....+..++..|.......+.++...... ..+.........           
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~ga~eQL~~~a~~l-~v~~~~~~~~~~~~~~~~~a~~~   89 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQI-GVPVYGEPGEKDVVGIAKRGVEK   89 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCSSHHHHHHHHHHHHHH-TCCEECCTTCCCHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeeccccchhHHHHHhcccc-CcceeecccchhhhHHHHHHHHH
Confidence            456 8889999999999999999877554444445555544333333322211111 111100000000           


Q ss_pred             -CCCCcEEEEEeCCCCCCHH----HHHHHHHHhhhc-cCCccEEEEecCCccccccccCCe-----eeEEecCCCHHHHH
Q psy17903        134 -PCPPFKIVILDEADSMTHA----AQAALRRTMEKE-TKSTRFCLICNYVSCIIQPLTSRC-----SKFRFKPLAENTML  202 (355)
Q Consensus       134 -~~~~~~vliiDe~d~l~~~----~~~~Ll~~le~~-~~~~~~Il~~~~~~~l~~~l~sr~-----~~i~~~~~~~~~~~  202 (355)
                       ...++.+|+||=+.+...+    ....+.++.+.. +..+.+++.++........+..++     ..+-|.++++....
T Consensus        90 ~~~~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~~~~~~~~lI~TKlDet~~~  169 (211)
T d1j8yf2          90 FLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQASKIGTIIITKMDGTAKG  169 (211)
T ss_dssp             HHHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHHCTTEEEEEECTTSCSCH
T ss_pred             hhccCCceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhhcccCcceEEEecccCCCcc
Confidence             0024569999988875432    123444444433 234455555543322222222221     23557777766555


Q ss_pred             HHHHHHHHHcCC
Q psy17903        203 TRLQYICEQESV  214 (355)
Q Consensus       203 ~~l~~~~~~~~~  214 (355)
                      .-+-..+...++
T Consensus       170 G~~l~~~~~~~l  181 (211)
T d1j8yf2         170 GGALSAVAATGA  181 (211)
T ss_dssp             HHHHHHHHTTTC
T ss_pred             cHHHHHHHHHCc
Confidence            555555544443

>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=97.78  E-value=4.5e-05  Score=64.37  Aligned_cols=115  Identities=17%  Similarity=0.184  Sum_probs=69.2

Q ss_pred             HHHHHHHHHhcCCC-Ce-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHhhccCCCC
Q psy17903         53 VVSVLKKCLSGADL-PH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQ  130 (355)
Q Consensus        53 ~~~~l~~~l~~~~~-~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~  130 (355)
                      ....+..++.++.. .+ ++|+||+++|||+++.++.+.+ +..     ..++.+..           .+.-...     
T Consensus        89 f~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l-g~~-----~~~~~~~~-----------~f~l~~l-----  146 (267)
T d1u0ja_          89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV-PFY-----GCVNWTNE-----------NFPFNDC-----  146 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS-SCE-----EECCTTCS-----------SCTTGGG-----
T ss_pred             HHHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh-cch-----hhccccCC-----------Ccccccc-----
Confidence            34566677754433 23 9999999999999999999987 321     11221111           0000011     


Q ss_pred             CCCCCCCcEEEEEeCCCCCCHHHHHHHHHHhhh--------------ccCCccEEEEecCCccc----------cccccC
Q psy17903        131 DGKPCPPFKIVILDEADSMTHAAQAALRRTMEK--------------ETKSTRFCLICNYVSCI----------IQPLTS  186 (355)
Q Consensus       131 ~~~~~~~~~vliiDe~d~l~~~~~~~Ll~~le~--------------~~~~~~~Il~~~~~~~l----------~~~l~s  186 (355)
                           .+.+++++||+..-. ...+.+..++..              ....+++|+++|+....          ..++++
T Consensus       147 -----~~k~~~~~~e~~~~~-~~~~~~K~l~gGd~i~v~~K~k~~~~~~~~p~li~s~n~i~~~~~~~~~~~~~~~~l~~  220 (267)
T d1u0ja_         147 -----VDKMVIWWEEGKMTA-KVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQD  220 (267)
T ss_dssp             -----SSCSEEEECSCCEET-TTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTEEECTTHHHHHT
T ss_pred             -----CCCEEEEEeCCCccc-cHHHHHHHhcCCCceEeecccCCCcEeeCCeEEEEeCCCcccccCCCccccccchHhhh
Confidence                 155699999987543 233455555532              12356777777765432          357999


Q ss_pred             CeeeEEecC
Q psy17903        187 RCSKFRFKP  195 (355)
Q Consensus       187 r~~~i~~~~  195 (355)
                      |...+.|..
T Consensus       221 R~~~~~F~~  229 (267)
T d1u0ja_         221 RMFKFELTR  229 (267)
T ss_dssp             TEEEEECCS
T ss_pred             hEEEEECCC
Confidence            999888754

>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=97.76  E-value=8.8e-06  Score=63.79  Aligned_cols=25  Identities=36%  Similarity=0.590  Sum_probs=23.2

Q ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         66 LPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        66 ~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+.++|.||||+||||+++.+++.+
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4669999999999999999999998

>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=97.75  E-value=5.7e-05  Score=56.76  Aligned_cols=21  Identities=29%  Similarity=0.431  Sum_probs=17.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+|.+|+|+|||.++-.++..
T Consensus        11 ~ll~apTGsGKT~~~~~~~~~   31 (136)
T d1a1va1          11 AHLHAPTGSGKSTKVPAAYAA   31 (136)
T ss_dssp             EEEECCTTSCTTTHHHHHHHT
T ss_pred             EEEEeCCCCCHHHHHHHHHHH
Confidence            799999999999987655443

>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=97.72  E-value=2.2e-05  Score=58.44  Aligned_cols=82  Identities=13%  Similarity=0.151  Sum_probs=67.1

Q ss_pred             HHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh---------------------------------cCCC
Q psy17903        268 IEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS---------------------------------ASSL  311 (355)
Q Consensus       268 ~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~---------------------------------~~~~  311 (355)
                      +|+++++   +|..++..+++.+...|.++..++..+.++++.                                 .+.+
T Consensus         3 ~F~L~dai~~gd~~~a~~il~~l~~~g~~~~~il~~l~~~~~~l~~i~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~   82 (127)
T d1jr3d1           3 PFHWVDALLMGKSKRALHILQQLRLEGSEPVILLRTLQRELLLLVNLKRQSAHTPLRALFDKHRVWQNRRGMMGEALNRL   82 (127)
T ss_dssp             HHHHHHHHTTSCHHHHHHHHTSSTTTTCCHHHHHHHHHHHHHHHHHHHTCSSSSCHHHHHHHHTCCSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHcCCCHHHHHHHHHHHHhC
Confidence            5667776   888888888888888888888888777765552                                 2568


Q ss_pred             CHHHHHHHHHHHHHHHHHhhCC--CChHHHHHHHHHHHHH
Q psy17903        312 SDKQKALILEKLAECNARLQDG--ASEYIQILDLGSIVIK  349 (355)
Q Consensus       312 ~~~~~~~i~~~l~~~~~~l~~g--~~~~~~l~~~~~~~~~  349 (355)
                      +...+.+++..+.++|..+|+|  .+.+..||.++.++|.
T Consensus        83 s~~~l~~~l~~l~~~D~~~K~~~~~~~~~~le~l~l~lc~  122 (127)
T d1jr3d1          83 SQTQLRQAVQLLTRTELTLKQDYGQSVWAELEGLSLLLCH  122 (127)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHSSCSCHHHHHHHHHHHTTS
T ss_pred             CHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC
Confidence            8999999999999999999976  4777899999999983

>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=97.71  E-value=5.6e-05  Score=56.63  Aligned_cols=23  Identities=22%  Similarity=0.294  Sum_probs=17.0

Q ss_pred             eEEEECCCCCCHHHHHH-HHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMI-AACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~-~l~~~l   90 (355)
                      +++|++|+|+|||..+- .+.+..
T Consensus         9 ~~il~~~tGsGKT~~~~~~~~~~~   32 (140)
T d1yksa1           9 TTVLDFHPGAGKTRRFLPQILAEC   32 (140)
T ss_dssp             EEEECCCTTSSTTTTHHHHHHHHH
T ss_pred             cEEEEcCCCCChhHHHHHHHHHHh
Confidence            58999999999996663 444433

>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=97.67  E-value=6.8e-05  Score=60.79  Aligned_cols=42  Identities=17%  Similarity=0.219  Sum_probs=30.7

Q ss_pred             CCCe-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC
Q psy17903         65 DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (355)
Q Consensus        65 ~~~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  106 (355)
                      ..|+ ++|.||+|+||||.+-.+|..+.....+..++..|...
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~R   51 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFR   51 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeecccc
Confidence            3455 89999999999999999998876554444455555443

>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=97.67  E-value=1.5e-05  Score=61.72  Aligned_cols=24  Identities=29%  Similarity=0.477  Sum_probs=22.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +++|.||+|+||||+++.+++.+.
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L~   27 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQLN   27 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999999984

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.62  E-value=1.9e-05  Score=61.72  Aligned_cols=25  Identities=28%  Similarity=0.438  Sum_probs=22.8

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      |+++|.|+||+||||+++.+++.++
T Consensus         2 p~IvliG~~G~GKSTig~~La~~l~   26 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAKALG   26 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHhC
Confidence            5678889999999999999999993

>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=97.57  E-value=2e-05  Score=62.19  Aligned_cols=26  Identities=38%  Similarity=0.649  Sum_probs=23.5

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .|++|+||||+|||++++.+++.+..
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~   27 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKS   27 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            46999999999999999999999853

>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=97.56  E-value=2e-05  Score=61.64  Aligned_cols=27  Identities=30%  Similarity=0.575  Sum_probs=23.6

Q ss_pred             CCe-EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         66 LPH-FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        66 ~~~-~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .++ ++|.||||+||||+++.+++.+..
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~~l~~   32 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAHQLHA   32 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            345 889999999999999999999843

>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=97.54  E-value=0.00029  Score=56.93  Aligned_cols=42  Identities=24%  Similarity=0.252  Sum_probs=32.1

Q ss_pred             ccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         47 VIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        47 ~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +--++.+.+.+..+++++   +.++.+|+|+|||.++-.++..+.
T Consensus        69 ~~Lr~yQ~eav~~~~~~~---~~ll~~~tG~GKT~~a~~~~~~~~  110 (206)
T d2fz4a1          69 ISLRDYQEKALERWLVDK---RGCIVLPTGSGKTHVAMAAINELS  110 (206)
T ss_dssp             CCCCHHHHHHHHHHTTTS---EEEEEESSSTTHHHHHHHHHHHSC
T ss_pred             CCcCHHHHHHHHHHHhCC---CcEEEeCCCCCceehHHhHHHHhc
Confidence            345667777777776543   468899999999999988888764

>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=97.54  E-value=0.00017  Score=59.70  Aligned_cols=37  Identities=24%  Similarity=0.295  Sum_probs=28.8

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        57 l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      |.+.+.+|-.+.  ++|+||||+|||+++..++......
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            455566554444  9999999999999999999987543

>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=97.52  E-value=2.3e-05  Score=61.95  Aligned_cols=25  Identities=12%  Similarity=0.112  Sum_probs=22.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .++|.||+|+||||+|++|++.++.
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            4999999999999999999999843

>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=97.51  E-value=2.3e-05  Score=62.72  Aligned_cols=27  Identities=26%  Similarity=0.267  Sum_probs=23.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      ++|+|+||+||||+|+.|++.+.....
T Consensus        22 I~L~G~pGSGKTTiAk~La~~l~~~~~   48 (195)
T d1x6va3          22 VWLTGLSGAGKTTVSMALEEYLVCHGI   48 (195)
T ss_dssp             EEEESSCHHHHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCC
Confidence            779999999999999999999865433

>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=97.50  E-value=0.00053  Score=55.16  Aligned_cols=35  Identities=23%  Similarity=0.334  Sum_probs=26.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeec
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~  103 (355)
                      ++|.||+|+||||++-.+|..+.....+..++..|
T Consensus        13 i~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~D   47 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAAD   47 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecc
Confidence            78899999999999999998876544433334433

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.45  E-value=4.3e-05  Score=59.36  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=21.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++|.|+||+||||+++.+++.+
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHh
Confidence            47888999999999999999999

>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=97.45  E-value=0.00091  Score=49.21  Aligned_cols=85  Identities=8%  Similarity=0.026  Sum_probs=73.6

Q ss_pred             hHHHHHHHhc---CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-------------------------cCCCCHHHH
Q psy17903        265 NPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS-------------------------ASSLSDKQK  316 (355)
Q Consensus       265 ~~~~~~l~~~---~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-------------------------~~~~~~~~~  316 (355)
                      .+.+++++++   +|...+...++++...|.++..++..+.++++.                         +..++...+
T Consensus         4 ~~~~~~L~~~I~~~d~~~~L~~l~~i~~~G~d~~~~l~~L~~~~r~l~~~k~~~~~~~~~~~~~~~~~~~~a~~~~~~~L   83 (126)
T d1jr3a1           4 DDQALSLVEAMVEANGERVMALINEAAARGIEWEALLVEMLGLLHRIAMVQLSPAALGNDMAAIELRMRELARTIPPTDI   83 (126)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHTTCTTCCCSGGGGTHHHHHHHHHHSCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhcccccccchHHHHHHHHHHHHcCCHHHH
Confidence            4566777776   999999999999999999999999998887763                         123677888


Q ss_pred             HHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q psy17903        317 ALILEKLAECNARLQDGASEYIQILDLGSIVIK  349 (355)
Q Consensus       317 ~~i~~~l~~~~~~l~~g~~~~~~l~~~~~~~~~  349 (355)
                      .++++.+.+....++...+.++.+|..+.+++.
T Consensus        84 ~~~~~il~~~~~~ik~s~~~r~~~Em~llrll~  116 (126)
T d1jr3a1          84 QLYYQTLLIGRKELPYAPDRRMGVEMTLLRALA  116 (126)
T ss_dssp             HHHHHHHHHHHHHTTTSSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHH
Confidence            899999999999999999999999999999764

>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=97.44  E-value=3.3e-05  Score=60.28  Aligned_cols=24  Identities=33%  Similarity=0.569  Sum_probs=22.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|+||||+||||+|+.+++.+..
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            899999999999999999999743

>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=97.42  E-value=0.00031  Score=56.53  Aligned_cols=36  Identities=19%  Similarity=0.114  Sum_probs=26.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  104 (355)
                      ++|.||+|+||||++-.+|..+.....+..++..|.
T Consensus         9 i~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt   44 (207)
T d1okkd2           9 VLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDT   44 (207)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEecc
Confidence            889999999999999999988765444333444443

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.41  E-value=4.6e-05  Score=59.58  Aligned_cols=23  Identities=43%  Similarity=0.625  Sum_probs=21.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++|+||||+||||+++.|++.+
T Consensus         7 ~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           7 NILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHh
Confidence            49999999999999999999997

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.38  E-value=4.7e-05  Score=59.78  Aligned_cols=24  Identities=21%  Similarity=0.141  Sum_probs=22.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|+|+||+||||+|++|++.+..
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            889999999999999999999854

>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=97.38  E-value=0.0002  Score=57.65  Aligned_cols=27  Identities=26%  Similarity=0.222  Sum_probs=23.6

Q ss_pred             Ce-EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         67 PH-FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        67 ~~-~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      |. ++++|.||+||||+|+++++.+...
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~   29 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFI   29 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            44 8999999999999999999988543

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.38  E-value=7.4e-05  Score=58.06  Aligned_cols=38  Identities=24%  Similarity=0.318  Sum_probs=28.8

Q ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeec
Q psy17903         66 LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (355)
Q Consensus        66 ~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~  103 (355)
                      .|.+.|+|++|+||||+++.+++.+........++..+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~~d   39 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHT   39 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEeccc
Confidence            35689999999999999999999986554443344333

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.37  E-value=5.8e-05  Score=59.15  Aligned_cols=24  Identities=21%  Similarity=0.228  Sum_probs=22.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +++|.|+||+||||+++.+++.++
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg   27 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALG   27 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            478899999999999999999993

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.32  E-value=7.8e-05  Score=58.26  Aligned_cols=24  Identities=17%  Similarity=0.220  Sum_probs=22.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|+|++|+||||+|++|++.+..
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            889999999999999999999853

>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=97.32  E-value=4.5e-05  Score=59.71  Aligned_cols=22  Identities=32%  Similarity=0.533  Sum_probs=20.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.||||+||||+++.+++.+
T Consensus         7 I~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTCS
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8899999999999999999886

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.24  E-value=9.4e-05  Score=58.93  Aligned_cols=25  Identities=16%  Similarity=0.235  Sum_probs=22.8

Q ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         66 LPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        66 ~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +..++|.||||+||||+|+.+++.+
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3459999999999999999999998

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.21  E-value=8.3e-05  Score=59.45  Aligned_cols=22  Identities=23%  Similarity=0.513  Sum_probs=21.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.||||+||||+|+.|++.+
T Consensus         9 I~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           9 VFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8999999999999999999997

>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=97.17  E-value=0.001  Score=59.33  Aligned_cols=52  Identities=17%  Similarity=0.284  Sum_probs=42.0

Q ss_pred             CCCCCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         41 PKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      +.+++++.-.+.....+.+++.... .-+||+||+|+||||++.++.+.+...
T Consensus       134 ~~~l~~LG~~~~~~~~l~~l~~~~~-GliLvtGpTGSGKSTTl~~~l~~~~~~  185 (401)
T d1p9ra_         134 RLDLHSLGMTAHNHDNFRRLIKRPH-GIILVTGPTGSGKSTTLYAGLQELNSS  185 (401)
T ss_dssp             CCCGGGSCCCHHHHHHHHHHHTSSS-EEEEEECSTTSCHHHHHHHHHHHHCCT
T ss_pred             chhhhhhcccHHHHHHHHHHHhhhh-ceEEEEcCCCCCccHHHHHHhhhhcCC
Confidence            3467788778888889988886432 129999999999999999999998654

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.11  E-value=0.00018  Score=56.55  Aligned_cols=28  Identities=25%  Similarity=0.329  Sum_probs=24.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYR   96 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~   96 (355)
                      ++|.|++|+||||+++.+++.+.....+
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            8999999999999999999998665443

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.05  E-value=0.00017  Score=56.76  Aligned_cols=23  Identities=22%  Similarity=0.443  Sum_probs=21.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++|.||||+||||.++.+++.+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37899999999999999999998

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.04  E-value=0.00042  Score=54.93  Aligned_cols=41  Identities=17%  Similarity=0.110  Sum_probs=28.4

Q ss_pred             HHHHHHHHHhcCCC--Ce-EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         53 VVSVLKKCLSGADL--PH-FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        53 ~~~~l~~~l~~~~~--~~-~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      .++.|...+.+...  +- +-|.|++|+||||+|+.|+..+...
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            34444444433322  22 5699999999999999999987643

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.01  E-value=0.00023  Score=56.64  Aligned_cols=26  Identities=23%  Similarity=0.396  Sum_probs=22.9

Q ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         65 DLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        65 ~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.-.++|.||||+||||+++.+++.+
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHH
Confidence            34458899999999999999999987

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.00  E-value=0.00019  Score=57.43  Aligned_cols=23  Identities=22%  Similarity=0.398  Sum_probs=21.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      -++|.||||+||||+|+.+++.+
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            38999999999999999999987

>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=97.00  E-value=0.0012  Score=54.25  Aligned_cols=43  Identities=28%  Similarity=0.375  Sum_probs=30.8

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCcc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVSC  179 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~  179 (355)
                      +.+++++||.- .|.......+.+.+.+......+|++|++...
T Consensus       157 ~p~ililDEpts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~~  200 (241)
T d2pmka1         157 NPKILIFDEATSALDYESEHVIMRNMHKICKGRTVIIIAHRLST  200 (241)
T ss_dssp             CCSEEEECCCCSCCCHHHHHHHHHHHHHHHTTSEEEEECSSGGG
T ss_pred             ccchhhhhCCccccCHHHHHHHHHHHHHHhCCCEEEEEECCHHH
Confidence            45699999985 46666677777777665555667788887653

>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=96.96  E-value=0.00023  Score=56.13  Aligned_cols=24  Identities=33%  Similarity=0.665  Sum_probs=21.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +++|.||||+||||.++.|++.++
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g   25 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLG   25 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            378999999999999999999983

>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=96.96  E-value=0.0017  Score=54.18  Aligned_cols=24  Identities=25%  Similarity=0.410  Sum_probs=21.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ..|+||||+|||+++..++.....
T Consensus        57 tei~G~~gsGKTtl~l~~~~~~q~   80 (263)
T d1u94a1          57 VEIYGPESSGKTTLTLQVIAAAQR   80 (263)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEecCCCcHHHHHHHHHHHHHHc
Confidence            999999999999999998887754

>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=96.96  E-value=0.00023  Score=56.62  Aligned_cols=23  Identities=26%  Similarity=0.583  Sum_probs=21.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.||||+||||.++.|++.+
T Consensus         5 riil~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           5 RAVLLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37889999999999999999997

>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=96.95  E-value=0.00026  Score=56.43  Aligned_cols=23  Identities=22%  Similarity=0.421  Sum_probs=21.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.||||+||||.|+.+++.+
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            38999999999999999999998

>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=96.95  E-value=0.0038  Score=50.85  Aligned_cols=48  Identities=17%  Similarity=0.186  Sum_probs=39.4

Q ss_pred             CCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      |+.--.|..+.+.+...+..+...+.||+|..|+|||.++-..+....
T Consensus        54 ~~lt~~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~  101 (233)
T d2eyqa3          54 FETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAV  101 (233)
T ss_dssp             SCCCHHHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHH
T ss_pred             cccchhHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHH
Confidence            555556888888999999988877799999999999999877766543

>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=96.95  E-value=0.00024  Score=56.04  Aligned_cols=23  Identities=22%  Similarity=0.452  Sum_probs=21.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.||||+||||.|+.|++.+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37899999999999999999998

>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=96.89  E-value=0.00029  Score=55.53  Aligned_cols=23  Identities=26%  Similarity=0.598  Sum_probs=21.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.||||+||||+++.+++.+
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37889999999999999999997

>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=96.86  E-value=0.00037  Score=54.92  Aligned_cols=27  Identities=22%  Similarity=0.258  Sum_probs=23.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      ++|.|++|+||||+++.+++.+.....
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            688999999999999999999865443

>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=96.84  E-value=0.0028  Score=51.86  Aligned_cols=42  Identities=10%  Similarity=0.139  Sum_probs=28.5

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhcc--CCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKET--KSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~--~~~~~Il~~~~~~  178 (355)
                      +-+++++||-- .|.+.....+.+.+.+..  .+..+|++|++..
T Consensus       157 ~P~iLllDEPt~~LD~~~~~~i~~~l~~l~~~~g~tvi~vTHd~~  201 (240)
T d1g2912         157 KPQVFLMDEPLSNLDAKLRVRMRAELKKLQRQLGVTTIYVTHDQV  201 (240)
T ss_dssp             CCSEEEEECTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHH
T ss_pred             CCCEEEecCCCcccCHHHHHHHHHHHHHHHhccCCEEEEEcCCHH
Confidence            44699999974 566666777777665532  2566778888754

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.82  E-value=0.00035  Score=55.67  Aligned_cols=23  Identities=22%  Similarity=0.416  Sum_probs=21.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      -++|.||||+||||.|+.+++.+
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            48899999999999999999987

>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=96.82  E-value=0.00038  Score=56.48  Aligned_cols=24  Identities=33%  Similarity=0.523  Sum_probs=22.1

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      |-+.|.||||+||+|.++.+++.+
T Consensus         4 piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            448888999999999999999998

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.81  E-value=0.0036  Score=50.93  Aligned_cols=22  Identities=27%  Similarity=0.510  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +-|.||.|+||||+++.++.-.
T Consensus        29 ~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          29 VVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHhcCC
Confidence            8899999999999999998755

>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=96.80  E-value=0.00033  Score=55.00  Aligned_cols=24  Identities=17%  Similarity=0.258  Sum_probs=21.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|.||||+||||.++.+++.++
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~   25 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYG   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            378999999999999999999983

>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=96.80  E-value=0.0035  Score=51.20  Aligned_cols=42  Identities=12%  Similarity=0.165  Sum_probs=28.1

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhc--cCCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKE--TKSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~--~~~~~~Il~~~~~~  178 (355)
                      +-+++++||-- .|.+.....+.+.+.+.  ..+..+|++|++..
T Consensus       154 ~P~iLllDEPts~LD~~~~~~i~~ll~~l~~~~g~tii~vTHd~~  198 (239)
T d1v43a3         154 EPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLKVTTIYVTHDQV  198 (239)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHH
T ss_pred             CCCceeecCCcccCCHHHHHHHHHHHHHHHHhcCCeEEEEeCCHH
Confidence            44699999974 56666666666666553  22556777887754

>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=96.80  E-value=0.00096  Score=53.14  Aligned_cols=22  Identities=27%  Similarity=0.335  Sum_probs=17.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +.|+.+|+|+|||.++..++..
T Consensus        25 n~lv~~pTGsGKT~i~~~~~~~   46 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIAMMIAEY   46 (200)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEeCCCCcHHHHHHHHHHH
Confidence            4789999999999876655543

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.71  E-value=0.00059  Score=55.41  Aligned_cols=22  Identities=18%  Similarity=0.407  Sum_probs=20.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.||||+||||.|+.|++.+
T Consensus         6 IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           6 IAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5677999999999999999998

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.70  E-value=0.002  Score=53.38  Aligned_cols=43  Identities=19%  Similarity=0.319  Sum_probs=30.4

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCcc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVSC  179 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~  179 (355)
                      +.+++++||.- .|.+.....+.+.+.+......+|++|++...
T Consensus       172 ~p~ililDEpts~LD~~t~~~i~~~l~~l~~~~TvI~itH~~~~  215 (255)
T d2hyda1         172 NPPILILDEATSALDLESESIIQEALDVLSKDRTTLIVAHRLST  215 (255)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHTTTSEEEEECSSGGG
T ss_pred             CCCEEEEeCccccCCHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence            34699999985 55666677777777765555567778877653

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.69  E-value=0.0016  Score=53.75  Aligned_cols=35  Identities=26%  Similarity=0.263  Sum_probs=27.2

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        57 l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      |-.++.+|-++.  ++|+||||+|||+++..++....
T Consensus        25 LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          25 LDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             HHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            445555554444  99999999999999999988764

>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=96.69  E-value=0.0031  Score=51.49  Aligned_cols=23  Identities=22%  Similarity=0.384  Sum_probs=20.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||.|+||||+++.++..+.
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~~   49 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIVK   49 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCChHHHHHHHHHcCCC
Confidence            66889999999999999998763

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.61  E-value=0.0035  Score=51.89  Aligned_cols=43  Identities=23%  Similarity=0.353  Sum_probs=29.4

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccCCccEEEEecCCcc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVSC  179 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~  179 (355)
                      +.+++++||.- .|.......+.+.|.+...+..+|++|++...
T Consensus       170 ~p~ililDEpts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~~  213 (253)
T d3b60a1         170 DSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLST  213 (253)
T ss_dssp             CCSEEEEETTTSSCCHHHHHHHHHHHHHHHTTSEEEEECSCGGG
T ss_pred             CCCEEEeccccccCCHHHHHHHHHHHHHhccCCEEEEEECCHHH
Confidence            34699999985 45566666777777655445567778877653

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.56  E-value=0.0006  Score=55.02  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=21.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|+|.||+||||+|+.|.+.+.
T Consensus        27 IwltGlsGsGKTTia~~L~~~l~   49 (208)
T d1m7ga_          27 IWLTGLSASGKSTLAVELEHQLV   49 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            99999999999999999998774

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.52  E-value=0.0009  Score=51.67  Aligned_cols=35  Identities=17%  Similarity=0.171  Sum_probs=26.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeec
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~  103 (355)
                      +-|.|++|+||||++..+++.+....+...++..+
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik~d   38 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKHH   38 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEEec
Confidence            56999999999999999999987654444444333

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.51  E-value=0.0039  Score=51.15  Aligned_cols=36  Identities=25%  Similarity=0.193  Sum_probs=27.6

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        56 ~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .|-.++.+|-++.  ++|+||||+|||+++..++....
T Consensus        25 ~LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~~   62 (258)
T d1v5wa_          25 EFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQ   62 (258)
T ss_dssp             HHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTT
T ss_pred             HHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3445555565444  99999999999999999987653

>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=96.50  E-value=0.0097  Score=49.53  Aligned_cols=36  Identities=25%  Similarity=0.252  Sum_probs=26.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  106 (355)
                      ..|+||+|+|||+++..++.......  ..++++|...
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            89999999999999999888765432  2455555543

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.48  E-value=0.00087  Score=53.86  Aligned_cols=37  Identities=24%  Similarity=0.105  Sum_probs=27.6

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        56 ~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      .|-..+.+|-.+.  ++|+||||+|||+++..++.....
T Consensus        11 ~LD~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~~   49 (242)
T d1n0wa_          11 ELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQL   49 (242)
T ss_dssp             HHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTS
T ss_pred             HHHHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            3445555554444  999999999999999999877543

>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=96.43  E-value=0.0083  Score=49.93  Aligned_cols=36  Identities=22%  Similarity=0.300  Sum_probs=25.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  106 (355)
                      ..|+||+|+|||+++..++.......  ..++.+|...
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            99999999999999987777654322  2344555443

>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=96.43  E-value=0.0013  Score=50.51  Aligned_cols=21  Identities=24%  Similarity=0.458  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++..+.+.
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

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=96.40  E-value=0.0022  Score=55.35  Aligned_cols=44  Identities=18%  Similarity=0.293  Sum_probs=33.3

Q ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCc
Q psy17903         64 ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (355)
Q Consensus        64 ~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  107 (355)
                      ++...+-|+||||+||||++.++++.+........++.++++..
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~   95 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSP   95 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC--
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCcee
Confidence            33333999999999999999999998876555666777777653

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.39  E-value=0.0023  Score=49.40  Aligned_cols=22  Identities=18%  Similarity=0.372  Sum_probs=19.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|.+|+|||+++..+...-
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999998653

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.39  E-value=0.00089  Score=52.91  Aligned_cols=24  Identities=25%  Similarity=0.437  Sum_probs=21.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++|+||+|+|||++++.+++...
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            389999999999999999999864

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.37  E-value=0.001  Score=52.71  Aligned_cols=23  Identities=22%  Similarity=0.462  Sum_probs=21.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|+||+|+|||++++.+++...
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            78999999999999999999874

>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=96.37  E-value=0.0079  Score=45.59  Aligned_cols=21  Identities=29%  Similarity=0.461  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.|++|+|||++..++...
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998754

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.33  E-value=0.00089  Score=54.94  Aligned_cols=35  Identities=20%  Similarity=0.143  Sum_probs=26.0

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHh
Q psy17903         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        56 ~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .|-..+.+|-++.  ++|+||||+|||+++..++...
T Consensus        22 ~LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          22 NLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             HHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTT
T ss_pred             HHHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3445555554444  9999999999999998887653

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.31  E-value=0.019  Score=43.73  Aligned_cols=22  Identities=18%  Similarity=0.342  Sum_probs=19.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|.+|+|||+++.++...-
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999998753

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=96.31  E-value=0.0028  Score=54.52  Aligned_cols=38  Identities=26%  Similarity=0.316  Sum_probs=30.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  106 (355)
                      +=|+||||+||||++.++.+.+.....+..++.+|.+.
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            89999999999999999999876555556666666554

>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=96.26  E-value=0.0016  Score=52.00  Aligned_cols=38  Identities=16%  Similarity=0.227  Sum_probs=24.8

Q ss_pred             CcEEEEEeCCCCCCHH----HHHHHHHHhhhccCCccEEEEe
Q psy17903        137 PFKIVILDEADSMTHA----AQAALRRTMEKETKSTRFCLIC  174 (355)
Q Consensus       137 ~~~vliiDe~d~l~~~----~~~~Ll~~le~~~~~~~~Il~~  174 (355)
                      ...+||+||+|.+..+    ..+.++..+.+.+.++.+|+.+
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            3459999999988532    3445666666655566666544

>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=96.26  E-value=0.0065  Score=46.40  Aligned_cols=22  Identities=18%  Similarity=0.163  Sum_probs=19.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|++|+|||+++..+...-
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            7899999999999999987653

>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=96.24  E-value=0.011  Score=47.51  Aligned_cols=41  Identities=24%  Similarity=0.374  Sum_probs=26.2

Q ss_pred             CcEEEEEeCCCCCCHHH-HHHHHHHhhhccCCccEEEEecCC
Q psy17903        137 PFKIVILDEADSMTHAA-QAALRRTMEKETKSTRFCLICNYV  177 (355)
Q Consensus       137 ~~~vliiDe~d~l~~~~-~~~Ll~~le~~~~~~~~Il~~~~~  177 (355)
                      .-+.+|+||+|.|.... .+.+..+++..+....+++.+...
T Consensus       155 ~l~~lVlDEaD~ll~~~f~~~~~~Il~~~~~~~Q~il~SAT~  196 (218)
T d2g9na1         155 YIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATM  196 (218)
T ss_dssp             TCCEEEEESHHHHHHTTCHHHHHHHHHHSCTTCEEEEEESCC
T ss_pred             cceEEEeeecchhhcCchHHHHHHHHHhCCCCCeEEEEEecC
Confidence            45699999999986532 344455555555566677666543

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.21  E-value=0.011  Score=48.57  Aligned_cols=42  Identities=21%  Similarity=0.290  Sum_probs=28.1

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhccC--CccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETK--STRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~~~--~~~~Il~~~~~~  178 (355)
                      +.+++++||.- .|.......+.+.+.+...  +..+|++|++..
T Consensus       169 ~p~ililDEpTs~LD~~~~~~i~~~l~~l~~~~~~Tvi~itH~l~  213 (251)
T d1jj7a_         169 KPCVLILDDATSALDANSQLQVEQLLYESPERYSRSVLLITQHLS  213 (251)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHTCGGGGGCEEEEECSCHH
T ss_pred             CCcEEEecCcCcccChhhHHHHHHHHHHHhhhcCCEEEEEeCCHH
Confidence            45699999984 5566666677777755332  455677787654

>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=96.18  E-value=0.0014  Score=51.48  Aligned_cols=23  Identities=17%  Similarity=0.394  Sum_probs=21.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.||+|+||||+++.+.+...
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHST
T ss_pred             EEEECCCCCCHHHHHHHHHhhCC
Confidence            88999999999999999988863

>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=96.15  E-value=0.012  Score=48.72  Aligned_cols=47  Identities=17%  Similarity=0.111  Sum_probs=37.4

Q ss_pred             CCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      |+---.|..+++.+..-+.++...+-||+|..|+|||.++-..+...
T Consensus        82 FeLT~~Q~~ai~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~a~~~~  128 (264)
T d1gm5a3          82 FKLTNAQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILDN  128 (264)
T ss_dssp             SCCCHHHHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHHHH
T ss_pred             ccCCchHHHHHHHHHHHhhccCcceeeeeccccccccHHHHHHHHHH
Confidence            43344688888888888888877678999999999999987766554

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.10  E-value=0.0047  Score=47.34  Aligned_cols=22  Identities=23%  Similarity=0.406  Sum_probs=19.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++..+...-
T Consensus         6 i~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7999999999999999988753

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=96.08  E-value=0.0022  Score=55.28  Aligned_cols=40  Identities=18%  Similarity=0.319  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         51 QEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +.....|..+++.+.  +++++|++|+||||++++++..+..
T Consensus       153 ~~~~~~l~~~v~~~~--nili~G~tgSGKTT~l~al~~~i~~  192 (323)
T d1g6oa_         153 EQAISAIKDGIAIGK--NVIVCGGTGSGKTTYIKSIMEFIPK  192 (323)
T ss_dssp             HHHHHHHHHHHHHTC--CEEEEESTTSSHHHHHHHHGGGSCT
T ss_pred             HHHHHHHHHHHHhCC--CEEEEeeccccchHHHHHHhhhccc
Confidence            456677777787664  6999999999999999999987743

>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=96.07  E-value=0.0023  Score=49.44  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=19.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|.+|+|||++++.+.+.-
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999998743

>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=96.06  E-value=0.017  Score=45.91  Aligned_cols=41  Identities=17%  Similarity=0.213  Sum_probs=27.8

Q ss_pred             CCCCCcccccHHHHHHHHHH---------------HhcCCCCeEEEECCCCCCHHHHH
Q psy17903         41 PKTIDDVIEQQEVVSVLKKC---------------LSGADLPHFLFYGPPGTGKTSTM   83 (355)
Q Consensus        41 p~~~~~~vg~~~~~~~l~~~---------------l~~~~~~~~ll~Gp~G~GKt~la   83 (355)
                      +.+|+++--++++.+.|.+.               +-.|  .++++..|+|+|||...
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            45677776667666655432               1223  35999999999999664

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=96.06  E-value=0.0074  Score=46.35  Aligned_cols=21  Identities=19%  Similarity=0.382  Sum_probs=19.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|.+|+|||+++..+...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998764

>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=96.03  E-value=0.013  Score=46.92  Aligned_cols=41  Identities=22%  Similarity=0.255  Sum_probs=28.5

Q ss_pred             CCCcccccHHHHHHHHHH---------------HhcCCCCeEEEECCCCCCHHHHHHH
Q psy17903         43 TIDDVIEQQEVVSVLKKC---------------LSGADLPHFLFYGPPGTGKTSTMIA   85 (355)
Q Consensus        43 ~~~~~vg~~~~~~~l~~~---------------l~~~~~~~~ll~Gp~G~GKt~la~~   85 (355)
                      +|+++--+++..+.|.+.               +-.|  .++++.+|+|+|||...-.
T Consensus        11 sF~~l~l~~~l~~~L~~~g~~~pt~iQ~~aip~il~g--~dvl~~a~TGsGKT~a~~l   66 (212)
T d1qdea_          11 KFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEG--HDVLAQAQSGTGKTGTFSI   66 (212)
T ss_dssp             CGGGGTCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHH
T ss_pred             ChhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcC--CCEEeecccccchhhhhHh
Confidence            577776677777776532               1122  3599999999999987543

>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=96.02  E-value=0.023  Score=45.15  Aligned_cols=40  Identities=18%  Similarity=0.273  Sum_probs=25.7

Q ss_pred             CcEEEEEeCCCCCCH--HHHHHHHHHhhhccCCccEEEEecC
Q psy17903        137 PFKIVILDEADSMTH--AAQAALRRTMEKETKSTRFCLICNY  176 (355)
Q Consensus       137 ~~~vliiDe~d~l~~--~~~~~Ll~~le~~~~~~~~Il~~~~  176 (355)
                      +-+.+++||+|.|..  +..+.+.++++..+....+++.+..
T Consensus       145 ~l~~lVlDEaD~ll~~~~~~~~i~~I~~~~~~~~Q~il~SAT  186 (207)
T d1t6na_         145 HIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSAT  186 (207)
T ss_dssp             TCCEEEEESHHHHHSSHHHHHHHHHHHHTSCSSSEEEEEESC
T ss_pred             ccceeehhhhhhhhhcCCcHHHHHHHHHhCCCCCEEEEEeee
Confidence            446999999997753  3445555666555566666665543

>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=96.01  E-value=0.022  Score=45.27  Aligned_cols=39  Identities=18%  Similarity=0.247  Sum_probs=25.1

Q ss_pred             CcEEEEEeCCCCCCHH-HHHHHHHHhhhccCCccEEEEec
Q psy17903        137 PFKIVILDEADSMTHA-AQAALRRTMEKETKSTRFCLICN  175 (355)
Q Consensus       137 ~~~vliiDe~d~l~~~-~~~~Ll~~le~~~~~~~~Il~~~  175 (355)
                      +-+.+|+||+|.|... -...+..+++..+....+++.+.
T Consensus       143 ~l~~lV~DEaD~l~~~~f~~~v~~I~~~l~~~~Q~il~SA  182 (206)
T d1s2ma1         143 DCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFSA  182 (206)
T ss_dssp             TCCEEEEESHHHHSSHHHHHHHHHHHTTSCSSCEEEEEES
T ss_pred             cceEEEeechhhhhhhhhHHHHHHHHHhCCCCCEEEEEEE
Confidence            3458999999988754 34455555555555566666554

>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=96.00  E-value=0.003  Score=48.91  Aligned_cols=22  Identities=23%  Similarity=0.381  Sum_probs=19.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|.+|+|||+|+..+...-
T Consensus         9 v~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            9999999999999999988643

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.00  E-value=0.0064  Score=46.54  Aligned_cols=22  Identities=18%  Similarity=0.392  Sum_probs=19.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|.+|+|||+++.++...-
T Consensus         7 ivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999988653

>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=96.00  E-value=0.014  Score=47.16  Aligned_cols=40  Identities=25%  Similarity=0.342  Sum_probs=25.7

Q ss_pred             CcEEEEEeCCCCCCHH-HHHHHHHHhhhccCCccEEEEecC
Q psy17903        137 PFKIVILDEADSMTHA-AQAALRRTMEKETKSTRFCLICNY  176 (355)
Q Consensus       137 ~~~vliiDe~d~l~~~-~~~~Ll~~le~~~~~~~~Il~~~~  176 (355)
                      .-+.+|+||+|.|... ....+..+++..+....+++.+..
T Consensus       159 ~l~~lVlDEaD~ll~~~f~~~i~~I~~~l~~~~Q~ilfSAT  199 (222)
T d2j0sa1         159 AIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISAT  199 (222)
T ss_dssp             TCCEEEEETHHHHTSTTTHHHHHHHHTTSCTTCEEEEEESC
T ss_pred             cceeeeecchhHhhhcCcHHHHHHHHHhCCCCCEEEEEEEe
Confidence            4569999999988643 344555556555556666665543

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.96  E-value=0.013  Score=44.95  Aligned_cols=22  Identities=23%  Similarity=0.461  Sum_probs=19.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|.+|+|||+++..+...-
T Consensus         7 i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999998743

>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=95.91  E-value=0.024  Score=47.44  Aligned_cols=23  Identities=30%  Similarity=0.443  Sum_probs=20.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||.|+||||+++.++..+.
T Consensus        65 vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          65 LAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCChHHHHHHHHhCCCc
Confidence            88999999999999999987663

>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=95.90  E-value=0.011  Score=46.87  Aligned_cols=23  Identities=26%  Similarity=0.283  Sum_probs=20.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++|.|++|+|||++..++...-
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            58999999999999999998753

>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=95.87  E-value=0.017  Score=44.28  Aligned_cols=32  Identities=13%  Similarity=0.249  Sum_probs=23.4

Q ss_pred             HHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHH
Q psy17903         57 LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        57 l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +..+..+.. -.++|.|.+|+|||+++.++...
T Consensus         7 ~~~~~~~k~-~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           7 IWRLFNHQE-HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHTTSC-EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHhCCCe-EEEEEECCCCCCHHHHHHHHhcC
Confidence            344444332 34999999999999999988754

>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=95.86  E-value=0.0025  Score=48.45  Aligned_cols=24  Identities=21%  Similarity=0.220  Sum_probs=22.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      ++|.|+=|+|||++++.+++.+..
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

>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=95.79  E-value=0.0046  Score=47.25  Aligned_cols=21  Identities=29%  Similarity=0.431  Sum_probs=19.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|.+|+|||+++.++...
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998864

>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=95.76  E-value=0.031  Score=46.35  Aligned_cols=22  Identities=18%  Similarity=0.262  Sum_probs=20.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|+||+|||+++..++..+
T Consensus        38 ~vi~G~~G~GKT~~~~~la~~~   59 (277)
T d1cr2a_          38 IMVTSGSGMGKSTFVRQQALQW   59 (277)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHhh
Confidence            9999999999999999998654

>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=95.75  E-value=0.02  Score=45.63  Aligned_cols=39  Identities=28%  Similarity=0.370  Sum_probs=24.7

Q ss_pred             CcEEEEEeCCCCCCH-HHHHHHHHHhhhccCCccEEEEec
Q psy17903        137 PFKIVILDEADSMTH-AAQAALRRTMEKETKSTRFCLICN  175 (355)
Q Consensus       137 ~~~vliiDe~d~l~~-~~~~~Ll~~le~~~~~~~~Il~~~  175 (355)
                      +-+.+||||+|.+.. +....+.++++..+.+..+++.+.
T Consensus       145 ~l~~lViDEad~l~~~~~~~~i~~I~~~~~~~~Q~i~~SA  184 (208)
T d1hv8a1         145 NVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFSA  184 (208)
T ss_dssp             SCCEEEEETHHHHHTTTTHHHHHHHHHTSCSSCEEEEECS
T ss_pred             cCcEEEEEChHHhhcCCChHHHHHHHHhCCCCCeEEEEEc
Confidence            446999999997632 223445566665556666666553

>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=95.74  E-value=0.019  Score=46.91  Aligned_cols=43  Identities=14%  Similarity=0.159  Sum_probs=29.1

Q ss_pred             CcEEEEEeCC-CCCCHHHHHHHHHHhhhcc-CCccEEEEecCCcc
Q psy17903        137 PFKIVILDEA-DSMTHAAQAALRRTMEKET-KSTRFCLICNYVSC  179 (355)
Q Consensus       137 ~~~vliiDe~-d~l~~~~~~~Ll~~le~~~-~~~~~Il~~~~~~~  179 (355)
                      +.+++|+||- -.|.+.....+.+.+.+.. ....+|+++++...
T Consensus       157 ~P~lLllDEPt~gLD~~~~~~i~~~i~~l~~~g~til~~tH~l~~  201 (240)
T d1ji0a_         157 RPKLLMMDEPSLGLAPILVSEVFEVIQKINQEGTTILLVEQNALG  201 (240)
T ss_dssp             CCSEEEEECTTTTCCHHHHHHHHHHHHHHHHTTCCEEEEESCHHH
T ss_pred             CCCEeeecCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHH
Confidence            4469999997 4667777777777776532 34567777876543

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.74  E-value=0.003  Score=51.64  Aligned_cols=36  Identities=33%  Similarity=0.412  Sum_probs=27.5

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        56 ~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .|-..+.+|-.+.  ++|+|+||+|||+++..++..+.
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            3445555554443  99999999999999999998764

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.71  E-value=0.0073  Score=46.47  Aligned_cols=21  Identities=24%  Similarity=0.400  Sum_probs=19.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.|.+|+|||+++..+...
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

>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=95.66  E-value=0.015  Score=47.46  Aligned_cols=23  Identities=35%  Similarity=0.540  Sum_probs=20.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +-|.||.|+||||+.+.++..+.
T Consensus        31 ~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          31 FGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCC
Confidence            67999999999999999988764

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.64  E-value=0.0037  Score=50.13  Aligned_cols=24  Identities=21%  Similarity=0.139  Sum_probs=21.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +-|+|++|+||||+++.+++.+..
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            569999999999999999999854

>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=95.62  E-value=0.0032  Score=51.07  Aligned_cols=33  Identities=27%  Similarity=0.181  Sum_probs=24.1

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHH
Q psy17903         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        57 l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      |-+.+.+|-.+.  ++|+|+||+|||+++..++..
T Consensus        15 LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~   49 (242)
T d1tf7a1          15 FDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYN   49 (242)
T ss_dssp             HHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            444555554444  999999999999999776543

>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=95.62  E-value=0.0037  Score=47.24  Aligned_cols=22  Identities=23%  Similarity=0.235  Sum_probs=20.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|++|+|||+++..+...-
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7899999999999999998764

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.60  E-value=0.0037  Score=48.83  Aligned_cols=23  Identities=13%  Similarity=0.286  Sum_probs=20.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.||+|+||+++++.+++..
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            38999999999999999999875

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.58  E-value=0.0037  Score=50.07  Aligned_cols=23  Identities=26%  Similarity=0.429  Sum_probs=21.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|+||+|+||+++.+.+.+...
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhhCC
Confidence            88999999999999999998853

>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=95.55  E-value=0.014  Score=48.93  Aligned_cols=42  Identities=7%  Similarity=0.034  Sum_probs=33.0

Q ss_pred             ccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         47 VIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        47 ~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.-++.+.+.+..+++.+   +.++.-|+|+|||.++-.+++.+.
T Consensus       112 ~~~rdyQ~~av~~~l~~~---~~il~~pTGsGKT~i~~~i~~~~~  153 (282)
T d1rifa_         112 IEPHWYQKDAVFEGLVNR---RRILNLPTSAGRSLIQALLARYYL  153 (282)
T ss_dssp             CCCCHHHHHHHHHHHHHS---EEEECCCTTSCHHHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHhcC---CceeEEEcccCccHHHHHHHHHhh
Confidence            445778888888888765   368888999999999888876653

>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=95.54  E-value=0.13  Score=39.31  Aligned_cols=21  Identities=19%  Similarity=0.294  Sum_probs=19.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +.|.|.+|+|||+++.++...
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

>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=95.51  E-value=0.029  Score=44.51  Aligned_cols=39  Identities=18%  Similarity=0.284  Sum_probs=24.5

Q ss_pred             CcEEEEEeCCCCCCHHH-HHHHHHHhhhccCCccEEEEec
Q psy17903        137 PFKIVILDEADSMTHAA-QAALRRTMEKETKSTRFCLICN  175 (355)
Q Consensus       137 ~~~vliiDe~d~l~~~~-~~~Ll~~le~~~~~~~~Il~~~  175 (355)
                      +-+.++|||+|.+.... ...+..++...+.+..+++.+.
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            34689999999886532 3344445555455666666654

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.50  E-value=0.0066  Score=46.66  Aligned_cols=21  Identities=24%  Similarity=0.466  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|.+|+|||+++..+...
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

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.49  E-value=0.02  Score=48.57  Aligned_cols=24  Identities=21%  Similarity=0.140  Sum_probs=22.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +-|.|++|+||||+|+.+...+..
T Consensus        83 IGIaG~sgSGKSTla~~L~~lL~~  106 (308)
T d1sq5a_          83 ISIAGSVAVGKSTTARVLQALLSR  106 (308)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHTT
T ss_pred             EEEeCCCCCCCcHHHHHHHHHHhh
Confidence            779999999999999999998854

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.47  E-value=0.0078  Score=46.07  Aligned_cols=22  Identities=18%  Similarity=0.455  Sum_probs=20.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|.+|+|||+++..+...-
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999988754

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=95.46  E-value=0.0087  Score=46.12  Aligned_cols=20  Identities=25%  Similarity=0.396  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~   88 (355)
                      +++.|++|+|||+++.++..
T Consensus        19 I~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          19 ILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEESTTSSHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            99999999999999988854

>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=95.45  E-value=0.0095  Score=47.55  Aligned_cols=27  Identities=22%  Similarity=0.150  Sum_probs=23.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGDM   94 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~~   94 (355)
                      -+.|.|+.|+||||+++.+++.+....
T Consensus         4 fIviEG~dGsGKsT~~~~L~~~L~~~g   30 (210)
T d4tmka_           4 YIVIEGLEGAGKTTARNVVVETLEQLG   30 (210)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCC
Confidence            378999999999999999999885443

>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=95.41  E-value=0.0094  Score=45.71  Aligned_cols=21  Identities=29%  Similarity=0.433  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++..+...
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            789999999999999988754

>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=95.38  E-value=0.071  Score=43.12  Aligned_cols=23  Identities=22%  Similarity=0.291  Sum_probs=20.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|+||...|||++++.++-..
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            38999999999999999987764

>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=95.37  E-value=0.018  Score=49.36  Aligned_cols=24  Identities=25%  Similarity=0.271  Sum_probs=22.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +.|-|+-|+||||+++.+++.+..
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            889999999999999999998754

>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=95.30  E-value=0.0037  Score=48.52  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=19.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++..+...-
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999988754

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.30  E-value=0.0092  Score=47.75  Aligned_cols=27  Identities=15%  Similarity=0.139  Sum_probs=23.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      +.|.|+.|+||||.++.+++.+.....
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            778899999999999999999865433

>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=95.25  E-value=0.04  Score=47.00  Aligned_cols=24  Identities=29%  Similarity=0.254  Sum_probs=19.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +.|-|+-|+||||+++.+++.+..
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            789999999999999999987743

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=95.13  E-value=0.0064  Score=49.53  Aligned_cols=23  Identities=30%  Similarity=0.364  Sum_probs=21.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++|.|++|+||||++.++.+.+.
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~   25 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLE   25 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHh
Confidence            68999999999999999998774

>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=95.08  E-value=0.049  Score=45.62  Aligned_cols=17  Identities=29%  Similarity=0.546  Sum_probs=14.0

Q ss_pred             CcEEEEEeCCCCCCHHH
Q psy17903        137 PFKIVILDEADSMTHAA  153 (355)
Q Consensus       137 ~~~vliiDe~d~l~~~~  153 (355)
                      +.+++|+||+|.+....
T Consensus       100 ~~~~vViDE~H~~~~~~  116 (305)
T d2bmfa2         100 NYNLIIMDEAHFTDPAS  116 (305)
T ss_dssp             CCSEEEEESTTCCSHHH
T ss_pred             ceeEEEeeeeeecchhh
Confidence            55699999999998654

>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=95.04  E-value=0.0035  Score=48.42  Aligned_cols=22  Identities=27%  Similarity=0.338  Sum_probs=17.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++.++...-
T Consensus         6 i~vvG~~~vGKTsli~~~~~~~   27 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTGE   27 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC---
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999998877653

>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=95.03  E-value=0.009  Score=46.11  Aligned_cols=21  Identities=24%  Similarity=0.400  Sum_probs=19.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.|++|+|||++..++...
T Consensus        16 I~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          16 LVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             EEEEEETTSSHHHHHHHHSCC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            999999999999999888654

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.98  E-value=0.018  Score=48.16  Aligned_cols=23  Identities=39%  Similarity=0.729  Sum_probs=20.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +-|.|++|+||||++..+...+.
T Consensus        30 IGi~G~qGSGKSTl~~~l~~~L~   52 (286)
T d1odfa_          30 IFFSGPQGSGKSFTSIQIYNHLM   52 (286)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHHHH
Confidence            55899999999999999887763

>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=94.94  E-value=0.037  Score=44.51  Aligned_cols=22  Identities=23%  Similarity=0.312  Sum_probs=19.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|+||...|||++.+.++-..
T Consensus        38 ~iiTGpN~~GKSt~lk~i~l~~   59 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTALIA   59 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhHHHH
Confidence            8999999999999999887654

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.88  E-value=0.016  Score=45.82  Aligned_cols=25  Identities=16%  Similarity=0.189  Sum_probs=22.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      +.|.|..|+||||+++.|.+.+...
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~~~   27 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFRAA   27 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC
Confidence            6789999999999999999988544

>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=94.85  E-value=0.0087  Score=47.46  Aligned_cols=23  Identities=30%  Similarity=0.566  Sum_probs=21.0

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      |.++|.|+||+|||+|..++...
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            56999999999999999999875

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=94.84  E-value=0.0083  Score=45.51  Aligned_cols=21  Identities=29%  Similarity=0.396  Sum_probs=19.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.|.+|+|||+|+.++...
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998765

>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=94.79  E-value=0.0087  Score=45.07  Aligned_cols=21  Identities=29%  Similarity=0.447  Sum_probs=19.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.|++|+|||+|+..+...
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998875

>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=94.75  E-value=0.009  Score=46.03  Aligned_cols=21  Identities=19%  Similarity=0.562  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++.++...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            789999999999999998765

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=94.74  E-value=0.016  Score=48.72  Aligned_cols=23  Identities=26%  Similarity=0.340  Sum_probs=17.0

Q ss_pred             CeEEEECCCCCCHHHHH-HHHHHH
Q psy17903         67 PHFLFYGPPGTGKTSTM-IAACHQ   89 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la-~~l~~~   89 (355)
                      .+++|.|+||||||+++ ..++..
T Consensus        15 ~~~lI~g~aGTGKTt~l~~rv~~l   38 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVITNKIAHL   38 (306)
T ss_dssp             SEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEeeCCccHHHHHHHHHHHH
Confidence            35899999999999875 334333

>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=94.72  E-value=0.064  Score=45.77  Aligned_cols=25  Identities=24%  Similarity=0.263  Sum_probs=22.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      +.|.|+-|+||||+++.+++.+...
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            7899999999999999999987543

>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=94.70  E-value=0.022  Score=48.35  Aligned_cols=52  Identities=17%  Similarity=0.341  Sum_probs=28.3

Q ss_pred             eEEEECCCCCCHHHHHH-HHHHHhcCC-ccccceeeecCCCccchHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMI-AACHQLFGD-MYRERILELNASDDRGIQVIRDKVKTF  120 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~-~l~~~l~~~-~~~~~~~~~~~~~~~~~~~i~~~i~~~  120 (355)
                      +++|.|+||||||+++- .+++.+... ..+..++.+..+. ...+.+...+...
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t~-~aa~~~~~~~~~~   79 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTN-KAAREMRERVQSL   79 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSH-HHHHHHHHHHHHH
T ss_pred             CEEEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEeccH-HHHHHHHHHHHhh
Confidence            48999999999997764 444444332 1122333443332 3344455554443

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.67  E-value=0.0056  Score=48.30  Aligned_cols=23  Identities=26%  Similarity=0.192  Sum_probs=21.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.|+.|+||||+++.|++.+.
T Consensus        12 I~ieG~~GsGKTTl~~~L~~~l~   34 (197)
T d2vp4a1          12 VLIEGNIGSGKTTYLNHFEKYKN   34 (197)
T ss_dssp             EEEECSTTSCHHHHHHTTGGGTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            89999999999999999998874

>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=94.53  E-value=0.045  Score=40.40  Aligned_cols=26  Identities=12%  Similarity=0.230  Sum_probs=18.7

Q ss_pred             cEEEEEeCCCCCCHHHHHHHHHHhhhc
Q psy17903        138 FKIVILDEADSMTHAAQAALRRTMEKE  164 (355)
Q Consensus       138 ~~vliiDe~d~l~~~~~~~Ll~~le~~  164 (355)
                      ..+|+|||++.+.. ....+...+.+.
T Consensus        80 ~dvI~IDE~QFf~d-~i~~~~~~~~~~  105 (139)
T d2b8ta1          80 TKVIGIDEVQFFDD-RICEVANILAEN  105 (139)
T ss_dssp             CCEEEECSGGGSCT-HHHHHHHHHHHT
T ss_pred             cCEEEechhhhcch-hHHHHHHHHHhc
Confidence            45999999999974 455566666543

>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=94.44  E-value=0.012  Score=45.51  Aligned_cols=22  Identities=27%  Similarity=0.490  Sum_probs=19.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .++|.|++|+|||++|..+.+.
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            3999999999999999988865

>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=94.37  E-value=0.012  Score=44.99  Aligned_cols=21  Identities=29%  Similarity=0.428  Sum_probs=19.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++..+...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            899999999999999998865

>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=94.34  E-value=0.011  Score=44.95  Aligned_cols=22  Identities=23%  Similarity=0.342  Sum_probs=19.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++|.|++|+|||+|+..+...
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

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=94.30  E-value=0.021  Score=45.97  Aligned_cols=33  Identities=30%  Similarity=0.342  Sum_probs=24.6

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHH
Q psy17903         54 VSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        54 ~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++.|..++++   ...+|.|++|+||||++.++...
T Consensus        86 ~~~L~~~l~~---kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          86 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HhhHHHHhcC---CeEEEECCCCCCHHHHHHhhcch
Confidence            4566666642   23789999999999999888543

>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=94.30  E-value=0.013  Score=44.84  Aligned_cols=22  Identities=18%  Similarity=0.454  Sum_probs=20.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++..+...-
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7999999999999999998754

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=94.29  E-value=0.007  Score=50.76  Aligned_cols=26  Identities=12%  Similarity=0.137  Sum_probs=19.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      -+-|+|++|+||||+++++.+.+...
T Consensus         6 IIgIaG~SGSGKTTva~~l~~i~~~~   31 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQIFRRE   31 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhhc
Confidence            38899999999999999999887543

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.27  E-value=0.01  Score=48.14  Aligned_cols=42  Identities=7%  Similarity=0.207  Sum_probs=27.5

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhc--cCCccEEEEecCCc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKE--TKSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~--~~~~~~Il~~~~~~  178 (355)
                      +-+++++||-- .|.+.....+++++.+.  ..++.+|++|++.+
T Consensus       163 ~P~lLllDEPTs~LD~~~~~~i~~~l~~l~~~~g~tii~vTHd~~  207 (230)
T d1l2ta_         163 NPPIILADQPTGALDSKTGEKIMQLLKKLNEEDGKTVVVVTHDIN  207 (230)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCCEEEEECSCHH
T ss_pred             CCCEEEecCCccccCHHHHHHHHHHHHHHHHhhCCEEEEECCCHH
Confidence            34599999974 55666666777666653  23566777787654

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=94.27  E-value=0.014  Score=45.77  Aligned_cols=24  Identities=25%  Similarity=0.407  Sum_probs=21.1

Q ss_pred             CCCeEEEECCCCCCHHHHHHHHHH
Q psy17903         65 DLPHFLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        65 ~~~~~ll~Gp~G~GKt~la~~l~~   88 (355)
                      ..|.+.|.|+||+||||+..++.+
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            455699999999999999999974

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.20  E-value=0.014  Score=44.56  Aligned_cols=22  Identities=27%  Similarity=0.481  Sum_probs=19.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|.+|+|||+++..+...-
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7999999999999999988643

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=94.18  E-value=0.011  Score=46.97  Aligned_cols=23  Identities=35%  Similarity=0.479  Sum_probs=20.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||.|+||||+.+.++..+.
T Consensus        30 ~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          30 VNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCChHHHHHHHHhcccc
Confidence            78999999999999999987653

>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=94.13  E-value=0.015  Score=44.79  Aligned_cols=21  Identities=19%  Similarity=0.412  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++..+...
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998764

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.12  E-value=0.014  Score=47.53  Aligned_cols=24  Identities=13%  Similarity=0.072  Sum_probs=22.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      +.|.|+.|+||||+++.+++.+..
T Consensus         5 IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           5 LSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHhh
Confidence            899999999999999999999854

>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=94.09  E-value=0.032  Score=46.31  Aligned_cols=40  Identities=20%  Similarity=0.251  Sum_probs=28.7

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         56 VLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        56 ~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      .+.+.+..+...-++++|.-|+||||++-.++..+.....
T Consensus        10 ~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G~   49 (279)
T d1ihua2          10 ALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADMGF   49 (279)
T ss_dssp             HHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCC
Confidence            4445555443233889999999999999999988865433

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=93.99  E-value=0.012  Score=45.45  Aligned_cols=22  Identities=23%  Similarity=0.427  Sum_probs=19.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+||.|++|+|||++|..+.+.
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

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.96  E-value=0.016  Score=45.14  Aligned_cols=21  Identities=29%  Similarity=0.447  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.|++|+|||+++..+.+.
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

>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=93.94  E-value=0.016  Score=44.48  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=19.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .++|.|++|+|||+++..+.+.
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            3999999999999999888776

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.87  E-value=0.018  Score=44.24  Aligned_cols=21  Identities=33%  Similarity=0.499  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++..+...
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            899999999999999998764

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.85  E-value=0.018  Score=43.68  Aligned_cols=21  Identities=24%  Similarity=0.422  Sum_probs=19.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|.+|+|||+++..+...
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999999865

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.84  E-value=0.018  Score=44.70  Aligned_cols=21  Identities=33%  Similarity=0.506  Sum_probs=19.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|.+|||||+++..+.+.
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

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=93.83  E-value=0.017  Score=44.20  Aligned_cols=21  Identities=24%  Similarity=0.453  Sum_probs=18.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +.|.|++|+|||++++++...
T Consensus         3 V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           3 VLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999753

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=93.78  E-value=0.025  Score=47.31  Aligned_cols=37  Identities=30%  Similarity=0.391  Sum_probs=27.3

Q ss_pred             Ce-EEEECCCCCCHHHHHHHHHHHhcCCccccceeeec
Q psy17903         67 PH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (355)
Q Consensus        67 ~~-~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~  103 (355)
                      |. ++++|.-|+||||++-+++..+.....+.-++..|
T Consensus         8 p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~D   45 (296)
T d1ihua1           8 PPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTD   45 (296)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCC
Confidence            44 88999999999999999999886544333333433

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.78  E-value=0.017  Score=43.99  Aligned_cols=21  Identities=24%  Similarity=0.260  Sum_probs=19.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.|++|+|||+++..+...
T Consensus         7 v~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           7 IAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998764

>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=93.77  E-value=0.017  Score=45.22  Aligned_cols=19  Identities=21%  Similarity=0.240  Sum_probs=17.0

Q ss_pred             EEEECCCCCCHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAAC   87 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~   87 (355)
                      +-|+|++|+||||+|+.+.
T Consensus         6 IgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           6 IGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5589999999999999884

>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=93.75  E-value=0.019  Score=43.70  Aligned_cols=22  Identities=27%  Similarity=0.379  Sum_probs=19.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|.+|+|||+++..+...-
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8899999999999999998753

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.74  E-value=0.023  Score=45.42  Aligned_cols=25  Identities=28%  Similarity=0.215  Sum_probs=22.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~~   92 (355)
                      -+.|.|+.|+||||+++.+++.+..
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            4899999999999999999999854

>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=93.74  E-value=0.018  Score=43.87  Aligned_cols=21  Identities=24%  Similarity=0.534  Sum_probs=19.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|.+|+|||+++..++..
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998875

>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=93.72  E-value=0.02  Score=43.78  Aligned_cols=21  Identities=24%  Similarity=0.436  Sum_probs=19.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|++|+|||+++..+...
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998764

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=93.70  E-value=0.013  Score=47.66  Aligned_cols=22  Identities=18%  Similarity=0.285  Sum_probs=20.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +-|.||+|+||||+++.++.-.
T Consensus        34 ~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          34 YGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             EEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHcCCc
Confidence            8899999999999999997754

>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=93.69  E-value=0.02  Score=42.04  Aligned_cols=23  Identities=17%  Similarity=0.387  Sum_probs=18.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      -+++||-.+|||+-.-..++...
T Consensus         5 ~li~GpMfsGKTt~Li~~~~~~~   27 (133)
T d1xbta1           5 QVILGPMFSGKSTELMRRVRRFQ   27 (133)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEEecccCHHHHHHHHHHHHHH
Confidence            47899999999998777666553

>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=93.60  E-value=0.023  Score=44.04  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=20.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|.+|+|||+++..+...-
T Consensus         8 ivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           8 CVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8999999999999999988753

>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=93.57  E-value=0.02  Score=47.46  Aligned_cols=23  Identities=22%  Similarity=0.296  Sum_probs=21.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .+|+|++|+|||+++..++..+.
T Consensus        32 ~~i~G~~G~GKS~l~l~la~~ia   54 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQLAAQIA   54 (274)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHH
Confidence            78999999999999999988764

>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=93.56  E-value=0.022  Score=43.75  Aligned_cols=21  Identities=29%  Similarity=0.431  Sum_probs=19.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.|++|+|||+++..+.+.
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999988764

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=93.46  E-value=0.014  Score=47.22  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=20.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||.|+||||+++.++.-+.
T Consensus        29 ~~liGpsGaGKSTll~~l~Gl~~   51 (229)
T d3d31a2          29 FVILGPTGAGKTLFLELIAGFHV   51 (229)
T ss_dssp             EEEECCCTHHHHHHHHHHHTSSC
T ss_pred             EEEECCCCCcHHHHHHHHhcCcC
Confidence            89999999999999999998653

>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=93.44  E-value=0.021  Score=43.78  Aligned_cols=21  Identities=33%  Similarity=0.548  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|.+|+|||+++..+...
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998764

>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=93.42  E-value=0.024  Score=43.27  Aligned_cols=22  Identities=18%  Similarity=0.359  Sum_probs=19.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|.+|+|||+++..+...-
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999988653

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.38  E-value=0.024  Score=43.62  Aligned_cols=21  Identities=29%  Similarity=0.542  Sum_probs=19.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +++.|.+|+|||+++.++...
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

>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=93.33  E-value=0.022  Score=44.02  Aligned_cols=22  Identities=18%  Similarity=0.268  Sum_probs=19.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|.+|+|||+++..+...-
T Consensus         5 ivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7999999999999999988754

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.24  E-value=0.0088  Score=48.60  Aligned_cols=24  Identities=13%  Similarity=0.014  Sum_probs=21.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      -+.|.|+.|+||||+++.|++.+.
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            388999999999999999999874

>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=93.23  E-value=0.074  Score=39.25  Aligned_cols=22  Identities=23%  Similarity=0.363  Sum_probs=18.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      =+++||-.+|||+-+-..++..
T Consensus        10 ~lI~GpMfSGKTteLi~~~~~~   31 (141)
T d1xx6a1          10 EVIVGPMYSGKSEELIRRIRRA   31 (141)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEeccccHHHHHHHHHHHHh
Confidence            4789999999999887777654

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=93.19  E-value=0.022  Score=43.99  Aligned_cols=21  Identities=19%  Similarity=0.417  Sum_probs=19.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.|+||+|||||..++..+
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

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=93.17  E-value=0.02  Score=46.75  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +.|.||.|+||||+++.++..+.
T Consensus        31 vaivG~sGsGKSTLl~ll~gl~~   53 (242)
T d1mv5a_          31 IAFAGPSGGGKSTIFSLLERFYQ   53 (242)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCCHHHHHHHHHHhhC
Confidence            88999999999999999987653

>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=93.13  E-value=0.026  Score=43.25  Aligned_cols=21  Identities=19%  Similarity=0.290  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.|.+|+|||+++..+...
T Consensus         6 v~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988753

>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=93.06  E-value=0.026  Score=44.25  Aligned_cols=21  Identities=24%  Similarity=0.543  Sum_probs=19.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      ++|.|++|+|||+++..+...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            899999999999999998864

>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=93.04  E-value=0.026  Score=43.85  Aligned_cols=22  Identities=18%  Similarity=0.327  Sum_probs=19.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ++|.|.+|+|||+++..+.+.-
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            8999999999999999988754

>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=93.00  E-value=0.055  Score=44.48  Aligned_cols=34  Identities=29%  Similarity=0.352  Sum_probs=24.8

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCCHHHHHHHHHHH
Q psy17903         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        56 ~l~~~l~~~~~~~--~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+...++......  ++|.|.+|+|||+++..+...
T Consensus        20 e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          20 ELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            4444444433333  999999999999999999764

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=92.92  E-value=0.014  Score=47.49  Aligned_cols=23  Identities=35%  Similarity=0.456  Sum_probs=20.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+.|.||+|+||||+++.++.-.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            38999999999999999998865

>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=92.92  E-value=0.015  Score=44.61  Aligned_cols=22  Identities=23%  Similarity=0.303  Sum_probs=19.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+++.|++|+|||+++.++...
T Consensus        14 kIvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4999999999999999988643

>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=92.89  E-value=0.031  Score=43.12  Aligned_cols=20  Identities=30%  Similarity=0.429  Sum_probs=18.2

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~   88 (355)
                      +++.|++|+|||+++..+..
T Consensus        20 I~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          20 ILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             EEEEEETTSSHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            99999999999999988753

>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=92.88  E-value=0.14  Score=38.30  Aligned_cols=42  Identities=12%  Similarity=0.128  Sum_probs=29.7

Q ss_pred             CcEEEEEeCCCCCCHH---HHHHHHHHhhhccCCccEEEEecCCc
Q psy17903        137 PFKIVILDEADSMTHA---AQAALRRTMEKETKSTRFCLICNYVS  178 (355)
Q Consensus       137 ~~~vliiDe~d~l~~~---~~~~Ll~~le~~~~~~~~Il~~~~~~  178 (355)
                      .+.+||+||+-..-.-   ..+.++..++..|..+-+|+|+++..
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            4669999998432110   12467788888888999999998654

>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=92.84  E-value=0.029  Score=43.79  Aligned_cols=22  Identities=23%  Similarity=0.295  Sum_probs=19.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|++|+|||+++.++...-
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8899999999999999988654

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=92.70  E-value=0.026  Score=46.55  Aligned_cols=22  Identities=18%  Similarity=0.291  Sum_probs=19.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +-|.||.|+||||++++++.-.
T Consensus        31 ~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          31 ISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHHcCc
Confidence            8899999999999999998654

>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=92.58  E-value=0.041  Score=44.57  Aligned_cols=22  Identities=18%  Similarity=0.208  Sum_probs=20.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +-|+|+.|+||||+|+.+++.+
T Consensus         4 IgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            6799999999999999998875

>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=92.52  E-value=0.037  Score=43.95  Aligned_cols=21  Identities=29%  Similarity=0.387  Sum_probs=17.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +-|+|++|+||||+++.+. .+
T Consensus         6 IgitG~igSGKStv~~~l~-~~   26 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFA-DL   26 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHH-HT
T ss_pred             EEEECCCcCCHHHHHHHHH-HC
Confidence            5589999999999999875 44

>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=92.47  E-value=0.074  Score=50.17  Aligned_cols=62  Identities=11%  Similarity=0.108  Sum_probs=42.8

Q ss_pred             CCCCCccccccCCCCCCcccccHHHH--HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         29 RNKPVPWVEKYRPKTIDDVIEQQEVV--SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        29 ~~~~~~~~~k~~p~~~~~~vg~~~~~--~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.....+.++|+.....++--|--.+  .+.......++...+++.|++|+|||..++.+.+.+
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            34556678888876655554333222  334455555554459999999999999999999987

>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=92.20  E-value=0.023  Score=43.60  Aligned_cols=22  Identities=27%  Similarity=0.511  Sum_probs=8.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|.+|+|||+++.++...-
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~   30 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSEDA   30 (173)
T ss_dssp             EEEECCCCC-------------
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999887643

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=92.01  E-value=0.039  Score=42.25  Aligned_cols=21  Identities=24%  Similarity=0.368  Sum_probs=19.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +.|.|.+|+|||++..++.+.
T Consensus         8 I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            889999999999999999864

>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=91.90  E-value=0.04  Score=43.56  Aligned_cols=19  Identities=26%  Similarity=0.212  Sum_probs=16.7

Q ss_pred             EEEECCCCCCHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAAC   87 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~   87 (355)
                      +-|+|+.|+||||+++.+.
T Consensus         5 IgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4589999999999998875

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.79  E-value=0.045  Score=42.66  Aligned_cols=18  Identities=22%  Similarity=0.434  Sum_probs=17.5

Q ss_pred             EEEECCCCCCHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAA   86 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l   86 (355)
                      +++.|.+|+|||+++..+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            899999999999999999

>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=91.79  E-value=0.033  Score=44.79  Aligned_cols=25  Identities=24%  Similarity=0.292  Sum_probs=21.5

Q ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         66 LPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        66 ~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .|-++|+|.-|+||||+++.+.+..
T Consensus         3 iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           3 IAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            3448999999999999999998863

>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=91.71  E-value=0.027  Score=45.71  Aligned_cols=36  Identities=31%  Similarity=0.233  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         52 EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        52 ~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .+...+...+++   .++++.+|+|+|||.++...+-..
T Consensus        47 ~Q~~~i~~~l~g---~~~~i~apTGsGKT~~~~~~~~~~   82 (237)
T d1gkub1          47 IQKMWAKRILRK---ESFAATAPTGVGKTSFGLAMSLFL   82 (237)
T ss_dssp             HHHHHHHHHHTT---CCEECCCCBTSCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CCEEEEecCCChHHHHHHHHHHHH
Confidence            444555565543   258999999999998776555443

>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=91.68  E-value=0.037  Score=42.61  Aligned_cols=23  Identities=26%  Similarity=0.366  Sum_probs=19.8

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +.+.|.|.+|+||||++.++...
T Consensus         2 ~~VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           2 ADVGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45889999999999999998643

>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=91.59  E-value=0.079  Score=43.58  Aligned_cols=36  Identities=19%  Similarity=0.224  Sum_probs=28.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  104 (355)
                      +.|+|.-|+||||++-.++..+.....+.-++..|.
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            568999999999999999999976555444455553

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=91.57  E-value=0.044  Score=42.31  Aligned_cols=22  Identities=18%  Similarity=0.315  Sum_probs=18.9

Q ss_pred             CeEEEECCCCCCHHHHHHHHHH
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~   88 (355)
                      +.+-|.|+||+|||+++.++.+
T Consensus         2 ~~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           2 ADVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEE
T ss_pred             CeEEEECCCCCCHHHHHHHHhC
Confidence            3578999999999999988754

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.48  E-value=0.059  Score=41.35  Aligned_cols=22  Identities=18%  Similarity=0.140  Sum_probs=20.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|.+|+|||+++..+...-
T Consensus         8 i~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           8 LGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8999999999999999887754

>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=91.43  E-value=0.12  Score=48.97  Aligned_cols=61  Identities=16%  Similarity=0.230  Sum_probs=41.1

Q ss_pred             CCCCccccccCCCCCCcccccHHHH--HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVV--SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~--~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      -....+.++|+.+...++--|--.+  .+.+..+..++...++++|++|+|||..++.+.+.+
T Consensus        87 iy~~~~~~~y~~~~~~~~~PHifaiA~~Ay~~m~~~~~nQsIiisGeSGaGKTe~~k~il~yL  149 (712)
T d1d0xa2          87 IYTQEMVDIFKGRRRNEVAPHIFAISDVAYRSMLDDRQNQSLLITGESGAGKTENTKKVIQYL  149 (712)
T ss_dssp             CCSHHHHHHHTTCCGGGSCCCHHHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHcCCCcCCCCCcHHHHHHHHHHHHHHhCCCceEEEeCCCCCCHHHHHHHHHHHH
Confidence            3445567778766655554333222  233455555554459999999999999999999887

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=91.19  E-value=0.017  Score=45.11  Aligned_cols=25  Identities=36%  Similarity=0.460  Sum_probs=22.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~   93 (355)
                      .+|+||.|+|||+++.++.-.+.+.
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            4789999999999999999888654

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=91.18  E-value=0.066  Score=47.38  Aligned_cols=38  Identities=21%  Similarity=0.340  Sum_probs=28.0

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCC
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  106 (355)
                      .|++|.|++|+|||+++..+...+...  +..++.+|...
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~~~~~--g~~~iiiD~kg   88 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYTGLLR--GDRMVIVDPNG   88 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHHT--TCEEEEEEETT
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHHHHhC--CCCEEEEeCCh
Confidence            469999999999999998777766433  23456666543

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=91.17  E-value=0.031  Score=42.96  Aligned_cols=23  Identities=22%  Similarity=0.268  Sum_probs=19.6

Q ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Q psy17903         66 LPHFLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        66 ~~~~ll~Gp~G~GKt~la~~l~~   88 (355)
                      .+.+.|.|.|++|||+|..++..
T Consensus        16 ~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          16 GIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            34599999999999999988754

>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=91.09  E-value=0.14  Score=48.35  Aligned_cols=62  Identities=16%  Similarity=0.208  Sum_probs=41.4

Q ss_pred             CCCCccccccCCCCCCcccccHHHH--HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVV--SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~--~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      -....+..+|+.+...++--|--.+  ...+..+..++...+++.|++|+|||..++.+.+.+.
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            4445567777766555554333222  2334445555544599999999999999999999873

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=91.06  E-value=0.064  Score=41.27  Aligned_cols=21  Identities=24%  Similarity=0.407  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +.|.|.+|+|||+++.++...
T Consensus        11 V~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          11 VAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
Confidence            899999999999999999754

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.97  E-value=0.063  Score=41.65  Aligned_cols=23  Identities=17%  Similarity=0.154  Sum_probs=20.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      +++.|..|+|||+++..+...-.
T Consensus         5 iv~lG~~~vGKTsll~r~~~~~~   27 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRIIHG   27 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            89999999999999999977643

>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=90.93  E-value=0.17  Score=48.49  Aligned_cols=61  Identities=18%  Similarity=0.162  Sum_probs=41.2

Q ss_pred             CCCccccccCCCCCCcccccHHHH--HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         31 KPVPWVEKYRPKTIDDVIEQQEVV--SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        31 ~~~~~~~k~~p~~~~~~vg~~~~~--~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ....-.++|+-+...++--|--.+  .+....+..++...++++|++|+|||..++.+.+.+.
T Consensus        86 y~~~~~~~y~~~~~~~~pPHifaiA~~Ay~~m~~~~~~QsIiisGeSGaGKTe~~K~il~yL~  148 (794)
T d2mysa2          86 YNPKVVLAYRGKKRQEAPPHIFSISDNAYQFMLTDRENQSILITGESGAGKTVNTKRVIQYFA  148 (794)
T ss_dssp             GCTTHHHHTTTCCTTSSCSCHHHHHHHHHHHHHHHTCCEEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHcCCCCCCCCCcHHHHHHHHHHHHHHcCCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            344456677766665654443222  3344555556544599999999999999999998873

>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=90.93  E-value=0.13  Score=40.89  Aligned_cols=22  Identities=18%  Similarity=0.258  Sum_probs=19.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|..|+|||++++.+...-
T Consensus         9 illlG~~~vGKTsll~~~~~~~   30 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMRILH   30 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999986543

>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=90.90  E-value=0.14  Score=48.70  Aligned_cols=61  Identities=16%  Similarity=0.162  Sum_probs=41.5

Q ss_pred             CCCCccccccCCCCCCcccccHHHH--HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         30 NKPVPWVEKYRPKTIDDVIEQQEVV--SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        30 ~~~~~~~~k~~p~~~~~~vg~~~~~--~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      -....+..+|+-+...++--|--.+  .+.......++...++|.|++|+|||..++.+.+.+
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            4555677778766555554333222  334445555654459999999999999999998887

>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=90.52  E-value=0.061  Score=44.09  Aligned_cols=44  Identities=14%  Similarity=0.210  Sum_probs=28.4

Q ss_pred             CcEEEEEeCCC-CCCHHHHHHHHHHhhhc-cCCccEEEEecCCccc
Q psy17903        137 PFKIVILDEAD-SMTHAAQAALRRTMEKE-TKSTRFCLICNYVSCI  180 (355)
Q Consensus       137 ~~~vliiDe~d-~l~~~~~~~Ll~~le~~-~~~~~~Il~~~~~~~l  180 (355)
                      +-+++|+||-- .+.+.....+.+.+.+. .....+|+++++.+.+
T Consensus       168 ~P~llilDEPt~gLD~~~~~~i~~~i~~l~~~g~til~vsHdl~~~  213 (254)
T d1g6ha_         168 NPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDIV  213 (254)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCCSTT
T ss_pred             CcCchhhcCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCcHHHH
Confidence            44699999964 56666666666665443 2346677778776543

>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=90.47  E-value=0.022  Score=42.83  Aligned_cols=22  Identities=18%  Similarity=0.371  Sum_probs=19.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.|.|.||+|||+++.++...-
T Consensus         3 I~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999998763

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=90.37  E-value=0.098  Score=43.53  Aligned_cols=36  Identities=22%  Similarity=0.232  Sum_probs=26.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecC
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  104 (355)
                      +.++|.-|+||||++-.++..+.....+.-++.+|.
T Consensus         5 IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID~Dp   40 (289)
T d2afhe1           5 CAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDP   40 (289)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEECS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecCC
Confidence            667999999999999999988865444333444443

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=90.36  E-value=0.056  Score=43.65  Aligned_cols=21  Identities=24%  Similarity=0.505  Sum_probs=19.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      +-|.||.|+||||+.+.++..
T Consensus        28 ~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          28 LHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             EECBCCTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            889999999999999999873

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=90.32  E-value=0.077  Score=41.88  Aligned_cols=29  Identities=24%  Similarity=0.308  Sum_probs=24.4

Q ss_pred             eEEEECC-CCCCHHHHHHHHHHHhcCCccc
Q psy17903         68 HFLFYGP-PGTGKTSTMIAACHQLFGDMYR   96 (355)
Q Consensus        68 ~~ll~Gp-~G~GKt~la~~l~~~l~~~~~~   96 (355)
                      .++++|- +|+|||+++-.++..+....++
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 5999999999999999765443

>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=89.84  E-value=1.2  Score=33.44  Aligned_cols=20  Identities=20%  Similarity=0.238  Sum_probs=18.6

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~   88 (355)
                      +-|.|.+++|||||..++.+
T Consensus         8 IaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           8 LGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEeCCCCcHHHHHHHHHH
Confidence            78999999999999999974

>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=89.75  E-value=0.16  Score=48.59  Aligned_cols=61  Identities=20%  Similarity=0.220  Sum_probs=40.7

Q ss_pred             CCCccccccCCCCCCcccccHHHH--HHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         31 KPVPWVEKYRPKTIDDVIEQQEVV--SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        31 ~~~~~~~k~~p~~~~~~vg~~~~~--~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ......++|+.+...++--|--.+  .+.......+....++|+|++|+|||..++.+.+.+.
T Consensus        84 y~~~~~~~y~~~~~~~~~PHiyavA~~Ay~~m~~~~~nQ~IiisGESGaGKTe~~K~il~yL~  146 (789)
T d1kk8a2          84 YTDSVIAKYRGKRKTEIPPHLFSVADNAYQNMVTDRENQSCLITGESGAGKTENTKKVIMYLA  146 (789)
T ss_dssp             TSHHHHHHHTTCCGGGSCCCHHHHHHHHHHHHHHHTSEEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHcCCCCCCCCCcHHHHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            344456777766555544333222  3445555556544499999999999999999998874

>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=89.71  E-value=0.1  Score=40.10  Aligned_cols=22  Identities=18%  Similarity=0.244  Sum_probs=19.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +++.|..|+|||++++.+...-
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            8999999999999999987653

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=89.42  E-value=0.31  Score=40.05  Aligned_cols=28  Identities=21%  Similarity=0.325  Sum_probs=22.8

Q ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         64 ADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        64 ~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ++-..++|.|++|+|||+++..+++...
T Consensus        66 gkGQr~~If~~~g~GKt~l~~~i~~~~~   93 (276)
T d2jdid3          66 AKGGKIGLFGGAGVGKTVLIMELINNVA   93 (276)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             cCCCEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            3333589999999999999999988753

>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=89.30  E-value=0.76  Score=28.76  Aligned_cols=58  Identities=14%  Similarity=0.076  Sum_probs=46.3

Q ss_pred             HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhC
Q psy17903        204 RLQYICEQESV-MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG  261 (355)
Q Consensus       204 ~l~~~~~~~~~-~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~  261 (355)
                      -++.+++..|+ .+++++...|+.-..=-++++++..-+....+....+|.+||..++.
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            35666777888 59999999999887777888887777766666678899999988764

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=88.72  E-value=0.041  Score=44.31  Aligned_cols=21  Identities=33%  Similarity=0.513  Sum_probs=18.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQ   89 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~   89 (355)
                      .+|.|++|+||||++.++...
T Consensus       100 ~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2         100 TVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEESHHHHHHHHHHHHCC-
T ss_pred             EEEECCCCccHHHHHHhhccH
Confidence            789999999999999888654

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=88.57  E-value=0.65  Score=37.92  Aligned_cols=24  Identities=25%  Similarity=0.271  Sum_probs=20.8

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++.+.|..|+||||++.++....
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            368899999999999999997654

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=88.23  E-value=1.8  Score=35.52  Aligned_cols=24  Identities=33%  Similarity=0.288  Sum_probs=19.8

Q ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Q psy17903         67 PHFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        67 ~~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      ..++|.|++|+|||+++..++...
T Consensus        69 Qr~~If~~~g~GKt~ll~~~~~~~   92 (285)
T d2jdia3          69 QRELIIGDRQTGKTSIAIDTIINQ   92 (285)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHHHT
T ss_pred             CEEEeecCCCCChHHHHHHHHHhH
Confidence            347899999999999988777653

>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=87.88  E-value=0.51  Score=38.75  Aligned_cols=26  Identities=19%  Similarity=-0.037  Sum_probs=22.3

Q ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         66 LPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        66 ~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ..++-|.|..|+|||||+.++.....
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            34689999999999999999987654

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=87.87  E-value=0.26  Score=40.83  Aligned_cols=35  Identities=20%  Similarity=0.179  Sum_probs=26.1

Q ss_pred             HHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         57 LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        57 l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      |--.+--++-...+|.|++|+|||+++..+++...
T Consensus        34 ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~   68 (289)
T d1xpua3          34 LDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIA   68 (289)
T ss_dssp             HHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             eeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHh
Confidence            33333334444589999999999999999998764

>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=87.58  E-value=0.14  Score=44.93  Aligned_cols=21  Identities=24%  Similarity=0.309  Sum_probs=19.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHH
Q psy17903         68 HFLFYGPPGTGKTSTMIAACH   88 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~   88 (355)
                      ++.|.|.+|+|||+++.++..
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

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.43  E-value=0.14  Score=44.72  Aligned_cols=22  Identities=36%  Similarity=0.510  Sum_probs=19.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      -+|+||.|+|||++..+++-.+
T Consensus        28 ~~i~G~NGsGKS~ileAi~~~l   49 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAISFVL   49 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5899999999999999998655

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=87.38  E-value=0.1  Score=43.58  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=19.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      -+|+||.|+|||++..|+.-.+
T Consensus        27 nvlvG~NgsGKS~iL~Ai~~~l   48 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIKWVF   48 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHHHHh
Confidence            6899999999999999996544

>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=87.16  E-value=0.95  Score=38.30  Aligned_cols=36  Identities=6%  Similarity=0.088  Sum_probs=26.5

Q ss_pred             HHHHHHhc-CCCCeEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         56 VLKKCLSG-ADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        56 ~l~~~l~~-~~~~~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      .++....+ .+.+++.|.|..|.||||++.++....+
T Consensus         6 ~~~~lm~~~~~IRNI~iiGhvd~GKTTL~d~Ll~~~g   42 (341)
T d1n0ua2           6 QMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRAG   42 (341)
T ss_dssp             HHHHHHHCGGGEEEEEEECCGGGTHHHHHHHHHHHHB
T ss_pred             HHHHHhcCcccCcEEEEEeCCCCcHHHHHHHHHHHCC
Confidence            34444443 2345699999999999999999986553

>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=87.15  E-value=4.2  Score=31.21  Aligned_cols=22  Identities=23%  Similarity=0.051  Sum_probs=19.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      +.+.|-+++|||||+.++....
T Consensus         6 i~iiGhvd~GKSTL~~~Ll~~~   27 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALTYVA   27 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHHHh
Confidence            8899999999999999997654

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=86.38  E-value=0.31  Score=38.56  Aligned_cols=26  Identities=27%  Similarity=0.107  Sum_probs=21.3

Q ss_pred             EEECCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         70 LFYGPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        70 ll~Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      +..|..|+||||++..++..+.....
T Consensus         6 v~s~KGGvGKTtia~nlA~~la~~g~   31 (232)
T d1hyqa_           6 VASGKGGTGKTTITANLGVALAQLGH   31 (232)
T ss_dssp             EEESSSCSCHHHHHHHHHHHHHHTTC
T ss_pred             EECCCCCChHHHHHHHHHHHHHhCCC
Confidence            45688999999999999999865433

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.36  E-value=0.99  Score=31.77  Aligned_cols=52  Identities=6%  Similarity=-0.038  Sum_probs=32.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHHHHh
Q psy17903         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQ  123 (355)
Q Consensus        69 ~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~  123 (355)
                      ++|.|-.|+||+++|.++...+..-.-...+--+++.   .+..+-..+.++...
T Consensus         9 i~~tg~~~~gk~~ia~al~~~l~q~~G~R~vtll~~~---ni~ri~fva~e~~k~   60 (122)
T d1g8fa3           9 IVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEHN---NKTELLSLIQDFIGS   60 (122)
T ss_dssp             EEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCT---TCHHHHTTHHHHHHT
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHHHhcCCcceEEecCC---CHHHHHHHHHHHHhc
Confidence            8999999999999999999888542111233334443   333444444555443

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=84.56  E-value=1.4  Score=36.01  Aligned_cols=23  Identities=26%  Similarity=0.234  Sum_probs=19.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQL   90 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l   90 (355)
                      .++|.|++|+|||+++..+....
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~~   91 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILNQ   91 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHTC
T ss_pred             eEeeccCCCCChHHHHHHHHhhh
Confidence            47899999999999998765554

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=83.88  E-value=1.7  Score=37.66  Aligned_cols=70  Identities=21%  Similarity=0.236  Sum_probs=47.9

Q ss_pred             CCcccccHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHhcCCccccceeeecCCCccchHHHHHHHHHH
Q psy17903         44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (355)
Q Consensus        44 ~~~~vg~~~~~~~l~~~l~~~~~~~~ll~Gp~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  120 (355)
                      |..-..|+.+++.|.+.++.|. .+.+|.|-+|+|||.++..+.+...     .+++.+.... .....+.+.+..+
T Consensus        10 ~~p~gDQP~aI~~l~~~l~~g~-~~q~l~GltGS~ka~~iA~l~~~~~-----rp~LVVt~n~-~~A~qL~~dL~~~   79 (413)
T d1t5la1          10 YEPQGDQPQAIAKLVDGLRRGV-KHQTLLGATGTGKTFTISNVIAQVN-----KPTLVIAHNK-TLAGQLYSELKEF   79 (413)
T ss_dssp             SCCCTTHHHHHHHHHHHHHHTC-SEEEEEECTTSCHHHHHHHHHHHHT-----CCEEEECSSH-HHHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHhcCC-CcEEEeCCCCcHHHHHHHHHHHHhC-----CCEEEEeCCH-HHHHHHHHHHHHH
Confidence            3334458888999999998774 4578999999999999999999873     3444444432 3333444444444

>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=83.85  E-value=0.8  Score=29.88  Aligned_cols=59  Identities=8%  Similarity=-0.054  Sum_probs=46.3

Q ss_pred             HHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCC
Q psy17903        205 LQYICEQESVM-CDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVI  263 (355)
Q Consensus       205 l~~~~~~~~~~-~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~~~  263 (355)
                      ++++++..|+. +++++.+.+.....--++.+.+.+...+..++...|+.+||..++...
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            34555566765 888888888887777788888888777777788899999999988754

>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=83.62  E-value=0.23  Score=42.18  Aligned_cols=40  Identities=28%  Similarity=0.404  Sum_probs=25.5

Q ss_pred             CCcccc----cHHHHHH-----HHHHHhcCCCCeEEEECCCCCCHHHHH
Q psy17903         44 IDDVIE----QQEVVSV-----LKKCLSGADLPHFLFYGPPGTGKTSTM   83 (355)
Q Consensus        44 ~~~~vg----~~~~~~~-----l~~~l~~~~~~~~ll~Gp~G~GKt~la   83 (355)
                      ||.+.+    |+++.+.     +.+.+.+|....++-||+.|+|||+..
T Consensus        54 fD~Vf~~~~~q~~vy~~~~~plv~~~~~~G~n~~i~aYGqTGSGKTyTm  102 (330)
T d1ry6a_          54 VDKVFDDTVDNFTVYENTIKPLIIDLYENGCVCSCFAYGQTGSGKTYTM  102 (330)
T ss_dssp             CSEEECTTCCHHHHHHHHTHHHHHHHHHHCCEEEEEEECCTTSSHHHHH
T ss_pred             CCeecCCCCCHHHHHHHHHHHHHHHHHhcCCCeEEEeeeccccccceee
Confidence            555554    4444433     234444454334999999999999986

>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=83.19  E-value=1.9  Score=26.67  Aligned_cols=63  Identities=13%  Similarity=-0.029  Sum_probs=47.6

Q ss_pred             CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhC
Q psy17903        196 LAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG  261 (355)
Q Consensus       196 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~  261 (355)
                      ++..-+..+++..   ....++.++...+.+.+.--+..+.......+...+.+.|+.+||..++.
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            3444555555432   23468999999999988888888888888878777888999999998764

>d1bg2a_ c.37.1.9 (A:) Kinesin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.99  E-value=0.48  Score=39.91  Aligned_cols=41  Identities=29%  Similarity=0.384  Sum_probs=25.8

Q ss_pred             CCCcccc----cHHHHHH----HHHHHhcCCCCeEEEECCCCCCHHHHH
Q psy17903         43 TIDDVIE----QQEVVSV----LKKCLSGADLPHFLFYGPPGTGKTSTM   83 (355)
Q Consensus        43 ~~~~~vg----~~~~~~~----l~~~l~~~~~~~~ll~Gp~G~GKt~la   83 (355)
                      +|+.+.+    |+++.+.    +.+.+-.|....++-||+.|+|||+..
T Consensus        45 ~FD~vf~~~~~q~~vf~~~~~~lv~~~l~G~n~~i~aYGqtgSGKTyT~   93 (323)
T d1bg2a_          45 AFDRVFQSSTSQEQVYNDCAKKIVKDVLEGYNGTIFAYGQTSSGKTHTM   93 (323)
T ss_dssp             ECSEEECTTCCHHHHHHHHTHHHHHHHHTTCCEEEEEECSTTSSHHHHH
T ss_pred             ECCEEECCCCCHHHHHHHHHHHHHHHHHcCCCcceeeecccCCCCceec
Confidence            4666655    3444432    223333454334999999999999986

>d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {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: Tandem AAA-ATPase domain
domain: Helicase of the SNF2/Rad54 hamily
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=82.08  E-value=2.3  Score=33.31  Aligned_cols=24  Identities=25%  Similarity=0.164  Sum_probs=19.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Q psy17903         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (355)
Q Consensus        68 ~~ll~Gp~G~GKt~la~~l~~~l~   91 (355)
                      ..+|.=+.|.|||..+-+++..+.
T Consensus        33 g~iLaDe~GlGKT~~~i~~~~~~~   56 (230)
T d1z63a1          33 GICLADDMGLGKTLQTIAVFSDAK   56 (230)
T ss_dssp             CEEECCCTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEeCCCCChHHHHHHhhhhhh
Confidence            367777999999999988877664

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=80.41  E-value=0.53  Score=37.15  Aligned_cols=27  Identities=26%  Similarity=0.180  Sum_probs=21.2

Q ss_pred             EEEE-CCCCCCHHHHHHHHHHHhcCCcc
Q psy17903         69 FLFY-GPPGTGKTSTMIAACHQLFGDMY   95 (355)
Q Consensus        69 ~ll~-Gp~G~GKt~la~~l~~~l~~~~~   95 (355)
                      +.++ +..|+||||++..++..+.....
T Consensus         5 Iav~~~kGGvGKTtia~nLA~~la~~g~   32 (237)
T d1g3qa_           5 ISIVSGKGGTGKTTVTANLSVALGDRGR   32 (237)
T ss_dssp             EEEECSSTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCcHHHHHHHHHHHHHhCCC
Confidence            4455 66999999999999999865433

>d1goja_ c.37.1.9 (A:) Kinesin {Neurospora crassa [TaxId: 5141]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Neurospora crassa [TaxId: 5141]

Probab=80.23  E-value=0.67  Score=39.55  Aligned_cols=40  Identities=28%  Similarity=0.437  Sum_probs=25.0

Q ss_pred             CCcccc----cHHHHHHH-HHHH---hcCCCCeEEEECCCCCCHHHHH
Q psy17903         44 IDDVIE----QQEVVSVL-KKCL---SGADLPHFLFYGPPGTGKTSTM   83 (355)
Q Consensus        44 ~~~~vg----~~~~~~~l-~~~l---~~~~~~~~ll~Gp~G~GKt~la   83 (355)
                      ||.+.+    |+++.+.+ ...+   -.|....++-||++|+|||++.
T Consensus        50 FD~vf~~~~~q~~vy~~~~~plv~~~l~G~n~ti~aYG~tgSGKT~Tm   97 (354)
T d1goja_          50 FDRVFDMSCKQSDIFDFSIKPTVDDILNGYNGTVFAYGQTGAGKSYTM   97 (354)
T ss_dssp             CSEEECTTCCHHHHHHHHTHHHHHHHTTTCCEEEEEECSTTSSHHHHH
T ss_pred             CCeEcCCCCCHHHHHHHHHHHHHHHhhccCceeEEecccCCCCcceee
Confidence            666654    44554432 2222   3444334999999999999875

>d1tafa_ a.22.1.3 (A:) TAF(II)42 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)42
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=80.01  E-value=2.8  Score=25.95  Aligned_cols=59  Identities=15%  Similarity=0.055  Sum_probs=42.0

Q ss_pred             HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhC
Q psy17903        203 TRLQYICEQESV-MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG  261 (355)
Q Consensus       203 ~~l~~~~~~~~~-~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~~~It~~~v~~~~~  261 (355)
                      +.+..+++..|+ .+++.+...+.+........++....-.+..+++..|+.+||+-++.
T Consensus         5 ~~i~~iL~~~GV~~yeprV~~qlLef~yRYtt~VL~DA~vys~HA~k~~id~dDVkLAi~   64 (68)
T d1tafa_           5 QVIMSILKELNVQEYEPRVVNQLLEFTFRYVTSILDDAKVYANHARKKTIDLDDVRLATE   64 (68)
T ss_dssp             HHHHHHHHHTTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Confidence            455667777777 47888888888776555555555555556666888999999987653