Psyllid ID: psy18185

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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
Protein Sequence
MSAYKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDKFMR
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHHHHHHHHcccEEEcccEEEEEccccccHHHHHHHHHHHccccccEEEEEEccccEEEccccccccccccccccccccEEEEcccccHHHHHHHHHHHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHccHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccHHHHHHHHHHHHHHHHHcccEEEcccEEEEEcHHHHcHHHHHHHHHHHHcccccEEEEEEcccEEEEEccccccccccccHHHHHHEEEEccccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEHHHHHHHHHHHHcHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
msayksdkLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAtnrgrclvrgtddiisphgipldlLDRLLiirttpynqkDMEAIIKLRAnteghvlddeALVTLSEIGTRSTLRYVVQLLTPaaltaktngrtaiskqdILEVSTLFLDAKSSARILTENKDKFMR
Flexible Loop (DISEMBL)
msayksdklrKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRanteghvldDEALVTLSEIGTRSTLRYVVQLLTPAaltaktngrtaiskqdilevstlfldakssariltenkdkfmr
Low Complexity Region (SEG)
MSAYKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIpldlldrlliirttpYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDKFMR
Disordered region (IsUnstruct)
************INKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDA****************
Disordered Region (DISOPRED)
***YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDKFMR
Disordered Region (DISEMBL)
********LRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDKFMR
Disordered Region (DISPRO)
*SAYKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDKFMR
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSAYKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDKFMR
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	190	2.2.26 [Sep-21-2011]
Q0IFL2	456	RuvB-like helicase 1 OS=A	N/A	N/A	0.968	0.403	0.75	2e-77
Q9Y265	456	RuvB-like 1 OS=Homo sapie	yes	N/A	0.973	0.405	0.697	1e-73
P60123	456	RuvB-like 1 OS=Rattus nor	yes	N/A	0.973	0.405	0.691	2e-73
P60122	456	RuvB-like 1 OS=Mus muscul	yes	N/A	0.973	0.405	0.691	2e-73
Q9DE26	456	RuvB-like 1 OS=Xenopus la	N/A	N/A	0.973	0.405	0.691	3e-73
Q8AWW7	456	RuvB-like 1 OS=Danio reri	yes	N/A	0.973	0.405	0.681	7e-70
Q29AK9	456	RuvB-like helicase 1 OS=D	yes	N/A	0.968	0.403	0.75	2e-68
Q9VH07	456	RuvB-like helicase 1 OS=D	yes	N/A	0.968	0.403	0.744	1e-67
Q9C0X6	456	RuvB-like helicase 1 OS=S	yes	N/A	0.926	0.385	0.619	9e-62
Q4P112	488	RuvB-like helicase 1 OS=U	N/A	N/A	0.926	0.360	0.581	9e-61

>sp|Q0IFL2|RUVB1_AEDAE RuvB-like helicase 1 OS=Aedes aegypti GN=pont PE=3 SV=1

 Score =  287 bits (735), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 138/184 (75%), Positives = 155/184 (84%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLR EINKVVNKYIDQGIAELVPGVLFIDEVHMLDLE FTYLH++LESAIAPIVIFAT
Sbjct: 272 TDKLRMEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLECFTYLHKSLESAIAPIVIFAT 331

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRGRC++RGTDDIISPHGIPLDLLDRLLI+RT PYN  ++E IIKLRA TEG  ++D A+
Sbjct: 332 NRGRCVIRGTDDIISPHGIPLDLLDRLLIVRTAPYNLSEIEQIIKLRAQTEGLSVEDSAI 391

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             LSEIG  +TLRY VQLLTPA    K NGRT I+K DI+EV+ LFLDAK SA+ L E  
Sbjct: 392 QALSEIGDNTTLRYAVQLLTPAHQNCKVNGRTQITKDDIVEVNGLFLDAKRSAKFLQEEN 451

Query: 186 DKFM 189
            K+M
Sbjct: 452 TKYM 455

Proposed core component of the chromatin remodeling Ino80 complex which is involved in transcriptional regulation, DNA replication and probably DNA repair.
Aedes aegypti (taxid: 7159)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: 1EC: 2

>sp|Q9Y265|RUVB1_HUMAN RuvB-like 1 OS=Homo sapiens GN=RUVBL1 PE=1 SV=1

 Score =  275 bits (703), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 129/185 (69%), Positives = 157/185 (84%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLR EINKVVNKYIDQGIAELVPGVLF+DEVHMLD+E FTYLHRALES+IAPIVIFA+
Sbjct: 272 TDKLRGEINKVVNKYIDQGIAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFAS 331

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRG C++RGT+DI SPHGIPLDLLDR++IIRT  Y  ++M+ IIK+RA TEG  + +EAL
Sbjct: 332 NRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEAL 391

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L EIGT++TLRY VQLLTPA L AK NG+ +I K+ + E+S LF DAKSSA+IL + +
Sbjct: 392 NHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELFYDAKSSAKILADQQ 451

Query: 186 DKFMR 190
           DK+M+
Sbjct: 452 DKYMK 456

May be able to bind plasminogen at cell surface and enhance plasminogen activation.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|P60123|RUVB1_RAT RuvB-like 1 OS=Rattus norvegicus GN=Ruvbl1 PE=1 SV=1

 Score =  274 bits (701), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 128/185 (69%), Positives = 157/185 (84%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLR EINKVVNKYIDQG+AELVPGVLF+DEVHMLD+E FTYLHRALES+IAPIVIFA+
Sbjct: 272 TDKLRGEINKVVNKYIDQGVAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFAS 331

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRG C++RGT+DI SPHGIPLDLLDR++IIRT  Y  ++M+ IIK+RA TEG  + +EAL
Sbjct: 332 NRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEAL 391

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L EIGT++TLRY VQLLTPA L AK NG+ +I K+ + E+S LF DAKSSA+IL + +
Sbjct: 392 NHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELFYDAKSSAKILADQQ 451

Query: 186 DKFMR 190
           DK+M+
Sbjct: 452 DKYMK 456

May be able to bind plasminogen at cell surface and enhance plasminogen activation.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|P60122|RUVB1_MOUSE RuvB-like 1 OS=Mus musculus GN=Ruvbl1 PE=1 SV=1

 Score =  274 bits (701), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 128/185 (69%), Positives = 157/185 (84%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLR EINKVVNKYIDQG+AELVPGVLF+DEVHMLD+E FTYLHRALES+IAPIVIFA+
Sbjct: 272 TDKLRGEINKVVNKYIDQGVAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFAS 331

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRG C++RGT+DI SPHGIPLDLLDR++IIRT  Y  ++M+ IIK+RA TEG  + +EAL
Sbjct: 332 NRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEAL 391

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L EIGT++TLRY VQLLTPA L AK NG+ +I K+ + E+S LF DAKSSA+IL + +
Sbjct: 392 NHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELFYDAKSSAKILADQQ 451

Query: 186 DKFMR 190
           DK+M+
Sbjct: 452 DKYMK 456

May be able to bind plasminogen at cell surface and enhance plasminogen activation.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q9DE26|RUVB1_XENLA RuvB-like 1 OS=Xenopus laevis GN=ruvbl1 PE=2 SV=1

 Score =  274 bits (700), Expect = 3e-73,   Method: Compositional matrix adjust.
 Identities = 128/185 (69%), Positives = 157/185 (84%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLR +INKVVNKYIDQGIAELVPGVLFIDEVHMLD+E FTYLHRALES++APIVIFAT
Sbjct: 272 TDKLRGQINKVVNKYIDQGIAELVPGVLFIDEVHMLDIECFTYLHRALESSLAPIVIFAT 331

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRG C++RGT+D+ SPHGIPLDLLDR++IIRT  Y  ++M+ IIK+RA TEG  + +EAL
Sbjct: 332 NRGNCIIRGTEDVASPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEAL 391

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L EIGT++TLRY VQLLTPA L AK NG+ +I K+ + E++ LF DAKSSA+IL E +
Sbjct: 392 NHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEINELFYDAKSSAKILAEQQ 451

Query: 186 DKFMR 190
           +KFM+
Sbjct: 452 EKFMK 456

Proposed core component of the chromatin remodeling INO80 complex which is involved in transcriptional regulation, DNA replication and probably DNA repair.

Xenopus laevis (taxid: 8355)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q8AWW7|RUVB1_DANRE RuvB-like 1 OS=Danio rerio GN=ruvbl1 PE=2 SV=1

 Score =  263 bits (671), Expect = 7e-70,   Method: Compositional matrix adjust.
 Identities = 126/185 (68%), Positives = 154/185 (83%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLR EINKVVNKYIDQG+AELVPGVLFIDEVHMLD+E FTYLHRALES+IAPIV+FA+
Sbjct: 272 TDKLRGEINKVVNKYIDQGVAELVPGVLFIDEVHMLDIECFTYLHRALESSIAPIVVFAS 331

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRG CL+RGT+DI SPHGIPLDLLDR++IIRT  Y  ++M+ IIK+RA TEG  + +EAL
Sbjct: 332 NRGNCLIRGTEDISSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGLNISEEAL 391

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L EIGT++TLRY VQLLTPA+L A+  GR  + K+ + E++ LF DAKSSA+IL +  
Sbjct: 392 SHLGEIGTKTTLRYAVQLLTPASLLARVQGREVVEKEHVEEINELFYDAKSSAKILQDQH 451

Query: 186 DKFMR 190
            KFM+
Sbjct: 452 TKFMK 456

Proposed core component of the chromatin remodeling Ino80 complex which is involved in transcriptional regulation, DNA replication and probably DNA repair.

Danio rerio (taxid: 7955)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q29AK9|RUVB1_DROPS RuvB-like helicase 1 OS=Drosophila pseudoobscura pseudoobscura GN=pont PE=3 SV=1

 Score =  258 bits (659), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 138/184 (75%), Positives = 154/184 (83%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLR EINKVVNKYIDQGIAELVPGVLFIDE+HMLDLETFTYLH++LES IAPIVIFAT
Sbjct: 272 TDKLRMEINKVVNKYIDQGIAELVPGVLFIDEIHMLDLETFTYLHKSLESPIAPIVIFAT 331

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRGRC++RGT DI+SPHGIPLDLLDRLLIIRT  Y+  DME IIKLRA TEG  L+D A 
Sbjct: 332 NRGRCVIRGTTDIVSPHGIPLDLLDRLLIIRTLLYSTSDMEQIIKLRAQTEGLQLEDPAF 391

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             LSEIGT STLRY VQLLTPA    K NGRT I+K DI +V +LFLDAK S++ L+E  
Sbjct: 392 ARLSEIGTSSTLRYAVQLLTPAHQMCKVNGRTQITKDDIEDVHSLFLDAKRSSKHLSEKN 451

Query: 186 DKFM 189
           +KFM
Sbjct: 452 NKFM 455

Proposed core component of the chromatin remodeling Ino80 complex which is involved in transcriptional regulation, DNA replication and probably DNA repair.

Drosophila pseudoobscura pseudoobscura (taxid: 46245)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q9VH07|RUVB1_DROME RuvB-like helicase 1 OS=Drosophila melanogaster GN=pont PE=1 SV=1

 Score =  255 bits (652), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 137/184 (74%), Positives = 153/184 (83%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLR EINKVVNKYIDQGIAELVPGVLFIDE+HMLDLETFTYLH++LES IAPIVIFAT
Sbjct: 272 TDKLRMEINKVVNKYIDQGIAELVPGVLFIDEIHMLDLETFTYLHKSLESPIAPIVIFAT 331

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRGRC++RGT DI+SPHGIPLDLLDRLLIIRT  Y+  DME IIKLRA TEG  L++ A 
Sbjct: 332 NRGRCVIRGTTDIVSPHGIPLDLLDRLLIIRTLLYSTADMEQIIKLRAQTEGLQLEENAF 391

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             LSEIGT STLRY VQLLTPA    K NGR  ISK DI +V +LFLDAK S++ L+E  
Sbjct: 392 TRLSEIGTSSTLRYAVQLLTPAHQMCKVNGRNQISKDDIEDVHSLFLDAKRSSKHLSEKN 451

Query: 186 DKFM 189
           +KFM
Sbjct: 452 NKFM 455

Proposed core component of the chromatin remodeling Ino80 complex which is involved in transcriptional regulation, DNA replication and probably DNA repair.

Drosophila melanogaster (taxid: 7227)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q9C0X6|RUVB1_SCHPO RuvB-like helicase 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rvb1 PE=3 SV=1

 Score =  236 bits (601), Expect = 9e-62,   Method: Compositional matrix adjust.
 Identities = 109/176 (61%), Positives = 144/176 (81%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLR EINKVVNKYI+QGIAEL+PGVLFIDEVHMLD+E FTYL++ALES I+PIVIFA+
Sbjct: 273 TDKLRGEINKVVNKYIEQGIAELIPGVLFIDEVHMLDIECFTYLNQALESTISPIVIFAS 332

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRG C +RGT+DI +PHGIP DLLDRLLI+RT PY++ ++ +I+++RA  E  +L DE L
Sbjct: 333 NRGICTIRGTEDIQAPHGIPTDLLDRLLIVRTLPYSESEIRSILQIRAKVENIILTDECL 392

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARIL 181
             L++ G+R++LRYV+QLLTP ++ A  +G   I  QDI E + LFLDA+ SA+++
Sbjct: 393 DKLAQEGSRTSLRYVIQLLTPVSIIASLHGNKEIGVQDIEECNDLFLDARRSAQVV 448

DNA helicase which participates in several chromatin remodeling complexes, including the SWR1 and the INO80 complexes. The SWR1 complex mediates the ATP-dependent exchange of histone H2A for the H2A variant HZT1 leading to transcriptional regulation of selected genes by chromatin remodeling. The INO80 complex remodels chromatin by shifting nucleosomes and is involved in DNA repair. Also involved in pre-rRNA processing.

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

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q4P112|RUVB1_USTMA RuvB-like helicase 1 OS=Ustilago maydis (strain 521 / FGSC 9021) GN=RVB1 PE=3 SV=1

 Score =  232 bits (592), Expect = 9e-61,   Method: Compositional matrix adjust.
 Identities = 107/184 (58%), Positives = 148/184 (80%), Gaps = 8/184 (4%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLR EIN+VV+KYI+QGIAELVPGVLFIDEVHMLD+E FTYL+RALES I+P VI AT
Sbjct: 289 TDKLRGEINRVVDKYIEQGIAELVPGVLFIDEVHMLDMECFTYLNRALESTISPHVILAT 348

Query: 66  NRGRCLVRGTD--------DIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEG 117
           NRG+C+VRGT+         I++PHGIPLDLLDR +I+RT PY + ++  +++LRA  EG
Sbjct: 349 NRGQCMVRGTEYEGPASGTGIVAPHGIPLDLLDRCMIVRTMPYEKDEIREVLRLRAKVEG 408

Query: 118 HVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSS 177
           H++ ++AL  L+E G  S+LR+ +QLL+P+++ AKT GR+ I+ +DI+E + LF+DA+ S
Sbjct: 409 HLIAEDALEKLTEEGVSSSLRFALQLLSPSSILAKTAGRSEITIKDIVEANELFIDARRS 468

Query: 178 ARIL 181
           A++L
Sbjct: 469 AKVL 472

DNA helicase which participates in several chromatin remodeling complexes, including the SWR1 and the INO80 complexes. The SWR1 complex mediates the ATP-dependent exchange of histone H2A for the H2A variant HZT1 leading to transcriptional regulation of selected genes by chromatin remodeling. The INO80 complex remodels chromatin by shifting nucleosomes and is involved in DNA repair. Also involved in pre-rRNA processing.

Ustilago maydis (strain 521 / FGSC 9021) (taxid: 237631)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

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	190
91089873	456	PREDICTED: similar to pontin [Tribolium	0.968	0.403	0.771	3e-81
442757573	458	Putative dna helicase tbp-interacting pr	0.973	0.403	0.740	5e-78
241587680	458	conserved hypothetical protein [Ixodes s	0.973	0.403	0.740	7e-78
350421734	456	PREDICTED: ruvB-like 1-like [Bombus impa	0.973	0.405	0.810	3e-77
340726762	456	PREDICTED: ruvB-like 1-like [Bombus terr	0.973	0.405	0.810	3e-77
48106137	456	PREDICTED: pontin protein isoform 1 [Api	0.973	0.405	0.810	5e-77
380020450	456	PREDICTED: ruvB-like 1-like [Apis florea	0.973	0.405	0.810	5e-77
427794163	460	Putative dna helicase tip49 tbp-interact	0.973	0.402	0.724	7e-77
346466027	513	hypothetical protein [Amblyomma maculatu	0.973	0.360	0.729	7e-77
427794095	503	Putative dna helicase tip49 tbp-interact	0.973	0.367	0.724	7e-77

>gi|91089873|ref|XP_971596.1| PREDICTED: similar to pontin [Tribolium castaneum] gi|270014274|gb|EFA10722.1| pontin [Tribolium castaneum]

 Score =  306 bits (783), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 142/184 (77%), Positives = 171/184 (92%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLR+EINKVV+KYIDQGIAELVPGVLFIDE+HMLD+ETFTYLHRALESAIAPIVIFAT
Sbjct: 272 TDKLRREINKVVDKYIDQGIAELVPGVLFIDEIHMLDIETFTYLHRALESAIAPIVIFAT 331

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRGRC++RGTDDI++PHGIPLDLLDRL+IIRT PY++ ++E I+KLRA+TEG  ++ EAL
Sbjct: 332 NRGRCVIRGTDDIVAPHGIPLDLLDRLVIIRTLPYSRSELEQILKLRASTEGLEIEAEAL 391

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
            TL ++G+R+TLRY VQLLTPA+LTAKTNGR  I+K D+ EVS+LFLDAKSSARIL++NK
Sbjct: 392 STLGDVGSRATLRYAVQLLTPASLTAKTNGRDNITKADVEEVSSLFLDAKSSARILSDNK 451

Query: 186 DKFM 189
           +KFM
Sbjct: 452 EKFM 455

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|442757573|gb|JAA70945.1| Putative dna helicase tbp-interacting protein [Ixodes ricinus]

 Score =  295 bits (756), Expect = 5e-78,   Method: Compositional matrix adjust.
 Identities = 137/185 (74%), Positives = 163/185 (88%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLD+E FTYLHRALES+IAPIVIFAT
Sbjct: 274 TDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDIECFTYLHRALESSIAPIVIFAT 333

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRGRC +RGT+D++SPHGIPLDLLDRLLI+RT PY+Q++M  I+++RA TEG  +D+E+L
Sbjct: 334 NRGRCTIRGTEDVVSPHGIPLDLLDRLLIVRTLPYSQEEMVKILRIRAQTEGTEVDEESL 393

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L EIGTR+TLRY  QLL+P++L AK NGRT+I K D+ EVS LF DAKSSA+IL EN 
Sbjct: 394 QELGEIGTRTTLRYAAQLLSPSSLLAKVNGRTSIRKDDVREVSDLFHDAKSSAKILAENN 453

Query: 186 DKFMR 190
           DK+M+
Sbjct: 454 DKYMK 458

Source: Ixodes ricinus

Species: Ixodes ricinus

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|241587680|ref|XP_002403757.1| conserved hypothetical protein [Ixodes scapularis] gi|215502246|gb|EEC11740.1| conserved hypothetical protein [Ixodes scapularis]

 Score =  295 bits (754), Expect = 7e-78,   Method: Compositional matrix adjust.
 Identities = 137/185 (74%), Positives = 163/185 (88%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLD+E FTYLHRALES+IAPIVIFAT
Sbjct: 274 TDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDIECFTYLHRALESSIAPIVIFAT 333

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRGRC +RGT+D++SPHGIPLDLLDRLLI+RT PY+Q++M  I+++RA TEG  +D+E+L
Sbjct: 334 NRGRCTIRGTEDVVSPHGIPLDLLDRLLIVRTLPYSQEEMVKILRIRAQTEGIEVDEESL 393

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L EIGTR+TLRY  QLL+P++L AK NGRT+I K D+ EVS LF DAKSSA+IL EN 
Sbjct: 394 QELGEIGTRTTLRYAAQLLSPSSLLAKVNGRTSIRKDDVREVSDLFHDAKSSAKILAENN 453

Query: 186 DKFMR 190
           DK+M+
Sbjct: 454 DKYMK 458

Source: Ixodes scapularis

Species: Ixodes scapularis

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350421734|ref|XP_003492940.1| PREDICTED: ruvB-like 1-like [Bombus impatiens]

 Score =  293 bits (749), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 150/185 (81%), Positives = 171/185 (92%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLD+ETFTYLHRALESAIAPIVIFAT
Sbjct: 272 TDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDIETFTYLHRALESAIAPIVIFAT 331

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRGRC++RGT+DI+SPHGIPLDLLDRLLIIRT PY++K++E I+KLRA TEG  ++DEAL
Sbjct: 332 NRGRCIIRGTEDIVSPHGIPLDLLDRLLIIRTLPYSRKEIEQIVKLRATTEGLQIEDEAL 391

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L E+GT++TLRYVVQLLTPAALTAK N RT I K+DI EV +LFLDAKSSA+ILT+NK
Sbjct: 392 SALGELGTKTTLRYVVQLLTPAALTAKVNERTIIKKEDIEEVGSLFLDAKSSAKILTQNK 451

Query: 186 DKFMR 190
           DKFM+
Sbjct: 452 DKFMK 456

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340726762|ref|XP_003401722.1| PREDICTED: ruvB-like 1-like [Bombus terrestris]

 Score =  293 bits (749), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 150/185 (81%), Positives = 171/185 (92%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLD+ETFTYLHRALESAIAPIVIFAT
Sbjct: 272 TDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDIETFTYLHRALESAIAPIVIFAT 331

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRGRC++RGT+DI+SPHGIPLDLLDRLLIIRT PY++K++E I+KLRA TEG  ++DEAL
Sbjct: 332 NRGRCIIRGTEDIVSPHGIPLDLLDRLLIIRTLPYSRKEIEQIVKLRATTEGLQIEDEAL 391

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L E+GT++TLRYVVQLLTPAALTAK N RT I K+DI EV +LFLDAKSSA+ILT+NK
Sbjct: 392 SALGELGTKTTLRYVVQLLTPAALTAKVNERTIIKKEDIEEVGSLFLDAKSSAKILTQNK 451

Query: 186 DKFMR 190
           DKFM+
Sbjct: 452 DKFMK 456

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|48106137|ref|XP_393051.1| PREDICTED: pontin protein isoform 1 [Apis mellifera]

 Score =  292 bits (747), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 150/185 (81%), Positives = 171/185 (92%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLD+ETFTYLHRALESAIAPIVIFAT
Sbjct: 272 TDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDIETFTYLHRALESAIAPIVIFAT 331

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRGRC++RGT+DIISPHGIPLDLLDRLLIIRT PY++ ++E I+KLRA TEG  ++DEAL
Sbjct: 332 NRGRCIIRGTEDIISPHGIPLDLLDRLLIIRTLPYSRSEIEQIVKLRATTEGLQIEDEAL 391

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L E+GT++TLRYVVQLLTPAALTAK N RT I K+DI EV++LFLDAKSSA+ILT+NK
Sbjct: 392 SALGEVGTKTTLRYVVQLLTPAALTAKVNERTIIKKEDIEEVASLFLDAKSSAKILTQNK 451

Query: 186 DKFMR 190
           DKFM+
Sbjct: 452 DKFMK 456

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380020450|ref|XP_003694096.1| PREDICTED: ruvB-like 1-like [Apis florea]

 Score =  292 bits (747), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 150/185 (81%), Positives = 171/185 (92%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLD+ETFTYLHRALESAIAPIVIFAT
Sbjct: 272 TDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDIETFTYLHRALESAIAPIVIFAT 331

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRGRC++RGT+DIISPHGIPLDLLDRLLIIRT PY++ ++E I+KLRA TEG  ++DEAL
Sbjct: 332 NRGRCIIRGTEDIISPHGIPLDLLDRLLIIRTLPYSRSEIEQIVKLRATTEGLQIEDEAL 391

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L E+GT++TLRYVVQLLTPAALTAK N RT I K+DI EV++LFLDAKSSA+ILT+NK
Sbjct: 392 SALGEVGTKTTLRYVVQLLTPAALTAKVNERTIIKKEDIEEVASLFLDAKSSAKILTQNK 451

Query: 186 DKFMR 190
           DKFM+
Sbjct: 452 DKFMK 456

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|427794163|gb|JAA62533.1| Putative dna helicase tip49 tbp-interacting protein, partial [Rhipicephalus pulchellus]

 Score =  291 bits (746), Expect = 7e-77,   Method: Compositional matrix adjust.
 Identities = 134/185 (72%), Positives = 162/185 (87%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLRKEINKVVNKYIDQGIAELVPGVLF+DEVHMLD+E FTYLHRALES+IAPIVIFAT
Sbjct: 276 TDKLRKEINKVVNKYIDQGIAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFAT 335

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRGRC +RGT+D++SPHGIPLDLLDRLLI+RT PY +++M  I+++RA TEG  +D+E+L
Sbjct: 336 NRGRCTIRGTEDVVSPHGIPLDLLDRLLIVRTMPYTREEMVQILRIRAQTEGIEIDEESL 395

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L EIGTR+TLRY  QLL+P++L AK NGRT+I K D+ EV+ LF DAKSSA+IL EN 
Sbjct: 396 QELGEIGTRTTLRYAAQLLSPSSLLAKVNGRTSIRKDDVKEVNDLFHDAKSSAKILAENN 455

Query: 186 DKFMR 190
           DK+M+
Sbjct: 456 DKYMK 460

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|346466027|gb|AEO32858.1| hypothetical protein [Amblyomma maculatum]

 Score =  291 bits (746), Expect = 7e-77,   Method: Compositional matrix adjust.
 Identities = 135/185 (72%), Positives = 162/185 (87%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLRKEINKVVNKYIDQGIAELVPGVLF+DEVHMLD+E FTYLHRALES+IAPIVIFAT
Sbjct: 329 TDKLRKEINKVVNKYIDQGIAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFAT 388

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRGRC +RGT+D+ISPHGIPLDLLDRLLI+RT PY +++M  I+++RA TEG  +D+E+L
Sbjct: 389 NRGRCTIRGTEDVISPHGIPLDLLDRLLIVRTMPYTREEMVQILRIRAQTEGIEIDEESL 448

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L EIGTR+TLRY  QLL+P++L AK NGRT+I K D+ EV+ LF DAKSSA+IL EN 
Sbjct: 449 QELGEIGTRTTLRYAAQLLSPSSLLAKVNGRTSIRKDDVKEVNDLFHDAKSSAKILAENN 508

Query: 186 DKFMR 190
           DK+M+
Sbjct: 509 DKYMK 513

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|427794095|gb|JAA62499.1| Putative dna helicase tip49 tbp-interacting protein, partial [Rhipicephalus pulchellus]

 Score =  291 bits (746), Expect = 7e-77,   Method: Compositional matrix adjust.
 Identities = 134/185 (72%), Positives = 162/185 (87%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLRKEINKVVNKYIDQGIAELVPGVLF+DEVHMLD+E FTYLHRALES+IAPIVIFAT
Sbjct: 319 TDKLRKEINKVVNKYIDQGIAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFAT 378

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRGRC +RGT+D++SPHGIPLDLLDRLLI+RT PY +++M  I+++RA TEG  +D+E+L
Sbjct: 379 NRGRCTIRGTEDVVSPHGIPLDLLDRLLIVRTMPYTREEMVQILRIRAQTEGIEIDEESL 438

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L EIGTR+TLRY  QLL+P++L AK NGRT+I K D+ EV+ LF DAKSSA+IL EN 
Sbjct: 439 QELGEIGTRTTLRYAAQLLSPSSLLAKVNGRTSIRKDDVKEVNDLFHDAKSSAKILAENN 498

Query: 186 DKFMR 190
           DK+M+
Sbjct: 499 DKYMK 503

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	190
UNIPROTKB|Q0IFL2	456	pont "RuvB-like helicase 1" [A	0.968	0.403	0.679	3.9e-60
UNIPROTKB|Q29AK9	456	pont "RuvB-like helicase 1" [D	0.968	0.403	0.679	5e-60
FB|FBgn0040078	456	pont "pontin" [Drosophila mela	0.968	0.403	0.673	2.2e-59
UNIPROTKB|E2RQC9	456	RUVBL1 "Uncharacterized protei	0.973	0.405	0.637	5.1e-58
UNIPROTKB|Q9Y265	456	RUVBL1 "RuvB-like 1" [Homo sap	0.973	0.405	0.637	5.1e-58
UNIPROTKB|A7MBG8	456	RUVBL1 "Uncharacterized protei	0.973	0.405	0.627	6.6e-58
UNIPROTKB|Q9DE26	456	ruvbl1 "RuvB-like 1" [Xenopus	0.973	0.405	0.632	6.6e-58
MGI|MGI:1928760	456	Ruvbl1 "RuvB-like protein 1" [	0.973	0.405	0.632	6.6e-58
RGD|68373	456	Ruvbl1 "RuvB-like 1 (E. coli)"	0.973	0.405	0.632	6.6e-58
UNIPROTKB|I3L742	448	LOC100739335 "Uncharacterized	0.973	0.412	0.632	8.4e-58

UNIPROTKB|Q0IFL2 pont "RuvB-like helicase 1" [Aedes aegypti (taxid:7159)]

 Score = 616 (221.9 bits), Expect = 3.9e-60, P = 3.9e-60
 Identities = 125/184 (67%), Positives = 141/184 (76%)

Query:     6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
             +DKLR EINKVVNKYIDQGIAELVPGVLFIDEVHMLDLE FTYLH++LESAIAPIVIFAT
Sbjct:   272 TDKLRMEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLECFTYLHKSLESAIAPIVIFAT 331

Query:    66 NRGRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEAL 125
             NRGRC++RGTDDIISPHGI               YN  ++E IIKLRA TEG  ++D A+
Sbjct:   332 NRGRCVIRGTDDIISPHGIPLDLLDRLLIVRTAPYNLSEIEQIIKLRAQTEGLSVEDSAI 391

Query:   126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
               LSEIG  +TLRY VQLLTPA    K NGRT I+K DI+EV+ LFLDAK SA+ L E  
Sbjct:   392 QALSEIGDNTTLRYAVQLLTPAHQNCKVNGRTQITKDDIVEVNGLFLDAKRSAKFLQEEN 451

Query:   186 DKFM 189
              K+M
Sbjct:   452 TKYM 455

GO:0003713 "transcription coactivator activity" evidence=ISS

GO:0030111 "regulation of Wnt receptor signaling pathway" evidence=ISS

GO:0031011 "Ino80 complex" evidence=ISS

GO:0042127 "regulation of cell proliferation" evidence=ISS

UNIPROTKB|Q29AK9 pont "RuvB-like helicase 1" [Drosophila pseudoobscura pseudoobscura (taxid:46245)]

 Score = 615 (221.5 bits), Expect = 5.0e-60, P = 5.0e-60
 Identities = 125/184 (67%), Positives = 141/184 (76%)

Query:     6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
             +DKLR EINKVVNKYIDQGIAELVPGVLFIDE+HMLDLETFTYLH++LES IAPIVIFAT
Sbjct:   272 TDKLRMEINKVVNKYIDQGIAELVPGVLFIDEIHMLDLETFTYLHKSLESPIAPIVIFAT 331

Query:    66 NRGRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEAL 125
             NRGRC++RGT DI+SPHGI               Y+  DME IIKLRA TEG  L+D A 
Sbjct:   332 NRGRCVIRGTTDIVSPHGIPLDLLDRLLIIRTLLYSTSDMEQIIKLRAQTEGLQLEDPAF 391

Query:   126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
               LSEIGT STLRY VQLLTPA    K NGRT I+K DI +V +LFLDAK S++ L+E  
Sbjct:   392 ARLSEIGTSSTLRYAVQLLTPAHQMCKVNGRTQITKDDIEDVHSLFLDAKRSSKHLSEKN 451

Query:   186 DKFM 189
             +KFM
Sbjct:   452 NKFM 455

GO:0003713 "transcription coactivator activity" evidence=ISS

GO:0030111 "regulation of Wnt receptor signaling pathway" evidence=ISS

GO:0031011 "Ino80 complex" evidence=ISS

GO:0042127 "regulation of cell proliferation" evidence=ISS

FB|FBgn0040078 pont "pontin" [Drosophila melanogaster (taxid:7227)]

 Score = 609 (219.4 bits), Expect = 2.2e-59, P = 2.2e-59
 Identities = 124/184 (67%), Positives = 140/184 (76%)

Query:     6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
             +DKLR EINKVVNKYIDQGIAELVPGVLFIDE+HMLDLETFTYLH++LES IAPIVIFAT
Sbjct:   272 TDKLRMEINKVVNKYIDQGIAELVPGVLFIDEIHMLDLETFTYLHKSLESPIAPIVIFAT 331

Query:    66 NRGRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEAL 125
             NRGRC++RGT DI+SPHGI               Y+  DME IIKLRA TEG  L++ A 
Sbjct:   332 NRGRCVIRGTTDIVSPHGIPLDLLDRLLIIRTLLYSTADMEQIIKLRAQTEGLQLEENAF 391

Query:   126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
               LSEIGT STLRY VQLLTPA    K NGR  ISK DI +V +LFLDAK S++ L+E  
Sbjct:   392 TRLSEIGTSSTLRYAVQLLTPAHQMCKVNGRNQISKDDIEDVHSLFLDAKRSSKHLSEKN 451

Query:   186 DKFM 189
             +KFM
Sbjct:   452 NKFM 455

GO:0008013 "beta-catenin binding" evidence=ISS

GO:0017025 "TBP-class protein binding" evidence=ISS

GO:0003678 "DNA helicase activity" evidence=ISS

GO:0005524 "ATP binding" evidence=IEA

GO:0043141 "ATP-dependent 5'-3' DNA helicase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0035267 "NuA4 histone acetyltransferase complex" evidence=IDA

GO:0031011 "Ino80 complex" evidence=IDA

GO:0035060 "brahma complex" evidence=IDA

GO:0010628 "positive regulation of gene expression" evidence=IMP

GO:0005875 "microtubule associated complex" evidence=IDA

GO:0090307 "spindle assembly involved in mitosis" evidence=IMP

GO:0007095 "mitotic G2 DNA damage checkpoint" evidence=IGI

UNIPROTKB|E2RQC9 RUVBL1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 596 (214.9 bits), Expect = 5.1e-58, P = 5.1e-58
 Identities = 118/185 (63%), Positives = 144/185 (77%)

Query:     6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
             +DKLR EINKVVNKYIDQGIAELVPGVLF+DEVHMLD+E FTYLHRALES+IAPIVIFA+
Sbjct:   272 TDKLRGEINKVVNKYIDQGIAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFAS 331

Query:    66 NRGRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEAL 125
             NRG C++RGT+DI SPHGI               Y  ++M+ IIK+RA TEG  + +EAL
Sbjct:   332 NRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEAL 391

Query:   126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
               L EIGT++TLRY VQLLTPA L AK NG+ +I K+ + E+S LF DAKSSA+IL + +
Sbjct:   392 NHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELFYDAKSSAKILADQQ 451

Query:   186 DKFMR 190
             DK+M+
Sbjct:   452 DKYMK 456

GO:0071339 "MLL1 complex" evidence=IEA

GO:0043968 "histone H2A acetylation" evidence=IEA

GO:0043967 "histone H4 acetylation" evidence=IEA

GO:0035267 "NuA4 histone acetyltransferase complex" evidence=IEA

GO:0031011 "Ino80 complex" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0043141 "ATP-dependent 5'-3' DNA helicase activity" evidence=IEA

UNIPROTKB|Q9Y265 RUVBL1 "RuvB-like 1" [Homo sapiens (taxid:9606)]

 Score = 596 (214.9 bits), Expect = 5.1e-58, P = 5.1e-58
 Identities = 118/185 (63%), Positives = 144/185 (77%)

Query:     6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
             +DKLR EINKVVNKYIDQGIAELVPGVLF+DEVHMLD+E FTYLHRALES+IAPIVIFA+
Sbjct:   272 TDKLRGEINKVVNKYIDQGIAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFAS 331

Query:    66 NRGRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEAL 125
             NRG C++RGT+DI SPHGI               Y  ++M+ IIK+RA TEG  + +EAL
Sbjct:   332 NRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEAL 391

Query:   126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
               L EIGT++TLRY VQLLTPA L AK NG+ +I K+ + E+S LF DAKSSA+IL + +
Sbjct:   392 NHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELFYDAKSSAKILADQQ 451

Query:   186 DKFMR 190
             DK+M+
Sbjct:   452 DKYMK 456

GO:0005524 "ATP binding" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0007067 "mitosis" evidence=IEA

GO:0040008 "regulation of growth" evidence=IEA

GO:0051301 "cell division" evidence=IEA

GO:0005815 "microtubule organizing center" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0016363 "nuclear matrix" evidence=IEA

GO:0016887 "ATPase activity" evidence=IDA

GO:0035267 "NuA4 histone acetyltransferase complex" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0003678 "DNA helicase activity" evidence=IDA

GO:0043968 "histone H2A acetylation" evidence=IDA

GO:0043967 "histone H4 acetylation" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0071339 "MLL1 complex" evidence=IDA

GO:0031011 "Ino80 complex" evidence=IDA

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=TAS

GO:0007283 "spermatogenesis" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006334 "nucleosome assembly" evidence=TAS

GO:0034080 "CENP-A containing nucleosome assembly at centromere" evidence=TAS

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0043231 "intracellular membrane-bounded organelle" evidence=IDA

GO:0032508 "DNA duplex unwinding" evidence=IDA

UNIPROTKB|A7MBG8 RUVBL1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 595 (214.5 bits), Expect = 6.6e-58, P = 6.6e-58
 Identities = 116/185 (62%), Positives = 143/185 (77%)

Query:     6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
             +DKLR EINKVVNKYIDQG+AELVPGVLF+DEVHMLD+E FTYLHRALES+IAPIVIFA+
Sbjct:   272 TDKLRGEINKVVNKYIDQGVAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFAS 331

Query:    66 NRGRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEAL 125
             NRG C++RGT+D+ SPHGI               Y  ++M+ IIK+RA TEG  + +EAL
Sbjct:   332 NRGNCVIRGTEDVTSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEAL 391

Query:   126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
               L EIGT++TLRY VQLLTPA L AK NG+  I K+ + E+S LF DAKSSA+IL + +
Sbjct:   392 NHLGEIGTKTTLRYAVQLLTPANLLAKINGKDGIEKEHVEEISELFYDAKSSAKILADQQ 451

Query:   186 DKFMR 190
             DK+M+
Sbjct:   452 DKYMK 456

GO:0071339 "MLL1 complex" evidence=IEA

GO:0043968 "histone H2A acetylation" evidence=IEA

GO:0043967 "histone H4 acetylation" evidence=IEA

GO:0035267 "NuA4 histone acetyltransferase complex" evidence=IEA

GO:0031011 "Ino80 complex" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0043141 "ATP-dependent 5'-3' DNA helicase activity" evidence=IEA

UNIPROTKB|Q9DE26 ruvbl1 "RuvB-like 1" [Xenopus laevis (taxid:8355)]

 Score = 595 (214.5 bits), Expect = 6.6e-58, P = 6.6e-58
 Identities = 117/185 (63%), Positives = 144/185 (77%)

Query:     6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
             +DKLR +INKVVNKYIDQGIAELVPGVLFIDEVHMLD+E FTYLHRALES++APIVIFAT
Sbjct:   272 TDKLRGQINKVVNKYIDQGIAELVPGVLFIDEVHMLDIECFTYLHRALESSLAPIVIFAT 331

Query:    66 NRGRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEAL 125
             NRG C++RGT+D+ SPHGI               Y  ++M+ IIK+RA TEG  + +EAL
Sbjct:   332 NRGNCIIRGTEDVASPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEAL 391

Query:   126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
               L EIGT++TLRY VQLLTPA L AK NG+ +I K+ + E++ LF DAKSSA+IL E +
Sbjct:   392 NHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEINELFYDAKSSAKILAEQQ 451

Query:   186 DKFMR 190
             +KFM+
Sbjct:   452 EKFMK 456

GO:0071339 "MLL1 complex" evidence=ISS

MGI|MGI:1928760 Ruvbl1 "RuvB-like protein 1" [Mus musculus (taxid:10090)]

 Score = 595 (214.5 bits), Expect = 6.6e-58, P = 6.6e-58
 Identities = 117/185 (63%), Positives = 144/185 (77%)

Query:     6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
             +DKLR EINKVVNKYIDQG+AELVPGVLF+DEVHMLD+E FTYLHRALES+IAPIVIFA+
Sbjct:   272 TDKLRGEINKVVNKYIDQGVAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFAS 331

Query:    66 NRGRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEAL 125
             NRG C++RGT+DI SPHGI               Y  ++M+ IIK+RA TEG  + +EAL
Sbjct:   332 NRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEAL 391

Query:   126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
               L EIGT++TLRY VQLLTPA L AK NG+ +I K+ + E+S LF DAKSSA+IL + +
Sbjct:   392 NHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELFYDAKSSAKILADQQ 451

Query:   186 DKFMR 190
             DK+M+
Sbjct:   452 DKYMK 456

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003678 "DNA helicase activity" evidence=ISO

GO:0004386 "helicase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISO

GO:0006281 "DNA repair" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006974 "response to DNA damage stimulus" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0007067 "mitosis" evidence=IEA

GO:0016568 "chromatin modification" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

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

GO:0030529 "ribonucleoprotein complex" evidence=IDA

GO:0031011 "Ino80 complex" evidence=ISO

GO:0032508 "DNA duplex unwinding" evidence=ISO

GO:0035267 "NuA4 histone acetyltransferase complex" evidence=ISO

GO:0040008 "regulation of growth" evidence=IEA

GO:0043234 "protein complex" evidence=ISO

GO:0043967 "histone H4 acetylation" evidence=ISO

GO:0043968 "histone H2A acetylation" evidence=ISO

GO:0051301 "cell division" evidence=IEA

GO:0071339 "MLL1 complex" evidence=ISO

RGD|68373 Ruvbl1 "RuvB-like 1 (E. coli)" [Rattus norvegicus (taxid:10116)]

 Score = 595 (214.5 bits), Expect = 6.6e-58, P = 6.6e-58
 Identities = 117/185 (63%), Positives = 144/185 (77%)

Query:     6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
             +DKLR EINKVVNKYIDQG+AELVPGVLF+DEVHMLD+E FTYLHRALES+IAPIVIFA+
Sbjct:   272 TDKLRGEINKVVNKYIDQGVAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFAS 331

Query:    66 NRGRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEAL 125
             NRG C++RGT+DI SPHGI               Y  ++M+ IIK+RA TEG  + +EAL
Sbjct:   332 NRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEAL 391

Query:   126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
               L EIGT++TLRY VQLLTPA L AK NG+ +I K+ + E+S LF DAKSSA+IL + +
Sbjct:   392 NHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELFYDAKSSAKILADQQ 451

Query:   186 DKFMR 190
             DK+M+
Sbjct:   452 DKYMK 456

GO:0003678 "DNA helicase activity" evidence=ISO

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005737 "cytoplasm" evidence=ISO

GO:0005794 "Golgi apparatus" evidence=IEA;ISO

GO:0006281 "DNA repair" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0007067 "mitosis" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=ISO

GO:0031011 "Ino80 complex" evidence=IEA;ISO

GO:0032508 "DNA duplex unwinding" evidence=ISO

GO:0035267 "NuA4 histone acetyltransferase complex" evidence=ISO;ISS

GO:0040008 "regulation of growth" evidence=IEA

GO:0043141 "ATP-dependent 5'-3' DNA helicase activity" evidence=IEA

GO:0043231 "intracellular membrane-bounded organelle" evidence=ISO

GO:0043234 "protein complex" evidence=IDA

GO:0043967 "histone H4 acetylation" evidence=ISO;ISS

GO:0043968 "histone H2A acetylation" evidence=ISO;ISS

GO:0051301 "cell division" evidence=IEA

GO:0071339 "MLL1 complex" evidence=ISO;ISS

GO:0005730 "nucleolus" evidence=ISO

GO:0016887 "ATPase activity" evidence=ISO

UNIPROTKB|I3L742 LOC100739335 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 594 (214.2 bits), Expect = 8.4e-58, P = 8.4e-58
 Identities = 117/185 (63%), Positives = 143/185 (77%)

Query:     6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
             +DKLR EINKVVNKYIDQG+AELVPGVLF+DEVHMLD+E FTYLHRALES+IAPIVIFA+
Sbjct:   264 TDKLRGEINKVVNKYIDQGVAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFAS 323

Query:    66 NRGRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEAL 125
             NRG C++RGT+DI SPHGI               Y  ++M+ IIK+RA TEG  + +EAL
Sbjct:   324 NRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEAL 383

Query:   126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
               L EIGT++TLRY VQLLTPA L AK NG+  I K+ + E+S LF DAKSSA+IL + +
Sbjct:   384 NHLGEIGTKTTLRYSVQLLTPANLLAKINGKDGIEKEHVEEISELFYDAKSSAKILADQQ 443

Query:   186 DKFMR 190
             DK+M+
Sbjct:   444 DKYMK 448

GO:0005524 "ATP binding" evidence=IEA

GO:0043141 "ATP-dependent 5'-3' DNA helicase activity" evidence=IEA

GO:0031011 "Ino80 complex" 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)
Q4WPW8	RUVB1_ASPFU	3, ., 6, ., 4, ., 1, 2	0.6108	0.9684	0.4017	yes	N/A
Q6BI60	RUVB1_DEBHA	3, ., 6, ., 4, ., 1, 2	0.5911	0.9473	0.3938	yes	N/A
P0CR26	RUVB1_CRYNJ	3, ., 6, ., 4, ., 1, 2	0.5026	0.9526	0.3739	yes	N/A
Q6CQA9	RUVB1_KLULA	3, ., 6, ., 4, ., 1, 2	0.5911	0.9526	0.3960	yes	N/A
Q8AWW7	RUVB1_DANRE	3, ., 6, ., 4, ., 1, 2	0.6810	0.9736	0.4057	yes	N/A
Q6FU78	RUVB1_CANGA	3, ., 6, ., 4, ., 1, 2	0.5760	0.9631	0.4004	yes	N/A
Q29AK9	RUVB1_DROPS	3, ., 6, ., 4, ., 1, 2	0.75	0.9684	0.4035	yes	N/A
Q9VH07	RUVB1_DROME	3, ., 6, ., 4, ., 1, 2	0.7445	0.9684	0.4035	yes	N/A
P60123	RUVB1_RAT	3, ., 6, ., 4, ., 1, 2	0.6918	0.9736	0.4057	yes	N/A
P60122	RUVB1_MOUSE	3, ., 6, ., 4, ., 1, 2	0.6918	0.9736	0.4057	yes	N/A
Q03940	RUVB1_YEAST	3, ., 6, ., 4, ., 1, 2	0.5681	0.9263	0.3801	yes	N/A
Q6CB52	RUVB1_YARLI	3, ., 6, ., 4, ., 1, 2	0.5706	0.9526	0.3995	yes	N/A
Q4ICA8	RUVB1_GIBZE	3, ., 6, ., 4, ., 1, 2	0.6158	0.9315	0.3864	yes	N/A
Q9C0X6	RUVB1_SCHPO	3, ., 6, ., 4, ., 1, 2	0.6193	0.9263	0.3859	yes	N/A
Q9Y265	RUVB1_HUMAN	3, ., 6, ., 4, ., 1, 2	0.6972	0.9736	0.4057	yes	N/A
Q5BBV9	RUVB1_EMENI	3, ., 6, ., 4, ., 1, 2	0.6054	0.9684	0.4017	yes	N/A
Q750R1	RUVB1_ASHGO	3, ., 6, ., 4, ., 1, 2	0.5801	0.9526	0.3943	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.6.4.12	0.824
3rd Layer	3.6.4	LOW CONFIDENCE prediction!

---

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	190
COG1224	450	COG1224, TIP49, DNA helicase TIP49, TBP-interactin	4e-82
pfam06068	395	pfam06068, TIP49, TIP49 C-terminus	2e-76
COG2812	515	COG2812, DnaX, DNA polymerase III, gamma/tau subun	0.001
PRK14962	472	PRK14962, PRK14962, DNA polymerase III subunits ga	0.003

>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein [Transcription]

 Score =  249 bits (639), Expect = 4e-82
 Identities = 98/183 (53%), Positives = 134/183 (73%), Gaps = 1/183 (0%)

Query: 7   DKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATN 66
           D++R+E+N+ V K+I++G AELVPGVLFIDEVHMLD+E F++L+RALES +API+I ATN
Sbjct: 269 DEVREEVNEKVKKWIEEGKAELVPGVLFIDEVHMLDIECFSFLNRALESELAPIIILATN 328

Query: 67  RGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALV 126
           RG   +RGTD I SPHGIPLDLLDRLLII T PY+++++  II++RA  E   L D+AL 
Sbjct: 329 RGMTKIRGTD-IESPHGIPLDLLDRLLIISTRPYSREEIREIIRIRAKEEDIELSDDALE 387

Query: 127 TLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKD 186
            L++IG  ++LRY VQLLTPA++ AK  G   +  +D+     LFLD K S   + + + 
Sbjct: 388 YLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERAKELFLDVKRSVEYVEKYEG 447

Query: 187 KFM 189
             +
Sbjct: 448 LLL 450

Length = 450

>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus

 Score =  233 bits (597), Expect = 2e-76
 Identities = 91/143 (63%), Positives = 120/143 (83%), Gaps = 1/143 (0%)

Query: 7   DKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATN 66
            +LR+EINK VNK+I++G AE+VPGVLFIDEVHMLD+E F++L+RALES +APIVI ATN
Sbjct: 253 SELREEINKKVNKWIEEGKAEIVPGVLFIDEVHMLDIECFSFLNRALESELAPIVILATN 312

Query: 67  RGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALV 126
           RG C +RGT DIISPHGIPLDLLDRLLII T PY +++++ I+++RA  EG  + +EAL 
Sbjct: 313 RGICTIRGT-DIISPHGIPLDLLDRLLIITTEPYTREEIKQILEIRAQEEGVEISEEALD 371

Query: 127 TLSEIGTRSTLRYVVQLLTPAAL 149
            L++IG  ++LRY +QLLTPA++
Sbjct: 372 LLAKIGEETSLRYAIQLLTPASI 394

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. The N-terminal domain contains the pfam00004 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. Length = 395

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

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 25/98 (25%), Positives = 42/98 (42%), Gaps = 14/98 (14%)

Query: 32  VLFIDEVHMLDLETFTYLHRALESAIAPIV-IFATNRGRCLVRGTDDIISPHGIPLDLLD 90
           V  IDEVHML  + F  L + LE   + +  I AT         T+    P  IP  +L 
Sbjct: 122 VYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILAT---------TE----PQKIPNTILS 168

Query: 91  RLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTL 128
           R         + +++   +    + EG  ++++AL  +
Sbjct: 169 RCQRFDFKRLDLEEIAKHLAAILDKEGINIEEDALSLI 206

Length = 515

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

 Score = 37.4 bits (87), Expect = 0.003
 Identities = 30/116 (25%), Positives = 49/116 (42%), Gaps = 17/116 (14%)

Query: 32  VLFIDEVHMLDLETFTYLHRALESAIAPIV-IFATNRGRCLVRGTDDIISPHGIPLDLLD 90
           V  IDEVHML  E F  L + LE   + +V + AT              +   +P  ++ 
Sbjct: 120 VYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATT-------------NLEKVPPTIIS 166

Query: 91  RLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLS---EIGTRSTLRYVVQL 143
           R  +I     + + +   ++  A  EG  +D EAL  ++     G R  L  + Q+
Sbjct: 167 RCQVIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLEQV 222

Length = 472

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	190
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	100.0
KOG2680|consensus	454		100.0
KOG1942|consensus	456		100.0
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	99.98
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	99.92
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.89
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.88
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.88
KOG0989|consensus	346		99.87
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.87
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.87
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.86
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.86
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.86
PRK04132	846	replication factor C small subunit; Provisional	99.85
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.85
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	99.85
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.84
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.84
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	99.84
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	99.84
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	99.83
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	99.83
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.83
PLN03025	319	replication factor C subunit; Provisional	99.83
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.83
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.83
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	99.82
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	99.81
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	99.81
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	99.8
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	99.8
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.8
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	99.8
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	99.79
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	99.77
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	99.76
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	99.76
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.76
KOG0991|consensus	333		99.76
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.75
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	99.74
KOG2028|consensus	554		99.74
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.73
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	99.73
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.73
KOG2035|consensus	351		99.72
PRK07993	334	DNA polymerase III subunit delta'; Validated	99.71
PRK07399	314	DNA polymerase III subunit delta'; Validated	99.71
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	99.7
PRK12402	337	replication factor C small subunit 2; Reviewed	99.69
PRK06871	325	DNA polymerase III subunit delta'; Validated	99.69
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.68
PRK05707	328	DNA polymerase III subunit delta'; Validated	99.68
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.67
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.67
PRK08485	206	DNA polymerase III subunit delta'; Validated	99.66
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.66
PRK13341	725	recombination factor protein RarA/unknown domain f	99.66
PRK08084	235	DNA replication initiation factor; Provisional	99.66
PRK08769	319	DNA polymerase III subunit delta'; Validated	99.65
PRK13342	413	recombination factor protein RarA; Reviewed	99.64
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.64
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.63
PRK06090	319	DNA polymerase III subunit delta'; Validated	99.63
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.62
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.62
PRK06620	214	hypothetical protein; Validated	99.62
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.62
PRK08727	233	hypothetical protein; Validated	99.61
PRK07276	290	DNA polymerase III subunit delta'; Validated	99.61
PRK04195	482	replication factor C large subunit; Provisional	99.61
PRK06964	342	DNA polymerase III subunit delta'; Validated	99.6
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.59
PRK05564	313	DNA polymerase III subunit delta'; Validated	99.59
PRK14700	300	recombination factor protein RarA; Provisional	99.58
PRK08058	329	DNA polymerase III subunit delta'; Validated	99.57
PRK05818	261	DNA polymerase III subunit delta'; Validated	99.57
PRK06893	229	DNA replication initiation factor; Validated	99.56
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.55
PRK05917	290	DNA polymerase III subunit delta'; Validated	99.55
PRK05642	234	DNA replication initiation factor; Validated	99.53
PRK09087	226	hypothetical protein; Validated	99.52
KOG0990|consensus	360		99.5
PRK07132	299	DNA polymerase III subunit delta'; Validated	99.49
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.49
PHA02544	316	44 clamp loader, small subunit; Provisional	99.47
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.46
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	99.46
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.45
PRK06581	263	DNA polymerase III subunit delta'; Validated	99.44
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.43
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.37
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.37
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.36
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.34
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.26
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.25
PRK12422	445	chromosomal replication initiation protein; Provis	99.25
CHL00181	287	cbbX CbbX; Provisional	99.24
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.22
PRK08699	325	DNA polymerase III subunit delta'; Validated	99.22
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.2
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.19
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.18
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.17
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	99.15
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.15
KOG1514|consensus	767		99.13
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.08
TIGR01128	302	holA DNA polymerase III, delta subunit. subunit ar	99.07
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.03
KOG2227|consensus	529		98.96
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	98.86
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.78
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	98.71
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	98.67
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	98.67
PRK05574	340	holA DNA polymerase III subunit delta; Reviewed	98.65
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	98.64
PRK07452	326	DNA polymerase III subunit delta; Validated	98.64
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	98.63
CHL00176	638	ftsH cell division protein; Validated	98.62
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.61
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	98.58
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.58
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	98.57
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	98.56
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	98.54
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.54
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	98.54
CHL00095	821	clpC Clp protease ATP binding subunit	98.53
smart00350	509	MCM minichromosome maintenance proteins.	98.52
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.51
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	98.47
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.45
PRK05629	318	hypothetical protein; Validated	98.42
PRK06585	343	holA DNA polymerase III subunit delta; Reviewed	98.41
KOG1969|consensus	877		98.39
PRK07914	320	hypothetical protein; Reviewed	98.36
CHL00095	821	clpC Clp protease ATP binding subunit	98.35
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.33
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.33
CHL00206	2281	ycf2 Ycf2; Provisional	98.32
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	98.31
PRK10865	857	protein disaggregation chaperone; Provisional	98.31
CHL00195	489	ycf46 Ycf46; Provisional	98.26
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.26
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.24
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	98.24
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	98.23
PRK05907	311	hypothetical protein; Provisional	98.23
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	98.22
PRK08487	328	DNA polymerase III subunit delta; Validated	98.2
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	98.2
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	98.17
PRK10865	857	protein disaggregation chaperone; Provisional	98.15
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.14
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	98.13
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	98.12
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	98.1
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	98.1
PRK13765	637	ATP-dependent protease Lon; Provisional	98.1
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	98.09
PRK10365	441	transcriptional regulatory protein ZraR; Provision	98.09
PRK15115	444	response regulator GlrR; Provisional	98.08
PF06144	172	DNA_pol3_delta: DNA polymerase III, delta subunit;	98.08
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.06
PRK13531	498	regulatory ATPase RavA; Provisional	98.06
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	98.04
KOG1970|consensus	634		97.99
COG1221	403	PspF Transcriptional regulators containing an AAA-	97.98
PRK15424	538	propionate catabolism operon regulatory protein Pr	97.98
PRK05022	509	anaerobic nitric oxide reductase transcription reg	97.96
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.96
PRK11608	326	pspF phage shock protein operon transcriptional ac	97.95
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.93
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.9
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	97.86
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	97.85
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	97.84
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.84
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.83
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	97.83
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	97.82
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.8
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	97.78
PRK09862	506	putative ATP-dependent protease; Provisional	97.76
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	97.74
COG2204	464	AtoC Response regulator containing CheY-like recei	97.73
KOG0730|consensus	693		97.72
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	97.69
KOG0728|consensus	404		97.61
COG1466	334	HolA DNA polymerase III, delta subunit [DNA replic	97.59
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	97.59
PF00004	132	AAA: ATPase family associated with various cellula	97.52
COG1067	647	LonB Predicted ATP-dependent protease [Posttransla	97.51
KOG1968|consensus	871		97.51
COG0714	329	MoxR-like ATPases [General function prediction onl	97.5
KOG2004|consensus	906		97.48
KOG0727|consensus	408		97.46
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	97.44
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.41
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	97.38
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	97.33
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	97.21
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.11
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.09
KOG0734|consensus	752		97.06
COG1241	682	MCM2 Predicted ATPase involved in replication cont	96.96
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	96.89
CHL00195	489	ycf46 Ycf46; Provisional	96.88
KOG0737|consensus	386		96.87
KOG0730|consensus	693		96.83
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	96.8
PHA02244	383	ATPase-like protein	96.78
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	96.72
KOG0731|consensus	774		96.65
KOG0726|consensus	440		96.65
PF13173	128	AAA_14: AAA domain	96.55
KOG0733|consensus	802		96.51
KOG0652|consensus	424		96.46
KOG0740|consensus	428		96.35
KOG0482|consensus	721		96.28
KOG0478|consensus	804		96.16
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.07
KOG0745|consensus	564		96.06
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	96.01
KOG0738|consensus	491		96.01
KOG0742|consensus	630		95.93
PRK04841	903	transcriptional regulator MalT; Provisional	95.87
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	95.82
KOG0735|consensus	952		95.73
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	95.59
KOG0732|consensus	1080		95.43
KOG0481|consensus	729		95.43
KOG0739|consensus	439		95.4
KOG2170|consensus	344		95.39
KOG0480|consensus	764		95.26
KOG0479|consensus	818		95.21
KOG0733|consensus	802		95.19
KOG0729|consensus	435		95.09
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	94.89
PF07726	131	AAA_3: ATPase family associated with various cellu	94.87
cd07979	117	TAF9 TATA Binding Protein (TBP) Associated Factor	94.71
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	94.71
PF14516	331	AAA_35: AAA-like domain	94.7
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	94.68
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	94.61
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	94.4
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	94.39
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	94.34
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	94.04
PF10923	416	DUF2791: P-loop Domain of unknown function (DUF279	93.64
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	93.34
PF05872	502	DUF853: Bacterial protein of unknown function (DUF	93.33
smart00803	65	TAF TATA box binding protein associated factor. TA	93.13
PF02291	129	TFIID-31kDa: Transcription initiation factor IID,	92.88
PF12846	304	AAA_10: AAA-like domain	92.77
PF05729	166	NACHT: NACHT domain	91.63
PF02969	66	TAF: TATA box binding protein associated factor (T	91.58
PF09077	78	Phage-MuB_C: Mu B transposition protein, C termina	91.54
PF13654	509	AAA_32: AAA domain; PDB: 3K1J_B.	91.16
cd07981	72	TAF12 TATA Binding Protein (TBP) Associated Factor	90.94
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	90.7
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	90.5
KOG0651|consensus	388		89.88
PRK13695	174	putative NTPase; Provisional	89.76
smart00576	77	BTP Bromodomain transcription factors and PHD doma	89.75
KOG1051|consensus	898		89.28
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	89.15
KOG0744|consensus	423		88.7
PF15630	76	CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C	88.44
PF00808	65	CBFD_NFYB_HMF: Histone-like transcription factor (	88.27
COG2036	91	HHT1 Histones H3 and H4 [Chromatin structure and d	87.01
KOG0736|consensus	953		86.87
KOG2543|consensus	438		86.79
KOG0735|consensus	952		85.48
KOG3334|consensus	148		85.18
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	84.99
PF07524	77	Bromo_TP: Bromodomain associated; InterPro: IPR006	84.93
TIGR02562	1110	cas3_yersinia CRISPR-associated helicase Cas3. The	84.93
COG0606	490	Predicted ATPase with chaperone activity [Posttran	84.88
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	84.78
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	84.64
KOG0736|consensus	953		84.16
PF00125	75	Histone: Core histone H2A/H2B/H3/H4 histone h2a si	84.03
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	83.85
PF07652	148	Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR	83.61
PRK09694	878	helicase Cas3; Provisional	83.4
KOG0741|consensus	744		82.39
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	82.19
PRK04296	190	thymidine kinase; Provisional	81.23
TIGR02746	797	TraC-F-type type-IV secretion system protein TraC.	80.52
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	80.27
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	80.13

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=100.00  E-value=2.7e-37  Score=265.83  Aligned_cols=183  Identities=54%  Similarity=0.892  Sum_probs=178.1

Q ss_pred             hhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCC
Q psy18185          6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIP   85 (190)
Q Consensus         6 ~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~   85 (190)
                      ++++|+++|+.|++|..+|+.++.+|||||||+|.|+-+||.+|++++|+...|++|+|||++..+++||| ..+||++|
T Consensus       268 ~~evR~~vn~~V~~~ieeGkAElVpGVLFIDEvHmLDIE~FsFlnrAlEse~aPIii~AtNRG~~kiRGTd-~~sPhGIP  346 (450)
T COG1224         268 TDEVREEVNEKVKKWIEEGKAELVPGVLFIDEVHMLDIECFSFLNRALESELAPIIILATNRGMTKIRGTD-IESPHGIP  346 (450)
T ss_pred             CHHHHHHHHHHHHHHHhcCcEEeecceEEEechhhhhHHHHHHHHHHhhcccCcEEEEEcCCceeeecccC-CcCCCCCC
Confidence            68999999999999999999999999999999999999999999999999988999999999999999995 88999999


Q ss_pred             hhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHH
Q psy18185         86 LDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDIL  165 (190)
Q Consensus        86 ~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~  165 (190)
                      .++++|.++++..||+.+|++.||+.||+.+++.++++|++++++.+...++|||+++|.-+...|+++|+..|.+++|.
T Consensus       347 ~DlLDRllII~t~py~~~EireIi~iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe  426 (450)
T COG1224         347 LDLLDRLLIISTRPYSREEIREIIRIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVE  426 (450)
T ss_pred             HhhhhheeEEecCCCCHHHHHHHHHHhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHH
Confidence            99999999999999999999999999999999999999999999998788999999999999999999999999999999


Q ss_pred             HHHHhccChHHHHHHhHHhhhhhc
Q psy18185        166 EVSTLFLDAKSSARILTENKDKFM  189 (190)
Q Consensus       166 ~~~~~f~~~~~~~~~~~~~~~~~~  189 (190)
                      ++..+|+|..+++++++.++..|+
T Consensus       427 ~a~~lF~D~krSv~~v~~~~~~~~  450 (450)
T COG1224         427 RAKELFLDVKRSVEYVEKYEGLLL  450 (450)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhhcC
Confidence            999999999999999999998875

>KOG2680|consensus

Probab=100.00  E-value=7.9e-35  Score=246.60  Aligned_cols=183  Identities=46%  Similarity=0.798  Sum_probs=176.4

Q ss_pred             hHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCCh
Q psy18185          7 DKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPL   86 (190)
Q Consensus         7 ~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~   86 (190)
                      .++|++||.+|.+|..+||.++.+|||||||+|+|+-+||++|++++|+...|+++++||++..++.|| |+.+|+++|.
T Consensus       266 ~EvRdqin~KV~eWreEGKAeivpGVLFIDEvHMLDIEcFsFlNrAlE~d~~PiiimaTNrgit~iRGT-n~~SphGiP~  344 (454)
T KOG2680|consen  266 SEVRDQINTKVAEWREEGKAEIVPGVLFIDEVHMLDIECFSFLNRALENDMAPIIIMATNRGITRIRGT-NYRSPHGIPI  344 (454)
T ss_pred             HHHHHHHHHHHHHHHhcCCeeeccceEEEeeehhhhhHHHHHHHHHhhhccCcEEEEEcCCceEEeecC-CCCCCCCCcH
Confidence            478999999999999999999999999999999999999999999999988899999999999999999 6789999999


Q ss_pred             hHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHH
Q psy18185         87 DLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILE  166 (190)
Q Consensus        87 ~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~  166 (190)
                      +|++|++++...||+.+|++.+|+.||.+|++.++++|++.+...+...++|||++++..+...+.++....+..++|+.
T Consensus       345 D~lDR~lII~t~py~~~d~~~IL~iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~~~v~~~di~r  424 (454)
T KOG2680|consen  345 DLLDRMLIISTQPYTEEDIKKILRIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKGKVVEVDDIER  424 (454)
T ss_pred             HHhhhhheeecccCcHHHHHHHHHhhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcCceeehhHHHH
Confidence            99999999999999999999999999999999999999999999977789999999999999988888888899999999


Q ss_pred             HHHhccChHHHHHHhHHhhhhhcC
Q psy18185        167 VSTLFLDAKSSARILTENKDKFMR  190 (190)
Q Consensus       167 ~~~~f~~~~~~~~~~~~~~~~~~~  190 (190)
                      ++.+|+|.+|+++|+++++..|||
T Consensus       425 ~y~LFlD~~Rs~~yl~E~~~~y~~  448 (454)
T KOG2680|consen  425 VYRLFLDEKRSMKYLTEYQSGYLF  448 (454)
T ss_pred             HHHHHhhhhhhhHHHHHhhhcccc
Confidence            999999999999999999999986

>KOG1942|consensus

Probab=100.00  E-value=8.5e-35  Score=245.91  Aligned_cols=184  Identities=70%  Similarity=1.098  Sum_probs=179.6

Q ss_pred             hhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCC
Q psy18185          6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIP   85 (190)
Q Consensus         6 ~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~   85 (190)
                      ||.+|.+||++|++|+++|..++.+|||||||+|+|+-+||.+|++.+|.+-.|++|+|||++.+-++||++..+|+++|
T Consensus       273 TdkLR~eiNkvVn~Yid~GvAElvPGVLFIDEVhMLDiEcFTyL~kalES~iaPivifAsNrG~~~irGt~d~~sPhGip  352 (456)
T KOG1942|consen  273 TDKLRGEINKVVNKYIDQGVAELVPGVLFIDEVHMLDIECFTYLHKALESPIAPIVIFASNRGMCTIRGTEDILSPHGIP  352 (456)
T ss_pred             HHHHHHHHHHHHHHHHhcchhhhcCcceEeeehhhhhhHHHHHHHHHhcCCCCceEEEecCCcceeecCCcCCCCCCCCC
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHH
Q psy18185         86 LDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDIL  165 (190)
Q Consensus        86 ~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~  165 (190)
                      +++++|..+++..+|+++++++||+.|++.||+.++++++..++..+.+.++||++++|.-+..+|+..|+..|.+++|.
T Consensus       353 ~dllDRl~Iirt~~y~~~e~r~Ii~~Ra~~E~l~~~e~a~~~l~~~gt~tsLRy~vqLl~p~~~~ak~~g~~~i~v~dve  432 (456)
T KOG1942|consen  353 PDLLDRLLIIRTLPYDEEEIRQIIKIRAQVEGLQVEEEALDLLAEIGTSTSLRYAVQLLTPASILAKTNGRKEISVEDVE  432 (456)
T ss_pred             HHHhhheeEEeeccCCHHHHHHHHHHHHhhhcceecHHHHHHHHhhccchhHHHHHHhcCHHHHHHHHcCCceeecccHH
Confidence            99999999999999999999999999999999999999999999998778999999999999999999999999999999


Q ss_pred             HHHHhccChHHHHHHhHHhhhhhc
Q psy18185        166 EVSTLFLDAKSSARILTENKDKFM  189 (190)
Q Consensus       166 ~~~~~f~~~~~~~~~~~~~~~~~~  189 (190)
                      ++..+|+|..++.|.+...+.+||
T Consensus       433 e~~~Lf~Dak~s~k~l~~~~~k~~  456 (456)
T KOG1942|consen  433 EVTELFLDAKRSAKILEESQNKYL  456 (456)
T ss_pred             HHHHHHHhchhhHHHHHhhhccCC
Confidence            999999999999999999999886

>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=99.98  E-value=1.9e-32  Score=237.96  Aligned_cols=142  Identities=63%  Similarity=1.052  Sum_probs=121.6

Q ss_pred             hhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCC
Q psy18185          6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIP   85 (190)
Q Consensus         6 ~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~   85 (190)
                      ++++|++||++|++|.++|+.++.+|||||||+|.|+.+||++|+|++|.+..|++|+|||++.++++|| ++.+|+++|
T Consensus       255 ~~elR~eInk~V~~wieegkAelvpGVLFIDEvHmLDiEcFsfLnralEs~~sPiiIlATNRg~~~irGt-~~~sphGiP  333 (398)
T PF06068_consen  255 TDELREEINKKVNKWIEEGKAELVPGVLFIDEVHMLDIECFSFLNRALESELSPIIILATNRGITKIRGT-DIISPHGIP  333 (398)
T ss_dssp             -HHHHHHHHHHHHHHHHCTSEEEEE-EEEEESGGGSBHHHHHHHHHHHTSTT--EEEEEES-SEEE-BTT-S-EEETT--
T ss_pred             hHHHHHHHhHHHHHHHhcCceEEecceEEecchhhccHHHHHHHHHHhcCCCCcEEEEecCceeeeccCc-cCcCCCCCC
Confidence            6899999999999999999999999999999999999999999999999998999999999999999999 577999999


Q ss_pred             hhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHH
Q psy18185         86 LDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAA  148 (190)
Q Consensus        86 ~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~  148 (190)
                      .+|++||.+++..||+.+|+++||+.||+.|+++++++|+++|++.+.+.++|||+++|..+.
T Consensus       334 ~DlLDRllII~t~py~~~ei~~Il~iR~~~E~v~i~~~al~~L~~ig~~~SLRYAiqLi~~a~  396 (398)
T PF06068_consen  334 LDLLDRLLIIRTKPYSEEEIKQILKIRAKEEDVEISEDALDLLTKIGVETSLRYAIQLITPAS  396 (398)
T ss_dssp             HHHHTTEEEEEE----HHHHHHHHHHHHHHCT--B-HHHHHHHHHHHHHS-HHHHHHCHHHHH
T ss_pred             cchHhhcEEEECCCCCHHHHHHHHHhhhhhhcCcCCHHHHHHHHHHhhhccHHHHHHhhhhhh
Confidence            999999999999999999999999999999999999999999999988899999999998775

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.

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

Probab=99.92  E-value=1e-24  Score=197.63  Aligned_cols=145  Identities=27%  Similarity=0.365  Sum_probs=131.0

Q ss_pred             ccchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCC
Q psy18185          3 AYKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISP   81 (190)
Q Consensus         3 ~~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~   81 (190)
                      .-.-|++| +|++.+++.+.++++    +|++|||+|+|++.+||+|+|++|+||. +.||+||         ||    |
T Consensus        98 n~gVddiR-~i~e~v~y~P~~~ry----KVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlAT---------Te----~  159 (515)
T COG2812          98 NTGVDDIR-EIIEKVNYAPSEGRY----KVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILAT---------TE----P  159 (515)
T ss_pred             ccChHHHH-HHHHHhccCCccccc----eEEEEecHHhhhHHHHHHHhcccccCccCeEEEEec---------CC----c
Confidence            33558898 688888887777664    9999999999999999999999999987 8999999         75    9


Q ss_pred             CCCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccH
Q psy18185         82 HGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISK  161 (190)
Q Consensus        82 ~~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~  161 (190)
                      +++|+|++|||+.|.|++++.+++...|..++.+||+.++++++..|++. ++|++|.++.+|+++...+    .+.||.
T Consensus       160 ~Kip~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~e~~aL~~ia~~-a~Gs~RDalslLDq~i~~~----~~~It~  234 (515)
T COG2812         160 QKIPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGINIEEDALSLIARA-AEGSLRDALSLLDQAIAFG----EGEITL  234 (515)
T ss_pred             CcCchhhhhccccccccCCCHHHHHHHHHHHHHhcCCccCHHHHHHHHHH-cCCChhhHHHHHHHHHHcc----CCcccH
Confidence            99999999999999999999999999999999999999999999999999 6999999999999997543    357999


Q ss_pred             HHHHHHHHh
Q psy18185        162 QDILEVSTL  170 (190)
Q Consensus       162 ~~V~~~~~~  170 (190)
                      +.|..+++.
T Consensus       235 ~~v~~~lG~  243 (515)
T COG2812         235 ESVRDMLGL  243 (515)
T ss_pred             HHHHHHhCC
Confidence            999988864

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.89  E-value=2.2e-22  Score=181.28  Aligned_cols=142  Identities=23%  Similarity=0.260  Sum_probs=119.8

Q ss_pred             hhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCC
Q psy18185          6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGI   84 (190)
Q Consensus         6 ~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l   84 (190)
                      -+++|+ +.+.+......+    .++|+||||||+|+.+++++|++.+|+++. ++||++|         ++    ++.+
T Consensus       103 Vd~IRe-L~e~l~~~p~~g----~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaT---------te----~~kI  164 (484)
T PRK14956        103 IENIRE-LRDNVKFAPMGG----KYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILAT---------TE----FHKI  164 (484)
T ss_pred             HHHHHH-HHHHHHhhhhcC----CCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeec---------CC----hhhc
Confidence            466763 444444333333    358999999999999999999999999876 6788888         43    7899


Q ss_pred             ChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHH
Q psy18185         85 PLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDI  164 (190)
Q Consensus        85 ~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V  164 (190)
                      +++++|||+.|.|++++.+++.+.|+++++++|+.++++++.+|++. ++||+|.|+++|+.+...+    .+.||.+.|
T Consensus       165 ~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~~e~eAL~~Ia~~-S~Gd~RdAL~lLeq~i~~~----~~~it~~~V  239 (484)
T PRK14956        165 PETILSRCQDFIFKKVPLSVLQDYSEKLCKIENVQYDQEGLFWIAKK-GDGSVRDMLSFMEQAIVFT----DSKLTGVKI  239 (484)
T ss_pred             cHHHHhhhheeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCChHHHHHHHHHHHHHhC----CCCcCHHHH
Confidence            99999999999999999999999999999999999999999999999 6999999999999876432    236999999


Q ss_pred             HHHHHh
Q psy18185        165 LEVSTL  170 (190)
Q Consensus       165 ~~~~~~  170 (190)
                      .++++.
T Consensus       240 ~~~lg~  245 (484)
T PRK14956        240 RKMIGY  245 (484)
T ss_pred             HHHhCC
Confidence            988753

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.88  E-value=1.7e-21  Score=181.21  Aligned_cols=143  Identities=24%  Similarity=0.341  Sum_probs=120.7

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      .+-+++|+ +.+.+......|    .++|+||||+|+|+.+++|+|+|++|+|+. ..||++|         |+    +.
T Consensus        99 ~~VddiR~-li~~~~~~p~~g----~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~T---------t~----~~  160 (647)
T PRK07994         99 TKVEDTRE-LLDNVQYAPARG----RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLAT---------TD----PQ  160 (647)
T ss_pred             CCHHHHHH-HHHHHHhhhhcC----CCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEec---------CC----cc
Confidence            35567774 444444444344    459999999999999999999999999876 6788888         43    67


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQ  162 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~  162 (190)
                      .++++++|||+.|.|++++.+++.+.|..+++.+|+.++++++..|+.. ++||+|.|+++|+.+...    |.+.||.+
T Consensus       161 kLl~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i~~e~~aL~~Ia~~-s~Gs~R~Al~lldqaia~----~~~~it~~  235 (647)
T PRK07994        161 KLPVTILSRCLQFHLKALDVEQIRQQLEHILQAEQIPFEPRALQLLARA-ADGSMRDALSLTDQAIAS----GNGQVTTD  235 (647)
T ss_pred             ccchHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHh----cCCCcCHH
Confidence            8999999999999999999999999999999999999999999999999 699999999999987643    34569998


Q ss_pred             HHHHHHH
Q psy18185        163 DILEVST  169 (190)
Q Consensus       163 ~V~~~~~  169 (190)
                      +|+.+++
T Consensus       236 ~v~~~lg  242 (647)
T PRK07994        236 DVSAMLG  242 (647)
T ss_pred             HHHHHHc
Confidence            8888775

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.88  E-value=1e-21  Score=183.82  Aligned_cols=124  Identities=23%  Similarity=0.303  Sum_probs=111.6

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .++|+||||+|+|+..++|+|+|++|+++. ..||++||         +    ++.|+++|+|||+.|.|++++.+++.+
T Consensus       119 r~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTt---------d----~~KIp~TIrSRCq~f~Fk~Ls~eeIv~  185 (830)
T PRK07003        119 RFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATT---------D----PQKIPVTVLSRCLQFNLKQMPAGHIVS  185 (830)
T ss_pred             CceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEEC---------C----hhhccchhhhheEEEecCCcCHHHHHH
Confidence            469999999999999999999999999765 78999994         2    788999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      +|.+++++||+.++++++..|++. ++||+|.|+++|+++..++    ...||.+.|+.+++.
T Consensus       186 ~L~~Il~~EgI~id~eAL~lIA~~-A~GsmRdALsLLdQAia~~----~~~It~~~V~~~LG~  243 (830)
T PRK07003        186 HLERILGEERIAFEPQALRLLARA-AQGSMRDALSLTDQAIAYS----ANEVTETAVSGMLGA  243 (830)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhc----cCCcCHHHHHHHhCC
Confidence            999999999999999999999999 6999999999999877543    346999988887753

>KOG0989|consensus

Probab=99.87  E-value=1.6e-21  Score=165.62  Aligned_cols=123  Identities=21%  Similarity=0.230  Sum_probs=110.1

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      .+++|+||||+|.|+.++|++|+|++|+.+. +.||++||             ....+|.++.|||+.|+|+++.++++.
T Consensus       128 ~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcn-------------ylsrii~pi~SRC~KfrFk~L~d~~iv  194 (346)
T KOG0989|consen  128 PPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICN-------------YLSRIIRPLVSRCQKFRFKKLKDEDIV  194 (346)
T ss_pred             CcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcC-------------ChhhCChHHHhhHHHhcCCCcchHHHH
Confidence            4569999999999999999999999999666 89999996             277899999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +.|+.+|.+||+.+++++++.|++. |.||+|.|+.+|+.++.     +.++||.+.+.+-++
T Consensus       195 ~rL~~Ia~~E~v~~d~~al~~I~~~-S~GdLR~Ait~Lqsls~-----~gk~It~~~~~e~~~  251 (346)
T KOG0989|consen  195 DRLEKIASKEGVDIDDDALKLIAKI-SDGDLRRAITTLQSLSL-----LGKRITTSLVNEELA  251 (346)
T ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHH-cCCcHHHHHHHHHHhhc-----cCcccchHHHHHHHh
Confidence            9999999999999999999999999 79999999999999986     334688666555443

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.87  E-value=2.2e-21  Score=179.53  Aligned_cols=145  Identities=22%  Similarity=0.264  Sum_probs=120.3

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +-+++|+ +.+.+......+    .++|+||||+|+|+.+++|+|+|++|+++. +.||++||         +    ++.
T Consensus       105 gVDdIRe-Lie~~~~~P~~g----r~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTt---------e----p~k  166 (700)
T PRK12323        105 GVDEMAQ-LLDKAVYAPTAG----RFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATT---------D----PQK  166 (700)
T ss_pred             CHHHHHH-HHHHHHhchhcC----CceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeC---------C----hHh
Confidence            4466774 333333333333    459999999999999999999999999866 78999994         2    789


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQD  163 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~  163 (190)
                      ++++|+|||+.|.|++++.+++.++|+.++.++|+.++++++..|++. ++|++|.|+++++.+..+    +...||.+.
T Consensus       167 LlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~~d~eAL~~IA~~-A~Gs~RdALsLLdQaia~----~~~~It~~~  241 (700)
T PRK12323        167 IPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAHEVNALRLLAQA-AQGSMRDALSLTDQAIAY----SAGNVSEEA  241 (700)
T ss_pred             hhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHh----ccCCcCHHH
Confidence            999999999999999999999999999999999999999999999999 699999999999987643    334688888


Q ss_pred             HHHHHHhcc
Q psy18185        164 ILEVSTLFL  172 (190)
Q Consensus       164 V~~~~~~f~  172 (190)
                      |.++++..-
T Consensus       242 V~~~LG~~d  250 (700)
T PRK12323        242 VRGMLGAID  250 (700)
T ss_pred             HHHHhCCCC
Confidence            887776443

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.87  E-value=2e-21  Score=177.24  Aligned_cols=145  Identities=24%  Similarity=0.295  Sum_probs=122.6

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      .+-+++|+ +.+.+......+    .++|+||||+|+|+.+++|+|++++|+++. +.||++|         ++    ++
T Consensus        99 ~~v~~iR~-l~~~~~~~p~~~----~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlat---------td----~~  160 (509)
T PRK14958         99 TKVEDTRE-LLDNIPYAPTKG----RFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILAT---------TD----HH  160 (509)
T ss_pred             CCHHHHHH-HHHHHhhccccC----CcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEE---------CC----hH
Confidence            45567774 444444433333    459999999999999999999999999876 6789988         43    78


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQ  162 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~  162 (190)
                      .++++++|||+.++|++++.+++.++|..+++++|+.+++++++.+++. ++||+|.|+++|+.+..+    |.+.||.+
T Consensus       161 kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~~~~~al~~ia~~-s~GslR~al~lLdq~ia~----~~~~It~~  235 (509)
T PRK14958        161 KLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEFENAALDLLARA-ANGSVRDALSLLDQSIAY----GNGKVLIA  235 (509)
T ss_pred             hchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCcHHHHHHHHHHHHhc----CCCCcCHH
Confidence            8999999999999999999999999999999999999999999999999 699999999999987643    45679999


Q ss_pred             HHHHHHHhc
Q psy18185        163 DILEVSTLF  171 (190)
Q Consensus       163 ~V~~~~~~f  171 (190)
                      +|..+++..
T Consensus       236 ~V~~~lg~~  244 (509)
T PRK14958        236 DVKTMLGTI  244 (509)
T ss_pred             HHHHHHCCC
Confidence            999988643

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

Probab=99.86  E-value=5e-21  Score=167.53  Aligned_cols=124  Identities=27%  Similarity=0.365  Sum_probs=108.3

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHHHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAII  109 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL  109 (190)
                      .-||||||||++++.+|.+|+..+|++ ..++|+||         |||  |++.+.++|+|||++|.|+|++.+++..+|
T Consensus       105 ~tiLflDEIHRfnK~QQD~lLp~vE~G-~iilIGAT---------TEN--PsF~ln~ALlSR~~vf~lk~L~~~di~~~l  172 (436)
T COG2256         105 RTILFLDEIHRFNKAQQDALLPHVENG-TIILIGAT---------TEN--PSFELNPALLSRARVFELKPLSSEDIKKLL  172 (436)
T ss_pred             ceEEEEehhhhcChhhhhhhhhhhcCC-eEEEEecc---------CCC--CCeeecHHHhhhhheeeeecCCHHHHHHHH
Confidence            479999999999999999999999997 47888899         888  589999999999999999999999999999


Q ss_pred             HHHHH--hcCCC-----CCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185        110 KLRAN--TEGHV-----LDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       110 ~~~~~--~~~~~-----i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      .+.+.  ..|+.     +++++..+++.. ++||.|.|+|.|+.+...++...  .++++.+++++
T Consensus       173 ~ra~~~~~rgl~~~~~~i~~~a~~~l~~~-s~GD~R~aLN~LE~~~~~~~~~~--~~~~~~l~~~l  235 (436)
T COG2256         173 KRALLDEERGLGGQIIVLDEEALDYLVRL-SNGDARRALNLLELAALSAEPDE--VLILELLEEIL  235 (436)
T ss_pred             HHHHhhhhcCCCcccccCCHHHHHHHHHh-cCchHHHHHHHHHHHHHhcCCCc--ccCHHHHHHHH
Confidence            98554  34554     889999999999 69999999999999998876432  45588888777

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.86  E-value=1.6e-20  Score=178.48  Aligned_cols=143  Identities=25%  Similarity=0.332  Sum_probs=119.6

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      .+-+++|+ |.+.+......+    .++|+||||+|+|+.++|++|+|++|+|+. ..||++|         |+    +.
T Consensus        99 ~kVDdIRe-Lie~v~~~P~~g----k~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaT---------Te----~~  160 (944)
T PRK14949         99 TKVDDTRE-LLDNVQYRPSRG----RFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLAT---------TD----PQ  160 (944)
T ss_pred             cCHHHHHH-HHHHHHhhhhcC----CcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEEC---------CC----ch
Confidence            45577874 444444433333    359999999999999999999999999876 6788888         43    67


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQ  162 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~  162 (190)
                      .++++|+|||+.|+|++++.+++...|..++..+|+.++++++..|++. ++|++|.|+++|+.+...    +...++.+
T Consensus       161 kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI~~edeAL~lIA~~-S~Gd~R~ALnLLdQala~----~~~~It~~  235 (944)
T PRK14949        161 KLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQLPFEAEALTLLAKA-ANGSMRDALSLTDQAIAF----GGGQVMLT  235 (944)
T ss_pred             hchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHh----cCCcccHH
Confidence            7999999999999999999999999999999999999999999999999 699999999999987633    34568888


Q ss_pred             HHHHHHH
Q psy18185        163 DILEVST  169 (190)
Q Consensus       163 ~V~~~~~  169 (190)
                      .|.++++
T Consensus       236 ~V~~llG  242 (944)
T PRK14949        236 QVQTMLG  242 (944)
T ss_pred             HHHHHhC
Confidence            8777664

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.86  E-value=1.1e-20  Score=175.20  Aligned_cols=144  Identities=22%  Similarity=0.277  Sum_probs=120.2

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      .+-+++|+-+ +.+..    ......++|+||||+|+|+.+++|+|++++|+++. +.||++|         ++    +.
T Consensus       104 ~~Vd~iReli-~~~~~----~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~T---------td----~~  165 (618)
T PRK14951        104 RGVDEVQQLL-EQAVY----KPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLAT---------TD----PQ  165 (618)
T ss_pred             cCHHHHHHHH-HHHHh----CcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEE---------CC----ch
Confidence            3445666433 32332    22233469999999999999999999999999876 6888888         43    77


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQ  162 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~  162 (190)
                      .++++++|||+.|.|++++.+++.++|..++.++|+.++++++.+|++. ++||+|.++++|+.+..+    |.+.||.+
T Consensus       166 kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~ie~~AL~~La~~-s~GslR~al~lLdq~ia~----~~~~It~~  240 (618)
T PRK14951        166 KVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPAEPQALRLLARA-ARGSMRDALSLTDQAIAF----GSGQLQEA  240 (618)
T ss_pred             hhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHh----cCCCcCHH
Confidence            8999999999999999999999999999999999999999999999999 699999999999887654    34579999


Q ss_pred             HHHHHHHh
Q psy18185        163 DILEVSTL  170 (190)
Q Consensus       163 ~V~~~~~~  170 (190)
                      +|+.+++.
T Consensus       241 ~V~~~Lg~  248 (618)
T PRK14951        241 AVRQMLGS  248 (618)
T ss_pred             HHHHHHcC
Confidence            99988754

>PRK04132 replication factor C small subunit; Provisional

Probab=99.85  E-value=1.7e-20  Score=178.51  Aligned_cols=122  Identities=23%  Similarity=0.342  Sum_probs=108.8

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .++|+||||+|.|+.++|++|++++|+|+. ..||++||             +++.++++++|||+.++|+|++++++..
T Consensus       630 ~~KVvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N-------------~~~kIi~tIrSRC~~i~F~~ls~~~i~~  696 (846)
T PRK04132        630 SFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCN-------------YSSKIIEPIQSRCAIFRFRPLRDEDIAK  696 (846)
T ss_pred             CCEEEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeC-------------ChhhCchHHhhhceEEeCCCCCHHHHHH
Confidence            358999999999999999999999999765 78999995             3789999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      .|.++|+++|+.++++++..|+.. ++||+|.|+++|+.++..     ...||.+.|..+.+
T Consensus       697 ~L~~I~~~Egi~i~~e~L~~Ia~~-s~GDlR~AIn~Lq~~~~~-----~~~It~~~V~~~~~  752 (846)
T PRK04132        697 RLRYIAENEGLELTEEGLQAILYI-AEGDMRRAINILQAAAAL-----DDKITDENVFLVAS  752 (846)
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHh-----cCCCCHHHHHHHhC
Confidence            999999999999999999999999 799999999999987642     23588777776553

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.85  E-value=3.3e-20  Score=172.05  Aligned_cols=142  Identities=27%  Similarity=0.387  Sum_probs=119.7

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +-+++|+ +.+.+......+    .++|+||||+|+|+.+++++|++++|+++. ..||++|+         +    ++.
T Consensus        99 ~VddIRe-li~~~~y~P~~g----k~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTt---------d----~~k  160 (702)
T PRK14960         99 KVEDTRE-LLDNVPYAPTQG----RFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATT---------D----PQK  160 (702)
T ss_pred             CHHHHHH-HHHHHhhhhhcC----CcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEEC---------C----hHh
Confidence            4456664 333333333333    358999999999999999999999999866 67888883         2    678


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQD  163 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~  163 (190)
                      ++++++|||+.+.|++++.+++.++|..+++++|+.++++++++|++. ++||+|.|+++|+.+..+    |.+.||.++
T Consensus       161 Ip~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~id~eAL~~IA~~-S~GdLRdALnLLDQaIay----g~g~IT~ed  235 (702)
T PRK14960        161 LPITVISRCLQFTLRPLAVDEITKHLGAILEKEQIAADQDAIWQIAES-AQGSLRDALSLTDQAIAY----GQGAVHHQD  235 (702)
T ss_pred             hhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHh----cCCCcCHHH
Confidence            899999999999999999999999999999999999999999999999 699999999999887643    456799999


Q ss_pred             HHHHHH
Q psy18185        164 ILEVST  169 (190)
Q Consensus       164 V~~~~~  169 (190)
                      |..+++
T Consensus       236 V~~lLG  241 (702)
T PRK14960        236 VKEMLG  241 (702)
T ss_pred             HHHHhc
Confidence            998876

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.85  E-value=2.7e-20  Score=171.89  Aligned_cols=144  Identities=22%  Similarity=0.236  Sum_probs=121.3

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +-+++|+ |.+.+......+    .++|+||||+|+|+.+++|+|++++|+++. ++||++|         ++    ++.
T Consensus        99 gvd~iRe-l~~~~~~~P~~~----~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~t---------te----~~k  160 (584)
T PRK14952         99 GVDDTRE-LRDRAFYAPAQS----RYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFAT---------TE----PEK  160 (584)
T ss_pred             CHHHHHH-HHHHHHhhhhcC----CceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEe---------CC----hHh
Confidence            4567773 444444433333    459999999999999999999999999876 7888888         43    678


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQD  163 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~  163 (190)
                      ++++++|||+.|.|.+++.+++.++|.++++++|+.++++++.+|+.. ++||+|.|+++|+.+..++   +...||.++
T Consensus       161 ll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~i~~~al~~Ia~~-s~GdlR~aln~Ldql~~~~---~~~~It~~~  236 (584)
T PRK14952        161 VLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVVVDDAVYPLVIRA-GGGSPRDTLSVLDQLLAGA---ADTHVTYQR  236 (584)
T ss_pred             hHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHhcc---CCCCcCHHH
Confidence            999999999999999999999999999999999999999999999999 6999999999999987543   345799999


Q ss_pred             HHHHHHh
Q psy18185        164 ILEVSTL  170 (190)
Q Consensus       164 V~~~~~~  170 (190)
                      |..+++.
T Consensus       237 v~~llg~  243 (584)
T PRK14952        237 ALGLLGA  243 (584)
T ss_pred             HHHHHCC
Confidence            9887643

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.84  E-value=7.1e-20  Score=167.95  Aligned_cols=143  Identities=26%  Similarity=0.348  Sum_probs=119.3

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +.+++|+ |.+.+......+    .++|+||||+|.|+.+++++|++++|+++. +.||++|         ++    ++.
T Consensus       100 gvd~ir~-ii~~~~~~p~~g----~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~T---------td----~~k  161 (546)
T PRK14957        100 GVEETKE-ILDNIQYMPSQG----RYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILAT---------TD----YHK  161 (546)
T ss_pred             CHHHHHH-HHHHHHhhhhcC----CcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEE---------CC----hhh
Confidence            3455653 333333333333    458999999999999999999999999876 6788888         43    788


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQD  163 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~  163 (190)
                      ++++++|||+.++|++++.+++.++|..+++++|+.++++++.+|+.. ++||+|.|+++|+.+..++    .+.||.++
T Consensus       162 il~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi~~e~~Al~~Ia~~-s~GdlR~alnlLek~i~~~----~~~It~~~  236 (546)
T PRK14957        162 IPVTILSRCIQLHLKHISQADIKDQLKIILAKENINSDEQSLEYIAYH-AKGSLRDALSLLDQAISFC----GGELKQAQ  236 (546)
T ss_pred             hhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhc----cCCCCHHH
Confidence            999999999999999999999999999999999999999999999999 6999999999999887543    25799999


Q ss_pred             HHHHHHh
Q psy18185        164 ILEVSTL  170 (190)
Q Consensus       164 V~~~~~~  170 (190)
                      |+++++.
T Consensus       237 V~~~l~~  243 (546)
T PRK14957        237 IKQMLGI  243 (546)
T ss_pred             HHHHHcc
Confidence            9987654

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.84  E-value=2.6e-20  Score=168.82  Aligned_cols=143  Identities=24%  Similarity=0.272  Sum_probs=120.4

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +-+++|+ |.+.+...    .....++|+||||+|.|+.+++|+|++++|+|+. ..||++|         ++    +..
T Consensus        97 ~vddIR~-Iie~~~~~----P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlat---------te----~~K  158 (491)
T PRK14964         97 SVDDIKV-ILENSCYL----PISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILAT---------TE----VKK  158 (491)
T ss_pred             CHHHHHH-HHHHHHhc----cccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEe---------CC----hHH
Confidence            4566774 33333332    2233569999999999999999999999999876 6788888         43    677


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQD  163 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~  163 (190)
                      ++++++|||+.+.|++++.+++.++|..+++++|+.++++++++|++. ++||+|.|+++|+.+..++.    +.||.++
T Consensus       159 l~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~i~~eAL~lIa~~-s~GslR~alslLdqli~y~~----~~It~e~  233 (491)
T PRK14964        159 IPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAEN-SSGSMRNALFLLEQAAIYSN----NKISEKS  233 (491)
T ss_pred             HHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhcC----CCCCHHH
Confidence            999999999999999999999999999999999999999999999999 69999999999999876542    4799999


Q ss_pred             HHHHHHh
Q psy18185        164 ILEVSTL  170 (190)
Q Consensus       164 V~~~~~~  170 (190)
                      |+.+++.
T Consensus       234 V~~llg~  240 (491)
T PRK14964        234 VRDLLGC  240 (491)
T ss_pred             HHHHHcc
Confidence            9987653

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.84  E-value=4.2e-20  Score=170.93  Aligned_cols=143  Identities=24%  Similarity=0.354  Sum_probs=119.9

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      .+.+++|+ +.+.+......    ..++|+||||+|.|+.+++|+|++++|+|+. ++||++|         ++    ++
T Consensus        99 ~~v~~ir~-l~~~~~~~p~~----~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t---------~~----~~  160 (576)
T PRK14965         99 TGVDDIRE-LRENVKYLPSR----SRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFAT---------TE----PH  160 (576)
T ss_pred             cCHHHHHH-HHHHHHhcccc----CCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEe---------CC----hh
Confidence            34567773 44444433323    3469999999999999999999999999876 6888888         32    78


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQ  162 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~  162 (190)
                      .++++++|||+.+.|++++.+++..+|..+++++|+.++++++.+|+.. ++||+|.|+++|+.+..+.    .+.||.+
T Consensus       161 kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~i~~~al~~la~~-a~G~lr~al~~Ldqliay~----g~~It~e  235 (576)
T PRK14965        161 KVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGISISDAALALVARK-GDGSMRDSLSTLDQVLAFC----GDAVGDD  235 (576)
T ss_pred             hhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhc----cCCCCHH
Confidence            9999999999999999999999999999999999999999999999999 6999999999999876543    2369999


Q ss_pred             HHHHHHH
Q psy18185        163 DILEVST  169 (190)
Q Consensus       163 ~V~~~~~  169 (190)
                      +|..+++
T Consensus       236 dV~~llG  242 (576)
T PRK14965        236 DVAELLG  242 (576)
T ss_pred             HHHHHhC
Confidence            9887743

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=99.84  E-value=7.7e-20  Score=167.17  Aligned_cols=123  Identities=29%  Similarity=0.392  Sum_probs=110.8

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .++|++|||+|.|+.+++++|++++|+++. ..||++|+         +    +..++++++|||+.++|.|++.+++.+
T Consensus       117 ~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~tt---------d----~~kL~~tI~SRc~~~~F~~Ls~~ei~~  183 (535)
T PRK08451        117 RFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATT---------D----PLKLPATILSRTQHFRFKQIPQNSIIS  183 (535)
T ss_pred             CeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEEC---------C----hhhCchHHHhhceeEEcCCCCHHHHHH
Confidence            468999999999999999999999999866 67888883         2    688999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +|..+++++|+.++++++.+|+.. ++||+|.|+++|+.+..++    ...||.++|..+++
T Consensus       184 ~L~~Il~~EGi~i~~~Al~~Ia~~-s~GdlR~alnlLdqai~~~----~~~It~~~V~~~lg  240 (535)
T PRK08451        184 HLKTILEKEGVSYEPEALEILARS-GNGSLRDTLTLLDQAIIYC----KNAITESKVADMLG  240 (535)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-cCCcHHHHHHHHHHHHHhc----CCCCCHHHHHHHhC
Confidence            999999999999999999999999 6999999999999887654    34688888887654

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=99.83  E-value=9.4e-20  Score=168.06  Aligned_cols=142  Identities=31%  Similarity=0.401  Sum_probs=118.9

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      .-+++|+ +.+.+......+    .++|+||||+|.|+.+++++|++++|+|+. ++||++|         +    .|+.
T Consensus       100 ~vd~ir~-i~~~v~~~p~~~----~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlat---------t----~~~k  161 (559)
T PRK05563        100 GVDEIRD-IRDKVKYAPSEA----KYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILAT---------T----EPHK  161 (559)
T ss_pred             CHHHHHH-HHHHHhhCcccC----CeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEe---------C----Chhh
Confidence            3456763 444444333333    469999999999999999999999999876 6788888         4    2788


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQD  163 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~  163 (190)
                      ++++++|||+.+.|++++.+++.++|..+++++|+.+++++++.|+.. ++||+|.|+++|+.+..+    +...||.++
T Consensus       162 i~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i~~~al~~ia~~-s~G~~R~al~~Ldq~~~~----~~~~It~~~  236 (559)
T PRK05563        162 IPATILSRCQRFDFKRISVEDIVERLKYILDKEGIEYEDEALRLIARA-AEGGMRDALSILDQAISF----GDGKVTYED  236 (559)
T ss_pred             CcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHh----ccCCCCHHH
Confidence            999999999999999999999999999999999999999999999999 699999999999988654    344799998


Q ss_pred             HHHHHH
Q psy18185        164 ILEVST  169 (190)
Q Consensus       164 V~~~~~  169 (190)
                      |..+++
T Consensus       237 V~~vlg  242 (559)
T PRK05563        237 ALEVTG  242 (559)
T ss_pred             HHHHhC
Confidence            887764

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.83  E-value=1.2e-19  Score=166.36  Aligned_cols=124  Identities=26%  Similarity=0.323  Sum_probs=111.8

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      ..++|+||||+|.|+.+++|+|++++|+++. ..||++|         ++    +..++++++|||+.++|++++.+++.
T Consensus       118 ~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t---------~d----~~kil~tI~SRc~~~~f~~l~~~~i~  184 (527)
T PRK14969        118 GRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILAT---------TD----PQKIPVTVLSRCLQFNLKQMPPPLIV  184 (527)
T ss_pred             CCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEe---------CC----hhhCchhHHHHHHHHhcCCCCHHHHH
Confidence            3469999999999999999999999999866 6788888         42    67888899999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ++|..+++++|+.++++++++|++. ++||+|.|+++|+.+..+    |.+.||.++|+.+++
T Consensus       185 ~~L~~il~~egi~~~~~al~~la~~-s~Gslr~al~lldqai~~----~~~~I~~~~v~~~~~  242 (527)
T PRK14969        185 SHLQHILEQENIPFDATALQLLARA-AAGSMRDALSLLDQAIAY----GGGTVNESEVRAMLG  242 (527)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHh----cCCCcCHHHHHHHHC
Confidence            9999999999999999999999999 699999999999988754    456799999988775

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.83  E-value=1.5e-19  Score=158.77  Aligned_cols=123  Identities=26%  Similarity=0.313  Sum_probs=110.3

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .++|+||||+|.|+.+++++|++.+|+++. +.+|++|+         +    +..++++++|||+.++|+|++.+++.+
T Consensus       119 ~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~---------~----~~~l~~tI~SRc~~~~~~~l~~~el~~  185 (363)
T PRK14961        119 RFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATT---------D----VEKIPKTILSRCLQFKLKIISEEKIFN  185 (363)
T ss_pred             CceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcC---------C----hHhhhHHHHhhceEEeCCCCCHHHHHH
Confidence            458999999999999999999999999876 56788773         2    567899999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +|..+++.+|+.++++++++++.. ++||+|.|+++|+.+..+    |.+.||.++|.++++
T Consensus       186 ~L~~~~~~~g~~i~~~al~~ia~~-s~G~~R~al~~l~~~~~~----~~~~It~~~v~~~l~  242 (363)
T PRK14961        186 FLKYILIKESIDTDEYALKLIAYH-AHGSMRDALNLLEHAINL----GKGNINIKNVTDMLG  242 (363)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHC
Confidence            999999999999999999999999 699999999999988653    456799999998775

>PLN03025 replication factor C subunit; Provisional

Probab=99.83  E-value=3e-19  Score=154.08  Aligned_cols=121  Identities=15%  Similarity=0.176  Sum_probs=106.4

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .++|+||||+|.|+.++|++|++++|.++. ..+|++||             .+..+.++++|||..++|++++++++.+
T Consensus        99 ~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n-------------~~~~i~~~L~SRc~~i~f~~l~~~~l~~  165 (319)
T PLN03025         99 RHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACN-------------TSSKIIEPIQSRCAIVRFSRLSDQEILG  165 (319)
T ss_pred             CeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeC-------------CccccchhHHHhhhcccCCCCCHHHHHH
Confidence            358999999999999999999999998655 67888885             2567889999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      +|..+++++|+.++++++++++.. ++||+|.|++.|+.+..     |...||.++|.++.
T Consensus       166 ~L~~i~~~egi~i~~~~l~~i~~~-~~gDlR~aln~Lq~~~~-----~~~~i~~~~v~~~~  220 (319)
T PLN03025        166 RLMKVVEAEKVPYVPEGLEAIIFT-ADGDMRQALNNLQATHS-----GFGFVNQENVFKVC  220 (319)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHh-----cCCCCCHHHHHHHc
Confidence            999999999999999999999999 69999999999995541     33468888887654

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.83  E-value=1.7e-19  Score=164.27  Aligned_cols=130  Identities=27%  Similarity=0.291  Sum_probs=114.0

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      ..++|+||||+|.|+..++++|++++|+++. .+||++|         ++    +..++++++|||+.+.|++++.+++.
T Consensus       127 ~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aT---------te----~~kI~~tI~SRc~~~ef~~ls~~el~  193 (507)
T PRK06645        127 GKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFAT---------TE----VQKIPATIISRCQRYDLRRLSFEEIF  193 (507)
T ss_pred             CCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEe---------CC----hHHhhHHHHhcceEEEccCCCHHHHH
Confidence            3469999999999999999999999999866 5777887         32    66899999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhcc
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFL  172 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~  172 (190)
                      ++|..+++++|+.++++++++|+.. ++||+|.|+++|+.+..++... ...||.++|+.+++...
T Consensus       194 ~~L~~i~~~egi~ie~eAL~~Ia~~-s~GslR~al~~Ldkai~~~~~~-~~~It~~~V~~llg~~~  257 (507)
T PRK06645        194 KLLEYITKQENLKTDIEALRIIAYK-SEGSARDAVSILDQAASMSAKS-DNIISPQVINQMLGLVD  257 (507)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhhccC-CCCcCHHHHHHHHCCCC
Confidence            9999999999999999999999999 6999999999999987665321 23699999999886433

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.83  E-value=2.8e-19  Score=166.71  Aligned_cols=144  Identities=24%  Similarity=0.333  Sum_probs=119.9

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +.+++|+.+ +.+......+    .++|+||||+|.|+..+++.|++.+|+++. +.||++|+         +    +..
T Consensus       100 gVd~IRell-e~a~~~P~~g----k~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTt---------d----~~k  161 (709)
T PRK08691        100 GIDNIREVL-ENAQYAPTAG----KYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATT---------D----PHK  161 (709)
T ss_pred             CHHHHHHHH-HHHHhhhhhC----CcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeC---------C----ccc
Confidence            345666433 3333333333    358999999999999999999999999765 67888884         2    678


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQD  163 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~  163 (190)
                      ++++++|||+.|.|++++.+++.++|..+++++|+.++++++..|++. ++||+|.|+++|+.+..+    |.+.||.++
T Consensus       162 L~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~id~eAL~~Ia~~-A~GslRdAlnLLDqaia~----g~g~It~e~  236 (709)
T PRK08691        162 VPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAYEPPALQLLGRA-AAGSMRDALSLLDQAIAL----GSGKVAEND  236 (709)
T ss_pred             cchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHH-hCCCHHHHHHHHHHHHHh----cCCCcCHHH
Confidence            999999999999999999999999999999999999999999999999 699999999999987754    445799999


Q ss_pred             HHHHHHhc
Q psy18185        164 ILEVSTLF  171 (190)
Q Consensus       164 V~~~~~~f  171 (190)
                      |..+++..
T Consensus       237 V~~lLG~~  244 (709)
T PRK08691        237 VRQMIGAV  244 (709)
T ss_pred             HHHHHccc
Confidence            99887643

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=99.82  E-value=2.4e-19  Score=168.12  Aligned_cols=143  Identities=24%  Similarity=0.356  Sum_probs=119.2

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +.+++|+ +.+.+...+..    ..++|+||||+|.|+.+++++|++++|+|+. ++||++|         +    .+..
T Consensus        99 ~vd~IRe-Lie~~~~~P~~----g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaT---------t----e~~K  160 (725)
T PRK07133         99 GVDEIRE-LIENVKNLPTQ----SKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILAT---------T----EVHK  160 (725)
T ss_pred             CHHHHHH-HHHHHHhchhc----CCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEc---------C----Chhh
Confidence            3456663 44444433333    3469999999999999999999999999876 6778888         3    2789


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQD  163 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~  163 (190)
                      ++++++|||+.++|.|++.+++.++|..+++++|+.+++++++.++.. ++||+|.|+++|+.+..++    .+.||.++
T Consensus       161 Ll~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~id~eAl~~LA~l-S~GslR~AlslLekl~~y~----~~~It~e~  235 (725)
T PRK07133        161 IPLTILSRVQRFNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKL-SSGSLRDALSIAEQVSIFG----NNKITLKN  235 (725)
T ss_pred             hhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhc----cCCCCHHH
Confidence            999999999999999999999999999999999999999999999999 6999999999999887553    33599999


Q ss_pred             HHHHHHh
Q psy18185        164 ILEVSTL  170 (190)
Q Consensus       164 V~~~~~~  170 (190)
                      |.++++.
T Consensus       236 V~ellg~  242 (725)
T PRK07133        236 VEELFGL  242 (725)
T ss_pred             HHHHHcC
Confidence            9876543

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=99.81  E-value=5.3e-19  Score=168.73  Aligned_cols=143  Identities=17%  Similarity=0.172  Sum_probs=118.6

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +-+++|+ +.+.+......    ..++|+||||+|+|+.+++|+|++++|+++. .+|||+|+         +    +..
T Consensus       101 ~Vd~iR~-l~~~~~~~p~~----~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt---------~----~~k  162 (824)
T PRK07764        101 GVDDARE-LRERAFFAPAE----SRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATT---------E----PDK  162 (824)
T ss_pred             CHHHHHH-HHHHHHhchhc----CCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeC---------C----hhh
Confidence            4567774 44443332223    3469999999999999999999999999876 67888883         2    567


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQD  163 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~  163 (190)
                      |+++|+|||++|+|.+++.+++.++|.++++++|+.++++++.+|+.. ++||+|.+++.|+.+...+   +...||.++
T Consensus       163 Ll~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~id~eal~lLa~~-sgGdlR~Al~eLEKLia~~---~~~~IT~e~  238 (824)
T PRK07764        163 VIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVPVEPGVLPLVIRA-GGGSVRDSLSVLDQLLAGA---GPEGVTYER  238 (824)
T ss_pred             hhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHhhc---CCCCCCHHH
Confidence            899999999999999999999999999999999999999999999999 6999999999999877432   345699888


Q ss_pred             HHHHHH
Q psy18185        164 ILEVST  169 (190)
Q Consensus       164 V~~~~~  169 (190)
                      |..+++
T Consensus       239 V~allg  244 (824)
T PRK07764        239 AVALLG  244 (824)
T ss_pred             HHHHhc
Confidence            887653

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.81  E-value=6.7e-19  Score=163.04  Aligned_cols=142  Identities=23%  Similarity=0.309  Sum_probs=118.7

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +-+++|+ +.+.+......+    .++|+||||+|.|+.++++.|++++|+++. ++||++|+             .+..
T Consensus       100 ~Id~iR~-L~~~~~~~p~~g----~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt-------------~~~k  161 (624)
T PRK14959        100 GIDDAKR-LKEAIGYAPMEG----RYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATT-------------EPHK  161 (624)
T ss_pred             CHHHHHH-HHHHHHhhhhcC----CceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecC-------------Chhh
Confidence            4466773 555555544333    358999999999999999999999999765 67888883             2678


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQD  163 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~  163 (190)
                      ++++++|||+.|+|++++.+++..+|...++.+|+.+++++++.|++. ++||+|.|+++|+.+..    .|...||.++
T Consensus       162 ll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi~id~eal~lIA~~-s~GdlR~Al~lLeqll~----~g~~~It~d~  236 (624)
T PRK14959        162 FPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVDYDPAAVRLIARR-AAGSVRDSMSLLGQVLA----LGESRLTIDG  236 (624)
T ss_pred             hhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHH----hcCCCcCHHH
Confidence            889999999999999999999999999999999999999999999999 69999999999997642    3455899998


Q ss_pred             HHHHHH
Q psy18185        164 ILEVST  169 (190)
Q Consensus       164 V~~~~~  169 (190)
                      |+.+++
T Consensus       237 V~~~lg  242 (624)
T PRK14959        237 ARGVLG  242 (624)
T ss_pred             HHHHhC
Confidence            877653

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.80  E-value=1.1e-18  Score=158.52  Aligned_cols=142  Identities=25%  Similarity=0.300  Sum_probs=119.5

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +.+++| +|.+.+...+..+    .++|+||||+|.|+.+++++|++++|+++. +++|++|+             .+..
T Consensus       100 gvd~ir-~I~~~~~~~P~~~----~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt-------------~~~k  161 (486)
T PRK14953        100 GIDDIR-ALRDAVSYTPIKG----KYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTT-------------EYDK  161 (486)
T ss_pred             CHHHHH-HHHHHHHhCcccC----CeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEEC-------------CHHH
Confidence            345666 3555554433333    459999999999999999999999999865 67888883             2677


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQD  163 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~  163 (190)
                      ++++++|||+.+.|+|++.+++..+|..+++.+|+.++++++++|+.. ++||+|.|++.|+.+..+    +...||.++
T Consensus       162 l~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~id~~al~~La~~-s~G~lr~al~~Ldkl~~~----~~~~It~~~  236 (486)
T PRK14953        162 IPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIEYEEKALDLLAQA-SEGGMRDAASLLDQASTY----GEGKVTIKV  236 (486)
T ss_pred             HHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHh----cCCCcCHHH
Confidence            889999999999999999999999999999999999999999999999 699999999999998754    345799999


Q ss_pred             HHHHHH
Q psy18185        164 ILEVST  169 (190)
Q Consensus       164 V~~~~~  169 (190)
                      |..+++
T Consensus       237 V~~~lg  242 (486)
T PRK14953        237 VEEFLG  242 (486)
T ss_pred             HHHHhC
Confidence            998764

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=99.80  E-value=1.4e-18  Score=161.11  Aligned_cols=143  Identities=26%  Similarity=0.330  Sum_probs=119.3

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +-+++|+ |.+.+....    ....++|+||||+|.|+.+++++|++++|+++. +.||++|+         +    +..
T Consensus       113 gvd~IRe-Iie~~~~~P----~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tt---------e----~~k  174 (598)
T PRK09111        113 GVDDIRE-IIESVRYRP----VSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATT---------E----IRK  174 (598)
T ss_pred             CHHHHHH-HHHHHHhch----hcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeC---------C----hhh
Confidence            3466763 333333322    233569999999999999999999999999866 67888883         2    567


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQD  163 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~  163 (190)
                      ++++++|||+.|.|++++.+++.++|..+++++|+.++++++++|+.. ++||+|.+++.|+.+..+    |.+.||.++
T Consensus       175 ll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~-a~Gdlr~al~~Ldkli~~----g~g~It~e~  249 (598)
T PRK09111        175 VPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVEVEDEALALIARA-AEGSVRDGLSLLDQAIAH----GAGEVTAEA  249 (598)
T ss_pred             hhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHhh----cCCCcCHHH
Confidence            889999999999999999999999999999999999999999999999 699999999999987654    335799999


Q ss_pred             HHHHHHh
Q psy18185        164 ILEVSTL  170 (190)
Q Consensus       164 V~~~~~~  170 (190)
                      |+.+++.
T Consensus       250 V~~llg~  256 (598)
T PRK09111        250 VRDMLGL  256 (598)
T ss_pred             HHHHhCC
Confidence            9988753

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.80  E-value=1.2e-18  Score=157.89  Aligned_cols=145  Identities=25%  Similarity=0.285  Sum_probs=119.5

Q ss_pred             hhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCC
Q psy18185          6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGI   84 (190)
Q Consensus         6 ~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l   84 (190)
                      -+++| +|.+.+......    ..++|+||||+|.|+.++++.|++.+|++++ +++|++|         +    .|..+
T Consensus        99 id~iR-~i~~~~~~~p~~----~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilat---------t----n~~kl  160 (472)
T PRK14962         99 IDEIR-KIRDAVGYRPME----GKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLAT---------T----NLEKV  160 (472)
T ss_pred             HHHHH-HHHHHHhhChhc----CCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEe---------C----ChHhh
Confidence            35666 344444432222    2458999999999999999999999999766 5677777         3    26688


Q ss_pred             ChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHH
Q psy18185         85 PLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDI  164 (190)
Q Consensus        85 ~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V  164 (190)
                      +++++|||+++.|+|++.+++..+|+.+++.+|+.++++++++|++. ++||+|.|++.|+.+..++.    ..||.++|
T Consensus       161 ~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~i~~eal~~Ia~~-s~GdlR~aln~Le~l~~~~~----~~It~e~V  235 (472)
T PRK14962        161 PPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKR-ASGGLRDALTMLEQVWKFSE----GKITLETV  235 (472)
T ss_pred             hHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-hCCCHHHHHHHHHHHHHhcC----CCCCHHHH
Confidence            99999999999999999999999999999999999999999999999 69999999999998765432    25999999


Q ss_pred             HHHHHhccC
Q psy18185        165 LEVSTLFLD  173 (190)
Q Consensus       165 ~~~~~~f~~  173 (190)
                      .++++...+
T Consensus       236 ~~~l~~~~~  244 (472)
T PRK14962        236 HEALGLIPI  244 (472)
T ss_pred             HHHHcCCCH
Confidence            998865444

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=99.80  E-value=1.3e-18  Score=160.48  Aligned_cols=142  Identities=25%  Similarity=0.347  Sum_probs=117.2

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +-+++|+ +.+.+....    ....++|++|||+|.|+.+++++|++++|+|+. +++|++|         +    .++.
T Consensus       100 gVd~IRe-Ii~~~~~~P----~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~T---------t----~~~K  161 (605)
T PRK05896        100 GVDEIRN-IIDNINYLP----TTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFAT---------T----EFQK  161 (605)
T ss_pred             CHHHHHH-HHHHHHhch----hhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEEC---------C----ChHh
Confidence            4456663 333333322    223468999999999999999999999999876 6778888         3    2788


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQD  163 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~  163 (190)
                      ++++++|||+.++|++++.+++..+|..+++++|+.+++++++.++.. ++||+|.|+++|+.+..++   | ..||.++
T Consensus       162 Ll~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~Is~eal~~La~l-S~GdlR~AlnlLekL~~y~---~-~~It~e~  236 (605)
T PRK05896        162 IPLTIISRCQRYNFKKLNNSELQELLKSIAKKEKIKIEDNAIDKIADL-ADGSLRDGLSILDQLSTFK---N-SEIDIED  236 (605)
T ss_pred             hhHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCcHHHHHHHHHHHHhhc---C-CCCCHHH
Confidence            999999999999999999999999999999999999999999999999 6999999999999976553   2 2499998


Q ss_pred             HHHHHH
Q psy18185        164 ILEVST  169 (190)
Q Consensus       164 V~~~~~  169 (190)
                      |..+++
T Consensus       237 V~ellg  242 (605)
T PRK05896        237 INKTFG  242 (605)
T ss_pred             HHHHhc
Confidence            888653

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=99.79  E-value=2e-18  Score=159.22  Aligned_cols=143  Identities=21%  Similarity=0.237  Sum_probs=119.4

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      .+.+++|+ +.+.+...+..+    .++|+||||+|.|+.+++++|++++|+|+. .+||++|         ++    +.
T Consensus        99 ~~vddIr~-l~e~~~~~p~~~----~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~t---------te----~~  160 (563)
T PRK06647         99 TSVQDVRQ-IKEEIMFPPASS----RYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFAT---------TE----VH  160 (563)
T ss_pred             CCHHHHHH-HHHHHHhchhcC----CCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEec---------CC----hH
Confidence            34567773 444444433333    459999999999999999999999999876 6777777         42    67


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQ  162 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~  162 (190)
                      .++++++|||+.++|.+++.+++.++|..+++.+|+.++++++.+|+.. ++||+|.|+++|+.+..++    .+.||.+
T Consensus       161 kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi~id~eAl~lLa~~-s~GdlR~alslLdklis~~----~~~It~e  235 (563)
T PRK06647        161 KLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIKYEDEALKWIAYK-STGSVRDAYTLFDQVVSFS----DSDITLE  235 (563)
T ss_pred             HhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHhhc----CCCCCHH
Confidence            8999999999999999999999999999999999999999999999999 6999999999999876543    3469999


Q ss_pred             HHHHHHH
Q psy18185        163 DILEVST  169 (190)
Q Consensus       163 ~V~~~~~  169 (190)
                      +|..+++
T Consensus       236 ~V~~llg  242 (563)
T PRK06647        236 QIRSKMG  242 (563)
T ss_pred             HHHHHhC
Confidence            9988764

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.77  E-value=1.1e-17  Score=155.66  Aligned_cols=123  Identities=25%  Similarity=0.330  Sum_probs=108.9

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      ..++|+||||+|.|+.+++++|++++|+++. ++||++|         +    .++.+.++|+|||++++|++++++++.
T Consensus       120 ~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~t---------t----~~~kIl~tI~SRc~iv~f~~ls~~ei~  186 (614)
T PRK14971        120 GKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILAT---------T----EKHKILPTILSRCQIFDFNRIQVADIV  186 (614)
T ss_pred             CCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEe---------C----CchhchHHHHhhhheeecCCCCHHHHH
Confidence            3569999999999999999999999999876 6788888         3    267899999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      .+|..+++++|+.++++++++|+.. ++||+|.|++.|+.+..++   |. .||.++|.+.+
T Consensus       187 ~~L~~ia~~egi~i~~~al~~La~~-s~gdlr~al~~Lekl~~y~---~~-~It~~~V~~~l  243 (614)
T PRK14971        187 NHLQYVASKEGITAEPEALNVIAQK-ADGGMRDALSIFDQVVSFT---GG-NITYKSVIENL  243 (614)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhc---cC-CccHHHHHHHh
Confidence            9999999999999999999999999 6999999999999877554   22 38887776655

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.76  E-value=1.8e-17  Score=154.19  Aligned_cols=127  Identities=24%  Similarity=0.329  Sum_probs=111.7

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      ..++|+||||+|.|+.+++++|++++|+++. ++||++|+             .+..++++++|||++++|.+++.+++.
T Consensus       126 ~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~-------------~~~kLl~TI~SRc~~vef~~l~~~ei~  192 (620)
T PRK14954        126 GRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATT-------------ELHKIPATIASRCQRFNFKRIPLDEIQ  192 (620)
T ss_pred             CCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeC-------------ChhhhhHHHHhhceEEecCCCCHHHHH
Confidence            3469999999999999999999999999876 67788873             267899999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhh-cCCCcccHHHHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKT-NGRTAISKQDILEVS  168 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~-~g~~~It~~~V~~~~  168 (190)
                      .+|..+++++|+.++++++++++.. ++||+|.|++.|+.+..++.. .....||.++|.+++
T Consensus       193 ~~L~~i~~~egi~I~~eal~~La~~-s~Gdlr~al~eLeKL~~y~~~~~~~~~It~~~V~~lv  254 (620)
T PRK14954        193 SQLQMICRAEGIQIDADALQLIARK-AQGSMRDAQSILDQVIAFSVGSEAEKVIAYQGVAELL  254 (620)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHH-hCCCHHHHHHHHHHHHHhccccccCCccCHHHHHHHH
Confidence            9999999999999999999999999 699999999999988877521 124579998887766

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=99.76  E-value=2.9e-17  Score=148.17  Aligned_cols=140  Identities=24%  Similarity=0.271  Sum_probs=116.3

Q ss_pred             hhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCC
Q psy18185          6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGI   84 (190)
Q Consensus         6 ~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l   84 (190)
                      -+++| ++.+.+......    ..++|+||||+|.|+.++++.|++++|+++. +.+|++|+             .+..+
T Consensus       103 id~ir-~i~~~l~~~~~~----~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~-------------~~~kl  164 (451)
T PRK06305        103 IEDIR-QINETVLFTPSK----SRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATT-------------EIHKI  164 (451)
T ss_pred             HHHHH-HHHHHHHhhhhc----CCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeC-------------ChHhc
Confidence            46676 355554433222    2468999999999999999999999999866 56788774             26789


Q ss_pred             ChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHH
Q psy18185         85 PLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDI  164 (190)
Q Consensus        85 ~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V  164 (190)
                      .++++|||+.++|++++++++.++|..+++++|+.+++++++.|+.. ++||+|.|++.|+.+..+.   + +.||.++|
T Consensus       165 ~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~i~~~al~~L~~~-s~gdlr~a~~~Lekl~~~~---~-~~It~~~V  239 (451)
T PRK06305        165 PGTILSRCQKMHLKRIPEETIIDKLALIAKQEGIETSREALLPIARA-AQGSLRDAESLYDYVVGLF---P-KSLDPDSV  239 (451)
T ss_pred             chHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhc---c-CCcCHHHH
Confidence            99999999999999999999999999999999999999999999999 6999999999999876542   2 34998888


Q ss_pred             HHHH
Q psy18185        165 LEVS  168 (190)
Q Consensus       165 ~~~~  168 (190)
                      ..++
T Consensus       240 ~~l~  243 (451)
T PRK06305        240 AKAL  243 (451)
T ss_pred             HHHH
Confidence            7765

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.76  E-value=1.8e-17  Score=147.13  Aligned_cols=127  Identities=24%  Similarity=0.329  Sum_probs=111.4

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      ..++|+||||+|.|+.++++.|++.+|+++. +++|++|+             .+..+.++++|||++++|+|++++++.
T Consensus       126 ~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~-------------~~~kl~~tl~sR~~~v~f~~l~~~ei~  192 (397)
T PRK14955        126 GRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATT-------------ELHKIPATIASRCQRFNFKRIPLEEIQ  192 (397)
T ss_pred             CCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeC-------------ChHHhHHHHHHHHHHhhcCCCCHHHHH
Confidence            3468999999999999999999999999866 56777773             257888999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhh-cCCCcccHHHHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKT-NGRTAISKQDILEVS  168 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~-~g~~~It~~~V~~~~  168 (190)
                      +++..+++.+|+.++++++++++.. ++||+|.|++.|+.+..++.. .+...||.++|..++
T Consensus       193 ~~l~~~~~~~g~~i~~~al~~l~~~-s~g~lr~a~~~L~kl~~~~~~~~~~~~It~~~v~~~v  254 (397)
T PRK14955        193 QQLQGICEAEGISVDADALQLIGRK-AQGSMRDAQSILDQVIAFSVESEGEGSIRYDKVAELL  254 (397)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhccccCCCCccCHHHHHHHH
Confidence            9999999999999999999999999 699999999999998877642 223579999898766

>KOG0991|consensus

Probab=99.76  E-value=4.2e-18  Score=140.81  Aligned_cols=123  Identities=18%  Similarity=0.209  Sum_probs=105.7

Q ss_pred             hHHHHHHHHHHHHHHHcCccccC---CeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          7 DKLRKEINKVVNKYIDQGIAELV---PGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         7 ~~~R~~I~~~v~~~~~~~~~~~~---~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      |-+|+.|.--.++     +..++   .+|+|+||+|.|+..+|.+|.|++|-+.. +.|.++||        +     +.
T Consensus        93 DvVRn~IK~FAQ~-----kv~lp~grhKIiILDEADSMT~gAQQAlRRtMEiyS~ttRFalaCN--------~-----s~  154 (333)
T KOG0991|consen   93 DVVRNKIKMFAQK-----KVTLPPGRHKIIILDEADSMTAGAQQALRRTMEIYSNTTRFALACN--------Q-----SE  154 (333)
T ss_pred             HHHHHHHHHHHHh-----hccCCCCceeEEEeeccchhhhHHHHHHHHHHHHHcccchhhhhhc--------c-----hh
Confidence            4466555444333     33333   47999999999999999999999998766 78999997        3     56


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAA  148 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~  148 (190)
                      .+..++.|||.+++|.++++.++-..|...++.|++.++++++++|... +.||+|+|+|.|+...
T Consensus       155 KIiEPIQSRCAiLRysklsd~qiL~Rl~~v~k~Ekv~yt~dgLeaiift-a~GDMRQalNnLQst~  219 (333)
T KOG0991|consen  155 KIIEPIQSRCAILRYSKLSDQQILKRLLEVAKAEKVNYTDDGLEAIIFT-AQGDMRQALNNLQSTV  219 (333)
T ss_pred             hhhhhHHhhhHhhhhcccCHHHHHHHHHHHHHHhCCCCCcchHHHhhhh-ccchHHHHHHHHHHHh
Confidence            7888899999999999999999999999999999999999999999999 5999999999998765

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.75  E-value=2.7e-17  Score=150.06  Aligned_cols=122  Identities=23%  Similarity=0.348  Sum_probs=109.0

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .++|+||||+|.++.++++.|++.+|+++. +++|++|+             .+..++++++|||+.++|.+++.+++.+
T Consensus       116 ~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~-------------~~~kl~~~I~SRc~~~~f~~ls~~el~~  182 (504)
T PRK14963        116 GRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATT-------------EPEKMPPTILSRTQHFRFRRLTEEEIAG  182 (504)
T ss_pred             CCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcC-------------ChhhCChHHhcceEEEEecCCCHHHHHH
Confidence            468999999999999999999999999765 57778774             2678899999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +|..+++++|+.++++++.+|++. ++||+|.|++.|+.+...     ...||.++|..+++
T Consensus       183 ~L~~i~~~egi~i~~~Al~~ia~~-s~GdlR~aln~Lekl~~~-----~~~It~~~V~~~l~  238 (504)
T PRK14963        183 KLRRLLEAEGREAEPEALQLVARL-ADGAMRDAESLLERLLAL-----GTPVTRKQVEEALG  238 (504)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHhc-----CCCCCHHHHHHHHC
Confidence            999999999999999999999999 699999999999998542     23699999988764

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.74  E-value=3.5e-17  Score=152.51  Aligned_cols=122  Identities=22%  Similarity=0.276  Sum_probs=107.1

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      ..++|+||||+|.|+.+++++|++++|+++. .+||++|+             .+..+.++|+|||+.+.|.+++.+++.
T Consensus       120 ~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~-------------~~~~llpTIrSRc~~~~f~~l~~~ei~  186 (620)
T PRK14948        120 ARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATT-------------DPQRVLPTIISRCQRFDFRRIPLEAMV  186 (620)
T ss_pred             CCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeC-------------ChhhhhHHHHhheeEEEecCCCHHHHH
Confidence            3468999999999999999999999999866 67888883             266789999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      .+|..+++++|+.++++++.++++. ++||+|.|+++|+....+.     ..||.++|..+.
T Consensus       187 ~~L~~ia~kegi~is~~al~~La~~-s~G~lr~A~~lLeklsL~~-----~~It~e~V~~lv  242 (620)
T PRK14948        187 QHLSEIAEKESIEIEPEALTLVAQR-SQGGLRDAESLLDQLSLLP-----GPITPEAVWDLL  242 (620)
T ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHhcc-----CCCCHHHHHHHh
Confidence            9999999999999999999999999 6999999999999876542     258877776544

>KOG2028|consensus

Probab=99.74  E-value=2.2e-17  Score=143.74  Aligned_cols=154  Identities=18%  Similarity=0.234  Sum_probs=123.0

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGI   84 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l   84 (190)
                      ++.++|..+.+.-++ ....+.   +.||||||||++++.+|+.|+..+|.+ ..++|+||         |||  |++.+
T Consensus       202 ~t~dvR~ife~aq~~-~~l~kr---kTilFiDEiHRFNksQQD~fLP~VE~G-~I~lIGAT---------TEN--PSFql  265 (554)
T KOG2028|consen  202 KTNDVRDIFEQAQNE-KSLTKR---KTILFIDEIHRFNKSQQDTFLPHVENG-DITLIGAT---------TEN--PSFQL  265 (554)
T ss_pred             chHHHHHHHHHHHHH-Hhhhcc---eeEEEeHHhhhhhhhhhhcccceeccC-ceEEEecc---------cCC--Cccch
Confidence            678888655554443 333332   479999999999999999999999997 47899999         887  58999


Q ss_pred             ChhHhhhhhheeccCCCHHHHHHHHHHHHH------h-------cCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHH-
Q psy18185         85 PLDLLDRLLIIRTTPYNQKDMEAIIKLRAN------T-------EGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALT-  150 (190)
Q Consensus        85 ~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~------~-------~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~-  150 (190)
                      ..+++|||.+|.+++++.+++..+|.+...      .       ..+.+++.++++++.. +.||.|.|+|.|+..... 
T Consensus       266 n~aLlSRC~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~l-sdGDaR~aLN~Lems~~m~  344 (554)
T KOG2028|consen  266 NAALLSRCRVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYL-SDGDARAALNALEMSLSMF  344 (554)
T ss_pred             hHHHHhccceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHh-cCchHHHHHHHHHHHHHHH
Confidence            999999999999999999999999998554      1       1235889999999999 799999999999988432 


Q ss_pred             hhhcC---CCcccHHHHHHHH---HhccChH
Q psy18185        151 AKTNG---RTAISKQDILEVS---TLFLDAK  175 (190)
Q Consensus       151 a~~~g---~~~It~~~V~~~~---~~f~~~~  175 (190)
                      ..++|   +..+++++|++.+   .+++|+.
T Consensus       345 ~tr~g~~~~~~lSidDvke~lq~s~~~YDr~  375 (554)
T KOG2028|consen  345 CTRSGQSSRVLLSIDDVKEGLQRSHILYDRA  375 (554)
T ss_pred             HhhcCCcccceecHHHHHHHHhhccceeccc
Confidence            33444   3469999999988   3455543

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.73  E-value=3.9e-17  Score=143.07  Aligned_cols=122  Identities=16%  Similarity=0.247  Sum_probs=99.1

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +-+++| ++.+.+......    ..++|+||||+|.|+.+++|+|++++|+|+. +.||++|+             .|..
T Consensus       122 ~vd~iR-~l~~~l~~~~~~----g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLit~-------------~~~~  183 (351)
T PRK09112        122 TVDEIR-RVGHFLSQTSGD----GNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILISH-------------SSGR  183 (351)
T ss_pred             CHHHHH-HHHHHhhhcccc----CCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEEEC-------------Chhh
Confidence            346776 344443332223    3468999999999999999999999999866 77888884             2778


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPA  147 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~  147 (190)
                      ++|+++|||+.++|+|++.+++.++|...+...+  ++++++..++.. ++|++|.|+++++..
T Consensus       184 llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~--~~~~~~~~i~~~-s~G~pr~Al~ll~~~  244 (351)
T PRK09112        184 LLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG--SDGEITEALLQR-SKGSVRKALLLLNYG  244 (351)
T ss_pred             ccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC--CCHHHHHHHHHH-cCCCHHHHHHHHhcC
Confidence            8999999999999999999999999998654443  779999999999 699999999999543

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.73  E-value=7.3e-17  Score=149.68  Aligned_cols=144  Identities=28%  Similarity=0.295  Sum_probs=118.3

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      .+.+++|+ |.+.+....    ....++|+||||+|.|+.++++.|++++|+++. .+||++++             .+.
T Consensus       100 ~~vd~ir~-ii~~~~~~p----~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~-------------~~~  161 (585)
T PRK14950        100 TSVDDARE-IIERVQFRP----ALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATT-------------EVH  161 (585)
T ss_pred             CCHHHHHH-HHHHHhhCc----ccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeC-------------Chh
Confidence            45567773 334433322    223468999999999999999999999999865 56777773             256


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQ  162 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~  162 (190)
                      .++++++|||+.+.|++++.+++..+|..++.++|+.++++++++|+.. ++||+|.|++.|+....+    +.+.||.+
T Consensus       162 kll~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~i~~eal~~La~~-s~Gdlr~al~~LekL~~y----~~~~It~e  236 (585)
T PRK14950        162 KVPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARA-ATGSMRDAENLLQQLATT----YGGEISLS  236 (585)
T ss_pred             hhhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHh----cCCCCCHH
Confidence            7889999999999999999999999999999999999999999999999 699999999999987654    34579999


Q ss_pred             HHHHHHHh
Q psy18185        163 DILEVSTL  170 (190)
Q Consensus       163 ~V~~~~~~  170 (190)
                      +|+.++..
T Consensus       237 ~V~~ll~~  244 (585)
T PRK14950        237 QVQSLLGI  244 (585)
T ss_pred             HHHHHhcC
Confidence            99876643

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.73  E-value=6.8e-17  Score=139.99  Aligned_cols=124  Identities=29%  Similarity=0.360  Sum_probs=109.1

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      ..++|++|||+|.++.++++.|++.+|+++. +++|++|+             .+..++++++|||..+.|+|++.+++.
T Consensus       116 ~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~-------------~~~~l~~~l~sr~~~~~~~~~~~~~l~  182 (355)
T TIGR02397       116 GKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATT-------------EPHKIPATILSRCQRFDFKRIPLEDIV  182 (355)
T ss_pred             CCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeC-------------CHHHHHHHHHhheeEEEcCCCCHHHHH
Confidence            3468999999999999999999999999766 56677773             266788999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ++|..+++++|+.++++++++++.. ++||+|.|++.|+.+..++.    +.||.++|++++.
T Consensus       183 ~~l~~~~~~~g~~i~~~a~~~l~~~-~~g~~~~a~~~lekl~~~~~----~~it~~~v~~~~~  240 (355)
T TIGR02397       183 ERLKKILDKEGIKIEDEALELIARA-ADGSLRDALSLLDQLISFGN----GNITYEDVNELLG  240 (355)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHH-cCCChHHHHHHHHHHHhhcC----CCCCHHHHHHHhC
Confidence            9999999999999999999999999 69999999999998876542    3599999987764

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.

>KOG2035|consensus

Probab=99.72  E-value=1.1e-16  Score=134.85  Aligned_cols=147  Identities=22%  Similarity=0.308  Sum_probs=117.5

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      -+++|++|.|+|.|++++|.+|.|++|.+.+ ..+|+++|             +.+.+.+++||||..++.+.+|++|+.
T Consensus       126 r~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~RlIl~cn-------------s~SriIepIrSRCl~iRvpaps~eeI~  192 (351)
T KOG2035|consen  126 RPFKVVVINEADELTRDAQHALRRTMEKYSSNCRLILVCN-------------STSRIIEPIRSRCLFIRVPAPSDEEIT  192 (351)
T ss_pred             cceEEEEEechHhhhHHHHHHHHHHHHHHhcCceEEEEec-------------CcccchhHHhhheeEEeCCCCCHHHHH
Confidence            3679999999999999999999999999876 78999996             356788899999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhh-cCC-CcccHHH----HHHHHHhccChHHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKT-NGR-TAISKQD----ILEVSTLFLDAKSSARI  180 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~-~g~-~~It~~~----V~~~~~~f~~~~~~~~~  180 (190)
                      .+|...+++||+.++.+.+..|++. |+|++|.|+-+|+.+....+. .+. ..|..++    |++........+..-+.
T Consensus       193 ~vl~~v~~kE~l~lp~~~l~rIa~k-S~~nLRrAllmlE~~~~~n~~~~a~~~~i~~~dWe~~i~e~a~~i~~eQs~~~L  271 (351)
T KOG2035|consen  193 SVLSKVLKKEGLQLPKELLKRIAEK-SNRNLRRALLMLEAVRVNNEPFTANSQVIPKPDWEIYIQEIARVILKEQSPAKL  271 (351)
T ss_pred             HHHHHHHHHhcccCcHHHHHHHHHH-hcccHHHHHHHHHHHHhccccccccCCCCCCccHHHHHHHHHHHHHhccCHHHH
Confidence            9999999999999999999999999 899999999999988753211 111 2333222    34444555555555555


Q ss_pred             hHHhhhhh
Q psy18185        181 LTENKDKF  188 (190)
Q Consensus       181 ~~~~~~~~  188 (190)
                      +..-++.|
T Consensus       272 ~~vR~~LY  279 (351)
T KOG2035|consen  272 LEVRGRLY  279 (351)
T ss_pred             HHHHHHHH
Confidence            55555555

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=99.71  E-value=5.9e-17  Score=141.10  Aligned_cols=118  Identities=14%  Similarity=0.185  Sum_probs=98.2

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      ++-+++|+ +.+.+.....+|.    ++|++||++|.|+.+++|+|+|++|+|+. ++||++|+             .|+
T Consensus        88 I~idqiR~-l~~~~~~~~~~g~----~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~-------------~~~  149 (334)
T PRK07993         88 LGVDAVRE-VTEKLYEHARLGG----AKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACR-------------EPA  149 (334)
T ss_pred             CCHHHHHH-HHHHHhhccccCC----ceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEEC-------------Chh
Confidence            67788884 5555554444444    59999999999999999999999999987 78888884             388


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLT  145 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~  145 (190)
                      .++||++|||+.+.|++++++++.++|...   .  .++++.+..++.. ++|++..|+.+++
T Consensus       150 ~lLpTIrSRCq~~~~~~~~~~~~~~~L~~~---~--~~~~~~a~~~~~l-a~G~~~~Al~l~~  206 (334)
T PRK07993        150 RLLATLRSRCRLHYLAPPPEQYALTWLSRE---V--TMSQDALLAALRL-SAGAPGAALALLQ  206 (334)
T ss_pred             hChHHHHhccccccCCCCCHHHHHHHHHHc---c--CCCHHHHHHHHHH-cCCCHHHHHHHhc
Confidence            999999999999999999999999999742   2  3677778888899 6999999998874

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=99.71  E-value=1.8e-16  Score=136.96  Aligned_cols=111  Identities=14%  Similarity=0.170  Sum_probs=91.7

Q ss_pred             HHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCC
Q psy18185         21 IDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPY  100 (190)
Q Consensus        21 ~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~l  100 (190)
                      +.....+..++|++||++|.|+.+++|+|+|++|+|+.++||++|+             .|..++||++|||+.++|+|+
T Consensus       116 l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~fILi~~-------------~~~~Ll~TI~SRcq~i~f~~l  182 (314)
T PRK07399        116 LSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNGTLILIAP-------------SPESLLPTIVSRCQIIPFYRL  182 (314)
T ss_pred             HccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCCCCeEEEEEC-------------ChHhCcHHHHhhceEEecCCC
Confidence            4444444567999999999999999999999999998778888884             378999999999999999999


Q ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHH
Q psy18185        101 NQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAA  148 (190)
Q Consensus       101 s~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~  148 (190)
                      +++++.++|......++..   .....++.. ++|+++.|++.++...
T Consensus       183 ~~~~~~~~L~~~~~~~~~~---~~~~~l~~~-a~Gs~~~al~~l~~~~  226 (314)
T PRK07399        183 SDEQLEQVLKRLGDEEILN---INFPELLAL-AQGSPGAAIANIEQLQ  226 (314)
T ss_pred             CHHHHHHHHHHhhccccch---hHHHHHHHH-cCCCHHHHHHHHHHHH
Confidence            9999999999875443322   225677888 6999999999987543

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.70  E-value=5.7e-16  Score=135.69  Aligned_cols=123  Identities=27%  Similarity=0.344  Sum_probs=108.7

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .++|++|||+|.++..+++.|++.+|+++. +.+|++|+             .+..+.++++|||..++|++++++++..
T Consensus       108 ~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~-------------~~~kl~~~l~sr~~~v~~~~~~~~~l~~  174 (367)
T PRK14970        108 KYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATT-------------EKHKIIPTILSRCQIFDFKRITIKDIKE  174 (367)
T ss_pred             CcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeC-------------CcccCCHHHHhcceeEecCCccHHHHHH
Confidence            458999999999999999999999999765 56777773             2567889999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +|...++++|+.++++++++++.. ++||+|.+++.|+.+..++.   . .||.++|+.++.
T Consensus       175 ~l~~~~~~~g~~i~~~al~~l~~~-~~gdlr~~~~~lekl~~y~~---~-~it~~~v~~~~~  231 (367)
T PRK14970        175 HLAGIAVKEGIKFEDDALHIIAQK-ADGALRDALSIFDRVVTFCG---K-NITRQAVTENLN  231 (367)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHh-CCCCHHHHHHHHHHHHHhcC---C-CCCHHHHHHHhC
Confidence            999999999999999999999999 69999999999999886653   2 299999988764

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.69  E-value=1.3e-15  Score=130.77  Aligned_cols=141  Identities=19%  Similarity=0.205  Sum_probs=113.5

Q ss_pred             HHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHh
Q psy18185         11 KEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLL   89 (190)
Q Consensus        11 ~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~   89 (190)
                      +.++++++...........+++|||||+|.++.+.++.|.+++|.++. ..+|++++             .+..+.++++
T Consensus       107 ~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~-------------~~~~~~~~L~  173 (337)
T PRK12402        107 DNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATR-------------QPSKLIPPIR  173 (337)
T ss_pred             HHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeC-------------ChhhCchhhc
Confidence            345555544433322223458999999999999999999999998655 66777773             1446778899


Q ss_pred             hhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         90 DRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        90 SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      |||..+.|.|++.+++..+|..++.++|+.+++++++.+++. +.||+|.+++.|+.++.     +...||.++|..++.
T Consensus       174 sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~~~~~al~~l~~~-~~gdlr~l~~~l~~~~~-----~~~~It~~~v~~~~~  247 (337)
T PRK12402        174 SRCLPLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYY-AGGDLRKAILTLQTAAL-----AAGEITMEAAYEALG  247 (337)
T ss_pred             CCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHH-----cCCCCCHHHHHHHhC
Confidence            999999999999999999999999999999999999999999 69999999999987651     223799999988765


Q ss_pred             h
Q psy18185        170 L  170 (190)
Q Consensus       170 ~  170 (190)
                      .
T Consensus       248 ~  248 (337)
T PRK12402        248 D  248 (337)
T ss_pred             C
Confidence            3

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=99.69  E-value=2.3e-16  Score=136.84  Aligned_cols=119  Identities=16%  Similarity=0.195  Sum_probs=96.0

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      .+-+++| ++.+.+.....+|+    ++|++||++|.|+.+++|+|+|++|+|+. +.||++|+             .+.
T Consensus        87 I~id~iR-~l~~~~~~~~~~g~----~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~-------------~~~  148 (325)
T PRK06871         87 IGVDQVR-EINEKVSQHAQQGG----NKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQAD-------------LSA  148 (325)
T ss_pred             CCHHHHH-HHHHHHhhccccCC----ceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEEC-------------ChH
Confidence            5678888 46566555555554    59999999999999999999999999987 77888883             388


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTP  146 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~  146 (190)
                      .++||++|||+.+.|+|++++++.++|....     ..+++.+..++.. ++|.+..|+.++..
T Consensus       149 ~llpTI~SRC~~~~~~~~~~~~~~~~L~~~~-----~~~~~~~~~~~~l-~~g~p~~A~~~~~~  206 (325)
T PRK06871        149 ALLPTIYSRCQTWLIHPPEEQQALDWLQAQS-----SAEISEILTALRI-NYGRPLLALTFLEQ  206 (325)
T ss_pred             hCchHHHhhceEEeCCCCCHHHHHHHHHHHh-----ccChHHHHHHHHH-cCCCHHHHHHHhhC
Confidence            9999999999999999999999999998653     2344456667777 68989888887643

>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=99.68  E-value=6.7e-17  Score=133.12  Aligned_cols=109  Identities=28%  Similarity=0.317  Sum_probs=88.3

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC-------------------CEEEEEecCCcccccCCCCCCCCCCCChhHhh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA-------------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-------------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S   90 (190)
                      ..||||||||+|++.+|.+|+.++|++.-                   -++|+||         |.    ++.+++++++
T Consensus       102 ~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligAT---------Tr----~g~ls~pLrd  168 (233)
T PF05496_consen  102 GDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGAT---------TR----AGLLSSPLRD  168 (233)
T ss_dssp             T-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEE---------SS----GCCTSHCCCT
T ss_pred             CcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeee---------cc----ccccchhHHh
Confidence            36999999999999999999999996531                   2678888         42    6778899999


Q ss_pred             hhhhe-eccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhh
Q psy18185         91 RLLII-RTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAK  152 (190)
Q Consensus        91 R~~~i-~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~  152 (190)
                      |+.++ ++..|+.+|+.+|+.+.+...++.++++++..|+.+ |+|++|.|.++|.++..+|+
T Consensus       169 RFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i~~~~~~~Ia~r-srGtPRiAnrll~rvrD~a~  230 (233)
T PF05496_consen  169 RFGIVLRLEFYSEEELAKIVKRSARILNIEIDEDAAEEIARR-SRGTPRIANRLLRRVRDFAQ  230 (233)
T ss_dssp             TSSEEEE----THHHHHHHHHHCCHCTT-EE-HHHHHHHHHC-TTTSHHHHHHHHHHHCCCCC
T ss_pred             hcceecchhcCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHh-cCCChHHHHHHHHHHHHHHH
Confidence            99765 799999999999999999999999999999999999 89999999999999877664

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.

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=99.68  E-value=4.1e-16  Score=135.54  Aligned_cols=119  Identities=13%  Similarity=0.175  Sum_probs=95.6

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      .|-|++|+ +.+.+.....++    .++|++||++|.|+.+++|+|+|++|+|+. ..||++|+             .+.
T Consensus        86 i~id~iR~-l~~~~~~~~~~~----~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~-------------~~~  147 (328)
T PRK05707         86 IKVDQVRE-LVSFVVQTAQLG----GRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISH-------------QPS  147 (328)
T ss_pred             CCHHHHHH-HHHHHhhccccC----CCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEEC-------------Chh
Confidence            56688884 444444433333    469999999999999999999999999877 67888884             378


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLT  145 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~  145 (190)
                      .++||++|||+.+.|+|++.+++.++|....   + ..+++.+..++.. ++|++..|+.+++
T Consensus       148 ~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~---~-~~~~~~~~~~l~l-a~Gsp~~A~~l~~  205 (328)
T PRK05707        148 RLLPTIKSRCQQQACPLPSNEESLQWLQQAL---P-ESDERERIELLTL-AGGSPLRALQLHE  205 (328)
T ss_pred             hCcHHHHhhceeeeCCCcCHHHHHHHHHHhc---c-cCChHHHHHHHHH-cCCCHHHHHHHHC
Confidence            8999999999999999999999999997643   1 2456677778888 6999999988764

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.67  E-value=3.2e-15  Score=127.38  Aligned_cols=122  Identities=20%  Similarity=0.316  Sum_probs=107.0

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .+++++|||+|.|+.+.++.|.+.+|.++. +.+|+++|             .+..+.++++|||..++|+|++++++.+
T Consensus       102 ~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~-------------~~~~l~~~l~sr~~~~~~~~l~~~ei~~  168 (319)
T PRK00440        102 PFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCN-------------YSSKIIDPIQSRCAVFRFSPLKKEAVAE  168 (319)
T ss_pred             CceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeC-------------CccccchhHHHHhheeeeCCCCHHHHHH
Confidence            458999999999999999999999998655 67788774             1456778899999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +|..+++++|+.+++++++++++. ++||+|.|++.|+.+...     ...||.++|..+..
T Consensus       169 ~l~~~~~~~~~~i~~~al~~l~~~-~~gd~r~~~~~l~~~~~~-----~~~it~~~v~~~~~  224 (319)
T PRK00440        169 RLRYIAENEGIEITDDALEAIYYV-SEGDMRKAINALQAAAAT-----GKEVTEEAVYKITG  224 (319)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHc-----CCCCCHHHHHHHhC
Confidence            999999999999999999999999 699999999999987653     24699999888764

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.67  E-value=1.4e-15  Score=139.70  Aligned_cols=126  Identities=31%  Similarity=0.313  Sum_probs=111.6

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC-----------------------------CCEEEEEecCCcccccCCCCCCC
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI-----------------------------APIVIFATNRGRCLVRGTDDIIS   80 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~-----------------------------~~~iIlatn~~~~~~~~t~~~~~   80 (190)
                      .|+|||||+|.|++.+|+.|++++|+..                             ...+|++|+         .   +
T Consensus       176 gG~L~IdEI~~L~~~~q~~LL~~Le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~rlI~ATt---------~---~  243 (531)
T TIGR02902       176 GGVLFIDEIGELHPVQMNKLLKVLEDRKVFLDSAYYNSENPNIPSHIHDIFQNGLPADFRLIGATT---------R---N  243 (531)
T ss_pred             CcEEEEechhhCCHHHHHHHHHHHHhCeeeeccccccccCcccccchhhhcccCcccceEEEEEec---------C---C
Confidence            4899999999999999999999998631                             125677773         2   4


Q ss_pred             CCCCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCccc
Q psy18185         81 PHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAIS  160 (190)
Q Consensus        81 ~~~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It  160 (190)
                      |..++++++|||..+.|+||+++|+..+++..+++.++.+++++++.|+.++ . +.|.++++++.++.+|..+++..||
T Consensus       244 p~~L~paLrsR~~~I~f~pL~~eei~~Il~~~a~k~~i~is~~al~~I~~y~-~-n~Rel~nll~~Aa~~A~~~~~~~It  321 (531)
T TIGR02902       244 PEEIPPALRSRCVEIFFRPLLDEEIKEIAKNAAEKIGINLEKHALELIVKYA-S-NGREAVNIVQLAAGIALGEGRKRIL  321 (531)
T ss_pred             cccCChHHhhhhheeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHhh-h-hHHHHHHHHHHHHHHHhhCCCcEEc
Confidence            7889999999999999999999999999999999999999999999999984 3 7899999999999888777888899


Q ss_pred             HHHHHHHHH
Q psy18185        161 KQDILEVST  169 (190)
Q Consensus       161 ~~~V~~~~~  169 (190)
                      .+++.+++.
T Consensus       322 ~~dI~~vl~  330 (531)
T TIGR02902       322 AEDIEWVAE  330 (531)
T ss_pred             HHHHHHHhC
Confidence            999999985

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.

>PRK08485 DNA polymerase III subunit delta'; Validated

Probab=99.66  E-value=5.1e-16  Score=125.62  Aligned_cols=103  Identities=16%  Similarity=0.201  Sum_probs=91.1

Q ss_pred             EEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhh-------------eec
Q psy18185         32 VLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLI-------------IRT   97 (190)
Q Consensus        32 Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~-------------i~~   97 (190)
                      .++|+++|.|+.+++|+|++++|+|+. +.||++|+             +++.++||++|||+.             +.|
T Consensus        57 k~iI~~a~~l~~~A~NaLLK~LEEPp~~~~fiL~t~-------------~~~~llpTI~SRc~~~~~~~~~~~~~l~l~l  123 (206)
T PRK08485         57 KIIVIAAPSYGIEAQNALLKILEEPPKNICFIIVAK-------------SKNLLLPTIRSRLIIEKRKQKKPVKPLDLDL  123 (206)
T ss_pred             EEEEEchHhhCHHHHHHHHHHhcCCCCCeEEEEEeC-------------ChHhCchHHHhhheecccccccccccccccc
Confidence            356889999999999999999999887 78888883             388999999999986             779


Q ss_pred             cCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHH
Q psy18185         98 TPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAAL  149 (190)
Q Consensus        98 ~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~  149 (190)
                      ++++.+++.+.|.. .+++++...+++++.|+.. +.|.+|.++.+.+.+..
T Consensus       124 ~~l~~~~i~~~L~~-~~ke~~~~~~ea~~lIa~l-a~~s~r~~l~l~~q~l~  173 (206)
T PRK08485        124 KKLDLKDIYEFLKE-LEKENKLSKEELKELIESL-LKECVKYKIPLNEEELE  173 (206)
T ss_pred             CCCCHHHHHHHHHH-HHHcccccHHHHHHHHHHH-HHHHHHHHcCccHHHHH
Confidence            99999999999998 6778888889999999999 59999999888877653

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

Probab=99.66  E-value=1.6e-15  Score=128.25  Aligned_cols=127  Identities=29%  Similarity=0.309  Sum_probs=114.2

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC-------------------CEEEEEecCCcccccCCCCCCCCCCCChhHhh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA-------------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-------------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S   90 (190)
                      ..|+||||||+|++.....|+.+||+..-                   .++|+||         |    ....++.++|+
T Consensus       104 ~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGAT---------T----r~G~lt~PLrd  170 (332)
T COG2255         104 GDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGAT---------T----RAGMLTNPLRD  170 (332)
T ss_pred             CCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeec---------c----ccccccchhHH
Confidence            37999999999999999999999995430                   2688998         4    26778889999


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      |+ .+.+++-|+.+|+..++.+.+...+++++++++..|+++ |+|.+|.|.++|.+...+|+-.|...|+.+.+.+++.
T Consensus       171 RFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i~~~~a~eIA~r-SRGTPRIAnRLLrRVRDfa~V~~~~~I~~~ia~~aL~  249 (332)
T COG2255         171 RFGIIQRLEFYTVEELEEIVKRSAKILGIEIDEEAALEIARR-SRGTPRIANRLLRRVRDFAQVKGDGDIDRDIADKALK  249 (332)
T ss_pred             hcCCeeeeecCCHHHHHHHHHHHHHHhCCCCChHHHHHHHHh-ccCCcHHHHHHHHHHHHHHHHhcCCcccHHHHHHHHH
Confidence            98 566899999999999999999999999999999999999 7999999999999999999999999999999998885


Q ss_pred             h
Q psy18185        170 L  170 (190)
Q Consensus       170 ~  170 (190)
                      +
T Consensus       250 ~  250 (332)
T COG2255         250 M  250 (332)
T ss_pred             H
Confidence            4

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

Probab=99.66  E-value=2e-15  Score=142.70  Aligned_cols=126  Identities=21%  Similarity=0.231  Sum_probs=104.9

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHHHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAII  109 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL  109 (190)
                      .++|||||||.|++..|++|++.+|++ ..++|.+|         |++  +.+.++++++|||.++.|+|++.+++..++
T Consensus       110 ~~IL~IDEIh~Ln~~qQdaLL~~lE~g-~IiLI~aT---------Ten--p~~~l~~aL~SR~~v~~l~pLs~edi~~IL  177 (725)
T PRK13341        110 RTILFIDEVHRFNKAQQDALLPWVENG-TITLIGAT---------TEN--PYFEVNKALVSRSRLFRLKSLSDEDLHQLL  177 (725)
T ss_pred             ceEEEEeChhhCCHHHHHHHHHHhcCc-eEEEEEec---------CCC--hHhhhhhHhhccccceecCCCCHHHHHHHH
Confidence            479999999999999999999999985 34555566         443  356788999999999999999999999999


Q ss_pred             HHHHH-------hcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCC--cccHHHHHHHH
Q psy18185        110 KLRAN-------TEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRT--AISKQDILEVS  168 (190)
Q Consensus       110 ~~~~~-------~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~--~It~~~V~~~~  168 (190)
                      ++.+.       .+++.++++++++|++. +.||+|.+++.|+.+...+...+..  .||.+.+++++
T Consensus       178 ~~~l~~~~~~~g~~~v~I~deaL~~La~~-s~GD~R~lln~Le~a~~~~~~~~~~~i~It~~~~~e~l  244 (725)
T PRK13341        178 KRALQDKERGYGDRKVDLEPEAEKHLVDV-ANGDARSLLNALELAVESTPPDEDGLIDITLAIAEESI  244 (725)
T ss_pred             HHHHHHHHhhcCCcccCCCHHHHHHHHHh-CCCCHHHHHHHHHHHHHhcccCCCCceeccHHHHHHHH
Confidence            99887       46789999999999999 6999999999999987544322222  38888888876

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.66  E-value=1.7e-15  Score=125.72  Aligned_cols=124  Identities=19%  Similarity=0.254  Sum_probs=103.2

Q ss_pred             eEEEEecCCCCCH------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCC---CChhHhhhh---hheecc
Q psy18185         31 GVLFIDEVHMLDL------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHG---IPLDLLDRL---LIIRTT   98 (190)
Q Consensus        31 ~Il~IDEi~~L~~------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~---l~~~l~SR~---~~i~~~   98 (190)
                      .+|||||+|.+..      ..|+.+++.+|.+. +.+|++++        .    +|..   +.++++|||   .+++++
T Consensus        99 dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~-~~li~ts~--------~----~p~~l~~~~~~L~SRl~~g~~~~l~  165 (235)
T PRK08084         99 SLVCIDNIECIAGDELWEMAIFDLYNRILESGR-TRLLITGD--------R----PPRQLNLGLPDLASRLDWGQIYKLQ  165 (235)
T ss_pred             CEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCC-CeEEEeCC--------C----ChHHcCcccHHHHHHHhCCceeeec
Confidence            6899999999953      34788888888653 45777774        1    4555   468999999   899999


Q ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         99 PYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        99 ~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      |++++++..+|++++...|+.++++++++|+++ ++||+|.+++.|+.+...+... ..+||++.++++++
T Consensus       166 ~~~~~~~~~~l~~~a~~~~~~l~~~v~~~L~~~-~~~d~r~l~~~l~~l~~~~l~~-~~~it~~~~k~~l~  234 (235)
T PRK08084        166 PLSDEEKLQALQLRARLRGFELPEDVGRFLLKR-LDREMRTLFMTLDQLDRASITA-QRKLTIPFVKEILK  234 (235)
T ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHh-hcCCHHHHHHHHHHHHHHHHhc-CCCCCHHHHHHHHc
Confidence            999999999999989889999999999999999 6999999999999976444333 34699999999875

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=99.65  E-value=9.5e-16  Score=132.72  Aligned_cols=98  Identities=14%  Similarity=0.189  Sum_probs=83.9

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      ..++|++||++|.|+.+++|+|+|++|+|+. ++||++|+             .+..++||++|||+.+.|.+++.+++.
T Consensus       112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~-------------~~~~lLpTIrSRCq~i~~~~~~~~~~~  178 (319)
T PRK08769        112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISA-------------QPARLPATIRSRCQRLEFKLPPAHEAL  178 (319)
T ss_pred             CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEEC-------------ChhhCchHHHhhheEeeCCCcCHHHHH
Confidence            3469999999999999999999999999877 67888884             378899999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLT  145 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~  145 (190)
                      ++|..    .|  ++++.+..++.. ++|.+..|+.++.
T Consensus       179 ~~L~~----~~--~~~~~a~~~~~l-~~G~p~~A~~~~~  210 (319)
T PRK08769        179 AWLLA----QG--VSERAAQEALDA-ARGHPGLAAQWLR  210 (319)
T ss_pred             HHHHH----cC--CChHHHHHHHHH-cCCCHHHHHHHhc
Confidence            99964    23  456656677888 6999988888773

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.64  E-value=7.7e-15  Score=130.92  Aligned_cols=123  Identities=28%  Similarity=0.376  Sum_probs=104.7

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHHHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAII  109 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL  109 (190)
                      .+||||||+|.++..+++.|++.+|++ ..++|++|         |++  +...++++++|||.++.|++++.+++..+|
T Consensus        93 ~~vL~IDEi~~l~~~~q~~LL~~le~~-~iilI~at---------t~n--~~~~l~~aL~SR~~~~~~~~ls~e~i~~lL  160 (413)
T PRK13342         93 RTILFIDEIHRFNKAQQDALLPHVEDG-TITLIGAT---------TEN--PSFEVNPALLSRAQVFELKPLSEEDIEQLL  160 (413)
T ss_pred             ceEEEEechhhhCHHHHHHHHHHhhcC-cEEEEEeC---------CCC--hhhhccHHHhccceeeEeCCCCHHHHHHHH
Confidence            479999999999999999999999985 34566666         443  356788999999999999999999999999


Q ss_pred             HHHHHh--cCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        110 KLRANT--EGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       110 ~~~~~~--~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      ...+..  .|+ .+++++++.+++. +.||+|.++++|+.+...     ...||.+++++++..
T Consensus       161 ~~~l~~~~~~~i~i~~~al~~l~~~-s~Gd~R~aln~Le~~~~~-----~~~It~~~v~~~~~~  218 (413)
T PRK13342        161 KRALEDKERGLVELDDEALDALARL-ANGDARRALNLLELAALG-----VDSITLELLEEALQK  218 (413)
T ss_pred             HHHHHHhhcCCCCCCHHHHHHHHHh-CCCCHHHHHHHHHHHHHc-----cCCCCHHHHHHHHhh
Confidence            988764  355 8999999999999 699999999999998753     346999999988753

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.64  E-value=5.8e-15  Score=127.80  Aligned_cols=128  Identities=27%  Similarity=0.304  Sum_probs=110.8

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC-------------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI-------------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLD   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~-------------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S   90 (190)
                      .+|+||||+|.++...++.|+..+|+..                   +..+|++|+             .+..++++++|
T Consensus       103 ~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~-------------~~~~l~~~L~s  169 (328)
T PRK00080        103 GDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATT-------------RAGLLTSPLRD  169 (328)
T ss_pred             CCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecC-------------CcccCCHHHHH
Confidence            4799999999999989999999888642                   124566663             25678889999


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      || ..+.|++|+.+++.++|++.+...++.++++++.+|+++ ++|++|.|.++|..+..++...+...||.++++.++.
T Consensus       170 Rf~~~~~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~-~~G~pR~a~~~l~~~~~~a~~~~~~~I~~~~v~~~l~  248 (328)
T PRK00080        170 RFGIVQRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARR-SRGTPRIANRLLRRVRDFAQVKGDGVITKEIADKALD  248 (328)
T ss_pred             hcCeeeecCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHH-cCCCchHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            98 578999999999999999999999999999999999999 7999999999999988888766677899999999986


Q ss_pred             hc
Q psy18185        170 LF  171 (190)
Q Consensus       170 ~f  171 (190)
                      .+
T Consensus       249 ~~  250 (328)
T PRK00080        249 ML  250 (328)
T ss_pred             Hh
Confidence            54

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.63  E-value=3.5e-15  Score=127.19  Aligned_cols=127  Identities=25%  Similarity=0.299  Sum_probs=108.4

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------------C-CEEEEEecCCcccccCCCCCCCCCCCChhHhh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------------A-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------------~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S   90 (190)
                      ..++||||+|.+++..++.|+.++++..                  + ..+|++|+             .+..++++++|
T Consensus        82 ~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~-------------~~~~l~~~l~s  148 (305)
T TIGR00635        82 GDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATT-------------RAGMLTSPLRD  148 (305)
T ss_pred             CCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecC-------------CccccCHHHHh
Confidence            4799999999999999999998887533                  1 24555553             25678889999


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      || ..+.|.+|+.+++.+++..++...++.++++++.+|++. ++|++|.+.++++.+...|...+...||.++|+.++.
T Consensus       149 R~~~~~~l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~-~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l~  227 (305)
T TIGR00635       149 RFGIILRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARR-SRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALE  227 (305)
T ss_pred             hcceEEEeCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHH-hCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence            99 567999999999999999999999999999999999999 7999999999999988777666667899999999886


Q ss_pred             h
Q psy18185        170 L  170 (190)
Q Consensus       170 ~  170 (190)
                      .
T Consensus       228 ~  228 (305)
T TIGR00635       228 M  228 (305)
T ss_pred             H
Confidence            5

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.

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=99.63  E-value=2.7e-15  Score=129.87  Aligned_cols=115  Identities=10%  Similarity=0.133  Sum_probs=91.2

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      .+-|++| ++.+.+......    ..++|++||++|.|+.+++|+|+|++|+|+. ++||++|+             .|.
T Consensus        88 I~vdqiR-~l~~~~~~~~~~----~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~-------------~~~  149 (319)
T PRK06090         88 ITVEQIR-QCNRLAQESSQL----NGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTH-------------NQK  149 (319)
T ss_pred             CCHHHHH-HHHHHHhhCccc----CCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEEC-------------Chh
Confidence            4567777 354444433333    3469999999999999999999999999987 78888884             388


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLT  145 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~  145 (190)
                      .++||++|||+.+.|++++++++.++|..    .|+.    ....++.. ++|++..|+.+++
T Consensus       150 ~lLpTI~SRCq~~~~~~~~~~~~~~~L~~----~~~~----~~~~~l~l-~~G~p~~A~~~~~  203 (319)
T PRK06090        150 RLLPTIVSRCQQWVVTPPSTAQAMQWLKG----QGIT----VPAYALKL-NMGSPLKTLAMMK  203 (319)
T ss_pred             hChHHHHhcceeEeCCCCCHHHHHHHHHH----cCCc----hHHHHHHH-cCCCHHHHHHHhC
Confidence            99999999999999999999999999964    3433    23456777 5899998988874

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.62  E-value=3.8e-15  Score=132.38  Aligned_cols=118  Identities=14%  Similarity=0.196  Sum_probs=93.5

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      ++-+++|+ +.+.+..    ......++|+||||+|.|+++++|+|++++|+|+. +.||++|+             .+.
T Consensus        97 i~i~~iR~-l~~~~~~----~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~-------------~~~  158 (394)
T PRK07940         97 IGVDEVRE-LVTIAAR----RPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAP-------------SPE  158 (394)
T ss_pred             CCHHHHHH-HHHHHHh----CcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEEC-------------ChH
Confidence            34566663 3333332    23333568999999999999999999999999876 67888773             278


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLT  145 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~  145 (190)
                      .++|+++|||+.+.|++++.+++.++|...   .|  ++++++..++.. ++|+++.|+.++.
T Consensus       159 ~llpTIrSRc~~i~f~~~~~~~i~~~L~~~---~~--~~~~~a~~la~~-s~G~~~~A~~l~~  215 (394)
T PRK07940        159 DVLPTIRSRCRHVALRTPSVEAVAEVLVRR---DG--VDPETARRAARA-SQGHIGRARRLAT  215 (394)
T ss_pred             HChHHHHhhCeEEECCCCCHHHHHHHHHHh---cC--CCHHHHHHHHHH-cCCCHHHHHHHhc
Confidence            899999999999999999999999999732   34  678889999999 6999999987763

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.62  E-value=3.2e-15  Score=119.37  Aligned_cols=93  Identities=16%  Similarity=0.231  Sum_probs=82.2

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      ..++|++|||+|.|+.++++.|++.+|+++. +.+|++|+             .+..++++++|||+++.|+|++.+|+.
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~-------------~~~~l~~~i~sr~~~~~~~~~~~~~~~  161 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITP-------------SPEKLLPTIRSRCQVLPFPPLSEEALL  161 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEEC-------------ChHhChHHHHhhcEEeeCCCCCHHHHH
Confidence            3568999999999999999999999999765 67777774             256889999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYV  140 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~a  140 (190)
                      ++|...    |  ++++++++++.. ++||+|.|
T Consensus       162 ~~l~~~----g--i~~~~~~~i~~~-~~g~~r~~  188 (188)
T TIGR00678       162 QWLIRQ----G--ISEEAAELLLAL-AGGSPGAA  188 (188)
T ss_pred             HHHHHc----C--CCHHHHHHHHHH-cCCCcccC
Confidence            999875    4  789999999999 69999975

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.

>PRK06620 hypothetical protein; Validated

Probab=99.62  E-value=1.5e-14  Score=118.70  Aligned_cols=123  Identities=11%  Similarity=0.105  Sum_probs=101.6

Q ss_pred             eEEEEecCCCCC-HHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh---heeccCCCHHHHH
Q psy18185         31 GVLFIDEVHMLD-LETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL---IIRTTPYNQKDME  106 (190)
Q Consensus        31 ~Il~IDEi~~L~-~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~---~i~~~~ls~~ei~  106 (190)
                      .+++|||+|.+. ...++.++.+.|.+.  .++++++        +.+  +...+ ++++||+.   ++.+++++++++.
T Consensus        87 d~lliDdi~~~~~~~lf~l~N~~~e~g~--~ilits~--------~~p--~~l~l-~~L~SRl~~gl~~~l~~pd~~~~~  153 (214)
T PRK06620         87 NAFIIEDIENWQEPALLHIFNIINEKQK--YLLLTSS--------DKS--RNFTL-PDLSSRIKSVLSILLNSPDDELIK  153 (214)
T ss_pred             CEEEEeccccchHHHHHHHHHHHHhcCC--EEEEEcC--------CCc--cccch-HHHHHHHhCCceEeeCCCCHHHHH
Confidence            699999999986 478888888888864  3555553        322  22335 89999986   9999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      .+++++++..|+.++++++++|+++ ++||+|.+++.|+.+...+...+ ..||.+.+++++
T Consensus       154 ~~l~k~~~~~~l~l~~ev~~~L~~~-~~~d~r~l~~~l~~l~~~~~~~~-~~it~~~~~~~l  213 (214)
T PRK06620        154 ILIFKHFSISSVTISRQIIDFLLVN-LPREYSKIIEILENINYFALISK-RKITISLVKEVL  213 (214)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHH-ccCCHHHHHHHHHHHHHHHHHcC-CCCCHHHHHHHh
Confidence            9999999889999999999999999 69999999999999876555444 479999999875

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.62  E-value=3.9e-15  Score=141.33  Aligned_cols=146  Identities=22%  Similarity=0.260  Sum_probs=115.5

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHhhccCC----CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh--heeccCCCHHH
Q psy18185         31 GVLFIDEVHMLDLETFTYLHRALESAIA----PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL--IIRTTPYNQKD  104 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~~~~L~~~~E~~~~----~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~--~i~~~~ls~~e  104 (190)
                      .||+|||+|.|....+..|+.+++.+..    ..+|+++|.       .+   .|..+.+.++|||.  .+.|+||+.+|
T Consensus       871 ~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNd-------lD---LperLdPRLRSRLg~eeIvF~PYTaEQ  940 (1164)
T PTZ00112        871 SILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNT-------MD---LPERLIPRCRSRLAFGRLVFSPYKGDE  940 (1164)
T ss_pred             eEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCc-------hh---cchhhhhhhhhccccccccCCCCCHHH
Confidence            5899999999987677778877775322    567777762       21   25567788999985  48999999999


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh-ccChH-HHHHH
Q psy18185        105 MEAIIKLRANTEGHVLDDEALVTLSEIG--TRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL-FLDAK-SSARI  180 (190)
Q Consensus       105 i~~iL~~~~~~~~~~i~~e~l~~i~~~a--~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~-f~~~~-~~~~~  180 (190)
                      +.+||..|++.....++++++++||+.+  ..||+|.||++|..|+..+   +...|+.++|++|... +.+.. .+++.
T Consensus       941 L~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgEik---egskVT~eHVrkAleeiE~srI~e~Ikt 1017 (1164)
T PTZ00112        941 IEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFENK---RGQKIVPRDITEATNQLFDSPLTNAINY 1017 (1164)
T ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHhhc---CCCccCHHHHHHHHHHHHhhhHHHHHHc
Confidence            9999999998654569999999999953  4699999999999998653   3458999999999844 55553 46999


Q ss_pred             hHHhhhhhc
Q psy18185        181 LTENKDKFM  189 (190)
Q Consensus       181 ~~~~~~~~~  189 (190)
                      +..+++.+|
T Consensus      1018 LPlHqKLVL 1026 (1164)
T PTZ00112       1018 LPWPFKMFL 1026 (1164)
T ss_pred             CCHHHHHHH
Confidence            999999876

>PRK08727 hypothetical protein; Validated

Probab=99.61  E-value=4.4e-14  Score=117.10  Aligned_cols=125  Identities=18%  Similarity=0.199  Sum_probs=99.0

Q ss_pred             eEEEEecCCCCC--HHHHHHHHHHhhcc--CCCEEEEEecCCcccccCCCCCCCCCCC---ChhHhhh---hhheeccCC
Q psy18185         31 GVLFIDEVHMLD--LETFTYLHRALESA--IAPIVIFATNRGRCLVRGTDDIISPHGI---PLDLLDR---LLIIRTTPY  100 (190)
Q Consensus        31 ~Il~IDEi~~L~--~~~~~~L~~~~E~~--~~~~iIlatn~~~~~~~~t~~~~~~~~l---~~~l~SR---~~~i~~~~l  100 (190)
                      .+|+|||+|.+.  .+.+..+..+++..  .+..+|+++|        .    +|..+   .++++||   |++++|+|+
T Consensus        95 dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~--------~----~p~~l~~~~~dL~SRl~~~~~~~l~~~  162 (233)
T PRK08727         95 SLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTAR--------Q----MPDGLALVLPDLRSRLAQCIRIGLPVL  162 (233)
T ss_pred             CEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECC--------C----ChhhhhhhhHHHHHHHhcCceEEecCC
Confidence            699999999995  33333444444321  1234777775        2    35555   6899999   899999999


Q ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        101 NQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       101 s~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +++++.++|+.++..+|+.++++++++|+++ ++||+|.++++|+.+...+...+ +.||.+.+++++.
T Consensus       163 ~~e~~~~iL~~~a~~~~l~l~~e~~~~La~~-~~rd~r~~l~~L~~l~~~~~~~~-~~it~~~~~~~l~  229 (233)
T PRK08727        163 DDVARAAVLRERAQRRGLALDEAAIDWLLTH-GERELAGLVALLDRLDRESLAAK-RRVTVPFLRRVLE  229 (233)
T ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHh-CCCCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHh
Confidence            9999999999999999999999999999999 69999999999998875554444 4799999998875

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=99.61  E-value=6.2e-15  Score=126.07  Aligned_cols=115  Identities=16%  Similarity=0.209  Sum_probs=89.0

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      +|-+++|+ +.+.+..    ...+..++|++||++|.|+.+++|+|+|++|+|+. ++||++|+             ++.
T Consensus        84 I~idqIR~-l~~~~~~----~p~~~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~-------------~~~  145 (290)
T PRK07276         84 IKTDTIRE-LVKNFSQ----SGYEGKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTN-------------DEN  145 (290)
T ss_pred             CCHHHHHH-HHHHHhh----CcccCCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEEC-------------Chh
Confidence            46677773 4444333    33334569999999999999999999999999987 78888884             378


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLT  145 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~  145 (190)
                      .++||++|||+.+.|++ +.+++.++|.    ++|  ++++....++..  .|++..|+.++.
T Consensus       146 ~lLpTI~SRcq~i~f~~-~~~~~~~~L~----~~g--~~~~~a~~la~~--~~s~~~A~~l~~  199 (290)
T PRK07276        146 KVLPTIKSRTQIFHFPK-NEAYLIQLLE----QKG--LLKTQAELLAKL--AQSTSEAEKLAQ  199 (290)
T ss_pred             hCchHHHHcceeeeCCC-cHHHHHHHHH----HcC--CChHHHHHHHHH--CCCHHHHHHHhC
Confidence            99999999999999977 7888887775    345  456666777766  457999988873

>PRK04195 replication factor C large subunit; Provisional

Probab=99.61  E-value=2.9e-14  Score=129.56  Aligned_cols=137  Identities=22%  Similarity=0.299  Sum_probs=108.2

Q ss_pred             HHHHHHHHHHHcCcccc-CCeEEEEecCCCCCH----HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCCh
Q psy18185         12 EINKVVNKYIDQGIAEL-VPGVLFIDEVHMLDL----ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPL   86 (190)
Q Consensus        12 ~I~~~v~~~~~~~~~~~-~~~Il~IDEi~~L~~----~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~   86 (190)
                      .|...+........... .++||+|||+|.|+.    ..++.|+++++.+..| +|+++|        .     +..+++
T Consensus        80 ~i~~~i~~~~~~~sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~~~~~-iIli~n--------~-----~~~~~~  145 (482)
T PRK04195         80 VIERVAGEAATSGSLFGARRKLILLDEVDGIHGNEDRGGARAILELIKKAKQP-IILTAN--------D-----PYDPSL  145 (482)
T ss_pred             HHHHHHHHhhccCcccCCCCeEEEEecCcccccccchhHHHHHHHHHHcCCCC-EEEecc--------C-----ccccch
Confidence            44455554433322221 468999999999976    6789999999976555 556664        1     445555


Q ss_pred             -hHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHH
Q psy18185         87 -DLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDIL  165 (190)
Q Consensus        87 -~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~  165 (190)
                       ++++||..+.|++++.+++..+|+.++..+|+.+++++++.|++. ++||+|.|++.|+.++     .|.+.||.+++.
T Consensus       146 k~Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi~i~~eaL~~Ia~~-s~GDlR~ain~Lq~~a-----~~~~~it~~~v~  219 (482)
T PRK04195        146 RELRNACLMIEFKRLSTRSIVPVLKRICRKEGIECDDEALKEIAER-SGGDLRSAINDLQAIA-----EGYGKLTLEDVK  219 (482)
T ss_pred             hhHhccceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHh-----cCCCCCcHHHHH
Confidence             899999999999999999999999999999999999999999999 6999999999998743     355678888887


Q ss_pred             HHH
Q psy18185        166 EVS  168 (190)
Q Consensus       166 ~~~  168 (190)
                      .+.
T Consensus       220 ~~~  222 (482)
T PRK04195        220 TLG  222 (482)
T ss_pred             Hhh
Confidence            654

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=99.60  E-value=6.6e-15  Score=128.58  Aligned_cols=114  Identities=14%  Similarity=0.139  Sum_probs=88.9

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      ++-|++| ++.+.+..    ...+..++|+|||++|.|+.+++|+|+|++|+|+. ++||++|+             .|.
T Consensus       112 I~idqiR-~l~~~~~~----~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~-------------~~~  173 (342)
T PRK06964        112 IKIEQVR-ALLDFCGV----GTHRGGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSA-------------RID  173 (342)
T ss_pred             cCHHHHH-HHHHHhcc----CCccCCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEEC-------------Chh
Confidence            4556777 34444333    33334569999999999999999999999999887 78888884             388


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLL  144 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL  144 (190)
                      .++||++|||+.+.|+|++.+++.++|...    |  +++.  +.++.. ++|++..|+.++
T Consensus       174 ~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~----~--~~~~--~~~l~~-~~Gsp~~Al~~~  226 (342)
T PRK06964        174 RLLPTILSRCRQFPMTVPAPEAAAAWLAAQ----G--VADA--DALLAE-AGGAPLAALALA  226 (342)
T ss_pred             hCcHHHHhcCEEEEecCCCHHHHHHHHHHc----C--CChH--HHHHHH-cCCCHHHHHHHH
Confidence            999999999999999999999999999753    3  3332  334666 589998888776

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.59  E-value=1.2e-14  Score=127.99  Aligned_cols=118  Identities=17%  Similarity=0.245  Sum_probs=93.7

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +-+++| ++.+.    +........++|++|||+|.|+.+++|+|++++|+++. ++||++|+             .++.
T Consensus       122 ~VdqiR-~l~~~----~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~~~IL~t~-------------~~~~  183 (365)
T PRK07471        122 TVDEVR-ELISF----FGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSH-------------APAR  183 (365)
T ss_pred             cHHHHH-HHHHH----hCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEEEEEEC-------------Cchh
Confidence            345665 23333    33333334568999999999999999999999999875 77888885             2677


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLT  145 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~  145 (190)
                      ++++++|||+.++|+|++.+++.++|....    ...+++.+..++.. ++|+++.|+.+++
T Consensus       184 llpti~SRc~~i~l~~l~~~~i~~~L~~~~----~~~~~~~~~~l~~~-s~Gsp~~Al~ll~  240 (365)
T PRK07471        184 LLPTIRSRCRKLRLRPLAPEDVIDALAAAG----PDLPDDPRAALAAL-AEGSVGRALRLAG  240 (365)
T ss_pred             chHHhhccceEEECCCCCHHHHHHHHHHhc----ccCCHHHHHHHHHH-cCCCHHHHHHHhc
Confidence            899999999999999999999999997642    34556666888888 6999999999985

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=99.59  E-value=1.5e-14  Score=124.53  Aligned_cols=118  Identities=16%  Similarity=0.173  Sum_probs=93.4

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      ++.+++|+-+ +.+..    ......++|++||++|.|+.+++|+|++++|+|+. +.||++|+             .|.
T Consensus        73 i~v~~ir~~~-~~~~~----~p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~-------------~~~  134 (313)
T PRK05564         73 IGVDDIRNII-EEVNK----KPYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCE-------------NLE  134 (313)
T ss_pred             CCHHHHHHHH-HHHhc----CcccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeC-------------ChH
Confidence            4567777433 33333    23334569999999999999999999999999876 67777773             277


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLL  144 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL  144 (190)
                      .+++|++|||+.+.|++++++++..+|.....    .++++++..++.. ++|++..|...+
T Consensus       135 ~ll~TI~SRc~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~~~l~~~-~~g~~~~a~~~~  191 (313)
T PRK05564        135 QILDTIKSRCQIYKLNRLSKEEIEKFISYKYN----DIKEEEKKSAIAF-SDGIPGKVEKFI  191 (313)
T ss_pred             hCcHHHHhhceeeeCCCcCHHHHHHHHHHHhc----CCCHHHHHHHHHH-cCCCHHHHHHHh
Confidence            89999999999999999999999999976542    4678889989888 588888776554

>PRK14700 recombination factor protein RarA; Provisional

Probab=99.58  E-value=6.6e-15  Score=125.57  Aligned_cols=104  Identities=19%  Similarity=0.224  Sum_probs=87.2

Q ss_pred             HhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHHHHHHHHHhc------CCCCCHHHH
Q psy18185         52 ALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTE------GHVLDDEAL  125 (190)
Q Consensus        52 ~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~------~~~i~~e~l  125 (190)
                      .+|++ ..++|+||         |||  |.+.+.++|+|||++|+|+|++.+++..+|++....+      ++.++++++
T Consensus         3 ~vE~G-~i~LIGAT---------TEN--P~f~vn~ALlSR~~v~~l~~L~~~di~~il~ral~~~~~~~~~~~~i~~~al   70 (300)
T PRK14700          3 YVESG-KIILIGAT---------TEN--PTYYLNDALVSRLFILRLKRLSLVATQKLIEKALSQDEVLAKHKFKIDDGLY   70 (300)
T ss_pred             CccCC-cEEEEeec---------CCC--ccceecHhhhhhhheeeecCCCHHHHHHHHHHHHHhhhccCCcCCCcCHHHH
Confidence            45664 47889999         888  5899999999999999999999999999999988642      368999999


Q ss_pred             HHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185        126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       126 ~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      ++|+.. ++||.|.|+|+|+.+...+...+...||.+.|++++
T Consensus        71 ~~ia~~-a~GDaR~aLN~LE~a~~~~~~~~~~~it~~~~~~~~  112 (300)
T PRK14700         71 NAMHNY-NEGDCRKILNLLERMFLISTRGDEIYLNKELFDQAV  112 (300)
T ss_pred             HHHHHh-cCCHHHHHHHHHHHHHhhccccCCCccCHHHHHHHH
Confidence            999999 699999999999997753322222359999999877

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=99.57  E-value=1.5e-14  Score=125.59  Aligned_cols=98  Identities=16%  Similarity=0.239  Sum_probs=83.3

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      ..++|++|||+|.|+.+++|+|++++|+|+. +.||++|+             .+..++++++|||+.++|+|++++++.
T Consensus       109 ~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~-------------~~~~ll~TIrSRc~~i~~~~~~~~~~~  175 (329)
T PRK08058        109 SNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTE-------------NKHQILPTILSRCQVVEFRPLPPESLI  175 (329)
T ss_pred             cCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeC-------------ChHhCcHHHHhhceeeeCCCCCHHHHH
Confidence            3569999999999999999999999999877 67888883             377999999999999999999999998


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTP  146 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~  146 (190)
                      ++|..    +|  ++++...+++..  .|+++.|+.+++.
T Consensus       176 ~~L~~----~g--i~~~~~~~l~~~--~g~~~~A~~l~~~  207 (329)
T PRK08058        176 QRLQE----EG--ISESLATLLAGL--TNSVEEALALSED  207 (329)
T ss_pred             HHHHH----cC--CChHHHHHHHHH--cCCHHHHHHHhcC
Confidence            88863    45  567777777776  4789999988753

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=99.57  E-value=2.6e-14  Score=120.20  Aligned_cols=138  Identities=15%  Similarity=0.154  Sum_probs=96.6

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      .+.+++|+ +.+.+.....++   ..++|++||++|.|+.+++|+|+|++|+|+. ++||+.|+             .+.
T Consensus        67 I~id~ir~-l~~~l~~~s~e~---~~~KV~II~~ae~m~~~AaNaLLK~LEEPp~~t~fiLit~-------------~~~  129 (261)
T PRK05818         67 IKKEDALS-IINKLNRPSVES---NGKKIYIIYGIEKLNKQSANSLLKLIEEPPKNTYGIFTTR-------------NEN  129 (261)
T ss_pred             CCHHHHHH-HHHHHccCchhc---CCCEEEEeccHhhhCHHHHHHHHHhhcCCCCCeEEEEEEC-------------ChH
Confidence            56677773 443333211111   2369999999999999999999999999887 78888884             378


Q ss_pred             CCChhHhhhhhheeccCC----------CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhh
Q psy18185         83 GIPLDLLDRLLIIRTTPY----------NQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAK  152 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~l----------s~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~  152 (190)
                      .++||++|||+.+.|+++          +++++.+.|...   .+  +++    .++.. ++|++..|+.+++...    
T Consensus       130 ~lLpTI~SRCq~~~~~~~~~~~~~~~~~~~~~i~~~L~~~---~~--~d~----~i~~~-a~g~~~~a~~l~~~l~----  195 (261)
T PRK05818        130 NILNTILSRCVQYVVLSKEKKVPFKVESNDRYFQYILLSF---YS--VDE----QLQAY-NNGSFSKLKNIIETLI----  195 (261)
T ss_pred             hCchHhhhheeeeecCChhhhcccccccChHHHHHHHHHc---cC--ccH----HHHHH-cCCCHHHHHHHHHHHH----
Confidence            999999999999999998          666777666533   22  444    45555 6999999999998431    


Q ss_pred             hcCCCcccHHHHHHHHHhccChH
Q psy18185        153 TNGRTAISKQDILEVSTLFLDAK  175 (190)
Q Consensus       153 ~~g~~~It~~~V~~~~~~f~~~~  175 (190)
                      ......++   |.++..+|.++.
T Consensus       196 n~~~~~~~---v~kl~~~~~~~~  215 (261)
T PRK05818        196 NKKNKLIQ---IHKAWILFKTFS  215 (261)
T ss_pred             cccccHHH---HHHHHHHHHhhh
Confidence            12222344   455555555544

>PRK06893 DNA replication initiation factor; Validated

Probab=99.56  E-value=1e-13  Score=114.54  Aligned_cols=126  Identities=17%  Similarity=0.248  Sum_probs=98.8

Q ss_pred             CeEEEEecCCCCCH------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCC---ChhHhhhhh---heec
Q psy18185         30 PGVLFIDEVHMLDL------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGI---PLDLLDRLL---IIRT   97 (190)
Q Consensus        30 ~~Il~IDEi~~L~~------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l---~~~l~SR~~---~i~~   97 (190)
                      ..+|+|||+|.+..      ..++.+++..+.+ ++++|++++        .    +|..+   .++++|||.   ++++
T Consensus        92 ~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~-~~illits~--------~----~p~~l~~~~~~L~sRl~~g~~~~l  158 (229)
T PRK06893         92 QDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQG-KTLLLISAD--------C----SPHALSIKLPDLASRLTWGEIYQL  158 (229)
T ss_pred             CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcC-CcEEEEeCC--------C----ChHHccccchhHHHHHhcCCeeeC
Confidence            37999999999852      3445555555543 344555564        2    24444   389999985   8999


Q ss_pred             cCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185         98 TPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus        98 ~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      +++++++...+|++.+...++.++++++++|+++ ++||+|.+++.|+.....+...++ .||++.|++++++
T Consensus       159 ~~pd~e~~~~iL~~~a~~~~l~l~~~v~~~L~~~-~~~d~r~l~~~l~~l~~~~~~~~~-~it~~~v~~~L~~  229 (229)
T PRK06893        159 NDLTDEQKIIVLQRNAYQRGIELSDEVANFLLKR-LDRDMHTLFDALDLLDKASLQAQR-KLTIPFVKEILGL  229 (229)
T ss_pred             CCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHh-ccCCHHHHHHHHHHHHHHHHhcCC-CCCHHHHHHHhcC
Confidence            9999999999999999999999999999999999 699999999999988644443344 7999999998753

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.55  E-value=1.8e-13  Score=120.46  Aligned_cols=149  Identities=19%  Similarity=0.193  Sum_probs=115.9

Q ss_pred             eEEEEecCCCCC----HHHHHHHHHHhhccCC--CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hheeccCCCH
Q psy18185         31 GVLFIDEVHMLD----LETFTYLHRALESAIA--PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LIIRTTPYNQ  102 (190)
Q Consensus        31 ~Il~IDEi~~L~----~~~~~~L~~~~E~~~~--~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i~~~~ls~  102 (190)
                      .||+|||+|.+.    .+..+.|.+..+....  ..+|+++|.       . +  .+..+.+.++||+  ..+.|+||+.
T Consensus       140 ~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~-------~-~--~~~~l~~~~~s~~~~~~i~f~py~~  209 (394)
T PRK00411        140 LIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSD-------L-T--FLYILDPRVKSVFRPEEIYFPPYTA  209 (394)
T ss_pred             EEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECC-------c-c--hhhhcCHHHHhcCCcceeecCCCCH
Confidence            688999999996    4667777777765433  457777752       1 1  2344667788887  5789999999


Q ss_pred             HHHHHHHHHHHHhc--CCCCCHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhccC-h-HH
Q psy18185        103 KDMEAIIKLRANTE--GHVLDDEALVTLSEIG--TRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLD-A-KS  176 (190)
Q Consensus       103 ~ei~~iL~~~~~~~--~~~i~~e~l~~i~~~a--~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~~-~-~~  176 (190)
                      +|+.++|+.+++..  +..+++++++.+++.+  ..||+|.|+++|..|...|..+|...||.++|.++...... . ..
T Consensus       210 ~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~~~~~~~~  289 (394)
T PRK00411        210 DEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKSEIVHLSE  289 (394)
T ss_pred             HHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHHHHHHHH
Confidence            99999999998652  3368999999999983  16999999999999998888888889999999999965422 2 23


Q ss_pred             HHHHhHHhhhhhc
Q psy18185        177 SARILTENKDKFM  189 (190)
Q Consensus       177 ~~~~~~~~~~~~~  189 (190)
                      .++.++.+++.|+
T Consensus       290 ~~~~L~~~~k~~L  302 (394)
T PRK00411        290 VLRTLPLHEKLLL  302 (394)
T ss_pred             HHhcCCHHHHHHH
Confidence            5888899988876

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=99.55  E-value=5.5e-14  Score=120.14  Aligned_cols=101  Identities=17%  Similarity=0.218  Sum_probs=78.8

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      .+-+++| ++.+.+...    ..+..++|++||++|.|+.+++|+|+|++|+|+. ++||++|+             ++.
T Consensus        75 I~idqiR-~l~~~~~~~----p~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~-------------~~~  136 (290)
T PRK05917         75 HSIETPR-AIKKQIWIH----PYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSA-------------KPQ  136 (290)
T ss_pred             CcHHHHH-HHHHHHhhC----ccCCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeC-------------Chh
Confidence            4566776 344444443    3444569999999999999999999999999887 78888884             388


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLR  138 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR  138 (190)
                      .++||++|||+.++|+|+.               ...++++.+..++.. +.|+++
T Consensus       137 ~ll~TI~SRcq~~~~~~~~---------------~~~i~~~~~~~l~~~-~~g~~~  176 (290)
T PRK05917        137 RLPPTIRSRSLSIHIPMEE---------------KTLVSKEDIAYLIGY-AQGKES  176 (290)
T ss_pred             hCcHHHHhcceEEEccchh---------------ccCCCHHHHHHHHHH-hCCChh
Confidence            9999999999999999861               114678888888888 588774

>PRK05642 DNA replication initiation factor; Validated

Probab=99.53  E-value=5.2e-13  Score=110.79  Aligned_cols=126  Identities=17%  Similarity=0.177  Sum_probs=98.9

Q ss_pred             eEEEEecCCCCCH------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh---hheeccCCC
Q psy18185         31 GVLFIDEVHMLDL------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL---LIIRTTPYN  101 (190)
Q Consensus        31 ~Il~IDEi~~L~~------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~---~~i~~~~ls  101 (190)
                      .+|+|||+|.+..      +.++.++...|.+.  .+|++++        +. +.......++++||+   .++++++++
T Consensus        99 d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~--~ilits~--------~~-p~~l~~~~~~L~SRl~~gl~~~l~~~~  167 (234)
T PRK05642         99 ELVCLDDLDVIAGKADWEEALFHLFNRLRDSGR--RLLLAAS--------KS-PRELPIKLPDLKSRLTLALVFQMRGLS  167 (234)
T ss_pred             CEEEEechhhhcCChHHHHHHHHHHHHHHhcCC--EEEEeCC--------CC-HHHcCccCccHHHHHhcCeeeecCCCC
Confidence            6899999998842      35566666666543  3666664        32 111222358999998   899999999


Q ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        102 QKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       102 ~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +++...+|+.++...|+.++++++++|+++ ++||+|.+.+.|+.....+...+ +.||++.++++++
T Consensus       168 ~e~~~~il~~ka~~~~~~l~~ev~~~L~~~-~~~d~r~l~~~l~~l~~~~l~~~-~~it~~~~~~~L~  233 (234)
T PRK05642        168 DEDKLRALQLRASRRGLHLTDEVGHFILTR-GTRSMSALFDLLERLDQASLQAQ-RKLTIPFLKETLG  233 (234)
T ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHh-cCCCHHHHHHHHHHHHHHHHHcC-CcCCHHHHHHHhc
Confidence            999999999889888999999999999999 69999999999998876554433 5799999999875

>PRK09087 hypothetical protein; Validated

Probab=99.52  E-value=3.9e-13  Score=111.22  Aligned_cols=127  Identities=13%  Similarity=0.105  Sum_probs=103.3

Q ss_pred             eEEEEecCCCCC---HHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCC-CChhHhhhh---hheeccCCCHH
Q psy18185         31 GVLFIDEVHMLD---LETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHG-IPLDLLDRL---LIIRTTPYNQK  103 (190)
Q Consensus        31 ~Il~IDEi~~L~---~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~-l~~~l~SR~---~~i~~~~ls~~  103 (190)
                      ++|+|||+|.+.   .+.++.++.+.|.+.  .+|++++        +.+  +... ..++++|||   .++++++++++
T Consensus        89 ~~l~iDDi~~~~~~~~~lf~l~n~~~~~g~--~ilits~--------~~p--~~~~~~~~dL~SRl~~gl~~~l~~pd~e  156 (226)
T PRK09087         89 GPVLIEDIDAGGFDETGLFHLINSVRQAGT--SLLMTSR--------LWP--SSWNVKLPDLKSRLKAATVVEIGEPDDA  156 (226)
T ss_pred             CeEEEECCCCCCCCHHHHHHHHHHHHhCCC--eEEEECC--------CCh--HHhccccccHHHHHhCCceeecCCCCHH
Confidence            689999999984   367777778887753  3666664        321  1122 357899998   89999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhc
Q psy18185        104 DMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLF  171 (190)
Q Consensus       104 ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f  171 (190)
                      ++..+|+++++..|+.++++++++|+++ +.||+|.++..|..+...+...+ .+||++.++++++.+
T Consensus       157 ~~~~iL~~~~~~~~~~l~~ev~~~La~~-~~r~~~~l~~~l~~L~~~~~~~~-~~it~~~~~~~l~~~  222 (226)
T PRK09087        157 LLSQVIFKLFADRQLYVDPHVVYYLVSR-MERSLFAAQTIVDRLDRLALERK-SRITRALAAEVLNEM  222 (226)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHH-hhhhHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHhh
Confidence            9999999999999999999999999999 69999999998888876665544 479999999999765

>KOG0990|consensus

Probab=99.50  E-value=1e-13  Score=118.80  Aligned_cols=107  Identities=16%  Similarity=0.177  Sum_probs=98.6

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .++.+|+||+|.++.++||+|.|.+|.... ..|++.+|             +|..+.|+++|||+.++|.|++.++...
T Consensus       131 ~fKlvILDEADaMT~~AQnALRRviek~t~n~rF~ii~n-------------~~~ki~pa~qsRctrfrf~pl~~~~~~~  197 (360)
T KOG0990|consen  131 AFKLVILDEADAMTRDAQNALRRVIEKYTANTRFATISN-------------PPQKIHPAQQSRCTRFRFAPLTMAQQTE  197 (360)
T ss_pred             ceeEEEecchhHhhHHHHHHHHHHHHHhccceEEEEecc-------------ChhhcCchhhcccccCCCCCCChhhhhh
Confidence            579999999999999999999999998765 67777775             4888999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAAL  149 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~  149 (190)
                      .+..+++.+..++++++...++.. +.||+|.|+|.|+...-
T Consensus       198 r~shi~e~e~~~~~~~~~~a~~r~-s~gDmr~a~n~Lqs~~~  238 (360)
T KOG0990|consen  198 RQSHIRESEQKETNPEGYSALGRL-SVGDMRVALNYLQSILK  238 (360)
T ss_pred             HHHHHHhcchhhcCHHHHHHHHHH-hHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999 89999999999998763

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=99.49  E-value=2.3e-13  Score=116.95  Aligned_cols=96  Identities=10%  Similarity=0.132  Sum_probs=82.2

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .++|++||++|.|+.+++|+|++++|+||. +++|++|+             .+..+++|++|||++++|.|++++++.+
T Consensus        90 ~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~-------------~~~kll~TI~SRc~~~~f~~l~~~~l~~  156 (299)
T PRK07132         90 QKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTK-------------NINKVLPTIVSRCQVFNVKEPDQQKILA  156 (299)
T ss_pred             CceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeC-------------ChHhChHHHHhCeEEEECCCCCHHHHHH
Confidence            469999999999999999999999999887 67777773             2688999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLT  145 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~  145 (190)
                      +|...    |  ++++....++.. ++ ++..|+.++.
T Consensus       157 ~l~~~----~--~~~~~a~~~a~~-~~-~~~~a~~~~~  186 (299)
T PRK07132        157 KLLSK----N--KEKEYNWFYAYI-FS-NFEQAEKYIN  186 (299)
T ss_pred             HHHHc----C--CChhHHHHHHHH-cC-CHHHHHHHHh
Confidence            98743    3  678888888888 35 5988888764

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.49  E-value=8.7e-13  Score=114.84  Aligned_cols=150  Identities=19%  Similarity=0.215  Sum_probs=110.1

Q ss_pred             CeEEEEecCCCCCH---HHHHHHHHHh--hccC--CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hheeccCC
Q psy18185         30 PGVLFIDEVHMLDL---ETFTYLHRAL--ESAI--APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LIIRTTPY  100 (190)
Q Consensus        30 ~~Il~IDEi~~L~~---~~~~~L~~~~--E~~~--~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i~~~~l  100 (190)
                      +.||+|||+|.|..   +..+.|.+..  +..+  ...+|+++|.          +..+..+.+.+.||+  ..+.|+||
T Consensus       130 ~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n~----------~~~~~~l~~~~~s~~~~~~i~f~p~  199 (365)
T TIGR02928       130 SLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISND----------LKFRENLDPRVKSSLCEEEIIFPPY  199 (365)
T ss_pred             eEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEECC----------cchHhhcCHHHhccCCcceeeeCCC
Confidence            36899999999943   4455566652  2222  2467777752          111235677888998  46899999


Q ss_pred             CHHHHHHHHHHHHHh--cCCCCCHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhcc-Ch-
Q psy18185        101 NQKDMEAIIKLRANT--EGHVLDDEALVTLSEIG--TRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFL-DA-  174 (190)
Q Consensus       101 s~~ei~~iL~~~~~~--~~~~i~~e~l~~i~~~a--~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~-~~-  174 (190)
                      +.+|+.++|+.+++.  .+..++++++++++..+  +.||+|.|+++|..|...|..++...||.++|..+..... +. 
T Consensus       200 ~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~~~~~~  279 (365)
T TIGR02928       200 DAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEKIEKDRL  279 (365)
T ss_pred             CHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHH
Confidence            999999999999863  23358999999887763  3699999999999999888888888999999999885542 22 


Q ss_pred             HHHHHHhHHhhhhhc
Q psy18185        175 KSSARILTENKDKFM  189 (190)
Q Consensus       175 ~~~~~~~~~~~~~~~  189 (190)
                      ...++.++.+++.++
T Consensus       280 ~~~i~~l~~~~~~~l  294 (365)
T TIGR02928       280 LELIRGLPTHSKLVL  294 (365)
T ss_pred             HHHHHcCCHHHHHHH
Confidence            234777777777554

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.

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.47  E-value=2.4e-12  Score=110.22  Aligned_cols=118  Identities=21%  Similarity=0.161  Sum_probs=94.4

Q ss_pred             CCeEEEEecCCCC-CHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         29 VPGVLFIDEVHML-DLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        29 ~~~Il~IDEi~~L-~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      .++|++|||+|.+ ..++++.|.+++|+++. ..+|++||             .+..++++++|||..+.|++++.++..
T Consensus       100 ~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n-------------~~~~l~~~l~sR~~~i~~~~p~~~~~~  166 (316)
T PHA02544        100 GGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITAN-------------NKNGIIEPLRSRCRVIDFGVPTKEEQI  166 (316)
T ss_pred             CCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcC-------------ChhhchHHHHhhceEEEeCCCCHHHHH
Confidence            4689999999999 77888999999998655 56777774             256788999999999999999998877


Q ss_pred             HHHH-------HHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHH
Q psy18185        107 AIIK-------LRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILE  166 (190)
Q Consensus       107 ~iL~-------~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~  166 (190)
                      +++.       .++.++|+.++++++..+++. +.||+|.+++.|+....      ...|+.+++..
T Consensus       167 ~il~~~~~~~~~~~~~~~~~i~~~al~~l~~~-~~~d~r~~l~~l~~~~~------~~~i~~~~l~~  226 (316)
T PHA02544        167 EMMKQMIVRCKGILEAEGVEVDMKVLAALVKK-NFPDFRRTINELQRYAS------TGKIDAGILSE  226 (316)
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh-cCCCHHHHHHHHHHHHc------cCCCCHHHHHH
Confidence            5543       345568999999999999999 69999999999986642      13566655443

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

Probab=99.46  E-value=9.2e-14  Score=118.37  Aligned_cols=116  Identities=22%  Similarity=0.234  Sum_probs=89.7

Q ss_pred             HHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChh
Q psy18185          9 LRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLD   87 (190)
Q Consensus         9 ~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~   87 (190)
                      .+++|.+..... ........++|++|||+|.|+.+++++|++++|+++. ..||++||             .|..+.++
T Consensus        90 ~~~~vr~~~~~~-~~~~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n-------------~~~~il~t  155 (325)
T COG0470          90 IVEQVRELAEFL-SESPLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITN-------------DPSKILPT  155 (325)
T ss_pred             hHHHHHHHHHHh-ccCCCCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcC-------------Chhhccch
Confidence            445555555543 3333334579999999999999999999999999877 67888885             37889999


Q ss_pred             HhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHH
Q psy18185         88 LLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALT  150 (190)
Q Consensus        88 l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~  150 (190)
                      ++|||+.++|+|.+.      +..++..+     ++++..++.. ++||+|.+++.|+.....
T Consensus       156 I~SRc~~i~f~~~~~------~~~i~~~e-----~~~l~~i~~~-~~gd~r~~i~~lq~~~~~  206 (325)
T COG0470         156 IRSRCQRIRFKPPSR------LEAIAWLE-----DQGLEEIAAV-AEGDARKAINPLQALAAL  206 (325)
T ss_pred             hhhcceeeecCCchH------HHHHHHhh-----ccchhHHHHH-HHHHHHcCCCHHHHHHHh
Confidence            999999999999433      33333333     6788888888 699999999999988754

>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=99.46  E-value=1e-13  Score=109.02  Aligned_cols=80  Identities=28%  Similarity=0.378  Sum_probs=57.7

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      ++-+++|    +++. +.........++|++|||+|.|+.+++|+|+|++|+|+. +.||++|+             .+.
T Consensus        82 i~i~~ir----~i~~-~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~-------------~~~  143 (162)
T PF13177_consen   82 IKIDQIR----EIIE-FLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITN-------------NPS  143 (162)
T ss_dssp             BSHHHHH----HHHH-HCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES--------------GG
T ss_pred             hhHHHHH----HHHH-HHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEEC-------------ChH
Confidence            3456666    3322 233444445679999999999999999999999999977 78888884             378


Q ss_pred             CCChhHhhhhhheeccCCC
Q psy18185         83 GIPLDLLDRLLIIRTTPYN  101 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls  101 (190)
                      .+++|++|||+.++|+|+|
T Consensus       144 ~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  144 KILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             GS-HHHHTTSEEEEE----
T ss_pred             HChHHHHhhceEEecCCCC
Confidence            9999999999999999975

...

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.45  E-value=3.4e-12  Score=104.66  Aligned_cols=128  Identities=20%  Similarity=0.161  Sum_probs=102.9

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhcc---CCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh---hheeccCCCHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESA---IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL---LIIRTTPYNQK  103 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~---~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~---~~i~~~~ls~~  103 (190)
                      .++++|||+|.++...+..|..+++..   ..+.++++++         ..+ ....+.++++||+   ..++++|++++
T Consensus        91 ~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~---------~~~-~~~~l~~~L~sr~~~~~~i~l~pl~~~  160 (227)
T PRK08903         91 AELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGP---------AAP-LALPLREDLRTRLGWGLVYELKPLSDA  160 (227)
T ss_pred             CCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCC---------CCH-HhCCCCHHHHHHHhcCeEEEecCCCHH
Confidence            479999999999988888888888642   1234555552         111 1223558899996   78999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        104 DMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       104 ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +...+|...+...|+.++++++.+|+++ +.||+|.+.++|+....++...+ ..||.+.|++++.
T Consensus       161 ~~~~~l~~~~~~~~v~l~~~al~~L~~~-~~gn~~~l~~~l~~l~~~~~~~~-~~i~~~~~~~~l~  224 (227)
T PRK08903        161 DKIAALKAAAAERGLQLADEVPDYLLTH-FRRDMPSLMALLDALDRYSLEQK-RPVTLPLLREMLA  224 (227)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHh-ccCCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHh
Confidence            9999999888889999999999999998 89999999999999877665544 5899999999875

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=99.44  E-value=1.1e-12  Score=109.16  Aligned_cols=123  Identities=12%  Similarity=0.146  Sum_probs=92.1

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      .+-+++| ++.+.+.....+|    .++|++||++|.|+.+++|+|+|++|+|+. +.||+.|+             .+.
T Consensus        69 I~IdqIR-eL~~~l~~~p~~g----~~KViII~~ae~mt~~AANALLKtLEEPP~~t~fILit~-------------~~~  130 (263)
T PRK06581         69 ISIEQIR-KLQDFLSKTSAIS----GYKVAIIYSAELMNLNAANSCLKILEDAPKNSYIFLITS-------------RAA  130 (263)
T ss_pred             ccHHHHH-HHHHHHhhCcccC----CcEEEEEechHHhCHHHHHHHHHhhcCCCCCeEEEEEeC-------------Chh
Confidence            5678888 3555555444444    459999999999999999999999999887 67788773             378


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAA  148 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~  148 (190)
                      .++||++|||+.+.|+..++.+...+...-+.-   -.++.-+++|.+. ..-|....+...+.+.
T Consensus       131 ~LLpTIrSRCq~i~~~~p~~~~~~e~~~~~~~p---~~~~~~l~~i~~~-~~~d~~~w~~~~~~~~  192 (263)
T PRK06581        131 SIISTIRSRCFKINVRSSILHAYNELYSQFIQP---IADNKTLDFINRF-TTKDRELWLDFIDNLL  192 (263)
T ss_pred             hCchhHhhceEEEeCCCCCHHHHHHHHHHhccc---ccccHHHHHHHHH-hhhhHHHHHHHHHHHH
Confidence            999999999999999999997777666543321   2455668888888 4556655555555544

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

Probab=99.43  E-value=1.7e-12  Score=114.46  Aligned_cols=149  Identities=19%  Similarity=0.242  Sum_probs=110.7

Q ss_pred             eEEEEecCCCCCHH---HHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh--heeccCCCHHH
Q psy18185         31 GVLFIDEVHMLDLE---TFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL--IIRTTPYNQKD  104 (190)
Q Consensus        31 ~Il~IDEi~~L~~~---~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~--~i~~~~ls~~e  104 (190)
                      -|++|||+|.|...   ..+.|.+..+.... ..+|+.+|        +.+  -...+.+.++|+..  .+.|+||+.+|
T Consensus       125 ~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n--------~~~--~~~~ld~rv~s~l~~~~I~F~pY~a~e  194 (366)
T COG1474         125 VIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSN--------DDK--FLDYLDPRVKSSLGPSEIVFPPYTAEE  194 (366)
T ss_pred             EEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEec--------cHH--HHHHhhhhhhhccCcceeeeCCCCHHH
Confidence            58889999999654   55566666555522 45666665        211  13445677888863  47799999999


Q ss_pred             HHHHHHHHHHh--cCCCCCHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhcc-ChH-HHH
Q psy18185        105 MEAIIKLRANT--EGHVLDDEALVTLSEIG--TRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFL-DAK-SSA  178 (190)
Q Consensus       105 i~~iL~~~~~~--~~~~i~~e~l~~i~~~a--~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~-~~~-~~~  178 (190)
                      +.+||..|++.  ..-.++++++++++..+  ..||+|.|+.+|..|+..|++++++.++.++|+.+..... +.. ..+
T Consensus       195 l~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~~~~v~~a~~~~~~~~~~~~~  274 (366)
T COG1474         195 LYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREAQEEIERDVLEEVL  274 (366)
T ss_pred             HHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHhhHHHHHHHH
Confidence            99999999984  34479999999999773  4579999999999999999999999999999999853221 222 347


Q ss_pred             HHhHHhhhhhc
Q psy18185        179 RILTENKDKFM  189 (190)
Q Consensus       179 ~~~~~~~~~~~  189 (190)
                      +.++.+++.++
T Consensus       275 ~~L~~~~ki~L  285 (366)
T COG1474         275 KTLPLHQKIVL  285 (366)
T ss_pred             HcCCHhHHHHH
Confidence            77777776543

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.37  E-value=7.8e-12  Score=105.05  Aligned_cols=112  Identities=26%  Similarity=0.283  Sum_probs=89.5

Q ss_pred             CeEEEEecCCCCC--------HHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-hheeccC
Q psy18185         30 PGVLFIDEVHMLD--------LETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LIIRTTP   99 (190)
Q Consensus        30 ~~Il~IDEi~~L~--------~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~~i~~~~   99 (190)
                      .+||||||+|.|.        .++++.|++.+|+... +.+|+++.        +....+...++|+++||| ..+.|++
T Consensus       106 ~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~--------~~~~~~~~~~~p~L~sRf~~~i~f~~  177 (261)
T TIGR02881       106 GGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGY--------SDEMDYFLSLNPGLRSRFPISIDFPD  177 (261)
T ss_pred             CCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCC--------cchhHHHHhcChHHHhccceEEEECC
Confidence            3799999999985        4688999999998755 45566653        111112345678999999 5699999


Q ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhc---------CCCCHHHHHHHHHHHHH
Q psy18185        100 YNQKDMEAIIKLRANTEGHVLDDEALVTLSEIG---------TRSTLRYVVQLLTPAAL  149 (190)
Q Consensus       100 ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a---------~~gdlR~ai~lL~~~~~  149 (190)
                      |+.+|+.+++++.+...+..+++++++++++..         +.||.|.+.|+++.+..
T Consensus       178 ~~~~el~~Il~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~~~~gn~R~~~n~~e~a~~  236 (261)
T TIGR02881       178 YTVEELMEIAERMVKEREYKLTEEAKWKLREHLYKVDQLSSREFSNARYVRNIIEKAIR  236 (261)
T ss_pred             CCHHHHHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHhccCCCCchHHHHHHHHHHHHH
Confidence            999999999999999889999999999996541         35899999999999773

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.37  E-value=9.5e-12  Score=116.27  Aligned_cols=127  Identities=27%  Similarity=0.267  Sum_probs=102.4

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC---------------------------CC--EEEEEecCCcccccCCCCCCC
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI---------------------------AP--IVIFATNRGRCLVRGTDDIIS   80 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~---------------------------~~--~iIlatn~~~~~~~~t~~~~~   80 (190)
                      .|+|||||+|.|+...|+.|++++|+..                           ..  ++|.+|         +.   .
T Consensus       266 gGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aT---------t~---~  333 (615)
T TIGR02903       266 GGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGAT---------TR---D  333 (615)
T ss_pred             CCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCcccchhhhhhcccCccceEEEEEec---------cc---c
Confidence            4799999999999999999999998642                           11  233334         32   2


Q ss_pred             CCCCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhh--------
Q psy18185         81 PHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAK--------  152 (190)
Q Consensus        81 ~~~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~--------  152 (190)
                      +..++++++|||..+.|+|++.+|+..+++..+.+.++.+++++++.|+.++  ++.|.|++.|..+..++.        
T Consensus       334 ~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~ls~eal~~L~~ys--~~gRraln~L~~~~~~~~~~~~~~~~  411 (615)
T TIGR02903       334 PEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVHLAAGVEELIARYT--IEGRKAVNILADVYGYALYRAAEAGK  411 (615)
T ss_pred             ccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHCC--CcHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            5678899999999999999999999999999999888889999999999994  366999999987765431        


Q ss_pred             hcCCCcccHHHHHHHHHh
Q psy18185        153 TNGRTAISKQDILEVSTL  170 (190)
Q Consensus       153 ~~g~~~It~~~V~~~~~~  170 (190)
                      ..+...||.++|.++++.
T Consensus       412 ~~~~~~I~~edv~~~l~~  429 (615)
T TIGR02903       412 ENDKVTITQDDVYEVIQI  429 (615)
T ss_pred             CCCCeeECHHHHHHHhCC
Confidence            112336999999999853

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.

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.36  E-value=1.3e-11  Score=100.56  Aligned_cols=124  Identities=20%  Similarity=0.231  Sum_probs=98.4

Q ss_pred             eEEEEecCCCCCH--HHHHHHHHHhhcc--CCCEEEEEecCCcccccCCCCCCCCCC--CC-hhHhhhh---hheeccCC
Q psy18185         31 GVLFIDEVHMLDL--ETFTYLHRALESA--IAPIVIFATNRGRCLVRGTDDIISPHG--IP-LDLLDRL---LIIRTTPY  100 (190)
Q Consensus        31 ~Il~IDEi~~L~~--~~~~~L~~~~E~~--~~~~iIlatn~~~~~~~~t~~~~~~~~--l~-~~l~SR~---~~i~~~~l  100 (190)
                      ++|+|||+|.++.  +.+..|..+++..  .+..+|++++        +    ++..  +. +++++|+   ..++++|+
T Consensus        92 ~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~--------~----~~~~~~~~~~~L~~r~~~~~~i~l~~l  159 (226)
T TIGR03420        92 DLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGR--------A----APAQLPLRLPDLRTRLAWGLVFQLPPL  159 (226)
T ss_pred             CEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECC--------C----ChHHCCcccHHHHHHHhcCeeEecCCC
Confidence            6999999999976  3367777766541  1234666664        2    1322  23 7899997   47999999


Q ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185        101 NQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       101 s~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      ++++...+++..+.+.++.++++++++|++. +.|++|.+.++|+.+...+...| +.||.+.|++++
T Consensus       160 ~~~e~~~~l~~~~~~~~~~~~~~~l~~L~~~-~~gn~r~L~~~l~~~~~~~~~~~-~~i~~~~~~~~~  225 (226)
T TIGR03420       160 SDEEKIAALQSRAARRGLQLPDEVADYLLRH-GSRDMGSLMALLDALDRASLAAK-RKITIPFVKEVL  225 (226)
T ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHh-ccCCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHh
Confidence            9999999999988888999999999999998 89999999999999887766555 479999999875

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.

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.34  E-value=1.2e-11  Score=111.51  Aligned_cols=126  Identities=24%  Similarity=0.299  Sum_probs=101.4

Q ss_pred             CeEEEEecCCCCCH------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCC---CChhHhhhh---hheec
Q psy18185         30 PGVLFIDEVHMLDL------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHG---IPLDLLDRL---LIIRT   97 (190)
Q Consensus        30 ~~Il~IDEi~~L~~------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~---l~~~l~SR~---~~i~~   97 (190)
                      ..+|+|||+|.+..      +.++.++...+.+. + +|++++        .    +|..   +.+.++||+   .++.|
T Consensus       212 ~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~-~-iiits~--------~----~p~~l~~l~~~l~SRl~~gl~v~i  277 (450)
T PRK00149        212 VDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGK-Q-IVLTSD--------R----PPKELPGLEERLRSRFEWGLTVDI  277 (450)
T ss_pred             CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCC-c-EEEECC--------C----CHHHHHHHHHHHHhHhcCCeeEEe
Confidence            37999999999853      34555556666653 3 666664        2    3444   557899998   58999


Q ss_pred             cCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhc
Q psy18185         98 TPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLF  171 (190)
Q Consensus        98 ~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f  171 (190)
                      ++++.++..++|+.+++..++.++++++++|+.+ ..||+|.+...|..+..++...+ ..||.+.+++++...
T Consensus       278 ~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~-~~~~~R~l~~~l~~l~~~~~~~~-~~it~~~~~~~l~~~  349 (450)
T PRK00149        278 EPPDLETRIAILKKKAEEEGIDLPDEVLEFIAKN-ITSNVRELEGALNRLIAYASLTG-KPITLELAKEALKDL  349 (450)
T ss_pred             cCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHcC-cCCCHHHHHHHHHHHHHHHHhhC-CCCCHHHHHHHHHHh
Confidence            9999999999999999999999999999999999 69999999999988887776554 469999999999754

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.26  E-value=7.9e-11  Score=104.70  Aligned_cols=129  Identities=23%  Similarity=0.294  Sum_probs=98.8

Q ss_pred             CeEEEEecCCCCCH------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh---hheeccCC
Q psy18185         30 PGVLFIDEVHMLDL------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL---LIIRTTPY  100 (190)
Q Consensus        30 ~~Il~IDEi~~L~~------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~---~~i~~~~l  100 (190)
                      ..+|+|||+|.+..      +.++.+....+.+. + +|++++.         .+.....+.+.++||+   ..+.|+++
T Consensus       200 ~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~-~-iiits~~---------~p~~l~~l~~~l~SRl~~g~~v~i~~p  268 (405)
T TIGR00362       200 VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGK-Q-IVLTSDR---------PPKELPGLEERLRSRFEWGLVVDIEPP  268 (405)
T ss_pred             CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCC-C-EEEecCC---------CHHHHhhhhhhhhhhccCCeEEEeCCC
Confidence            37999999999853      24445555555543 3 6666641         1111233557899998   57999999


Q ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhc
Q psy18185        101 NQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLF  171 (190)
Q Consensus       101 s~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f  171 (190)
                      +.++...+|+.+++..++.++++++++|+++ ..||+|.+...|..+..++...+ ..||.+.+++++...
T Consensus       269 d~~~r~~il~~~~~~~~~~l~~e~l~~ia~~-~~~~~r~l~~~l~~l~~~a~~~~-~~it~~~~~~~L~~~  337 (405)
T TIGR00362       269 DLETRLAILQKKAEEEGLELPDEVLEFIAKN-IRSNVRELEGALNRLLAYASLTG-KPITLELAKEALKDL  337 (405)
T ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHh-cCCCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHh
Confidence            9999999999999999999999999999999 69999998888887776665544 469999999988654

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).

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.25  E-value=1.2e-10  Score=105.26  Aligned_cols=126  Identities=22%  Similarity=0.315  Sum_probs=99.6

Q ss_pred             CeEEEEecCCCCC--H----HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCC---CCChhHhhhh---hheec
Q psy18185         30 PGVLFIDEVHMLD--L----ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPH---GIPLDLLDRL---LIIRT   97 (190)
Q Consensus        30 ~~Il~IDEi~~L~--~----~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~---~l~~~l~SR~---~~i~~   97 (190)
                      ..+|+|||+|.+.  .    +.++.++...+.+.  .+|++++.            +|.   .+.+.++||+   .++.+
T Consensus       207 ~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k--~iIltsd~------------~P~~l~~l~~rL~SR~~~Gl~~~L  272 (450)
T PRK14087        207 NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDK--QLFFSSDK------------SPELLNGFDNRLITRFNMGLSIAI  272 (450)
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCC--cEEEECCC------------CHHHHhhccHHHHHHHhCCceecc
Confidence            3799999999996  2    35555666666653  37787752            243   3457899997   58999


Q ss_pred             cCCCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcC-CCcccHHHHHHHHHh
Q psy18185         98 TPYNQKDMEAIIKLRANTEGH--VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNG-RTAISKQDILEVSTL  170 (190)
Q Consensus        98 ~~ls~~ei~~iL~~~~~~~~~--~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g-~~~It~~~V~~~~~~  170 (190)
                      +|++.++..++|+.+++..|+  .++++++++|+.. ++||+|.+.+.|..+...+.... ...||++.|++++.-
T Consensus       273 ~~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~~-~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v~~~l~~  347 (450)
T PRK14087        273 QKLDNKTATAIIKKEIKNQNIKQEVTEEAINFISNY-YSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVSDLFRD  347 (450)
T ss_pred             CCcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHc-cCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHHHHHHhh
Confidence            999999999999999988775  7999999999999 79999999999999876665432 247999999888854

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.25  E-value=8.7e-11  Score=106.06  Aligned_cols=128  Identities=16%  Similarity=0.247  Sum_probs=98.2

Q ss_pred             CeEEEEecCCCCCH------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh---hheeccCC
Q psy18185         30 PGVLFIDEVHMLDL------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL---LIIRTTPY  100 (190)
Q Consensus        30 ~~Il~IDEi~~L~~------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~---~~i~~~~l  100 (190)
                      .++|+|||+|.+..      +.+..++...+.+.  .+|++++        . .+.....+.++++|||   ..+.++|+
T Consensus       203 ~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k--~IIlts~--------~-~p~~l~~l~~rL~SR~~~Gl~~~l~~p  271 (445)
T PRK12422        203 VDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGK--LIVISST--------C-APQDLKAMEERLISRFEWGIAIPLHPL  271 (445)
T ss_pred             CCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCC--cEEEecC--------C-CHHHHhhhHHHHHhhhcCCeEEecCCC
Confidence            47999999999953      34455555555543  3667664        2 1112234568999998   78999999


Q ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHH---HHhhhcCCCcccHHHHHHHHHh
Q psy18185        101 NQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAA---LTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       101 s~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~---~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      +.++...+|+.+++..|+.++++++++|+.. ..||+|.+.+.|..+.   .++...| ..||++.+++++.-
T Consensus       272 d~e~r~~iL~~k~~~~~~~l~~evl~~la~~-~~~dir~L~g~l~~l~~~~a~~~~~~-~~i~~~~~~~~l~~  342 (445)
T PRK12422        272 TKEGLRSFLERKAEALSIRIEETALDFLIEA-LSSNVKSLLHALTLLAKRVAYKKLSH-QLLYVDDIKALLHD  342 (445)
T ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHh-cCCCHHHHHHHHHHHHHHHHHHHhhC-CCCCHHHHHHHHHH
Confidence            9999999999999999999999999999999 6999999999999884   3443333 36888888888753

>CHL00181 cbbX CbbX; Provisional

Probab=99.24  E-value=8.1e-11  Score=100.64  Aligned_cols=111  Identities=26%  Similarity=0.249  Sum_probs=87.8

Q ss_pred             CeEEEEecCCCC---------CHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh-heecc
Q psy18185         30 PGVLFIDEVHML---------DLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL-IIRTT   98 (190)
Q Consensus        30 ~~Il~IDEi~~L---------~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~-~i~~~   98 (190)
                      .+||||||+|.|         +.++++.|++.+|+... +.+|++++        .+.+.....+.|+|+|||. .+.|+
T Consensus       123 ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~--------~~~~~~~~~~np~L~sR~~~~i~F~  194 (287)
T CHL00181        123 GGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGY--------KDRMDKFYESNPGLSSRIANHVDFP  194 (287)
T ss_pred             CCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCC--------cHHHHHHHhcCHHHHHhCCceEEcC
Confidence            489999999997         56899999999998655 56667663        1111011234689999985 79999


Q ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhc-------CCCCHHHHHHHHHHHH
Q psy18185         99 PYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIG-------TRSTLRYVVQLLTPAA  148 (190)
Q Consensus        99 ~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a-------~~gdlR~ai~lL~~~~  148 (190)
                      +|+.+|+.+++...+++.+..+++++...+..+.       .-|+.|.+-++++.+.
T Consensus       195 ~~t~~el~~I~~~~l~~~~~~l~~~~~~~L~~~i~~~~~~~~~GNaR~vrn~ve~~~  251 (287)
T CHL00181        195 DYTPEELLQIAKIMLEEQQYQLTPEAEKALLDYIKKRMEQPLFANARSVRNALDRAR  251 (287)
T ss_pred             CcCHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHH
Confidence            9999999999999999999999999888777751       2378999999998877

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=99.22  E-value=3.1e-10  Score=101.06  Aligned_cols=128  Identities=24%  Similarity=0.332  Sum_probs=109.5

Q ss_pred             CeEEEEecCCCCCH------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCC---hhHhhhh---hheec
Q psy18185         30 PGVLFIDEVHMLDL------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIP---LDLLDRL---LIIRT   97 (190)
Q Consensus        30 ~~Il~IDEi~~L~~------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~---~~l~SR~---~~i~~   97 (190)
                      -.+++|||+|.+..      +.|+.++.+.+.+.  .+|+++.+            +|..++   ++++||+   +++.+
T Consensus       176 ~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~k--qIvltsdr------------~P~~l~~~~~rL~SR~~~Gl~~~I  241 (408)
T COG0593         176 LDLLLIDDIQFLAGKERTQEEFFHTFNALLENGK--QIVLTSDR------------PPKELNGLEDRLRSRLEWGLVVEI  241 (408)
T ss_pred             cCeeeechHhHhcCChhHHHHHHHHHHHHHhcCC--EEEEEcCC------------CchhhccccHHHHHHHhceeEEee
Confidence            37999999999953      68899999999976  48888853            355554   8999996   78999


Q ss_pred             cCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhccC
Q psy18185         98 TPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLD  173 (190)
Q Consensus        98 ~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~~  173 (190)
                      .|++++....+|+.+++..|+.++++++.+++++ ..+|+|.+...|..+..++...++ .||.+.|++++..+.-
T Consensus       242 ~~Pd~e~r~aiL~kka~~~~~~i~~ev~~~la~~-~~~nvReLegaL~~l~~~a~~~~~-~iTi~~v~e~L~~~~~  315 (408)
T COG0593         242 EPPDDETRLAILRKKAEDRGIEIPDEVLEFLAKR-LDRNVRELEGALNRLDAFALFTKR-AITIDLVKEILKDLLR  315 (408)
T ss_pred             CCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH-hhccHHHHHHHHHHHHHHHHhcCc-cCcHHHHHHHHHHhhc
Confidence            9999999999999999999999999999999999 699999999999999888776555 8999999999865443

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=99.22  E-value=4.2e-11  Score=104.09  Aligned_cols=90  Identities=16%  Similarity=0.180  Sum_probs=74.1

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      ++-+++|+ +.+.+......+    .++|++||++|.|+.++++.|++++|+++. .++|++|+             .+.
T Consensus        93 I~id~iR~-l~~~~~~~p~~~----~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth-------------~~~  154 (325)
T PRK08699         93 IKIDAVRE-IIDNVYLTSVRG----GLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSH-------------AAD  154 (325)
T ss_pred             cCHHHHHH-HHHHHhhCcccC----CceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeC-------------ChH
Confidence            46788884 555554433333    469999999999999999999999999865 67888884             267


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKL  111 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~  111 (190)
                      .++++++|||+.+.|+|++.+++.++|..
T Consensus       155 ~ll~ti~SRc~~~~~~~~~~~~~~~~L~~  183 (325)
T PRK08699        155 KVLPTIKSRCRKMVLPAPSHEEALAYLRE  183 (325)
T ss_pred             hChHHHHHHhhhhcCCCCCHHHHHHHHHh
Confidence            89999999999999999999999999964

>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=99.20  E-value=2.6e-10  Score=93.88  Aligned_cols=111  Identities=26%  Similarity=0.388  Sum_probs=80.9

Q ss_pred             CeEEEEecCCCCCH------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh---hheeccCC
Q psy18185         30 PGVLFIDEVHMLDL------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL---LIIRTTPY  100 (190)
Q Consensus        30 ~~Il~IDEi~~L~~------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~---~~i~~~~l  100 (190)
                      ..+|+|||+|.+..      ..++.++...+.+.  .+|++++.         .|.....+.++++||+   ..++++++
T Consensus        98 ~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k--~li~ts~~---------~P~~l~~~~~~L~SRl~~Gl~~~l~~p  166 (219)
T PF00308_consen   98 ADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGK--QLILTSDR---------PPSELSGLLPDLRSRLSWGLVVELQPP  166 (219)
T ss_dssp             SSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTS--EEEEEESS----------TTTTTTS-HHHHHHHHCSEEEEE---
T ss_pred             CCEEEEecchhhcCchHHHHHHHHHHHHHHhhCC--eEEEEeCC---------CCccccccChhhhhhHhhcchhhcCCC
Confidence            48999999999964      34455555555543  47777742         2212234568999996   68999999


Q ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhh
Q psy18185        101 NQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAK  152 (190)
Q Consensus       101 s~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~  152 (190)
                      ++++..++|+.++...|+.++++++++|+++ .++|+|.....|+....+++
T Consensus       167 d~~~r~~il~~~a~~~~~~l~~~v~~~l~~~-~~~~~r~L~~~l~~l~~~~~  217 (219)
T PF00308_consen  167 DDEDRRRILQKKAKERGIELPEEVIEYLARR-FRRDVRELEGALNRLDAYAQ  217 (219)
T ss_dssp             -HHHHHHHHHHHHHHTT--S-HHHHHHHHHH-TTSSHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhCCCCcHHHHHHHHHh-hcCCHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999 69999999999998877654

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.19  E-value=1.6e-10  Score=104.12  Aligned_cols=126  Identities=19%  Similarity=0.287  Sum_probs=99.6

Q ss_pred             CeEEEEecCCCCC------HHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCC---CChhHhhhhh---heec
Q psy18185         30 PGVLFIDEVHMLD------LETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHG---IPLDLLDRLL---IIRT   97 (190)
Q Consensus        30 ~~Il~IDEi~~L~------~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~---l~~~l~SR~~---~i~~   97 (190)
                      ..+|+|||+|.+.      .+.+..++...+.+.  .+|++++        .    +|..   +.+.++||+.   ++.+
T Consensus       195 ~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k--~iIitsd--------~----~p~~l~~l~~rL~SR~~~gl~v~i  260 (440)
T PRK14088        195 VDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGK--QIVICSD--------R----EPQKLSEFQDRLVSRFQMGLVAKL  260 (440)
T ss_pred             CCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCC--eEEEECC--------C----CHHHHHHHHHHHhhHHhcCceEee
Confidence            4799999999883      135555555556543  3666663        1    2443   3468999985   8899


Q ss_pred             cCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhc
Q psy18185         98 TPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLF  171 (190)
Q Consensus        98 ~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f  171 (190)
                      +|++.+....+|+.+++.+++.++++++++|+++ ..||+|.+...|.....++...| ..||.+.+++++.-+
T Consensus       261 ~~pd~e~r~~IL~~~~~~~~~~l~~ev~~~Ia~~-~~~~~R~L~g~l~~l~~~~~~~~-~~it~~~a~~~L~~~  332 (440)
T PRK14088        261 EPPDEETRKKIARKMLEIEHGELPEEVLNFVAEN-VDDNLRRLRGAIIKLLVYKETTG-EEVDLKEAILLLKDF  332 (440)
T ss_pred             CCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHhc-cccCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999 69999999999988877666554 469999999888644

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

Probab=99.18  E-value=2.4e-10  Score=108.78  Aligned_cols=133  Identities=21%  Similarity=0.236  Sum_probs=102.5

Q ss_pred             CeEEEEecCCCCC---------HHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCC
Q psy18185         30 PGVLFIDEVHMLD---------LETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPY  100 (190)
Q Consensus        30 ~~Il~IDEi~~L~---------~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~l  100 (190)
                      +.||||||+|.|.         .++++.|...++++ ...+|++||        .+.+.++....+++++||+.+.++++
T Consensus       275 ~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g-~i~~IgaTt--------~~e~~~~~~~d~al~rRf~~i~v~~p  345 (731)
T TIGR02639       275 NAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSG-KLRCIGSTT--------YEEYKNHFEKDRALSRRFQKIDVGEP  345 (731)
T ss_pred             CeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCC-CeEEEEecC--------HHHHHHHhhhhHHHHHhCceEEeCCC
Confidence            4799999999994         35789999999875 467888884        21223456678899999999999999


Q ss_pred             CHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhcCC--CC---HHHHHHHHHHHHHHhhhc----CCCcccHHHHHHH
Q psy18185        101 NQKDMEAIIKLRANT----EGHVLDDEALVTLSEIGTR--ST---LRYVVQLLTPAALTAKTN----GRTAISKQDILEV  167 (190)
Q Consensus       101 s~~ei~~iL~~~~~~----~~~~i~~e~l~~i~~~a~~--gd---lR~ai~lL~~~~~~a~~~----g~~~It~~~V~~~  167 (190)
                      +.++...+|+.....    .++.++++++.+++..+.+  ++   ++.|+.+|+.++....-.    ....||.++|..+
T Consensus       346 ~~~~~~~il~~~~~~~e~~~~v~i~~~al~~~~~ls~ryi~~r~~P~kai~lld~a~a~~~~~~~~~~~~~v~~~~i~~~  425 (731)
T TIGR02639       346 SIEETVKILKGLKEKYEEFHHVKYSDEALEAAVELSARYINDRFLPDKAIDVIDEAGASFRLRPKAKKKANVSVKDIENV  425 (731)
T ss_pred             CHHHHHHHHHHHHHHHHhccCcccCHHHHHHHHHhhhcccccccCCHHHHHHHHHhhhhhhcCcccccccccCHHHHHHH
Confidence            999999999976653    4678999999999999422  23   789999999877432211    1345999999998


Q ss_pred             HHhc
Q psy18185        168 STLF  171 (190)
Q Consensus       168 ~~~f  171 (190)
                      +..+
T Consensus       426 i~~~  429 (731)
T TIGR02639       426 VAKM  429 (731)
T ss_pred             HHHH
Confidence            8554

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.17  E-value=2.3e-10  Score=97.70  Aligned_cols=112  Identities=22%  Similarity=0.245  Sum_probs=89.7

Q ss_pred             CeEEEEecCCCC---------CHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-hheecc
Q psy18185         30 PGVLFIDEVHML---------DLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LIIRTT   98 (190)
Q Consensus        30 ~~Il~IDEi~~L---------~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~~i~~~   98 (190)
                      .+||||||+|.|         +.+.++.|++.+|.... +++|++++        ++.......+.|+|+||| ..+.|+
T Consensus       122 ~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~--------~~~~~~~~~~np~L~sR~~~~i~fp  193 (284)
T TIGR02880       122 GGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGY--------KDRMDSFFESNPGFSSRVAHHVDFP  193 (284)
T ss_pred             CcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCC--------cHHHHHHHhhCHHHHhhCCcEEEeC
Confidence            389999999988         35788999999998654 56666663        111111233468999999 579999


Q ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh-------cCCCCHHHHHHHHHHHHH
Q psy18185         99 PYNQKDMEAIIKLRANTEGHVLDDEALVTLSEI-------GTRSTLRYVVQLLTPAAL  149 (190)
Q Consensus        99 ~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~-------a~~gdlR~ai~lL~~~~~  149 (190)
                      +|+.+|+..++...+++.+..+++++.+.+..+       .+-|+.|.+-|+++.+..
T Consensus       194 ~l~~edl~~I~~~~l~~~~~~l~~~a~~~L~~~l~~~~~~~~~GN~R~lrn~ve~~~~  251 (284)
T TIGR02880       194 DYSEAELLVIAGLMLKEQQYRFSAEAEEAFADYIALRRTQPHFANARSIRNAIDRARL  251 (284)
T ss_pred             CcCHHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHH
Confidence            999999999999999998889999999998876       345899999999998873

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.

>TIGR00602 rad24 checkpoint protein rad24

Probab=99.15  E-value=3.5e-10  Score=105.90  Aligned_cols=129  Identities=10%  Similarity=0.157  Sum_probs=87.5

Q ss_pred             CCeEEEEecC----CCCCHHHHHHHH-HHhhccCCCEEEEEecCCcccccCCCCCC----------CCCC-CChhHhh--
Q psy18185         29 VPGVLFIDEV----HMLDLETFTYLH-RALESAIAPIVIFATNRGRCLVRGTDDII----------SPHG-IPLDLLD--   90 (190)
Q Consensus        29 ~~~Il~IDEi----~~L~~~~~~~L~-~~~E~~~~~~iIlatn~~~~~~~~t~~~~----------~~~~-l~~~l~S--   90 (190)
                      ...||+|||+    |..+...++.|. ...+.+..| +|++++         |++.          +.+. +.+++++  
T Consensus       195 ~~~IILIDEiPn~~~r~~~~lq~lLr~~~~e~~~~p-LI~I~T---------E~~~~~~~~~~~~f~~~~lL~~eLls~~  264 (637)
T TIGR00602       195 DKKIILVEDLPNQFYRDTRALHEILRWKYVSIGRCP-LVFIIT---------ESLEGDNNQRRLLFPAETIMNKEILEEP  264 (637)
T ss_pred             ceeEEEeecchhhchhhHHHHHHHHHHHhhcCCCce-EEEEec---------CCccccccccccccchhcccCHhHhccc
Confidence            3579999999    443444444444 355554334 666562         2210          0111 3478998  


Q ss_pred             hhhheeccCCCHHHHHHHHHHHHHhcCCC------C-CHHHHHHHHHhcCCCCHHHHHHHHHHHH----HHhhhcCCCcc
Q psy18185         91 RLLIIRTTPYNQKDMEAIIKLRANTEGHV------L-DDEALVTLSEIGTRSTLRYVVQLLTPAA----LTAKTNGRTAI  159 (190)
Q Consensus        91 R~~~i~~~~ls~~ei~~iL~~~~~~~~~~------i-~~e~l~~i~~~a~~gdlR~ai~lL~~~~----~~a~~~g~~~I  159 (190)
                      ||.+|.|+|++..++...|.++++.++..      + +++++..|+.. +.||+|.||+.|+.++    .++...+...+
T Consensus       265 rv~~I~FnPia~t~l~K~L~rIl~~E~~~~~~~~~~p~~~~l~~I~~~-s~GDiRsAIn~LQf~~~~~g~~a~~~~~~~v  343 (637)
T TIGR00602       265 RVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVELLCQG-CSGDIRSAINSLQFSSSKSGSLPIKKRMSTK  343 (637)
T ss_pred             ceeEEEeCCCCHHHHHHHHHHHHHhhhhccccccccCCHHHHHHHHHh-CCChHHHHHHHHHHHHhcCCccccccccccc
Confidence            56779999999999999999999875432      2 56899999998 7999999999999984    33444455667


Q ss_pred             cHHHHHHHH
Q psy18185        160 SKQDILEVS  168 (190)
Q Consensus       160 t~~~V~~~~  168 (190)
                      +..+|..+.
T Consensus       344 s~~hv~~a~  352 (637)
T TIGR00602       344 SDAHASKSK  352 (637)
T ss_pred             cHHHhhhcc
Confidence            777766543

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

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.15  E-value=8.1e-10  Score=102.74  Aligned_cols=129  Identities=17%  Similarity=0.168  Sum_probs=103.2

Q ss_pred             CeEEEEecCCCCCH------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh---hheeccCC
Q psy18185         30 PGVLFIDEVHMLDL------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL---LIIRTTPY  100 (190)
Q Consensus        30 ~~Il~IDEi~~L~~------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~---~~i~~~~l  100 (190)
                      ..+|+|||+|.+..      +.|+.++...+.+..  +|++++.         .+.....+.+.|+||+   .++.++++
T Consensus       378 ~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~--IIITSd~---------~P~eL~~l~~rL~SRf~~GLvv~I~~P  446 (617)
T PRK14086        378 MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQ--IVLSSDR---------PPKQLVTLEDRLRNRFEWGLITDVQPP  446 (617)
T ss_pred             CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCC--EEEecCC---------ChHhhhhccHHHHhhhhcCceEEcCCC
Confidence            47999999999932      467777777776543  6677752         1111234568899996   68999999


Q ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhc
Q psy18185        101 NQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLF  171 (190)
Q Consensus       101 s~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f  171 (190)
                      +.+....||+.+++..|+.++++++++|+++ ..+|+|.+...|..+..++...+ ..||++.+++++.-+
T Consensus       447 D~EtR~aIL~kka~~r~l~l~~eVi~yLa~r-~~rnvR~LegaL~rL~a~a~~~~-~~itl~la~~vL~~~  515 (617)
T PRK14086        447 ELETRIAILRKKAVQEQLNAPPEVLEFIASR-ISRNIRELEGALIRVTAFASLNR-QPVDLGLTEIVLRDL  515 (617)
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh-ccCCHHHHHHHHHHHHHHHHhhC-CCCCHHHHHHHHHHh
Confidence            9999999999999999999999999999999 69999999999988877666544 469999998888644

>KOG1514|consensus

Probab=99.13  E-value=5.2e-10  Score=104.10  Aligned_cols=149  Identities=19%  Similarity=0.250  Sum_probs=118.7

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCCC----EEEEEecCCcccccCCCCCCCCCCCC-hhHhhhh--hheeccCCCH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIAP----IVIFATNRGRCLVRGTDDIISPHGIP-LDLLDRL--LIIRTTPYNQ  102 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~----~iIlatn~~~~~~~~t~~~~~~~~l~-~~l~SR~--~~i~~~~ls~  102 (190)
                      .-|+.|||.|.|-...|..|+.+.+++..+    ++|.++|        |.+  -|..+. .-.-||.  +.+.|.||+.
T Consensus       509 ~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaN--------Tmd--lPEr~l~nrvsSRlg~tRi~F~pYth  578 (767)
T KOG1514|consen  509 TTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIAN--------TMD--LPERLLMNRVSSRLGLTRICFQPYTH  578 (767)
T ss_pred             CEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEecc--------ccc--CHHHHhccchhhhccceeeecCCCCH
Confidence            468889999999999999999999997652    4555555        543  233332 3566775  7899999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHh--cCCCCHHHHHHHHHHHHHHhhhcCC-------CcccHHHHHHHHHhccC
Q psy18185        103 KDMEAIIKLRANTEGHVLDDEALVTLSEI--GTRSTLRYVVQLLTPAALTAKTNGR-------TAISKQDILEVSTLFLD  173 (190)
Q Consensus       103 ~ei~~iL~~~~~~~~~~i~~e~l~~i~~~--a~~gdlR~ai~lL~~~~~~a~~~g~-------~~It~~~V~~~~~~f~~  173 (190)
                      +|+.+++.-+.+... .+++++++++++.  |..||+|.|+.++.+|...|.....       ..|++-+|.++..-+++
T Consensus       579 ~qLq~Ii~~RL~~~~-~f~~~aielvarkVAavSGDaRraldic~RA~Eia~~~~~~~k~~~~q~v~~~~v~~Ai~em~~  657 (767)
T KOG1514|consen  579 EQLQEIISARLKGLD-AFENKAIELVARKVAAVSGDARRALDICRRAAEIAEERNVKGKLAVSQLVGILHVMEAINEMLA  657 (767)
T ss_pred             HHHHHHHHHhhcchh-hcchhHHHHHHHHHHhccccHHHHHHHHHHHHHHhhhhcccccccccceeehHHHHHHHHHHhh
Confidence            999999998876653 5789999999987  3579999999999999988875433       45899999999977776


Q ss_pred             hHH--HHHHhHHhhhhhc
Q psy18185        174 AKS--SARILTENKDKFM  189 (190)
Q Consensus       174 ~~~--~~~~~~~~~~~~~  189 (190)
                      .-.  +++.+++.++-|+
T Consensus       658 ~~~~~~i~glS~~~k~fl  675 (767)
T KOG1514|consen  658 SPYIKALKGLSFLQKIFL  675 (767)
T ss_pred             hhHHHHhcchHHHHHHHH
Confidence            664  5999999999886

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.08  E-value=1.8e-09  Score=104.29  Aligned_cols=145  Identities=21%  Similarity=0.248  Sum_probs=103.2

Q ss_pred             HHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCH--------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCC
Q psy18185          8 KLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDL--------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDII   79 (190)
Q Consensus         8 ~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~--------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~   79 (190)
                      ++.+.+.+++.+....+    ...||||||+|.|..        ++.+.|...++.+ ...+|++|+        .+.+.
T Consensus       263 e~e~~lk~ii~e~~~~~----~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G-~l~~IgaTT--------~~e~~  329 (852)
T TIGR03345       263 EFENRLKSVIDEVKASP----QPIILFIDEAHTLIGAGGQAGQGDAANLLKPALARG-ELRTIAATT--------WAEYK  329 (852)
T ss_pred             HHHHHHHHHHHHHHhcC----CCeEEEEeChHHhccCCCccccccHHHHhhHHhhCC-CeEEEEecC--------HHHHh
Confidence            33356666666643322    247999999999953        3456788999886 478999994        22233


Q ss_pred             CCCCCChhHhhhhhheeccCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHH
Q psy18185         80 SPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANT----EGHVLDDEALVTLSEIGT-----RSTLRYVVQLLTPAALT  150 (190)
Q Consensus        80 ~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~----~~~~i~~e~l~~i~~~a~-----~gdlR~ai~lL~~~~~~  150 (190)
                      ++....++|++||+.|.+++++.++...+|+.....    .++.++++++.+++..+.     +.=+.+||.+|+.|+..
T Consensus       330 ~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi~~r~LPDKAIdlldea~a~  409 (852)
T TIGR03345       330 KYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYIPGRQLPDKAVSLLDTACAR  409 (852)
T ss_pred             hhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccccccccCccHHHHHHHHHHHH
Confidence            566788999999999999999999999997655432    478999999999999942     23468999999988743


Q ss_pred             h-hhcCCCcccHHHHH
Q psy18185        151 A-KTNGRTAISKQDIL  165 (190)
Q Consensus       151 a-~~~g~~~It~~~V~  165 (190)
                      . .......+.++++.
T Consensus       410 ~~~~~~~~p~~~~~~~  425 (852)
T TIGR03345       410 VALSQNATPAALEDLR  425 (852)
T ss_pred             HHHhccCCchhHHHHH
Confidence            2 22233345555554

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.

>TIGR01128 holA DNA polymerase III, delta subunit

Probab=99.07  E-value=5.9e-09  Score=88.33  Aligned_cols=130  Identities=16%  Similarity=0.164  Sum_probs=102.0

Q ss_pred             cccCCeEEEEecCCCCC-HHHHHHHHHHhhccCCC-EEEEEecCCcccccCCCCCCCCCCCChhHh--hhhhheeccCCC
Q psy18185         26 AELVPGVLFIDEVHMLD-LETFTYLHRALESAIAP-IVIFATNRGRCLVRGTDDIISPHGIPLDLL--DRLLIIRTTPYN  101 (190)
Q Consensus        26 ~~~~~~Il~IDEi~~L~-~~~~~~L~~~~E~~~~~-~iIlatn~~~~~~~~t~~~~~~~~l~~~l~--SR~~~i~~~~ls  101 (190)
                      ....+++++|+++|.+. +...+.|.+.+++++.. .+|+.++.       .+   ....+...+.  ++|.++.+++++
T Consensus        43 lf~~~kliii~~~~~~~~~~~~~~L~~~l~~~~~~~~~i~~~~~-------~~---~~~~~~k~~~~~~~~~~i~~~~~~  112 (302)
T TIGR01128        43 LFSERRLVELRNPEGKPGAKGLKALEEYLANPPPDTLLLIEAPK-------LD---KRKKLTKWLKALKNAQIVECKTPK  112 (302)
T ss_pred             cccCCeEEEEECCCCCCCHHHHHHHHHHHhcCCCCEEEEEecCC-------CC---HhHHHHHHHHHhcCeeEEEecCCC
Confidence            33456899999999986 46789999999997663 45555521       10   1111112233  499999999999


Q ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        102 QKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       102 ~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ..++..++...+++.|+.++++++++++.. .+||++.+.+-|+....++.   .+.||.++|...+.
T Consensus       113 ~~~~~~~i~~~~~~~g~~i~~~a~~~l~~~-~~~d~~~l~~el~KL~~~~~---~~~It~e~I~~~~~  176 (302)
T TIGR01128       113 EQELPRWIQARLKKLGLRIDPDAVQLLAEL-VEGNLLAIAQELEKLALYAP---DGKITLEDVEEAVS  176 (302)
T ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-hCcHHHHHHHHHHHHHhhCC---CCCCCHHHHHHHHh
Confidence            999999999999999999999999999999 69999999999999887753   33699999998775

subunit around DNA forming a DNA sliding clamp.

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

Probab=99.03  E-value=2e-08  Score=83.72  Aligned_cols=143  Identities=17%  Similarity=0.229  Sum_probs=102.4

Q ss_pred             HHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccC--C--CEEEEEecCCcccccCCCCCCCCCC----
Q psy18185         12 EINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAI--A--PIVIFATNRGRCLVRGTDDIISPHG----   83 (190)
Q Consensus        12 ~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~--~--~~iIlatn~~~~~~~~t~~~~~~~~----   83 (190)
                      ++.+.+......++    ..+++|||+|.++.++.+.|..+.+...  .  ..+++++.         ...  ...    
T Consensus       110 ~l~~~l~~~~~~~~----~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~---------~~~--~~~l~~~  174 (269)
T TIGR03015       110 ELEDFLIEQFAAGK----RALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQ---------PEF--RETLQSP  174 (269)
T ss_pred             HHHHHHHHHHhCCC----CeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCC---------HHH--HHHHcCc
Confidence            44444444333333    3699999999999888887766655321  1  23455552         110  000    


Q ss_pred             CChhHhhhh-hheeccCCCHHHHHHHHHHHHHhcC----CCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCc
Q psy18185         84 IPLDLLDRL-LIIRTTPYNQKDMEAIIKLRANTEG----HVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTA  158 (190)
Q Consensus        84 l~~~l~SR~-~~i~~~~ls~~ei~~iL~~~~~~~~----~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~  158 (190)
                      -..++.+|+ ..+.++|++.+|+.+.+..++...|    ..+++++++.|.+. +.|++|....+++.+...|-..+...
T Consensus       175 ~~~~l~~r~~~~~~l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~-s~G~p~~i~~l~~~~~~~a~~~~~~~  253 (269)
T TIGR03015       175 QLQQLRQRIIASCHLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRF-SRGIPRLINILCDRLLLSAFLEEKRE  253 (269)
T ss_pred             hhHHHHhheeeeeeCCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHH-cCCcccHHHHHHHHHHHHHHHcCCCC
Confidence            123588884 6789999999999999998887544    46999999999999 79999997777777777776678889


Q ss_pred             ccHHHHHHHHHh
Q psy18185        159 ISKQDILEVSTL  170 (190)
Q Consensus       159 It~~~V~~~~~~  170 (190)
                      ||.++|+.++.-
T Consensus       254 i~~~~v~~~~~~  265 (269)
T TIGR03015       254 IGGEEVREVIAE  265 (269)
T ss_pred             CCHHHHHHHHHH
Confidence            999999998864

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.

>KOG2227|consensus

Probab=98.96  E-value=2.7e-09  Score=95.68  Aligned_cols=149  Identities=19%  Similarity=0.155  Sum_probs=105.7

Q ss_pred             HHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCCC----EEEEEecCCcccccCCCCCCCCCCCChhHh
Q psy18185         14 NKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAP----IVIFATNRGRCLVRGTDDIISPHGIPLDLL   89 (190)
Q Consensus        14 ~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~----~iIlatn~~~~~~~~t~~~~~~~~l~~~l~   89 (190)
                      .+++..+....+.   .-|+++||.|+|....+..|+.+.|++..|    ++|+.+|..       +   --.+..|.|.
T Consensus       244 ~~~~~~h~~q~k~---~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANsl-------D---lTdR~LprL~  310 (529)
T KOG2227|consen  244 LEKFEKHTKQSKF---MLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSL-------D---LTDRFLPRLN  310 (529)
T ss_pred             HHHHHHHHhcccc---eEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhh-------h---HHHHHhhhhh
Confidence            3444444444331   258889999999999999999999997763    455566521       1   1223345566


Q ss_pred             hhh----hheeccCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHh--cCCCCHHHHHHHHHHHHHHhhhcCC------
Q psy18185         90 DRL----LIIRTTPYNQKDMEAIIKLRANTEGHV-LDDEALVTLSEI--GTRSTLRYVVQLLTPAALTAKTNGR------  156 (190)
Q Consensus        90 SR~----~~i~~~~ls~~ei~~iL~~~~~~~~~~-i~~e~l~~i~~~--a~~gdlR~ai~lL~~~~~~a~~~g~------  156 (190)
                      .||    ..+.|+|||.+||..||+.+...+... +-+.+++.+|+.  |..||+|.|+.++..|..+++.+++      
T Consensus       311 ~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R~aiEI~E~e~r~~~~~~  390 (529)
T KOG2227|consen  311 LDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCRRAIEIAEIEKRKILDDP  390 (529)
T ss_pred             hccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHHHHHHHHHHHHhhccccC
Confidence            654    578999999999999999999876443 345588988887  3579999999999999888876544      


Q ss_pred             ----------CcccHHHHHHHHHhccChH
Q psy18185        157 ----------TAISKQDILEVSTLFLDAK  175 (190)
Q Consensus       157 ----------~~It~~~V~~~~~~f~~~~  175 (190)
                                +.|.+.+|..+++-+....
T Consensus       391 l~~~~~p~~~~~v~~~~va~viSk~~~s~  419 (529)
T KOG2227|consen  391 LSPGTSPEKKKKVGVEHVAAVISKVDGSP  419 (529)
T ss_pred             CCCCCCcccccccchHHHHHHhhhhccCh
Confidence                      2355777777775544443

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=98.86  E-value=6.1e-08  Score=84.77  Aligned_cols=130  Identities=23%  Similarity=0.275  Sum_probs=97.3

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh-heec
Q psy18185         31 GVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL-IIRT   97 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~-~i~~   97 (190)
                      |+|+|||+|.|+...|+.|+.+++++.            ...+++++         +.|+. -..+++++.+|+. .+.+
T Consensus       133 GvL~lDEi~~L~~~~Q~~Ll~~l~~g~~~v~r~G~~~~~~~r~ivia---------t~np~-eg~l~~~LldRf~l~i~l  202 (337)
T TIGR02030       133 GILYIDEVNLLEDHLVDVLLDVAASGWNVVEREGISIRHPARFVLVG---------SGNPE-EGELRPQLLDRFGLHAEI  202 (337)
T ss_pred             CEEEecChHhCCHHHHHHHHHHHHhCCeEEEECCEEEEcCCCEEEEe---------ccccc-cCCCCHHHHhhcceEEEC
Confidence            899999999999999999999998752            12244444         22331 3468899999984 5667


Q ss_pred             cCCCH-HHHHHHHHHHHH-----------------------------hcCCCCCHHHHHHHHHhcC--CC-CHHHHHHHH
Q psy18185         98 TPYNQ-KDMEAIIKLRAN-----------------------------TEGHVLDDEALVTLSEIGT--RS-TLRYVVQLL  144 (190)
Q Consensus        98 ~~ls~-~ei~~iL~~~~~-----------------------------~~~~~i~~e~l~~i~~~a~--~g-dlR~ai~lL  144 (190)
                      .++++ ++-.++++++..                             -.++.++++++++++..+.  +. +.|-.+.++
T Consensus       203 ~~p~~~eer~eIL~~~~~~~~~~~~~~~~~~~e~~~~~~~I~~a~~~~~~V~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~  282 (337)
T TIGR02030       203 RTVRDVELRVEIVERRTEYDADPHAFCEKWQTEQEALQAKIVNAQNLLPQVTIPYDVLVKVAELCAELDVDGLRGELTLN  282 (337)
T ss_pred             CCCCCHHHHHHHHHhhhhcccCchhhhhhhhhhhhcCHHHHHHHHHHhccCcCCHHHHHHHHHHHHHHCCCCCcHHHHHH
Confidence            66665 555556655211                             1467899999999998741  22 689999999


Q ss_pred             HHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        145 TPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       145 ~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      ..|..+|-.+|+..|+.+||+.++.+
T Consensus       283 raArA~Aal~GR~~V~~dDv~~~a~~  308 (337)
T TIGR02030       283 RAAKALAAFEGRTEVTVDDIRRVAVL  308 (337)
T ss_pred             HHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            99998888899999999999998855

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.

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=98.78  E-value=7.6e-08  Score=92.06  Aligned_cols=131  Identities=18%  Similarity=0.204  Sum_probs=96.0

Q ss_pred             CeEEEEecCCCCC---------HHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCC
Q psy18185         30 PGVLFIDEVHMLD---------LETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPY  100 (190)
Q Consensus        30 ~~Il~IDEi~~L~---------~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~l  100 (190)
                      .+||||||+|.|.         .+..+.|..+++.+ ...+|++|+        .+.+.......++|.+|++.+.++++
T Consensus       279 ~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~g-~i~vIgATt--------~~E~~~~~~~D~AL~rRFq~I~v~eP  349 (758)
T PRK11034        279 NSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG-KIRVIGSTT--------YQEFSNIFEKDRALARRFQKIDITEP  349 (758)
T ss_pred             CCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhCC-CeEEEecCC--------hHHHHHHhhccHHHHhhCcEEEeCCC
Confidence            4799999999981         35667788888775 467888884        11111123567899999999999999


Q ss_pred             CHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhcCC-----CCHHHHHHHHHHHHHHhh----hcCCCcccHHHHHHH
Q psy18185        101 NQKDMEAIIKLRANT----EGHVLDDEALVTLSEIGTR-----STLRYVVQLLTPAALTAK----TNGRTAISKQDILEV  167 (190)
Q Consensus       101 s~~ei~~iL~~~~~~----~~~~i~~e~l~~i~~~a~~-----gdlR~ai~lL~~~~~~a~----~~g~~~It~~~V~~~  167 (190)
                      +.++...+|+.....    .++.++++++..++..+.+     .=+.+|+.+|+.++....    ......|+.++|.++
T Consensus       350 s~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~lPdKaidlldea~a~~~~~~~~~~~~~v~~~~i~~v  429 (758)
T PRK11034        350 SIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAGARARLMPVSKRKKTVNVADIESV  429 (758)
T ss_pred             CHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCccChHHHHHHHHHHHHhhccCcccccccccChhhHHHH
Confidence            999999999976543    5889999999998887322     245699999998874321    122345888888887


Q ss_pred             HH
Q psy18185        168 ST  169 (190)
Q Consensus       168 ~~  169 (190)
                      +.
T Consensus       430 ~~  431 (758)
T PRK11034        430 VA  431 (758)
T ss_pred             HH
Confidence            63

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=98.71  E-value=4.1e-07  Score=79.54  Aligned_cols=129  Identities=20%  Similarity=0.242  Sum_probs=95.6

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh-heec
Q psy18185         31 GVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL-IIRT   97 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~-~i~~   97 (190)
                      |+|+|||++.++...|+.|+..+|++.            +..|++++         +.|+. -..+++++.+|+. .+.+
T Consensus       130 GiL~lDEInrl~~~~q~~Lle~mee~~v~v~r~G~~~~~p~rfiviA---------t~NP~-e~~l~~aLldRF~~~v~v  199 (334)
T PRK13407        130 GYLYIDEVNLLEDHIVDLLLDVAQSGENVVEREGLSIRHPARFVLVG---------SGNPE-EGELRPQLLDRFGLSVEV  199 (334)
T ss_pred             CeEEecChHhCCHHHHHHHHHHHHcCCeEEEECCeEEecCCCEEEEe---------cCCcc-cCCCCHHHHhhcceEEEc
Confidence            799999999999999999999998753            12244444         22321 2357889999984 5666


Q ss_pred             cCCCH-HHHHHHHHHHH-----------------------------HhcCCCCCHHHHHHHHHhc---CCCCHHHHHHHH
Q psy18185         98 TPYNQ-KDMEAIIKLRA-----------------------------NTEGHVLDDEALVTLSEIG---TRSTLRYVVQLL  144 (190)
Q Consensus        98 ~~ls~-~ei~~iL~~~~-----------------------------~~~~~~i~~e~l~~i~~~a---~~gdlR~ai~lL  144 (190)
                      .+.++ ++-.+++.+..                             .-.++.++++++.++++.+   ...+.|-.+.++
T Consensus       200 ~~~~~~~e~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~a~~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~  279 (334)
T PRK13407        200 RSPRDVETRVEVIRRRDAYDADHDAFMAKWGAEDMQLRGRILGARARLPQLKTPNTVLHDCAALCIALGSDGLRGELTLL  279 (334)
T ss_pred             CCCCcHHHHHHHHHHhhcccccchhhhccccccccCCHHHHHHHHHhcCCcccCHHHHHHHHHHHHHHCCCCchHHHHHH
Confidence            66655 55455554421                             1146789999999999984   124789999989


Q ss_pred             HHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        145 TPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       145 ~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ..|..+|-.+|+..||.++|+.+..
T Consensus       280 ~aA~a~A~l~Gr~~V~~~Di~~~~~  304 (334)
T PRK13407        280 RAARALAAFEGAEAVGRSHLRSVAT  304 (334)
T ss_pred             HHHHHHHHHcCCCeeCHHHHHHHHH
Confidence            8888889899999999999988774

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=98.67  E-value=1.9e-07  Score=89.73  Aligned_cols=126  Identities=17%  Similarity=0.276  Sum_probs=86.9

Q ss_pred             CeEEEEecCCCCCHHH----HHHHHHHhhcc----------------CCCEEEEEecCCcccccCCCCCCCCCCCChhHh
Q psy18185         30 PGVLFIDEVHMLDLET----FTYLHRALESA----------------IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLL   89 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~----~~~L~~~~E~~----------------~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~   89 (190)
                      ..|++|||+|.+++..    +++|+.+++..                +.+.||+ |         + |   +..+|++|+
T Consensus       417 ~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~-T---------a-N---~~~i~~aLl  482 (784)
T PRK10787        417 NPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVA-T---------S-N---SMNIPAPLL  482 (784)
T ss_pred             CCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEEE-c---------C-C---CCCCCHHHh
Confidence            3699999999998764    69999999852                1133444 4         2 2   346999999


Q ss_pred             hhhhheeccCCCHHHHHHHHHHHHHh----------cCCCCCHHHHHHHHHhcC-CCCHHHHHHHHHHHHHH--hh--hc
Q psy18185         90 DRLLIIRTTPYNQKDMEAIIKLRANT----------EGHVLDDEALVTLSEIGT-RSTLRYVVQLLTPAALT--AK--TN  154 (190)
Q Consensus        90 SR~~~i~~~~ls~~ei~~iL~~~~~~----------~~~~i~~e~l~~i~~~a~-~gdlR~ai~lL~~~~~~--a~--~~  154 (190)
                      +||.++.|.+|+.+++.+|.++....          ..+.++++++.+|++.+. +.++|..-..++.....  +.  ..
T Consensus       483 ~R~~ii~~~~~t~eek~~Ia~~~L~~k~~~~~~l~~~~l~i~~~ai~~ii~~yt~e~GaR~LeR~I~~i~r~~l~~~~~~  562 (784)
T PRK10787        483 DRMEVIRLSGYTEDEKLNIAKRHLLPKQIERNALKKGELTVDDSAIIGIIRYYTREAGVRSLEREISKLCRKAVKQLLLD  562 (784)
T ss_pred             cceeeeecCCCCHHHHHHHHHHhhhHHHHHHhCCCCCeEEECHHHHHHHHHhCCcccCCcHHHHHHHHHHHHHHHHHHhc
Confidence            99999999999999999998777631          246799999999997631 23455544444443321  11  11


Q ss_pred             CC---CcccHHHHHHHHH
Q psy18185        155 GR---TAISKQDILEVST  169 (190)
Q Consensus       155 g~---~~It~~~V~~~~~  169 (190)
                      +.   -.||.+++.+.++
T Consensus       563 ~~~~~v~v~~~~~~~~lg  580 (784)
T PRK10787        563 KSLKHIEINGDNLHDYLG  580 (784)
T ss_pred             CCCceeeecHHHHHHHhC
Confidence            22   2588888888774

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

Probab=98.67  E-value=6.8e-07  Score=75.72  Aligned_cols=127  Identities=23%  Similarity=0.269  Sum_probs=100.0

Q ss_pred             CCeEEEEecCCCCCH------------HHHHHHHHHhhc---cCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-
Q psy18185         29 VPGVLFIDEVHMLDL------------ETFTYLHRALES---AIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-   92 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~------------~~~~~L~~~~E~---~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-   92 (190)
                      .+-|+||||.|.+..            +..|+|+.-++.   ..+++.|.+||             .|..+.+++|||+ 
T Consensus       210 aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIaaTN-------------~p~~LD~aiRsRFE  276 (368)
T COG1223         210 APCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAATN-------------RPELLDPAIRSRFE  276 (368)
T ss_pred             CCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEeecC-------------ChhhcCHHHHhhhh
Confidence            468999999999842            677888877764   23367788886             3788999999999 


Q ss_pred             hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHH-HHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185         93 LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVV-QLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus        93 ~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai-~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      ..|+|.-++++|...+|...+++..+.++-+ +++++..+ .| +-|... ..|..|..-|..+++..|+-+++.++++.
T Consensus       277 eEIEF~LP~~eEr~~ile~y~k~~Plpv~~~-~~~~~~~t-~g~SgRdikekvlK~aLh~Ai~ed~e~v~~edie~al~k  354 (368)
T COG1223         277 EEIEFKLPNDEERLEILEYYAKKFPLPVDAD-LRYLAAKT-KGMSGRDIKEKVLKTALHRAIAEDREKVEREDIEKALKK  354 (368)
T ss_pred             heeeeeCCChHHHHHHHHHHHHhCCCccccC-HHHHHHHh-CCCCchhHHHHHHHHHHHHHHHhchhhhhHHHHHHHHHh
Confidence            4799999999999999999999988888777 77888774 33 334433 35666667777889999999999999864

>PRK05574 holA DNA polymerase III subunit delta; Reviewed

Probab=98.65  E-value=1e-06  Score=75.95  Aligned_cols=127  Identities=19%  Similarity=0.220  Sum_probs=92.7

Q ss_pred             CCeEEEEecCCCCCHH----HHHHHHHHhhccCC-C--EEEEEecCCcccccCCCCCCCCCCC---ChhHhhhhhheecc
Q psy18185         29 VPGVLFIDEVHMLDLE----TFTYLHRALESAIA-P--IVIFATNRGRCLVRGTDDIISPHGI---PLDLLDRLLIIRTT   98 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~----~~~~L~~~~E~~~~-~--~iIlatn~~~~~~~~t~~~~~~~~l---~~~l~SR~~~i~~~   98 (190)
                      .+++++|++++.+...    ....|...+ ++++ +  ++++.++.       .+   ....+   -..+.++|.++.++
T Consensus        76 ~~klvii~~~~~l~~~~~~~~l~~l~~~l-~~~~~~~~~li~~~~~-------~~---~~~k~~k~~k~~~~~~~~~~~~  144 (340)
T PRK05574         76 DRKLVELRLPEFLTGAKGEKALKRLEAYL-NPLPHPDLLLIVRLPK-------LD---KAKKKSAWFKALKKKAVVVEAQ  144 (340)
T ss_pred             cCeEEEEECCCCCCchhHHHHHHHHHHhc-cCCCCCcEEEEEECCc-------CC---HHHHhhHHHHHHHhCceEEEcC
Confidence            4689999999999654    223333333 3232 2  23333321       00   01122   34677889999999


Q ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185         99 PYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus        99 ~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      +++..++..++...++..|+.+++++++++++. .+||++.+.+-++....++.   ...||.++|..++.-
T Consensus       145 ~~~~~~~~~~i~~~~~~~g~~i~~~a~~~L~~~-~~~d~~~l~~El~KL~l~~~---~~~It~~~I~~~i~~  212 (340)
T PRK05574        145 PPKEAELPQWIQQRLKQQGLQIDAAALQLLAER-VEGNLLALAQELEKLALLYP---DGKITLEDVEEAVPD  212 (340)
T ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-hCchHHHHHHHHHHHHhhcC---CCCCCHHHHHHHHhh
Confidence            999999999999999999999999999999999 69999999999999887652   223999999987643

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=98.64  E-value=1.1e-06  Score=77.22  Aligned_cols=131  Identities=24%  Similarity=0.286  Sum_probs=97.7

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-hhee
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LIIR   96 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~~i~   96 (190)
                      .|+|+|||++.|++..|+.|+.+++++.            +..|++++         |.|+. ...+++++.+|+ ..+.
T Consensus       145 ~GiL~lDEInrL~~~~Q~~LLeam~e~~~~ier~G~s~~~p~rfivia---------T~np~-eg~l~~~LldRf~l~i~  214 (350)
T CHL00081        145 RGILYVDEVNLLDDHLVDILLDSAASGWNTVEREGISIRHPARFVLVG---------SGNPE-EGELRPQLLDRFGMHAE  214 (350)
T ss_pred             CCEEEecChHhCCHHHHHHHHHHHHhCCeEEeeCCeeeecCCCEEEEe---------ccCcc-cCCCCHHHHHHhCceee
Confidence            4899999999999999999999998632            12355555         23432 345889999997 4567


Q ss_pred             ccCCCH-HHHHHHHHHHH-----------------------------HhcCCCCCHHHHHHHHHhcC--C-CCHHHHHHH
Q psy18185         97 TTPYNQ-KDMEAIIKLRA-----------------------------NTEGHVLDDEALVTLSEIGT--R-STLRYVVQL  143 (190)
Q Consensus        97 ~~~ls~-~ei~~iL~~~~-----------------------------~~~~~~i~~e~l~~i~~~a~--~-gdlR~ai~l  143 (190)
                      +..++. ++-.++|++..                             .-.++.++++.+.++++.+.  + .+.|-.+.+
T Consensus       215 l~~~~~~~~e~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~ar~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l  294 (350)
T CHL00081        215 IRTVKDPELRVKIVEQRTSFDKNPQEFREKYEESQEELRSKIVAAQNLLPKVEIDYDLRVKISQICSELDVDGLRGDIVT  294 (350)
T ss_pred             cCCCCChHHHHHHHHhhhccccChhhhhhhhccccccCHHHHHHHHHhcCCCccCHHHHHHHHHHHHHHCCCCChHHHHH
Confidence            776663 44444554421                             12468899999999999841  2 378999999


Q ss_pred             HHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        144 LTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       144 L~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      +..|..+|-.+|+..|+.+||+.++..
T Consensus       295 ~raArA~Aal~GR~~V~pdDv~~~a~~  321 (350)
T CHL00081        295 NRAAKALAAFEGRTEVTPKDIFKVITL  321 (350)
T ss_pred             HHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            999988888899999999999998854

>PRK07452 DNA polymerase III subunit delta; Validated

Probab=98.64  E-value=7.6e-07  Score=76.74  Aligned_cols=131  Identities=15%  Similarity=0.113  Sum_probs=97.6

Q ss_pred             cCCeEEEEecCCCC---CHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCC---
Q psy18185         28 LVPGVLFIDEVHML---DLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPY---  100 (190)
Q Consensus        28 ~~~~Il~IDEi~~L---~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~l---  100 (190)
                      ..++++++++++.+   .++..+.|...++.+++ .++|+++.         +.+-.-......+...+.+..|.++   
T Consensus        60 ~~~rlVvv~~~~~~~~~~~~~~~~L~~~l~~~~~~~~li~~~~---------~~~d~r~k~~k~l~k~~~~~~~~~~~~~  130 (326)
T PRK07452         60 SGGRLVWLKNSPLCQGCSEELLAELERTLPLIPENTHLLLTNT---------KKPDGRLKSTKLLQKLAEEKEFSLIPPW  130 (326)
T ss_pred             CCceEEEEeCchhhccCCHHHHHHHHHHHcCCCCCcEEEEEeC---------CCcchHHHHHHHHHHceeEEEecCCCcc
Confidence            35689999998765   56788899999998665 45555441         1000001223456666777676554   


Q ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        101 NQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       101 s~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +.+++..+++.++++.|+.++++++++++.. .++|++.+.+-|+....++. .++..||.++|..+..
T Consensus       131 ~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~-~g~dl~~l~~EleKL~ly~~-~~~~~It~~~V~~~v~  197 (326)
T PRK07452        131 DTEGLKQLVERTAQELGVKLTPEAAELLAEA-VGNDSRRLYNELEKLALYAE-NSTKPISAEEVKALVS  197 (326)
T ss_pred             cHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-hCccHHHHHHHHHHHHHhcc-CCCCccCHHHHHHHhc
Confidence            5678999999999999999999999999999 69999999999999887632 1244799999998864

>TIGR00763 lon ATP-dependent protease La

Probab=98.63  E-value=1.5e-07  Score=90.37  Aligned_cols=104  Identities=24%  Similarity=0.319  Sum_probs=75.5

Q ss_pred             eEEEEecCCCCCHH----HHHHHHHHhhcc----------------CCCEEEEEecCCcccccCCCCCCCCCCCChhHhh
Q psy18185         31 GVLFIDEVHMLDLE----TFTYLHRALESA----------------IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLD   90 (190)
Q Consensus        31 ~Il~IDEi~~L~~~----~~~~L~~~~E~~----------------~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S   90 (190)
                      .|++|||+|.+++.    ..++|+.+++..                ..+.||++||             ++..++++|++
T Consensus       416 ~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~TtN-------------~~~~i~~~L~~  482 (775)
T TIGR00763       416 PLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIATAN-------------SIDTIPRPLLD  482 (775)
T ss_pred             CEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEEEEecC-------------CchhCCHHHhC
Confidence            59999999999763    358888888731                1234555554             36789999999


Q ss_pred             hhhheeccCCCHHHHHHHHHHHH-----Hh-----cCCCCCHHHHHHHHHhcC-CCCHHHHHHHHHHH
Q psy18185         91 RLLIIRTTPYNQKDMEAIIKLRA-----NT-----EGHVLDDEALVTLSEIGT-RSTLRYVVQLLTPA  147 (190)
Q Consensus        91 R~~~i~~~~ls~~ei~~iL~~~~-----~~-----~~~~i~~e~l~~i~~~a~-~gdlR~ai~lL~~~  147 (190)
                      ||.++.|++|+.++...++++..     +.     +++.++++++.+|++..+ +.++|..-..++..
T Consensus       483 R~~vi~~~~~~~~e~~~I~~~~l~~~~~~~~~l~~~~~~~~~~~l~~i~~~~~~e~g~R~l~r~i~~~  550 (775)
T TIGR00763       483 RMEVIELSGYTEEEKLEIAKKYLIPKALEDHGLKPDELKITDEALLLLIKYYTREAGVRNLERQIEKI  550 (775)
T ss_pred             CeeEEecCCCCHHHHHHHHHHHHHHHHHHHcCCCcceEEECHHHHHHHHHhcChhcCChHHHHHHHHH
Confidence            99999999999999999987654     11     356899999999998632 23555544444433

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.

>CHL00176 ftsH cell division protein; Validated

Probab=98.62  E-value=1.3e-06  Score=82.32  Aligned_cols=126  Identities=22%  Similarity=0.213  Sum_probs=92.8

Q ss_pred             CeEEEEecCCCCC-----------HHHHHHHHHHh---hcc---CCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh
Q psy18185         30 PGVLFIDEVHMLD-----------LETFTYLHRAL---ESA---IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL   92 (190)
Q Consensus        30 ~~Il~IDEi~~L~-----------~~~~~~L~~~~---E~~---~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~   92 (190)
                      +.||||||+|.+.           .+.+..|+.++   +..   .++.+|++||             .|..+++++++++
T Consensus       276 P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN-------------~~~~LD~ALlRpG  342 (638)
T CHL00176        276 PCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATN-------------RVDILDAALLRPG  342 (638)
T ss_pred             CcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecC-------------chHhhhhhhhccc
Confidence            5799999999983           23344455554   321   1245666664             2667888888754


Q ss_pred             ---hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185         93 ---LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus        93 ---~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                         ..+.|++++.++...+|+..+++..+ .++..+..++..+ .| +.+..-+++..++..+.+.+...||.+++.+++
T Consensus       343 RFd~~I~v~lPd~~~R~~IL~~~l~~~~~-~~d~~l~~lA~~t-~G~sgaDL~~lvneAal~a~r~~~~~It~~dl~~Ai  420 (638)
T CHL00176        343 RFDRQITVSLPDREGRLDILKVHARNKKL-SPDVSLELIARRT-PGFSGADLANLLNEAAILTARRKKATITMKEIDTAI  420 (638)
T ss_pred             cCceEEEECCCCHHHHHHHHHHHHhhccc-chhHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHH
Confidence               67899999999999999999877543 4456688888884 55 777777888888777777788899999999988


Q ss_pred             Hh
Q psy18185        169 TL  170 (190)
Q Consensus       169 ~~  170 (190)
                      .-
T Consensus       421 ~r  422 (638)
T CHL00176        421 DR  422 (638)
T ss_pred             HH
Confidence            54

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.61  E-value=3e-07  Score=89.09  Aligned_cols=128  Identities=22%  Similarity=0.210  Sum_probs=92.9

Q ss_pred             HHHHHHHHHHHHHcCccccCCeEEEEecCCCCCH--------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCC
Q psy18185         10 RKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDL--------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISP   81 (190)
Q Consensus        10 R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~--------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~   81 (190)
                      .+.+.+++......+    .+.||||||+|.|..        ++++.|...++.+ ...+|++|+        .+.+...
T Consensus       251 e~~l~~~l~~~~~~~----~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g-~i~~IgaTt--------~~e~r~~  317 (852)
T TIGR03346       251 EERLKAVLNEVTKSE----GQIILFIDELHTLVGAGKAEGAMDAGNMLKPALARG-ELHCIGATT--------LDEYRKY  317 (852)
T ss_pred             HHHHHHHHHHHHhcC----CCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhcC-ceEEEEeCc--------HHHHHHH
Confidence            334555555432222    247999999999952        5778888888765 477888884        2111111


Q ss_pred             CCCChhHhhhhhheeccCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhcCC--CC---HHHHHHHHHHHHHH
Q psy18185         82 HGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANT----EGHVLDDEALVTLSEIGTR--ST---LRYVVQLLTPAALT  150 (190)
Q Consensus        82 ~~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~----~~~~i~~e~l~~i~~~a~~--gd---lR~ai~lL~~~~~~  150 (190)
                      ....+++.+||+.+.+++++.++...+|+.....    .++.++++++..++..+.+  .|   +.+|+.+|+.|+..
T Consensus       318 ~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~~~~e~~~~v~~~d~~i~~~~~ls~~yi~~r~lPdkAidlld~a~a~  395 (852)
T TIGR03346       318 IEKDAALERRFQPVFVDEPTVEDTISILRGLKERYEVHHGVRITDPAIVAAATLSHRYITDRFLPDKAIDLIDEAAAR  395 (852)
T ss_pred             hhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHHHHhccccCCCCCHHHHHHHHHhccccccccCCchHHHHHHHHHHHH
Confidence            4568899999999999999999999999876543    4778999999999988422  24   78999999998753

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.

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=98.58  E-value=7.5e-07  Score=83.10  Aligned_cols=134  Identities=25%  Similarity=0.255  Sum_probs=101.2

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCCC------------EEEEEecCCcccccCCCCCC-CCCCCChhHhhhh-hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIAP------------IVIFATNRGRCLVRGTDDII-SPHGIPLDLLDRL-LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~------------~iIlatn~~~~~~~~t~~~~-~~~~l~~~l~SR~-~~i   95 (190)
                      .|||||||+..+++..++.|+..+|++...            .|+++.         |+++. .-..+++.+++|+ +.+
T Consensus        94 ~GvL~lDe~n~~~~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIa---------t~~~~~~~~~L~~~lLDRf~l~v  164 (584)
T PRK13406         94 GGVLVLAMAERLEPGTAARLAAALDTGEVRLERDGLALRLPARFGLVA---------LDEGAEEDERAPAALADRLAFHL  164 (584)
T ss_pred             CCEEEecCcccCCHHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEe---------cCCChhcccCCCHHhHhheEEEE
Confidence            489999999999999999999999986321            244444         32221 1256888999998 567


Q ss_pred             eccCCCHHHHH-------HHHHHHHHhcCCCCCHHHHHHHHHhcCCC---CHHHHHHHHHHHHHHhhhcCCCcccHHHHH
Q psy18185         96 RTTPYNQKDME-------AIIKLRANTEGHVLDDEALVTLSEIGTRS---TLRYVVQLLTPAALTAKTNGRTAISKQDIL  165 (190)
Q Consensus        96 ~~~~ls~~ei~-------~iL~~~~~~~~~~i~~e~l~~i~~~a~~g---dlR~ai~lL~~~~~~a~~~g~~~It~~~V~  165 (190)
                      .+.+++..+..       +++..+..-.++.++++.+++++..+...   +.|-.+.++..|..+|-.+|+..|+.++|.
T Consensus       165 ~v~~~~~~~~~~~~~~~~~I~~AR~rl~~v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~  244 (584)
T PRK13406        165 DLDGLALRDAREIPIDADDIAAARARLPAVGPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLA  244 (584)
T ss_pred             EcCCCChHHhcccCCCHHHHHHHHHHHccCCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHH
Confidence            88877766542       34444433358899999999998875332   669999999999888888999999999999


Q ss_pred             HHHHhcc
Q psy18185        166 EVSTLFL  172 (190)
Q Consensus       166 ~~~~~f~  172 (190)
                      +++.+.+
T Consensus       245 ~Aa~lvL  251 (584)
T PRK13406        245 LAARLVL  251 (584)
T ss_pred             HHHHHHH
Confidence            9987643

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.58  E-value=1.2e-06  Score=77.99  Aligned_cols=128  Identities=23%  Similarity=0.256  Sum_probs=91.6

Q ss_pred             CeEEEEecCCCCC-----------HHHHHHHHHHhhcc------CCCEEEEEecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHMLD-----------LETFTYLHRALESA------IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~-----------~~~~~~L~~~~E~~------~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.||||||+|.+.           .+.+..++.++..-      ..+.+|++||             .+..++++++.  
T Consensus       225 p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn-------------~~~~ld~allRpg  291 (389)
T PRK03992        225 PSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATN-------------RIDILDPAILRPG  291 (389)
T ss_pred             CeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecC-------------ChhhCCHHHcCCc
Confidence            5799999999982           45566666666421      1245666665             26678888875  


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      |+ ..+.|++++.++..++++..+....+.- +--+..++..+.+-+.+..-.++..|+..|.+++...||.+++.+++.
T Consensus       292 Rfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~-~~~~~~la~~t~g~sgadl~~l~~eA~~~a~~~~~~~i~~~d~~~A~~  370 (389)
T PRK03992        292 RFDRIIEVPLPDEEGRLEILKIHTRKMNLAD-DVDLEELAELTEGASGADLKAICTEAGMFAIRDDRTEVTMEDFLKAIE  370 (389)
T ss_pred             cCceEEEECCCCHHHHHHHHHHHhccCCCCC-cCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence            55 5789999999999999998876544321 123666777743335566666788888888888888999999999986


Q ss_pred             hc
Q psy18185        170 LF  171 (190)
Q Consensus       170 ~f  171 (190)
                      ..
T Consensus       371 ~~  372 (389)
T PRK03992        371 KV  372 (389)
T ss_pred             HH
Confidence            54

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=98.57  E-value=1.6e-06  Score=73.05  Aligned_cols=122  Identities=21%  Similarity=0.241  Sum_probs=88.9

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHhhccC-----------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh
Q psy18185         31 GVLFIDEVHMLDLETFTYLHRALESAI-----------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL   93 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~~~~L~~~~E~~~-----------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~   93 (190)
                      ++++|||+|.++++.++.|+.++|++.                 ...+|+++|.        ..+..-..++.++++||.
T Consensus       107 ~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~--------~~~~g~~~l~~aL~~R~~  178 (262)
T TIGR02640       107 FTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNP--------VEYAGVHETQDALLDRLI  178 (262)
T ss_pred             CEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCC--------ccccceecccHHHHhhcE
Confidence            699999999999999999999998632                 1245666651        111011245788999999


Q ss_pred             heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhc-----C----CCCHHHHHHHHHHHHHHhhhcCCCcccHHHH
Q psy18185         94 IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIG-----T----RSTLRYVVQLLTPAALTAKTNGRTAISKQDI  164 (190)
Q Consensus        94 ~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a-----~----~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V  164 (190)
                      .+.+..++.++...+++.+.     .++++.++.+.+.+     .    .-++|.++.+...+..+   .+...++.+++
T Consensus       179 ~i~i~~P~~~~e~~Il~~~~-----~~~~~~~~~iv~~~~~~R~~~~~~~~~~r~~i~~~~~~~~~---~~~~~~~~~~~  250 (262)
T TIGR02640       179 TIFMDYPDIDTETAILRAKT-----DVAEDSAATIVRLVREFRASGDEITSGLRASLMIAEVATQQ---DIPVDVDDEDF  250 (262)
T ss_pred             EEECCCCCHHHHHHHHHHhh-----CCCHHHHHHHHHHHHHHHhhCCccCCcHHHHHHHHHHHHHc---CCCCCCCcHHH
Confidence            99999999999999998764     36778888877773     0    12478888777776654   34567888888


Q ss_pred             HHHH
Q psy18185        165 LEVS  168 (190)
Q Consensus       165 ~~~~  168 (190)
                      ++++
T Consensus       251 ~~~~  254 (262)
T TIGR02640       251 VDLC  254 (262)
T ss_pred             HHHH
Confidence            8766

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).

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=98.56  E-value=2.5e-06  Score=77.96  Aligned_cols=128  Identities=27%  Similarity=0.302  Sum_probs=89.6

Q ss_pred             CeEEEEecCCCCCH--------------HHHHHHHHHhhccC---CCEEEEEecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHMLDL--------------ETFTYLHRALESAI---APIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~---~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.||||||+|.+..              ...+.|+..++...   ...+|++||             .|..+++.+++  
T Consensus       148 p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn-------------~~~~ld~al~r~g  214 (495)
T TIGR01241       148 PCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATN-------------RPDVLDPALLRPG  214 (495)
T ss_pred             CCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecC-------------ChhhcCHHHhcCC
Confidence            57999999999843              23344555554321   244555564             37889999987  


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      |+ ..+.++.++.++..++++..+...+.. ++..+..++..+..-+.+..-+++..+...+.+++...||.+++.+++.
T Consensus       215 Rfd~~i~i~~Pd~~~R~~il~~~l~~~~~~-~~~~l~~la~~t~G~sgadl~~l~~eA~~~a~~~~~~~i~~~~l~~a~~  293 (495)
T TIGR01241       215 RFDRQVVVDLPDIKGREEILKVHAKNKKLA-PDVDLKAVARRTPGFSGADLANLLNEAALLAARKNKTEITMNDIEEAID  293 (495)
T ss_pred             cceEEEEcCCCCHHHHHHHHHHHHhcCCCC-cchhHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            44 468999999999999999887665433 3444678888842225566666777777677677788899999999886


Q ss_pred             hc
Q psy18185        170 LF  171 (190)
Q Consensus       170 ~f  171 (190)
                      ..
T Consensus       294 ~~  295 (495)
T TIGR01241       294 RV  295 (495)
T ss_pred             HH
Confidence            43

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.

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=98.54  E-value=1.7e-06  Score=81.47  Aligned_cols=132  Identities=24%  Similarity=0.336  Sum_probs=94.9

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC-------------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA-------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~~i   95 (190)
                      .|+|||||+|.|+...|+.|+.++|++..             ...+++|         + |+ ....++++|++|+ ..+
T Consensus       127 ~GiL~lDEi~~l~~~~q~~Ll~~le~g~~~v~r~g~~~~~~~~~~lIat---------~-np-~eg~l~~~L~dR~~l~i  195 (633)
T TIGR02442       127 RGILYIDEVNLLDDHLVDVLLDAAAMGVNRVEREGLSVSHPARFVLIGT---------M-NP-EEGDLRPQLLDRFGLCV  195 (633)
T ss_pred             CCeEEeChhhhCCHHHHHHHHHHHhcCCEEEEECCceeeecCCeEEEEe---------c-CC-CCCCCCHHHHhhcceEE
Confidence            47999999999999999999999997620             1223333         2 32 1346788999998 345


Q ss_pred             eccCCC-HHHHHHHHHHHH-----------------------------HhcCCCCCHHHHHHHHHhcCC---CCHHHHHH
Q psy18185         96 RTTPYN-QKDMEAIIKLRA-----------------------------NTEGHVLDDEALVTLSEIGTR---STLRYVVQ  142 (190)
Q Consensus        96 ~~~~ls-~~ei~~iL~~~~-----------------------------~~~~~~i~~e~l~~i~~~a~~---gdlR~ai~  142 (190)
                      .+.+.. .++..+++.++.                             ....+.++++++++++..+..   .++|-.+.
T Consensus       196 ~v~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~ar~~~~~V~is~~~~~~l~~~~~~~~i~s~Ra~i~  275 (633)
T TIGR02442       196 DVAAPRDPEERVEIIRRRLAFDADPEAFAARWAAEQEELRNRIARARSLLPSVRISDSLIRFISELCIEFGVDGHRADIV  275 (633)
T ss_pred             EccCCCchHHHHHHHHHHHhhccCcHHHHHHhhhhHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHH
Confidence            665554 344334443211                             113578999999999998522   25888899


Q ss_pred             HHHHHHHHhhhcCCCcccHHHHHHHHHhcc
Q psy18185        143 LLTPAALTAKTNGRTAISKQDILEVSTLFL  172 (190)
Q Consensus       143 lL~~~~~~a~~~g~~~It~~~V~~~~~~f~  172 (190)
                      ++..|..+|-.+|+..|+.+||++++.+.+
T Consensus       276 ~~r~Ara~AaL~gr~~V~~~Dv~~A~~lvL  305 (633)
T TIGR02442       276 MARAARALAALDGRRRVTAEDVREAAELVL  305 (633)
T ss_pred             HHHHHHHHHHHcCCCcCCHHHHHHHHHHHh
Confidence            998888888889999999999999997654

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.54  E-value=5.4e-07  Score=87.34  Aligned_cols=118  Identities=16%  Similarity=0.337  Sum_probs=89.3

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccc----cCCCCCCCC-----------
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLV----RGTDDIISP-----------   81 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~----~~t~~~~~~-----------   81 (190)
                      ++.||++||++.++++.++.|+.+++++.            .+++|++||.+...+    .+.+....+           
T Consensus       668 p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSNlg~~~~~~~~~~~~~~~~~~~~~~~~~~~~  747 (852)
T TIGR03345       668 PYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLTSNAGSDLIMALCADPETAPDPEALLEALRPEL  747 (852)
T ss_pred             CCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEeCCCchHHHHHhccCcccCcchHHHHHHHHHHH
Confidence            45899999999999999999999999763            267899998653211    011000000           


Q ss_pred             -CCCChhHhhhhhheeccCCCHHHHHHHHHHHHHh-------c-C--CCCCHHHHHHHHHhcCCC---CHHHHHHHHHHH
Q psy18185         82 -HGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANT-------E-G--HVLDDEALVTLSEIGTRS---TLRYVVQLLTPA  147 (190)
Q Consensus        82 -~~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~-------~-~--~~i~~e~l~~i~~~a~~g---dlR~ai~lL~~~  147 (190)
                       ..++|+|++||.+|.|+|++.+++.+|+......       . |  +.++++++++|++.+ .+   ++|.+.+.++..
T Consensus       748 ~~~f~PEflnRi~iI~F~pLs~e~l~~Iv~~~L~~l~~rl~~~~gi~l~i~d~a~~~La~~g-~~~~~GAR~L~r~Ie~~  826 (852)
T TIGR03345       748 LKVFKPAFLGRMTVIPYLPLDDDVLAAIVRLKLDRIARRLKENHGAELVYSEALVEHIVARC-TEVESGARNIDAILNQT  826 (852)
T ss_pred             HHhccHHHhcceeEEEeCCCCHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHHHHHHHc-CCCCCChHHHHHHHHHH
Confidence             1257899999999999999999999999876542       1 4  578999999999995 44   899988888764

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.

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

Probab=98.54  E-value=2.4e-06  Score=74.96  Aligned_cols=124  Identities=23%  Similarity=0.310  Sum_probs=93.5

Q ss_pred             CeEEEEecCCCCC-----------HHHHHHHHHHhhccCC------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh
Q psy18185         30 PGVLFIDEVHMLD-----------LETFTYLHRALESAIA------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL   92 (190)
Q Consensus        30 ~~Il~IDEi~~L~-----------~~~~~~L~~~~E~~~~------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~   92 (190)
                      +.|+||||+|.+.           .+.|..++.++.+-.+      +.+|+|||+             |..+.|+|+.-.
T Consensus       245 PsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR-------------~D~LDPALLRPG  311 (406)
T COG1222         245 PSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNR-------------PDILDPALLRPG  311 (406)
T ss_pred             CeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCC-------------ccccChhhcCCC
Confidence            5899999999993           4788888888874222      679999984             667888888765


Q ss_pred             ---hheeccCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHhc---CCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHH
Q psy18185         93 ---LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEA-LVTLSEIG---TRSTLRYVVQLLTPAALTAKTNGRTAISKQDIL  165 (190)
Q Consensus        93 ---~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~-l~~i~~~a---~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~  165 (190)
                         ..|+|+.++.+.-..|++.++.+.++  ++++ ++.|++.+   +..|++   .++..|+-+|.++.+..||.++..
T Consensus       312 R~DRkIEfplPd~~gR~~Il~IHtrkM~l--~~dvd~e~la~~~~g~sGAdlk---aictEAGm~AiR~~R~~Vt~~DF~  386 (406)
T COG1222         312 RFDRKIEFPLPDEEGRAEILKIHTRKMNL--ADDVDLELLARLTEGFSGADLK---AICTEAGMFAIRERRDEVTMEDFL  386 (406)
T ss_pred             cccceeecCCCCHHHHHHHHHHHhhhccC--ccCcCHHHHHHhcCCCchHHHH---HHHHHHhHHHHHhccCeecHHHHH
Confidence               57999999999999999999887644  2222 55566663   222444   457888888999999999999888


Q ss_pred             HHHHhc
Q psy18185        166 EVSTLF  171 (190)
Q Consensus       166 ~~~~~f  171 (190)
                      ++..-.
T Consensus       387 ~Av~KV  392 (406)
T COG1222         387 KAVEKV  392 (406)
T ss_pred             HHHHHH
Confidence            877543

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.53  E-value=3.8e-07  Score=88.07  Aligned_cols=128  Identities=18%  Similarity=0.161  Sum_probs=93.2

Q ss_pred             HHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCH--------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCC
Q psy18185          8 KLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDL--------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDII   79 (190)
Q Consensus         8 ~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~--------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~   79 (190)
                      +..+.+.+++.+....     .+.||||||+|.|..        ++.+.|...++.+ ...+|++|+        .+.+.
T Consensus       255 e~e~rl~~i~~~~~~~-----~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg-~l~~IgaTt--------~~ey~  320 (821)
T CHL00095        255 EFEERLKRIFDEIQEN-----NNIILVIDEVHTLIGAGAAEGAIDAANILKPALARG-ELQCIGATT--------LDEYR  320 (821)
T ss_pred             HHHHHHHHHHHHHHhc-----CCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCC-CcEEEEeCC--------HHHHH
Confidence            4455666666654322     236999999998843        4678888888875 477888884        11111


Q ss_pred             CCCCCChhHhhhhhheeccCCCHHHHHHHHHHHHH----hcCCCCCHHHHHHHHHhcCCC---C---HHHHHHHHHHHHH
Q psy18185         80 SPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRAN----TEGHVLDDEALVTLSEIGTRS---T---LRYVVQLLTPAAL  149 (190)
Q Consensus        80 ~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~----~~~~~i~~e~l~~i~~~a~~g---d---lR~ai~lL~~~~~  149 (190)
                      ......+.+.+||+.+.+++++.++...+++....    ..++.++++++..++..+ .|   |   ++.|+.+|+.++.
T Consensus       321 ~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls-~~yi~~r~lPdkaidlld~a~a  399 (821)
T CHL00095        321 KHIEKDPALERRFQPVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLS-DQYIADRFLPDKAIDLLDEAGS  399 (821)
T ss_pred             HHHhcCHHHHhcceEEecCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHh-hccCccccCchHHHHHHHHHHH
Confidence            11335678999999999999999999988876543    256779999999999994 42   3   7899999998875


Q ss_pred             H
Q psy18185        150 T  150 (190)
Q Consensus       150 ~  150 (190)
                      .
T Consensus       400 ~  400 (821)
T CHL00095        400 R  400 (821)
T ss_pred             H
Confidence            3

>smart00350 MCM minichromosome maintenance proteins

Probab=98.52  E-value=4e-06  Score=77.03  Aligned_cols=143  Identities=21%  Similarity=0.177  Sum_probs=93.1

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC--------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-hh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI--------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LI   94 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~--------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~~   94 (190)
                      .|+++|||++.++...|..|+.++|.+.              ...+|.++|-..-+-.++.....-..+|++++||+ ++
T Consensus       301 ~Gil~iDEi~~l~~~~q~~L~e~me~~~i~i~k~G~~~~l~~~~~viAa~NP~~g~y~~~~~~~~n~~l~~~lLsRFdLi  380 (509)
T smart00350      301 NGVCCIDEFDKMDDSDRTAIHEAMEQQTISIAKAGITTTLNARCSVLAAANPIGGRYDPKLTPEENIDLPAPILSRFDLL  380 (509)
T ss_pred             CCEEEEechhhCCHHHHHHHHHHHhcCEEEEEeCCEEEEecCCcEEEEEeCCCCcccCCCcChhhccCCChHHhCceeeE
Confidence            4899999999999999999999998743              13456666521000000000000015889999998 54


Q ss_pred             eec-cCCCHHHHHHHHHHH------------------------------HHh-cCCCCCHHHHHHHHHhc----C-----
Q psy18185         95 IRT-TPYNQKDMEAIIKLR------------------------------ANT-EGHVLDDEALVTLSEIG----T-----  133 (190)
Q Consensus        95 i~~-~~ls~~ei~~iL~~~------------------------------~~~-~~~~i~~e~l~~i~~~a----~-----  133 (190)
                      +.+ .+++.+.-..++...                              |+. -...+++++.++|.+..    .     
T Consensus       381 ~~~~d~~~~~~d~~i~~~i~~~~~~~~~~~~~~~~~~~~~~~l~~yi~~ar~~~~P~ls~~~~~~i~~~y~~~R~~~~~~  460 (509)
T smart00350      381 FVVLDEVDEERDRELAKHVVDLHRYSHPEPDEADEVPISQEFLRKYIAYAREKIKPKLSEEAAEKLVKAYVDLRKEDSQS  460 (509)
T ss_pred             EEecCCCChHHHHHHHHHHHHhhcccCccccccccccCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHhccccccc
Confidence            433 344443333333221                              111 12368999999988762    1     


Q ss_pred             ------CCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhcc
Q psy18185        134 ------RSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFL  172 (190)
Q Consensus       134 ------~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~  172 (190)
                            .-++|....++..+-.+|.-.++..|+.+||.++..+|.
T Consensus       461 ~~~~~~~~t~R~l~sliRla~A~A~l~~r~~V~~~Dv~~ai~l~~  505 (509)
T smart00350      461 EARSSIPITVRQLESIIRLSEAHAKMRLSDVVEEADVEEAIRLLR  505 (509)
T ss_pred             ccccccCcCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHHHH
Confidence                  116788888888888889889999999999999998874

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.51  E-value=1.9e-06  Score=75.69  Aligned_cols=126  Identities=21%  Similarity=0.250  Sum_probs=87.7

Q ss_pred             CeEEEEecCCCCC-----------HHHHHHHHHHhhc------cCCCEEEEEecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHMLD-----------LETFTYLHRALES------AIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~-----------~~~~~~L~~~~E~------~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.||||||+|.+.           .+.+..+..++..      ...+.+|++||             .+..++++++.  
T Consensus       216 p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn-------------~~~~ld~al~r~g  282 (364)
T TIGR01242       216 PSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATN-------------RPDILDPALLRPG  282 (364)
T ss_pred             CcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecC-------------ChhhCChhhcCcc
Confidence            5799999999983           3445555555532      12245666664             26678888875  


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCH-HHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDD-EALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~-e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      |+ ..+.|++++.++..++++..+...++  ++ --...++..+.+-+.+..-.++..|+..|.+.++..||.+++..++
T Consensus       283 rfd~~i~v~~P~~~~r~~Il~~~~~~~~l--~~~~~~~~la~~t~g~sg~dl~~l~~~A~~~a~~~~~~~i~~~d~~~a~  360 (364)
T TIGR01242       283 RFDRIIEVPLPDFEGRLEILKIHTRKMKL--AEDVDLEAIAKMTEGASGADLKAICTEAGMFAIREERDYVTMDDFIKAV  360 (364)
T ss_pred             cCceEEEeCCcCHHHHHHHHHHHHhcCCC--CccCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHH
Confidence            54 57899999999999999987755432  22 2356677774222445555667788888888888899999999887


Q ss_pred             Hh
Q psy18185        169 TL  170 (190)
Q Consensus       169 ~~  170 (190)
                      ..
T Consensus       361 ~~  362 (364)
T TIGR01242       361 EK  362 (364)
T ss_pred             HH
Confidence            54

Many proteins may score above the trusted cutoff because an internal

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=98.47  E-value=3.7e-06  Score=78.63  Aligned_cols=133  Identities=26%  Similarity=0.306  Sum_probs=94.4

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC-------------CCEEEEEecCCcccccCCCCCC-CCCCCChhHhhhhhh-
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI-------------APIVIFATNRGRCLVRGTDDII-SPHGIPLDLLDRLLI-   94 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~-------------~~~iIlatn~~~~~~~~t~~~~-~~~~l~~~l~SR~~~-   94 (190)
                      .|+|||||++.|++..|+.|+.+++++.             ....+++|         + |+. .-..+++++.+|+.+ 
T Consensus        85 ~GvL~lDEi~rl~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt---------~-np~e~~g~L~~~LldRf~l~  154 (589)
T TIGR02031        85 RGVLYVDMANLLDDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIAT---------Y-DPAEGGGGLPDHLLDRLALH  154 (589)
T ss_pred             CCcEeccchhhCCHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEe---------c-CCccccCCCCHHHHHhccCe
Confidence            3799999999999999999999998753             11233344         2 221 114688999999843 


Q ss_pred             eeccC-CCHHHHHHHHHHHH-----------------------HhcCCCCCHHHHHHHHHhcCC---CCHHHHHHHHHHH
Q psy18185         95 IRTTP-YNQKDMEAIIKLRA-----------------------NTEGHVLDDEALVTLSEIGTR---STLRYVVQLLTPA  147 (190)
Q Consensus        95 i~~~~-ls~~ei~~iL~~~~-----------------------~~~~~~i~~e~l~~i~~~a~~---gdlR~ai~lL~~~  147 (190)
                      +.+.. .+.++-.+++++..                       ....+.++++++++|+..+..   .++|-.+.++..|
T Consensus       155 v~~~~~~~~~er~eil~~~~~~~~~~~~~~~~~~~~~i~~ar~~~~~V~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~A  234 (589)
T TIGR02031       155 VSLEDVASQDLRVEIVRRERCNEVFRMNDELELLRGQIEAARELLPQVTISAEQVKELVLTAASLGISGHRADLFAVRAA  234 (589)
T ss_pred             eecCCCCCHHHHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhcCCccCCHHHHHHHHHHHHHcCCCCccHHHHHHHHH
Confidence            33332 33333334443321                       125788999999999998522   2589999999888


Q ss_pred             HHHhhhcCCCcccHHHHHHHHHhcc
Q psy18185        148 ALTAKTNGRTAISKQDILEVSTLFL  172 (190)
Q Consensus       148 ~~~a~~~g~~~It~~~V~~~~~~f~  172 (190)
                      ..+|-.+|+..|+.+||+.++.+.+
T Consensus       235 rA~Aal~gr~~V~~~Dv~~a~~lvl  259 (589)
T TIGR02031       235 KAHAALHGRTEVTEEDLKLAVELVL  259 (589)
T ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHh
Confidence            8888889999999999999997644

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.

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

Probab=98.45  E-value=4.8e-06  Score=74.44  Aligned_cols=128  Identities=20%  Similarity=0.196  Sum_probs=92.0

Q ss_pred             CeEEEEecCCCCC-----------HHHHHHHHHHhh---cc---CCCEEEEEecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHMLD-----------LETFTYLHRALE---SA---IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~-----------~~~~~~L~~~~E---~~---~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.||||||+|.+.           .+.+..+..++.   ..   ..+.+|++||             .|..++++++.  
T Consensus       239 P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN-------------~~d~LDpAllR~G  305 (398)
T PTZ00454        239 PSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATN-------------RADTLDPALLRPG  305 (398)
T ss_pred             CeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecC-------------CchhCCHHHcCCC
Confidence            5799999999873           234444544443   21   1245777775             37789998876  


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      |+ ..+.|++++.++...+++....+.++.-+- -+..++..+.+-+....-+++..|...|.++++..|+.+++.+++.
T Consensus       306 Rfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dv-d~~~la~~t~g~sgaDI~~l~~eA~~~A~r~~~~~i~~~df~~A~~  384 (398)
T PTZ00454        306 RLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEV-DLEDFVSRPEKISAADIAAICQEAGMQAVRKNRYVILPKDFEKGYK  384 (398)
T ss_pred             cccEEEEeCCcCHHHHHHHHHHHHhcCCCCccc-CHHHHHHHcCCCCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHH
Confidence            55 468999999999999999887766543222 3566777743446777778899998888888888999999999886


Q ss_pred             hc
Q psy18185        170 LF  171 (190)
Q Consensus       170 ~f  171 (190)
                      ..
T Consensus       385 ~v  386 (398)
T PTZ00454        385 TV  386 (398)
T ss_pred             HH
Confidence            54

>PRK05629 hypothetical protein; Validated

Probab=98.42  E-value=4.8e-06  Score=71.91  Aligned_cols=126  Identities=9%  Similarity=0.053  Sum_probs=98.1

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      ..++++++++.+...+.....+...++.+++ .++|+++..       .+   .-..+...++..+.++.+.+++..++.
T Consensus        63 ~~~rlV~v~~~~~~~~~~~~~l~~~l~~~~~~~~Lil~~~~-------~~---~~kk~~K~l~k~~~~ve~~~~~~~~l~  132 (318)
T PRK05629         63 GEDRVIVLTNMEQAGKEPTDLALSAAVDPSPGIYLIIMHSG-------GG---RTKSMVPKLEKIAVVHEAAKLKPRERP  132 (318)
T ss_pred             CCceEEEEeChHhcChhHHHHHHHHHhCCCCCeEEEEEcCC-------cc---hhhHHHHHHHhcceEeeCCCCCHHHHH
Confidence            3568999999988777677788888888765 455655521       10   011222356777888999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      .++..++++.|+.++++++++++.. +++|+..+-+-++.+..+.    .+.||.++|..++
T Consensus       133 ~wi~~~~~~~g~~i~~~A~~~L~~~-~g~dl~~l~~EleKL~~~~----~~~It~e~V~~~v  189 (318)
T PRK05629        133 GWVTQEFKNHGVRPTPDVVHALLEG-VGSDLRELASAISQLVEDT----QGNVTVEKVRAYY  189 (318)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHH-HCccHHHHHHHHHHHHhcC----CCCcCHHHHHHHh
Confidence            9999999999999999999999999 6999999988888775432    3469999999876

>PRK06585 holA DNA polymerase III subunit delta; Reviewed

Probab=98.41  E-value=1.5e-05  Score=69.20  Aligned_cols=127  Identities=13%  Similarity=0.099  Sum_probs=91.1

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhH--hhhhhheeccCCCHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDL--LDRLLIIRTTPYNQKD  104 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l--~SR~~~i~~~~ls~~e  104 (190)
                      ..+++|++.+.+   +.....|...++.++. .++|+.+..       .+   ....+...+  ...+..+.+.+++..+
T Consensus        80 ~~~rlViv~~~~---~~~~~~L~~~l~~~~~~~~lil~~~~-------~~---~~~kl~k~~~~~~~~~~v~~~~~~~~~  146 (343)
T PRK06585         80 GGRRLIWVRAGS---KNLAAALKALLESPPGDAFIVIEAGD-------LK---KGSSLRKLFETAAYAAAIPCYADDERD  146 (343)
T ss_pred             CCceEEEEECCc---hhHHHHHHHHHcCCCCCcEEEEEcCC-------CC---cccHHHHHHhcCCCeeEEecCCCCHHH
Confidence            456799999653   4455667777887654 344443320       10   011111111  1223567888999999


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        105 MEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       105 i~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      +.+++..+++..|+.++++++++++.. .+||++.+.+-|+....++.  +.+.||.++|..++..
T Consensus       147 l~~~i~~~~~~~g~~i~~~a~~~L~~~-~g~dl~~l~~EleKL~ly~~--~~~~It~edV~~lv~~  209 (343)
T PRK06585        147 LARLIDDELAEAGLRITPDARALLVAL-LGGDRLASRNEIEKLALYAH--GKGEITLDDVRAVVGD  209 (343)
T ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHH-hCCCHHHHHHHHHHHHHhcC--CCCCCCHHHHHHHhCC
Confidence            999999999999999999999999999 69999999999999987752  3457999999988743

>KOG1969|consensus

Probab=98.39  E-value=9.6e-06  Score=76.53  Aligned_cols=145  Identities=21%  Similarity=0.196  Sum_probs=108.0

Q ss_pred             hHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccC-----------------------CCEEEE
Q psy18185          7 DKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAI-----------------------APIVIF   63 (190)
Q Consensus         7 ~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~-----------------------~~~iIl   63 (190)
                      ..+++.|...|+...--+ ....+.-|+|||||--.+.+.+.|+.+++...                       .| ||.
T Consensus       366 ~~v~~kI~~avq~~s~l~-adsrP~CLViDEIDGa~~~~Vdvilslv~a~~k~~~Gkq~~~~~~rkkkr~~~L~RP-IIC  443 (877)
T KOG1969|consen  366 PMVKEKIENAVQNHSVLD-ADSRPVCLVIDEIDGAPRAAVDVILSLVKATNKQATGKQAKKDKKRKKKRSKLLTRP-IIC  443 (877)
T ss_pred             HHHHHHHHHHHhhccccc-cCCCcceEEEecccCCcHHHHHHHHHHHHhhcchhhcCcccchhhhhhhccccccCC-EEE
Confidence            346777777776642221 11246789999999999999999999998111                       13 666


Q ss_pred             EecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHH
Q psy18185         64 ATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQL  143 (190)
Q Consensus        64 atn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~l  143 (190)
                      +||.         -+ -|  -..+||--|.++.|.|.+..-+.+.|+.+|..||+.++..++..|++. +.+|+|..||.
T Consensus       444 ICNd---------LY-aP--aLR~Lr~~A~ii~f~~p~~s~Lv~RL~~IC~rE~mr~d~~aL~~L~el-~~~DIRsCINt  510 (877)
T KOG1969|consen  444 ICND---------LY-AP--ALRPLRPFAEIIAFVPPSQSRLVERLNEICHRENMRADSKALNALCEL-TQNDIRSCINT  510 (877)
T ss_pred             EecC---------cc-ch--hhhhcccceEEEEecCCChhHHHHHHHHHHhhhcCCCCHHHHHHHHHH-hcchHHHHHHH
Confidence            6752         12 12  234678889999999999999999999999999999999999999999 59999999999


Q ss_pred             HHHHHHHhhhcCCCcccHHHHHHH
Q psy18185        144 LTPAALTAKTNGRTAISKQDILEV  167 (190)
Q Consensus       144 L~~~~~~a~~~g~~~It~~~V~~~  167 (190)
                      |+.++...++. ++.+++.++...
T Consensus       511 LQfLa~~~~r~-ds~i~~~~i~a~  533 (877)
T KOG1969|consen  511 LQFLASNVDRR-DSSISVKLICAK  533 (877)
T ss_pred             HHHHHHhcccc-cccchhhhhhhh
Confidence            99988665542 224555555443

>PRK07914 hypothetical protein; Reviewed

Probab=98.36  E-value=9.1e-06  Score=70.28  Aligned_cols=127  Identities=8%  Similarity=0.078  Sum_probs=97.3

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhh-hhheeccCC-CHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR-LLIIRTTPY-NQKD  104 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR-~~~i~~~~l-s~~e  104 (190)
                      ..+++++++++..+..+....|...++.+++ .++|++++        . +. ....+-.+++.. +.++.+.++ +..+
T Consensus        63 ~~rRlV~v~~~~~~~~~~~~~l~~~l~~~~~~t~lil~~~--------~-~~-~~kk~~K~L~k~g~~~v~~~~~~~~~~  132 (320)
T PRK07914         63 AEERVVVLEAAAEAGKDAAALILSAAADLPPGTVLVVVHS--------G-GG-RAKALANQLRKLGAEVHPCARITKAAE  132 (320)
T ss_pred             CCceEEEEeChHhccHHHHHHHHHHHhCCCCCeEEEEEec--------C-Cc-chhHHHHHHHHCCCEEEecCCCCCHHH
Confidence            3568999999988877777889999999766 55666552        1 10 111222345544 358899998 9999


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        105 MEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       105 i~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +..++..+++..|+.++++++++++.. .+||+..+-+-|+.+..+    ..+.||.++|..++.
T Consensus       133 l~~wi~~~a~~~g~~i~~~A~~~L~~~-~g~dl~~l~~EleKL~~~----~~~~It~e~V~~~v~  192 (320)
T PRK07914        133 RADFVRKEFRSLRVKVDDDTVTALLDA-VGSDLRELASACSQLVAD----TGGAVDAAAVRRYHS  192 (320)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHH-HCccHHHHHHHHHHHhcC----CCCCcCHHHHHHHcC
Confidence            999999999999999999999999999 689999999888865422    224799999998873

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.35  E-value=3e-06  Score=81.94  Aligned_cols=117  Identities=18%  Similarity=0.240  Sum_probs=83.5

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCccccc------CCC--CCC--C-C----
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVR------GTD--DII--S-P----   81 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~------~t~--~~~--~-~----   81 (190)
                      ++.|+++||+|.++++.++.|++++|++.            .++||++||.+..-+.      |..  ...  . .    
T Consensus       611 p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Tsn~g~~~i~~~~~~~gf~~~~~~~~~~~~~~~  690 (821)
T CHL00095        611 PYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTSNLGSKVIETNSGGLGFELSENQLSEKQYKRL  690 (821)
T ss_pred             CCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEeCCcchHHHHhhccccCCcccccccccccHHHH
Confidence            45899999999999999999999999853            2578999886532110      100  000  0 0    


Q ss_pred             ---------CCCChhHhhhh-hheeccCCCHHHHHHHHHHHHHh-------c--CCCCCHHHHHHHHHhcC--CCCHHHH
Q psy18185         82 ---------HGIPLDLLDRL-LIIRTTPYNQKDMEAIIKLRANT-------E--GHVLDDEALVTLSEIGT--RSTLRYV  140 (190)
Q Consensus        82 ---------~~l~~~l~SR~-~~i~~~~ls~~ei~~iL~~~~~~-------~--~~~i~~e~l~~i~~~a~--~gdlR~a  140 (190)
                               ..++|+|++|+ .++.|+|++.+++.+|+....+.       .  .+.+++++.++|++.+.  ..++|-.
T Consensus       691 ~~~~~~~~~~~f~peflnRid~ii~F~pL~~~~l~~Iv~~~l~~l~~rl~~~~i~l~~~~~~~~~La~~~~~~~~GAR~l  770 (821)
T CHL00095        691 SNLVNEELKQFFRPEFLNRLDEIIVFRQLTKNDVWEIAEIMLKNLFKRLNEQGIQLEVTERIKTLLIEEGYNPLYGARPL  770 (821)
T ss_pred             HHHHHHHHHHhcCHHHhccCCeEEEeCCCCHHHHHHHHHHHHHHHHHHHHHCCcEEEECHHHHHHHHHhcCCCCCChhhH
Confidence                     11468999999 89999999999999998877653       2  46899999999999852  2345544


Q ss_pred             HHHHH
Q psy18185        141 VQLLT  145 (190)
Q Consensus       141 i~lL~  145 (190)
                      -..++
T Consensus       771 ~r~i~  775 (821)
T CHL00095        771 RRAIM  775 (821)
T ss_pred             HHHHH
Confidence            44443

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

Probab=98.33  E-value=3.3e-06  Score=76.31  Aligned_cols=127  Identities=19%  Similarity=0.218  Sum_probs=89.0

Q ss_pred             CeEEEEecCCCCC-----------HHHHHHHHHHhhc------cCCCEEEEEecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHMLD-----------LETFTYLHRALES------AIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~-----------~~~~~~L~~~~E~------~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.|+||||+|.+.           .+.+..++.++..      ...+.+|++||             .+..+++.+++  
T Consensus       277 P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATN-------------r~d~LDpaLlRpG  343 (438)
T PTZ00361        277 PSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATN-------------RIESLDPALIRPG  343 (438)
T ss_pred             CcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecC-------------ChHHhhHHhccCC
Confidence            5799999999873           2334444444421      22356777776             26678888764  


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDE-ALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e-~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      |+ ..|.|++++.++..+|++....+..+  +++ -+..++..+.+.+....-.++..|+..|.++++..||.+++.+++
T Consensus       344 Rfd~~I~~~~Pd~~~R~~Il~~~~~k~~l--~~dvdl~~la~~t~g~sgAdI~~i~~eA~~~Alr~~r~~Vt~~D~~~A~  421 (438)
T PTZ00361        344 RIDRKIEFPNPDEKTKRRIFEIHTSKMTL--AEDVDLEEFIMAKDELSGADIKAICTEAGLLALRERRMKVTQADFRKAK  421 (438)
T ss_pred             eeEEEEEeCCCCHHHHHHHHHHHHhcCCC--CcCcCHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCccCHHHHHHHH
Confidence            55 57899999999999999988766543  332 245556553333555556678888888988899999999999988


Q ss_pred             Hhc
Q psy18185        169 TLF  171 (190)
Q Consensus       169 ~~f  171 (190)
                      ...
T Consensus       422 ~~v  424 (438)
T PTZ00361        422 EKV  424 (438)
T ss_pred             HHH
Confidence            654

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

Probab=98.33  E-value=3.8e-06  Score=80.30  Aligned_cols=118  Identities=21%  Similarity=0.299  Sum_probs=83.5

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccc-c---CCCCCCC--------CCCC
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLV-R---GTDDIIS--------PHGI   84 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~-~---~t~~~~~--------~~~l   84 (190)
                      +++|++|||+|.++++.++.|+++++++.            .+++|++||.+...+ +   |......        -..+
T Consensus       553 p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~Tsn~g~~~~~~~~~~f~~~~~~~~~~~~~~~~f  632 (731)
T TIGR02639       553 PHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVILIMTSNAGASEMSKPPIGFGSENVESKSDKAIKKLF  632 (731)
T ss_pred             CCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCEEEECCCcchhhhhhccCCcchhhhHHHHHHHHHhhc
Confidence            45899999999999999999999999752            146888887532111 0   0000000        0125


Q ss_pred             ChhHhhhh-hheeccCCCHHHHHHHHHHHHHh-------c--CCCCCHHHHHHHHHhcC--CCCHHHHHHHHHH
Q psy18185         85 PLDLLDRL-LIIRTTPYNQKDMEAIIKLRANT-------E--GHVLDDEALVTLSEIGT--RSTLRYVVQLLTP  146 (190)
Q Consensus        85 ~~~l~SR~-~~i~~~~ls~~ei~~iL~~~~~~-------~--~~~i~~e~l~~i~~~a~--~gdlR~ai~lL~~  146 (190)
                      +|+|++|+ .++.|+||+.+++..++....++       .  .+.++++++++|++.+.  +.++|..-..++.
T Consensus       633 ~pef~~Rid~Vi~F~pLs~e~l~~Iv~~~L~~l~~~l~~~~~~l~i~~~a~~~La~~~~~~~~GaR~l~r~i~~  706 (731)
T TIGR02639       633 SPEFRNRLDAIIHFNPLSEEVLEKIVQKFVDELSKQLNEKNIKLELTDDAKKYLAEKGYDEEFGARPLARVIQE  706 (731)
T ss_pred             ChHHHhcCCeEEEcCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEeCHHHHHHHHHhCCCcccCchHHHHHHHH
Confidence            78999999 58999999999999999887652       2  36899999999999742  2456655555544

>CHL00206 ycf2 Ycf2; Provisional

Probab=98.32  E-value=1.3e-05  Score=82.31  Aligned_cols=127  Identities=20%  Similarity=0.246  Sum_probs=90.5

Q ss_pred             CCeEEEEecCCCCCHH-----HHHHHHHHhhcc-----CC-CEEEEEecCCcccccCCCCCCCCCCCChhHhh--hh-hh
Q psy18185         29 VPGVLFIDEVHMLDLE-----TFTYLHRALESA-----IA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--RL-LI   94 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~-----~~~~L~~~~E~~-----~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--R~-~~   94 (190)
                      .|.||||||+|.++..     ..+.|+..+...     .. +++|+|||             .|..++|++++  |+ ..
T Consensus      1732 SPCIIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~~~s~~~VIVIAATN-------------RPD~LDPALLRPGRFDR~ 1798 (2281)
T CHL00206       1732 SPCIIWIPNIHDLNVNESNYLSLGLLVNSLSRDCERCSTRNILVIASTH-------------IPQKVDPALIAPNKLNTC 1798 (2281)
T ss_pred             CCeEEEEEchhhcCCCccceehHHHHHHHhccccccCCCCCEEEEEeCC-------------CcccCCHhHcCCCCCCeE
Confidence            4689999999999752     245666666532     12 34555554             38899999998  55 56


Q ss_pred             eeccCCCHHHHHHHHHHHHHhcCCCCCHHH--HHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185         95 IRTTPYNQKDMEAIIKLRANTEGHVLDDEA--LVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus        95 i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~--l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      |.+..++..+-.+++.......|+.++++.  +..+|+.+.+-+.+..-+++..|+..|.++++..|+.++++.|+
T Consensus      1799 I~Ir~Pd~p~R~kiL~ILl~tkg~~L~~~~vdl~~LA~~T~GfSGADLanLvNEAaliAirq~ks~Id~~~I~~Al 1874 (2281)
T CHL00206       1799 IKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHTNGFGSITMGSNARDLVALTNEALSISITQKKSIIDTNTIRSAL 1874 (2281)
T ss_pred             EEeCCCCchhHHHHHHHHHhhcCCCCCcccccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHH
Confidence            777777766666655533333455555442  67788885344778888899999999999999999999999888

>TIGR01817 nifA Nif-specific regulatory protein

Probab=98.31  E-value=5.1e-06  Score=76.54  Aligned_cols=127  Identities=20%  Similarity=0.235  Sum_probs=92.3

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i   95 (190)
                      .|+|||||||.|+.+.|..|+++++++.            .+.+|++|+....      .......+.++|..|+  ..+
T Consensus       291 ~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s~~~l~------~~~~~~~f~~~L~~rl~~~~i  364 (534)
T TIGR01817       291 GGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDLE------EAVAKGEFRADLYYRINVVPI  364 (534)
T ss_pred             CCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeCCCCHH------HHHHcCCCCHHHHHHhcCCee
Confidence            4899999999999999999999998743            1357777742100      0001234557788886  457


Q ss_pred             eccCCC--HHHHHHHHHHHHHh----c--CCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHH
Q psy18185         96 RTTPYN--QKDMEAIIKLRANT----E--GHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDIL  165 (190)
Q Consensus        96 ~~~~ls--~~ei~~iL~~~~~~----~--~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~  165 (190)
                      .++|+.  .+|+..++..-+.+    .  .+.+++++++.|..+.+.|++|..-+.++.+...+.   ...|+.+++.
T Consensus       365 ~lPpLreR~eDi~~L~~~~l~~~~~~~~~~~~~s~~a~~~L~~~~WPGNvrEL~~v~~~a~~~~~---~~~I~~~~l~  439 (534)
T TIGR01817       365 FLPPLRERREDIPLLAEAFLEKFNRENGRPLTITPSAIRVLMSCKWPGNVRELENCLERTATLSR---SGTITRSDFS  439 (534)
T ss_pred             eCCCcccccccHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCC---CCcccHHHCc
Confidence            899998  46776665554432    2  267999999999999889999999999999886543   3468777764

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.31  E-value=3.6e-06  Score=81.78  Aligned_cols=126  Identities=21%  Similarity=0.193  Sum_probs=89.9

Q ss_pred             HHHHHHHHHHHHcCccccCCeEEEEecCCCCCH--------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCC
Q psy18185         11 KEINKVVNKYIDQGIAELVPGVLFIDEVHMLDL--------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus        11 ~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~--------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      +.+.+++......+    .+.||||||+|.|..        ++++.|...++.+ ...+|++|+        .+.+....
T Consensus       257 ~~lk~~~~~~~~~~----~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~g-~l~~IgaTt--------~~e~r~~~  323 (857)
T PRK10865        257 ERLKGVLNDLAKQE----GNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG-ELHCVGATT--------LDEYRQYI  323 (857)
T ss_pred             HHHHHHHHHHHHcC----CCeEEEEecHHHhccCCCCccchhHHHHhcchhhcC-CCeEEEcCC--------CHHHHHHh
Confidence            34555555432222    246999999999953        4789999999886 478888884        21111123


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANT----EGHVLDDEALVTLSEIG-----TRSTLRYVVQLLTPAAL  149 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~----~~~~i~~e~l~~i~~~a-----~~gdlR~ai~lL~~~~~  149 (190)
                      ...+++++||+.+.+..++.++...+|+.....    .++.++++++...+..+     .+.=+..|+.+++.++.
T Consensus       324 ~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~~~~e~~~~v~~~d~a~~~a~~ls~ry~~~~~~pdkAi~LiD~aaa  399 (857)
T PRK10865        324 EKDAALERRFQKVFVAEPSVEDTIAILRGLKERYELHHHVQITDPAIVAAATLSHRYIADRQLPDKAIDLIDEAAS  399 (857)
T ss_pred             hhcHHHHhhCCEEEeCCCCHHHHHHHHHHHhhhhccCCCCCcCHHHHHHHHHHhhccccCCCCChHHHHHHHHHhc
Confidence            467899999998999999999999999766543    47789999998876663     12344788999988874

>CHL00195 ycf46 Ycf46; Provisional

Probab=98.26  E-value=4e-05  Score=70.25  Aligned_cols=130  Identities=20%  Similarity=0.243  Sum_probs=90.1

Q ss_pred             CeEEEEecCCCCCH------------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhh--hh-hh
Q psy18185         30 PGVLFIDEVHMLDL------------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--RL-LI   94 (190)
Q Consensus        30 ~~Il~IDEi~~L~~------------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--R~-~~   94 (190)
                      +.||||||+|.+..            ..+..|+..+++...+++|++|         |+   .+..++++++.  |+ ..
T Consensus       319 P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaT---------TN---~~~~Ld~allR~GRFD~~  386 (489)
T CHL00195        319 PCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVAT---------AN---NIDLLPLEILRKGRFDEI  386 (489)
T ss_pred             CcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEe---------cC---ChhhCCHHHhCCCcCCeE
Confidence            57999999997632            2445566667665556666666         43   37889999876  66 57


Q ss_pred             eeccCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhcc
Q psy18185         95 IRTTPYNQKDMEAIIKLRANTEGHV-LDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFL  172 (190)
Q Consensus        95 i~~~~ls~~ei~~iL~~~~~~~~~~-i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~  172 (190)
                      +.++.++.++-.++++....+.+.. .++.-++.+++.+.+-+-...-+++..|...|..++ ..+|.+++..++..+.
T Consensus       387 i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSGAdI~~lv~eA~~~A~~~~-~~lt~~dl~~a~~~~~  464 (489)
T CHL00195        387 FFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIAFYEK-REFTTDDILLALKQFI  464 (489)
T ss_pred             EEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCCCHHHHHHHHHHHHHHHHHcC-CCcCHHHHHHHHHhcC
Confidence            8999999999999999888775432 335557888888433244555555666666665444 4689999988886543

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=98.26  E-value=6.8e-06  Score=78.82  Aligned_cols=118  Identities=19%  Similarity=0.221  Sum_probs=82.1

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccc-c---CC--CCCC------CCCCC
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLV-R---GT--DDII------SPHGI   84 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~-~---~t--~~~~------~~~~l   84 (190)
                      +++|+++||+|.++++.++.|++++|++.            .+++|++||.+...+ +   |.  ++..      .-..+
T Consensus       557 p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN~g~~~~~~~~~g~~~~~~~~~~~~~~~~~f  636 (758)
T PRK11034        557 PHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIF  636 (758)
T ss_pred             CCcEEEeccHhhhhHHHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCCcCHHHHhhcccCcccchhhHHHHHHHHHhc
Confidence            35899999999999999999999999652            246888888431110 0   00  0000      00235


Q ss_pred             ChhHhhhhh-heeccCCCHHHHHHHHHHHHHh---------cCCCCCHHHHHHHHHhcCC--CCHHHHHHHHHH
Q psy18185         85 PLDLLDRLL-IIRTTPYNQKDMEAIIKLRANT---------EGHVLDDEALVTLSEIGTR--STLRYVVQLLTP  146 (190)
Q Consensus        85 ~~~l~SR~~-~i~~~~ls~~ei~~iL~~~~~~---------~~~~i~~e~l~~i~~~a~~--gdlR~ai~lL~~  146 (190)
                      +|+|+.|+- ++.|+|++.+++.+|+.....+         ..+.++++++++|++.+..  .++|-.-..++.
T Consensus       637 ~pefl~Rid~ii~f~~L~~~~l~~I~~~~l~~~~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GAR~l~r~i~~  710 (758)
T PRK11034        637 TPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQAQLDQKGVSLEVSQEARDWLAEKGYDRAMGARPMARVIQD  710 (758)
T ss_pred             CHHHHccCCEEEEcCCCCHHHHHHHHHHHHHHHHHHHHHCCCCceECHHHHHHHHHhCCCCCCCCchHHHHHHH
Confidence            789999995 8899999999999998765431         3567899999999988522  345544444443

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.24  E-value=8.8e-06  Score=79.04  Aligned_cols=120  Identities=22%  Similarity=0.346  Sum_probs=88.4

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCccccc---CCCCC---------CCCCCC
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVR---GTDDI---------ISPHGI   84 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~---~t~~~---------~~~~~l   84 (190)
                      ++.||++||++.++++.++.|+++++++.            .+++|++||.+...+.   +..+.         .-...+
T Consensus       667 p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TSn~g~~~~~~~~~~~~~~~~~~~~~~~~~~~F  746 (852)
T TIGR03346       667 PYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSNLGSQFIQELAGGDDYEEMREAVMEVLRAHF  746 (852)
T ss_pred             CCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeCCcchHhHhhhcccccHHHHHHHHHHHHHhhc
Confidence            34799999999999999999999999763            1568888885321110   00000         001235


Q ss_pred             ChhHhhhh-hheeccCCCHHHHHHHHHHHHHh-------c--CCCCCHHHHHHHHHhcC--CCCHHHHHHHHHHHH
Q psy18185         85 PLDLLDRL-LIIRTTPYNQKDMEAIIKLRANT-------E--GHVLDDEALVTLSEIGT--RSTLRYVVQLLTPAA  148 (190)
Q Consensus        85 ~~~l~SR~-~~i~~~~ls~~ei~~iL~~~~~~-------~--~~~i~~e~l~~i~~~a~--~gdlR~ai~lL~~~~  148 (190)
                      .|+|..|+ .++.|.|++.+++.+|+......       .  .+.++++++++|++.+.  .+++|..-+.++...
T Consensus       747 ~pel~~Rid~IivF~PL~~e~l~~I~~l~L~~l~~~l~~~~~~l~i~~~a~~~L~~~~~~~~~gaR~L~~~i~~~i  822 (852)
T TIGR03346       747 RPEFLNRIDEIVVFHPLGREQIARIVEIQLGRLRKRLAERKITLELSDAALDFLAEAGYDPVYGARPLKRAIQREI  822 (852)
T ss_pred             CHHHhcCcCeEEecCCcCHHHHHHHHHHHHHHHHHHHHHCCCeecCCHHHHHHHHHhCCCCCCCchhHHHHHHHHH
Confidence            68899998 68899999999999998876542       2  36799999999999965  578888877777654

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.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=98.24  E-value=6.5e-06  Score=71.74  Aligned_cols=116  Identities=23%  Similarity=0.253  Sum_probs=86.2

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i   95 (190)
                      .|+|||||||.|+.+.|..|++++++..            .+.+|.+|+...      +.......+.++|..|+  ..+
T Consensus        94 gGtL~Ldei~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~~~l------~~~~~~g~fr~dL~~rl~~~~i  167 (329)
T TIGR02974        94 GGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADL------PALAAEGRFRADLLDRLAFDVI  167 (329)
T ss_pred             CCEEEeCChHhCCHHHHHHHHHHHHcCcEEecCCCceeccceEEEEechhhH------HHHhhcCchHHHHHHHhcchhc
Confidence            4899999999999999999999998753            136777775200      00001234457888897  578


Q ss_pred             eccCCCH--HHHHHHHHHHH----HhcC----CCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHh
Q psy18185         96 RTTPYNQ--KDMEAIIKLRA----NTEG----HVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTA  151 (190)
Q Consensus        96 ~~~~ls~--~ei~~iL~~~~----~~~~----~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a  151 (190)
                      .++|+.+  +|+..++..-.    .+.|    ..+++++++.|..+.+.|++|..-+.++.+...+
T Consensus       168 ~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~ls~~a~~~L~~y~WPGNvrEL~n~i~~~~~~~  233 (329)
T TIGR02974       168 TLPPLRERQEDIMLLAEHFAIRMARELGLPLFPGFTPQAREQLLEYHWPGNVRELKNVVERSVYRH  233 (329)
T ss_pred             CCCchhhhhhhHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHhCCCCchHHHHHHHHHHHHHhC
Confidence            9999994  67776655433    2323    3689999999999988999999999999988655

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

>TIGR00368 Mg chelatase-related protein

Probab=98.23  E-value=2.5e-05  Score=71.78  Aligned_cols=141  Identities=20%  Similarity=0.203  Sum_probs=91.8

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC--------------CCEEEEEecCCcccccCCC----CCCC------CCCCC
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI--------------APIVIFATNRGRCLVRGTD----DIIS------PHGIP   85 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~--------------~~~iIlatn~~~~~~~~t~----~~~~------~~~l~   85 (190)
                      .|+|||||++.+++..++.|+..+|++.              ...+|.++|...|---|..    ...+      ...++
T Consensus       296 ~GvLfLDEi~e~~~~~~~~L~~~LE~~~v~i~r~g~~~~~pa~frlIaa~Npcpcg~~~~~~~~c~c~~~~~~~y~~~is  375 (499)
T TIGR00368       296 NGVLFLDELPEFKRSVLDALREPIEDGSISISRASAKIFYPARFQLVAAMNPCPCGHYGGKNTHCRCSPQQISRYWNKLS  375 (499)
T ss_pred             CCeEecCChhhCCHHHHHHHHHHHHcCcEEEEecCcceeccCCeEEEEecCCcccCcCCCCcccccCCHHHHHHHhhhcc
Confidence            4899999999999999999999999753              1467777752100000000    0000      12577


Q ss_pred             hhHhhhh-hheeccCCCHHHH------------HHHH-HHHHHh----cC------------------CCCCHHHHHHHH
Q psy18185         86 LDLLDRL-LIIRTTPYNQKDM------------EAII-KLRANT----EG------------------HVLDDEALVTLS  129 (190)
Q Consensus        86 ~~l~SR~-~~i~~~~ls~~ei------------~~iL-~~~~~~----~~------------------~~i~~e~l~~i~  129 (190)
                      .+|++|+ ..+.+++++.+++            ++.+ +.|..+    .+                  +.+++++.+.+.
T Consensus       376 ~pllDR~dl~~~~~~~~~~~l~~~~~~e~s~~ir~rV~~Ar~~q~~R~~~~~~~~~N~~l~~~~l~~~~~l~~~~~~~l~  455 (499)
T TIGR00368       376 GPFLDRIDLSVEVPLLPPEKLLSTGSGESSAEVKQRVIKAREIQNIRYEKFANINKNADLNSDEIEQFCKLSAIDANDLE  455 (499)
T ss_pred             HhHHhhCCEEEEEcCCCHHHHhccCCCCCHHHHHHHHHHHHHHHHHHhcCCCCCcccccCCHHHHHhhcCCCHHHHHHHH
Confidence            8899998 5678888766654            2222 111111    11                  124666666655


Q ss_pred             HhcC--CCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        130 EIGT--RSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       130 ~~a~--~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      ....  +=+.|....+|..|..+|-.+|...|+.+||.+++.+
T Consensus       456 ~a~~~~~lS~R~~~rilrvArTiAdL~g~~~i~~~hv~eA~~~  498 (499)
T TIGR00368       456 GALNKLGLSSRATHRILKVARTIADLKEEKNISREHLAEAIEY  498 (499)
T ss_pred             HHHHhcCCCchHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhc
Confidence            5532  2377888888988888888899999999999999863

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PRK05907 hypothetical protein; Provisional

Probab=98.23  E-value=7e-05  Score=64.95  Aligned_cols=124  Identities=11%  Similarity=0.045  Sum_probs=95.1

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhh---hhhhe----eccCC
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD---RLLII----RTTPY  100 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S---R~~~i----~~~~l  100 (190)
                      .++++++.+.+.++......|...+++|++ .++|+.+..       .       ..-..++.   ++..+    .++++
T Consensus        69 erRlV~v~~~~~~~~~~~~~L~~Yl~np~~~~~liv~~~~-------~-------d~~kkl~K~i~k~~~v~~~~e~~~l  134 (311)
T PRK05907         69 SQETIGIYQAEKMSSSTQEFLIRYARNPNPHLTLFLFTTK-------Q-------ECFSSLSKKLSSALCLSLFGEWFAD  134 (311)
T ss_pred             CeEEEEEecccccccccHHHHHHHHhCCCCCeEEEEEEec-------c-------cHHHHHHHHHhhcceeccccccCCC
Confidence            457888888888877677899999999876 345533410       1       11111222   25555    89999


Q ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        101 NQKDMEAIIKLRANTEGHVLDDEALVTLSEIGT-RSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       101 s~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~-~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      .+.++.+++..++++.|..++++++++++.. . +||+..+.+=|+.+..++-  +++.||.++|..++.
T Consensus       135 ~e~~L~~Wi~~~~~~~g~~i~~~a~~~L~~~-~~~~nL~~l~~EleKL~ly~g--~~~~It~e~V~~lv~  201 (311)
T PRK05907        135 RDKRIAQLLIQRAKELGISCSLGLASLFVSK-FPQTGLFEILSEFQKLLCQMG--KKESLEASDIQSFVV  201 (311)
T ss_pred             CHHHHHHHHHHHHHHcCCCcCHHHHHHHHHH-ccCCCHHHHHHHHHHHHHhcC--CCCeECHHHHHHHhc
Confidence            9999999999999999999999999999999 5 5899999999999887742  345799999999874

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=98.22  E-value=2e-05  Score=74.03  Aligned_cols=131  Identities=23%  Similarity=0.372  Sum_probs=94.1

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC----------------------CCEEEEEecCCcccccCCCCCCCCCCCChh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI----------------------APIVIFATNRGRCLVRGTDDIISPHGIPLD   87 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~----------------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~   87 (190)
                      .|+|||||++.|+.+.|..|+++++++.                      ...+|+++|        .+   ....+.++
T Consensus       218 gGtL~Ldei~~L~~~~q~~Ll~~L~~~~i~~~g~~e~~~~~~~~~~~ip~dvrvIa~~~--------~~---~l~~l~~~  286 (608)
T TIGR00764       218 KGVLYIDEIKTMPLEVQQYLLTALQDKKFPITGQSENSSGAMVRTEPVPCDFILVASGN--------LD---DLEGMHPA  286 (608)
T ss_pred             CCEEEEEChHhCCHHHHHHHHHHHHhCcEEecCccccccccccCCCCCccceEEEEECC--------HH---HHhhcCHH
Confidence            3899999999999999999999997532                      124666664        11   13467899


Q ss_pred             Hhhhhh----heecc---CCCHHHHHHHHHH---HHHhcC--CCCCHHHHHHHHHhcC---------CCCHHHHHHHHHH
Q psy18185         88 LLDRLL----IIRTT---PYNQKDMEAIIKL---RANTEG--HVLDDEALVTLSEIGT---------RSTLRYVVQLLTP  146 (190)
Q Consensus        88 l~SR~~----~i~~~---~ls~~ei~~iL~~---~~~~~~--~~i~~e~l~~i~~~a~---------~gdlR~ai~lL~~  146 (190)
                      |++|+-    .+.|+   |.+.+...++++.   .+++.|  ..++++++..|.+.++         ..+.|..-+++..
T Consensus       287 l~~rf~~y~v~v~~~~~~~~~~e~~~~~~~~i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~  366 (608)
T TIGR00764       287 LRSRIRGYGYEVYMKDTMPDTPENRDKLVQFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRA  366 (608)
T ss_pred             HHHHhcCCeEEEEeeccCCCCHHHHHHHHHHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHH
Confidence            999986    23333   3455555444443   344442  3689999999987532         1357999999999


Q ss_pred             HHHHhhhcCCCcccHHHHHHHHHhc
Q psy18185        147 AALTAKTNGRTAISKQDILEVSTLF  171 (190)
Q Consensus       147 ~~~~a~~~g~~~It~~~V~~~~~~f  171 (190)
                      |...|..++...||.++|.+++...
T Consensus       367 A~~iA~~~~~~~I~~ehV~~Ai~~~  391 (608)
T TIGR00764       367 AGDIAKSSGKVYVTAEHVLKAKKLA  391 (608)
T ss_pred             HHHHHHhcCCceecHHHHHHHHHHH
Confidence            9888887888899999999988654

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PRK08487 DNA polymerase III subunit delta; Validated

Probab=98.20  E-value=4.7e-05  Score=66.11  Aligned_cols=127  Identities=20%  Similarity=0.161  Sum_probs=93.9

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCC-CCChhHhhh--hhheeccCCCHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPH-GIPLDLLDR--LLIIRTTPYNQKD  104 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~-~l~~~l~SR--~~~i~~~~ls~~e  104 (190)
                      ..++++++.+...+.......|...++.++..++|+....       ..   ... .+-.-+...  +..+.+.++++.+
T Consensus        70 ~~~rlViv~~~~~~~~~~~~~L~~~l~~~~~~~~lv~~~~-------~~---~k~kkl~k~~~~~k~~~~v~~~~~~~~~  139 (328)
T PRK08487         70 GGKNLLIIKLDKKIPKKELKLLIELCEKNSDNYFIIELYG-------AD---SKTKDIEKLFQKKDEAVFVRFFKPNARE  139 (328)
T ss_pred             CCceEEEEecccccCHHHHHHHHHHHhcCCCCEEEEEecC-------Cc---chhHHHHHHhccCCCceEEEeeCCCHHH
Confidence            3568999998877766666888888888765444443310       10   010 000111111  4578899999999


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        105 MEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       105 i~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      +..++..++++.|+.++++++++++.. +++|+..+.+=|+.+..+..     .||.++|..++.-
T Consensus       140 l~~~i~~~~~~~g~~i~~~a~~~L~~~-~g~dl~~l~~ELeKL~ly~~-----~It~edV~~~v~~  199 (328)
T PRK08487        140 ALELLQERAKELGLDIDQNALNHLYFI-HNEDLALAANELEKLAILNE-----PITLKDIQELVFG  199 (328)
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHH-hCcHHHHHHHHHHHHHHhcC-----CCCHHHHHHHhcc
Confidence            999999999999999999999999999 69999999999999887732     6999999998743

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=98.20  E-value=2.3e-05  Score=70.41  Aligned_cols=128  Identities=23%  Similarity=0.291  Sum_probs=92.9

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i   95 (190)
                      .|.|||||||.|+.+.|..|+++++++.            .+.+|++|+.....      ......+.+++..|+  ..+
T Consensus       229 ~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~------~~~~~~f~~~L~~rl~~~~i  302 (463)
T TIGR01818       229 GGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNLEA------LVRQGKFREDLFHRLNVIRI  302 (463)
T ss_pred             CCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCCHHH------HHHcCCcHHHHHHHhCccee
Confidence            4899999999999999999999998753            13577777421000      001123445788886  478


Q ss_pred             eccCCC--HHHHHHHHHHHHH----hcC---CCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHH
Q psy18185         96 RTTPYN--QKDMEAIIKLRAN----TEG---HVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILE  166 (190)
Q Consensus        96 ~~~~ls--~~ei~~iL~~~~~----~~~---~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~  166 (190)
                      .++|+.  .+|+..++....+    ..|   ..+++++++.|..+.+.|++|..-+.++.+...+.   ...|+++++..
T Consensus       303 ~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNvreL~~~~~~~~~~~~---~~~i~~~~l~~  379 (463)
T TIGR01818       303 HLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALERLKQLRWPGNVRQLENLCRWLTVMAS---GDEVLVSDLPA  379 (463)
T ss_pred             cCCCcccchhhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCC---CCcccHHhchH
Confidence            899999  6788777665433    233   46899999999999889999999999999987653   23677777653

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.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=98.17  E-value=4.3e-05  Score=72.21  Aligned_cols=127  Identities=20%  Similarity=0.227  Sum_probs=88.9

Q ss_pred             CCeEEEEecCCCCCH--------------HHHHHHHHHhhccC---CCEEEEEecCCcccccCCCCCCCCCCCChhHhh-
Q psy18185         29 VPGVLFIDEVHMLDL--------------ETFTYLHRALESAI---APIVIFATNRGRCLVRGTDDIISPHGIPLDLLD-   90 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~---~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S-   90 (190)
                      .+.|+||||+|.+..              ...+.|+..++...   .+++|.+||             .|..+++.++. 
T Consensus       244 ~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN-------------~p~~lD~Al~Rp  310 (644)
T PRK10733        244 APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATN-------------RPDVLDPALLRP  310 (644)
T ss_pred             CCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecC-------------ChhhcCHHHhCC
Confidence            357999999999932              13444554455322   245555664             37888988875 


Q ss_pred             -hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185         91 -RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus        91 -R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                       |+ ..+.++.++.++...+++....+..+.-+ --+..+++.+.+-+....-+++..|+..|.+.++..||..++.++.
T Consensus       311 gRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~~~-~d~~~la~~t~G~sgadl~~l~~eAa~~a~r~~~~~i~~~d~~~a~  389 (644)
T PRK10733        311 GRFDRQVVVGLPDVRGREQILKVHMRRVPLAPD-IDAAIIARGTPGFSGADLANLVNEAALFAARGNKRVVSMVEFEKAK  389 (644)
T ss_pred             cccceEEEcCCCCHHHHHHHHHHHhhcCCCCCc-CCHHHHHhhCCCCCHHHHHHHHHHHHHHHHHcCCCcccHHHHHHHH
Confidence             66 67899999999999999988766433211 1245677774233666777778888887888888899999998887


Q ss_pred             H
Q psy18185        169 T  169 (190)
Q Consensus       169 ~  169 (190)
                      .
T Consensus       390 ~  390 (644)
T PRK10733        390 D  390 (644)
T ss_pred             H
Confidence            4

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.15  E-value=2.6e-05  Score=75.82  Aligned_cols=119  Identities=24%  Similarity=0.388  Sum_probs=83.2

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccC-----------C-CEEEEEecCCccccc---CCCC---------CCCCCCC
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAI-----------A-PIVIFATNRGRCLVR---GTDD---------IISPHGI   84 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~-----------~-~~iIlatn~~~~~~~---~t~~---------~~~~~~l   84 (190)
                      +++||+|||++.++++.++.|+++++++.           . +++|++||.+...+.   |...         ..-...+
T Consensus       670 p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~TSN~g~~~~~~~~~~~~~~~~~~~~~~~~~~~f  749 (857)
T PRK10865        670 PYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNLGSDLIQERFGELDYAHMKELVLGVVSHNF  749 (857)
T ss_pred             CCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEeCCcchHHHHHhccccchHHHHHHHHHHHcccc
Confidence            35899999999999999999999999752           1 457888874211000   0000         0001235


Q ss_pred             ChhHhhhh-hheeccCCCHHHHHHHHHHHHHh-------cC--CCCCHHHHHHHHHhcCC--CCHHHHHHHHHHH
Q psy18185         85 PLDLLDRL-LIIRTTPYNQKDMEAIIKLRANT-------EG--HVLDDEALVTLSEIGTR--STLRYVVQLLTPA  147 (190)
Q Consensus        85 ~~~l~SR~-~~i~~~~ls~~ei~~iL~~~~~~-------~~--~~i~~e~l~~i~~~a~~--gdlR~ai~lL~~~  147 (190)
                      .|+|++|+ .++.|.|++.+++..++......       .|  +.++++++++|++.+..  .++|-.-+.++..
T Consensus       750 ~PELlnRld~iivF~PL~~edl~~Iv~~~L~~l~~rl~~~gi~l~is~~al~~L~~~gy~~~~GARpL~r~I~~~  824 (857)
T PRK10865        750 RPEFINRIDEVVVFHPLGEQHIASIAQIQLQRLYKRLEERGYEIHISDEALKLLSENGYDPVYGARPLKRAIQQQ  824 (857)
T ss_pred             cHHHHHhCCeeEecCCCCHHHHHHHHHHHHHHHHHHHHhCCCcCcCCHHHHHHHHHcCCCccCChHHHHHHHHHH
Confidence            68999999 89999999999999988766543       23  56899999999998533  3566655555443

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

Probab=98.14  E-value=2.6e-05  Score=67.16  Aligned_cols=125  Identities=16%  Similarity=0.114  Sum_probs=86.2

Q ss_pred             CeEEEEecCCCCC---H----HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCH
Q psy18185         30 PGVLFIDEVHMLD---L----ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQ  102 (190)
Q Consensus        30 ~~Il~IDEi~~L~---~----~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~  102 (190)
                      .++|+|||+|.+-   .    +..|+|..+..+- ...+|+++         |.+-.....-.+.+.||+..+.+++...
T Consensus       146 vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL-~ipiV~vG---------t~~A~~al~~D~QLa~RF~~~~Lp~W~~  215 (302)
T PF05621_consen  146 VRMLIIDEFHNLLAGSYRKQREFLNALKFLGNEL-QIPIVGVG---------TREAYRALRTDPQLASRFEPFELPRWEL  215 (302)
T ss_pred             CcEEEeechHHHhcccHHHHHHHHHHHHHHhhcc-CCCeEEec---------cHHHHHHhccCHHHHhccCCccCCCCCC
Confidence            4899999999972   1    3444444444443 33355555         2221112222467999999999998887


Q ss_pred             HHHHHHHHHHHHh-------cCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHH
Q psy18185        103 KDMEAIIKLRANT-------EGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILE  166 (190)
Q Consensus       103 ~ei~~iL~~~~~~-------~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~  166 (190)
                      ++=..-|-...+.       .++ -+++...+|... ++|......++|..|+..|.++|...||.+.+..
T Consensus       216 d~ef~~LL~s~e~~LPLr~~S~l-~~~~la~~i~~~-s~G~iG~l~~ll~~aA~~AI~sG~E~It~~~l~~  284 (302)
T PF05621_consen  216 DEEFRRLLASFERALPLRKPSNL-ASPELARRIHER-SEGLIGELSRLLNAAAIAAIRSGEERITREILDK  284 (302)
T ss_pred             CcHHHHHHHHHHHhCCCCCCCCC-CCHHHHHHHHHH-cCCchHHHHHHHHHHHHHHHhcCCceecHHHHhh
Confidence            6444444334332       233 456777999999 7999999999999999999999999999888775

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

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=98.13  E-value=2.1e-05  Score=70.77  Aligned_cols=131  Identities=21%  Similarity=0.261  Sum_probs=89.7

Q ss_pred             CeEEEEecCCCCCH------------HHHHHHHHHhhccCC-----------CEEEEEecCCcccccCCCCCCCCCCCCh
Q psy18185         30 PGVLFIDEVHMLDL------------ETFTYLHRALESAIA-----------PIVIFATNRGRCLVRGTDDIISPHGIPL   86 (190)
Q Consensus        30 ~~Il~IDEi~~L~~------------~~~~~L~~~~E~~~~-----------~~iIlatn~~~~~~~~t~~~~~~~~l~~   86 (190)
                      .||+||||+|.+..            ..|..|++++|....           ..||.++-  |       +...|..+.|
T Consensus       248 ~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLkilEGt~v~~k~~~v~T~~ILFI~~GA--F-------~~~kp~DlIP  318 (441)
T TIGR00390       248 SGIIFIDEIDKIAKKGESSGADVSREGVQRDLLPIVEGSTVNTKYGMVKTDHILFIAAGA--F-------QLAKPSDLIP  318 (441)
T ss_pred             CCEEEEEchhhhcccCCCCCCCCCccchhccccccccCceeeecceeEECCceeEEecCC--c-------CCCChhhccH
Confidence            48999999999942            599999999997432           13344332  1       1123677889


Q ss_pred             hHhhhhh-heeccCCCHHHHHHHHHHH-----------HHhcCC--CCCHHHHHHHHHhcC-------CCCHHHHHHHHH
Q psy18185         87 DLLDRLL-IIRTTPYNQKDMEAIIKLR-----------ANTEGH--VLDDEALVTLSEIGT-------RSTLRYVVQLLT  145 (190)
Q Consensus        87 ~l~SR~~-~i~~~~ls~~ei~~iL~~~-----------~~~~~~--~i~~e~l~~i~~~a~-------~gdlR~ai~lL~  145 (190)
                      +|..|+. ++.+++++.+++.+||..-           .+.+|+  .+++++++.||+.|.       +-++|..-.+++
T Consensus       319 El~GR~Pi~v~L~~L~~edL~rILteP~nsLikQy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~~~iGAR~LrtilE  398 (441)
T TIGR00390       319 ELQGRFPIRVELQALTTDDFERILTEPKNSLIKQYKALMKTEGVNIEFSDEAIKRIAELAYNVNEKTENIGARRLHTVLE  398 (441)
T ss_pred             HHhCccceEEECCCCCHHHHHHHhcCChhHHHHHHHHHHhhcCcEEEEeHHHHHHHHHHHHHhcccccccchhhHHHHHH
Confidence            9999995 5799999999999999322           123554  679999999999963       347777777776


Q ss_pred             HHHHH----hhhc-C-CCcccHHHHHHHHH
Q psy18185        146 PAALT----AKTN-G-RTAISKQDILEVST  169 (190)
Q Consensus       146 ~~~~~----a~~~-g-~~~It~~~V~~~~~  169 (190)
                      ....-    +... + .-.||.+.|+..++
T Consensus       399 ~~l~d~~fe~p~~~~~~v~I~~~~V~~~l~  428 (441)
T TIGR00390       399 RLLEDISFEAPDLSGQNITIDADYVSKKLG  428 (441)
T ss_pred             HHHHHHHhcCCCCCCCEEEECHHHHHhHHH
Confidence            65532    1111 1 12477777766553

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.

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=98.12  E-value=2.6e-05  Score=74.61  Aligned_cols=127  Identities=23%  Similarity=0.234  Sum_probs=94.8

Q ss_pred             HHHHHHHHHHHHcCccccCCeEEEEecCCCCC---------HHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCC
Q psy18185         11 KEINKVVNKYIDQGIAELVPGVLFIDEVHMLD---------LETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISP   81 (190)
Q Consensus        11 ~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~---------~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~   81 (190)
                      +.+..++++....+     .-||||||+|-+-         .++.|.|-..+..+ ...+|+||+        ++.+...
T Consensus       249 eRlk~vl~ev~~~~-----~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARG-eL~~IGATT--------~~EYRk~  314 (786)
T COG0542         249 ERLKAVLKEVEKSK-----NVILFIDEIHTIVGAGATEGGAMDAANLLKPALARG-ELRCIGATT--------LDEYRKY  314 (786)
T ss_pred             HHHHHHHHHHhcCC-----CeEEEEechhhhcCCCcccccccchhhhhHHHHhcC-CeEEEEecc--------HHHHHHH
Confidence            34555555532222     3699999999991         45889999999886 468999995        3333223


Q ss_pred             CCCChhHhhhhhheeccCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHHh
Q psy18185         82 HGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANT----EGHVLDDEALVTLSEIGT-----RSTLRYVVQLLTPAALTA  151 (190)
Q Consensus        82 ~~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~----~~~~i~~e~l~~i~~~a~-----~gdlR~ai~lL~~~~~~a  151 (190)
                      ..=.++|-.|+|.+.+..+|.++...||+-....    .|+.|+|+|+.+.+....     +.=+.+||.++|.|+...
T Consensus       315 iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk~~yE~hH~V~i~D~Al~aAv~LS~RYI~dR~LPDKAIDLiDeA~a~~  393 (786)
T COG0542         315 IEKDAALERRFQKVLVDEPSVEDTIAILRGLKERYEAHHGVRITDEALVAAVTLSDRYIPDRFLPDKAIDLLDEAGARV  393 (786)
T ss_pred             hhhchHHHhcCceeeCCCCCHHHHHHHHHHHHHHHHHccCceecHHHHHHHHHHHHhhcccCCCCchHHHHHHHHHHHH
Confidence            3335789999999999999999999999877654    689999999999999831     223478999999988543

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=98.10  E-value=3.4e-05  Score=71.31  Aligned_cols=131  Identities=22%  Similarity=0.191  Sum_probs=91.3

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC------------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i   95 (190)
                      .|.|||||||.|+.+.|..|++++++..-            +.+|.+|+...      +.......+..++..|+  ..+
T Consensus       308 gGTLfLdeI~~Lp~~~Q~~Ll~~L~~~~~~r~g~~~~~~~dvRiIaat~~~l------~~~v~~g~fr~dL~~rL~~~~I  381 (526)
T TIGR02329       308 RGTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTEPVPVDVRVVAATHCAL------TTAVQQGRFRRDLFYRLSILRI  381 (526)
T ss_pred             CceEEecChHhCCHHHHHHHHHHHhcCcEEecCCCceeeecceEEeccCCCH------HHHhhhcchhHHHHHhcCCcEE
Confidence            48999999999999999999999987431            25777775210      00001123344666664  678


Q ss_pred             eccCCCH--HHHHHHHHHHH----HhcCCCCCHHHHHH-------HHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHH
Q psy18185         96 RTTPYNQ--KDMEAIIKLRA----NTEGHVLDDEALVT-------LSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQ  162 (190)
Q Consensus        96 ~~~~ls~--~ei~~iL~~~~----~~~~~~i~~e~l~~-------i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~  162 (190)
                      .+||+.+  +|+..+...-.    ...++.+++++++.       +..+.+.|++|..-+.++.+...+.......|+.+
T Consensus       382 ~lPPLReR~eDI~~L~~~fl~~~~~~~~~~~~~~a~~~~~~~~~~L~~y~WPGNvrEL~nvier~~i~~~~~~~~~I~~~  461 (526)
T TIGR02329       382 ALPPLRERPGDILPLAAEYLVQAAAALRLPDSEAAAQVLAGVADPLQRYPWPGNVRELRNLVERLALELSAMPAGALTPD  461 (526)
T ss_pred             eCCCchhchhHHHHHHHHHHHHHHHHcCCCCCHHHHHHhHHHHHHHHhCCCCchHHHHHHHHHHHHHhcccCCCCccCHH
Confidence            9999987  56665544433    34566799999998       88888899999999999998865421123467777


Q ss_pred             HHHH
Q psy18185        163 DILE  166 (190)
Q Consensus       163 ~V~~  166 (190)
                      ++..
T Consensus       462 ~l~~  465 (526)
T TIGR02329       462 VLRA  465 (526)
T ss_pred             Hhhh
Confidence            7653

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=98.10  E-value=2e-05  Score=74.10  Aligned_cols=129  Identities=21%  Similarity=0.255  Sum_probs=90.1

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i   95 (190)
                      .|.||||||+.|+.+.|..|+++++++.            .+.+|.+|+....      .......+.+++..|.  ..+
T Consensus       417 ~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~t~~~l~------~~~~~~~f~~dL~~~l~~~~i  490 (638)
T PRK11388        417 GGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTADLA------MLVEQNRFSRQLYYALHAFEI  490 (638)
T ss_pred             CCEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceEEeeEEEEEeccCCHH------HHHhcCCChHHHhhhhceeEE
Confidence            4899999999999999999999998753            1347777752100      0001233445666664  567


Q ss_pred             eccCCCH--HHHHHHHHHHHHh----c--CCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHH
Q psy18185         96 RTTPYNQ--KDMEAIIKLRANT----E--GHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEV  167 (190)
Q Consensus        96 ~~~~ls~--~ei~~iL~~~~~~----~--~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~  167 (190)
                      .++|+.+  +|+..++....++    .  .+.+++++++.|..+.+.|++|..-+.++.+...+.   ...|+.+++...
T Consensus       491 ~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~s~~a~~~L~~y~WPGNvreL~~~l~~~~~~~~---~~~i~~~~lp~~  567 (638)
T PRK11388        491 TIPPLRMRREDIPALVNNKLRSLEKRFSTRLKIDDDALARLVSYRWPGNDFELRSVIENLALSSD---NGRIRLSDLPEH  567 (638)
T ss_pred             eCCChhhhhhHHHHHHHHHHHHHHHHhCCCCCcCHHHHHHHHcCCCCChHHHHHHHHHHHHHhCC---CCeecHHHCchh
Confidence            8888887  4666655554432    2  356899999999999889999999999999876542   235777776543

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=98.10  E-value=9.3e-05  Score=69.85  Aligned_cols=128  Identities=23%  Similarity=0.305  Sum_probs=94.8

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC-----------------C-----CEEEEEecCCcccccCCCCCCCCCCCChh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI-----------------A-----PIVIFATNRGRCLVRGTDDIISPHGIPLD   87 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~-----------------~-----~~iIlatn~~~~~~~~t~~~~~~~~l~~~   87 (190)
                      .|+|||||++.|++.+|..|++++++..                 .     ..+|+++|        . +  ....+.|+
T Consensus       227 GGtL~LDei~~L~~~~q~~Llr~L~~~~i~i~g~~e~~~~~~~~~~~ip~dvrvI~a~~--------~-~--ll~~~dpd  295 (637)
T PRK13765        227 KGVLFIDEINTLDLESQQSLLTAMQEKKFPITGQSERSSGAMVRTEPVPCDFIMVAAGN--------L-D--ALENMHPA  295 (637)
T ss_pred             CcEEEEeChHhCCHHHHHHHHHHHHhCCEEecccccccccccCCCcceeeeeEEEEecC--------c-C--HHHhhhHH
Confidence            4899999999999999999999997433                 1     24677774        1 1  23556789


Q ss_pred             Hhhhhhh----eecc---CCCHHHHHHHHHHHHHh---c--CCCCCHHHHHHHHHhcC--CC-------CHHHHHHHHHH
Q psy18185         88 LLDRLLI----IRTT---PYNQKDMEAIIKLRANT---E--GHVLDDEALVTLSEIGT--RS-------TLRYVVQLLTP  146 (190)
Q Consensus        88 l~SR~~~----i~~~---~ls~~ei~~iL~~~~~~---~--~~~i~~e~l~~i~~~a~--~g-------dlR~ai~lL~~  146 (190)
                      |++|+..    +.|.   +-+++.....++..++.   .  -..++++++..|.+.++  .|       .+|..-+++..
T Consensus       296 L~~rfk~~~v~v~f~~~~~d~~e~~~~~~~~iaqe~~~~G~l~~f~~eAVa~LI~~~~R~ag~r~~lsl~~~~l~~l~r~  375 (637)
T PRK13765        296 LRSRIKGYGYEVYMRDTMEDTPENRRKLVRFVAQEVKRDGKIPHFDRDAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRV  375 (637)
T ss_pred             HHHHhccCeEEEEcccccCCCHHHHHHHHHHHHHHhhhccCCCCCCHHHHHHHHHHHHHHhCCccccccCHHHHHHHHHH
Confidence            9999842    4454   34466666677655543   2  23699999999999742  12       27888899999


Q ss_pred             HHHHhhhcCCCcccHHHHHHHH
Q psy18185        147 AALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       147 ~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      +..+|+..+...++.++|.++.
T Consensus       376 a~~~a~~~~~~~i~~~~v~~a~  397 (637)
T PRK13765        376 AGDIARSEGAELTTAEHVLEAK  397 (637)
T ss_pred             HHHHHHhhccceecHHHHHHHH
Confidence            9999988888899999998776

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=98.09  E-value=6e-05  Score=67.47  Aligned_cols=126  Identities=23%  Similarity=0.283  Sum_probs=86.7

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i   95 (190)
                      .|+|||||++.|+.+.|..|++++++..            ...+|++|+....      .......+.++|..|+  ..+
T Consensus       234 ~gtl~l~~i~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~------~~~~~~~~~~~L~~~l~~~~i  307 (445)
T TIGR02915       234 GGTLFLDEIGDLPLNLQAKLLRFLQERVIERLGGREEIPVDVRIVCATNQDLK------RMIAEGTFREDLFYRIAEISI  307 (445)
T ss_pred             CCEEEEechhhCCHHHHHHHHHHHhhCeEEeCCCCceeeeceEEEEecCCCHH------HHHHcCCccHHHHHHhcccee
Confidence            4899999999999999999999998642            1357777742000      0000134456677776  467


Q ss_pred             eccCCCH--HHHHHHHHHHH----HhcC---CCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHH
Q psy18185         96 RTTPYNQ--KDMEAIIKLRA----NTEG---HVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDI  164 (190)
Q Consensus        96 ~~~~ls~--~ei~~iL~~~~----~~~~---~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V  164 (190)
                      .++|+.+  +|+..+....+    ...|   ..+++++++.+..+.+.|++|..-+.++.+...+.   ...|+.+++
T Consensus       308 ~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNvreL~~~i~~a~~~~~---~~~i~~~~l  382 (445)
T TIGR02915       308 TIPPLRSRDGDAVLLANAFLERFARELKRKTKGFTDDALRALEAHAWPGNVRELENKVKRAVIMAE---GNQITAEDL  382 (445)
T ss_pred             cCCCchhchhhHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCC---CCcccHHHc
Confidence            8888876  35554444333    2223   46899999999999889999999999999986543   224555544

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).

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=98.09  E-value=4e-05  Score=68.28  Aligned_cols=125  Identities=21%  Similarity=0.232  Sum_probs=86.8

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC------------CEEEEEecCCcccccCCCCC---CCCCCCChhHhhhh--
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA------------PIVIFATNRGRCLVRGTDDI---ISPHGIPLDLLDRL--   92 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~------------~~iIlatn~~~~~~~~t~~~---~~~~~l~~~l~SR~--   92 (190)
                      .|+|||||+|.|+...|..|++.++++..            +.+|.+|+.         ++   ..+..+.++|..|+  
T Consensus       234 ~gtl~ldei~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~t~~---------~~~~~~~~~~~~~~l~~~l~~  304 (441)
T PRK10365        234 GGTLFLDEIGDISPMMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHR---------DLAAEVNAGRFRQDLYYRLNV  304 (441)
T ss_pred             CCEEEEeccccCCHHHHHHHHHHHccCcEEeCCCCceeeeceEEEEeCCC---------CHHHHHHcCCchHHHHHHhcc
Confidence            48999999999999999999999997531            246777741         11   01223445566664  


Q ss_pred             hheeccCCCH--HHHHHHHHHHHH----hcC---CCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHH
Q psy18185         93 LIIRTTPYNQ--KDMEAIIKLRAN----TEG---HVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQD  163 (190)
Q Consensus        93 ~~i~~~~ls~--~ei~~iL~~~~~----~~~---~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~  163 (190)
                      ..+.++|+.+  +|+..+.....+    ..+   ..+++++++.|..+.+.||+|...+.++.+...+.   ...|+.++
T Consensus       305 ~~i~~ppLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgN~reL~~~~~~~~~~~~---~~~i~~~~  381 (441)
T PRK10365        305 VAIEVPSLRQRREDIPLLAGHFLQRFAERNRKAVKGFTPQAMDLLIHYDWPGNIRELENAVERAVVLLT---GEYISERE  381 (441)
T ss_pred             ceecCCChhhcchhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCC---CCccchHh
Confidence            4567788875  355555444433    222   35899999999999889999999999999876542   23577766


Q ss_pred             HHH
Q psy18185        164 ILE  166 (190)
Q Consensus       164 V~~  166 (190)
                      +..
T Consensus       382 l~~  384 (441)
T PRK10365        382 LPL  384 (441)
T ss_pred             Cch
Confidence            653

>PRK15115 response regulator GlrR; Provisional

Probab=98.08  E-value=3.2e-05  Score=69.22  Aligned_cols=128  Identities=18%  Similarity=0.223  Sum_probs=85.0

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i   95 (190)
                      .|.|||||+|.|+.+.|..|+++++++.            .+.+|.+|+....      .......+..++..|+  ..+
T Consensus       229 ~gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii~~~~~~l~------~~~~~~~f~~~l~~~l~~~~i  302 (444)
T PRK15115        229 GGTLFLDEIGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRDLP------KAMARGEFREDLYYRLNVVSL  302 (444)
T ss_pred             CCEEEEEccccCCHHHHHHHHHHHhhCCEEeCCCCceeeeeEEEEEeCCCCHH------HHHHcCCccHHHHHhhceeee
Confidence            4899999999999999999999998753            1256666641000      0000112334455553  456


Q ss_pred             eccCCCH--HHHHHHHHHHH----HhcC---CCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHH
Q psy18185         96 RTTPYNQ--KDMEAIIKLRA----NTEG---HVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILE  166 (190)
Q Consensus        96 ~~~~ls~--~ei~~iL~~~~----~~~~---~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~  166 (190)
                      .++|+.+  +|+..++..-.    ...+   ..+++++++.|..+.+.||+|..-+.++.+...+.   ...|+.+++..
T Consensus       303 ~lPpLr~R~eDi~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~WpgNvreL~~~i~~~~~~~~---~~~i~~~~l~~  379 (444)
T PRK15115        303 KIPALAERTEDIPLLANHLLRQAAERHKPFVRAFSTDAMKRLMTASWPGNVRQLVNVIEQCVALTS---SPVISDALVEQ  379 (444)
T ss_pred             cCCChHhccccHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCC---CCccChhhhhh
Confidence            6777765  46654444333    2223   24899999999999779999999999999876543   33577776653

>PF06144 DNA_pol3_delta: DNA polymerase III, delta subunit; InterPro: IPR010372 DNA polymerase III, delta subunit (2

Probab=98.08  E-value=5.1e-06  Score=64.74  Aligned_cols=110  Identities=17%  Similarity=0.186  Sum_probs=73.3

Q ss_pred             CCeEEEEecC----CCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHH
Q psy18185         29 VPGVLFIDEV----HMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQK  103 (190)
Q Consensus        29 ~~~Il~IDEi----~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~  103 (190)
                      ..+|++|.++    +.........|...++.+++ ..+|+.++        . .......+...+...+.++.+.+++..
T Consensus        57 ~~klvii~~~~~l~~~~~~~~~~~l~~~l~~~~~~~~lii~~~--------~-~~~~~~k~~k~l~~~~~~~~~~~~~~~  127 (172)
T PF06144_consen   57 DKKLVIIKNAPFLKDKLKKKEIKALIEYLSNPPPDCILIIFSE--------E-KLDKRKKLYKALKKQAIVIECKKPKEQ  127 (172)
T ss_dssp             SEEEEEEE-----TT-S-TTHHHHHHHHTTT--SSEEEEEEES----------S--HHHHHHHHHTTTEEEEEE----TT
T ss_pred             CCeEEEEecCccccccccHHHHHHHHHHHhCCCCCEEEEEEeC--------C-chhhhhhHHHHHhcccceEEecCCCHH
Confidence            3479999999    55667888999999998766 44555552        0 000011123456666788999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHH
Q psy18185        104 DMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAA  148 (190)
Q Consensus       104 ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~  148 (190)
                      ++..+++.++++.|+.++++++++++.. .++|++.+.+-|+...
T Consensus       128 ~~~~~i~~~~~~~g~~i~~~a~~~L~~~-~~~d~~~l~~EleKL~  171 (172)
T PF06144_consen  128 ELPRWIKERAKKNGLKIDPDAAQYLIER-VGNDLSLLQNELEKLS  171 (172)
T ss_dssp             THHHHHHHHHHHTT-EE-HHHHHHHHHH-HTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHH-hChHHHHHHHHHHHhc
Confidence            9999999999999999999999999999 6999999888877653

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.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.06  E-value=8.2e-05  Score=68.67  Aligned_cols=117  Identities=17%  Similarity=0.261  Sum_probs=79.5

Q ss_pred             CeEEEEecCCCCCH----HHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCC----CC-CCCChhHhhh--hhheec
Q psy18185         30 PGVLFIDEVHMLDL----ETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDII----SP-HGIPLDLLDR--LLIIRT   97 (190)
Q Consensus        30 ~~Il~IDEi~~L~~----~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~----~~-~~l~~~l~SR--~~~i~~   97 (190)
                      .+||+|+|.=....    ...++|.+.+..+.. |++|++|.-.  ...|..+..    .. ..+|++++..  +..|.|
T Consensus       133 ~kvILVEDlPN~~~~~~~~f~~~L~~~l~~~~~~PlV~iiSe~~--~~~~~~~~~~~~~t~~~L~~~~il~~~~i~~I~F  210 (519)
T PF03215_consen  133 KKVILVEDLPNVFHRDTSRFREALRQYLRSSRCLPLVFIISETE--SLSGDNSYRSNSFTAERLFPKEILNHPGITRIKF  210 (519)
T ss_pred             ceEEEeeccccccchhHHHHHHHHHHHHHcCCCCCEEEEEeccc--ccCCCCcccccchhhhhccCHHHHhCCCceEEEe
Confidence            57899998766532    445555566666656 8777777310  000111000    01 1356788775  578999


Q ss_pred             cCCCHHHHHHHHHHHHHhc-----CC-CCC--HHHHHHHHHhcCCCCHHHHHHHHHHHHH
Q psy18185         98 TPYNQKDMEAIIKLRANTE-----GH-VLD--DEALVTLSEIGTRSTLRYVVQLLTPAAL  149 (190)
Q Consensus        98 ~~ls~~ei~~iL~~~~~~~-----~~-~i~--~e~l~~i~~~a~~gdlR~ai~lL~~~~~  149 (190)
                      +|++..-++..|.+++..|     |. ..+  .++++.|+.. +.||+|.||+.|+..+.
T Consensus       211 NpIa~T~mkKaL~rI~~~E~~~~~~~~~~p~~~~~l~~I~~~-s~GDIRsAIn~LQf~~~  269 (519)
T PF03215_consen  211 NPIAPTFMKKALKRILKKEARSSSGKNKVPDKQSVLDSIAES-SNGDIRSAINNLQFWCL  269 (519)
T ss_pred             cCCCHHHHHHHHHHHHHHHhhhhcCCccCCChHHHHHHHHHh-cCchHHHHHHHHHHHhc
Confidence            9999999999999999877     32 233  3569999999 69999999999998875

>PRK13531 regulatory ATPase RavA; Provisional

Probab=98.06  E-value=0.00012  Score=67.03  Aligned_cols=134  Identities=16%  Similarity=0.213  Sum_probs=94.0

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHhhccC----C-------CEEEEEecCCcccccCCCCCCC-CCCCChhHhhhhh-heec
Q psy18185         31 GVLFIDEVHMLDLETFTYLHRALESAI----A-------PIVIFATNRGRCLVRGTDDIIS-PHGIPLDLLDRLL-IIRT   97 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~~~~L~~~~E~~~----~-------~~iIlatn~~~~~~~~t~~~~~-~~~l~~~l~SR~~-~i~~   97 (190)
                      .++|+||++.+++..|+.|+.++++..    +       +.+++|||           +.| ......++..|+. .+.+
T Consensus       109 ~lLfLDEI~rasp~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~ATN-----------~LPE~g~~leAL~DRFliri~v  177 (498)
T PRK13531        109 EIVFLDEIWKAGPAILNTLLTAINERRFRNGAHEEKIPMRLLVTASN-----------ELPEADSSLEALYDRMLIRLWL  177 (498)
T ss_pred             cEEeecccccCCHHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECC-----------CCcccCCchHHhHhhEEEEEEC
Confidence            489999999999999999999996533    1       34455553           211 1233458999984 4788


Q ss_pred             cCCCH-HHHHHHHHHHHH-----------------------hcCCCCCHHHHHHHHHhc-----CC----CCHHHHHHHH
Q psy18185         98 TPYNQ-KDMEAIIKLRAN-----------------------TEGHVLDDEALVTLSEIG-----TR----STLRYVVQLL  144 (190)
Q Consensus        98 ~~ls~-~ei~~iL~~~~~-----------------------~~~~~i~~e~l~~i~~~a-----~~----gdlR~ai~lL  144 (190)
                      +++++ ++..++|.....                       -..+.+++++.++|....     .+    -+.|..+.++
T Consensus       178 p~l~~~~~e~~lL~~~~~~~~~~~~~~~vis~eel~~lq~~v~~V~v~d~v~eyI~~L~~~lr~~r~~~~~SpR~~~~l~  257 (498)
T PRK13531        178 DKVQDKANFRSMLTSQQDENDNPVPASLQITDEEYQQWQKEIGKITLPDHVFELIFQLRQQLDALPNAPYVSDRRWKKAI  257 (498)
T ss_pred             CCCCchHHHHHHHHcccccccCCCcccCCCCHHHHHHHHHHhcceeCCHHHHHHHHHHHHHHhcCCCCCCcCcHHHHHHH
Confidence            88874 555666654211                       146778899999998873     12    3678888888


Q ss_pred             HHHHHHhhhcCCCcccHHHHHHHHHhccChH
Q psy18185        145 TPAALTAKTNGRTAISKQDILEVSTLFLDAK  175 (190)
Q Consensus       145 ~~~~~~a~~~g~~~It~~~V~~~~~~f~~~~  175 (190)
                      ..+...|-..|+..|+.+||.-+...+.+.-
T Consensus       258 ~~akA~A~l~GR~~V~p~Dv~ll~~vL~HRl  288 (498)
T PRK13531        258 RLLQASAFFSGRDAIAPIDLILLKDCLWHDA  288 (498)
T ss_pred             HHHHHHHHHCCCCCCCHHHHHHhHHHhccCH
Confidence            8888888889999999999994334444433

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=98.04  E-value=5.4e-05  Score=69.81  Aligned_cols=126  Identities=21%  Similarity=0.272  Sum_probs=88.1

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i   95 (190)
                      .|.|||||||.|+.+.|..|+++++++.            .+.+|.+|+.....      ......+.+++..|.  ..+
T Consensus       299 ~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~~~l~~------l~~~g~f~~dL~~rL~~~~i  372 (520)
T PRK10820        299 GGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVE------LVQKGEFREDLYYRLNVLTL  372 (520)
T ss_pred             CCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecCCCHHH------HHHcCCccHHHHhhcCeeEE
Confidence            4899999999999999999999998742            12566666410000      001223456788884  678


Q ss_pred             eccCCCH--HHHHHH----HHHHHHhcC---CCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHH
Q psy18185         96 RTTPYNQ--KDMEAI----IKLRANTEG---HVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDI  164 (190)
Q Consensus        96 ~~~~ls~--~ei~~i----L~~~~~~~~---~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V  164 (190)
                      .++|+.+  +|+..+    +.+.+.+.|   ..++++++++|..+.+.|++|..-+.+.++...+.   ...|+.+++
T Consensus       373 ~lPpLreR~~Di~~L~~~fl~~~~~~~g~~~~~ls~~a~~~L~~y~WPGNvreL~nvl~~a~~~~~---~~~i~~~~~  447 (520)
T PRK10820        373 NLPPLRDRPQDIMPLTELFVARFADEQGVPRPKLAADLNTVLTRYGWPGNVRQLKNAIYRALTQLE---GYELRPQDI  447 (520)
T ss_pred             eCCCcccChhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHhcCCCCCHHHHHHHHHHHHHHhCC---CCcccHHHc
Confidence            9999988  456544    333344444   36999999999999889999999999999876542   224555553

>KOG1970|consensus

Probab=97.99  E-value=6.7e-05  Score=69.04  Aligned_cols=113  Identities=12%  Similarity=0.198  Sum_probs=78.3

Q ss_pred             CeEEEEecCCCCCH-----HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhh--hhheeccCCCH
Q psy18185         30 PGVLFIDEVHMLDL-----ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR--LLIIRTTPYNQ  102 (190)
Q Consensus        30 ~~Il~IDEi~~L~~-----~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR--~~~i~~~~ls~  102 (190)
                      +++|+|||.=....     ..++.|..+...+..|+++++|+.   ..+|.++  +.-..+.++.-+  ...+.|+|+.+
T Consensus       195 ~~liLveDLPn~~~~d~~~~f~evL~~y~s~g~~PlIf~iTd~---~~~g~nn--q~rlf~~d~q~~~ri~~IsFNPIa~  269 (634)
T KOG1970|consen  195 KKLILVEDLPNQFYRDDSETFREVLRLYVSIGRCPLIFIITDS---LSNGNNN--QDRLFPKDIQEEPRISNISFNPIAP  269 (634)
T ss_pred             ceEEEeeccchhhhhhhHHHHHHHHHHHHhcCCCcEEEEEecc---ccCCCcc--hhhhchhhhhhccCcceEeecCCcH
Confidence            46888999765532     234444444445555888888853   3334432  222334444444  46899999999


Q ss_pred             HHHHHHHHHHHHhcCCCCC------HHHHHHHHHhcCCCCHHHHHHHHHHHH
Q psy18185        103 KDMEAIIKLRANTEGHVLD------DEALVTLSEIGTRSTLRYVVQLLTPAA  148 (190)
Q Consensus       103 ~ei~~iL~~~~~~~~~~i~------~e~l~~i~~~a~~gdlR~ai~lL~~~~  148 (190)
                      .=++..|.++|..++...+      ...++.++.. ++||+|.||+.|+.-+
T Consensus       270 T~MKK~L~ric~~e~~~~s~~k~~~~~~v~~i~~~-s~GDIRsAInsLQlss  320 (634)
T KOG1970|consen  270 TIMKKFLKRICRIEANKKSGIKVPDTAEVELICQG-SGGDIRSAINSLQLSS  320 (634)
T ss_pred             HHHHHHHHHHHHHhcccccCCcCchhHHHHHHHHh-cCccHHHHHhHhhhhc
Confidence            9999999999998776666      5667777777 6999999999999874

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=97.98  E-value=2.8e-05  Score=69.42  Aligned_cols=112  Identities=31%  Similarity=0.343  Sum_probs=81.8

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC------------CEEEEEecCCcccccCCCCCCCCCCCCh--hHhhhh--h
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA------------PIVIFATNRGRCLVRGTDDIISPHGIPL--DLLDRL--L   93 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~------------~~iIlatn~~~~~~~~t~~~~~~~~l~~--~l~SR~--~   93 (190)
                      .|.||+||+|.|.++.|..|++++|++..            +.+|.||+         ++  .+..+..  +|..|+  .
T Consensus       174 GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~rvG~~~~~~~dVRli~AT~---------~~--l~~~~~~g~dl~~rl~~~  242 (403)
T COG1221         174 GGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRVGGSQPRPVDVRLICATT---------ED--LEEAVLAGADLTRRLNIL  242 (403)
T ss_pred             CCEEehhhhhhCCHhHHHHHHHHHHcCceEecCCCCCcCCCceeeeccc---------cC--HHHHHHhhcchhhhhcCc
Confidence            48999999999999999999999997331            57888884         33  2444555  788876  4


Q ss_pred             heeccCCCHH--HHHHHH----HHHHHhcCCC---CCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhh
Q psy18185         94 IIRTTPYNQK--DMEAII----KLRANTEGHV---LDDEALVTLSEIGTRSTLRYVVQLLTPAALTAK  152 (190)
Q Consensus        94 ~i~~~~ls~~--ei~~iL----~~~~~~~~~~---i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~  152 (190)
                      .++++|+.+-  |+...+    +..+.+.+..   .+++++..+..+...|++|..-|+++.+...+.
T Consensus       243 ~I~LPpLrER~~Di~~L~e~Fl~~~~~~l~~~~~~~~~~a~~~L~~y~~pGNirELkN~Ve~~~~~~~  310 (403)
T COG1221         243 TITLPPLRERKEDILLLAEHFLKSEARRLGLPLSVDSPEALRALLAYDWPGNIRELKNLVERAVAQAS  310 (403)
T ss_pred             eecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHHhc
Confidence            6789998875  333322    2234443332   335889999888789999999999999987653

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=97.98  E-value=5.4e-05  Score=70.15  Aligned_cols=129  Identities=22%  Similarity=0.200  Sum_probs=88.0

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC------------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i   95 (190)
                      .|.||||||+.|+.+.|..|++++++...            +.+|.+|+....      .......+..++..|+  ..+
T Consensus       323 gGTLfLdeI~~Lp~~~Q~kLl~~L~e~~~~r~G~~~~~~~dvRiIaat~~~L~------~~v~~g~Fr~dL~yrL~~~~I  396 (538)
T PRK15424        323 GGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQPVPVDVRVISATHCDLE------EDVRQGRFRRDLFYRLSILRL  396 (538)
T ss_pred             CCEEEEcChHhCCHHHHHHHHhhhhcCeEEecCCCceeccceEEEEecCCCHH------HHHhcccchHHHHHHhcCCee
Confidence            48999999999999999999999987431            257887752100      0001122345666664  678


Q ss_pred             eccCCCH--HHHHHHHHHHHH----hcCCCCCHHHH-------HHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHH
Q psy18185         96 RTTPYNQ--KDMEAIIKLRAN----TEGHVLDDEAL-------VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQ  162 (190)
Q Consensus        96 ~~~~ls~--~ei~~iL~~~~~----~~~~~i~~e~l-------~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~  162 (190)
                      .++|+.+  +|+..+...-.+    ..+..++++++       +.+..+.+.|++|..-|+++++..++.......|+.+
T Consensus       397 ~lPPLReR~eDI~~L~~~fl~~~~~~~~~~~~~~a~~~~~~a~~~L~~y~WPGNvREL~nvier~~i~~~~~~~~~i~~~  476 (538)
T PRK15424        397 QLPPLRERVADILPLAESFLKQSLAALSAPFSAALRQGLQQCETLLLHYDWPGNVRELRNLMERLALFLSVEPTPDLTPQ  476 (538)
T ss_pred             cCCChhhchhHHHHHHHHHHHHHHHHcCCCCCHHHHHhhHHHHHHHHhCCCCchHHHHHHHHHHHHHhcCCCCcCccCHH
Confidence            8999987  566655554443    35667888776       6777777889999999999998876432222356655


Q ss_pred             HH
Q psy18185        163 DI  164 (190)
Q Consensus       163 ~V  164 (190)
                      ++
T Consensus       477 ~l  478 (538)
T PRK15424        477 FL  478 (538)
T ss_pred             Hh
Confidence            54

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=97.96  E-value=8.4e-05  Score=68.30  Aligned_cols=117  Identities=26%  Similarity=0.272  Sum_probs=84.9

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i   95 (190)
                      .|.|||||||.|..+.|..|++++++..            .+.+|.+|+....      .......+..+|..|+  ..+
T Consensus       282 gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~l~------~~~~~~~f~~dL~~rl~~~~i  355 (509)
T PRK05022        282 GGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNRDLR------EEVRAGRFRADLYHRLSVFPL  355 (509)
T ss_pred             CCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecCCCHH------HHHHcCCccHHHHhcccccEe
Confidence            3799999999999999999999998643            1367887752100      0011233556777775  457


Q ss_pred             eccCCCH--HHHHHHHHHH----HHhc---CCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhh
Q psy18185         96 RTTPYNQ--KDMEAIIKLR----ANTE---GHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAK  152 (190)
Q Consensus        96 ~~~~ls~--~ei~~iL~~~----~~~~---~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~  152 (190)
                      .++|+.+  +|+-.+...-    +.+.   .+.+++++++.|..+.+.|++|..-+.++.+...+.
T Consensus       356 ~lPpLreR~eDI~~L~~~fl~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNvrEL~~~i~ra~~~~~  421 (509)
T PRK05022        356 SVPPLRERGDDVLLLAGYFLEQNRARLGLRSLRLSPAAQAALLAYDWPGNVRELEHVISRAALLAR  421 (509)
T ss_pred             eCCCchhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHhcC
Confidence            8999887  4665554433    2232   367999999999999889999999999999987654

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.96  E-value=0.00021  Score=68.47  Aligned_cols=125  Identities=22%  Similarity=0.337  Sum_probs=81.1

Q ss_pred             CCeEEEEecCCCCCH------------HHHHHHHHHhhc---cCCCEEEEEecCCcccccCCCCCCCCCCCChhHhh--h
Q psy18185         29 VPGVLFIDEVHMLDL------------ETFTYLHRALES---AIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--R   91 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~------------~~~~~L~~~~E~---~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--R   91 (190)
                      .+.||||||+|.|.+            ...+.|+..++.   .....+|++||             .|..++++++.  |
T Consensus       546 ~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn-------------~~~~ld~allRpgR  612 (733)
T TIGR01243       546 APAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATN-------------RPDILDPALLRPGR  612 (733)
T ss_pred             CCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEEeCC-------------ChhhCCHhhcCCCc
Confidence            358999999998832            345666666663   22245566664             37789998874  8


Q ss_pred             h-hheeccCCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHhcCCC-CHHHHHHHHHHHHHHhhhcC-------------
Q psy18185         92 L-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDE-ALVTLSEIGTRS-TLRYVVQLLTPAALTAKTNG-------------  155 (190)
Q Consensus        92 ~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e-~l~~i~~~a~~g-dlR~ai~lL~~~~~~a~~~g-------------  155 (190)
                      | ..+.+++++.++..++++....+..  ++++ -+..+++.+ .| +-...-+++..|...+.++.             
T Consensus       613 fd~~i~v~~Pd~~~R~~i~~~~~~~~~--~~~~~~l~~la~~t-~g~sgadi~~~~~~A~~~a~~~~~~~~~~~~~~~~~  689 (733)
T TIGR01243       613 FDRLILVPPPDEEARKEIFKIHTRSMP--LAEDVDLEELAEMT-EGYTGADIEAVCREAAMAALRESIGSPAKEKLEVGE  689 (733)
T ss_pred             cceEEEeCCcCHHHHHHHHHHHhcCCC--CCccCCHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHHHhhhccchhhhccc
Confidence            8 5789999999999999987665443  3332 377788884 43 44444445566655443310             


Q ss_pred             -----CCcccHHHHHHHHH
Q psy18185        156 -----RTAISKQDILEVST  169 (190)
Q Consensus       156 -----~~~It~~~V~~~~~  169 (190)
                           ...||.++..+++.
T Consensus       690 ~~~~~~~~i~~~~f~~al~  708 (733)
T TIGR01243       690 EEFLKDLKVEMRHFLEALK  708 (733)
T ss_pred             ccccccCcccHHHHHHHHH
Confidence                 12577788777774

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.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=97.95  E-value=7.1e-05  Score=65.09  Aligned_cols=113  Identities=22%  Similarity=0.292  Sum_probs=84.2

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCC---CCCCCCChhHhhhh--
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDI---ISPHGIPLDLLDRL--   92 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~---~~~~~l~~~l~SR~--   92 (190)
                      .|.|||||+|.|+.+.|..|+++++++.            .+.+|++|+        . +.   .....+.++|..|+  
T Consensus       101 gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~--------~-~l~~l~~~g~f~~dL~~~l~~  171 (326)
T PRK11608        101 GGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATN--------A-DLPAMVAEGKFRADLLDRLAF  171 (326)
T ss_pred             CCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCc--------h-hHHHHHHcCCchHHHHHhcCC
Confidence            4899999999999999999999998643            135666663        1 10   01234557888886  


Q ss_pred             hheeccCCCH--HHHHHHHHHH----HHhcC----CCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHh
Q psy18185         93 LIIRTTPYNQ--KDMEAIIKLR----ANTEG----HVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTA  151 (190)
Q Consensus        93 ~~i~~~~ls~--~ei~~iL~~~----~~~~~----~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a  151 (190)
                      ..+.++|+.+  +|+..++...    +.+.|    ..+++++++.+..+.+.|++|..-+.++.+...+
T Consensus       172 ~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~~s~~al~~L~~y~WPGNvrEL~~vl~~a~~~~  240 (326)
T PRK11608        172 DVVQLPPLRERQSDIMLMAEHFAIQMCRELGLPLFPGFTERARETLLNYRWPGNIRELKNVVERSVYRH  240 (326)
T ss_pred             CEEECCChhhhhhhHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhc
Confidence            4688999987  5776665543    33333    3589999999999988999999999999987654

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

Probab=97.93  E-value=5.6e-05  Score=71.38  Aligned_cols=115  Identities=21%  Similarity=0.337  Sum_probs=78.4

Q ss_pred             HHHHHHHcCccccCCeEEEEecCCCCCH----HHHHHHHHHhhc-------------cCC---CEEEEEecCCcccccCC
Q psy18185         16 VVNKYIDQGIAELVPGVLFIDEVHMLDL----ETFTYLHRALES-------------AIA---PIVIFATNRGRCLVRGT   75 (190)
Q Consensus        16 ~v~~~~~~~~~~~~~~Il~IDEi~~L~~----~~~~~L~~~~E~-------------~~~---~~iIlatn~~~~~~~~t   75 (190)
                      +++.....+..   -.|+.|||||.|+.    +=.++|+.+++-             +-.   +.||.++|         
T Consensus       407 IiQ~mkka~~~---NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTAN---------  474 (782)
T COG0466         407 IIQGMKKAGVK---NPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATAN---------  474 (782)
T ss_pred             HHHHHHHhCCc---CCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEEeecC---------
Confidence            34443333443   37999999999964    456788888751             111   23444443         


Q ss_pred             CCCCCCCCCChhHhhhhhheeccCCCHHHHHHHHHHHH-----Hh-----cCCCCCHHHHHHHHHh-cCCCCHHHHHHHH
Q psy18185         76 DDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRA-----NT-----EGHVLDDEALVTLSEI-GTRSTLRYVVQLL  144 (190)
Q Consensus        76 ~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~-----~~-----~~~~i~~e~l~~i~~~-a~~gdlR~ai~lL  144 (190)
                          +...+|.+|++|+.+|++..|+++|..+|-++..     +.     ..+.++++++..|++. +-+.++|..=.-+
T Consensus       475 ----sl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~LiPk~~~~~gL~~~el~i~d~ai~~iI~~YTREAGVR~LeR~i  550 (782)
T COG0466         475 ----SLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHLIPKQLKEHGLKKGELTITDEAIKDIIRYYTREAGVRNLEREI  550 (782)
T ss_pred             ----ccccCChHHhcceeeeeecCCChHHHHHHHHHhcchHHHHHcCCCccceeecHHHHHHHHHHHhHhhhhhHHHHHH
Confidence                3677999999999999999999999999888763     22     3567999999999988 2223555444444


Q ss_pred             HH
Q psy18185        145 TP  146 (190)
Q Consensus       145 ~~  146 (190)
                      ..
T Consensus       551 ~k  552 (782)
T COG0466         551 AK  552 (782)
T ss_pred             HH
Confidence            33

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=97.90  E-value=0.00033  Score=59.10  Aligned_cols=142  Identities=21%  Similarity=0.344  Sum_probs=95.2

Q ss_pred             HHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhh---ccCCC-EEEEEecCCcccccCCCCCCCCCCCC-
Q psy18185         11 KEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALE---SAIAP-IVIFATNRGRCLVRGTDDIISPHGIP-   85 (190)
Q Consensus        11 ~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E---~~~~~-~iIlatn~~~~~~~~t~~~~~~~~l~-   85 (190)
                      +++...+..-..+|+.   +-++++||+|.|+.+....|..+.+   ++.++ .+++++..         ...+--..| 
T Consensus       116 e~~~~~L~al~~~g~r---~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp---------~L~~~lr~~~  183 (269)
T COG3267         116 EQIDRELAALVKKGKR---PVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQP---------KLRPRLRLPV  183 (269)
T ss_pred             HHHHHHHHHHHHhCCC---CeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCc---------ccchhhchHH
Confidence            3455555555555553   3588899999999988888877766   33333 46666631         000000111 


Q ss_pred             -hhHhhhhhh-eeccCCCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCccc
Q psy18185         86 -LDLLDRLLI-IRTTPYNQKDMEAIIKLRANTEGH---VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAIS  160 (190)
Q Consensus        86 -~~l~SR~~~-i~~~~ls~~ei~~iL~~~~~~~~~---~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It  160 (190)
                       ..+..||.+ |.++|++.++....|+.+.+..|.   -++++++.++... ++|-+|..-+++..|...|-..|++.|+
T Consensus       184 l~e~~~R~~ir~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~-sqg~P~lin~~~~~Al~~a~~a~~~~v~  262 (269)
T COG3267         184 LRELEQRIDIRIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEA-SQGIPRLINNLATLALDAAYSAGEDGVS  262 (269)
T ss_pred             HHhhhheEEEEEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHH-hccchHHHHHHHHHHHHHHHHcCCCccc
Confidence             367888987 999999999999999999876322   4789999999998 7886654444445555555556777887


Q ss_pred             HHHHH
Q psy18185        161 KQDIL  165 (190)
Q Consensus       161 ~~~V~  165 (190)
                      ...++
T Consensus       263 ~a~~~  267 (269)
T COG3267         263 EAEIK  267 (269)
T ss_pred             hhhcc
Confidence            66554

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=97.86  E-value=0.0001  Score=66.28  Aligned_cols=49  Identities=16%  Similarity=0.328  Sum_probs=39.2

Q ss_pred             CChhHhhhh-hheeccCCCHHHHHHHHHH----HH-------HhcC--CCCCHHHHHHHHHhc
Q psy18185         84 IPLDLLDRL-LIIRTTPYNQKDMEAIIKL----RA-------NTEG--HVLDDEALVTLSEIG  132 (190)
Q Consensus        84 l~~~l~SR~-~~i~~~~ls~~ei~~iL~~----~~-------~~~~--~~i~~e~l~~i~~~a  132 (190)
                      +.|+|..|+ .++.|+|++.+++..|+..    ..       +..|  +.++++++++|++.|
T Consensus       295 f~PEflgRld~iv~f~~L~~~~L~~Il~~~~~~l~~q~~~~l~~~~i~L~~t~~al~~Ia~~~  357 (412)
T PRK05342        295 LIPEFIGRLPVVATLEELDEEALVRILTEPKNALVKQYQKLFEMDGVELEFTDEALEAIAKKA  357 (412)
T ss_pred             hhHHHhCCCCeeeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhC
Confidence            578999999 5679999999999999973    11       2233  469999999999985

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=97.85  E-value=0.00069  Score=65.98  Aligned_cols=63  Identities=21%  Similarity=0.217  Sum_probs=41.8

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC--------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI--------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL   92 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~--------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~   92 (190)
                      .|++||||++.|+...|.+|+.+||...              .+.+|.++|-..-+-+.......-..+|++++||+
T Consensus       558 gGtL~IDEidkms~~~Q~aLlEaMEqqtIsI~KaGi~~tL~ar~rVIAAaNP~~gryd~~~s~~eni~Lp~~LLSRF  634 (915)
T PTZ00111        558 GGVCCIDELDKCHNESRLSLYEVMEQQTVTIAKAGIVATLKAETAILASCNPINSRYNKNKAVIENINISPSLFTRF  634 (915)
T ss_pred             CCeEEecchhhCCHHHHHHHHHHHhCCEEEEecCCcceecCCCeEEEEEcCCcccccCcccCcccccCCChHHhhhh
Confidence            4899999999999999999999998753              13566666532111100000111235688999998

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=97.84  E-value=7.6e-05  Score=67.21  Aligned_cols=131  Identities=18%  Similarity=0.235  Sum_probs=89.8

Q ss_pred             CeEEEEecCCCCCH------------HHHHHHHHHhhccCC-----------CEEEEEecCCcccccCCCCCCCCCCCCh
Q psy18185         30 PGVLFIDEVHMLDL------------ETFTYLHRALESAIA-----------PIVIFATNRGRCLVRGTDDIISPHGIPL   86 (190)
Q Consensus        30 ~~Il~IDEi~~L~~------------~~~~~L~~~~E~~~~-----------~~iIlatn~~~~~~~~t~~~~~~~~l~~   86 (190)
                      .||+||||+|.+..            ..|..|++++|....           ..||.++-  |       +...|..+.|
T Consensus       250 ~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLki~EG~~v~~k~~~i~T~~ILFI~~GA--F-------~~~kp~DlIP  320 (443)
T PRK05201        250 NGIVFIDEIDKIAARGGSSGPDVSREGVQRDLLPLVEGSTVSTKYGMVKTDHILFIASGA--F-------HVSKPSDLIP  320 (443)
T ss_pred             CCEEEEEcchhhcccCCCCCCCCCccchhcccccccccceeeecceeEECCceeEEecCC--c-------CCCChhhccH
Confidence            48999999999942            589999999997432           12333332  1       1123677889


Q ss_pred             hHhhhhh-heeccCCCHHHHHHHHHH----HH-------HhcCC--CCCHHHHHHHHHhcC-------CCCHHHHHHHHH
Q psy18185         87 DLLDRLL-IIRTTPYNQKDMEAIIKL----RA-------NTEGH--VLDDEALVTLSEIGT-------RSTLRYVVQLLT  145 (190)
Q Consensus        87 ~l~SR~~-~i~~~~ls~~ei~~iL~~----~~-------~~~~~--~i~~e~l~~i~~~a~-------~gdlR~ai~lL~  145 (190)
                      +|..|+. ++.+++|+.+++.+||..    ..       +.+|+  .++++|++.||+.|.       +-++|..-.+++
T Consensus       321 El~GR~Pi~v~L~~L~~~dL~~ILteP~nsLikQy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~~~iGAR~LrtI~E  400 (443)
T PRK05201        321 ELQGRFPIRVELDALTEEDFVRILTEPKASLIKQYQALLATEGVTLEFTDDAIRRIAEIAYQVNEKTENIGARRLHTVME  400 (443)
T ss_pred             HHhCccceEEECCCCCHHHHHHHhcCChhHHHHHHHHHHhhcCcEEEEcHHHHHHHHHHHHHhcccccccchhhHHHHHH
Confidence            9999995 578999999999999943    11       22455  788999999999963       347787777777


Q ss_pred             HHHHHh----hh-cCC-CcccHHHHHHHHH
Q psy18185        146 PAALTA----KT-NGR-TAISKQDILEVST  169 (190)
Q Consensus       146 ~~~~~a----~~-~g~-~~It~~~V~~~~~  169 (190)
                      ....-.    .. .+. -.||.+.|...++
T Consensus       401 ~~L~d~~Fe~p~~~~~~v~I~~~~V~~~l~  430 (443)
T PRK05201        401 KLLEDISFEAPDMSGETVTIDAAYVDEKLG  430 (443)
T ss_pred             HHHHHHhccCCCCCCCEEEECHHHHHHHHH
Confidence            665321    11 111 2477777766553

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

Probab=97.84  E-value=0.00068  Score=61.84  Aligned_cols=129  Identities=26%  Similarity=0.333  Sum_probs=93.0

Q ss_pred             CCeEEEEecCCCCC-----------HHHHHHHHHHhh---ccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhh--hh
Q psy18185         29 VPGVLFIDEVHMLD-----------LETFTYLHRALE---SAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--RL   92 (190)
Q Consensus        29 ~~~Il~IDEi~~L~-----------~~~~~~L~~~~E---~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--R~   92 (190)
                      .+.||||||+|.+.           ....+.|+..+.   ....+.+|.+||             .|..++++++.  |+
T Consensus       335 ~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN-------------~p~~ld~a~lR~gRf  401 (494)
T COG0464         335 APSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATN-------------RPDDLDPALLRPGRF  401 (494)
T ss_pred             CCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCC-------------CccccCHhhcccCcc
Confidence            35899999999992           246667777764   332244555664             38889999888  87


Q ss_pred             -hheeccCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcC-CCcccHHHHHHHHH
Q psy18185         93 -LIIRTTPYNQKDMEAIIKLRANTEGHV-LDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNG-RTAISKQDILEVST  169 (190)
Q Consensus        93 -~~i~~~~ls~~ei~~iL~~~~~~~~~~-i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g-~~~It~~~V~~~~~  169 (190)
                       ..+.+++++.++-.++++......+.. .++-.++.+++.+.+.+-.....++..|...+..+. ...||.++...+..
T Consensus       402 d~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~~sgadi~~i~~ea~~~~~~~~~~~~~~~~~~~~a~~  481 (494)
T COG0464         402 DRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAALEALREARRREVTLDDFLDALK  481 (494)
T ss_pred             ceEeecCCCCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHH
Confidence             478999999999999999888755442 345567777776433355666777888887776665 56799999988876


Q ss_pred             h
Q psy18185        170 L  170 (190)
Q Consensus       170 ~  170 (190)
                      .
T Consensus       482 ~  482 (494)
T COG0464         482 K  482 (494)
T ss_pred             h
Confidence            4

>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=97.83  E-value=9.6e-05  Score=59.19  Aligned_cols=101  Identities=18%  Similarity=0.234  Sum_probs=60.5

Q ss_pred             eEEEEecCCCCC------HHHHHHHHHHhhc---cCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCC
Q psy18185         31 GVLFIDEVHMLD------LETFTYLHRALES---AIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYN  101 (190)
Q Consensus        31 ~Il~IDEi~~L~------~~~~~~L~~~~E~---~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls  101 (190)
                      -||+|||+|.+.      +.....|...++.   .....+|+++..... ..      ....-..++..|+..+.++|++
T Consensus       120 ~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~~S~~~~-~~------~~~~~~~~~~~~~~~~~l~~l~  192 (234)
T PF01637_consen  120 VIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVSIVITGSSDSL-ME------EFLDDKSPLFGRFSHIELKPLS  192 (234)
T ss_dssp             EEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEEEEEEESSHHH-HH------HTT-TTSTTTT---EEEE----
T ss_pred             EEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCceEEEECCchHH-HH------HhhcccCccccccceEEEeeCC
Confidence            688899999998      5667777777777   222345555421000 00      0001123477888889999999


Q ss_pred             HHHHHHHHHHHHHhcCCCC--CHHHHHHHHHhcCCCCHHHH
Q psy18185        102 QKDMEAIIKLRANTEGHVL--DDEALVTLSEIGTRSTLRYV  140 (190)
Q Consensus       102 ~~ei~~iL~~~~~~~~~~i--~~e~l~~i~~~a~~gdlR~a  140 (190)
                      .++..+.+....+.. ..+  +++.++.+... ++|.+++.
T Consensus       193 ~~e~~~~~~~~~~~~-~~~~~~~~~~~~i~~~-~gG~P~~l  231 (234)
T PF01637_consen  193 KEEAREFLKELFKEL-IKLPFSDEDIEEIYSL-TGGNPRYL  231 (234)
T ss_dssp             HHHHHHHHHHHHHCC-------HHHHHHHHHH-HTT-HHHH
T ss_pred             HHHHHHHHHHHHHHh-hcccCCHHHHHHHHHH-hCCCHHHH
Confidence            999999999887665 544  99999999999 58888764

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

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=97.83  E-value=0.00022  Score=64.30  Aligned_cols=127  Identities=21%  Similarity=0.263  Sum_probs=89.7

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC------------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i   95 (190)
                      .|.+||||+|.|+.+.|..|+++++++.-            +.+|++|+....      .......+.++|..|+  ..+
T Consensus       233 ~Gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~------~~~~~~~~~~~L~~~l~~~~i  306 (469)
T PRK10923        233 GGTLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQNLE------QRVQEGKFREDLFHRLNVIRV  306 (469)
T ss_pred             CCEEEEeccccCCHHHHHHHHHHHhcCcEEeCCCCCeEEeeEEEEEeCCCCHH------HHHHcCCchHHHHHHhcceee
Confidence            47999999999999999999999987531            257777741000      0000223557888886  577


Q ss_pred             eccCCCH--HHHHHHHHHHHH----hcCC---CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHH
Q psy18185         96 RTTPYNQ--KDMEAIIKLRAN----TEGH---VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDIL  165 (190)
Q Consensus        96 ~~~~ls~--~ei~~iL~~~~~----~~~~---~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~  165 (190)
                      .++|+.+  +|+..++..-.+    ..|.   .++++++..|..+.+.|++|..-+.++.+...+.   ...|+.+++.
T Consensus       307 ~~PpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNv~eL~~~i~~~~~~~~---~~~i~~~~l~  382 (469)
T PRK10923        307 HLPPLRERREDIPRLARHFLQVAARELGVEAKLLHPETEAALTRLAWPGNVRQLENTCRWLTVMAA---GQEVLIQDLP  382 (469)
T ss_pred             cCCCcccchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCC---CCcccHHHCc
Confidence            8899887  466655544432    2232   4899999999999889999999999999886543   2357766654

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=97.82  E-value=0.00037  Score=62.40  Aligned_cols=132  Identities=26%  Similarity=0.320  Sum_probs=95.5

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC------------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-hhee
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LIIR   96 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~~i~   96 (190)
                      +||+.+||+..|+...+++|+.+++++..            ..|+++.         |.|| .-..|-|.|++|+ ..+.
T Consensus       145 RGIlYvDEvnlL~d~lvd~LLd~aaeG~n~vereGisi~hpa~fvlig---------TmNP-EeGeLrpqLlDRfg~~v~  214 (423)
T COG1239         145 RGILYVDEVNLLDDHLVDALLDVAAEGVNDVEREGISIRHPARFLLIG---------TMNP-EEGELRPQLLDRFGLEVD  214 (423)
T ss_pred             CCEEEEeccccccHHHHHHHHHHHHhCCceeeeCceeeccCccEEEEe---------ecCc-cccccchhhHhhhcceee
Confidence            48999999999999999999999998632            1355544         3343 1356778899995 5565


Q ss_pred             ccCCC-HHHHHHHHHHHHHh-----------------------------cCCCCCHHHHHHHHHhcCC---CCHHHHHHH
Q psy18185         97 TTPYN-QKDMEAIIKLRANT-----------------------------EGHVLDDEALVTLSEIGTR---STLRYVVQL  143 (190)
Q Consensus        97 ~~~ls-~~ei~~iL~~~~~~-----------------------------~~~~i~~e~l~~i~~~a~~---gdlR~ai~l  143 (190)
                      ..+.+ .++-..|+.++.+-                             ..+.+++++..+++..|.+   .+.|-.+-+
T Consensus       215 ~~~~~~~~~rv~Ii~r~~~f~~~Pe~f~~~~~~~~~~lR~~ii~ar~~l~~V~l~~~~~~~ia~~~~~~~v~g~radi~~  294 (423)
T COG1239         215 THYPLDLEERVEIIRRRLAFEAVPEAFLEKYADAQRALRARIIAARSLLSEVELDDDAETKIAELCARLAVDGHRADIVV  294 (423)
T ss_pred             ccCCCCHHHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHHHHhccCCCchhhHH
Confidence            54443 34445555544331                             3667889988888888533   236778888


Q ss_pred             HHHHHHHhhhcCCCcccHHHHHHHHHhc
Q psy18185        144 LTPAALTAKTNGRTAISKQDILEVSTLF  171 (190)
Q Consensus       144 L~~~~~~a~~~g~~~It~~~V~~~~~~f  171 (190)
                      .+.+..+|.-.|+..++.++++++..+-
T Consensus       295 ~r~a~a~aa~~Gr~~v~~~Di~~a~~l~  322 (423)
T COG1239         295 VRAAKALAALRGRTEVEEEDIREAAELA  322 (423)
T ss_pred             HHHHHHHHHhcCceeeehhhHHHHHhhh
Confidence            8888888888999999999999988753

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.80  E-value=0.00014  Score=69.63  Aligned_cols=118  Identities=25%  Similarity=0.336  Sum_probs=85.7

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC------------CEEEEEecCCccccc---CCCCCCC------------C
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA------------PIVIFATNRGRCLVR---GTDDIIS------------P   81 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~------------~~iIlatn~~~~~~~---~t~~~~~------------~   81 (190)
                      ++.|+.+|||+..+++.+|.|+.+++++.-            ++||++||-+...+.   +.+....            .
T Consensus       593 PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN~Gs~~i~~~~~~~~~~~~~~~~~~v~~~l~  672 (786)
T COG0542         593 PYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNAGSEEILRDADGDDFADKEALKEAVMEELK  672 (786)
T ss_pred             CCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEecccchHHHHhhccccccchhhhHHHHHHHHHH
Confidence            468999999999999999999999997541            478999997633221   0000000            0


Q ss_pred             CCCChhHhhhhh-heeccCCCHHHHHHHHHHHHHh---------cCCCCCHHHHHHHHHhcC--CCCHHHHHHHHHH
Q psy18185         82 HGIPLDLLDRLL-IIRTTPYNQKDMEAIIKLRANT---------EGHVLDDEALVTLSEIGT--RSTLRYVVQLLTP  146 (190)
Q Consensus        82 ~~l~~~l~SR~~-~i~~~~ls~~ei~~iL~~~~~~---------~~~~i~~e~l~~i~~~a~--~gdlR~ai~lL~~  146 (190)
                      ...+|+|+.|.- +|.|+|++.+++.+|+......         ..+++++++..+|+..+.  ..+.|-.-+.++.
T Consensus       673 ~~F~PEFLNRid~II~F~~L~~~~l~~Iv~~~L~~l~~~L~~~~i~l~~s~~a~~~l~~~gyd~~~GARpL~R~Iq~  749 (786)
T COG0542         673 KHFRPEFLNRIDEIIPFNPLSKEVLERIVDLQLNRLAKRLAERGITLELSDEAKDFLAEKGYDPEYGARPLRRAIQQ  749 (786)
T ss_pred             hhCCHHHHhhcccEEeccCCCHHHHHHHHHHHHHHHHHHHHhCCceEEECHHHHHHHHHhccCCCcCchHHHHHHHH
Confidence            123689999996 8999999999999998776542         345789999999999962  3456666655554

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=97.78  E-value=0.00013  Score=66.98  Aligned_cols=128  Identities=23%  Similarity=0.254  Sum_probs=85.6

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC------------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh--he
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL--II   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~--~i   95 (190)
                      .|-||||||..|....|.-|+|++++..-            +.+|.|||+....+      ..-..+-.||--|.-  .+
T Consensus       341 gGTLFLDEIgempl~LQaKLLRVLQEkei~rvG~t~~~~vDVRIIAATN~nL~~~------i~~G~FReDLYYRLNV~~i  414 (560)
T COG3829         341 GGTLFLDEIGEMPLPLQAKLLRVLQEKEIERVGGTKPIPVDVRIIAATNRNLEKM------IAEGTFREDLYYRLNVIPI  414 (560)
T ss_pred             CCeEEehhhccCCHHHHHHHHHHHhhceEEecCCCCceeeEEEEEeccCcCHHHH------HhcCcchhhheeeeceeee
Confidence            38999999999999999999999996321            36888998531111      001122235555653  45


Q ss_pred             eccCCCH--HHHHHHHHHHHH----h--cCCC-CCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHH
Q psy18185         96 RTTPYNQ--KDMEAIIKLRAN----T--EGHV-LDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDIL  165 (190)
Q Consensus        96 ~~~~ls~--~ei~~iL~~~~~----~--~~~~-i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~  165 (190)
                      .++|+-+  +|+.....+-..    .  ..+. ++++++..+.++.+.|++|..-|+++++..+...  ...|+.+++-
T Consensus       415 ~iPPLReR~eDI~~L~~~Fl~k~s~~~~~~v~~ls~~a~~~L~~y~WPGNVRELeNviER~v~~~~~--~~~I~~~~lp  491 (560)
T COG3829         415 TIPPLRERKEDIPLLAEYFLDKFSRRYGRNVKGLSPDALALLLRYDWPGNVRELENVIERAVNLVES--DGLIDADDLP  491 (560)
T ss_pred             cCCCcccCcchHHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHhCCCCchHHHHHHHHHHHHhccCC--cceeehhhcc
Confidence            6667654  455544443333    2  3344 8899999999999999999999999999864432  2235555544

>PRK09862 putative ATP-dependent protease; Provisional

Probab=97.76  E-value=0.00073  Score=62.28  Aligned_cols=142  Identities=21%  Similarity=0.217  Sum_probs=89.0

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC--------------CEEEEEecCCcccccCCCC-CCCC-------CCCChh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA--------------PIVIFATNRGRCLVRGTDD-IISP-------HGIPLD   87 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~--------------~~iIlatn~~~~~~~~t~~-~~~~-------~~l~~~   87 (190)
                      .|++||||++.++...++.|+..+|++.-              ..+|.++|...+-.-+... .-+|       ..++.+
T Consensus       295 gGvLfLDEi~e~~~~~~~~L~~~LE~g~v~I~r~g~~~~~pa~f~lIAa~NP~pcG~~~~~~c~c~~~~~~~Y~~~ls~p  374 (506)
T PRK09862        295 NGVLFLDELPEFERRTLDALREPIESGQIHLSRTRAKITYPARFQLVAAMNPSPTGHYQGNHNRCTPEQTLRYLNRLSGP  374 (506)
T ss_pred             CCEEecCCchhCCHHHHHHHHHHHHcCcEEEecCCcceeccCCEEEEEeecCccceecCCCCCCcCHHHHHHHHhhCCHh
Confidence            48999999999999999999999987541              2455566421000000000 0000       257779


Q ss_pred             Hhhhh-hheeccCCCHH-------------HHH-HHHHHHHH--h---------------cCCCCCHHHHHHHHHhc--C
Q psy18185         88 LLDRL-LIIRTTPYNQK-------------DME-AIIKLRAN--T---------------EGHVLDDEALVTLSEIG--T  133 (190)
Q Consensus        88 l~SR~-~~i~~~~ls~~-------------ei~-~iL~~~~~--~---------------~~~~i~~e~l~~i~~~a--~  133 (190)
                      +++|+ ..+.+++++.+             ++. .++..+..  .               .-+.+++++...+....  .
T Consensus       375 lLDRfdL~v~v~~~~~~~l~~~~~~~ess~~i~~rV~~ar~~q~~r~~~~n~~l~~~~l~~~~~l~~~~~~~l~~~~~~~  454 (506)
T PRK09862        375 FLDRFDLSLEIPLPPPGILSKTVVPGESSATVKQRVMAARERQFKRQNKLNAWLDSPEIRQFCKLESEDARWLEETLIHL  454 (506)
T ss_pred             HHhhccEEEEeCCCCHHHHhcccCCCCChHHHHHHHhhHHHHHHHHHHHHhcccCHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence            99998 44677766432             232 22211111  0               11345556555444331  2


Q ss_pred             CCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhc
Q psy18185        134 RSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLF  171 (190)
Q Consensus       134 ~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f  171 (190)
                      +-+.|-...+|..|..+|-.+|+..|+.++|.+++.+-
T Consensus       455 ~lS~Ra~~rlLrvARTiADL~g~~~V~~~hv~eAl~yR  492 (506)
T PRK09862        455 GLSIRAWQRLLKVARTIADIDQSDIITRQHLQEAVSYR  492 (506)
T ss_pred             CCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHhh
Confidence            34789999999999988988999999999999999854

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=97.74  E-value=0.00035  Score=62.60  Aligned_cols=127  Identities=20%  Similarity=0.243  Sum_probs=85.6

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i   95 (190)
                      .|+|||||+|.|+.+.|..|++++++..            .+.+|++|+.....+      .....+.+++..|+  ..+
T Consensus       238 ~gtl~ld~i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~l~~~------~~~g~~~~~l~~~l~~~~i  311 (457)
T PRK11361        238 EGTLLLDEIGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRDLQAM------VKEGTFREDLFYRLNVIHL  311 (457)
T ss_pred             CCEEEEechhhCCHHHHHHHHHHHhcCcEEeCCCCceeeeceEEEEeCCCCHHHH------HHcCCchHHHHHHhcccee
Confidence            4799999999999999999999998642            135777774210000      00123445666665  456


Q ss_pred             eccCCCH--HHHHHHHHHH----HHhcC---CCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHH
Q psy18185         96 RTTPYNQ--KDMEAIIKLR----ANTEG---HVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDIL  165 (190)
Q Consensus        96 ~~~~ls~--~ei~~iL~~~----~~~~~---~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~  165 (190)
                      .++|+.+  +|+..+...-    +...+   ..+++++++.+..+.+.|++|..-+.++.+...+.   ...|+.+++.
T Consensus       312 ~~ppLreR~~di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNv~eL~~~~~~~~~~~~---~~~i~~~~l~  387 (457)
T PRK11361        312 ILPPLRDRREDISLLANHFLQKFSSENQRDIIDIDPMAMSLLTAWSWPGNIRELSNVIERAVVMNS---GPIIFSEDLP  387 (457)
T ss_pred             cCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHcCCCCCcHHHHHHHHHHHHHhCC---CCcccHHHCh
Confidence            7788874  5555443322    22222   36899999999999889999999999999876542   2356666654

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=97.73  E-value=0.00019  Score=65.20  Aligned_cols=117  Identities=26%  Similarity=0.322  Sum_probs=83.9

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC------------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh--he
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL--II   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~--~i   95 (190)
                      .|.||||||..|..+.|.-|++++++..-            +.+|.+||+-      .+........-.+|-.|.-  .+
T Consensus       236 GGTLfLDEI~~mpl~~Q~kLLRvLqe~~~~rvG~~~~i~vdvRiIaaT~~d------L~~~v~~G~FReDLyyRLnV~~i  309 (464)
T COG2204         236 GGTLFLDEIGEMPLELQVKLLRVLQEREFERVGGNKPIKVDVRIIAATNRD------LEEEVAAGRFREDLYYRLNVVPL  309 (464)
T ss_pred             CceEEeeccccCCHHHHHHHHHHHHcCeeEecCCCcccceeeEEEeecCcC------HHHHHHcCCcHHHHHhhhcccee
Confidence            48999999999999999999999996431            3588888631      0001112233467777864  45


Q ss_pred             eccCCCH--HHHHH----HHHHHHHhcC---CCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhh
Q psy18185         96 RTTPYNQ--KDMEA----IIKLRANTEG---HVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAK  152 (190)
Q Consensus        96 ~~~~ls~--~ei~~----iL~~~~~~~~---~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~  152 (190)
                      +++|+-+  +||--    .|++.++..|   ..++++++..+..+.+-|++|..-|.++++...+.
T Consensus       310 ~iPpLRER~EDIp~L~~hfl~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNVREL~N~ver~~il~~  375 (464)
T COG2204         310 RLPPLRERKEDIPLLAEHFLKRFAAELGRPPKGFSPEALAALLAYDWPGNVRELENVVERAVILSE  375 (464)
T ss_pred             cCCcccccchhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCChHHHHHHHHHHHHHhcCC
Confidence            6777776  34433    3333344333   36999999999999899999999999999987664

>KOG0730|consensus

Probab=97.72  E-value=0.00037  Score=65.30  Aligned_cols=127  Identities=27%  Similarity=0.274  Sum_probs=91.5

Q ss_pred             CCeEEEEecCCCCCH-----------HHHHHHHHHhhcc---CCCEEEEEecCCcccccCCCCCCCCCCCChhHhh--hh
Q psy18185         29 VPGVLFIDEVHMLDL-----------ETFTYLHRALESA---IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--RL   92 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~-----------~~~~~L~~~~E~~---~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--R~   92 (190)
                      .+-|+|+||+|.+..           ...+.|++-|..-   ..+.+|.|||+             |..|.+++.+  |+
T Consensus       527 aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNR-------------pd~ID~ALlRPGRl  593 (693)
T KOG0730|consen  527 APCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNR-------------PDMIDPALLRPGRL  593 (693)
T ss_pred             CCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCC-------------hhhcCHHHcCCccc
Confidence            458999999999943           2455555555432   12566777763             7789999999  66


Q ss_pred             -hheeccCCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHhcCCCCHHHHHHHHHHHHHHhhhc--CCCcccHHHHHHHH
Q psy18185         93 -LIIRTTPYNQKDMEAIIKLRANTEGHVLDDE-ALVTLSEIGTRSTLRYVVQLLTPAALTAKTN--GRTAISKQDILEVS  168 (190)
Q Consensus        93 -~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e-~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~--g~~~It~~~V~~~~  168 (190)
                       +++.+++++.+--.+||+..+++.  .++++ -++.|++.+...+-.....+++.|+..|.++  .-..|+.++..+++
T Consensus       594 D~iiyVplPD~~aR~~Ilk~~~kkm--p~~~~vdl~~La~~T~g~SGAel~~lCq~A~~~a~~e~i~a~~i~~~hf~~al  671 (693)
T KOG0730|consen  594 DRIIYVPLPDLEARLEILKQCAKKM--PFSEDVDLEELAQATEGYSGAEIVAVCQEAALLALRESIEATEITWQHFEEAL  671 (693)
T ss_pred             ceeEeecCccHHHHHHHHHHHHhcC--CCCccccHHHHHHHhccCChHHHHHHHHHHHHHHHHHhcccccccHHHHHHHH
Confidence             788999999999999999888664  45555 5778888753445577788899998777653  23467788887777


Q ss_pred             Hh
Q psy18185        169 TL  170 (190)
Q Consensus       169 ~~  170 (190)
                      ..
T Consensus       672 ~~  673 (693)
T KOG0730|consen  672 KA  673 (693)
T ss_pred             Hh
Confidence            53

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=97.69  E-value=0.00019  Score=64.49  Aligned_cols=119  Identities=18%  Similarity=0.225  Sum_probs=76.9

Q ss_pred             CCeEEEEecCCCCCH--------------HHHHHHHHHhhccC--------C------CEEEEEecCCcc----------
Q psy18185         29 VPGVLFIDEVHMLDL--------------ETFTYLHRALESAI--------A------PIVIFATNRGRC----------   70 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~--------~------~~iIlatn~~~~----------   70 (190)
                      .++||+|||+|.+++              +.|+.|++++|...        .      .++|.++|-.+.          
T Consensus       181 ~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLeG~~~~v~~~~gr~~~~~~~i~i~TsNilfi~~Gaf~g~~~  260 (413)
T TIGR00382       181 QKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQGGRKHPYQEFIQIDTSNILFICGGAFVGLEK  260 (413)
T ss_pred             ccceEEecccchhchhhccccccccccchhHHHHHHHHhhccceecccCCCccccCCCeEEEEcCCceeeecccccChHH
Confidence            357999999999976              69999999997321        0      246666665211          


Q ss_pred             ----ccc----CC--CCCC-C----------------CCCCChhHhhhh-hheeccCCCHHHHHHHHHHH----HH----
Q psy18185         71 ----LVR----GT--DDII-S----------------PHGIPLDLLDRL-LIIRTTPYNQKDMEAIIKLR----AN----  114 (190)
Q Consensus        71 ----~~~----~t--~~~~-~----------------~~~l~~~l~SR~-~~i~~~~ls~~ei~~iL~~~----~~----  114 (190)
                          ++.    |.  +... .                -+++.|+|..|+ .++.|+|++.+++.+|+...    .+    
T Consensus       261 i~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~dl~~~g~~PEflgRld~Iv~f~pL~~~~L~~Il~~~~n~l~kq~~~  340 (413)
T TIGR00382       261 IIKKRTGKSSIGFGAEVKKKSKEKADLLRQVEPEDLVKFGLIPEFIGRLPVIATLEKLDEEALIAILTKPKNALVKQYQA  340 (413)
T ss_pred             HHHHHhhhccccccccccccchhhHHHHHHHHHHHHHHHhhHHHHhCCCCeEeecCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence                000    10  0000 0                123568999999 56789999999999998752    22    


Q ss_pred             -----hcCCCCCHHHHHHHHHhcCC--CCHHHHHHHHHHH
Q psy18185        115 -----TEGHVLDDEALVTLSEIGTR--STLRYVVQLLTPA  147 (190)
Q Consensus       115 -----~~~~~i~~e~l~~i~~~a~~--gdlR~ai~lL~~~  147 (190)
                           .-.+.++++++++|++.|..  .++|-.-.+++..
T Consensus       341 ~l~~~gi~L~~t~~a~~~Ia~~~~~~~~GAR~Lr~iie~~  380 (413)
T TIGR00382       341 LFKMDNVELDFEEEALKAIAKKALERKTGARGLRSIVEGL  380 (413)
T ss_pred             HhccCCeEEEECHHHHHHHHHhCCCCCCCchHHHHHHHHh
Confidence                 12457899999999998522  3445444444443

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.

>KOG0728|consensus

Probab=97.61  E-value=0.00081  Score=57.15  Aligned_cols=128  Identities=21%  Similarity=0.210  Sum_probs=83.3

Q ss_pred             CCeEEEEecCCCCC-----------HHHHHHHHHHhhc------cCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhh
Q psy18185         29 VPGVLFIDEVHMLD-----------LETFTYLHRALES------AIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR   91 (190)
Q Consensus        29 ~~~Il~IDEi~~L~-----------~~~~~~L~~~~E~------~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR   91 (190)
                      .+.|+|+||+|.+.           .+.|...+.++..      .....+|+|||++             .-+.|+++..
T Consensus       240 apsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnri-------------dild~allrp  306 (404)
T KOG0728|consen  240 APSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRI-------------DILDPALLRP  306 (404)
T ss_pred             CCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEecccc-------------ccccHhhcCC
Confidence            36899999999993           3677777776653      2225799999852             2355666655


Q ss_pred             h---hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHH
Q psy18185         92 L---LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIG--TRSTLRYVVQLLTPAALTAKTNGRTAISKQDILE  166 (190)
Q Consensus        92 ~---~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a--~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~  166 (190)
                      .   ..++|+|++++.-.++|+.+..+.++.=.-+ +..|++..  +.|  -..-..+..|.-+|.++-+-.+|-++..-
T Consensus       307 gridrkiefp~p~e~ar~~ilkihsrkmnl~rgi~-l~kiaekm~gasg--aevk~vcteagm~alrerrvhvtqedfem  383 (404)
T KOG0728|consen  307 GRIDRKIEFPPPNEEARLDILKIHSRKMNLTRGIN-LRKIAEKMPGASG--AEVKGVCTEAGMYALRERRVHVTQEDFEM  383 (404)
T ss_pred             CcccccccCCCCCHHHHHHHHHHhhhhhchhcccC-HHHHHHhCCCCcc--chhhhhhhhhhHHHHHHhhccccHHHHHH
Confidence            4   4689999999999999998887643321111 34455441  122  22233466666677776677788888776


Q ss_pred             HHHhcc
Q psy18185        167 VSTLFL  172 (190)
Q Consensus       167 ~~~~f~  172 (190)
                      +.+...
T Consensus       384 av~kvm  389 (404)
T KOG0728|consen  384 AVAKVM  389 (404)
T ss_pred             HHHHHH
Confidence            665443

>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]

Probab=97.59  E-value=0.002  Score=56.20  Aligned_cols=130  Identities=18%  Similarity=0.208  Sum_probs=91.5

Q ss_pred             eEEEEecCCCCC-HHHHHHHHHHhhccC-CCEEEEEe-cCCcccccCCCCCCCCCCCChhHhhh--hhheeccCCCHHHH
Q psy18185         31 GVLFIDEVHMLD-LETFTYLHRALESAI-APIVIFAT-NRGRCLVRGTDDIISPHGIPLDLLDR--LLIIRTTPYNQKDM  105 (190)
Q Consensus        31 ~Il~IDEi~~L~-~~~~~~L~~~~E~~~-~~~iIlat-n~~~~~~~~t~~~~~~~~l~~~l~SR--~~~i~~~~ls~~ei  105 (190)
                      .++.|...+... .+....+......++ ...++++. ++       .+   ........+.+=  +.++...|++.+++
T Consensus        76 ~~v~l~~~~~~~~~~~~~~l~~~~~~~p~~~~~l~~~~~k-------l~---~~~~~~k~~~~~~~~~~~~~~~~~~~~l  145 (334)
T COG1466          76 RLVVLKNAEKKPNKDKNLALLELAALLPSTDLLLLVESNK-------LD---KAKKLTKWLKKLAKAVVVECKPLDEAEL  145 (334)
T ss_pred             eeEEEECCCCCcCchhHHHHHHHHcCCCCCCEEEEEecCC-------cc---hHHHHHHHHHHhccCceEecCCCCHHHH
Confidence            588899888874 444445555555544 33333333 11       00   111111122221  45789999999999


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhccCh
Q psy18185        106 EAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDA  174 (190)
Q Consensus       106 ~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~~~  174 (190)
                      .+++..++++.|+.++++++++++.. .+||++.+-+=++....++.   ++.||.++|..+..-+...
T Consensus       146 ~~~i~~~~~~~~l~i~~~a~~~L~~~-~~~nl~~i~~Ei~KL~l~~~---~~~I~~~~V~~~v~~~~~~  210 (334)
T COG1466         146 PQWIKKRAKELGLKIDQEAIQLLLEA-LGGNLLAIAQEIEKLALYAG---DKEITLEDVEEVVSDVAEF  210 (334)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHH-hCCcHHHHHHHHHHHHHhCC---CCcCCHHHHHHHHhccccC
Confidence            99999999999999999999999999 79999999999999887753   3389999999988544433

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=97.59  E-value=0.00014  Score=63.49  Aligned_cols=144  Identities=22%  Similarity=0.238  Sum_probs=81.8

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC--------------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-hh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA--------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LI   94 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~--------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~~   94 (190)
                      .||.||||.+.+..+....|+.+||.+.-              +.++.++|-...+.+........-.+|++++||+ ++
T Consensus       122 ~GiccIDe~dk~~~~~~~~l~eaMEqq~isi~kagi~~~l~ar~svlaa~NP~~g~~~~~~~~~~ni~l~~~LLSRFDLi  201 (331)
T PF00493_consen  122 GGICCIDEFDKMKEDDRDALHEAMEQQTISIAKAGIVTTLNARCSVLAAANPKFGRYDPNKSLSENINLPPPLLSRFDLI  201 (331)
T ss_dssp             TSEEEECTTTT--CHHHHHHHHHHHCSCEEECTSSSEEEEE---EEEEEE--TT--S-TTS-CGCCT-S-CCCHCC-SEE
T ss_pred             CceeeecccccccchHHHHHHHHHHcCeeccchhhhcccccchhhhHHHHhhhhhhcchhhhhHHhcccchhhHhhcCEE
Confidence            48999999999999999999999997431              3577777643211111111111124678899997 23


Q ss_pred             ee-ccCCC----------------------------------HHHHHHHHHHHHHhcCCCCCHHHHHHHHHhc------C
Q psy18185         95 IR-TTPYN----------------------------------QKDMEAIIKLRANTEGHVLDDEALVTLSEIG------T  133 (190)
Q Consensus        95 i~-~~~ls----------------------------------~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a------~  133 (190)
                      |. ..+.+                                  .+.++..+.+.-......+++++.+.|.+.=      .
T Consensus       202 f~l~D~~d~~~D~~la~~il~~~~~~~~~~~~~~~~~~~~~~~~~lr~yI~yar~~~~P~ls~ea~~~I~~~Yv~lR~~~  281 (331)
T PF00493_consen  202 FLLRDKPDEEEDERLAEHILDSHRNGKKSKEKKIKKNDKPISEDLLRKYIAYARQNIHPVLSEEAKELIINYYVELRKES  281 (331)
T ss_dssp             ECC--TTT-HHHHHHHHHHHTTT---S--------SSS-TT-HCCCHHHHHHHHHHC--EE-HHCHHHHHHHHCCCCHCH
T ss_pred             EEeccccccccccccceEEEeccccccccccccccccCCccCHHHHHHHHHHHHhhcccccCHHHHHHHHHHHHHhcccc
Confidence            32 33333                                  2223333333322455578899988887761      0


Q ss_pred             -------CCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhccC
Q psy18185        134 -------RSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLD  173 (190)
Q Consensus       134 -------~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~~  173 (190)
                             .-++|..-.++..+-.+|+-..+..||.+||..+..+|..
T Consensus       282 ~~~~~~~~iT~R~LeSLIRLseA~AKl~lr~~V~~~Dv~~Ai~L~~~  328 (331)
T PF00493_consen  282 KSNNKSIPITIRQLESLIRLSEAHAKLRLRDEVTEEDVEEAIRLFEE  328 (331)
T ss_dssp             HCHSS-B-SSCCCCCHHHHHHHHHHHCTTSSECSHHHHHHHHHHHHH
T ss_pred             cccccccccchhhHHHHHHHHHHHHHHhccCceeHHHHHHHHHHHHh
Confidence                   0134444455555556777788889999999999988753

; 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.

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

Probab=97.52  E-value=0.00049  Score=50.46  Aligned_cols=69  Identities=35%  Similarity=0.404  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHHcCccccCCeEEEEecCCCCCHHH-----------HHHHHHHhhccCC----CEEEEEecCCcccccCCC
Q psy18185         12 EINKVVNKYIDQGIAELVPGVLFIDEVHMLDLET-----------FTYLHRALESAIA----PIVIFATNRGRCLVRGTD   76 (190)
Q Consensus        12 ~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~-----------~~~L~~~~E~~~~----~~iIlatn~~~~~~~~t~   76 (190)
                      .+++.+.+....+    .+.|++|||+|.+....           .+.|+..++....    ..+|++||          
T Consensus        45 ~i~~~~~~~~~~~----~~~vl~iDe~d~l~~~~~~~~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn----------  110 (132)
T PF00004_consen   45 KIRDFFKKAKKSA----KPCVLFIDEIDKLFPKSQPSSSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTN----------  110 (132)
T ss_dssp             HHHHHHHHHHHTS----TSEEEEEETGGGTSHHCSTSSSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEES----------
T ss_pred             ccccccccccccc----cceeeeeccchhcccccccccccccccccceeeecccccccccccceeEEeeC----------
Confidence            5556666543333    25899999999997765           8888999987655    35666664          


Q ss_pred             CCCCCCCCChhHh-hhhh-heec
Q psy18185         77 DIISPHGIPLDLL-DRLL-IIRT   97 (190)
Q Consensus        77 ~~~~~~~l~~~l~-SR~~-~i~~   97 (190)
                         .+..++++++ +||. .+.+
T Consensus       111 ---~~~~i~~~l~~~rf~~~i~~  130 (132)
T PF00004_consen  111 ---SPDKIDPALLRSRFDRRIEF  130 (132)
T ss_dssp             ---SGGGSCHHHHSTTSEEEEEE
T ss_pred             ---ChhhCCHhHHhCCCcEEEEc
Confidence               2678999999 9984 3444

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 ....

>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]

Probab=97.51  E-value=0.00098  Score=63.05  Aligned_cols=130  Identities=24%  Similarity=0.233  Sum_probs=92.7

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC----------------------CEEEEEecCCcccccCCCCCCCCCCCChh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA----------------------PIVIFATNRGRCLVRGTDDIISPHGIPLD   87 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~----------------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~   87 (190)
                      .|||||||+..|....++.+++.+++...                      ..+|+++|+       .    ....+.+.
T Consensus       226 gGVLiIdei~lL~~~~~w~~LKa~~~k~~~~~~~~~~s~~~~v~~e~vP~d~klI~~Gn~-------~----~l~~l~~~  294 (647)
T COG1067         226 GGVLIIDEIGLLAQPLQWKLLKALLDKEQPIWGSSEPSSGAPVRPESVPLDLKLILAGNR-------E----DLEDLHEP  294 (647)
T ss_pred             CcEEEEEhhhhhCcHHHHHHHHHHHhccccccCcCccccCcccCCCCcccceEEEeeCCH-------H----HHHhhccc
Confidence            48999999999998888888888876511                      146777753       1    24455556


Q ss_pred             Hhhhhhh----eecc---CCCHHHHHHHHHHHHH----h-cCCCCCHHHHHHHHHhcCC---------CCHHHHHHHHHH
Q psy18185         88 LLDRLLI----IRTT---PYNQKDMEAIIKLRAN----T-EGHVLDDEALVTLSEIGTR---------STLRYVVQLLTP  146 (190)
Q Consensus        88 l~SR~~~----i~~~---~ls~~ei~~iL~~~~~----~-~~~~i~~e~l~~i~~~a~~---------gdlR~ai~lL~~  146 (190)
                      .+||-.-    ..|+   |.++++-...+...+.    . .-..++.+|+..|.+.+.+         -.+|...+++..
T Consensus       295 ~~~r~~g~~y~ae~~~~m~~~~~nr~k~~~~~~q~v~~d~~ip~~~~~Av~~li~~a~R~Ag~~~~Ltl~~rdl~~lv~~  374 (647)
T COG1067         295 DRSRIEGFGYEAEFEDTMPITDANRSKLVQFYVQELARDGNIPHLDKDAVEELIREAARRAGDQNKLTLRLRDLGNLVRE  374 (647)
T ss_pred             CHHHHhhcceEEEEcCCCCCChHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhccccceeccCHHHHHHHHHH
Confidence            6666433    2333   4455555555544433    2 3347899999998887521         267999999999


Q ss_pred             HHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        147 AALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       147 ~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      |+.+|..+|+.-||.++|.+++..
T Consensus       375 A~~ia~~~~~~~I~ae~Ve~a~~~  398 (647)
T COG1067         375 AGDIAVSEGRKLITAEDVEEALQK  398 (647)
T ss_pred             hhHHHhcCCcccCcHHHHHHHHHh
Confidence            999999989999999999999865

>KOG1968|consensus

Probab=97.51  E-value=0.00063  Score=66.23  Aligned_cols=105  Identities=15%  Similarity=0.139  Sum_probs=85.0

Q ss_pred             CeEEEEecCCCCCH---HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         30 PGVLFIDEVHMLDL---ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        30 ~~Il~IDEi~~L~~---~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      ..||++||+|.+..   ..+..+..+.+....|+++.++.        .+.     .-+.++.+-|..++|..++.+.+.
T Consensus       429 ~~vil~devD~~~~~dRg~v~~l~~l~~ks~~Piv~~cnd--------r~~-----p~sr~~~~~~~~l~f~kP~~~~i~  495 (871)
T KOG1968|consen  429 HFLILMDEVDGMFGEDRGGVSKLSSLCKKSSRPLVCTCND--------RNL-----PKSRALSRACSDLRFSKPSSELIR  495 (871)
T ss_pred             eeEEEEeccccccchhhhhHHHHHHHHHhccCCeEEEecC--------CCC-----ccccchhhhcceeeecCCcHHHHH
Confidence            45999999999965   78888888888665575555442        221     112245555899999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAA  148 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~  148 (190)
                      ..|...|..+++.|+++.++-+.+. ++||+|..++.|+...
T Consensus       496 ~ri~si~~se~~ki~~~~l~~~s~~-~~~DiR~~i~~lq~~~  536 (871)
T KOG1968|consen  496 SRIMSICKSEGIKISDDVLEEISKL-SGGDIRQIIMQLQFWS  536 (871)
T ss_pred             hhhhhhhcccceecCcHHHHHHHHh-cccCHHHHHHHHhhhh
Confidence            9999999999999999999999999 6999999999998773

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=97.50  E-value=0.0028  Score=55.00  Aligned_cols=131  Identities=25%  Similarity=0.328  Sum_probs=85.5

Q ss_pred             EEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEe-cCCcccccCCCCCCCCCCCChhHhhhh-hheec
Q psy18185         32 VLFIDEVHMLDLETFTYLHRALESAI------------APIVIFAT-NRGRCLVRGTDDIISPHGIPLDLLDRL-LIIRT   97 (190)
Q Consensus        32 Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlat-n~~~~~~~~t~~~~~~~~l~~~l~SR~-~~i~~   97 (190)
                      |+++|||++..+..|++|+.++++..            .+-++++| |        ......-+.+|.++++|| ..+.+
T Consensus       115 ill~DEInra~p~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~viaT~N--------p~e~~g~~~l~eA~ldRf~~~~~v  186 (329)
T COG0714         115 ILLLDEINRAPPEVQNALLEALEERQVTVPGLTTIRLPPPFIVIATQN--------PGEYEGTYPLPEALLDRFLLRIYV  186 (329)
T ss_pred             EEEEeccccCCHHHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEEccC--------ccccCCCcCCCHHHHhhEEEEEec
Confidence            99999999999999999999999711            13455555 3        101111234688999999 66777


Q ss_pred             cCCCHHHHHHHHHHHHH--------------------------hcCCCCCHHHHHHHHHhcC---CC-------CHHHHH
Q psy18185         98 TPYNQKDMEAIIKLRAN--------------------------TEGHVLDDEALVTLSEIGT---RS-------TLRYVV  141 (190)
Q Consensus        98 ~~ls~~ei~~iL~~~~~--------------------------~~~~~i~~e~l~~i~~~a~---~g-------dlR~ai  141 (190)
                      ..+..++-..++..+..                          ..++.+++++..++....+   ..       +.|...
T Consensus       187 ~yp~~~~e~~~i~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~s~r~~~  266 (329)
T COG0714         187 DYPDSEEEERIILARVGGVDELDLESLVKPVLSDEELLRLQKEVKKVPVSDEVIDYIVTLVAALREAPDVALGASPRASL  266 (329)
T ss_pred             CCCCchHHHHHHHHhCccccccccchhhhhhhCHHHHHHHHhhhccCCchHHHHHHHHHHHHhhccccchhccCCchhHH
Confidence            77734433333322211                          0256777888888766621   11       367777


Q ss_pred             HHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        142 QLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       142 ~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      .++..+...+...|+..+..++++.....
T Consensus       267 ~~~~~~~~~a~~~~~~~~~~~dv~~~~~~  295 (329)
T COG0714         267 ALLAALRALALLDGRDAVIPDDVKALAEP  295 (329)
T ss_pred             HHHHHHHhhhhhcCccccCHHHHHHHhhh
Confidence            77777777777788888888888776643

>KOG2004|consensus

Probab=97.48  E-value=0.00093  Score=63.47  Aligned_cols=103  Identities=24%  Similarity=0.324  Sum_probs=73.2

Q ss_pred             eEEEEecCCCCCH----HHHHHHHHHhhc-------------cCC---CEEEEEecCCcccccCCCCCCCCCCCChhHhh
Q psy18185         31 GVLFIDEVHMLDL----ETFTYLHRALES-------------AIA---PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD   90 (190)
Q Consensus        31 ~Il~IDEi~~L~~----~~~~~L~~~~E~-------------~~~---~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S   90 (190)
                      .++.|||||.+..    +=.++|+.+++-             |..   +.||.++|             ....||++|++
T Consensus       507 PliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVLFicTAN-------------~idtIP~pLlD  573 (906)
T KOG2004|consen  507 PLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVLFICTAN-------------VIDTIPPPLLD  573 (906)
T ss_pred             ceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheEEEEecc-------------ccccCChhhhh
Confidence            6899999999964    345677777751             111   23444443             25579999999


Q ss_pred             hhhheeccCCCHHHHHHHHHHHHH----------hcCCCCCHHHHHHHHHh-cCCCCHHHHHHHHHH
Q psy18185         91 RLLIIRTTPYNQKDMEAIIKLRAN----------TEGHVLDDEALVTLSEI-GTRSTLRYVVQLLTP  146 (190)
Q Consensus        91 R~~~i~~~~ls~~ei~~iL~~~~~----------~~~~~i~~e~l~~i~~~-a~~gdlR~ai~lL~~  146 (190)
                      |+.+|++..|..+|...|-.+...          .+.+.++++++..|.++ |-+.++|..-.-++.
T Consensus       574 RMEvIelsGYv~eEKv~IA~~yLip~a~~~~gl~~e~v~is~~al~~lI~~YcrEaGVRnLqk~iek  640 (906)
T KOG2004|consen  574 RMEVIELSGYVAEEKVKIAERYLIPQALKDCGLKPEQVKISDDALLALIERYCREAGVRNLQKQIEK  640 (906)
T ss_pred             hhheeeccCccHHHHHHHHHHhhhhHHHHHcCCCHHhcCccHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            999999999999999888777642          25678999999888877 323456655544443

>KOG0727|consensus

Probab=97.46  E-value=0.002  Score=54.84  Aligned_cols=127  Identities=17%  Similarity=0.163  Sum_probs=80.4

Q ss_pred             CCeEEEEecCCCC-----------CHHHHHHHHHHhhccCC------CEEEEEecCCcccccCCCCCCCCCCCChhHhhh
Q psy18185         29 VPGVLFIDEVHML-----------DLETFTYLHRALESAIA------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR   91 (190)
Q Consensus        29 ~~~Il~IDEi~~L-----------~~~~~~~L~~~~E~~~~------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR   91 (190)
                      .+.|+||||+|.+           +.+.|..|..++..-.+      +.+|++||+             ...+.|+++..
T Consensus       248 apsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~nvkvimatnr-------------adtldpallrp  314 (408)
T KOG0727|consen  248 APSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTTNVKVIMATNR-------------ADTLDPALLRP  314 (408)
T ss_pred             CCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcccceEEEEecCc-------------ccccCHhhcCC
Confidence            3689999999998           34788888887764322      579999985             34566666655


Q ss_pred             h---hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185         92 L---LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus        92 ~---~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      .   ..++|+-.+..+.+-+..-++.+.++.=+-+.-.++++- ..-+--..-.+++.++.+|.+.++--|...+..++.
T Consensus       315 grldrkiefplpdrrqkrlvf~titskm~ls~~vdle~~v~rp-dkis~adi~aicqeagm~avr~nryvvl~kd~e~ay  393 (408)
T KOG0727|consen  315 GRLDRKIEFPLPDRRQKRLVFSTITSKMNLSDEVDLEDLVARP-DKISGADINAICQEAGMLAVRENRYVVLQKDFEKAY  393 (408)
T ss_pred             ccccccccCCCCchhhhhhhHHhhhhcccCCcccCHHHHhcCc-cccchhhHHHHHHHHhHHHHHhcceeeeHHHHHHHH
Confidence            4   478888777777777776666665432222222333322 111112223357778777877777777777777766


Q ss_pred             H
Q psy18185        169 T  169 (190)
Q Consensus       169 ~  169 (190)
                      .
T Consensus       394 ~  394 (408)
T KOG0727|consen  394 K  394 (408)
T ss_pred             H
Confidence            4

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=97.44  E-value=0.0017  Score=61.71  Aligned_cols=116  Identities=28%  Similarity=0.347  Sum_probs=81.3

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i   95 (190)
                      .|+||||||+.|..+.|..|++++++..            .+.+|.+|+....      .......+..++..|.  ..+
T Consensus       471 ~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~l~------~~~~~~~f~~~L~~~l~~~~i  544 (686)
T PRK15429        471 KSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLK------KMVADREFRSDLYYRLNVFPI  544 (686)
T ss_pred             CCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCCCHH------HHHHcCcccHHHHhccCeeEE
Confidence            4899999999999999999999998642            1357777742000      0001122334555564  567


Q ss_pred             eccCCCH--HHHHHHHHHH----HHhcCC---CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHh
Q psy18185         96 RTTPYNQ--KDMEAIIKLR----ANTEGH---VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTA  151 (190)
Q Consensus        96 ~~~~ls~--~ei~~iL~~~----~~~~~~---~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a  151 (190)
                      .++|+.+  +|+..++..-    +.+.|.   .+++++++.+..+.+.|++|..-+.++.+...+
T Consensus       545 ~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~~s~~al~~L~~y~WPGNvrEL~~~i~~a~~~~  609 (686)
T PRK15429        545 HLPPLRERPEDIPLLVKAFTFKIARRMGRNIDSIPAETLRTLSNMEWPGNVRELENVIERAVLLT  609 (686)
T ss_pred             eCCChhhhHhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCCcHHHHHHHHHHHHHhC
Confidence            8999987  5665555433    332232   489999999999988999999999999998654

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.41  E-value=0.0033  Score=58.03  Aligned_cols=73  Identities=25%  Similarity=0.262  Sum_probs=53.2

Q ss_pred             CeEEEEecCCCCCH------------HHHHHHHHHhhccC---CCEEEEEecCCcccccCCCCCCCCCCCChhHhh--hh
Q psy18185         30 PGVLFIDEVHMLDL------------ETFTYLHRALESAI---APIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--RL   92 (190)
Q Consensus        30 ~~Il~IDEi~~L~~------------~~~~~L~~~~E~~~---~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--R~   92 (190)
                      +.|+||||+|.+..            ...+.|+..++.-.   ...+|++||             .+..++|++++  |+
T Consensus       290 p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~~~ViVI~ATN-------------~~d~LDpALlRpGRf  356 (512)
T TIGR03689       290 PVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESLDNVIVIGASN-------------REDMIDPAILRPGRL  356 (512)
T ss_pred             CceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccCCceEEEeccC-------------ChhhCCHhhcCcccc
Confidence            57999999999832            12355666665322   245666665             37789999987  65


Q ss_pred             -hheeccCCCHHHHHHHHHHHHHh
Q psy18185         93 -LIIRTTPYNQKDMEAIIKLRANT  115 (190)
Q Consensus        93 -~~i~~~~ls~~ei~~iL~~~~~~  115 (190)
                       ..|.|++++.++..++++.+...
T Consensus       357 D~~I~~~~Pd~e~r~~Il~~~l~~  380 (512)
T TIGR03689       357 DVKIRIERPDAEAAADIFSKYLTD  380 (512)
T ss_pred             ceEEEeCCCCHHHHHHHHHHHhhc
Confidence             45999999999999999987643

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.

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=97.38  E-value=0.00092  Score=61.13  Aligned_cols=116  Identities=28%  Similarity=0.269  Sum_probs=80.1

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC-------C-----CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhh--e
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI-------A-----PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLI--I   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~-------~-----~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~--i   95 (190)
                      .|-||+|||..|..+.|..|+|+++++.       .     +.+|.|||+-..++.      .-...-.|+--|.-+  +
T Consensus       318 GGTLFLDEIGelPL~lQaKLLRvLQegEieRvG~~r~ikVDVRiIAATNRDL~~~V------~~G~FRaDLYyRLsV~Pl  391 (550)
T COG3604         318 GGTLFLDEIGELPLALQAKLLRVLQEGEIERVGGDRTIKVDVRVIAATNRDLEEMV------RDGEFRADLYYRLSVFPL  391 (550)
T ss_pred             CCeEechhhccCCHHHHHHHHHHHhhcceeecCCCceeEEEEEEEeccchhHHHHH------HcCcchhhhhhccccccc
Confidence            4899999999999999999999998643       1     468999986421110      011223455555533  4


Q ss_pred             eccCCCH--HHHH---HH-HHHHHHh---cCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHh
Q psy18185         96 RTTPYNQ--KDME---AI-IKLRANT---EGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTA  151 (190)
Q Consensus        96 ~~~~ls~--~ei~---~i-L~~~~~~---~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a  151 (190)
                      .++|+-+  +|+-   .. +++....   ..+.++++|++.+.+...-|++|..-|.+++++..|
T Consensus       392 ~lPPLRER~~DIplLA~~Fle~~~~~~gr~~l~ls~~Al~~L~~y~wPGNVRELen~veRavlla  456 (550)
T COG3604         392 ELPPLRERPEDIPLLAGYFLEKFRRRLGRAILSLSAEALELLSSYEWPGNVRELENVVERAVLLA  456 (550)
T ss_pred             CCCCcccCCccHHHHHHHHHHHHHHhcCCcccccCHHHHHHHHcCCCCCcHHHHHHHHHHHHHHh
Confidence            5666654  2332   22 2222222   245799999999999988999999999999999876

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=97.33  E-value=0.00069  Score=59.54  Aligned_cols=133  Identities=21%  Similarity=0.331  Sum_probs=89.1

Q ss_pred             CeEEEEecCCCCCH------------HHHHHHHHHhhccCC-----C----EEEEEecCCcccccCCCCCCCCCCCChhH
Q psy18185         30 PGVLFIDEVHMLDL------------ETFTYLHRALESAIA-----P----IVIFATNRGRCLVRGTDDIISPHGIPLDL   88 (190)
Q Consensus        30 ~~Il~IDEi~~L~~------------~~~~~L~~~~E~~~~-----~----~iIlatn~~~~~~~~t~~~~~~~~l~~~l   88 (190)
                      .||+||||+|.+..            ..|.-|+.++|.+..     |    ++++++. +.|      ...-|+.+.|.|
T Consensus       251 ~GIvFIDEIDKIa~~~~~g~~dvSREGVQRDlLPlvEGstV~TKyG~VkTdHILFIas-GAF------h~sKPSDLiPEL  323 (444)
T COG1220         251 NGIVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLVEGSTVSTKYGPVKTDHILFIAS-GAF------HVAKPSDLIPEL  323 (444)
T ss_pred             cCeEEEehhhHHHhcCCCCCCCcchhhhcccccccccCceeeccccccccceEEEEec-Cce------ecCChhhcChhh
Confidence            38999999999832            578899999996432     1    3333331 111      222478889999


Q ss_pred             hhhh-hheeccCCCHHHHHHHHHHH-----------HHhcCC--CCCHHHHHHHHHhcC-------CCCHHHHHHHHHHH
Q psy18185         89 LDRL-LIIRTTPYNQKDMEAIIKLR-----------ANTEGH--VLDDEALVTLSEIGT-------RSTLRYVVQLLTPA  147 (190)
Q Consensus        89 ~SR~-~~i~~~~ls~~ei~~iL~~~-----------~~~~~~--~i~~e~l~~i~~~a~-------~gdlR~ai~lL~~~  147 (190)
                      ..|+ ..+++.++|.+++..||..-           .+.+|+  .++++++..||+.|.       +=++|..-..|+..
T Consensus       324 QGRfPIRVEL~~Lt~~Df~rILtep~~sLikQY~aLlkTE~v~l~FtddaI~~iAeiA~~vN~~~ENIGARRLhTvlErl  403 (444)
T COG1220         324 QGRFPIRVELDALTKEDFERILTEPKASLIKQYKALLKTEGVELEFTDDAIKRIAEIAYQVNEKTENIGARRLHTVLERL  403 (444)
T ss_pred             cCCCceEEEcccCCHHHHHHHHcCcchHHHHHHHHHHhhcCeeEEecHHHHHHHHHHHHHhcccccchhHHHHHHHHHHH
Confidence            9999 46899999999999998643           122554  689999999999962       23567766666555


Q ss_pred             H----HHhhhcCCC--cccHHHHHHHHH
Q psy18185        148 A----LTAKTNGRT--AISKQDILEVST  169 (190)
Q Consensus       148 ~----~~a~~~g~~--~It~~~V~~~~~  169 (190)
                      .    +-|...+..  .|+.+-|.+-++
T Consensus       404 LediSFeA~d~~g~~v~Id~~yV~~~l~  431 (444)
T COG1220         404 LEDISFEAPDMSGQKVTIDAEYVEEKLG  431 (444)
T ss_pred             HHHhCccCCcCCCCeEEEcHHHHHHHHH
Confidence            4    333322222  366667766653

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=97.21  E-value=0.00095  Score=62.25  Aligned_cols=116  Identities=26%  Similarity=0.320  Sum_probs=83.3

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC-----------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhee
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA-----------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LIIR   96 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-----------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i~   96 (190)
                      .|.+|+|||..|..+.|..|+++++++..           ..+|-||++-...+.      ....+-.++--|.  .+|+
T Consensus       408 gGtlFldeIgd~p~~~Qs~LLrVl~e~~v~p~g~~~~~vdirvi~ath~dl~~lv------~~g~fredLyyrL~~~~i~  481 (606)
T COG3284         408 GGTLFLDEIGDMPLALQSRLLRVLQEGVVTPLGGTRIKVDIRVIAATHRDLAQLV------EQGRFREDLYYRLNAFVIT  481 (606)
T ss_pred             CCccHHHHhhhchHHHHHHHHHHHhhCceeccCCcceeEEEEEEeccCcCHHHHH------HcCCchHHHHHHhcCeeec
Confidence            47999999999999999999999998643           247777764211110      1123345666665  5778


Q ss_pred             ccCCCHH-----HHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhh
Q psy18185         97 TTPYNQK-----DMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAK  152 (190)
Q Consensus        97 ~~~ls~~-----ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~  152 (190)
                      ++|+.+-     .+..++++... .++.++++++..|..+.+.|++|...+.++.++.++.
T Consensus       482 lP~lr~R~d~~~~l~~~~~~~~~-~~~~l~~~~~~~l~~~~WPGNirel~~v~~~~~~l~~  541 (606)
T COG3284         482 LPPLRERSDRIPLLDRILKREND-WRLQLDDDALARLLAYRWPGNIRELDNVIERLAALSD  541 (606)
T ss_pred             cCchhcccccHHHHHHHHHHccC-CCccCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCC
Confidence            8888763     23333333322 5678999999999999889999999999999987663

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.11  E-value=0.019  Score=55.08  Aligned_cols=90  Identities=26%  Similarity=0.352  Sum_probs=62.3

Q ss_pred             CeEEEEecCCCCC-----------HHHHHHHHHHhhccC--C-CEEEEEecCCcccccCCCCCCCCCCCChhHhh--hh-
Q psy18185         30 PGVLFIDEVHMLD-----------LETFTYLHRALESAI--A-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--RL-   92 (190)
Q Consensus        30 ~~Il~IDEi~~L~-----------~~~~~~L~~~~E~~~--~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--R~-   92 (190)
                      +.||||||+|.+.           ...++.|+..++.-.  . ..+|++||             .|..+++.+++  |+ 
T Consensus       272 p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vivI~atn-------------~~~~ld~al~r~gRfd  338 (733)
T TIGR01243       272 PSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIGATN-------------RPDALDPALRRPGRFD  338 (733)
T ss_pred             CcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEEEeecC-------------ChhhcCHHHhCchhcc
Confidence            4799999999884           246677888887432  2 34444554             36778888887  55 


Q ss_pred             hheeccCCCHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHhcCCC
Q psy18185         93 LIIRTTPYNQKDMEAIIKLRANTEGHVLD-DEALVTLSEIGTRS  135 (190)
Q Consensus        93 ~~i~~~~ls~~ei~~iL~~~~~~~~~~i~-~e~l~~i~~~a~~g  135 (190)
                      ..+.++.++.++..++|+......  .+. +..+..+++.+ .|
T Consensus       339 ~~i~i~~P~~~~R~~Il~~~~~~~--~l~~d~~l~~la~~t-~G  379 (733)
T TIGR01243       339 REIVIRVPDKRARKEILKVHTRNM--PLAEDVDLDKLAEVT-HG  379 (733)
T ss_pred             EEEEeCCcCHHHHHHHHHHHhcCC--CCccccCHHHHHHhC-CC
Confidence            568899999999999998665443  332 33477788773 44

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.

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

Probab=97.09  E-value=0.0088  Score=53.38  Aligned_cols=87  Identities=16%  Similarity=0.148  Sum_probs=59.5

Q ss_pred             CeEEEEecCCCCCH-----------H-HHHHHHHHhhcc--------------CC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185         30 PGVLFIDEVHMLDL-----------E-TFTYLHRALESA--------------IA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus        30 ~~Il~IDEi~~L~~-----------~-~~~~L~~~~E~~--------------~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      +-||||||+|.+..           . ....|+..++.+              .. +.+|.+||             .|.
T Consensus       213 PcVLFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTN-------------rpd  279 (413)
T PLN00020        213 MSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGN-------------DFS  279 (413)
T ss_pred             CeEEEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCC-------------Ccc
Confidence            57999999998843           1 123556555431              12 34455554             288


Q ss_pred             CCChhHhh--hhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhc
Q psy18185         83 GIPLDLLD--RLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIG  132 (190)
Q Consensus        83 ~l~~~l~S--R~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a  132 (190)
                      .|+|+|+.  |+-.+ +..++.++..+||+...+..+  ++.+.+..|+...
T Consensus       280 ~LDpALlRpGRfDk~-i~lPd~e~R~eIL~~~~r~~~--l~~~dv~~Lv~~f  328 (413)
T PLN00020        280 TLYAPLIRDGRMEKF-YWAPTREDRIGVVHGIFRDDG--VSREDVVKLVDTF  328 (413)
T ss_pred             cCCHhHcCCCCCCce-eCCCCHHHHHHHHHHHhccCC--CCHHHHHHHHHcC
Confidence            99999998  66443 457899999999998887765  4566777777773

>KOG0734|consensus

Probab=97.06  E-value=0.0062  Score=56.50  Aligned_cols=124  Identities=23%  Similarity=0.236  Sum_probs=80.9

Q ss_pred             CeEEEEecCCCCCH-----HH---HHHHHHHhhccC------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh---
Q psy18185         30 PGVLFIDEVHMLDL-----ET---FTYLHRALESAI------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL---   92 (190)
Q Consensus        30 ~~Il~IDEi~~L~~-----~~---~~~L~~~~E~~~------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~---   92 (190)
                      +-||||||+|....     +.   -..|+.++-+-.      ++++|.|||.             |..+.++|....   
T Consensus       397 PcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNeGiIvigATNf-------------pe~LD~AL~RPGRFD  463 (752)
T KOG0734|consen  397 PCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNEGIIVIGATNF-------------PEALDKALTRPGRFD  463 (752)
T ss_pred             CeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCCceEEEeccCC-------------hhhhhHHhcCCCccc
Confidence            57999999999942     22   223444443211      2566777762             677777776654   


Q ss_pred             hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185         93 LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus        93 ~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      ..+.++.++-.--.+||.....+.  ..++++=-.++.++..| +--..-|+.-.|+..|-..|...+|..++.++-
T Consensus       464 ~~v~Vp~PDv~GR~eIL~~yl~ki--~~~~~VD~~iiARGT~GFsGAdLaNlVNqAAlkAa~dga~~VtM~~LE~ak  538 (752)
T KOG0734|consen  464 RHVTVPLPDVRGRTEILKLYLSKI--PLDEDVDPKIIARGTPGFSGADLANLVNQAALKAAVDGAEMVTMKHLEFAK  538 (752)
T ss_pred             eeEecCCCCcccHHHHHHHHHhcC--CcccCCCHhHhccCCCCCchHHHHHHHHHHHHHHHhcCcccccHHHHhhhh
Confidence            468888888888899999888653  33333322233332233 223456778888887777899999999988765

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=96.96  E-value=0.0086  Score=56.98  Aligned_cols=145  Identities=23%  Similarity=0.228  Sum_probs=84.7

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC--------------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-h
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA--------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-L   93 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~--------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~   93 (190)
                      ..||.+|||.|.|+....++|..+||.+.-              +.++.|+|-.+-+-+....+..--.+|++|+||+ +
T Consensus       383 D~Gv~cIDEfdKm~~~dr~aihEaMEQQtIsIaKAGI~atLnARcsvLAAaNP~~Gryd~~~~~~enI~l~~~lLSRFDL  462 (682)
T COG1241         383 DGGVCCIDEFDKMNEEDRVAIHEAMEQQTISIAKAGITATLNARCSVLAAANPKFGRYDPKKTVAENINLPAPLLSRFDL  462 (682)
T ss_pred             cCCEEEEEeccCCChHHHHHHHHHHHhcEeeecccceeeecchhhhhhhhhCCCCCcCCCCCCHHHhcCCChhHHhhCCe
Confidence            358999999999999999999999997542              1245555532211111111111224578999997 2


Q ss_pred             he-eccCCCH---HHHHH-HHHHH-------------------------------HHh-cCCCCCHHHHHHHHHhc----
Q psy18185         94 II-RTTPYNQ---KDMEA-IIKLR-------------------------------ANT-EGHVLDDEALVTLSEIG----  132 (190)
Q Consensus        94 ~i-~~~~ls~---~ei~~-iL~~~-------------------------------~~~-~~~~i~~e~l~~i~~~a----  132 (190)
                      +| -...++.   +++.+ +|..+                               |++ --..+++++.+.|.+.=    
T Consensus       463 ifvl~D~~d~~~D~~ia~hil~~h~~~~~~~~~~~~~~~~~~~~~~~~lrkYI~YAR~~v~P~lt~ea~e~l~~~Yv~~R  542 (682)
T COG1241         463 IFVLKDDPDEEKDEEIAEHILDKHRGEEPEETISLDGVDEVEERDFELLRKYISYARKNVTPVLTEEAREELEDYYVEMR  542 (682)
T ss_pred             eEEecCCCCccchHHHHHHHHHHHhccccccccccccccccccCcHHHHHHHHHHHhccCCcccCHHHHHHHHHHHHHhh
Confidence            22 2222222   22222 22211                               111 11368999999988771    


Q ss_pred             CC-----------CCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhccC
Q psy18185        133 TR-----------STLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLD  173 (190)
Q Consensus       133 ~~-----------gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~~  173 (190)
                      ..           -..|+.-.++..+-.+|+-+=+..++.++|.+|..++-.
T Consensus       543 k~~~~~~~~~~~piT~RqLEsiiRLaeA~Ak~rLS~~V~~eD~~eAi~lv~~  594 (682)
T COG1241         543 KKSALVEEKRTIPITARQLESIIRLAEAHAKMRLSDVVEEEDVDEAIRLVDF  594 (682)
T ss_pred             hccccccccCcccccHHHHHHHHHHHHHHHhhhccCCCCHHHHHHHHHHHHH
Confidence            00           124555445555555666566678999999999977543

>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=96.89  E-value=0.0029  Score=46.07  Aligned_cols=60  Identities=38%  Similarity=0.377  Sum_probs=42.0

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhcc-------CCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-hheeccC
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESA-------IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LIIRTTP   99 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~-------~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~~i~~~~   99 (190)
                      ..+++++||+|.+.......+...++..       ....+|++++        . .  ....+++.+++|| ..+.++|
T Consensus        84 ~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~--------~-~--~~~~~~~~~~~r~~~~i~~~~  151 (151)
T cd00009          84 KPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATN--------R-P--LLGDLDRALYDRLDIRIVIPL  151 (151)
T ss_pred             CCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecC--------c-c--ccCCcChhHHhhhccEeecCC
Confidence            3589999999999877777777777764       2356677774        1 1  1125677899999 6666654

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=96.88  E-value=0.03  Score=51.55  Aligned_cols=102  Identities=14%  Similarity=0.244  Sum_probs=72.8

Q ss_pred             CeEEEEecCCCC--CHHHHHHHHHHhhcc--CCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHH
Q psy18185         30 PGVLFIDEVHML--DLETFTYLHRALESA--IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDM  105 (190)
Q Consensus        30 ~~Il~IDEi~~L--~~~~~~~L~~~~E~~--~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei  105 (190)
                      ++|+++-|.|.+  ++.....|..+....  .+..+|+.+.              ...+|++|..=+.++.|+-++.+|+
T Consensus        82 ~~~~vl~d~h~~~~~~~~~r~l~~l~~~~~~~~~~~i~~~~--------------~~~~p~el~~~~~~~~~~lP~~~ei  147 (489)
T CHL00195         82 PALFLLKDFNRFLNDISISRKLRNLSRILKTQPKTIIIIAS--------------ELNIPKELKDLITVLEFPLPTESEI  147 (489)
T ss_pred             CcEEEEecchhhhcchHHHHHHHHHHHHHHhCCCEEEEEcC--------------CCCCCHHHHhceeEEeecCcCHHHH
Confidence            579999999999  333334443333321  1245666562              2457888888888999999999999


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHH
Q psy18185        106 EAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTP  146 (190)
Q Consensus       106 ~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~  146 (190)
                      ..+|...+...++.++++.++.+++.+ .| +.-.+-+.+..
T Consensus       148 ~~~l~~~~~~~~~~~~~~~~~~l~~~~-~gls~~~~~~~~~~  188 (489)
T CHL00195        148 KKELTRLIKSLNIKIDSELLENLTRAC-QGLSLERIRRVLSK  188 (489)
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHh-CCCCHHHHHHHHHH
Confidence            999988887778899999999999995 54 45444444443

>KOG0737|consensus

Probab=96.87  E-value=0.0067  Score=53.62  Aligned_cols=108  Identities=24%  Similarity=0.283  Sum_probs=69.7

Q ss_pred             cCCeEEEEecCCCCC-------HHHHHHHHHH-h------hccCC--CEEEEEecCCcccccCCCCCCCCCCCChhHhhh
Q psy18185         28 LVPGVLFIDEVHMLD-------LETFTYLHRA-L------ESAIA--PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR   91 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~-------~~~~~~L~~~-~------E~~~~--~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR   91 (190)
                      +.+-|+||||+|.+.       .++...+..- +      -....  +.+++|||             .|+.+..++.+|
T Consensus       185 l~P~iIFIDEvds~L~~R~s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVlgATN-------------RP~DlDeAiiRR  251 (386)
T KOG0737|consen  185 LQPSIIFIDEVDSFLGQRRSTDHEATAMMKNEFMALWDGLSSKDSERVLVLGATN-------------RPFDLDEAIIRR  251 (386)
T ss_pred             cCcceeehhhHHHHHhhcccchHHHHHHHHHHHHHHhccccCCCCceEEEEeCCC-------------CCccHHHHHHHh
Confidence            457899999999984       2322222211 1      11112  34555665             388999999999


Q ss_pred             h-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHH
Q psy18185         92 L-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAAL  149 (190)
Q Consensus        92 ~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~  149 (190)
                      + ..|.+.-++.++-.+||+-..+.++++ ++=-+..+++.+.+.+-+...+++..|+.
T Consensus       252 ~p~rf~V~lP~~~qR~kILkviLk~e~~e-~~vD~~~iA~~t~GySGSDLkelC~~Aa~  309 (386)
T KOG0737|consen  252 LPRRFHVGLPDAEQRRKILKVILKKEKLE-DDVDLDEIAQMTEGYSGSDLKELCRLAAL  309 (386)
T ss_pred             CcceeeeCCCchhhHHHHHHHHhcccccC-cccCHHHHHHhcCCCcHHHHHHHHHHHhH
Confidence            5 788888899999999999998887664 22225667777422255566666655554

>KOG0730|consensus

Probab=96.83  E-value=0.02  Score=54.04  Aligned_cols=110  Identities=18%  Similarity=0.244  Sum_probs=77.9

Q ss_pred             CeEEEEecCCCCCH----------HHHHHHHHHhhccCC--CEEEEEecCCcccccCCCCCCCCCCCChhHhh-hh-hhe
Q psy18185         30 PGVLFIDEVHMLDL----------ETFTYLHRALESAIA--PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD-RL-LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~----------~~~~~L~~~~E~~~~--~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S-R~-~~i   95 (190)
                      +.++||||+|.+.+          .....|+.+++.-.+  -++++++         ++   .|..+.+.+|. |+ ..+
T Consensus       279 psii~IdEld~l~p~r~~~~~~e~Rv~sqlltL~dg~~~~~~vivl~a---------tn---rp~sld~alRRgRfd~ev  346 (693)
T KOG0730|consen  279 PSIIFIDELDALCPKREGADDVESRVVSQLLTLLDGLKPDAKVIVLAA---------TN---RPDSLDPALRRGRFDREV  346 (693)
T ss_pred             CeeEeHHhHhhhCCcccccchHHHHHHHHHHHHHhhCcCcCcEEEEEe---------cC---CccccChhhhcCCCccee
Confidence            67999999999964          456677777776542  3455544         32   38899999996 76 567


Q ss_pred             eccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhh
Q psy18185         96 RTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTPAALTAKT  153 (190)
Q Consensus        96 ~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~~~~~a~~  153 (190)
                      .+.-++..+-.++|+...++.+.. ++..+..++..+ .| --..+-.++..++..+.+
T Consensus       347 ~IgiP~~~~RldIl~~l~k~~~~~-~~~~l~~iA~~t-hGyvGaDL~~l~~ea~~~~~r  403 (693)
T KOG0730|consen  347 EIGIPGSDGRLDILRVLTKKMNLL-SDVDLEDIAVST-HGYVGADLAALCREASLQATR  403 (693)
T ss_pred             eecCCCchhHHHHHHHHHHhcCCc-chhhHHHHHHHc-cchhHHHHHHHHHHHHHHHhh
Confidence            888899999999999999888765 677788888884 54 223444455555544433

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=96.80  E-value=0.0074  Score=52.79  Aligned_cols=99  Identities=16%  Similarity=0.149  Sum_probs=62.5

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHhhccCC-------------CEE--EEEecCCcccccCC--CCCCCCCCCChhHhhhhh
Q psy18185         31 GVLFIDEVHMLDLETFTYLHRALESAIA-------------PIV--IFATNRGRCLVRGT--DDIISPHGIPLDLLDRLL   93 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~~~~L~~~~E~~~~-------------~~i--Ilatn~~~~~~~~t--~~~~~~~~l~~~l~SR~~   93 (190)
                      .++++||++...++.++.|+.++|....             |-|  |.+.|-..   .|.  -.+..-..++.++++|+.
T Consensus       136 ~illlDEin~a~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g---~Gd~~G~y~Gt~~l~~A~lDRF~  212 (327)
T TIGR01650       136 VALCFDEYDAGRPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIG---LGDTTGLYHGTQQINQAQMDRWS  212 (327)
T ss_pred             eEEEechhhccCHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCC---cCCCCcceeeeecCCHHHHhhee
Confidence            5699999999999999999999994211             223  33343100   000  001112335789999996


Q ss_pred             h-eeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhc
Q psy18185         94 I-IRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIG  132 (190)
Q Consensus        94 ~-i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a  132 (190)
                      + +.+..++.++-.++|...+....-.-+++.++++.+.|
T Consensus       213 i~~~~~Yp~~e~E~~Il~~~~~~~~~~~~~~i~~~mV~la  252 (327)
T TIGR01650       213 IVTTLNYLEHDNEAAIVLAKAKGFDDTEGKDIINAMVRVA  252 (327)
T ss_pred             eEeeCCCCCHHHHHHHHHhhccCCCccchHHHHHHHHHHH
Confidence            4 68999999988888876542211112456777777773

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.

>PHA02244 ATPase-like protein

Probab=96.78  E-value=0.022  Score=50.74  Aligned_cols=72  Identities=25%  Similarity=0.276  Sum_probs=50.4

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCC-CCCCCCCChhHhhhhhhee
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDD-IISPHGIPLDLLDRLLIIR   96 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~-~~~~~~l~~~l~SR~~~i~   96 (190)
                      .++++|||++.+.++.+..|+.+++...            ...+|+++|..   ..|+.+ +.....+++++++|+..+.
T Consensus       181 GgvLiLDEId~a~p~vq~~L~~lLd~r~l~l~g~~i~~h~~FRlIATsN~~---~~G~~~~y~G~k~L~~AllDRFv~I~  257 (383)
T PHA02244        181 GGLFFIDEIDASIPEALIIINSAIANKFFDFADERVTAHEDFRVISAGNTL---GKGADHIYVARNKIDGATLDRFAPIE  257 (383)
T ss_pred             CCEEEEeCcCcCCHHHHHHHHHHhccCeEEecCcEEecCCCEEEEEeeCCC---ccCcccccCCCcccCHHHHhhcEEee
Confidence            3799999999999999999999997321            23577777621   001111 1123567899999999999


Q ss_pred             ccCCCHHH
Q psy18185         97 TTPYNQKD  104 (190)
Q Consensus        97 ~~~ls~~e  104 (190)
                      |..+++.|
T Consensus       258 ~dyp~~~E  265 (383)
T PHA02244        258 FDYDEKIE  265 (383)
T ss_pred             CCCCcHHH
Confidence            98877433

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

Probab=96.72  E-value=0.017  Score=54.13  Aligned_cols=124  Identities=27%  Similarity=0.283  Sum_probs=82.0

Q ss_pred             CeEEEEecCCCCCH--------------HHHHHHHHHhhccCC--CE-EEEEecCCcccccCCCCCCCCCCCChhHhhhh
Q psy18185         30 PGVLFIDEVHMLDL--------------ETFTYLHRALESAIA--PI-VIFATNRGRCLVRGTDDIISPHGIPLDLLDRL   92 (190)
Q Consensus        30 ~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~~--~~-iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~   92 (190)
                      +.|+||||+|...+              ...|-|+--++....  ++ ++.+||+             |.-+.++|+.-.
T Consensus       243 P~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gviviaaTNR-------------pdVlD~ALlRpg  309 (596)
T COG0465         243 PCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIAATNR-------------PDVLDPALLRPG  309 (596)
T ss_pred             CCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCceEEEecCCC-------------cccchHhhcCCC
Confidence            47999999999954              234455555554331  34 4445542             555666666543


Q ss_pred             ---hheeccCCCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHH
Q psy18185         93 ---LIIRTTPYNQKDMEAIIKLRANTEGHV--LDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEV  167 (190)
Q Consensus        93 ---~~i~~~~ls~~ei~~iL~~~~~~~~~~--i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~  167 (190)
                         ..+.++.++-..-++||+-++++-.+.  ++-..   |++.+..-.--...|++-.|+.+|-+.++..||..++.++
T Consensus       310 RFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~Vdl~~---iAr~tpGfsGAdL~nl~NEAal~aar~n~~~i~~~~i~ea  386 (596)
T COG0465         310 RFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKK---IARGTPGFSGADLANLLNEAALLAARRNKKEITMRDIEEA  386 (596)
T ss_pred             CcceeeecCCcchhhHHHHHHHHhhcCCCCCcCCHHH---HhhhCCCcccchHhhhHHHHHHHHHHhcCeeEeccchHHH
Confidence               567888888899999999777654332  33332   6666422233456778877887887888889999999888


Q ss_pred             HH
Q psy18185        168 ST  169 (190)
Q Consensus       168 ~~  169 (190)
                      ..
T Consensus       387 ~d  388 (596)
T COG0465         387 ID  388 (596)
T ss_pred             HH
Confidence            74

>KOG0731|consensus

Probab=96.65  E-value=0.038  Score=53.19  Aligned_cols=127  Identities=24%  Similarity=0.243  Sum_probs=89.3

Q ss_pred             CCeEEEEecCCCCCH------------HHHHHHHHHhhccC-----C-CEEEEEecCCcccccCCCCCCCCCCCChhHhh
Q psy18185         29 VPGVLFIDEVHMLDL------------ETFTYLHRALESAI-----A-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD   90 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~------------~~~~~L~~~~E~~~-----~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S   90 (190)
                      .+-|+||||+|....            +.-+.|+.++=+-.     . ++++.+||             .|..+.++++.
T Consensus       403 aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tn-------------r~d~ld~allr  469 (774)
T KOG0731|consen  403 APSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATN-------------RPDILDPALLR  469 (774)
T ss_pred             CCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccC-------------CccccCHHhcC
Confidence            367999999998843            34455555553211     2 44555554             26778888887


Q ss_pred             hh---hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhhcCCCcccHHHHHH
Q psy18185         91 RL---LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTPAALTAKTNGRTAISKQDILE  166 (190)
Q Consensus        91 R~---~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~~~~~a~~~g~~~It~~~V~~  166 (190)
                      ..   ..+.+..++...-.+|++.++.+-....++.-+..|+.++ .| .--...|++..++..|-+++...|+..++..
T Consensus       470 pGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t-~gf~gadl~n~~neaa~~a~r~~~~~i~~~~~~~  548 (774)
T KOG0731|consen  470 PGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLT-PGFSGADLANLCNEAALLAARKGLREIGTKDLEY  548 (774)
T ss_pred             CCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcC-CCCcHHHHHhhhhHHHHHHHHhccCccchhhHHH
Confidence            65   5789999999999999999987766544454455577774 33 3345667888888888888888999888888


Q ss_pred             HHH
Q psy18185        167 VST  169 (190)
Q Consensus       167 ~~~  169 (190)
                      ++.
T Consensus       549 a~~  551 (774)
T KOG0731|consen  549 AIE  551 (774)
T ss_pred             HHH
Confidence            775

>KOG0726|consensus

Probab=96.65  E-value=0.0054  Score=53.21  Aligned_cols=123  Identities=21%  Similarity=0.261  Sum_probs=77.1

Q ss_pred             CCeEEEEecCCCCCH-----------HHHHHHHHHhhccC------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhh
Q psy18185         29 VPGVLFIDEVHMLDL-----------ETFTYLHRALESAI------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR   91 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~-----------~~~~~L~~~~E~~~------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR   91 (190)
                      .+.|+||||||.+..           +.|..++.++..-.      .+.+|+|||+             ...+.|++...
T Consensus       278 apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFdsrgDvKvimATnr-------------ie~LDPaLiRP  344 (440)
T KOG0726|consen  278 APSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIMATNR-------------IETLDPALIRP  344 (440)
T ss_pred             CCceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCccccCCeEEEEeccc-------------ccccCHhhcCC
Confidence            468999999999942           66777666665321      2689999985             34566666555


Q ss_pred             h---hheeccCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHh---cCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHH
Q psy18185         92 L---LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEA-LVTLSEI---GTRSTLRYVVQLLTPAALTAKTNGRTAISKQDI  164 (190)
Q Consensus        92 ~---~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~-l~~i~~~---a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V  164 (190)
                      .   ..|.|+.+++.--+.|...+...  +.+.+++ ++.+...   -|..|+. |  ++..|..+|.++.+-.+|.++.
T Consensus       345 GrIDrKIef~~pDe~TkkkIf~IHTs~--Mtl~~dVnle~li~~kddlSGAdIk-A--ictEaGllAlRerRm~vt~~DF  419 (440)
T KOG0726|consen  345 GRIDRKIEFPLPDEKTKKKIFQIHTSR--MTLAEDVNLEELIMTKDDLSGADIK-A--ICTEAGLLALRERRMKVTMEDF  419 (440)
T ss_pred             CccccccccCCCchhhhceeEEEeecc--cchhccccHHHHhhcccccccccHH-H--HHHHHhHHHHHHHHhhccHHHH
Confidence            4   46888888887777666655433  2333322 2222221   1334553 3  4667777787777778998887


Q ss_pred             HHHHH
Q psy18185        165 LEVST  169 (190)
Q Consensus       165 ~~~~~  169 (190)
                      +.+.+
T Consensus       420 ~ka~e  424 (440)
T KOG0726|consen  420 KKAKE  424 (440)
T ss_pred             HHHHH
Confidence            77664

>PF13173 AAA_14: AAA domain

Probab=96.55  E-value=0.003  Score=47.16  Aligned_cols=67  Identities=18%  Similarity=0.256  Sum_probs=47.0

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDM  105 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei  105 (190)
                      ...++||||+|++. +.+..+..+.+..+...+++++.         ............+..|+..+++.|++-.|.
T Consensus        61 ~~~~i~iDEiq~~~-~~~~~lk~l~d~~~~~~ii~tgS---------~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   61 GKKYIFIDEIQYLP-DWEDALKFLVDNGPNIKIILTGS---------SSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             CCcEEEEehhhhhc-cHHHHHHHHHHhccCceEEEEcc---------chHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            34799999999995 67788888888764455777663         111111223456888899999999998774

>KOG0733|consensus

Probab=96.51  E-value=0.033  Score=52.49  Aligned_cols=89  Identities=21%  Similarity=0.222  Sum_probs=62.0

Q ss_pred             CCeEEEEecCCCCCH-----------HHHHHHHHHhhcc-------CCCEEEEEecCCcccccCCCCCCCCCCCChhHhh
Q psy18185         29 VPGVLFIDEVHMLDL-----------ETFTYLHRALESA-------IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLD   90 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~-----------~~~~~L~~~~E~~-------~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S   90 (190)
                      .+-|+||||+|.+++           ....-|+..|++.       .++++|.|||+             |..+.|+||.
T Consensus       282 aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIgATnR-------------PDslDpaLRR  348 (802)
T KOG0733|consen  282 APCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKGDPVLVIGATNR-------------PDSLDPALRR  348 (802)
T ss_pred             CCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCCCCeEEEecCCC-------------CcccCHHHhc
Confidence            368999999999975           2334566666542       12466777763             7889999987


Q ss_pred             hh---hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh
Q psy18185         91 RL---LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEI  131 (190)
Q Consensus        91 R~---~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~  131 (190)
                      -.   ..|.+.-+++.+-.+||+..|++..+.-+= -...||+.
T Consensus       349 aGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~-d~~qlA~l  391 (802)
T KOG0733|consen  349 AGRFDREICLGVPSETAREEILRIICRGLRLSGDF-DFKQLAKL  391 (802)
T ss_pred             cccccceeeecCCchHHHHHHHHHHHhhCCCCCCc-CHHHHHhc
Confidence            64   578999999999999999999765433211 23455665

>KOG0652|consensus

Probab=96.46  E-value=0.033  Score=47.79  Aligned_cols=123  Identities=21%  Similarity=0.245  Sum_probs=78.2

Q ss_pred             CeEEEEecCCCCC-----------HHHHHHHHHHhhc--cCC----CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh
Q psy18185         30 PGVLFIDEVHMLD-----------LETFTYLHRALES--AIA----PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL   92 (190)
Q Consensus        30 ~~Il~IDEi~~L~-----------~~~~~~L~~~~E~--~~~----~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~   92 (190)
                      +.|+||||+|.+.           .+.|...+.++..  +.+    +.+|.+||+             ..-+.|+++.-.
T Consensus       265 P~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKviAATNR-------------vDiLDPALlRSG  331 (424)
T KOG0652|consen  265 PTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKVIAATNR-------------VDILDPALLRSG  331 (424)
T ss_pred             CeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceEEEeeccc-------------ccccCHHHhhcc
Confidence            6899999999983           3677777776653  111    568888874             223556654433


Q ss_pred             ---hheeccCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHhc--CCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHH
Q psy18185         93 ---LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEA-LVTLSEIG--TRSTLRYVVQLLTPAALTAKTNGRTAISKQDILE  166 (190)
Q Consensus        93 ---~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~-l~~i~~~a--~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~  166 (190)
                         ..|+|+-++++.-..|++.++.+.++  ++++ .+.+++-+  .+|---.|  .+-.|.-.|.+.+...|+-++..+
T Consensus       332 RLDRKIEfP~Pne~aRarIlQIHsRKMnv--~~DvNfeELaRsTddFNGAQcKA--VcVEAGMiALRr~atev~heDfme  407 (424)
T KOG0652|consen  332 RLDRKIEFPHPNEEARARILQIHSRKMNV--SDDVNFEELARSTDDFNGAQCKA--VCVEAGMIALRRGATEVTHEDFME  407 (424)
T ss_pred             cccccccCCCCChHHHHHHHHHhhhhcCC--CCCCCHHHHhhcccccCchhhee--eehhhhHHHHhcccccccHHHHHH
Confidence               57999999999999999998877654  3433 33444331  12321222  233455566677888888777665


Q ss_pred             HHH
Q psy18185        167 VST  169 (190)
Q Consensus       167 ~~~  169 (190)
                      .+.
T Consensus       408 gI~  410 (424)
T KOG0652|consen  408 GIL  410 (424)
T ss_pred             HHH
Confidence            543

>KOG0740|consensus

Probab=96.35  E-value=0.027  Score=50.91  Aligned_cols=91  Identities=21%  Similarity=0.204  Sum_probs=62.3

Q ss_pred             CCeEEEEecCCCCCH-----------H-HHHHHHHHhhccC----CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh
Q psy18185         29 VPGVLFIDEVHMLDL-----------E-TFTYLHRALESAI----APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL   92 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~-----------~-~~~~L~~~~E~~~----~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~   92 (190)
                      .+.|+||||+|.+-.           . -..+|+...--..    .+.+|.|||             .|+.+...++.|+
T Consensus       245 qPsvifidEidslls~Rs~~e~e~srr~ktefLiq~~~~~s~~~drvlvigaTN-------------~P~e~Dea~~Rrf  311 (428)
T KOG0740|consen  245 QPSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFDGKNSAPDDRVLVIGATN-------------RPWELDEAARRRF  311 (428)
T ss_pred             CCeEEEechhHHHHhhcCCcccccchhhhhHHHhhhccccCCCCCeEEEEecCC-------------CchHHHHHHHHHh
Confidence            479999999999821           1 2223332222111    145666665             3888988888898


Q ss_pred             h-heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhc
Q psy18185         93 L-IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIG  132 (190)
Q Consensus        93 ~-~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a  132 (190)
                      + ++.+++++.+.-..++.....+.+..+.+..+..|++..
T Consensus       312 ~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~T  352 (428)
T KOG0740|consen  312 VKRLYIPLPDYETRSLLWKQLLKEQPNGLSDLDISLLAKVT  352 (428)
T ss_pred             hceeeecCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHh
Confidence            6 446777888877888887777666678888899999984

>KOG0482|consensus

Probab=96.28  E-value=0.047  Score=50.55  Aligned_cols=140  Identities=19%  Similarity=0.222  Sum_probs=95.3

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHhhccCC--------------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh---
Q psy18185         31 GVLFIDEVHMLDLETFTYLHRALESAIA--------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL---   93 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~~~~L~~~~E~~~~--------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~---   93 (190)
                      ||-+|||.|.|+..--.++..+||...-              +.++.|+|-..-+-+-.-.+-.--.+|++|+||+-   
T Consensus       441 GICCIDEfDKM~e~DRtAIHEVMEQQTISIaKAGI~TtLNAR~sILaAANPayGRYnprrs~e~NI~LPaALLSRFDll~  520 (721)
T KOG0482|consen  441 GICCIDEFDKMDESDRTAIHEVMEQQTISIAKAGINTTLNARTSILAAANPAYGRYNPRRSPEQNINLPAALLSRFDLLW  520 (721)
T ss_pred             ceEeehhhhhhhhhhhHHHHHHHHhhhhhhhhhccccchhhhHHhhhhcCccccccCcccChhHhcCCcHHHHHhhhhhh
Confidence            7889999999999889999999996532              12444554221000000000001245789999951   


Q ss_pred             ----------------------------heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh-------c------
Q psy18185         94 ----------------------------IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEI-------G------  132 (190)
Q Consensus        94 ----------------------------~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~-------a------  132 (190)
                                                  ...|.|++.+-++..|. .|+..+-.++++..++|...       +      
T Consensus       521 Li~D~pdrd~D~~LA~HiTyVH~H~~qp~~~fepl~~~~mR~yI~-~ak~~~P~vp~~l~dyi~~AYv~~Rrea~~~~~~  599 (721)
T KOG0482|consen  521 LIQDRPDRDNDLRLAQHITYVHQHEEQPPLDFEPLDPNLMRRYIS-LAKRKNPVVPEALADYITGAYVELRREARSSKDF  599 (721)
T ss_pred             hhccCCcccchHHHHHHhHhhhccCCCCCccCCCCCHHHHHHHHH-HHhhcCCCCCHHHHHHHHHHHHHHHHHhhccCCC
Confidence                                        24566788887777776 35555667899988888765       1      


Q ss_pred             CCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhc
Q psy18185        133 TRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLF  171 (190)
Q Consensus       133 ~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f  171 (190)
                      .--++|..+.+|.....+|+.+=...+..++|.+++.+.
T Consensus       600 t~ttpRtLL~IlRls~AlarLRls~~V~~~DV~EALRLm  638 (721)
T KOG0482|consen  600 TYTTPRTLLGILRLSTALARLRLSDSVEEDDVNEALRLM  638 (721)
T ss_pred             cccCHHHHHHHHHHHHHHHHhhhccccchhhHHHHHHHH
Confidence            124789999999988888887767789999999998653

>KOG0478|consensus

Probab=96.16  E-value=0.13  Score=48.95  Aligned_cols=70  Identities=23%  Similarity=0.270  Sum_probs=46.4

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC--------------CEEEEEecCCcccc----cCCCCCCCCCCCChhHhhh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA--------------PIVIFATNRGRCLV----RGTDDIISPHGIPLDLLDR   91 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~--------------~~iIlatn~~~~~~----~~t~~~~~~~~l~~~l~SR   91 (190)
                      .||=+|||+|.|+....+.|+.+||...-              +-++.++|-+.-+-    .-++|    -.+||+|+||
T Consensus       527 ~GiCCIDEFDKM~dStrSvLhEvMEQQTvSIAKAGII~sLNAR~SVLAaANP~~skynp~k~i~eN----I~LpptLLSR  602 (804)
T KOG0478|consen  527 NGICCIDEFDKMSDSTRSVLHEVMEQQTLSIAKAGIIASLNARCSVLAAANPIRSKYNPNKSIIEN----INLPPTLLSR  602 (804)
T ss_pred             CceEEchhhhhhhHHHHHHHHHHHHHhhhhHhhcceeeeccccceeeeeeccccccCCCCCchhhc----cCCChhhhhh
Confidence            37889999999999999999999996442              34666776432111    11222    2468999999


Q ss_pred             hhh--eeccCCCHH
Q psy18185         92 LLI--IRTTPYNQK  103 (190)
Q Consensus        92 ~~~--i~~~~ls~~  103 (190)
                      +-.  +-|.+.++.
T Consensus       603 FDLIylllD~~DE~  616 (804)
T KOG0478|consen  603 FDLIFLLLDKPDER  616 (804)
T ss_pred             hcEEEEEecCcchh
Confidence            832  245555543

>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=96.07  E-value=0.0072  Score=45.31  Aligned_cols=26  Identities=31%  Similarity=0.434  Sum_probs=22.0

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhc
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALES   55 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~   55 (190)
                      ..+++|||+|..+.+.+..|+.++|+
T Consensus        66 ~~il~lDEin~a~~~v~~~L~~ll~~   91 (139)
T PF07728_consen   66 GGILVLDEINRAPPEVLESLLSLLEE   91 (139)
T ss_dssp             EEEEEESSCGG--HHHHHTTHHHHSS
T ss_pred             eeEEEECCcccCCHHHHHHHHHHHhh
Confidence            36999999999999999999999985

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.

>KOG0745|consensus

Probab=96.06  E-value=0.049  Score=49.54  Aligned_cols=70  Identities=13%  Similarity=0.286  Sum_probs=49.0

Q ss_pred             CCCChhHhhhhh-heeccCCCHHHHHHHHHHHHH-----------hc--CCCCCHHHHHHHHHhcC--CCCHHHHHHHHH
Q psy18185         82 HGIPLDLLDRLL-IIRTTPYNQKDMEAIIKLRAN-----------TE--GHVLDDEALVTLSEIGT--RSTLRYVVQLLT  145 (190)
Q Consensus        82 ~~l~~~l~SR~~-~i~~~~ls~~ei~~iL~~~~~-----------~~--~~~i~~e~l~~i~~~a~--~gdlR~ai~lL~  145 (190)
                      +++.|+|.-|+. ++.|.+++++++.++|..=-.           ..  .+.++++|++.|++.|-  +-++|-.-.+|+
T Consensus       423 fGmIPEfVGRfPVlVplh~L~~~~Lv~VLtEPknaL~~Qyk~lf~~~nV~L~fTe~Al~~IAq~Al~r~TGARgLRsIlE  502 (564)
T KOG0745|consen  423 FGMIPEFVGRFPVLVPLHSLDEDQLVRVLTEPKNALGKQYKKLFGMDNVELHFTEKALEAIAQLALKRKTGARGLRSILE  502 (564)
T ss_pred             hcCcHHHhcccceEeeccccCHHHHHHHHhcchhhHHHHHHHHhccCCeeEEecHHHHHHHHHHHHhhccchHHHHHHHH
Confidence            445678888885 568999999999999864321           12  34689999999999962  234555555666


Q ss_pred             HHHHHh
Q psy18185        146 PAALTA  151 (190)
Q Consensus       146 ~~~~~a  151 (190)
                      .+..-+
T Consensus       503 ~~Llea  508 (564)
T KOG0745|consen  503 SLLLEA  508 (564)
T ss_pred             HHHhhh
Confidence            665443

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=96.01  E-value=0.088  Score=47.03  Aligned_cols=116  Identities=21%  Similarity=0.248  Sum_probs=77.4

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC------------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i   95 (190)
                      .|-+++|||..|++..|..|++++.++.=            +.+|.+|..-...      .......-.++--|.  +.+
T Consensus       294 gGTVlLDeIgEmSp~lQaKLLRFL~DGtFRRVGee~Ev~vdVRVIcatq~nL~~------lv~~g~fReDLfyRLNVLtl  367 (511)
T COG3283         294 GGTVLLDEIGEMSPRLQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQVNLVE------LVQKGKFREDLFYRLNVLTL  367 (511)
T ss_pred             CCeEEeehhhhcCHHHHHHHHHHhcCCceeecCCcceEEEEEEEEecccccHHH------HHhcCchHHHHHHHhheeee
Confidence            37999999999999999999999987641            2455555311000      000111223555554  345


Q ss_pred             eccCCCHH--HH----HHHHHHHHHhcCC---CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHh
Q psy18185         96 RTTPYNQK--DM----EAIIKLRANTEGH---VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTA  151 (190)
Q Consensus        96 ~~~~ls~~--ei----~~iL~~~~~~~~~---~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a  151 (190)
                      .++|+-+-  ++    +-.+.+.+.+.|+   .++++.+.++.++.+.|++|+.-|.+.+|....
T Consensus       368 ~~PpLRer~~di~pL~e~Fv~q~s~elg~p~pkl~~~~~~~L~~y~WpGNVRqL~N~iyRA~s~~  432 (511)
T COG3283         368 NLPPLRERPQDIMPLAELFVQQFSDELGVPRPKLAADLLTVLTRYAWPGNVRQLKNAIYRALTLL  432 (511)
T ss_pred             cCCccccCcccchHHHHHHHHHHHHHhCCCCCccCHHHHHHHHHcCCCccHHHHHHHHHHHHHHh
Confidence            56666542  22    2345556666544   688999999999999999999999999987544

>KOG0738|consensus

Probab=96.01  E-value=0.055  Score=48.57  Aligned_cols=89  Identities=27%  Similarity=0.312  Sum_probs=54.0

Q ss_pred             CCeEEEEecCCCCCH------------HHHHHHHHHhhcc------CCCEEEEEecCCcccccCCCCCCCCCCCChhHhh
Q psy18185         29 VPGVLFIDEVHMLDL------------ETFTYLHRALESA------IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLD   90 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~------------~~~~~L~~~~E~~------~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S   90 (190)
                      .+.+|||||||.|..            ..-+.|+-.++.-      ...++|+|+         | |  -|+.|..+||.
T Consensus       304 APStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~VmVLAA---------T-N--~PWdiDEAlrR  371 (491)
T KOG0738|consen  304 APSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLENSKVVMVLAA---------T-N--FPWDIDEALRR  371 (491)
T ss_pred             CCceeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhccccccccceeEEEEec---------c-C--CCcchHHHHHH
Confidence            468999999999942            3445555555421      225788877         5 3  38999999999


Q ss_pred             hhh-heeccCCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHh
Q psy18185         91 RLL-IIRTTPYNQKDMEAIIKLRANTEGHVLDDE-ALVTLSEI  131 (190)
Q Consensus        91 R~~-~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e-~l~~i~~~  131 (190)
                      |+. .|.++-++.+.-...|+.-.  .++..+++ -++.|++.
T Consensus       372 RlEKRIyIPLP~~~~R~~Li~~~l--~~~~~~~~~~~~~lae~  412 (491)
T KOG0738|consen  372 RLEKRIYIPLPDAEARSALIKILL--RSVELDDPVNLEDLAER  412 (491)
T ss_pred             HHhhheeeeCCCHHHHHHHHHHhh--ccccCCCCccHHHHHHH
Confidence            995 45555555555555554332  23333332 24455555

>KOG0742|consensus

Probab=95.93  E-value=0.033  Score=50.42  Aligned_cols=83  Identities=18%  Similarity=0.255  Sum_probs=59.1

Q ss_pred             HHHHHHcCccccCCeEEEEecCCCC---------CHHHHHH----HHHHhhccCCCEEEEEecCCcccccCCCCCCCCCC
Q psy18185         17 VNKYIDQGIAELVPGVLFIDEVHML---------DLETFTY----LHRALESAIAPIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus        17 v~~~~~~~~~~~~~~Il~IDEi~~L---------~~~~~~~----L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +..|...++.   .-+|||||+|.+         +.+.-++    |.++-+.+....++++||             .|..
T Consensus       434 lFDWakkS~r---GLllFIDEADAFLceRnktymSEaqRsaLNAlLfRTGdqSrdivLvlAtN-------------rpgd  497 (630)
T KOG0742|consen  434 LFDWAKKSRR---GLLLFIDEADAFLCERNKTYMSEAQRSALNALLFRTGDQSRDIVLVLATN-------------RPGD  497 (630)
T ss_pred             HHHHHhhccc---ceEEEehhhHHHHHHhchhhhcHHHHHHHHHHHHHhcccccceEEEeccC-------------Cccc
Confidence            3445554443   248889999976         3333333    334445554578889997             3888


Q ss_pred             CChhHhhhh-hheeccCCCHHHHHHHHHHHHHh
Q psy18185         84 IPLDLLDRL-LIIRTTPYNQKDMEAIIKLRANT  115 (190)
Q Consensus        84 l~~~l~SR~-~~i~~~~ls~~ei~~iL~~~~~~  115 (190)
                      +..++-+|. .+++|+-+..+|-..+|....++
T Consensus       498 lDsAV~DRide~veFpLPGeEERfkll~lYlnk  530 (630)
T KOG0742|consen  498 LDSAVNDRIDEVVEFPLPGEEERFKLLNLYLNK  530 (630)
T ss_pred             hhHHHHhhhhheeecCCCChHHHHHHHHHHHHH
Confidence            999999998 78899999999999999887654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=95.87  E-value=0.11  Score=50.18  Aligned_cols=100  Identities=15%  Similarity=0.215  Sum_probs=66.7

Q ss_pred             CeEEEEecCCCCCHH-HHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheecc----CCCHH
Q psy18185         30 PGVLFIDEVHMLDLE-TFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTT----PYNQK  103 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~-~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~----~ls~~  103 (190)
                      +-+|+|||+|.++.. ....|..+++..+. .++|+++.        +.   +|..+ ..++-+-...++.    ++|.+
T Consensus       122 ~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR--------~~---~~~~~-~~l~~~~~~~~l~~~~l~f~~~  189 (903)
T PRK04841        122 PLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSR--------NL---PPLGI-ANLRVRDQLLEIGSQQLAFDHQ  189 (903)
T ss_pred             CEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeC--------CC---CCCch-HhHHhcCcceecCHHhCCCCHH
Confidence            468899999999744 45577777776444 67777774        21   23211 2344333344444    99999


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHH
Q psy18185        104 DMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTP  146 (190)
Q Consensus       104 ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~  146 (190)
                      |....+..+   .|..++++.+..|.+. ++|.+ .+++++-.
T Consensus       190 e~~~ll~~~---~~~~~~~~~~~~l~~~-t~Gwp-~~l~l~~~  227 (903)
T PRK04841        190 EAQQFFDQR---LSSPIEAAESSRLCDD-VEGWA-TALQLIAL  227 (903)
T ss_pred             HHHHHHHhc---cCCCCCHHHHHHHHHH-hCChH-HHHHHHHH
Confidence            999988654   4667899999999999 46654 56665543

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=95.82  E-value=0.043  Score=48.17  Aligned_cols=128  Identities=16%  Similarity=0.335  Sum_probs=79.6

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCH--------------HHHHHHHHHhhccCC----------C
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDL--------------ETFTYLHRALESAIA----------P   59 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~~----------~   59 (190)
                      |=-+++.+-+.+.++.+ +..-..-.+||++|||+|.+++              ..|.+|++++|..-.          |
T Consensus       138 YVGEDVENillkLlqaa-dydV~rAerGIIyIDEIDKIarkSeN~SITRDVSGEGVQQALLKiiEGTvasVPPqGGRKHP  216 (408)
T COG1219         138 YVGEDVENILLKLLQAA-DYDVERAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGTVASVPPQGGRKHP  216 (408)
T ss_pred             ccchhHHHHHHHHHHHc-ccCHHHHhCCeEEEechhhhhccCCCCCcccccCchHHHHHHHHHHcCceeccCCCCCCCCC
Confidence            45567776666776654 2222112469999999999943              689999999994211          2


Q ss_pred             ----------EEEEEecCCcc--------cc---------cCC---------------C-CCCCCCCCChhHhhhhhhe-
Q psy18185         60 ----------IVIFATNRGRC--------LV---------RGT---------------D-DIISPHGIPLDLLDRLLII-   95 (190)
Q Consensus        60 ----------~iIlatn~~~~--------~~---------~~t---------------~-~~~~~~~l~~~l~SR~~~i-   95 (190)
                                .+++++-..|.        ++         +..               + +..-.+++.|+|..|..++ 
T Consensus       217 ~Qe~iqvDT~NILFIcgGAF~GlekiI~~R~~~~~iGF~a~~~~~~~~~~~~~~l~~vepeDLvkFGLIPEfIGRlPvia  296 (408)
T COG1219         217 QQEFIQVDTSNILFICGGAFAGLEKIIKKRLGKKGIGFGAEVKSKSKKKEEGELLKQVEPEDLVKFGLIPEFIGRLPVIA  296 (408)
T ss_pred             ccceEEEcccceeEEeccccccHHHHHHHhccCCcccccccccchhhhhhHHHHHHhcChHHHHHcCCcHHHhcccceee
Confidence                      13332211111        00         000               0 0011345568899998655 


Q ss_pred             eccCCCHHHHHHHHHHHH-----------HhcC--CCCCHHHHHHHHHhc
Q psy18185         96 RTTPYNQKDMEAIIKLRA-----------NTEG--HVLDDEALVTLSEIG  132 (190)
Q Consensus        96 ~~~~ls~~ei~~iL~~~~-----------~~~~--~~i~~e~l~~i~~~a  132 (190)
                      .+.+++.+++.+||..=-           +.+|  ++++++|+..|++.|
T Consensus       297 ~L~~Lde~aLv~ILtePkNAlvKQYq~Lf~~d~V~L~F~~~AL~~IA~~A  346 (408)
T COG1219         297 TLEELDEDALVQILTEPKNALVKQYQKLFEMDGVELEFTEEALKAIAKKA  346 (408)
T ss_pred             ehhhcCHHHHHHHHhcccHHHHHHHHHHhcccCceEEEcHHHHHHHHHHH
Confidence            799999999999986421           1234  468899999999985

>KOG0735|consensus

Probab=95.73  E-value=0.31  Score=46.99  Aligned_cols=149  Identities=15%  Similarity=0.160  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHHHcCccccCCeEEEEecCCCCCH--------------HHHHHHHHHhhccCC----CEEEEEecCCcccc
Q psy18185         11 KEINKVVNKYIDQGIAELVPGVLFIDEVHMLDL--------------ETFTYLHRALESAIA----PIVIFATNRGRCLV   72 (190)
Q Consensus        11 ~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~~----~~iIlatn~~~~~~   72 (190)
                      +.|.+.++.|..+. ....+.|+++|++|.|..              -...+|+.++-....    ..+|.+.+      
T Consensus       477 e~iQk~l~~vfse~-~~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~q------  549 (952)
T KOG0735|consen  477 EKIQKFLNNVFSEA-LWYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQ------  549 (952)
T ss_pred             HHHHHHHHHHHHHH-HhhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEech------
Confidence            34555555554432 223467999999999932              122334444433222    23444442      


Q ss_pred             cCCCCCCCCCCCChhHhhhh---hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHHHH
Q psy18185         73 RGTDDIISPHGIPLDLLDRL---LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTPAA  148 (190)
Q Consensus        73 ~~t~~~~~~~~l~~~l~SR~---~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~~~  148 (190)
                             +...++|.+-|.-   .++.++++...+-..||...+.+....+..+-++.++..+ +| +++....+.++|-
T Consensus       550 -------e~qtl~~~L~s~~~Fq~~~~L~ap~~~~R~~IL~~~~s~~~~~~~~~dLd~ls~~T-EGy~~~DL~ifVeRai  621 (952)
T KOG0735|consen  550 -------ELQTLNPLLVSPLLFQIVIALPAPAVTRRKEILTTIFSKNLSDITMDDLDFLSVKT-EGYLATDLVIFVERAI  621 (952)
T ss_pred             -------hhhhcChhhcCccceEEEEecCCcchhHHHHHHHHHHHhhhhhhhhHHHHHHHHhc-CCccchhHHHHHHHHH
Confidence                   2455666666653   3578999999999999999998876666777788898885 55 7777777778877


Q ss_pred             HHhh--h--cCCCcccHHHHHHHHHhccCh
Q psy18185        149 LTAK--T--NGRTAISKQDILEVSTLFLDA  174 (190)
Q Consensus       149 ~~a~--~--~g~~~It~~~V~~~~~~f~~~  174 (190)
                      ..|.  +  .+.+.+|-++..+++.-|.-.
T Consensus       622 ~~a~leris~~~klltke~f~ksL~~F~P~  651 (952)
T KOG0735|consen  622 HEAFLERISNGPKLLTKELFEKSLKDFVPL  651 (952)
T ss_pred             HHHHHHHhccCcccchHHHHHHHHHhcChH
Confidence            6555  2  344478888888888666543

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=95.59  E-value=0.066  Score=55.97  Aligned_cols=84  Identities=18%  Similarity=0.319  Sum_probs=65.5

Q ss_pred             EEEEecCCCCCHHHHHHHHHHhhccCC-------------CEEEEEecCCcccccCCCCCCCCCCC------ChhHhhhh
Q psy18185         32 VLFIDEVHMLDLETFTYLHRALESAIA-------------PIVIFATNRGRCLVRGTDDIISPHGI------PLDLLDRL   92 (190)
Q Consensus        32 Il~IDEi~~L~~~~~~~L~~~~E~~~~-------------~~iIlatn~~~~~~~~t~~~~~~~~l------~~~l~SR~   92 (190)
                      -+++||......+...+|+|++++...             |.|.+.+         |.|  ||...      ..+||.|+
T Consensus       958 WIVLDELNLApTDVLEaLNRLLDDNRelfIPETqevV~PHp~F~lFA---------TQN--ppg~YgGRK~LSrAFRNRF 1026 (4600)
T COG5271         958 WIVLDELNLAPTDVLEALNRLLDDNRELFIPETQEVVVPHPNFRLFA---------TQN--PPGGYGGRKGLSRAFRNRF 1026 (4600)
T ss_pred             EEEeeccccCcHHHHHHHHHhhccccceecCCcceeeccCCCeeEEe---------ecC--CCccccchHHHHHHHHhhh
Confidence            577999999999999999999986542             3444444         334  35433      57899999


Q ss_pred             hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh
Q psy18185         93 LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEI  131 (190)
Q Consensus        93 ~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~  131 (190)
                      ..+.|..+.++|+..||..+|     +|.+.-+..|.+.
T Consensus      1027 lE~hFddipedEle~ILh~rc-----~iapSyakKiVeV 1060 (4600)
T COG5271        1027 LEMHFDDIPEDELEEILHGRC-----EIAPSYAKKIVEV 1060 (4600)
T ss_pred             HhhhcccCcHHHHHHHHhccC-----ccCHHHHHHHHHH
Confidence            999999999999999998655     7778877777776

>KOG0732|consensus

Probab=95.43  E-value=0.13  Score=51.18  Aligned_cols=91  Identities=22%  Similarity=0.207  Sum_probs=70.8

Q ss_pred             CCeEEEEecCCCCCH-----------HHHHHHHHHhhccCC---CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--
Q psy18185         29 VPGVLFIDEVHMLDL-----------ETFTYLHRALESAIA---PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--   92 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~-----------~~~~~L~~~~E~~~~---~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--   92 (190)
                      .+-|+|.||||-|.+           .....|+-+|..-+.   +++|.|||+             |..+.|++|.+.  
T Consensus       363 qPSIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGldsRgqVvvigATnR-------------pda~dpaLRRPgrf  429 (1080)
T KOG0732|consen  363 QPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDSRGQVVVIGATNR-------------PDAIDPALRRPGRF  429 (1080)
T ss_pred             CceEEeccccccccccccchHHHhhhhHHHHHHHhccCCCCCCceEEEcccCC-------------ccccchhhcCCccc
Confidence            468999999998843           456677777775332   567778863             678889998876  


Q ss_pred             -hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhc
Q psy18185         93 -LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIG  132 (190)
Q Consensus        93 -~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a  132 (190)
                       ..+.|+-.+.+.-..||..+-.+..-.+....+..+++.+
T Consensus       430 dref~f~lp~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~~t  470 (1080)
T KOG0732|consen  430 DREFYFPLPDVDARAKILDIHTRKWEPPISRELLLWLAEET  470 (1080)
T ss_pred             ceeEeeeCCchHHHHHHHHHhccCCCCCCCHHHHHHHHHhc
Confidence             4678888888888899988877777789999999999995

>KOG0481|consensus

Probab=95.43  E-value=0.18  Score=46.87  Aligned_cols=27  Identities=30%  Similarity=0.443  Sum_probs=24.2

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhcc
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESA   56 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~   56 (190)
                      .||+||||.|.|..+---++..+||..
T Consensus       429 gGVvCIDEFDKMre~DRVAIHEAMEQQ  455 (729)
T KOG0481|consen  429 GGVVCIDEFDKMREDDRVAIHEAMEQQ  455 (729)
T ss_pred             CCEEEeehhhccCchhhhHHHHHHHhh
Confidence            489999999999998888999999964

>KOG0739|consensus

Probab=95.40  E-value=0.058  Score=47.12  Aligned_cols=90  Identities=23%  Similarity=0.258  Sum_probs=51.5

Q ss_pred             CeEEEEecCCCCCH-------H----HHHHHHHHhhc----cCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh-
Q psy18185         30 PGVLFIDEVHMLDL-------E----TFTYLHRALES----AIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL-   93 (190)
Q Consensus        30 ~~Il~IDEi~~L~~-------~----~~~~L~~~~E~----~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~-   93 (190)
                      +.||||||||.|+.       +    .-..|+--|..    ..++.++.|||        .     |+.+..++|.|+. 
T Consensus       226 PSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLVLgATN--------i-----Pw~LDsAIRRRFek  292 (439)
T KOG0739|consen  226 PSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLVLGATN--------I-----PWVLDSAIRRRFEK  292 (439)
T ss_pred             CcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEEEecCC--------C-----chhHHHHHHHHhhc
Confidence            58999999999943       1    11222222321    11245555664        2     8889999999984 


Q ss_pred             heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhc
Q psy18185         94 IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIG  132 (190)
Q Consensus        94 ~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a  132 (190)
                      .|.++-+....-....+...-.-...+++.-...+++.+
T Consensus       293 RIYIPLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kT  331 (439)
T KOG0739|consen  293 RIYIPLPEAHARARMFKLHLGDTPHVLTEQDFKELARKT  331 (439)
T ss_pred             ceeccCCcHHHhhhhheeccCCCccccchhhHHHHHhhc
Confidence            344433333322222322222233467788888888884

>KOG2170|consensus

Probab=95.39  E-value=0.21  Score=43.47  Aligned_cols=124  Identities=19%  Similarity=0.188  Sum_probs=67.2

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC--------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCC
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA--------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYN  101 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~--------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls  101 (190)
                      +.++|.||+|.|.++....|-..++.++.        .+||+.+|.+..-+         ..+-.+..++  -....++.
T Consensus       179 rslFIFDE~DKmp~gLld~lkpfLdyyp~v~gv~frkaIFIfLSN~gg~eI---------~~~aL~~~~~--g~~re~~~  247 (344)
T KOG2170|consen  179 RSLFIFDEVDKLPPGLLDVLKPFLDYYPQVSGVDFRKAIFIFLSNAGGSEI---------ARIALENARN--GKPREQLR  247 (344)
T ss_pred             CceEEechhhhcCHhHHHHHhhhhccccccccccccceEEEEEcCCcchHH---------HHHHHHHHHc--CCCcccch
Confidence            47999999999999999999999995443        47899887432100         0001112221  22344555


Q ss_pred             HHHHHHHHHHHHHhc---CCC----CCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        102 QKDMEAIIKLRANTE---GHV----LDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       102 ~~ei~~iL~~~~~~~---~~~----i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      -+.++..|...+.++   |+.    ++...+++.+-. --.+-|+...=++... ..  +| -..+.+.+..+++
T Consensus       248 l~~~E~~L~~~~~n~~~~Gl~~S~li~~~lid~fIPF-LPLek~hV~~C~r~el-~~--rg-~~~d~~~~erva~  317 (344)
T KOG2170|consen  248 LKSFEPALMQSAFNEKAGGLVHSRLISNNLIDHFIPF-LPLEKRHVRSCIRAEL-RK--RG-LAPDQDFVERVAN  317 (344)
T ss_pred             hhhhhHHHHHhhhccccccccccccchhhHHhhccCc-CcccHHHHHHHHHHHH-Hh--cc-cccchHHHHHHHH
Confidence            556666666555432   232    444444444444 3455565444333222 11  12 2455555555553

>KOG0480|consensus

Probab=95.26  E-value=0.27  Score=46.62  Aligned_cols=142  Identities=21%  Similarity=0.260  Sum_probs=86.6

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC--------------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh--
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA--------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL--   93 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~--------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~--   93 (190)
                      .||=+|||.|.|+...|.+|..+||...-              ..++.|+|-..-.-+..-....--.+.+++.||+=  
T Consensus       443 nGICCIDEFDKMd~~dqvAihEAMEQQtISIaKAGv~aTLnARtSIlAAANPv~GhYdR~ktl~eNi~msApimSRFDL~  522 (764)
T KOG0480|consen  443 NGICCIDEFDKMDVKDQVAIHEAMEQQTISIAKAGVVATLNARTSILAAANPVGGHYDRKKTLRENINMSAPIMSRFDLF  522 (764)
T ss_pred             CceEEechhcccChHhHHHHHHHHHhheehheecceEEeecchhhhhhhcCCcCCccccccchhhhcCCCchhhhhhcEE
Confidence            38999999999999889999999997542              13566665321000000000001124578889851  


Q ss_pred             -----------------------------heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh--------c---C
Q psy18185         94 -----------------------------IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEI--------G---T  133 (190)
Q Consensus        94 -----------------------------~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~--------a---~  133 (190)
                                                   ...-.+++-+++...|.+.. .-.-.++.++.++|.+.        +   .
T Consensus       523 FiLlD~~nE~~D~~ia~hIld~h~~i~~~~~~~~~~~~e~vrkYi~yAR-~~~P~ls~ea~~~lve~Y~~lR~~~~~~~~  601 (764)
T KOG0480|consen  523 FILLDDCNEVVDYAIARHILDLHRGIDDATERVCVYTLEQVRKYIRYAR-NFKPKLSKEASEMLVEKYKGLRQRDAQGNN  601 (764)
T ss_pred             EEEecCCchHHHHHHHHHHHHHhccccccccccccccHHHHHHHHHHHH-hcCccccHHHHHHHHHHHHHHHHhhccccC
Confidence                                         11223788888888887665 33336888888888776        1   1


Q ss_pred             CCCHHHHHHHHHHHHH----HhhhcCCCcccHHHHHHHHHhcc
Q psy18185        134 RSTLRYVVQLLTPAAL----TAKTNGRTAISKQDILEVSTLFL  172 (190)
Q Consensus       134 ~gdlR~ai~lL~~~~~----~a~~~g~~~It~~~V~~~~~~f~  172 (190)
                      ..+.|....-|+....    .|+.+-+..+|.++|.++..+..
T Consensus       602 ~~s~~ITvRqLESlIRLsEA~Ar~~~~devt~~~v~ea~eLlk  644 (764)
T KOG0480|consen  602 RSSYRITVRQLESLIRLSEARARVECRDEVTKEDVEEAVELLK  644 (764)
T ss_pred             cccccccHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHHHHHH
Confidence            1133444444544443    34445556899999999987643

>KOG0479|consensus

Probab=95.21  E-value=0.23  Score=46.88  Aligned_cols=64  Identities=23%  Similarity=0.152  Sum_probs=42.5

Q ss_pred             CCCCCHHHHHHHHHhc---------------CCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh--ccChHHHHH
Q psy18185        117 GHVLDDEALVTLSEIG---------------TRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL--FLDAKSSAR  179 (190)
Q Consensus       117 ~~~i~~e~l~~i~~~a---------------~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~--f~~~~~~~~  179 (190)
                      .-.++++++++|++.=               +.=.+|..-.++..+..+|+-.=++.++.++.+.+.++  |.-+...|+
T Consensus       573 ~P~Lt~ea~e~Ia~~Y~~LR~~d~~~d~~rt~PiTARtLETlIRLaTAhAKaRlSk~V~~~DAe~A~~Ll~fA~f~e~v~  652 (818)
T KOG0479|consen  573 KPKLTQEAAEYIAEEYTDLRNDDSRKDQERTSPITARTLETLIRLATAHAKARLSKVVEKDDAEAAVNLLRFALFKEKVK  652 (818)
T ss_pred             CccccHHHHHHHHHHHhhhhccccccccccccCCcHHHHHHHHHHHHHHHHhhhcceeehhhHHHHHHHHHHHHHhhhcc
Confidence            3468899999999871               01134655556666667777666778999999988866  444444444


Q ss_pred             H
Q psy18185        180 I  180 (190)
Q Consensus       180 ~  180 (190)
                      .
T Consensus       653 ~  653 (818)
T KOG0479|consen  653 P  653 (818)
T ss_pred             c
Confidence            3

>KOG0733|consensus

Probab=95.19  E-value=0.061  Score=50.78  Aligned_cols=90  Identities=26%  Similarity=0.272  Sum_probs=61.3

Q ss_pred             CCeEEEEecCCCCCH-----------HHHHHHHHHhhc---cCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--
Q psy18185         29 VPGVLFIDEVHMLDL-----------ETFTYLHRALES---AIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--   92 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~-----------~~~~~L~~~~E~---~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--   92 (190)
                      .+-|||.||+|.|.+           ...|-|+.-++.   ..++.+|.|||+             |.-+.|+++.-.  
T Consensus       604 aPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNR-------------PDiIDpAiLRPGRl  670 (802)
T KOG0733|consen  604 APCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNR-------------PDIIDPAILRPGRL  670 (802)
T ss_pred             CCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCC-------------CcccchhhcCCCcc
Confidence            468999999999943           355555555542   223677778873             677888887765  


Q ss_pred             -hheeccCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHh
Q psy18185         93 -LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEA-LVTLSEI  131 (190)
Q Consensus        93 -~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~-l~~i~~~  131 (190)
                       ....+..++.+|-.+||+-..++.+..+++++ ++.|+..
T Consensus       671 Dk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~  711 (802)
T KOG0733|consen  671 DKLLYVGLPNAEERVAILKTITKNTKPPLSSDVDLDEIARN  711 (802)
T ss_pred             CceeeecCCCHHHHHHHHHHHhccCCCCCCcccCHHHHhhc
Confidence             35667778888999999988875444455543 4555555

>KOG0729|consensus

Probab=95.09  E-value=0.21  Score=43.14  Aligned_cols=116  Identities=20%  Similarity=0.257  Sum_probs=70.0

Q ss_pred             eEEEEecCCCCC-----------HHHHHHHHHHhhc-----cCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-
Q psy18185         31 GVLFIDEVHMLD-----------LETFTYLHRALES-----AIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-   92 (190)
Q Consensus        31 ~Il~IDEi~~L~-----------~~~~~~L~~~~E~-----~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-   92 (190)
                      -|+|.||+|.+.           .+.|...+.++..     +.+ ..++++||+             |..+.|++.... 
T Consensus       272 ciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdprgnikvlmatnr-------------pdtldpallrpgr  338 (435)
T KOG0729|consen  272 CIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKVLMATNR-------------PDTLDPALLRPGR  338 (435)
T ss_pred             EEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCCCCCeEEEeecCC-------------CCCcCHhhcCCcc
Confidence            599999999983           3677777777763     212 468889973             667777776654 


Q ss_pred             --hheeccCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHhc--CCC-CHHHHHHHHHHHHHHhhhcCCCcccHHHH
Q psy18185         93 --LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEA-LVTLSEIG--TRS-TLRYVVQLLTPAALTAKTNGRTAISKQDI  164 (190)
Q Consensus        93 --~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~-l~~i~~~a--~~g-dlR~ai~lL~~~~~~a~~~g~~~It~~~V  164 (190)
                        ..++|.-++-+--..|++.+++...+  +.+. .++|+..|  +.| ++|..   ...|.-+|.+.-++..|..+.
T Consensus       339 ldrkvef~lpdlegrt~i~kihaksmsv--erdir~ellarlcpnstgaeirsv---cteagmfairarrk~atekdf  411 (435)
T KOG0729|consen  339 LDRKVEFGLPDLEGRTHIFKIHAKSMSV--ERDIRFELLARLCPNSTGAEIRSV---CTEAGMFAIRARRKVATEKDF  411 (435)
T ss_pred             cccceeccCCcccccceeEEEecccccc--ccchhHHHHHhhCCCCcchHHHHH---HHHhhHHHHHHHhhhhhHHHH
Confidence              35677667767667777777655433  3332 44556664  223 56654   444544555433444554433

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=94.89  E-value=0.065  Score=40.37  Aligned_cols=37  Identities=19%  Similarity=0.254  Sum_probs=30.9

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhcc--CCCEEEEEec
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESA--IAPIVIFATN   66 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~--~~~~iIlatn   66 (190)
                      .+.|+|+|+|.|+.+.|..|...++..  ..+.+|+++.
T Consensus        70 ~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~  108 (138)
T PF14532_consen   70 GGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSS  108 (138)
T ss_dssp             TSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEEC
T ss_pred             CCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeC
Confidence            489999999999999999999999865  2378888884

>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=94.87  E-value=0.05  Score=41.55  Aligned_cols=54  Identities=26%  Similarity=0.413  Sum_probs=35.0

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC-----------CEEEEEecCCcccccCCCCCC---CCCCCChhHhhhhh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA-----------PIVIFATNRGRCLVRGTDDII---SPHGIPLDLLDRLL   93 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-----------~~iIlatn~~~~~~~~t~~~~---~~~~l~~~l~SR~~   93 (190)
                      ..|+++||+++..+..|++|+.++++...           |-+|+||-          |+.   .-+.+|.++++|+.
T Consensus        63 ~~ill~DEiNrappktQsAlLeam~Er~Vt~~g~~~~lp~pf~ViATq----------Np~e~~Gty~Lpea~~DRF~  130 (131)
T PF07726_consen   63 TNILLADEINRAPPKTQSALLEAMEERQVTIDGQTYPLPDPFFVIATQ----------NPVEQEGTYPLPEAQLDRFM  130 (131)
T ss_dssp             SSEEEEETGGGS-HHHHHHHHHHHHHSEEEETTEEEE--SS-EEEEEE-----------TT--S------HHHHTTSS
T ss_pred             hceeeecccccCCHHHHHHHHHHHHcCeEEeCCEEEECCCcEEEEEec----------CccccCceecCCHHHhcccc
Confidence            36999999999999999999999997431           35666662          211   12356788888864

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.

>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

Probab=94.71  E-value=0.24  Score=36.96  Aligned_cols=62  Identities=19%  Similarity=0.291  Sum_probs=51.8

Q ss_pred             HHHHHHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhccC
Q psy18185        108 IIKLRANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLD  173 (190)
Q Consensus       108 iL~~~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~~  173 (190)
                      ++.++.+..|+ .+++++...+.+.+    .|++..++..|..+|+..|++.|+.+||+-++....+
T Consensus         6 ~v~~iLk~~Gv~~~~~~v~~~Lle~~----~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~   68 (117)
T cd07979           6 VIAAILKSMGITEYEPRVINQLLEFA----YRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVD   68 (117)
T ss_pred             HHHHHHHHCCCCccCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc
Confidence            45555556676 69999999999994    5899999999999999999999999999998865544

The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi

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

Probab=94.71  E-value=0.071  Score=39.00  Aligned_cols=34  Identities=26%  Similarity=0.315  Sum_probs=28.6

Q ss_pred             eEEEEecCCCC-CHHHHHHHHHHhhccCCCEEEEEe
Q psy18185         31 GVLFIDEVHML-DLETFTYLHRALESAIAPIVIFAT   65 (190)
Q Consensus        31 ~Il~IDEi~~L-~~~~~~~L~~~~E~~~~~~iIlat   65 (190)
                      .+|+|||+|+| +.+.++.|..+.+. ....+|+++
T Consensus        89 ~~lviDe~~~l~~~~~l~~l~~l~~~-~~~~vvl~G  123 (131)
T PF13401_consen   89 VLLVIDEADHLFSDEFLEFLRSLLNE-SNIKVVLVG  123 (131)
T ss_dssp             EEEEEETTHHHHTHHHHHHHHHHTCS-CBEEEEEEE
T ss_pred             eEEEEeChHhcCCHHHHHHHHHHHhC-CCCeEEEEE
Confidence            59999999999 99999999888884 346677777

>PF14516 AAA_35: AAA-like domain

Probab=94.70  E-value=0.27  Score=42.85  Aligned_cols=99  Identities=26%  Similarity=0.291  Sum_probs=62.1

Q ss_pred             CeEEEEecCCCCCH------HHHHHHHHHhhccCC------CEEEEEecCCcccccCCCCCCCCCCC-ChhHhhhhhhee
Q psy18185         30 PGVLFIDEVHMLDL------ETFTYLHRALESAIA------PIVIFATNRGRCLVRGTDDIISPHGI-PLDLLDRLLIIR   96 (190)
Q Consensus        30 ~~Il~IDEi~~L~~------~~~~~L~~~~E~~~~------~~iIlatn~~~~~~~~t~~~~~~~~l-~~~l~SR~~~i~   96 (190)
                      +-||+|||+|.+..      +-+..|+...+....      ..+|++..        |+...+ ... .++| .-+..+.
T Consensus       128 ~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~~~L~li~~~~--------t~~~~~-~~~~~SPF-NIg~~i~  197 (331)
T PF14516_consen  128 PLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIWQKLRLILAGS--------TEDYII-LDINQSPF-NIGQPIE  197 (331)
T ss_pred             CEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCcccceEEEEEecC--------cccccc-cCCCCCCc-cccccee
Confidence            45888999999853      455666666664332      24555553        221111 111 1122 3357889


Q ss_pred             ccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHH
Q psy18185         97 TTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLL  144 (190)
Q Consensus        97 ~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL  144 (190)
                      +++.|.+|+...++.    .+...+++.++.|... .+|-+ +.++.+
T Consensus       198 L~~Ft~~ev~~L~~~----~~~~~~~~~~~~l~~~-tgGhP-~Lv~~~  239 (331)
T PF14516_consen  198 LPDFTPEEVQELAQR----YGLEFSQEQLEQLMDW-TGGHP-YLVQKA  239 (331)
T ss_pred             CCCCCHHHHHHHHHh----hhccCCHHHHHHHHHH-HCCCH-HHHHHH
Confidence            999999999887664    3567888999999999 46655 544444

>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=94.68  E-value=0.045  Score=43.31  Aligned_cols=36  Identities=28%  Similarity=0.383  Sum_probs=30.2

Q ss_pred             eEEEEecCCCCCH-----------HHHHHHHHHhhccCC------------CEEEEEec
Q psy18185         31 GVLFIDEVHMLDL-----------ETFTYLHRALESAIA------------PIVIFATN   66 (190)
Q Consensus        31 ~Il~IDEi~~L~~-----------~~~~~L~~~~E~~~~------------~~iIlatn   66 (190)
                      +||++||+|..++           ..|+.|++++|++.-            .+||+++|
T Consensus        70 gVVllDEidKa~~~~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn  128 (171)
T PF07724_consen   70 GVVLLDEIDKAHPSNSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSN  128 (171)
T ss_dssp             TEEEEETGGGCSHTTTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEES
T ss_pred             hhhhhHHHhhccccccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEecc
Confidence            6999999999999           999999999996431            35777775

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 ....

>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=94.61  E-value=0.18  Score=42.01  Aligned_cols=112  Identities=13%  Similarity=0.178  Sum_probs=60.5

Q ss_pred             HHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhh-ccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhh
Q psy18185         13 INKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALE-SAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR   91 (190)
Q Consensus        13 I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E-~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR   91 (190)
                      ..+.+.+++..+     +-++++|+++...  .+..+...+- .+.+..+|++|.        .     . .+.......
T Consensus        90 ~~~~l~~~L~~~-----~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~kilvTTR--------~-----~-~v~~~~~~~  148 (287)
T PF00931_consen   90 LQDQLRELLKDK-----RCLLVLDDVWDEE--DLEELREPLPSFSSGSKILVTTR--------D-----R-SVAGSLGGT  148 (287)
T ss_dssp             HHHHHHHHHCCT-----SEEEEEEEE-SHH--HH-------HCHHSS-EEEEEES--------C-----G-GGGTTHHSC
T ss_pred             ccccchhhhccc-----cceeeeeeecccc--ccccccccccccccccccccccc--------c-----c-ccccccccc
Confidence            344555555443     3689999998764  3333333332 222356777773        1     1 122222222


Q ss_pred             hhheeccCCCHHHHHHHHHHHHHhcC---CCCCHHHHHHHHHhcCCCCHHHHHHHHHHH
Q psy18185         92 LLIIRTTPYNQKDMEAIIKLRANTEG---HVLDDEALVTLSEIGTRSTLRYVVQLLTPA  147 (190)
Q Consensus        92 ~~~i~~~~ls~~ei~~iL~~~~~~~~---~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~  147 (190)
                      +..+++++++.++..+.+...+....   ..-.++.+..|++. ++ ++..|+.++-..
T Consensus       149 ~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~-c~-glPLal~~~a~~  205 (287)
T PF00931_consen  149 DKVIELEPLSEEEALELFKKRAGRKESESPEDLEDLAKEIVEK-CG-GLPLALKLIASY  205 (287)
T ss_dssp             EEEEECSS--HHHHHHHHHHHHTSHS----TTSCTHHHHHHHH-TT-T-HHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccc-cc-cccccccccccc
Confidence            56899999999999999998875432   11224567788888 45 577888877544

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.

>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=94.40  E-value=1.3  Score=37.63  Aligned_cols=85  Identities=16%  Similarity=0.110  Sum_probs=50.1

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHH----hhccCCCEEEEEecCCcc--cccCCCCCCCCCCCChhHhhhh--hheeccCCC
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRA----LESAIAPIVIFATNRGRC--LVRGTDDIISPHGIPLDLLDRL--LIIRTTPYN  101 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~----~E~~~~~~iIlatn~~~~--~~~~t~~~~~~~~l~~~l~SR~--~~i~~~~ls  101 (190)
                      +-|+||||.|+++++....+++.    ++. +..++|++.+....  -+...-+.........+++.+.  ..|.+|+++
T Consensus       173 ~iViiIDdLDR~~~~~i~~~l~~ik~~~~~-~~i~~Il~~D~~~l~~ai~~~~~~~~~~~~~~~yLeKiiq~~~~lP~~~  251 (325)
T PF07693_consen  173 RIVIIIDDLDRCSPEEIVELLEAIKLLLDF-PNIIFILAFDPEILEKAIEKNYGEGFDEIDGREYLEKIIQVPFSLPPPS  251 (325)
T ss_pred             eEEEEEcchhcCCcHHHHHHHHHHHHhcCC-CCeEEEEEecHHHHHHHHHhhcCcccccccHHHHHHhhcCeEEEeCCCC
Confidence            45888999999988644444444    444 34678888853200  0000000000012234677776  358899999


Q ss_pred             HHHHHHHHHHHHHh
Q psy18185        102 QKDMEAIIKLRANT  115 (190)
Q Consensus       102 ~~ei~~iL~~~~~~  115 (190)
                      ..++...+....+.
T Consensus       252 ~~~~~~~~~~~~~~  265 (325)
T PF07693_consen  252 PSDLERYLNELLES  265 (325)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999998877543

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 [].

>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=94.39  E-value=0.057  Score=42.63  Aligned_cols=27  Identities=41%  Similarity=0.519  Sum_probs=24.2

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhcc
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESA   56 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~   56 (190)
                      .|.||||||+.|+.+.|..|+++++++
T Consensus        94 ~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~  120 (168)
T PF00158_consen   94 GGTLFLDEIEDLPPELQAKLLRVLEEG  120 (168)
T ss_dssp             TSEEEEETGGGS-HHHHHHHHHHHHHS
T ss_pred             ceEEeecchhhhHHHHHHHHHHHHhhc
Confidence            489999999999999999999999964

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 ....

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

Probab=94.34  E-value=0.25  Score=45.20  Aligned_cols=73  Identities=22%  Similarity=0.247  Sum_probs=50.0

Q ss_pred             CeEEEEecCCCCCHH-HHHHHHHHhhccC-------------------C----CEEEEEecCCcccccCCCCCCCCCCCC
Q psy18185         30 PGVLFIDEVHMLDLE-TFTYLHRALESAI-------------------A----PIVIFATNRGRCLVRGTDDIISPHGIP   85 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~-~~~~L~~~~E~~~-------------------~----~~iIlatn~~~~~~~~t~~~~~~~~l~   85 (190)
                      +.++||||+++.+.+ .+..+..++|...                   .    ..||.+.|        +.+ .+...+.
T Consensus       273 ~~vliIDEINRani~kiFGel~~lLE~~~rg~~~~v~l~y~e~d~e~f~iP~Nl~IIgTMN--------t~D-rs~~~lD  343 (459)
T PRK11331        273 KYVFIIDEINRANLSKVFGEVMMLMEHDKRGENWSVPLTYSENDEERFYVPENVYIIGLMN--------TAD-RSLAVVD  343 (459)
T ss_pred             CcEEEEehhhccCHHHhhhhhhhhccccccccccceeeeccccccccccCCCCeEEEEecC--------ccc-cchhhcc
Confidence            469999999999965 5778888887421                   1    24555555        211 2334577


Q ss_pred             hhHhhhhhheeccC-CCHHHHHHHHHH
Q psy18185         86 LDLLDRLLIIRTTP-YNQKDMEAIIKL  111 (190)
Q Consensus        86 ~~l~SR~~~i~~~~-ls~~ei~~iL~~  111 (190)
                      .+++.|+..+++.| ++..++.+.+..
T Consensus       344 ~AlrRRF~fi~i~p~~~~~~~~~~l~~  370 (459)
T PRK11331        344 YALRRRFSFIDIEPGFDTPQFRNFLLN  370 (459)
T ss_pred             HHHHhhhheEEecCCCChHHHHHHHHh
Confidence            89999999999887 666666666543

>smart00763 AAA_PrkA PrkA AAA domain

Probab=94.04  E-value=0.25  Score=43.89  Aligned_cols=96  Identities=15%  Similarity=0.126  Sum_probs=60.7

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC------------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheec
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRT   97 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~   97 (190)
                      +||+-++|+.....+.++.|+.++++..-            .+||.++|......     . .....+.+|++||..+.+
T Consensus       237 rGi~~f~Ei~K~~~~~l~~LL~~~qE~~v~~~~~~~~~~~d~liia~sNe~e~~~-----~-~~~k~~eaf~dR~~~i~v  310 (361)
T smart00763      237 RGILEFVEMFKADIKFLHPLLTATQEGNIKGTGGFAMIPIDGLIIAHSNESEWQR-----F-KSNKKNEALLDRIIKVKV  310 (361)
T ss_pred             CceEEEeehhcCCHHHHHHHhhhhhcceEecCCcccccccceEEEEeCCHHHHhh-----h-hccccchhhhhceEEEeC
Confidence            48999999999999999999999996431            12444454210000     0 002446789999998888


Q ss_pred             cCCCHHH-HHHHHHHHHHh---cCCCCCHHHHHHHHHh
Q psy18185         98 TPYNQKD-MEAIIKLRANT---EGHVLDDEALVTLSEI  131 (190)
Q Consensus        98 ~~ls~~e-i~~iL~~~~~~---~~~~i~~e~l~~i~~~  131 (190)
                      +.+..-. =.+|.++.+..   .+..+.+.+++.++..
T Consensus       311 pY~l~~~~E~~Iy~k~~~~s~~~~~~~aP~~le~aa~~  348 (361)
T smart00763      311 PYCLRVSEEAQIYEKLLRNSDLTEAHIAPHTLEMAALF  348 (361)
T ss_pred             CCcCCHHHHHHHHHHHhccCcCcccccCchHHHHHHHH
Confidence            7665532 23444444432   2556777777776665

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria

Probab=93.64  E-value=0.56  Score=42.42  Aligned_cols=94  Identities=19%  Similarity=0.330  Sum_probs=61.1

Q ss_pred             EEEEecCCCCCH--------HHHHHHHHHhhccCC-----CEEEEEecCCcccccCCCCCCCCCCC--ChhHhhhh----
Q psy18185         32 VLFIDEVHMLDL--------ETFTYLHRALESAIA-----PIVIFATNRGRCLVRGTDDIISPHGI--PLDLLDRL----   92 (190)
Q Consensus        32 Il~IDEi~~L~~--------~~~~~L~~~~E~~~~-----~~iIlatn~~~~~~~~t~~~~~~~~l--~~~l~SR~----   92 (190)
                      +|+|||+..|-+        ...+.|+.++.+...     .-|+++++..  ++.  |   ++.++  -++|.+|.    
T Consensus       242 lI~lDE~e~l~kl~~~~~R~~~ye~lr~lidd~~~G~~~gL~~~~~gTPe--f~e--D---~rrGv~sY~AL~~RL~~~~  314 (416)
T PF10923_consen  242 LILLDELENLYKLRNDQAREKNYEALRQLIDDIDQGRAPGLYFVFAGTPE--FFE--D---GRRGVYSYEALAQRLAEEF  314 (416)
T ss_pred             EEEEechHHHHhcCChHHHHHHHHHHHHHHHHHhcCCCCceEEEEeeCHH--Hhh--C---ccccccccHHHHHHHhccc
Confidence            666999998821        467788888876322     3455555211  110  0   12333  25777773    


Q ss_pred             -----------hheeccCCCHHHHHHHHHHHHHh------cCCCCCHHHHHHHHHhc
Q psy18185         93 -----------LIIRTTPYNQKDMEAIIKLRANT------EGHVLDDEALVTLSEIG  132 (190)
Q Consensus        93 -----------~~i~~~~ls~~ei~~iL~~~~~~------~~~~i~~e~l~~i~~~a  132 (190)
                                 .+++++|++.+++..++.+...-      ....++++.+..+++.+
T Consensus       315 ~~~~~~~n~~~pvIrL~~l~~eel~~l~~klr~i~a~~~~~~~~v~d~~l~~~~~~~  371 (416)
T PF10923_consen  315 FADDGFDNLRAPVIRLQPLTPEELLELLEKLRDIYAEAYGYESRVDDEELKAFAQHV  371 (416)
T ss_pred             cccccccCccCceecCCCCCHHHHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHH
Confidence                       47899999999999888766431      23478999999988773

Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.

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

Probab=93.34  E-value=4.4  Score=34.24  Aligned_cols=117  Identities=26%  Similarity=0.303  Sum_probs=74.3

Q ss_pred             CeEEEEecCCCC-CHHHHHHHHHHhhccCC-----CEEEEEecCC---cccccCCC----CCCCCCCCC---hhHhhhh-
Q psy18185         30 PGVLFIDEVHML-DLETFTYLHRALESAIA-----PIVIFATNRG---RCLVRGTD----DIISPHGIP---LDLLDRL-   92 (190)
Q Consensus        30 ~~Il~IDEi~~L-~~~~~~~L~~~~E~~~~-----~~iIlatn~~---~~~~~~t~----~~~~~~~l~---~~l~SR~-   92 (190)
                      +-|||+||.-.= ....+..|-.++|.+-.     +.+..++|+-   .....+..    +...+....   .+|-+|+ 
T Consensus       107 kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~E~~~d~~~~~~~eih~~d~~eEklSLsDRFG  186 (249)
T PF05673_consen  107 KFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVPESFSDREDIQDDEIHPSDTIEEKLSLSDRFG  186 (249)
T ss_pred             CEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhccchhhhhccCCCccccCcchHHHHHHhHHHhCC
Confidence            469999985432 23567777777775332     3344444432   00111110    000111111   2677886 


Q ss_pred             hheeccCCCHHHHHHHHHHHHHhcCCCCC-----HHHHHHHHHhcCCCCHHHHHHHHHHH
Q psy18185         93 LIIRTTPYNQKDMEAIIKLRANTEGHVLD-----DEALVTLSEIGTRSTLRYVVQLLTPA  147 (190)
Q Consensus        93 ~~i~~~~ls~~ei~~iL~~~~~~~~~~i~-----~e~l~~i~~~a~~gdlR~ai~lL~~~  147 (190)
                      +.+.|.+++.++--+|++..++..|+.++     .+|+++-..++ ..+-|.|-+..+..
T Consensus       187 L~l~F~~~~q~~YL~IV~~~~~~~g~~~~~e~l~~~Al~wa~~rg-~RSGRtA~QF~~~l  245 (249)
T PF05673_consen  187 LWLSFYPPDQEEYLAIVRHYAERYGLELDEEELRQEALQWALRRG-GRSGRTARQFIDDL  245 (249)
T ss_pred             cEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHcC-CCCHHHHHHHHHHH
Confidence            78999999999999999999999999998     46677777773 56889888877654

>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold

Probab=93.33  E-value=0.18  Score=46.08  Aligned_cols=80  Identities=30%  Similarity=0.352  Sum_probs=51.1

Q ss_pred             HHcCccccCCeEEEEecCCCCCHHHHHHHHHHhh------ccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-h
Q psy18185         21 IDQGIAELVPGVLFIDEVHMLDLETFTYLHRALE------SAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-L   93 (190)
Q Consensus        21 ~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E------~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~   93 (190)
                      +.-|...-++-|+|+||+|.|-.++-.+|+.-+|      .++++=+.++|         .    +|..+|.++++.| .
T Consensus       247 PEvGD~dkPklVfFfDEAHLLF~da~kall~~ieqvvrLIRSKGVGv~fvT---------Q----~P~DiP~~VL~QLGn  313 (502)
T PF05872_consen  247 PEVGDLDKPKLVFFFDEAHLLFNDAPKALLDKIEQVVRLIRSKGVGVYFVT---------Q----NPTDIPDDVLGQLGN  313 (502)
T ss_pred             ccCCCCCCceEEEEEechhhhhcCCCHHHHHHHHHHHHHhhccCceEEEEe---------C----CCCCCCHHHHHhhhh
Confidence            4455555556688899999995544444444444      22345577777         3    3889999999987 2


Q ss_pred             he--eccCCCHHHHHHHHHHHHH
Q psy18185         94 II--RTTPYNQKDMEAIIKLRAN  114 (190)
Q Consensus        94 ~i--~~~~ls~~ei~~iL~~~~~  114 (190)
                      .|  .+..+|+.|.+. ++..++
T Consensus       314 rIQHaLRAfTP~DqKa-vk~aa~  335 (502)
T PF05872_consen  314 RIQHALRAFTPKDQKA-VKAAAE  335 (502)
T ss_pred             HHHHHHhcCCHhHHHH-HHHHHH
Confidence            23  677788887664 444444

This family is restricted to bacterial proteins, none of which have currently been characterised.

>smart00803 TAF TATA box binding protein associated factor

Probab=93.13  E-value=0.54  Score=31.44  Aligned_cols=56  Identities=27%  Similarity=0.207  Sum_probs=43.0

Q ss_pred             HHHHHHhcCCC-CCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185        109 IKLRANTEGHV-LDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       109 L~~~~~~~~~~-i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      +++.++..|+. +++++.+.+++.. +-   ++-++++.+..+++..+++.+|.+||..++
T Consensus         8 i~ria~~~Gi~ris~~a~~~l~~~~-e~---rl~~i~~~A~k~~~hakRktlt~~DI~~Al   64 (65)
T smart00803        8 IKDVAESLGIGNLSDEAAKLLAEDV-EY---RIKEIVQEALKFMRHSKRTTLTTSDIDSAL   64 (65)
T ss_pred             HHHHHHHCCCccccHHHHHHHHHHH-HH---HHHHHHHHHHHHHHHhCCCeecHHHHHHHh
Confidence            44455566775 9999999998883 42   456677888888888889999999998765

TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.

>PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []

Probab=92.88  E-value=0.73  Score=35.07  Aligned_cols=63  Identities=25%  Similarity=0.341  Sum_probs=46.6

Q ss_pred             HHHHHHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhccCh
Q psy18185        108 IIKLRANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDA  174 (190)
Q Consensus       108 iL~~~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~~~  174 (190)
                      ++....+..|+ ++++.++..+.+++    .|+.-.+|+.|..+|...|++.|+.++|+-++....+.
T Consensus        17 ~i~~iL~~~Gv~~yeprVv~qLLEfa----yRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r~~~   80 (129)
T PF02291_consen   17 VIHLILKSMGVTEYEPRVVNQLLEFA----YRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSRLDH   80 (129)
T ss_dssp             HHHHHHHHTT---B-THHHHHHHHHH----HHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT---
T ss_pred             HHHHHHHHcCCcccCHHHHHHHHHHH----HHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHhh
Confidence            34444555677 78999999999995    69999999999999998899999999999998765443

TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.

>PF12846 AAA_10: AAA-like domain

Probab=92.77  E-value=0.27  Score=40.77  Aligned_cols=67  Identities=22%  Similarity=0.234  Sum_probs=47.7

Q ss_pred             cCCeEEEEecCCCCCHH--HHHHHHHHhhccCC--CEEEEEecCCcccccCCCCCCCCCCCC-----hhHhhhhhheecc
Q psy18185         28 LVPGVLFIDEVHMLDLE--TFTYLHRALESAIA--PIVIFATNRGRCLVRGTDDIISPHGIP-----LDLLDRLLIIRTT   98 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~--~~~~L~~~~E~~~~--~~iIlatn~~~~~~~~t~~~~~~~~l~-----~~l~SR~~~i~~~   98 (190)
                      ..+.++++||+|.+...  ....+.+++.++.+  ..++++|.             .|..++     +.+.+-|...-+-
T Consensus       219 ~~~~~i~iDEa~~~~~~~~~~~~~~~~~~~~Rk~g~~~~l~tQ-------------~~~~l~~~~~~~~i~~n~~~~i~~  285 (304)
T PF12846_consen  219 GRPKIIVIDEAHNFLSNPSGAEFLDELLREGRKYGVGLILATQ-------------SPSDLPKSPIEDAILANCNTKIIF  285 (304)
T ss_pred             CceEEEEeCCccccccccchhhhhhHHHHHHHhcCCEEEEeeC-------------CHHHHhccchHHHHHHhCCcEEEe
Confidence            35678999999999653  44455555554333  66888884             256666     7899999888777


Q ss_pred             CCCHHHHHH
Q psy18185         99 PYNQKDMEA  107 (190)
Q Consensus        99 ~ls~~ei~~  107 (190)
                      ++++.+...
T Consensus       286 ~~~~~~~~~  294 (304)
T PF12846_consen  286 RLEDSDDAE  294 (304)
T ss_pred             cCChHHHHH
Confidence            888877776

>PF05729 NACHT: NACHT domain

Probab=91.63  E-value=1.3  Score=33.19  Aligned_cols=68  Identities=21%  Similarity=0.412  Sum_probs=45.0

Q ss_pred             eEEEEecCCCCCHHH--------HHHHHHHhhc--cCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhh---hhheec
Q psy18185         31 GVLFIDEVHMLDLET--------FTYLHRALES--AIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR---LLIIRT   97 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~--------~~~L~~~~E~--~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR---~~~i~~   97 (190)
                      -+++||-+|.+....        ...|..++..  ++...++++++              |...+ .+..+   ...+.+
T Consensus        83 ~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r--------------~~~~~-~~~~~~~~~~~~~l  147 (166)
T PF05729_consen   83 VLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSR--------------PRAFP-DLRRRLKQAQILEL  147 (166)
T ss_pred             eEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEc--------------CChHH-HHHHhcCCCcEEEE
Confidence            578899999997632        2356666666  44466777773              22221 12232   257899


Q ss_pred             cCCCHHHHHHHHHHHH
Q psy18185         98 TPYNQKDMEAIIKLRA  113 (190)
Q Consensus        98 ~~ls~~ei~~iL~~~~  113 (190)
                      ++++++++.+.++...
T Consensus       148 ~~~~~~~~~~~~~~~f  163 (166)
T PF05729_consen  148 EPFSEEDIKQYLRKYF  163 (166)
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            9999999999997654

>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex

Probab=91.58  E-value=1.5  Score=29.43  Aligned_cols=57  Identities=28%  Similarity=0.239  Sum_probs=37.8

Q ss_pred             HHHHHHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185        108 IIKLRANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       108 iL~~~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      .++..|+..|+ .++++++..|+.-. +.-+|.   +++.+........+.++|.+||..++
T Consensus         8 svk~iAes~Gi~~l~de~a~~La~dv-eyrlre---iiq~a~kfm~hskR~~Lt~~Di~~AL   65 (66)
T PF02969_consen    8 SVKDIAESLGISNLSDEAAKALAEDV-EYRLRE---IIQEALKFMRHSKRTKLTTDDINSAL   65 (66)
T ss_dssp             HHHHHHHHTT---B-HHHHHHHHHHH-HHHHHH---HHHHHHHHHHHTT-SSB-HHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCHHHHHHHHHHH-HHHHHH---HHHHHHHHHHHhCCCCCCHHHHHHHh
Confidence            45566777788 89999999999984 544454   45555555555667899999998876

TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.

>PF09077 Phage-MuB_C: Mu B transposition protein, C terminal ; InterPro: IPR009084 Bacteriophage Mu can integrate into the host bacterial genome and replicate via transposition

Probab=91.54  E-value=0.16  Score=35.35  Aligned_cols=70  Identities=29%  Similarity=0.317  Sum_probs=48.4

Q ss_pred             heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         94 IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGT-RSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        94 ~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~-~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ...+...+.+|+..+++    ..|+ -+++++.++..++. .|.+|..-..|..|.-.|..+|.. ||.++|+.++.
T Consensus         6 r~~i~k~~~~Di~Ai~~----AWgI-~d~~~~~~l~~I~~k~GaLR~l~ktLrlA~m~A~g~g~~-i~~~~i~~A~~   76 (78)
T PF09077_consen    6 RVRIKKPKKADIKAIAK----AWGI-TDKEERKLLQSIAEKPGALRQLTKTLRLAAMFAKGEGEA-ITADHIRAAWK   76 (78)
T ss_dssp             TT--SS-SGGGTTHHHH----SSSS-SSSHHHHHHHTTSSS-S-HHHHHHHHGGGT-TT-TTS---SSHHHHHHHHT
T ss_pred             ccccCCCCHHHHHHHHH----HhCC-CCHHHHHHHHHHcccccHHHHHHHHHHHHHHHhccCCCc-CCHHHHHHHHH
Confidence            45667788888887764    4676 47788888888853 389999999999998888766664 99999998864

Mu requires the activity of four proteins for DNA transposition. Two of these proteins are the phage-encoded A and B transposition proteins, while the other two are host-specified accessory factors HU and IHF. These four proteins can form nucleoprotein complexes (transposomes), which enable strand transfer. The stable protein-DNA intermediate is subsequently disassembled prior to DNA replication by host proteins. The Mu B transposition protein is an ATP-dependent, DNA-binding protein required for target capture and immunity, as well as for activating transpososome function []. The C-terminal domain of the B transposition protein is believed to be involved in both DNA-binding and protein-protein contacts with the Mu A transposition protein. The structure of the C-terminal domain consists of four helices in an irregular array [].; GO: 0003677 DNA binding, 0006313 transposition, DNA-mediated; PDB: 1F6V_A.

>PF13654 AAA_32: AAA domain; PDB: 3K1J_B

Probab=91.16  E-value=0.59  Score=43.36  Aligned_cols=128  Identities=21%  Similarity=0.294  Sum_probs=81.3

Q ss_pred             eEEEEecCCCCC-HHHHHHHHHHhhc-------cC-------------C----CEEEEEecCCcccccCCCCCCCCCCC-
Q psy18185         31 GVLFIDEVHMLD-LETFTYLHRALES-------AI-------------A----PIVIFATNRGRCLVRGTDDIISPHGI-   84 (190)
Q Consensus        31 ~Il~IDEi~~L~-~~~~~~L~~~~E~-------~~-------------~----~~iIlatn~~~~~~~~t~~~~~~~~l-   84 (190)
                      |+|+||=-+.|. +.++..|-+++..       +.             +    ..+|+++++        +   ....+ 
T Consensus       334 GyLIL~a~~LL~~p~~W~~LKr~L~~~~i~ie~~~~~~~~~~~~l~PepIpl~vKVILiG~~--------~---~y~~L~  402 (509)
T PF13654_consen  334 GYLILDAEDLLANPYAWERLKRALRTGEIEIESPEEYGLSSTVSLEPEPIPLDVKVILIGDR--------E---LYYLLY  402 (509)
T ss_dssp             SEEEETTGGGS-HHH-HHHHHHHHHHSEE--B-S---TTSGGGG-B-S-EE---EEEEEE-T--------T---HHHHS-
T ss_pred             eEEEEEHHHhhhChHHHHHHHHHHHcCceeeccccccccCCCCCCCCCCcceEEEEEEEcCH--------H---HHHHHH
Confidence            899999888886 5788999888852       10             1    147777742        1   12222 


Q ss_pred             --ChhHhhhhh-heecc---CCCHHHHH---HHHHHHHHhcCC-CCCHHHHHHHHHhcCC-------CCHHHHHHHHHHH
Q psy18185         85 --PLDLLDRLL-IIRTT---PYNQKDME---AIIKLRANTEGH-VLDDEALVTLSEIGTR-------STLRYVVQLLTPA  147 (190)
Q Consensus        85 --~~~l~SR~~-~i~~~---~ls~~ei~---~iL~~~~~~~~~-~i~~e~l~~i~~~a~~-------gdlR~ai~lL~~~  147 (190)
                        .|+|.+-+- ...|.   +.|++.+.   ..+...|+++++ .++.+|+..|++++++       -.+.....+|..|
T Consensus       403 ~~D~dF~~lFkv~aef~~~~~~~~e~~~~~~~~i~~~~~~~~L~~~~~~Av~~li~~~~R~~q~kLsl~~~~l~~ll~EA  482 (509)
T PF13654_consen  403 EYDPDFYKLFKVKAEFDSEMPRTEENIRQYARFIASICQKEGLPPFDRSAVARLIEYSARLDQDKLSLRFSWLADLLREA  482 (509)
T ss_dssp             HHHHHHHHHHSEEEE--SEEE--HHHHHHHHHHHHHHHHHHSS--BBHHHHHHHHHHHHHCC-SEEE--HHHHHHHHHHH
T ss_pred             HhCHHHHhCCCEEEEccccCCCCHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhCCEeCCCHHHHHHHHHHH
Confidence              367777652 22232   34555444   455555667776 8999999999998532       3567788899999


Q ss_pred             HHHhhhcCCCcccHHHHHHHHH
Q psy18185        148 ALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       148 ~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ..+|+..|.+.|+.++|..++.
T Consensus       483 ~~~A~~~~~~~I~~~~V~~Ai~  504 (509)
T PF13654_consen  483 NYWARKEGAKVITAEHVEQAIE  504 (509)
T ss_dssp             HHHHHHCT-SSB-HHHHHHHHH
T ss_pred             HHHHHHhCCCccCHHHHHHHHH
Confidence            9999988999999999999885

>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

Probab=90.94  E-value=1.9  Score=29.17  Aligned_cols=64  Identities=17%  Similarity=0.211  Sum_probs=51.0

Q ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        100 YNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       100 ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ++...+.+.++...  .+..+++++.+.+.+.+ +   -++.+++..+..+|+..|+..|+..+|+-++.
T Consensus         2 ~~k~~l~~lv~~id--~~~~~~~da~~~l~~~~-e---~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~   65 (72)
T cd07981           2 LTKRKLQELLKEID--PREQLDPDVEELLLEIA-D---DFVDDVVEDACRLAKHRKSDTLEVKDVQLHLE   65 (72)
T ss_pred             CcHHHHHHHHHhhC--CCCCcCHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            34556667776654  34579999999999995 4   47888999999999999999999999987764

The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=90.70  E-value=6.1  Score=34.20  Aligned_cols=125  Identities=19%  Similarity=0.210  Sum_probs=72.2

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh---heeccCCCHHHHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL---IIRTTPYNQKDME  106 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~---~i~~~~ls~~ei~  106 (190)
                      .+.+++||+++|...++..|.+..+..+ ..+++..+.-  ..++..   .++....-+.||..   .....-.+..++.
T Consensus       166 ~~~iivDEA~~L~~~ale~lr~i~d~~G-i~~vLvG~pr--L~~~l~---~~~~~~~rl~srv~v~~~~~~~~~d~d~~~  239 (297)
T COG2842         166 VRLIIVDEADRLPYRALEELRRIHDKTG-IGVVLVGMPR--LFKVLR---RPEDELSRLYSRVRVGKLLGEKFPDADELA  239 (297)
T ss_pred             cceeeeehhhccChHHHHHHHHHHHhhC-ceEEEecChH--HHhccc---cchHHHHHHHHHhhhHhhhhhhhhhhHHHH
Confidence            4799999999999999999999999864 4566655310  111111   12222222334321   1111111113333


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDIL  165 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~  165 (190)
                      .+....   .+ ..+++++..+... ..|.+|..-.++--+...|..+|-..++.+-+.
T Consensus       240 ~~~~~~---l~-~~~~~~v~~~~~~-~~g~~~~L~~~l~~~~~~a~~~~~~~~~~~v~~  293 (297)
T COG2842         240 EIAALV---LP-TEDELVLMQVIKE-TEGNIRRLDKILAGAVGTARSNGIKDIDKPVLQ  293 (297)
T ss_pred             HHHHhh---Cc-cchHHHHHHHHHh-cchhHhHHHHHHhhhhhhhhhccccccchHHHH
Confidence            333222   22 2566777777776 589999988888888877777666666544333

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=90.50  E-value=11  Score=33.75  Aligned_cols=67  Identities=13%  Similarity=0.145  Sum_probs=45.9

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      ...+||||||.. ++-+.++..+.+.+.. .+++++.        +. ......+...+..|...+.+.|+|-.|...
T Consensus        95 ~~yifLDEIq~v-~~W~~~lk~l~d~~~~-~v~itgs--------ss-~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~  161 (398)
T COG1373          95 KSYIFLDEIQNV-PDWERALKYLYDRGNL-DVLITGS--------SS-SLLSKEISESLAGRGKDLELYPLSFREFLK  161 (398)
T ss_pred             CceEEEecccCc-hhHHHHHHHHHccccc-eEEEECC--------ch-hhhccchhhhcCCCceeEEECCCCHHHHHh
Confidence            368999999999 4567777777777653 3555442        11 111223345788888899999999998865

>KOG0651|consensus

Probab=89.88  E-value=1.1  Score=39.38  Aligned_cols=89  Identities=27%  Similarity=0.380  Sum_probs=57.0

Q ss_pred             CCeEEEEecCCCCC-----------HHHHHHHHHHhhcc------CCCEEEEEecCCcccccCCCCCCCCCCCChhHhhh
Q psy18185         29 VPGVLFIDEVHMLD-----------LETFTYLHRALESA------IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR   91 (190)
Q Consensus        29 ~~~Il~IDEi~~L~-----------~~~~~~L~~~~E~~------~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR   91 (190)
                      .+-++|+||+|...           .+.|..|..++..-      ..+-+|++||+             |..+.|+|+.-
T Consensus       225 ~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~rVk~ImatNr-------------pdtLdpaLlRp  291 (388)
T KOG0651|consen  225 IPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLHRVKTIMATNR-------------PDTLDPALLRP  291 (388)
T ss_pred             CceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhcccccEEEecCC-------------ccccchhhcCC
Confidence            35799999999983           24555555555421      12568999972             77787777665


Q ss_pred             h---hheeccCCCHHHHHHHHHHHHHh---cCCCCCHHHHHHHHHh
Q psy18185         92 L---LIIRTTPYNQKDMEAIIKLRANT---EGHVLDDEALVTLSEI  131 (190)
Q Consensus        92 ~---~~i~~~~ls~~ei~~iL~~~~~~---~~~~i~~e~l~~i~~~  131 (190)
                      .   ..+..+-+++.--..|++.....   .| +++++++-.+..-
T Consensus       292 GRldrk~~iPlpne~~r~~I~Kih~~~i~~~G-eid~eaivK~~d~  336 (388)
T KOG0651|consen  292 GRLDRKVEIPLPNEQARLGILKIHVQPIDFHG-EIDDEAILKLVDG  336 (388)
T ss_pred             ccccceeccCCcchhhceeeEeeccccccccc-cccHHHHHHHHhc
Confidence            4   34566666665555566655543   34 6788777777666

>PRK13695 putative NTPase; Provisional

Probab=89.76  E-value=0.78  Score=35.73  Aligned_cols=72  Identities=24%  Similarity=0.245  Sum_probs=48.9

Q ss_pred             CCeEEEEecCCCC---CHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhh--hhheeccCCCHH
Q psy18185         29 VPGVLFIDEVHML---DLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR--LLIIRTTPYNQK  103 (190)
Q Consensus        29 ~~~Il~IDEi~~L---~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR--~~~i~~~~ls~~  103 (190)
                      .+.++++||+..+   +...+..+..+++.+.  .+|+++|.       .    ........+.+|  +.++.+.+-+.+
T Consensus        96 ~~~~lllDE~~~~e~~~~~~~~~l~~~~~~~~--~~i~v~h~-------~----~~~~~~~~i~~~~~~~i~~~~~~~r~  162 (174)
T PRK13695         96 EADVIIIDEIGKMELKSPKFVKAVEEVLDSEK--PVIATLHR-------R----SVHPFVQEIKSRPGGRVYELTPENRD  162 (174)
T ss_pred             CCCEEEEECCCcchhhhHHHHHHHHHHHhCCC--eEEEEECc-------h----hhHHHHHHHhccCCcEEEEEcchhhh
Confidence            3579999996544   4566788888886653  37777752       1    122233456555  578899999999


Q ss_pred             HHHHHHHHHH
Q psy18185        104 DMEAIIKLRA  113 (190)
Q Consensus       104 ei~~iL~~~~  113 (190)
                      ++...+.++.
T Consensus       163 ~~~~~~~~~~  172 (174)
T PRK13695        163 SLPFEILNRL  172 (174)
T ss_pred             hHHHHHHHHH
Confidence            8888887654

>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins

Probab=89.75  E-value=3.9  Score=27.94  Aligned_cols=61  Identities=23%  Similarity=0.273  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        105 MEAIIKLRANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       105 i~~iL~~~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ++..+.++++.-|+ .+++.+++.+.+..    .+++..+...+..+++..|+...+..||..++.
T Consensus         8 l~~~Vaqil~~~Gf~~~~~sale~ltdi~----~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~   69 (77)
T smart00576        8 LRIAVAQILESAGFDSFQESALETLTDIL----QSYIQELGRTAHSYAELAGRTEPNLGDVVLALE   69 (77)
T ss_pred             HHHHHHHHHHHcCccccCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            34445556666675 57899999999994    478888888888999889999999999998774

subdomain of archael histone-like transcription factors

>KOG1051|consensus

Probab=89.28  E-value=2.2  Score=42.13  Aligned_cols=85  Identities=14%  Similarity=0.244  Sum_probs=56.3

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC------------CEEEEEecCCcccc-cCCC-------------------
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA------------PIVIFATNRGRCLV-RGTD-------------------   76 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~------------~~iIlatn~~~~~~-~~t~-------------------   76 (190)
                      ++.|+++|||+..+.+.++.|+.+++++.-            ++||+++|.+...+ ++..                   
T Consensus       660 P~sVVLfdeIEkAh~~v~n~llq~lD~GrltDs~Gr~Vd~kN~I~IMTsn~~~~~i~~~~~~~~~l~~~~~~~~~~~~~k  739 (898)
T KOG1051|consen  660 PYSVVLFEEIEKAHPDVLNILLQLLDRGRLTDSHGREVDFKNAIFIMTSNVGSSAIANDASLEEKLLDMDEKRGSYRLKK  739 (898)
T ss_pred             CceEEEEechhhcCHHHHHHHHHHHhcCccccCCCcEeeccceEEEEecccchHhhhcccccccccccchhhhhhhhhhh
Confidence            458999999999999999999999997652            47888887653311 1110                   


Q ss_pred             CC---CCC----CCCChhHhhhh-hheeccCCCHHHHHHHHHHHH
Q psy18185         77 DI---ISP----HGIPLDLLDRL-LIIRTTPYNQKDMEAIIKLRA  113 (190)
Q Consensus        77 ~~---~~~----~~l~~~l~SR~-~~i~~~~ls~~ei~~iL~~~~  113 (190)
                      ..   ...    +...++|..|+ .+.-|.|++.+++..+.....
T Consensus       740 ~~v~~~~~~~~~~~~r~Ef~nrid~i~lf~~l~~~~~~~i~~~~~  784 (898)
T KOG1051|consen  740 VQVSDAVRIYNKQFFRKEFLNRIDELDLNLPLDRDELIEIVNKQL  784 (898)
T ss_pred             hhhhhhhhcccccccChHHhcccceeeeecccchhhHhhhhhhHH
Confidence            00   001    23345677766 455788888777766665443

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=89.15  E-value=6.3  Score=34.03  Aligned_cols=47  Identities=13%  Similarity=0.114  Sum_probs=37.3

Q ss_pred             heeccCCCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHhcCCCCHHHHH
Q psy18185         94 IIRTTPYNQKDMEAIIKLRANTEGH---VLDDEALVTLSEIGTRSTLRYVV  141 (190)
Q Consensus        94 ~i~~~~ls~~ei~~iL~~~~~~~~~---~i~~e~l~~i~~~a~~gdlR~ai  141 (190)
                      .+++++||.+|+..++.+..+..-+   ..++.+.+.+... ++|++|...
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~-s~GNp~el~  307 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLS-SNGNPRELE  307 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHh-cCCCHHHhc
Confidence            7899999999999999998765322   3566777777777 699998764

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).

>KOG0744|consensus

Probab=88.70  E-value=1.9  Score=38.24  Aligned_cols=71  Identities=24%  Similarity=0.409  Sum_probs=51.5

Q ss_pred             EEEecCCCCCH---------------HHHHHHHHHhhccCC-C-EEEEEecCCcccccCCCCCCCCCCCChhHhhhh-hh
Q psy18185         33 LFIDEVHMLDL---------------ETFTYLHRALESAIA-P-IVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LI   94 (190)
Q Consensus        33 l~IDEi~~L~~---------------~~~~~L~~~~E~~~~-~-~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~~   94 (190)
                      +.||||+.|..               .+.|+++.-++.-+. | .+|++|         + |.  ...+..+|.+|+ .+
T Consensus       254 vLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~NvliL~T---------S-Nl--~~siD~AfVDRADi~  321 (423)
T KOG0744|consen  254 VLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYPNVLILAT---------S-NL--TDSIDVAFVDRADIV  321 (423)
T ss_pred             EEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhccCCCEEEEec---------c-ch--HHHHHHHhhhHhhhe
Confidence            34999999932               467888888876444 4 455555         2 32  345778999999 56


Q ss_pred             eeccCCCHHHHHHHHHHHHHh
Q psy18185         95 IRTTPYNQKDMEAIIKLRANT  115 (190)
Q Consensus        95 i~~~~ls~~ei~~iL~~~~~~  115 (190)
                      +.+-|++.+.+..+++--.++
T Consensus       322 ~yVG~Pt~~ai~~IlkscieE  342 (423)
T KOG0744|consen  322 FYVGPPTAEAIYEILKSCIEE  342 (423)
T ss_pred             eecCCccHHHHHHHHHHHHHH
Confidence            678999999999999866553

>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C

Probab=88.44  E-value=0.97  Score=31.24  Aligned_cols=47  Identities=21%  Similarity=0.299  Sum_probs=34.9

Q ss_pred             cCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHH
Q psy18185        116 EGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILE  166 (190)
Q Consensus       116 ~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~  166 (190)
                      .|+.++++++..|++.+    .+++.++-.-+...|+..|++.|+.+||.=
T Consensus        22 ~~~~~s~~~i~al~ELv----~~q~~~~a~DLe~FAkHA~R~tI~~dDV~L   68 (76)
T PF15630_consen   22 KGVEVSPQFIAALTELV----YKQLENLAKDLEAFAKHAGRSTINMDDVKL   68 (76)
T ss_dssp             TTSEE-HHHHHHHHHHH----HHHHHHHHHHHHHHHHHTT-SEE-HHHHHH
T ss_pred             cCCccCHHHHHHHHHHH----HHHHHHHHHHHHHHHHhcCCCeecHHHHHH
Confidence            58899999999999994    567766666666667777889999999973

>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin

Probab=88.27  E-value=3.4  Score=27.02  Aligned_cols=61  Identities=16%  Similarity=0.256  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185        102 QKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       102 ~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      ..-+..+++..  ..+..++.|+..++.+.+ +   .....+...+...++..+++.|+.+||..++
T Consensus         5 ~a~vkri~k~~--~~~~~vs~ea~~~i~~a~-e---~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av   65 (65)
T PF00808_consen    5 LARVKRIMKSD--PDVMRVSKEAVEAIAKAA-E---EFIQYLAKEANEIAQRDKRKTITYEDVAKAV   65 (65)
T ss_dssp             HHHHHHHHHHT--STTSEE-HHHHHHHHHHH-H---HHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred             hHHHHHHhccC--CCccchhHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence            33455555533  234469999999999884 2   4556666777788888999999999998764

The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding [, ]. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The A subunit can be split into 3 domains on the basis of sequence similarity, a non-conserved N-terminal 'A domain'; a highly-conserved central 'B domain' involved in DNA-binding; and a C-terminal 'C domain', which contains a number of glutamine and acidic residues involved in protein-protein interactions []. The A subunit shows striking similarity to the HAP3 subunit of the yeast CCAAT-binding heterotrimeric transcription factor [, ]. The Kluyveromyces lactis HAP3 protein has been predicted to contain a 4-cysteine zinc finger, which is thought to be present in similar HAP3 and CBF subunit A proteins, in which the third cysteine is replaced by a serine []. This domain is found in the CCAAT transcription factor and archaeal histones.; GO: 0043565 sequence-specific DNA binding, 0005622 intracellular; PDB: 1F1E_A 2BYM_D 2BYK_D 1HTA_A 1B67_A 1JFI_B 1KU5_B 1N1J_A 1BFM_A 1B6W_A ....

>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]

Probab=87.01  E-value=3.6  Score=29.42  Aligned_cols=64  Identities=16%  Similarity=0.187  Sum_probs=50.5

Q ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        100 YNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       100 ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      ++..-+..+++.....   .++.+|.+.+.+.. +   .++..+.+.+..+|...|+..|+.+||.-++..
T Consensus        20 Lp~apv~Ri~r~~~~~---Rvs~~A~~~l~~~~-e---~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~   83 (91)
T COG2036          20 LPKAPVRRILRKAGAE---RVSSSAIEELQEAL-E---EYLEEIAEDAVELAEHAKRKTVKAEDIKLALKR   83 (91)
T ss_pred             cCchHHHHHHHHHhHH---HhhHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHH
Confidence            3334456667666544   57899999998883 3   688999999999999999999999999988753

>KOG0736|consensus

Probab=86.87  E-value=25  Score=34.67  Aligned_cols=76  Identities=20%  Similarity=0.283  Sum_probs=54.5

Q ss_pred             CCeEEEEecCCCCC--------HHHHHHHHHHhh---cc-CC--CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-h
Q psy18185         29 VPGVLFIDEVHMLD--------LETFTYLHRALE---SA-IA--PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-L   93 (190)
Q Consensus        29 ~~~Il~IDEi~~L~--------~~~~~~L~~~~E---~~-~~--~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~   93 (190)
                      .+.|||+-+.|.+.        ...+.++...++   .. +.  +++|.+|+             +...+|+++++=+ .
T Consensus       490 ~pavifl~~~dvl~id~dgged~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~-------------s~~~lp~~i~~~f~~  556 (953)
T KOG0736|consen  490 SPAVLFLRNLDVLGIDQDGGEDARLLKVIRHLLSNEDFKFSCPPVIVVATTS-------------SIEDLPADIQSLFLH  556 (953)
T ss_pred             CceEEEEeccceeeecCCCchhHHHHHHHHHHHhcccccCCCCceEEEEecc-------------ccccCCHHHHHhhhh
Confidence            46788888888873        245666666665   11 11  34444442             3678999999987 5


Q ss_pred             heeccCCCHHHHHHHHHHHHHhcC
Q psy18185         94 IIRTTPYNQKDMEAIIKLRANTEG  117 (190)
Q Consensus        94 ~i~~~~ls~~ei~~iL~~~~~~~~  117 (190)
                      .+.++-++++|-.++|+.......
T Consensus       557 ei~~~~lse~qRl~iLq~y~~~~~  580 (953)
T KOG0736|consen  557 EIEVPALSEEQRLEILQWYLNHLP  580 (953)
T ss_pred             hccCCCCCHHHHHHHHHHHHhccc
Confidence            789999999999999999886653

>KOG2543|consensus

Probab=86.79  E-value=19  Score=32.59  Aligned_cols=112  Identities=17%  Similarity=0.241  Sum_probs=64.5

Q ss_pred             EEEEecCCCCC---HHHHHHHHHHhhccCCC--EEEEEecCCcccccCCCCCCCCCCCChhHhhhh-----hheeccCCC
Q psy18185         32 VLFIDEVHMLD---LETFTYLHRALESAIAP--IVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-----LIIRTTPYN  101 (190)
Q Consensus        32 Il~IDEi~~L~---~~~~~~L~~~~E~~~~~--~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-----~~i~~~~ls  101 (190)
                      ++++|.+|.+.   ...++.|.++-|--..|  .|+++...                .+.-..++.     ..+.|+.|+
T Consensus       118 ~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~iils~~~----------------~e~~y~~n~g~~~i~~l~fP~Ys  181 (438)
T KOG2543|consen  118 FLILDNADALRDMDAILLQCLFRLYELLNEPTIVIILSAPS----------------CEKQYLINTGTLEIVVLHFPQYS  181 (438)
T ss_pred             EEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEEEEeccc----------------cHHHhhcccCCCCceEEecCCCC
Confidence            66699999994   45677777777754443  34443311                111223321     467999999


Q ss_pred             HHHHHHHHHHHHHhcCCCCC----HHHHHHHHHh---cCCCCHHHHHHHHHHHH-HHhhhcCCCcccHHH
Q psy18185        102 QKDMEAIIKLRANTEGHVLD----DEALVTLSEI---GTRSTLRYVVQLLTPAA-LTAKTNGRTAISKQD  163 (190)
Q Consensus       102 ~~ei~~iL~~~~~~~~~~i~----~e~l~~i~~~---a~~gdlR~ai~lL~~~~-~~a~~~g~~~It~~~  163 (190)
                      .+++..|+.+--  -| ...    ..-+..+.+.   +++ |++....+++.+. -+.+.--++.|+..+
T Consensus       182 ~~e~~~Il~~~~--p~-~r~~~~ya~fl~v~l~vF~~~cr-d~~eL~~~~~~~wpky~epi~~~~i~~~d  247 (438)
T KOG2543|consen  182 VEETQVILSRDN--PG-KRKLDVYAQFLHVLLQVFYMACR-DVNELRSLISLAWPKYCEPITKGKIDPTD  247 (438)
T ss_pred             HHHHHHHHhcCC--cc-ccchHHHHHHHHHHHHHHHHHhC-CHHHHHHHHHHHHHhhccccccCCCChhH
Confidence            999999997431  11 222    2333334333   234 8888777777666 344443444566666

>KOG0735|consensus

Probab=85.48  E-value=20  Score=35.15  Aligned_cols=105  Identities=21%  Similarity=0.212  Sum_probs=61.3

Q ss_pred             CeEEEEecCCCCCH-----------HHHHHHHHHhhccCC--CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh---
Q psy18185         30 PGVLFIDEVHMLDL-----------ETFTYLHRALESAIA--PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL---   93 (190)
Q Consensus        30 ~~Il~IDEi~~L~~-----------~~~~~L~~~~E~~~~--~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~---   93 (190)
                      +-|+|.||.|.+.+           ...|-|+.-++...+  .++|+++         |.   .|..+.|+++....   
T Consensus       761 PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aa---------Ts---RpdliDpALLRpGRlD~  828 (952)
T KOG0735|consen  761 PCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAA---------TS---RPDLIDPALLRPGRLDK  828 (952)
T ss_pred             CeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEe---------cC---CccccCHhhcCCCccce
Confidence            57999999999943           577888877775443  4555555         22   37788888876542   


Q ss_pred             heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcC---CCCHHHHHHHHHHH
Q psy18185         94 IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGT---RSTLRYVVQLLTPA  147 (190)
Q Consensus        94 ~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~---~gdlR~ai~lL~~~  147 (190)
                      .+.-+.+++.+--+||+-....... =++--++.++..+.   ..|+...+.-.+.+
T Consensus       829 ~v~C~~P~~~eRl~il~~ls~s~~~-~~~vdl~~~a~~T~g~tgADlq~ll~~A~l~  884 (952)
T KOG0735|consen  829 LVYCPLPDEPERLEILQVLSNSLLK-DTDVDLECLAQKTDGFTGADLQSLLYNAQLA  884 (952)
T ss_pred             eeeCCCCCcHHHHHHHHHHhhccCC-ccccchHHHhhhcCCCchhhHHHHHHHHHHH
Confidence            2333445566666677655443221 12223667777631   22555444433333

>KOG3334|consensus

Probab=85.18  E-value=6.9  Score=30.30  Aligned_cols=55  Identities=16%  Similarity=0.251  Sum_probs=46.9

Q ss_pred             HHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        112 RANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       112 ~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      +.+..|+ ++++.++..+.++|    .||.-.+|+.|..++...++..|+.++|+-++..
T Consensus        22 iL~s~GI~eyEprVi~qlLefa----~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~   77 (148)
T KOG3334|consen   22 ILKSLGIQEYEPRVINQLLEFA----YRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQM   77 (148)
T ss_pred             HHHHcCccccChHHHHHHHHHH----HHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHH
Confidence            3444566 68999999999995    7999999999999998888899999999998854

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

Probab=84.99  E-value=23  Score=30.22  Aligned_cols=116  Identities=25%  Similarity=0.299  Sum_probs=73.3

Q ss_pred             CeEEEEecCCCC-CHHHHHHHHHHhhccCC-----CEEEEEecCC---cccccCCCCCCCCCCCC--------hhHhhhh
Q psy18185         30 PGVLFIDEVHML-DLETFTYLHRALESAIA-----PIVIFATNRG---RCLVRGTDDIISPHGIP--------LDLLDRL   92 (190)
Q Consensus        30 ~~Il~IDEi~~L-~~~~~~~L~~~~E~~~~-----~~iIlatn~~---~~~~~~t~~~~~~~~l~--------~~l~SR~   92 (190)
                      +-|||.||.-.= +.+.+-+|-.++|.+-.     ++|-.++|+-   ...+.+.++  +-..+.        ..+-+|+
T Consensus       140 kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNRRHLl~e~~~dn~~--~~~eih~~eaveEKlSlSDRF  217 (287)
T COG2607         140 KFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNRRHLLPEDMKDNEG--STGEIHPSEAVEEKLSLSDRF  217 (287)
T ss_pred             eEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCCcccccHhhhhCCC--cccccChhHHHHHhhchhhhc
Confidence            468889987444 34677777778875322     2333344432   001111110  111222        1466776


Q ss_pred             -hheeccCCCHHHHHHHHHHHHHhcCCCCCH-----HHHHHHHHhcCCCCHHHHHHHHHHHH
Q psy18185         93 -LIIRTTPYNQKDMEAIIKLRANTEGHVLDD-----EALVTLSEIGTRSTLRYVVQLLTPAA  148 (190)
Q Consensus        93 -~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~-----e~l~~i~~~a~~gdlR~ai~lL~~~~  148 (190)
                       +-+.|.|.+.++--.++...+++.|+.+++     +|+++-..++ +.+-|.|.+..+..+
T Consensus       218 GLwL~F~~~~Q~~YL~~V~~~a~~~~l~~~~e~l~~eAl~WAt~rg-~RSGR~A~QF~~~~~  278 (287)
T COG2607         218 GLWLSFYPCDQDEYLKIVDHYAKHFGLDISDEELHAEALQWATTRG-GRSGRVAWQFIRDLA  278 (287)
T ss_pred             ceeecccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhcC-CCccHhHHHHHHHHH
Confidence             678999999999999999999999999877     4555555663 557799988887654

>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO)

Probab=84.93  E-value=9.7  Score=25.76  Aligned_cols=62  Identities=26%  Similarity=0.236  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        104 DMEAIIKLRANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       104 ei~~iL~~~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      -++..+...+...|+ ..++.+++.+...+    .++..++...+..+++..|+...++.||..++.
T Consensus         7 ~l~~~va~il~~~GF~~~~~~al~~Ltdi~----~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~   69 (77)
T PF07524_consen    7 LLRRSVAQILKHAGFDSASPSALDTLTDIL----QRYLQELGRTAKRYAEHAGRTEPNLQDVEQALE   69 (77)
T ss_pred             HHHHHHHHHHHHcCccccCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            345555566667787 48899999999994    477777788888888888999999999998774

The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].

>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3

Probab=84.93  E-value=1.7  Score=43.71  Aligned_cols=36  Identities=17%  Similarity=0.202  Sum_probs=29.4

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhc---cCCCEEEEEe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALES---AIAPIVIFAT   65 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~---~~~~~iIlat   65 (190)
                      .++|+|||||..+...+.+|.++++.   ...+++++++
T Consensus       594 ~svlVlDEVHaYD~~~~~~L~rlL~w~~~lG~~VlLmSA  632 (1110)
T TIGR02562       594 SSDLILDEPDDYEPEDLPALLRLVQLAGLLGSRVLLSSA  632 (1110)
T ss_pred             CCCEEEECCccCCHHHHHHHHHHHHHHHHcCCCEEEEeC
Confidence            58999999999999999999999983   2236677766

The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=84.88  E-value=13  Score=34.36  Aligned_cols=28  Identities=32%  Similarity=0.497  Sum_probs=25.4

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI   57 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~   57 (190)
                      .|||||||.-.......++|..=+|++.
T Consensus       284 ~GVLFLDElpef~~~iLe~LR~PLE~g~  311 (490)
T COG0606         284 NGVLFLDELPEFKRSILEALREPLENGK  311 (490)
T ss_pred             CCEEEeeccchhhHHHHHHHhCccccCc
Confidence            3899999999999999999999999765

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

Probab=84.78  E-value=0.87  Score=34.99  Aligned_cols=54  Identities=19%  Similarity=0.277  Sum_probs=26.4

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA   58 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~   58 (190)
                      ..+..++.+...+..++........+-+++|||+|.++...+.+|..+.+....
T Consensus       126 ~~~~~~~~l~~~l~~~l~~~~~~~~~~vlviDd~d~~~~~~~~~l~~l~~~~~~  179 (185)
T PF13191_consen  126 DPDSLEDRLEELLREILRELAARRKPLVLVIDDLDWADPASLDLLRALARRLQN  179 (185)
T ss_dssp             -HHHHH----HHHHHHHTTS-SE---EEEEEETTTHHHTTHHHHHHH-------
T ss_pred             CHHHHHhHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcHHHHHHHhccccccc
Confidence            344555555566666543222211236888999999988888888887776544

>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=84.64  E-value=1.3  Score=33.59  Aligned_cols=22  Identities=18%  Similarity=0.344  Sum_probs=17.0

Q ss_pred             CeEEEEecCCCCCHHH-HHHHHH
Q psy18185         30 PGVLFIDEVHMLDLET-FTYLHR   51 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~-~~~L~~   51 (190)
                      ..++|+||+|+..... +..+..
T Consensus       147 ~~~vI~DEaH~~~~~~~~~~i~~  169 (184)
T PF04851_consen  147 FDLVIIDEAHHYPSDSSYREIIE  169 (184)
T ss_dssp             ESEEEEETGGCTHHHHHHHHHHH
T ss_pred             CCEEEEehhhhcCCHHHHHHHHc
Confidence            4799999999997766 555544

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 ....

>KOG0736|consensus

Probab=84.16  E-value=21  Score=35.18  Aligned_cols=88  Identities=24%  Similarity=0.343  Sum_probs=50.7

Q ss_pred             CeEEEEecCCCCCH-------------HHHHHHHHHhhc----cCCCEE-EEEecCCcccccCCCCCCCCCCCChhHhhh
Q psy18185         30 PGVLFIDEVHMLDL-------------ETFTYLHRALES----AIAPIV-IFATNRGRCLVRGTDDIISPHGIPLDLLDR   91 (190)
Q Consensus        30 ~~Il~IDEi~~L~~-------------~~~~~L~~~~E~----~~~~~i-Ilatn~~~~~~~~t~~~~~~~~l~~~l~SR   91 (190)
                      +-|||.||+|.|.+             ...+-|+--++.    +..++| |+|||+             |..+.|+++..
T Consensus       765 PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~~VFViGATNR-------------PDLLDpALLRP  831 (953)
T KOG0736|consen  765 PCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQDVFVIGATNR-------------PDLLDPALLRP  831 (953)
T ss_pred             CeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCCceEEEecCCC-------------ccccChhhcCC
Confidence            57999999999954             233344444432    223455 456652             78888998876


Q ss_pred             hh---heeccCCCHHH-HHHHHHHHHHhcCCCCCHHH-HHHHHHhc
Q psy18185         92 LL---IIRTTPYNQKD-MEAIIKLRANTEGHVLDDEA-LVTLSEIG  132 (190)
Q Consensus        92 ~~---~i~~~~ls~~e-i~~iL~~~~~~~~~~i~~e~-l~~i~~~a  132 (190)
                      ..   .+.+.+..+++ -..+|+...++  +.+++++ +..||+.|
T Consensus       832 GRFDKLvyvG~~~d~esk~~vL~AlTrk--FkLdedVdL~eiAk~c  875 (953)
T KOG0736|consen  832 GRFDKLVYVGPNEDAESKLRVLEALTRK--FKLDEDVDLVEIAKKC  875 (953)
T ss_pred             CccceeEEecCCccHHHHHHHHHHHHHH--ccCCCCcCHHHHHhhC
Confidence            53   45566665554 44455433333  2333332 56677774

>PF00125 Histone: Core histone H2A/H2B/H3/H4 histone h2a signature histone h2b signature histone h3 signature histone h4 signature; InterPro: IPR007125 The core histones together with some other DNA binding proteins appear to form a superfamily defined by a common fold and distant sequence similarities [, ]

Probab=84.03  E-value=4.5  Score=26.99  Aligned_cols=62  Identities=21%  Similarity=0.234  Sum_probs=47.8

Q ss_pred             HHHHHHHHHHHhcC--CCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        104 DMEAIIKLRANTEG--HVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       104 ei~~iL~~~~~~~~--~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      -+..+++....+.+  ..++.+++.++.... +   -...++++.|..++...++..|+..|+..+..
T Consensus        10 ~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~-E---~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r   73 (75)
T PF00125_consen   10 PFSRLLREIGEEILSKYRISSEALVALQSVL-E---YLLVEILEEAGNLARHAKRKTITPRDIQLAVR   73 (75)
T ss_dssp             HHHHHHHHHHHTTSSSSEECHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHH
T ss_pred             EEeeeeehhhcccccccccccccchhhhhhh-h---hhhhhhhhHHHHHHhhcCCcEecHHHHHHHHh
Confidence            45566666655433  579999999999883 4   25677888888888888889999999998764

Some proteins contain local homology domains related to the histone fold [].; GO: 0003677 DNA binding; PDB: 2YFW_D 2YFV_B 1U35_H 2F8N_D 2PYO_D 2NQB_D 3AN2_C 3AZJ_C 3AV1_G 3AZM_G ....

>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=83.85  E-value=1.7  Score=38.63  Aligned_cols=58  Identities=21%  Similarity=0.264  Sum_probs=38.4

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHhhcc--CCCEEEEEecCCcccccCCCCCCCCCCCC-------------hhHhhhhhhe
Q psy18185         31 GVLFIDEVHMLDLETFTYLHRALESA--IAPIVIFATNRGRCLVRGTDDIISPHGIP-------------LDLLDRLLII   95 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~~~~L~~~~E~~--~~~~iIlatn~~~~~~~~t~~~~~~~~l~-------------~~l~SR~~~i   95 (190)
                      .|||+||.|-=+..-.-.|.++++.-  .++++|.++|.            +|..+-             ..|.++|.++
T Consensus       129 ~lLcfDEF~V~DiaDAmil~rLf~~l~~~gvvlVaTSN~------------~P~~Ly~~gl~r~~Flp~I~~l~~~~~vv  196 (362)
T PF03969_consen  129 RLLCFDEFQVTDIADAMILKRLFEALFKRGVVLVATSNR------------PPEDLYKNGLQRERFLPFIDLLKRRCDVV  196 (362)
T ss_pred             CEEEEeeeeccchhHHHHHHHHHHHHHHCCCEEEecCCC------------ChHHHcCCcccHHHHHHHHHHHHhceEEE
Confidence            69999999999887666676676642  23566666652            355551             2467778777


Q ss_pred             eccCC
Q psy18185         96 RTTPY  100 (190)
Q Consensus        96 ~~~~l  100 (190)
                      .+..-
T Consensus       197 ~ld~~  201 (362)
T PF03969_consen  197 ELDGG  201 (362)
T ss_pred             EecCC
Confidence            76543

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

>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain

Probab=83.61  E-value=5.2  Score=31.19  Aligned_cols=38  Identities=29%  Similarity=0.336  Sum_probs=20.6

Q ss_pred             cCCeEEEEecCCCCCHHHHHH--HHHHhhccCCCEEEEEe
Q psy18185         28 LVPGVLFIDEVHMLDLETFTY--LHRALESAIAPIVIFAT   65 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~--L~~~~E~~~~~~iIlat   65 (190)
                      ..+.++|+||+|..++....+  +++.+++.....+|+.|
T Consensus        94 ~~yd~II~DEcH~~Dp~sIA~rg~l~~~~~~g~~~~i~mT  133 (148)
T PF07652_consen   94 KNYDVIIMDECHFTDPTSIAARGYLRELAESGEAKVIFMT  133 (148)
T ss_dssp             TS-SEEEECTTT--SHHHHHHHHHHHHHHHTTS-EEEEEE
T ss_pred             cCccEEEEeccccCCHHHHhhheeHHHhhhccCeeEEEEe
Confidence            456899999999999864433  33333343334455555

The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....

>PRK09694 helicase Cas3; Provisional

Probab=83.40  E-value=1.7  Score=43.01  Aligned_cols=37  Identities=27%  Similarity=0.457  Sum_probs=26.0

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhc---cCCCEEEEEe
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALES---AIAPIVIFAT   65 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~---~~~~~iIlat   65 (190)
                      ..++|||||||..+......|.++++.   ...+++++++
T Consensus       439 a~svvIiDEVHAyD~ym~~lL~~~L~~l~~~g~~vIllSA  478 (878)
T PRK09694        439 GRSVLIVDEVHAYDAYMYGLLEAVLKAQAQAGGSVILLSA  478 (878)
T ss_pred             ccCeEEEechhhCCHHHHHHHHHHHHHHHhcCCcEEEEeC
Confidence            347999999999988666666666653   3346666666

>KOG0741|consensus

Probab=82.39  E-value=18  Score=34.31  Aligned_cols=96  Identities=15%  Similarity=0.247  Sum_probs=61.5

Q ss_pred             eEEEEecCCCCC----------HHHHHHHHHHhhccCC---CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-----
Q psy18185         31 GVLFIDEVHMLD----------LETFTYLHRALESAIA---PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-----   92 (190)
Q Consensus        31 ~Il~IDEi~~L~----------~~~~~~L~~~~E~~~~---~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-----   92 (190)
                      .++++|++++|-          .....+|.-++-..++   -.+|++|         |+        ..+++++|     
T Consensus       600 siivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~T---------TS--------~~~vL~~m~i~~~  662 (744)
T KOG0741|consen  600 SIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGT---------TS--------RREVLQEMGILDC  662 (744)
T ss_pred             eEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEec---------cc--------HHHHHHHcCHHHh
Confidence            799999999982          2445555555555433   4677777         32        12455554     


Q ss_pred             --hheeccCCCH-HHHHHHHHHHHHhcCCCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHH
Q psy18185         93 --LIIRTTPYNQ-KDMEAIIKLRANTEGHVLDDEALVTLSEIG----TRSTLRYVVQLLTPAA  148 (190)
Q Consensus        93 --~~i~~~~ls~-~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a----~~gdlR~ai~lL~~~~  148 (190)
                        ..+.++.++. +++..+|.+.    ++ ++++....++..-    ..-++.+.+.+++.+.
T Consensus       663 F~~~i~Vpnl~~~~~~~~vl~~~----n~-fsd~~~~~~~~~~~~~~~~vgIKklL~lie~a~  720 (744)
T KOG0741|consen  663 FSSTIHVPNLTTGEQLLEVLEEL----NI-FSDDEVRAIAEQLLSKKVNVGIKKLLMLIEMAR  720 (744)
T ss_pred             hhheeecCccCchHHHHHHHHHc----cC-CCcchhHHHHHHHhccccchhHHHHHHHHHHHh
Confidence              3678899988 7888887643    42 5566666666551    1235778888888775

>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=82.19  E-value=1.5  Score=36.03  Aligned_cols=28  Identities=36%  Similarity=0.584  Sum_probs=24.9

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI   57 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~   57 (190)
                      .||||+||+..+++...++|+..+|++.
T Consensus       107 ~GVLflDE~~ef~~~vld~Lr~ple~g~  134 (206)
T PF01078_consen  107 RGVLFLDELNEFDRSVLDALRQPLEDGE  134 (206)
T ss_dssp             TSEEEECETTTS-HHHHHHHHHHHHHSB
T ss_pred             CCEEEechhhhcCHHHHHHHHHHHHCCe
Confidence            5899999999999999999999999763

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.

>PRK04296 thymidine kinase; Provisional

Probab=81.23  E-value=8.8  Score=30.47  Aligned_cols=36  Identities=28%  Similarity=0.283  Sum_probs=25.5

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEec
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATN   66 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn   66 (190)
                      ..+|+|||+|.++.+....|.+.+... +..+|+++.
T Consensus        79 ~dvviIDEaq~l~~~~v~~l~~~l~~~-g~~vi~tgl  114 (190)
T PRK04296         79 IDCVLIDEAQFLDKEQVVQLAEVLDDL-GIPVICYGL  114 (190)
T ss_pred             CCEEEEEccccCCHHHHHHHHHHHHHc-CCeEEEEec
Confidence            479999999999887666666665443 355666664

>TIGR02746 TraC-F-type type-IV secretion system protein TraC

Probab=80.52  E-value=5.4  Score=38.59  Aligned_cols=86  Identities=8%  Similarity=-0.030  Sum_probs=54.6

Q ss_pred             CCeEEEEecCCCCCH----HHHHHHHHHhhccCC--CEEEEEecCCcccccCCCCCCCCCCCC-----hhHhhhhhheec
Q psy18185         29 VPGVLFIDEVHMLDL----ETFTYLHRALESAIA--PIVIFATNRGRCLVRGTDDIISPHGIP-----LDLLDRLLIIRT   97 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~----~~~~~L~~~~E~~~~--~~iIlatn~~~~~~~~t~~~~~~~~l~-----~~l~SR~~~i~~   97 (190)
                      .+++++|||+|.+..    .....+.+......+  ..++++|..             +..+.     .++.+-|...-+
T Consensus       637 ~~~~~viDEaw~ll~~~~~~~~~~i~~~~r~~RK~g~~~~~~TQ~-------------~~D~~~~~~~~~il~n~~~~i~  703 (797)
T TIGR02746       637 RRKICIIDEAWSLLDGANPQAADFIETGYRRARKYGGAFITITQG-------------IEDFYSSPEARAAYANSDWKII  703 (797)
T ss_pred             CceEEEEecHHHHhhcccHHHHHHHHHHHHHHhhcCceEEEEEec-------------HHHhccCHHHHHHHhcccceee
Confidence            368999999999965    344555555544433  568888841             33332     356677754444


Q ss_pred             cCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh
Q psy18185         98 TPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEI  131 (190)
Q Consensus        98 ~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~  131 (190)
                      -+.+++++.++++    ..++.++++..++|...
T Consensus       704 L~~~~~~~~~~~~----~~~~~ls~~e~~~l~~~  733 (797)
T TIGR02746       704 LRQSAESIAKLKA----ENPFTFSPFEKRLIKSL  733 (797)
T ss_pred             ecCCHHHHHHHHh----hCCCCCCHHHHHHHhcc
Confidence            4566666665432    23457889999988876

The protein family described here is common among the F, P and I-like type IV secretion systems. Gene symbols include TraC (F-type), TrbE/VirB4 (P-type) and TraU (I-type). The protein conyains the Walker A and B motifs and so is a putative nucleotide triphosphatase.

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=80.27  E-value=1.6  Score=30.83  Aligned_cols=20  Identities=30%  Similarity=0.366  Sum_probs=15.3

Q ss_pred             CCeEEEEecCCCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTY   48 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~   48 (190)
                      ..+++++||+|.+.......
T Consensus       103 ~~~~iiiDE~h~~~~~~~~~  122 (144)
T cd00046         103 KLDLLILDEAHRLLNQGFGL  122 (144)
T ss_pred             cCCEEEEeCHHHHhhcchHH
Confidence            35799999999997654444

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>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=80.13  E-value=20  Score=30.06  Aligned_cols=70  Identities=13%  Similarity=0.139  Sum_probs=44.7

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC--CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA--PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~--~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      ...++++||+-.- .--...+..++-.+..  ..+|+++.             .+..+|+++|+-+..+-+-+.+..++.
T Consensus        98 ~~~LiIlDD~~~~-~~k~~~l~~~~~~gRH~~is~i~l~Q-------------~~~~lp~~iR~n~~y~i~~~~s~~dl~  163 (241)
T PF04665_consen   98 PRFLIILDDLGDK-KLKSKILRQFFNNGRHYNISIIFLSQ-------------SYFHLPPNIRSNIDYFIIFNNSKRDLE  163 (241)
T ss_pred             CCeEEEEeCCCCc-hhhhHHHHHHHhcccccceEEEEEee-------------ecccCCHHHhhcceEEEEecCcHHHHH
Confidence            3568889998641 1122334445544433  55677774             378899999998865554467888887


Q ss_pred             HHHHHH
Q psy18185        107 AIIKLR  112 (190)
Q Consensus       107 ~iL~~~  112 (190)
                      .+++..
T Consensus       164 ~i~~~~  169 (241)
T PF04665_consen  164 NIYRNM  169 (241)
T ss_pred             HHHHhc
Confidence            666543

This is thought to be an ATPase involved in viral DNA packaging [].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	190
2c9o_A	456	3d Structure Of The Human Ruvb-Like Helicase Ruvbl1		6e-66
2xsz_A	367	The Dodecameric Human Ruvbl1:ruvbl2 Complex With Tr		2e-63
3uk6_A	368	Crystal Structure Of The Tip48 (Tip49b) Hexamer Len		3e-36
2xsz_D	378	The Dodecameric Human Ruvbl1:ruvbl2 Complex With Tr		4e-33

>pdb|2C9O|A Chain A, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1 Length = 456

Iteration: 1
 Score =  246 bits (628), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 118/185 (63%), Positives = 144/185 (77%)
Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLR EINKVVNKYIDQGIAELVPGVLF+DEVHMLD+E FTYLHRALES+IAPIVIFA+
Sbjct: 272 TDKLRGEINKVVNKYIDQGIAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFAS 331
Query: 66  NRGRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRG C++RGT+DI SPHGI               Y  ++M+ IIK+RA TEG  + +EAL
Sbjct: 332 NRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEAL 391
Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L EIGT++TLRY VQLLTPA L AK NG+ +I K+ + E+S LF DAKSSA+IL + +
Sbjct: 392 NHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELFYDAKSSAKILADQQ 451
Query: 186 DKFMR 190
           DK+M+
Sbjct: 452 DKYMK 456

>pdb|2XSZ|A Chain A, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated Domains Ii Length = 367

Iteration: 1
 Score =  238 bits (606), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 117/185 (63%), Positives = 143/185 (77%)
Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLR EINKVVNKYIDQGIAELVPGVLF+DEVH LD+E FTYLHRALES+IAPIVIFA+
Sbjct: 183 TDKLRGEINKVVNKYIDQGIAELVPGVLFVDEVHXLDIECFTYLHRALESSIAPIVIFAS 242
Query: 66  NRGRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRG C++RGT+DI SPHGI               Y  ++ + IIK+RA TEG  + +EAL
Sbjct: 243 NRGNCVIRGTEDITSPHGIPLDLLDRVXIIRTXLYTPQEXKQIIKIRAQTEGINISEEAL 302
Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L EIGT++TLRY VQLLTPA L AK NG+ +I K+ + E+S LF DAKSSA+IL + +
Sbjct: 303 NHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELFYDAKSSAKILADQQ 362
Query: 186 DKFMR 190
           DK+ +
Sbjct: 363 DKYXK 367

>pdb|3UK6|A Chain A, Crystal Structure Of The Tip48 (Tip49b) Hexamer Length = 368

Iteration: 1
 Score =  147 bits (372), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 74/182 (40%), Positives = 115/182 (63%), Gaps = 1/182 (0%)
Query: 8   KLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNR 67
           ++R++IN  V ++ ++G AE++PGVLFIDEVHMLD+E+F++L+RALES +AP++I ATNR
Sbjct: 168 EVREQINAKVAEWREEGKAEIIPGVLFIDEVHMLDIESFSFLNRALESDMAPVLIMATNR 227
Query: 68  GRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEALVT 127
           G   +RGT    SPHGI               Y++KD + I+++R   E   + ++A   
Sbjct: 228 GITRIRGT-SYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVEMSEDAYTV 286
Query: 128 LSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDK 187
           L+ IG  ++LRY +QL+T A+L  +    T +   DI  V +LFLD   S + + E +D 
Sbjct: 287 LTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYSLFLDESRSTQYMKEYQDA 346
Query: 188 FM 189
           F+
Sbjct: 347 FL 348

>pdb|2XSZ|D Chain D, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated Domains Ii Length = 378

Iteration: 1
 Score =  137 bits (345), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 73/182 (40%), Positives = 111/182 (60%), Gaps = 1/182 (0%)
Query: 8   KLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNR 67
           ++R++IN  V ++ ++G AE++PGVLFIDEVH LD+E+F++L+RALES  AP++I ATNR
Sbjct: 186 EVREQINAKVAEWREEGKAEIIPGVLFIDEVHXLDIESFSFLNRALESDXAPVLIXATNR 245
Query: 68  GRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEALVT 127
           G   +RGT    SPHGI               Y++KD + I+++R   E     ++A   
Sbjct: 246 GITRIRGT-SYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVEXSEDAYTV 304
Query: 128 LSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDK 187
           L+ IG  ++LRY +QL+T A+L  +    T +   DI  V +LFLD   S +   E +D 
Sbjct: 305 LTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYSLFLDESRSTQYXKEYQDA 364
Query: 188 FM 189
           F+
Sbjct: 365 FL 366

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	190
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	2e-82
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	3e-77
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	4e-06

>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* Length = 456

 Score =  250 bits (639), Expect = 2e-82
 Identities = 129/185 (69%), Positives = 157/185 (84%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
           +DKLR EINKVVNKYIDQGIAELVPGVLF+DEVHMLD+E FTYLHRALES+IAPIVIFA+
Sbjct: 272 TDKLRGEINKVVNKYIDQGIAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFAS 331

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRG C++RGT+DI SPHGIPLDLLDR++IIRT  Y  ++M+ IIK+RA TEG  + +EAL
Sbjct: 332 NRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEAL 391

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L EIGT++TLRY VQLLTPA L AK NG+ +I K+ + E+S LF DAKSSA+IL + +
Sbjct: 392 NHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELFYDAKSSAKILADQQ 451

Query: 186 DKFMR 190
           DK+M+
Sbjct: 452 DKYMK 456

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D* Length = 368

 Score =  234 bits (599), Expect = 3e-77
 Identities = 86/184 (46%), Positives = 129/184 (70%), Gaps = 1/184 (0%)

Query: 6   SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
             ++R++IN  V ++ ++G AE++PGVLFIDEVHMLD+E+F++L+RALES +AP++I AT
Sbjct: 166 KSEVREQINAKVAEWREEGKAEIIPGVLFIDEVHMLDIESFSFLNRALESDMAPVLIMAT 225

Query: 66  NRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 125
           NRG   +RGT    SPHGIP+DLLDRLLI+ TTPY++KD + I+++R   E   + ++A 
Sbjct: 226 NRGITRIRGTS-YQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVEMSEDAY 284

Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
             L+ IG  ++LRY +QL+T A+L  +    T +   DI  V +LFLD   S + + E +
Sbjct: 285 TVLTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYSLFLDESRSTQYMKEYQ 344

Query: 186 DKFM 189
           D F+
Sbjct: 345 DAFL 348

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus} Length = 604

 Score = 45.5 bits (108), Expect = 4e-06
 Identities = 29/180 (16%), Positives = 56/180 (31%), Gaps = 54/180 (30%)

Query: 31  GVLFIDEVHMLDLETFTYLHRALESAIAPI----------------------VIFATNRG 68
           GVLFIDE+  L L+    L  A++    PI                      ++ A N  
Sbjct: 203 GVLFIDEIATLSLKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVLVAAGNL- 261

Query: 69  RCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIK------------LRANTE 116
                      +   +   L  R+       Y +  M   I+            ++ + +
Sbjct: 262 ----------DTVDKMHPALRSRIRGYGYEVYMRTTMPDTIENRRKLVQFVAQEVKRDGK 311

Query: 117 GHVLDDEALVTLSEIGTR---------STLRYVVQLLTPAALTAKTNGRTAISKQDILEV 167
                 EA+  +     +           LR +  ++  A   A   G+  + ++D++E 
Sbjct: 312 IPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDLGGIVRAAGDIAVKKGKKYVEREDVIEA 371

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	190
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.96
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.92
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	99.76
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	99.72
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.72
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	99.71
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.71
3pvs_A	447	Replication-associated recombination protein A; ma	99.71
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	99.7
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.69
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.69
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.68
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.67
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.65
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.64
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.59
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	99.57
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.56
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.54
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.54
3bos_A	242	Putative DNA replication factor; P-loop containing	99.53
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.53
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.53
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.48
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.46
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.43
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.41
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.4
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.39
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.37
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.36
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.33
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.16
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.12
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.07
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.07
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.07
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.06
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.05
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.04
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.0
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.0
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.0
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	98.99
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	98.95
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.95
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.93
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.91
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.89
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.82
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.81
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.79
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.79
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.79
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.75
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	98.73
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.72
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	98.67
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	98.64
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.63
3f8t_A	506	Predicted ATPase involved in replication control,	98.63
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.63
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	98.6
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	98.59
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.58
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.57
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.55
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.54
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.53
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.53
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.48
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.43
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.41
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	98.41
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	98.4
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	98.4
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.23
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.23
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.97
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.85
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.7
2fna_A	357	Conserved hypothetical protein; structural genomic	97.38
3co5_A	143	Putative two-component system transcriptional RES	97.36
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.19
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.09
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.04
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.69
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	96.67
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.59
1taf_A	68	TFIID TBP associated factor 42; transcription init	96.41
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.32
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.05
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	95.33
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	94.82
4dra_A	113	Centromere protein S; DNA binding complex, DNA dam	94.37
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	94.33
3b0b_B	107	CENP-S, centromere protein S; histone fold, DNA bi	94.0
3v9r_A	90	MHF1, uncharacterized protein YOL086W-A; histone f	93.86
1taf_B	70	TFIID TBP associated factor 62; transcription init	93.69
3kw6_A	78	26S protease regulatory subunit 8; structural geno	93.64
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	93.4
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	92.59
3vh5_A	140	CENP-S; histone fold, chromosome segregation, DNA	92.49
2krk_A	86	26S protease regulatory subunit 8; structural geno	91.74
1ku5_A	70	HPHA, archaeal histon; histone fold, DNA binding p	91.68
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	90.31
1tue_A	212	Replication protein E1; helicase, replication, E1E	90.08
2yfw_B	103	Histone H4, H4; cell cycle, kinetochore, centromer	89.76
1tzy_D	103	Histone H4-VI; histone-fold, tetramer-dimer-dimer,	89.63
1f6v_A	91	DNA transposition protein; MU phage, recombination	89.56
1id3_B	102	Histone H4; nucleosome core particle, chromatin, p	89.31
4dra_E	84	Centromere protein X; DNA binding complex, DNA dam	89.3
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	89.24
3b0b_C	81	CENP-X, centromere protein X; histone fold, DNA bi	89.07
2hue_C	84	Histone H4; mini beta sheet, elongated beta sandwh	88.73
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	88.26
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	87.29
3b0c_T	111	CENP-T, centromere protein T; histone fold, DNA bi	87.28
3vlf_B	88	26S protease regulatory subunit 7 homolog; heat re	86.53
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	85.11
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	85.01
1b67_A	68	Protein (histone HMFA); DNA binding protein; 1.48A	84.54
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	82.69
1h3o_B	76	Transcription initiation factor TFIID 20/15 kDa su	82.54
3b0c_W	76	CENP-W, centromere protein W; histone fold, DNA bi	81.37

>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=99.96  E-value=6.9e-29  Score=221.40  Aligned_cols=183  Identities=70%  Similarity=1.098  Sum_probs=156.6

Q ss_pred             hHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCCh
Q psy18185          7 DKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPL   86 (190)
Q Consensus         7 ~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~   86 (190)
                      ..+|+++++.+.+|..++...+.++|+||||+|.|+.+++++|++++|+++.+++|++||.....+.++++..+|+.+|+
T Consensus       273 ~~lr~~I~~~l~~~~~~g~~~v~~~VliIDEa~~l~~~a~~aLlk~lEe~~~~~~il~tn~~~~~i~~~~~~~~~~~l~~  352 (456)
T 2c9o_A          273 DKLRGEINKVVNKYIDQGIAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFASNRGNCVIRGTEDITSPHGIPL  352 (456)
T ss_dssp             ----CHHHHHHHHHHHTTSEEEEECEEEEESGGGCBHHHHHHHHHHTTSTTCCEEEEEECCSEEECBTTSSCEEETTCCH
T ss_pred             HHHHHHHHHHHHHHHHhccccccceEEEEechhhcCHHHHHHHHHHhhccCCCEEEEecCCccccccccccccccccCCh
Confidence            35678899999999999998888899999999999999999999999999888888888654444444432335889999


Q ss_pred             hHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHH
Q psy18185         87 DLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILE  166 (190)
Q Consensus        87 ~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~  166 (190)
                      +++|||+.+.|+||+.+++.++|+.+++.+++.++++++.+++..+.+|++|.|+++|+.+..+|..+|+..||.++|++
T Consensus       353 ~i~sR~~~~~~~~~~~~e~~~iL~~~~~~~~~~~~~~~~~~i~~~a~~g~~r~a~~ll~~a~~~A~~~~~~~v~~~~v~~  432 (456)
T 2c9o_A          353 DLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEALNHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEE  432 (456)
T ss_dssp             HHHTTEEEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHHHSCHHHHHHTHHHHHHHHHHTTCSSBCHHHHHH
T ss_pred             hHHhhcceeeCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHccCCCHHHHHHHHHHHHHHHhhcCCCccCHHHHHH
Confidence            99999999999999999999999999999999999999999999932899999999999999889888999999999999


Q ss_pred             HHHhccChHHHHHHhHHhhhhhc
Q psy18185        167 VSTLFLDAKSSARILTENKDKFM  189 (190)
Q Consensus       167 ~~~~f~~~~~~~~~~~~~~~~~~  189 (190)
                      ++++|+|.+++++++..++..||
T Consensus       433 ~~~~~~d~~~~~~~~~~~~~~~~  455 (456)
T 2c9o_A          433 ISELFYDAKSSAKILADQQDKYM  455 (456)
T ss_dssp             HHHHSCCHHHHHHHHHC------
T ss_pred             HHHHhcChHHHHHHHHHHHHhcc
Confidence            99999999999999999999987

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.92  E-value=1.1e-23  Score=180.74  Aligned_cols=183  Identities=46%  Similarity=0.808  Sum_probs=150.7

Q ss_pred             hhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCC
Q psy18185          6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIP   85 (190)
Q Consensus         6 ~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~   85 (190)
                      ..++|+.+.+....+...++....++||||||+|.|+.+.++.|++++|++..+.++++++.....+.++ +..++..++
T Consensus       166 ~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDEi~~l~~~~~~~L~~~le~~~~~~~ii~t~~~~~~i~~t-~~~~~~~l~  244 (368)
T 3uk6_A          166 KSEVREQINAKVAEWREEGKAEIIPGVLFIDEVHMLDIESFSFLNRALESDMAPVLIMATNRGITRIRGT-SYQSPHGIP  244 (368)
T ss_dssp             CHHHHHHHHHHHHHHHHHTC---CBCEEEEESGGGSBHHHHHHHHHHTTCTTCCEEEEEESCSEEECBTS-SCEEETTCC
T ss_pred             HHHHHHHHHHHHHHhhhhccccccCceEEEhhccccChHHHHHHHHHhhCcCCCeeeeecccceeeeecc-CCCCcccCC
Confidence            5678888888887777776654456899999999999999999999999987788888886543333333 222477899


Q ss_pred             hhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHhhhcCCCcccHHHH
Q psy18185         86 LDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTR-STLRYVVQLLTPAALTAKTNGRTAISKQDI  164 (190)
Q Consensus        86 ~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~-gdlR~ai~lL~~~~~~a~~~g~~~It~~~V  164 (190)
                      ++++|||..+.|+||+.+++.++|+.++..+++.++++++++|++. +. |++|.++++|+.+...|...+...||.++|
T Consensus       245 ~~l~sR~~~i~~~~~~~~e~~~il~~~~~~~~~~~~~~~l~~l~~~-~~~G~~r~~~~ll~~a~~~A~~~~~~~It~~~v  323 (368)
T 3uk6_A          245 IDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVEMSEDAYTVLTRI-GLETSLRYAIQLITAASLVCRKRKGTEVQVDDI  323 (368)
T ss_dssp             HHHHTTEEEEEECCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHH-HHHSCHHHHHHHHHHHHHHHHHTTCSSBCHHHH
T ss_pred             HHHHhhccEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-hcCCCHHHHHHHHHHHHHHHHHhCCCCCCHHHH
Confidence            9999999999999999999999999999999999999999999999 46 999999999999998888888899999999


Q ss_pred             HHHHHhccChHHHHHHhHHhhhhhcC
Q psy18185        165 LEVSTLFLDAKSSARILTENKDKFMR  190 (190)
Q Consensus       165 ~~~~~~f~~~~~~~~~~~~~~~~~~~  190 (190)
                      ++++..|.+..++.+.+..+++.||+
T Consensus       324 ~~a~~~~~~~~~~~~~~~~~~~~~~~  349 (368)
T 3uk6_A          324 KRVYSLFLDESRSTQYMKEYQDAFLF  349 (368)
T ss_dssp             HHHHHHSBCHHHHHHHHC--------
T ss_pred             HHHHHHhcCHHHHHHHHHHhhhhhhh
Confidence            99999999999999999999999985

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.76  E-value=5.1e-18  Score=144.99  Aligned_cols=127  Identities=21%  Similarity=0.211  Sum_probs=111.2

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .++|++|||+|.|+.+++++|++++|+++. +.+|++||             .+..++++++|||+.+.|+|++.+++.+
T Consensus       110 ~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n-------------~~~~i~~~i~sR~~~~~~~~l~~~~~~~  176 (340)
T 1sxj_C          110 GFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLAN-------------YAHKLTPALLSQCTRFRFQPLPQEAIER  176 (340)
T ss_dssp             SCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEES-------------CGGGSCHHHHTTSEEEECCCCCHHHHHH
T ss_pred             CceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEec-------------CccccchhHHhhceeEeccCCCHHHHHH
Confidence            368999999999999999999999999866 67888885             2668899999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +|..+++.+++.+++++++.++.. ++||+|.|+++|+.+...+...|...||.++|.++++
T Consensus       177 ~l~~~~~~~~~~i~~~~~~~i~~~-s~G~~r~~~~~l~~~~~~~~~~~~~~it~~~v~~~~~  237 (340)
T 1sxj_C          177 RIANVLVHEKLKLSPNAEKALIEL-SNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCG  237 (340)
T ss_dssp             HHHHHHHTTTCCBCHHHHHHHHHH-HTTCHHHHHHHTTTTTTTTCSSSCCCBCHHHHHHHTT
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhcCCcccccccHHHHHHHhC
Confidence            999999989999999999999999 6999999999998876554433445799999887664

>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=99.72  E-value=5.8e-17  Score=138.43  Aligned_cols=131  Identities=14%  Similarity=0.022  Sum_probs=111.0

Q ss_pred             CCeEEEEecCCC-CCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         29 VPGVLFIDEVHM-LDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        29 ~~~Il~IDEi~~-L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      .++|++|||+|. ++++++++|++++|+|+. .++|++++.       .+.......++++++|||+++.|.|++.+++.
T Consensus        76 ~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~-------~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~  148 (343)
T 1jr3_D           76 SRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNK-------LSKAQENAAWFTALANRSVQVTCQTPEQAQLP  148 (343)
T ss_dssp             SCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESC-------CCTTTTTSHHHHHHTTTCEEEEECCCCTTHHH
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCC-------CChhhHhhHHHHHHHhCceEEEeeCCCHHHHH
Confidence            358999999999 999999999999999876 567777731       11000135678899999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      ++|..+++++|+.++++++++++.. ++||+|.|.+.|+.+..++   +.+.||.++|..++..
T Consensus       149 ~~l~~~~~~~g~~i~~~a~~~l~~~-~~gdl~~~~~elekl~l~~---~~~~It~e~V~~~~~~  208 (343)
T 1jr3_D          149 RWVAARAKQLNLELDDAANQVLCYC-YEGNLLALAQALERLSLLW---PDGKLTLPRVEQAVND  208 (343)
T ss_dssp             HHHHHHHHHTTCEECHHHHHHHHHS-STTCHHHHHHHHHHHHHHC---TTCEECHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHH-hchHHHHHHHHHHHHHHhc---CCCCCCHHHHHHHHhh
Confidence            9999999999999999999999999 6999999999999998764   3447999999887754

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.72  E-value=9.6e-17  Score=136.05  Aligned_cols=128  Identities=18%  Similarity=0.209  Sum_probs=112.5

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .++|+||||+|.++...++.|++++|+++. ..+|++||             .+..++++++|||..+.|+|++.+++..
T Consensus       133 ~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~-------------~~~~l~~~l~sR~~~i~~~~~~~~~~~~  199 (353)
T 1sxj_D          133 PYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICN-------------YVTRIIDPLASQCSKFRFKALDASNAID  199 (353)
T ss_dssp             SCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEES-------------CGGGSCHHHHHHSEEEECCCCCHHHHHH
T ss_pred             CceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeC-------------chhhCcchhhccCceEEeCCCCHHHHHH
Confidence            357999999999999999999999999765 56777774             2567889999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCC-cccHHHHHHHHHh
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRT-AISKQDILEVSTL  170 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~-~It~~~V~~~~~~  170 (190)
                      +|..++..+|+.++++++++|++. +.||+|.++++|+.+..++.+.+.. .||.++|++++..
T Consensus       200 ~l~~~~~~~~~~i~~~~l~~l~~~-~~G~~r~~~~~l~~~~~~~~~~~~~~~It~~~v~~~~~~  262 (353)
T 1sxj_D          200 RLRFISEQENVKCDDGVLERILDI-SAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAGV  262 (353)
T ss_dssp             HHHHHHHTTTCCCCHHHHHHHHHH-TSSCHHHHHHHHHHTHHHHHHHCSCCCCCHHHHHHHHTC
T ss_pred             HHHHHHHHhCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhcCCCccCccccHHHHHHHhCC
Confidence            999999999999999999999999 6999999999999988776554433 7999999988754

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=99.71  E-value=4.9e-17  Score=139.20  Aligned_cols=121  Identities=16%  Similarity=0.197  Sum_probs=99.1

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      .+.+++|    +++.. .........++|++|||+|.|+.+++++|++++|+|+. +.+|++|+             .+.
T Consensus        88 ~~i~~ir----~l~~~-~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~-------------~~~  149 (334)
T 1a5t_A           88 LGVDAVR----EVTEK-LNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATR-------------EPE  149 (334)
T ss_dssp             BCHHHHH----HHHHH-TTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEES-------------CGG
T ss_pred             CCHHHHH----HHHHH-HhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeC-------------ChH
Confidence            3445666    33332 33333334579999999999999999999999999876 67888884             267


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAA  148 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~  148 (190)
                      .++++++|||+.+.|+|++++++.++|..++     .+++++++.++.. ++||+|.|+++++...
T Consensus       150 ~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~-----~~~~~~~~~l~~~-s~G~~r~a~~~l~~~~  209 (334)
T 1a5t_A          150 RLLATLRSRCRLHYLAPPPEQYAVTWLSREV-----TMSQDALLAALRL-SAGSPGAALALFQGDN  209 (334)
T ss_dssp             GSCHHHHTTSEEEECCCCCHHHHHHHHHHHC-----CCCHHHHHHHHHH-TTTCHHHHHHTTSSHH
T ss_pred             hCcHHHhhcceeeeCCCCCHHHHHHHHHHhc-----CCCHHHHHHHHHH-cCCCHHHHHHHhccch
Confidence            8999999999999999999999999998764     6899999999999 6999999999997654

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=99.71  E-value=5.1e-17  Score=137.33  Aligned_cols=136  Identities=17%  Similarity=0.169  Sum_probs=102.1

Q ss_pred             HHHHHHHHHcCccccCCeEEEEecCCCCC-HHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhh
Q psy18185         14 NKVVNKYIDQGIAELVPGVLFIDEVHMLD-LETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR   91 (190)
Q Consensus        14 ~~~v~~~~~~~~~~~~~~Il~IDEi~~L~-~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR   91 (190)
                      .+.+..+.........++|+||||+|.++ ++.++.|++++|+++. ..+|++||             ++..++++++||
T Consensus        90 ~~~~~~~~~~~~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n-------------~~~~l~~~l~sR  156 (324)
T 3u61_B           90 RGPLTNFASAASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITAN-------------NIDGIIKPLQSR  156 (324)
T ss_dssp             HTHHHHHHHBCCCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEES-------------SGGGSCTTHHHH
T ss_pred             HHHHHHHHhhcccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeC-------------CccccCHHHHhh
Confidence            34444444433322346899999999999 9999999999998654 67888885             255788999999


Q ss_pred             hhheeccCCCHHH-------HHHHHHHHHHhcCCCCCH-HHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHH
Q psy18185         92 LLIIRTTPYNQKD-------MEAIIKLRANTEGHVLDD-EALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQD  163 (190)
Q Consensus        92 ~~~i~~~~ls~~e-------i~~iL~~~~~~~~~~i~~-e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~  163 (190)
                      |.++.|++++.++       +...+...+..+|+.+++ ++++++++. ++||+|.|++.|+.++      +.+.||.++
T Consensus       157 ~~~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~-~~gd~R~a~~~L~~~~------~~~~i~~~~  229 (324)
T 3u61_B          157 CRVITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKK-NFPDFRKTIGELDSYS------SKGVLDAGI  229 (324)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHH-TCSCTTHHHHHHHHHG------GGTCBCC--
T ss_pred             CcEEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHh-CCCCHHHHHHHHHHHh------ccCCCCHHH
Confidence            9999999999887       444566667778999998 999999999 7999999999999886      123588888


Q ss_pred             HHHHHH
Q psy18185        164 ILEVST  169 (190)
Q Consensus       164 V~~~~~  169 (190)
                      |+.+..
T Consensus       230 v~~~~~  235 (324)
T 3u61_B          230 LSLVTN  235 (324)
T ss_dssp             ------
T ss_pred             HHHHhC
Confidence            877654

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.71  E-value=1e-16  Score=143.06  Aligned_cols=128  Identities=21%  Similarity=0.296  Sum_probs=107.2

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHHHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAII  109 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL  109 (190)
                      ++||||||+|.+++..|+.|++.+|++ .+++|++|         |+|  +.+.++++++|||.++.|++++.+++..+|
T Consensus       107 ~~iLfIDEI~~l~~~~q~~LL~~le~~-~v~lI~at---------t~n--~~~~l~~aL~sR~~v~~l~~l~~edi~~il  174 (447)
T 3pvs_A          107 RTILFVDEVHRFNKSQQDAFLPHIEDG-TITFIGAT---------TEN--PSFELNSALLSRARVYLLKSLSTEDIEQVL  174 (447)
T ss_dssp             CEEEEEETTTCC------CCHHHHHTT-SCEEEEEE---------SSC--GGGSSCHHHHTTEEEEECCCCCHHHHHHHH
T ss_pred             CcEEEEeChhhhCHHHHHHHHHHHhcC-ceEEEecC---------CCC--cccccCHHHhCceeEEeeCCcCHHHHHHHH
Confidence            589999999999999999999999995 47788888         444  356889999999999999999999999999


Q ss_pred             HHHHHh-------cCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhc--CCCcccHHHHHHHHHh
Q psy18185        110 KLRANT-------EGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTN--GRTAISKQDILEVSTL  170 (190)
Q Consensus       110 ~~~~~~-------~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~--g~~~It~~~V~~~~~~  170 (190)
                      ...+..       .++.+++++++.|++. +.||+|.++++|+.+...+...  |...||.++|.+++..
T Consensus       175 ~~~l~~~~~~~~~~~~~i~~~al~~L~~~-~~Gd~R~lln~Le~a~~~a~~~~~~~~~It~e~v~~~l~~  243 (447)
T 3pvs_A          175 TQAMEDKTRGYGGQDIVLPDETRRAIAEL-VNGDARRALNTLEMMADMAEVDDSGKRVLKPELLTEIAGE  243 (447)
T ss_dssp             HHHHHCTTTSSTTSSEECCHHHHHHHHHH-HCSCHHHHHHHHHHHHHHSCBCTTSCEECCHHHHHHHHTC
T ss_pred             HHHHHHHhhhhccccCcCCHHHHHHHHHH-CCCCHHHHHHHHHHHHHhcccccCCCCccCHHHHHHHHhh
Confidence            999876       6678999999999999 6999999999999999877533  5568999999998854

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.70  E-value=1.8e-16  Score=134.92  Aligned_cols=109  Identities=19%  Similarity=0.252  Sum_probs=99.1

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .++|++|||+|.|+.++++.|++++|+++. ..+|++||             .+..++++++|||+.++|+|++.+++.+
T Consensus       134 ~~~vlilDE~~~L~~~~~~~L~~~le~~~~~~~~Il~t~-------------~~~~l~~~l~sR~~~~~~~~~~~~~~~~  200 (354)
T 1sxj_E          134 RYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCD-------------SMSPIIAPIKSQCLLIRCPAPSDSEIST  200 (354)
T ss_dssp             CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEES-------------CSCSSCHHHHTTSEEEECCCCCHHHHHH
T ss_pred             CCeEEEEeCccccCHHHHHHHHHHHHhhcCCCEEEEEeC-------------CHHHHHHHHHhhceEEecCCcCHHHHHH
Confidence            468999999999999999999999999755 67888885             2567899999999999999999999999


Q ss_pred             HHHHHHHhcCCCCC-HHHHHHHHHhcCCCCHHHHHHHHHHHHHHh
Q psy18185        108 IIKLRANTEGHVLD-DEALVTLSEIGTRSTLRYVVQLLTPAALTA  151 (190)
Q Consensus       108 iL~~~~~~~~~~i~-~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a  151 (190)
                      +|..+++++|+.++ +++++.|++. ++||+|.|+++|+.+...+
T Consensus       201 ~l~~~~~~~~~~~~~~~~l~~i~~~-~~G~~r~a~~~l~~~~~~~  244 (354)
T 1sxj_E          201 ILSDVVTNERIQLETKDILKRIAQA-SNGNLRVSLLMLESMALNN  244 (354)
T ss_dssp             HHHHHHHHHTCEECCSHHHHHHHHH-HTTCHHHHHHHHTHHHHTT
T ss_pred             HHHHHHHHcCCCCCcHHHHHHHHHH-cCCCHHHHHHHHHHHHHhC
Confidence            99999999999999 9999999999 6999999999999887654

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.69  E-value=4.9e-16  Score=129.78  Aligned_cols=121  Identities=14%  Similarity=0.188  Sum_probs=106.8

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAI  108 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~i  108 (190)
                      ++|++|||+|.++.+.++.|++++|+++. +.+|++||             .+..++++++|||..+.|+|++.+++.++
T Consensus       108 ~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~-------------~~~~l~~~l~sr~~~i~~~~~~~~~~~~~  174 (323)
T 1sxj_B          108 HKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACN-------------QSNKIIEPLQSQCAILRYSKLSDEDVLKR  174 (323)
T ss_dssp             CEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEES-------------CGGGSCHHHHTTSEEEECCCCCHHHHHHH
T ss_pred             ceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeC-------------ChhhchhHHHhhceEEeecCCCHHHHHHH
Confidence            68999999999999999999999999765 56777774             25678899999999999999999999999


Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        109 IKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       109 L~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      |..++..+|+.+++++++.+++. ++||+|.|++.|+.+....     +.||.++|..+++
T Consensus       175 l~~~~~~~~~~~~~~~~~~l~~~-~~G~~r~a~~~l~~~~~~~-----~~i~~~~v~~~~~  229 (323)
T 1sxj_B          175 LLQIIKLEDVKYTNDGLEAIIFT-AEGDMRQAINNLQSTVAGH-----GLVNADNVFKIVD  229 (323)
T ss_dssp             HHHHHHHHTCCBCHHHHHHHHHH-HTTCHHHHHHHHHHHHHHH-----SSBCHHHHHHHHT
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHhcC-----CCcCHHHHHHHHC
Confidence            99999989999999999999999 5999999999999876321     3689998887764

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=99.69  E-value=4.5e-16  Score=130.22  Aligned_cols=122  Identities=23%  Similarity=0.344  Sum_probs=105.5

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .++|++|||+|.++.+.++.|++++|+++. +.+|++||             .+..++++++|||..+.|+|++.+++.+
T Consensus       110 ~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~-------------~~~~l~~~l~sr~~~~~~~~l~~~~~~~  176 (327)
T 1iqp_A          110 SFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCN-------------YSSKIIEPIQSRCAIFRFRPLRDEDIAK  176 (327)
T ss_dssp             SCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEES-------------CGGGSCHHHHHTEEEEECCCCCHHHHHH
T ss_pred             CCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeC-------------CccccCHHHHhhCcEEEecCCCHHHHHH
Confidence            468999999999999999999999999755 56777774             2557889999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +|..++..+|+.++++++++++.. ++||+|.++++++.+...     ...||.++|..+.+
T Consensus       177 ~l~~~~~~~~~~~~~~~~~~l~~~-~~g~~r~~~~~l~~~~~~-----~~~i~~~~v~~~~~  232 (327)
T 1iqp_A          177 RLRYIAENEGLELTEEGLQAILYI-AEGDMRRAINILQAAAAL-----DKKITDENVFMVAS  232 (327)
T ss_dssp             HHHHHHHTTTCEECHHHHHHHHHH-HTTCHHHHHHHHHHHHTT-----CSEECHHHHHHHTT
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHH-CCCCHHHHHHHHHHHHhc-----CCCCCHHHHHHHHC
Confidence            999999999999999999999999 699999999999987642     23588777776553

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=99.68  E-value=2.7e-16  Score=131.08  Aligned_cols=122  Identities=20%  Similarity=0.260  Sum_probs=107.2

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .++|++|||+|.++.+.++.|++++|+++. +.+|++||             .+..++++++|||..+.|+|++.+++.+
T Consensus       102 ~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~-------------~~~~l~~~l~sr~~~i~~~~~~~~~~~~  168 (319)
T 2chq_A          102 PFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCN-------------YVSRIIEPIQSRCAVFRFKPVPKEAMKK  168 (319)
T ss_dssp             CCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEES-------------CGGGSCHHHHTTCEEEECCCCCHHHHHH
T ss_pred             CceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeC-------------ChhhcchHHHhhCeEEEecCCCHHHHHH
Confidence            368999999999999999999999999765 56777774             2567889999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +|..+++++|+.+++++++.++.. ++||+|.+++.|+.+...     ...||.++|..+.+
T Consensus       169 ~l~~~~~~~~~~i~~~~l~~l~~~-~~G~~r~~~~~l~~~~~~-----~~~i~~~~v~~~~~  224 (319)
T 2chq_A          169 RLLEICEKEGVKITEDGLEALIYI-SGGDFRKAINALQGAAAI-----GEVVDADTIYQITA  224 (319)
T ss_dssp             HHHHHHHTTCCCBCHHHHHHHHHT-TTTCHHHHHHHHHHHHHS-----SSCBCHHHHHHHTT
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHc-----CCCCCHHHHHHHHC
Confidence            999999999999999999999999 699999999999987642     24699888887664

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=99.67  E-value=9.3e-16  Score=130.88  Aligned_cols=124  Identities=24%  Similarity=0.322  Sum_probs=108.5

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .++|++|||+|.|+.+.++.|++++|+++. +.+|++|+             .+..++++++|||..+.|+|++.+++.+
T Consensus       119 ~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~-------------~~~~l~~~l~sr~~~i~~~~l~~~~~~~  185 (373)
T 1jr3_A          119 RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT-------------DPQKLPVTILSRCLQFHLKALDVEQIRH  185 (373)
T ss_dssp             SSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEES-------------CGGGSCHHHHTTSEEEECCCCCHHHHHH
T ss_pred             CeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeC-------------ChHhCcHHHHhheeEeeCCCCCHHHHHH
Confidence            458999999999999999999999999765 56777774             2457889999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      +|..+++.+|+.+++++++.++.. ++|++|.+.++++.+...+    ...||.++|..+++.
T Consensus       186 ~l~~~~~~~~~~~~~~a~~~l~~~-~~G~~r~~~~~l~~~~~~~----~~~i~~~~v~~~~~~  243 (373)
T 1jr3_A          186 QLEHILNEEHIAHEPRALQLLARA-AEGSLRDALSLTDQAIASG----DGQVSTQAVSAMLGT  243 (373)
T ss_dssp             HHHHHHHHHTCCBCHHHHHHHHHH-SSSCHHHHHHHHHHHHHHT----TTCBCHHHHHHHTTC
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-CCCCHHHHHHHHHHHHHhc----CCcccHHHHHHHhCC
Confidence            999999999999999999999999 6999999999999886543    347999999877643

>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=99.65  E-value=5.2e-15  Score=115.87  Aligned_cols=122  Identities=20%  Similarity=0.264  Sum_probs=107.6

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .+.+|+|||+|.++.+.++.|+++++.+.. ..+|++||             .+..+.+++++||..+.|+|++.+++.+
T Consensus       102 ~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~-------------~~~~~~~~l~~r~~~i~~~~~~~~~~~~  168 (226)
T 2chg_A          102 PFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCN-------------YVSRIIEPIQSRCAVFRFKPVPKEAMKK  168 (226)
T ss_dssp             SCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEES-------------CGGGSCHHHHTTSEEEECCCCCHHHHHH
T ss_pred             CceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeC-------------ChhhcCHHHHHhCceeecCCCCHHHHHH
Confidence            358999999999999999999999998654 56777774             2456789999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ++..++...|+.+++++++.+++. +.|++|.+++.|+.+...+     +.||.++|+++++
T Consensus       169 ~l~~~~~~~~~~~~~~~~~~l~~~-~~g~~r~l~~~l~~~~~~~-----~~I~~~~v~~~~~  224 (226)
T 2chg_A          169 RLLEICEKEGVKITEDGLEALIYI-SGGDFRKAINALQGAAAIG-----EVVDADTIYQITA  224 (226)
T ss_dssp             HHHHHHHHHTCCBCHHHHHHHHHH-HTTCHHHHHHHHHHHHHTC-----SCBCHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHhcC-----ceecHHHHHHHhc
Confidence            999999888999999999999999 6999999999999887654     4799999998875

>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=99.64  E-value=1.9e-15  Score=119.42  Aligned_cols=122  Identities=25%  Similarity=0.353  Sum_probs=106.6

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAI  108 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~i  108 (190)
                      +.+|+|||+|.++.+.++.|++.+++++. +.+|++|+             .+..+++++++||..+.|+|++.+++.++
T Consensus       127 ~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~-------------~~~~~~~~l~~r~~~i~l~~l~~~e~~~~  193 (250)
T 1njg_A          127 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT-------------DPQKLPVTILSRCLQFHLKALDVEQIRHQ  193 (250)
T ss_dssp             SEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEES-------------CGGGSCHHHHTTSEEEECCCCCHHHHHHH
T ss_pred             ceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeC-------------ChHhCCHHHHHHhhhccCCCCCHHHHHHH
Confidence            57999999999999999999999998654 56777774             14567889999999999999999999999


Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        109 IKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       109 L~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +..++...+..+++++++.+++. +.|++|.+.++++.+...    +.+.||.++|+++++
T Consensus       194 l~~~~~~~~~~~~~~~~~~l~~~-~~G~~~~~~~~~~~~~~~----~~~~i~~~~v~~~~~  249 (250)
T 1njg_A          194 LEHILNEEHIAHEPRALQLLARA-AEGSLRDALSLTDQAIAS----GDGQVSTQAVSAMLG  249 (250)
T ss_dssp             HHHHHHHTTCCBCHHHHHHHHHH-HTTCHHHHHHHHHHHHTT----TTSSBCHHHHHHHSC
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHhc----cCceecHHHHHHHhC
Confidence            99999989999999999999999 599999999999988643    334899999998764

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.59  E-value=2.9e-14  Score=120.85  Aligned_cols=127  Identities=24%  Similarity=0.263  Sum_probs=111.8

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC-------------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI-------------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLD   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~-------------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S   90 (190)
                      .++|||||+|.+..+.++.|++.+++..                   ...+|++||             .+..+++++++
T Consensus       107 ~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn-------------~~~~l~~~L~~  173 (338)
T 3pfi_A          107 GDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATT-------------RAGMLSNPLRD  173 (338)
T ss_dssp             TCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEES-------------CGGGSCHHHHT
T ss_pred             CCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCC-------------CccccCHHHHh
Confidence            5899999999999999999999999753                   135777775             14458899999


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      || ..+.|++++.+++..++...+...++.+++++++.++.. +.|++|.+.++++.+..++...+...|+.+++..++.
T Consensus       174 R~~~~i~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~l~~~-~~G~~r~l~~~l~~~~~~a~~~~~~~i~~~~~~~~~~  252 (338)
T 3pfi_A          174 RFGMQFRLEFYKDSELALILQKAALKLNKTCEEKAALEIAKR-SRSTPRIALRLLKRVRDFADVNDEEIITEKRANEALN  252 (338)
T ss_dssp             TCSEEEECCCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHT-TTTCHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             hcCEEeeCCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH-HCcCHHHHHHHHHHHHHHHHhhcCCccCHHHHHHHHH
Confidence            99 889999999999999999999999999999999999998 7999999999999998777777778899999988875


Q ss_pred             h
Q psy18185        170 L  170 (190)
Q Consensus       170 ~  170 (190)
                      .
T Consensus       253 ~  253 (338)
T 3pfi_A          253 S  253 (338)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=99.57  E-value=7.1e-15  Score=125.11  Aligned_cols=112  Identities=13%  Similarity=0.188  Sum_probs=89.6

Q ss_pred             chhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCC
Q psy18185          5 KSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHG   83 (190)
Q Consensus         5 ~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~   83 (190)
                      +-+++|    +++.. .........++|+||||+|.|+.+++|+|++++|+|+. ++||++|+             .|..
T Consensus        63 ~id~ir----~li~~-~~~~p~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~-------------~~~k  124 (305)
T 2gno_A           63 GIDDIR----TIKDF-LNYSPELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTR-------------RWHY  124 (305)
T ss_dssp             CHHHHH----HHHHH-HTSCCSSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEES-------------CGGG
T ss_pred             CHHHHH----HHHHH-HhhccccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEEC-------------ChHh
Confidence            345566    33333 33333334579999999999999999999999999876 68888884             2678


Q ss_pred             CChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHH
Q psy18185         84 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTP  146 (190)
Q Consensus        84 l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~  146 (190)
                      ++++++||  +++|+|++++++.++|..++   +  ++++++    .. +.||+|.|+++++.
T Consensus       125 l~~tI~SR--~~~f~~l~~~~i~~~L~~~~---~--i~~~~~----~~-~~g~~~~al~~l~~  175 (305)
T 2gno_A          125 LLPTIKSR--VFRVVVNVPKEFRDLVKEKI---G--DLWEEL----PL-LERDFKTALEAYKL  175 (305)
T ss_dssp             SCHHHHTT--SEEEECCCCHHHHHHHHHHH---T--THHHHC----GG-GGTCHHHHHHHHHH
T ss_pred             ChHHHHce--eEeCCCCCHHHHHHHHHHHh---C--CCHHHH----HH-HCCCHHHHHHHHHH
Confidence            99999999  99999999999999999887   3  677776    44 58999999999864

>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=99.56  E-value=9.7e-14  Score=118.66  Aligned_cols=128  Identities=23%  Similarity=0.247  Sum_probs=110.9

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC-------------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI-------------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLD   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~-------------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S   90 (190)
                      .+|+||||+|.+.+..++.|+..+|...                   ...++.+|+             .+..++++++|
T Consensus       103 ~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~at~-------------~~~~Ls~~l~s  169 (334)
T 1in4_A          103 GDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATT-------------RSGLLSSPLRS  169 (334)
T ss_dssp             TCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEES-------------CGGGSCHHHHT
T ss_pred             CCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEEecC-------------CcccCCHHHHH
Confidence            4799999999999989999988887542                   124556563             26788999999


Q ss_pred             hhh-heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         91 RLL-IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        91 R~~-~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ||. .+.|.+++.+++.++|++.++..++.++++++.+|+.. ++||+|.|+++|+.+..+|...|...||.++|++++.
T Consensus       170 R~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~~~~~~~~~ia~~-~~G~~R~a~~ll~~~~~~a~~~~~~~It~~~v~~al~  248 (334)
T 1in4_A          170 RFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKR-SRGTPRIAIRLTKRVRDMLTVVKADRINTDIVLKTME  248 (334)
T ss_dssp             TCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHT-STTCHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHH
T ss_pred             hcCceeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHh-cCCChHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence            995 67999999999999999999889999999999999999 6999999999999998888877888999999999986


Q ss_pred             hc
Q psy18185        170 LF  171 (190)
Q Consensus       170 ~f  171 (190)
                      ..
T Consensus       249 ~~  250 (334)
T 1in4_A          249 VL  250 (334)
T ss_dssp             HH
T ss_pred             Hh
Confidence            53

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.54  E-value=7.3e-14  Score=118.88  Aligned_cols=149  Identities=16%  Similarity=0.193  Sum_probs=115.8

Q ss_pred             CeEEEEecCCCCCHH--HHHHHHHHhhcc------CCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hheeccC
Q psy18185         30 PGVLFIDEVHMLDLE--TFTYLHRALESA------IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LIIRTTP   99 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~--~~~~L~~~~E~~------~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i~~~~   99 (190)
                      +.||||||+|.+...  .+..|..+++..      ....+|++||        . .+ ....+.+.++|||  ..+.|+|
T Consensus       131 ~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~--------~-~~-~~~~l~~~l~~r~~~~~i~l~~  200 (387)
T 2v1u_A          131 IYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITN--------S-LG-FVENLEPRVKSSLGEVELVFPP  200 (387)
T ss_dssp             EEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECS--------C-ST-TSSSSCHHHHTTTTSEECCBCC
T ss_pred             eEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEEC--------C-Cc-hHhhhCHHHHhcCCCeEEeeCC
Confidence            369999999999776  677777766532      2357888885        2 11 1256788999999  6799999


Q ss_pred             CCHHHHHHHHHHHHHh--cCCCCCHHHHHHHHHhcCC---CCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhcc-C
Q psy18185        100 YNQKDMEAIIKLRANT--EGHVLDDEALVTLSEIGTR---STLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFL-D  173 (190)
Q Consensus       100 ls~~ei~~iL~~~~~~--~~~~i~~e~l~~i~~~a~~---gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~-~  173 (190)
                      |+.+++.+++..++..  .+..+++++++.+++.+ .   |++|.++++++.+...+...+...||.+++..++.... +
T Consensus       201 l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~G~~r~~~~~l~~a~~~a~~~~~~~i~~~~v~~a~~~~~~~  279 (387)
T 2v1u_A          201 YTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALA-AREHGDARRALDLLRVAGEIAERRREERVRREHVYSARAEIERD  279 (387)
T ss_dssp             CCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHH-HSSSCCHHHHHHHHHHHHHHHHHTTCSCBCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHH-HHhccCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHhhc
Confidence            9999999999999875  56789999999999994 6   99999999999999888877888999999999885432 2


Q ss_pred             h-HHHHHHhHHhhhhhc
Q psy18185        174 A-KSSARILTENKDKFM  189 (190)
Q Consensus       174 ~-~~~~~~~~~~~~~~~  189 (190)
                      . ..+++.++..++.|+
T Consensus       280 ~~~~~~~~l~~~~~~~l  296 (387)
T 2v1u_A          280 RVSEVVRTLPLHAKLVL  296 (387)
T ss_dssp             HHHHHHHSSCHHHHHHH
T ss_pred             hHHHHHHcCCHHHHHHH
Confidence            1 234566666666654

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.54  E-value=7.5e-15  Score=125.90  Aligned_cols=131  Identities=10%  Similarity=0.067  Sum_probs=98.8

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhcc---C-CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hheeccCCCHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESA---I-APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LIIRTTPYNQK  103 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~---~-~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i~~~~ls~~  103 (190)
                      ..|++|||+|+|.  .|+.|+.+++.+   . ...+|+++|.       ++.  +...+++.++|||  ..+.|+||+.+
T Consensus       133 ~~ii~lDE~d~l~--~q~~L~~l~~~~~~~~s~~~vI~i~n~-------~d~--~~~~L~~~v~SR~~~~~i~F~pYt~~  201 (318)
T 3te6_A          133 KTLILIQNPENLL--SEKILQYFEKWISSKNSKLSIICVGGH-------NVT--IREQINIMPSLKAHFTEIKLNKVDKN  201 (318)
T ss_dssp             EEEEEEECCSSSC--CTHHHHHHHHHHHCSSCCEEEEEECCS-------SCC--CHHHHHTCHHHHTTEEEEECCCCCHH
T ss_pred             ceEEEEecHHHhh--cchHHHHHHhcccccCCcEEEEEEecC-------ccc--chhhcchhhhccCCceEEEeCCCCHH
Confidence            4699999999998  678888887632   1 2467777762       221  1223456789998  57999999999


Q ss_pred             HHHHHHHHHHHhc--C---------------------------------CCCCHHHHHHHHHhc--CCCCHHHHHHHHHH
Q psy18185        104 DMEAIIKLRANTE--G---------------------------------HVLDDEALVTLSEIG--TRSTLRYVVQLLTP  146 (190)
Q Consensus       104 ei~~iL~~~~~~~--~---------------------------------~~i~~e~l~~i~~~a--~~gdlR~ai~lL~~  146 (190)
                      |+.+||+.|++..  +                                 +.+++++++++++.+  ++||+|.|+++|..
T Consensus       202 el~~Il~~Rl~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~ai~~~A~~vA~~~GD~R~Al~ilr~  281 (318)
T 3te6_A          202 ELQQMIITRLKSLLKPFHVKVNDKKEMTIYNNIREGQNQKIPDNVIVINHKINNKITQLIAKNVANVSGSTEKAFKICEA  281 (318)
T ss_dssp             HHHHHHHHHHHHHCCCEEEEECTTCCEEECCCC--------CTTEEEECEECCHHHHHHHHHHHHHHHCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhccccccccccccccccccccccccccccccccccccccCHHHHHHHHHHHHhhCChHHHHHHHHHH
Confidence            9999999998752  2                                 147999999999952  48999999999999


Q ss_pred             HHHHhhh---------cCCCcccHHHHHHHHHhc
Q psy18185        147 AALTAKT---------NGRTAISKQDILEVSTLF  171 (190)
Q Consensus       147 ~~~~a~~---------~g~~~It~~~V~~~~~~f  171 (190)
                      |...|++         .|...||.+.+.+++..+
T Consensus       282 A~~~ae~e~~~k~~~~~~~~~i~~~~~~~~~~~~  315 (318)
T 3te6_A          282 AVEISKKDFVRKGGLQKGKLVVSQEMVPRYFSEA  315 (318)
T ss_dssp             HHHHHHHHHHHHTTEETTEECCSEECCTHHHHHH
T ss_pred             HHHHHHHHHHhccCCCCCcEEeeHHHHHHHHHHH
Confidence            9988865         233457877777776544

>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=99.53  E-value=7.7e-14  Score=111.25  Aligned_cols=129  Identities=15%  Similarity=0.148  Sum_probs=104.2

Q ss_pred             CeEEEEecCCCCCHHH--HHHHHHHhhccC---CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh---hheeccCCC
Q psy18185         30 PGVLFIDEVHMLDLET--FTYLHRALESAI---APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL---LIIRTTPYN  101 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~--~~~L~~~~E~~~---~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~---~~i~~~~ls  101 (190)
                      +++|+|||+|.+....  +..|+.+++...   .+.+|++|+        . .+.....+.+++++||   ..+.|++++
T Consensus       105 ~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~--------~-~~~~~~~~~~~l~~r~~~~~~i~l~~~~  175 (242)
T 3bos_A          105 FDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSAS--------A-SPMEAGFVLPDLVSRMHWGLTYQLQPMM  175 (242)
T ss_dssp             SSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEES--------S-CTTTTTCCCHHHHHHHHHSEEEECCCCC
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcC--------C-CHHHHHHhhhhhhhHhhcCceEEeCCCC
Confidence            4799999999997644  777777766432   234777774        2 1111124458999999   899999999


Q ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        102 QKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       102 ~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      .++..+++..+++..|+.+++++++++++. +.||+|.+.+.|+.+...+...+ ..||.++|++++.
T Consensus       176 ~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~-~~g~~r~l~~~l~~~~~~a~~~~-~~It~~~v~~~l~  241 (242)
T 3bos_A          176 DDEKLAALQRRAAMRGLQLPEDVGRFLLNR-MARDLRTLFDVLDRLDKASMVHQ-RKLTIPFVKEMLR  241 (242)
T ss_dssp             GGGHHHHHHHHHHHTTCCCCHHHHHHHHHH-TTTCHHHHHHHHHHHHHHHHHHT-CCCCHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-ccCCHHHHHHHHHHHHHHHHHhC-CCCcHHHHHHHhh
Confidence            999999999999989999999999999999 69999999999999998876545 4699999998875

>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=99.53  E-value=1.7e-13  Score=114.99  Aligned_cols=127  Identities=25%  Similarity=0.323  Sum_probs=110.2

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC-------------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI-------------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLD   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~-------------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S   90 (190)
                      .++|||||+|.++.+.++.|++++++..                   ...+|++||             .+..+.+++++
T Consensus        91 ~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~-------------~~~~~~~~l~~  157 (324)
T 1hqc_A           91 GDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATT-------------RPGLITAPLLS  157 (324)
T ss_dssp             TCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEES-------------CCSSCSCSTTT
T ss_pred             CCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCC-------------CcccCCHHHHh
Confidence            5899999999999999999999999752                   246777775             24567788999


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      || .++.|++++.+|+..++...+...++.+++++++.++.. +.|++|.+.++++.+...+...+...|+.+++..+..
T Consensus       158 R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~-~~G~~r~l~~~l~~~~~~a~~~~~~~i~~~~~~~~~~  236 (324)
T 1hqc_A          158 RFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRR-SRGTMRVAKRLFRRVRDFAQVAGEEVITRERALEALA  236 (324)
T ss_dssp             TCSCEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHH-SCSCHHHHHHHHHHHTTTSTTTSCSCCCHHHHHHHHH
T ss_pred             cccEEEecCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH-ccCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence            99 689999999999999999999888999999999999999 6999999999999988777666677899999988775


Q ss_pred             h
Q psy18185        170 L  170 (190)
Q Consensus       170 ~  170 (190)
                      .
T Consensus       237 ~  237 (324)
T 1hqc_A          237 A  237 (324)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.53  E-value=7.3e-13  Score=113.11  Aligned_cols=150  Identities=19%  Similarity=0.274  Sum_probs=118.6

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhcc-----CCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh--heeccCCCH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESA-----IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL--IIRTTPYNQ  102 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~-----~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~--~i~~~~ls~  102 (190)
                      +.||+|||+|.++.+.++.|.++++..     ....+|++||.        .+  .+..+.+.++|||.  .+.|+|++.
T Consensus       126 ~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~--------~~--~~~~l~~~~~~r~~~~~i~~~pl~~  195 (389)
T 1fnn_A          126 YMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHN--------DA--VLNNLDPSTRGIMGKYVIRFSPYTK  195 (389)
T ss_dssp             CEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESS--------TH--HHHTSCHHHHHHHTTCEEECCCCBH
T ss_pred             eEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECC--------ch--HHHHhCHHhhhcCCCceEEeCCCCH
Confidence            469999999999999999999999863     24567777751        00  12457788999986  599999999


Q ss_pred             HHHHHHHHHHHHh--cCCCCCHHHHHHHHHhcC--------CCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhcc
Q psy18185        103 KDMEAIIKLRANT--EGHVLDDEALVTLSEIGT--------RSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFL  172 (190)
Q Consensus       103 ~ei~~iL~~~~~~--~~~~i~~e~l~~i~~~a~--------~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~  172 (190)
                      +++.+++..++..  ....+++++++.+++.+.        .|++|+++++++.+...+..++...||.++|..+.....
T Consensus       196 ~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~~~a~~~~~~~i~~~~v~~~~~~~~  275 (389)
T 1fnn_A          196 DQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSKEVL  275 (389)
T ss_dssp             HHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHh
Confidence            9999999999875  234799999999999932        799999999999999888877888999999998875432


Q ss_pred             -C-hHHHHHHhHHhhhhhc
Q psy18185        173 -D-AKSSARILTENKDKFM  189 (190)
Q Consensus       173 -~-~~~~~~~~~~~~~~~~  189 (190)
                       + ....++.++.+++.++
T Consensus       276 ~~~~~~~l~~l~~~~~~~L  294 (389)
T 1fnn_A          276 FGISEEVLIGLPLHEKLFL  294 (389)
T ss_dssp             CCCCHHHHHHSCHHHHHHH
T ss_pred             hhhHHHHHHcCCHHHHHHH
Confidence             2 2344666776666654

>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=99.48  E-value=2.7e-13  Score=115.95  Aligned_cols=146  Identities=21%  Similarity=0.197  Sum_probs=110.9

Q ss_pred             eEEEEecCCCCCHH-HHHH-HHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhh-hhheeccCCCHHHHHH
Q psy18185         31 GVLFIDEVHMLDLE-TFTY-LHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR-LLIIRTTPYNQKDMEA  107 (190)
Q Consensus        31 ~Il~IDEi~~L~~~-~~~~-L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR-~~~i~~~~ls~~ei~~  107 (190)
                      .||||||+|.+... .++. +..+++......+|++||        . .+ ....+.+.++|| |..+.|+||+.+++.+
T Consensus       135 ~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~--------~-~~-~~~~l~~~l~sr~~~~i~l~~l~~~~~~~  204 (384)
T 2qby_B          135 AIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISN--------D-IN-VRDYMEPRVLSSLGPSVIFKPYDAEQLKF  204 (384)
T ss_dssp             EEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECS--------S-TT-TTTTSCHHHHHTCCCEEEECCCCHHHHHH
T ss_pred             CEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEEC--------C-Cc-hHhhhCHHHHhcCCCeEEECCCCHHHHHH
Confidence            39999999999754 2555 555555543466777775        1 11 125678899999 4789999999999999


Q ss_pred             HHHHHHHh--cCCCCCHHHHHHHHHhcCC---CCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhcc-C-hHHHHHH
Q psy18185        108 IIKLRANT--EGHVLDDEALVTLSEIGTR---STLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFL-D-AKSSARI  180 (190)
Q Consensus       108 iL~~~~~~--~~~~i~~e~l~~i~~~a~~---gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~-~-~~~~~~~  180 (190)
                      ++..++..  .+..+++++++.+++.+ .   ||+|.|+++|+.+...|.  +...||.++|..++.... + ...+++.
T Consensus       205 il~~~~~~~~~~~~~~~~~~~~i~~~~-~~~~G~~r~a~~~l~~a~~~a~--~~~~i~~~~v~~~~~~~~~~~~~~~~~~  281 (384)
T 2qby_B          205 ILSKYAEYGLIKGTYDDEILSYIAAIS-AKEHGDARKAVNLLFRAAQLAS--GGGIIRKEHVDKAIVDYEQERLIEAVKA  281 (384)
T ss_dssp             HHHHHHHHTSCTTSCCSHHHHHHHHHH-HTTCCCHHHHHHHHHHHHHHTT--SSSCCCHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHhhcccCCcCHHHHHHHHHHH-HhccCCHHHHHHHHHHHHHHhc--CCCccCHHHHHHHHHHHhcchHHHHHHc
Confidence            99999875  45689999999999994 6   999999999999998876  667899999999885432 1 2234566


Q ss_pred             hHHhhhhhc
Q psy18185        181 LTENKDKFM  189 (190)
Q Consensus       181 ~~~~~~~~~  189 (190)
                      ++..++.+|
T Consensus       282 l~~~~~~~l  290 (384)
T 2qby_B          282 LPFHYKLAL  290 (384)
T ss_dssp             SCHHHHHHH
T ss_pred             CCHHHHHHH
Confidence            666666654

>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=99.46  E-value=6.5e-13  Score=112.39  Aligned_cols=129  Identities=22%  Similarity=0.253  Sum_probs=101.9

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC--------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhh-
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI--------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLI-   94 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~--------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~-   94 (190)
                      .+++||||+|.++.+.++.|++++|++.              ...+|+++|           + ....+++++++||.. 
T Consensus       145 ~~vl~iDEi~~l~~~~~~~Ll~~le~~~~~~~~~g~~~~~~~~~~li~~~n-----------~-~~~~l~~~L~~R~~~~  212 (350)
T 1g8p_A          145 RGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGN-----------P-EEGDLRPQLLDRFGLS  212 (350)
T ss_dssp             TEEEEETTGGGSCHHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEEC-----------S-CSCCCCHHHHTTCSEE
T ss_pred             CCEEEEeChhhCCHHHHHHHHHHHhcCceEEEecceEEeeCCceEEEEEeC-----------C-CCCCCCHHHHhhcceE
Confidence            5899999999999999999999999742              234555554           1 134788999999965 


Q ss_pred             eeccCCC-HHHHHHHHHHH-----------------------------HHhcCCCCCHHHHHHHHHhcCCC----CHHHH
Q psy18185         95 IRTTPYN-QKDMEAIIKLR-----------------------------ANTEGHVLDDEALVTLSEIGTRS----TLRYV  140 (190)
Q Consensus        95 i~~~~ls-~~ei~~iL~~~-----------------------------~~~~~~~i~~e~l~~i~~~a~~g----dlR~a  140 (190)
                      +.+++++ .++..+++..+                             ....++.++++++++|++++ .+    ++|.+
T Consensus       213 ~~l~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ls~~~~~~l~~~~-~~~~~~~~R~~  291 (350)
T 1g8p_A          213 VEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQILEARERLPKVEAPNTALYDCAALC-IALGSDGLRGE  291 (350)
T ss_dssp             EECCCCCSHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHGGGCBCCHHHHHHHHHHH-HHSSSCSHHHH
T ss_pred             EEcCCCCcHHHHHHHHHHHHhcccCchhhccccccchHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHH-HHhCCCCccHH
Confidence            8999995 44444666542                             23356789999999999994 43    79999


Q ss_pred             HHHHHHHHHHhhhcCCCcccHHHHHHHHHhc
Q psy18185        141 VQLLTPAALTAKTNGRTAISKQDILEVSTLF  171 (190)
Q Consensus       141 i~lL~~~~~~a~~~g~~~It~~~V~~~~~~f  171 (190)
                      +++++.+...|...|+..||.++|.+++...
T Consensus       292 ~~ll~~a~~~A~~~~~~~v~~~~v~~a~~~~  322 (350)
T 1g8p_A          292 LTLLRSARALAALEGATAVGRDHLKRVATMA  322 (350)
T ss_dssp             HHHHHHHHHHHHHTTCSBCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCcCCHHHHHHHHHHH
Confidence            9999999988887888889999999988754

>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=99.43  E-value=1.1e-12  Score=116.42  Aligned_cols=132  Identities=17%  Similarity=0.254  Sum_probs=106.7

Q ss_pred             CeEEEEecCCCCCH--HHHHHHHHHhhcc--CCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh---hheeccCCCH
Q psy18185         30 PGVLFIDEVHMLDL--ETFTYLHRALESA--IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL---LIIRTTPYNQ  102 (190)
Q Consensus        30 ~~Il~IDEi~~L~~--~~~~~L~~~~E~~--~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~---~~i~~~~ls~  102 (190)
                      ++||||||+|.+..  ..+..|+.+++..  .+..+|++|+.         .+.....+.+.++|||   .++.+++++.
T Consensus       195 ~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~---------~~~~l~~l~~~L~sR~~~g~~i~l~~p~~  265 (440)
T 2z4s_A          195 VDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDR---------EPQKLSEFQDRLVSRFQMGLVAKLEPPDE  265 (440)
T ss_dssp             CSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESS---------CGGGCSSCCHHHHHHHHSSBCCBCCCCCH
T ss_pred             CCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECC---------CHHHHHHHHHHHHhhccCCeEEEeCCCCH
Confidence            57999999999975  6777777776542  12456666641         1111223778999999   6899999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhcc
Q psy18185        103 KDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFL  172 (190)
Q Consensus       103 ~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~  172 (190)
                      ++..++|...+...|+.++++++++|+.. +.||+|.+.++|+.+..+|...|. .||.+++++++.-..
T Consensus       266 e~r~~iL~~~~~~~~~~i~~e~l~~la~~-~~gn~R~l~~~L~~~~~~a~~~~~-~It~~~~~~~l~~~~  333 (440)
T 2z4s_A          266 ETRKSIARKMLEIEHGELPEEVLNFVAEN-VDDNLRRLRGAIIKLLVYKETTGK-EVDLKEAILLLKDFI  333 (440)
T ss_dssp             HHHHHHHHHHHHHHTCCCCTTHHHHHHHH-CCSCHHHHHHHHHHHHHHHHHSSS-CCCHHHHHHHTSTTT
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHh-cCCCHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHh
Confidence            99999999999989999999999999999 699999999999999988876554 699999999886544

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.41  E-value=4.1e-13  Score=112.09  Aligned_cols=128  Identities=20%  Similarity=0.226  Sum_probs=98.6

Q ss_pred             CeEEEEecCCCC---------CHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-hheecc
Q psy18185         30 PGVLFIDEVHML---------DLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LIIRTT   98 (190)
Q Consensus        30 ~~Il~IDEi~~L---------~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~~i~~~   98 (190)
                      .+||||||+|.|         +.+.++.|++.++++.. ..+|++||        .+.......+.|+++||| ..+.|+
T Consensus       131 ~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~--------~~~~~~~~~~~~~l~~R~~~~i~~~  202 (309)
T 3syl_A          131 GGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGY--------ADRMENFFQSNPGFRSRIAHHIEFP  202 (309)
T ss_dssp             TSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEEEC--------HHHHHHHHHHSTTHHHHEEEEEEEC
T ss_pred             CCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEeCC--------hHHHHHHHhhCHHHHHhCCeEEEcC
Confidence            479999999988         78999999999998765 56777774        110001112357899999 899999


Q ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh-------cCCCCHHHHHHHHHHHHHHhhh----cCCCcccHHHHH
Q psy18185         99 PYNQKDMEAIIKLRANTEGHVLDDEALVTLSEI-------GTRSTLRYVVQLLTPAALTAKT----NGRTAISKQDIL  165 (190)
Q Consensus        99 ~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~-------a~~gdlR~ai~lL~~~~~~a~~----~g~~~It~~~V~  165 (190)
                      +++.+++..++...+.+.++.+++++++.++.+       ...|++|.+.++++.+...+..    .+...++.+++.
T Consensus       203 ~~~~~~~~~il~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~gn~r~l~~~l~~a~~~~~~r~~~~~~~~~~~~~l~  280 (309)
T 3syl_A          203 DYSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGLRRNQPHFANARSIRNALDRARLRQANRLFTASSGPLDARALS  280 (309)
T ss_dssp             CCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHTTSSSCCHHHHHHHHHHHHHHHHHHHHHHC---CEEHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhccCCCCCcHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHh
Confidence            999999999999999999999999999999997       3458999999999988853221    133456665554

>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=99.40  E-value=7.9e-13  Score=119.36  Aligned_cols=122  Identities=20%  Similarity=0.198  Sum_probs=98.9

Q ss_pred             CCeEEEEecCCCCCHH---HHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHH
Q psy18185         29 VPGVLFIDEVHMLDLE---TFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDM  105 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~---~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei  105 (190)
                      .+.||||||+|.|..+   ..+.|+++++....| +|+++|.       +.    +. ..+++++||..+.|++++.+++
T Consensus       148 ~~~vliIDEid~l~~~~~~~l~~L~~~l~~~~~~-iIli~~~-------~~----~~-~l~~l~~r~~~i~f~~~~~~~~  214 (516)
T 1sxj_A          148 KHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTP-LILICNE-------RN----LP-KMRPFDRVCLDIQFRRPDANSI  214 (516)
T ss_dssp             TSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSC-EEEEESC-------TT----SS-TTGGGTTTSEEEECCCCCHHHH
T ss_pred             CCeEEEEECCCccchhhHHHHHHHHHHHHhcCCC-EEEEEcC-------CC----Cc-cchhhHhceEEEEeCCCCHHHH
Confidence            3579999999999764   448899999986555 5555541       21    22 3356999999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        106 EAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       106 ~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      .++|..++..+|+.++++++..|++. +.||+|.++++|+.++.     +...||.++|++++.
T Consensus       215 ~~~L~~i~~~~~~~i~~~~l~~la~~-s~GdiR~~i~~L~~~~~-----~~~~It~~~v~~~~~  272 (516)
T 1sxj_A          215 KSRLMTIAIREKFKLDPNVIDRLIQT-TRGDIRQVINLLSTIST-----TTKTINHENINEISK  272 (516)
T ss_dssp             HHHHHHHHHHHTCCCCTTHHHHHHHH-TTTCHHHHHHHHTHHHH-----HSSCCCTTHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHH-cCCcHHHHHHHHHHHHh-----cCCCCchHHHHHHHH
Confidence            99999999999999999999999999 69999999999987753     334688888887764

>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=99.39  E-value=2.5e-12  Score=109.12  Aligned_cols=131  Identities=19%  Similarity=0.175  Sum_probs=103.7

Q ss_pred             CeEEEEecCCCCC----HHHHHHHHHHhhc--cCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hheeccCCC
Q psy18185         30 PGVLFIDEVHMLD----LETFTYLHRALES--AIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LIIRTTPYN  101 (190)
Q Consensus        30 ~~Il~IDEi~~L~----~~~~~~L~~~~E~--~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i~~~~ls  101 (190)
                      +.||+|||+|.+.    .+.+..|.+.++.  .....+|++|+.        .+  ....+.+.++|||  ..+.|+|++
T Consensus       129 ~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~--------~~--~~~~~~~~~~~r~~~~~i~l~~l~  198 (386)
T 2qby_A          129 QVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITND--------VK--FVDLLDPRVKSSLSEEEIIFPPYN  198 (386)
T ss_dssp             CEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESC--------GG--GGGGCTTHHHHTTTTEEEEECCCC
T ss_pred             eEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECC--------CC--hHhhhCHHHhccCCCeeEEeCCCC
Confidence            5799999999995    4677777777764  223567777751        10  1245677899999  679999999


Q ss_pred             HHHHHHHHHHHHHh--cCCCCCHHHHHHHHHhcCC---CCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhc
Q psy18185        102 QKDMEAIIKLRANT--EGHVLDDEALVTLSEIGTR---STLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLF  171 (190)
Q Consensus       102 ~~ei~~iL~~~~~~--~~~~i~~e~l~~i~~~a~~---gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f  171 (190)
                      .+++.+++..++..  .+..++++++++++.. +.   |++|.++++++.+...+...+...||.+++..++...
T Consensus       199 ~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~G~~r~~~~ll~~a~~~a~~~~~~~i~~~~v~~a~~~~  272 (386)
T 2qby_A          199 AEELEDILTKRAQMAFKPGVLPDNVIKLCAAL-AAREHGDARRALDLLRVSGEIAERMKDTKVKEEYVYMAKEEI  272 (386)
T ss_dssp             HHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHH-HHHTTCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhccCCCCCHHHHHHHHHH-HHHhcCCHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHHH
Confidence            99999999998764  2357999999999999 46   9999999999999988887788899999999887543

>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=99.37  E-value=2.4e-12  Score=106.81  Aligned_cols=132  Identities=20%  Similarity=0.235  Sum_probs=99.2

Q ss_pred             CeEEEEecCCCCCHHH------------HHHHHHHhhcc-----------CCCEEEEEecCCcccccCCCCCCCCCCCCh
Q psy18185         30 PGVLFIDEVHMLDLET------------FTYLHRALESA-----------IAPIVIFATNRGRCLVRGTDDIISPHGIPL   86 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~------------~~~L~~~~E~~-----------~~~~iIlatn~~~~~~~~t~~~~~~~~l~~   86 (190)
                      ++||||||+|.+..+.            ++.|++++|..           ....+|++++.         +...+..+++
T Consensus       117 ~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~i~~~~~---------~~~~~~~l~~  187 (310)
T 1ofh_A          117 NGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAF---------QVARPSDLIP  187 (310)
T ss_dssp             HCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECC---------SSSCGGGSCH
T ss_pred             CCEEEEEChhhcCccccccccchhHHHHHHHHHHHhcCCeEecccccccCCcEEEEEcCCc---------ccCCcccCCH
Confidence            3799999999997654            89999999974           13566666531         1113667889


Q ss_pred             hHhhhhh-heeccCCCHHHHHHHHHH-----------HHHhcC--CCCCHHHHHHHHHhcC-------CCCHHHHHHHHH
Q psy18185         87 DLLDRLL-IIRTTPYNQKDMEAIIKL-----------RANTEG--HVLDDEALVTLSEIGT-------RSTLRYVVQLLT  145 (190)
Q Consensus        87 ~l~SR~~-~i~~~~ls~~ei~~iL~~-----------~~~~~~--~~i~~e~l~~i~~~a~-------~gdlR~ai~lL~  145 (190)
                      +++|||. .+.|++++.+++.++++.           .+...+  +.++++++++|++.+.       .||+|.+.++++
T Consensus       188 ~l~~R~~~~i~~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~~~g~~R~l~~~l~  267 (310)
T 1ofh_A          188 ELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVME  267 (310)
T ss_dssp             HHHHTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHHTTCEEEECHHHHHHHHHHHHHHHHHSCCCTTHHHHHHHH
T ss_pred             HHHhhCCceEEcCCcCHHHHHHHHHhhHHHHHHHHHHHHHhcCCeeccCHHHHHHHHHHhhhhcccccccCcHHHHHHHH
Confidence            9999995 699999999999999983           223344  4799999999999942       699999999999


Q ss_pred             HHHHH-----hhhcCCC-cccHHHHHHHHHh
Q psy18185        146 PAALT-----AKTNGRT-AISKQDILEVSTL  170 (190)
Q Consensus       146 ~~~~~-----a~~~g~~-~It~~~V~~~~~~  170 (190)
                      .+...     +...|.. .||.++|++++.-
T Consensus       268 ~~~~~~~~~~~~~~~~~~~i~~~~v~~~l~~  298 (310)
T 1ofh_A          268 RLMDKISFSASDMNGQTVNIDAAYVADALGE  298 (310)
T ss_dssp             HHSHHHHHHGGGCTTCEEEECHHHHHHHTCS
T ss_pred             HHHHhhhcCCccccCCEEEEeeHHHHHHHHh
Confidence            87632     2222332 4999999998753

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.36  E-value=2.5e-11  Score=102.67  Aligned_cols=131  Identities=18%  Similarity=0.216  Sum_probs=104.3

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHhhcc-----------CCCEEEEEecCCcccccCCCCCCC---CCCCChhHhhhhh-he
Q psy18185         31 GVLFIDEVHMLDLETFTYLHRALESA-----------IAPIVIFATNRGRCLVRGTDDIIS---PHGIPLDLLDRLL-II   95 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~~~~L~~~~E~~-----------~~~~iIlatn~~~~~~~~t~~~~~---~~~l~~~l~SR~~-~i   95 (190)
                      +|+||||+|.++...++.|+..+|+.           +.+.++++|+          |+..   .+.++++++|||. .+
T Consensus       111 ~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~----------np~~~~~~~~l~~~l~~Rf~~~i  180 (331)
T 2r44_A          111 NFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQ----------NPVEQEGTYPLPEAQVDRFMMKI  180 (331)
T ss_dssp             SEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEE----------CTTCCSCCCCCCHHHHTTSSEEE
T ss_pred             cEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEec----------CCCcccCcccCCHHHHhheeEEE
Confidence            69999999999999999999999964           1223344442          2111   1238899999997 49


Q ss_pred             eccCCCHHHHHHHHHHHHHh----------------------cCCCCCHHHHHHHHHhc----CCC--------------
Q psy18185         96 RTTPYNQKDMEAIIKLRANT----------------------EGHVLDDEALVTLSEIG----TRS--------------  135 (190)
Q Consensus        96 ~~~~ls~~ei~~iL~~~~~~----------------------~~~~i~~e~l~~i~~~a----~~g--------------  135 (190)
                      .+++++.++..++|+.++..                      .++.+++++++++++.+    ..+              
T Consensus       181 ~i~~p~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~v~~~~~~~~~i~~~~~~~r~~~~~~~~~~~~~~~~~  260 (331)
T 2r44_A          181 HLTYLDKESELEVMRRVSNMNFNYQVQKIVSKNDVLEIRNEINKVTISESLEKYIIELVFATRFPAEYGLEAEASYILYG  260 (331)
T ss_dssp             ECCCCCHHHHHHHHHHHHCTTCCCCCCCCSCHHHHHHHHHHHHTCBCCHHHHHHHHHHHHHHHSGGGGTCHHHHHHEEEC
T ss_pred             EcCCCCHHHHHHHHHhccccCcchhccccCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhccccccccccccccccC
Confidence            99999999999999988754                      27789999999998863    122              


Q ss_pred             -CHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhc
Q psy18185        136 -TLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLF  171 (190)
Q Consensus       136 -dlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f  171 (190)
                       ++|.++.++..+...|...|+..||.++|.+++..+
T Consensus       261 ~s~R~~~~ll~~a~a~A~l~g~~~v~~~dv~~~~~~v  297 (331)
T 2r44_A          261 ASTRAAINLNRVAKAMAFFNNRDYVLPEDIKEVAYDI  297 (331)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHHHHH
T ss_pred             cChhHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence             799999999999888888899999999999988654

>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=99.33  E-value=1.1e-11  Score=104.76  Aligned_cols=132  Identities=18%  Similarity=0.222  Sum_probs=100.3

Q ss_pred             CeEEEEecCCCCCH--HHHHHHHHHhhcc--CCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh---hheeccCCCH
Q psy18185         30 PGVLFIDEVHMLDL--ETFTYLHRALESA--IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL---LIIRTTPYNQ  102 (190)
Q Consensus        30 ~~Il~IDEi~~L~~--~~~~~L~~~~E~~--~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~---~~i~~~~ls~  102 (190)
                      .++|||||+|.+..  ..+..++.+++..  .+..+|++++         .++.....+.++++|||   .++.|+| +.
T Consensus        99 ~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~---------~~~~~l~~l~~~L~sR~~~~~~i~l~~-~~  168 (324)
T 1l8q_A           99 VDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASD---------RHPQKLDGVSDRLVSRFEGGILVEIEL-DN  168 (324)
T ss_dssp             CSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEES---------SCGGGCTTSCHHHHHHHHTSEEEECCC-CH
T ss_pred             CCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEec---------CChHHHHHhhhHhhhcccCceEEEeCC-CH
Confidence            47999999999975  5666666665431  1244666663         11111125789999999   7899999 99


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhh----hcCCCcc-cHHHHHHHHHhccC
Q psy18185        103 KDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAK----TNGRTAI-SKQDILEVSTLFLD  173 (190)
Q Consensus       103 ~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~----~~g~~~I-t~~~V~~~~~~f~~  173 (190)
                      ++...++...+...++.++++++++|++. + ||+|.+.+.|+.+.....    ..+...| |.++|.+++..+++
T Consensus       169 ~e~~~il~~~~~~~~~~l~~~~l~~l~~~-~-g~~r~l~~~l~~~~~~~~~~l~~~~~~~i~t~~~i~~~~~~~~~  242 (324)
T 1l8q_A          169 KTRFKIIKEKLKEFNLELRKEVIDYLLEN-T-KNVREIEGKIKLIKLKGFEGLERKERKERDKLMQIVEFVANYYA  242 (324)
T ss_dssp             HHHHHHHHHHHHHTTCCCCHHHHHHHHHH-C-SSHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHh-C-CCHHHHHHHHHHHHHcCHHHhccccccCCCCHHHHHHHHHHHhC
Confidence            99999999999999999999999999999 6 999999999998876510    0123468 99999998866554

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.16  E-value=5e-10  Score=97.21  Aligned_cols=129  Identities=22%  Similarity=0.237  Sum_probs=99.0

Q ss_pred             CeEEEEecCCCC-----------CHHHHHHHHHHhhccCC-----CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh
Q psy18185         30 PGVLFIDEVHML-----------DLETFTYLHRALESAIA-----PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL   93 (190)
Q Consensus        30 ~~Il~IDEi~~L-----------~~~~~~~L~~~~E~~~~-----~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~   93 (190)
                      ++||||||+|.|           ....++.|+..++....     +.+|++||             .+..+++++++||.
T Consensus       208 ~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn-------------~~~~l~~~l~~R~~  274 (389)
T 3vfd_A          208 PSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATN-------------RPQELDEAVLRRFI  274 (389)
T ss_dssp             SEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----CEEEEEEES-------------CGGGCCHHHHTTCC
T ss_pred             CeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCCCEEEEEecC-------------CchhcCHHHHcCcc
Confidence            489999999988           44677788888874321     45566664             36788999999995


Q ss_pred             -heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHH-HHHHHHhhhc------------CCCcc
Q psy18185         94 -IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLL-TPAALTAKTN------------GRTAI  159 (190)
Q Consensus        94 -~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL-~~~~~~a~~~------------g~~~I  159 (190)
                       .+.|++++.++...++...+...+..++++.+..|+.. +.|..+.+++.| ..+...+.++            +...|
T Consensus       275 ~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~~~~la~~-~~g~~~~~l~~L~~~a~~~~~rel~~~~~~~~~~~~~~~i  353 (389)
T 3vfd_A          275 KRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARM-TDGYSGSDLTALAKDAALGPIRELKPEQVKNMSASEMRNI  353 (389)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHTTSCCCSCHHHHHHHHHH-TTTCCHHHHHHHHHHHTTHHHHTSCCC---CCSSSCCCCC
T ss_pred             eEEEcCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH-cCCCCHHHHHHHHHHHHHHHHHhhhhhhhhccchhhcCCc
Confidence             78999999999999999999998999999999999999 588776666444 4444444433            33579


Q ss_pred             cHHHHHHHHHhcc
Q psy18185        160 SKQDILEVSTLFL  172 (190)
Q Consensus       160 t~~~V~~~~~~f~  172 (190)
                      +.+++..++....
T Consensus       354 ~~~d~~~al~~~~  366 (389)
T 3vfd_A          354 RLSDFTESLKKIK  366 (389)
T ss_dssp             CHHHHHHHHHHCC
T ss_pred             CHHHHHHHHHHcC
Confidence            9999998886543

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.12  E-value=8.9e-11  Score=97.77  Aligned_cols=120  Identities=18%  Similarity=0.241  Sum_probs=89.2

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccc---cCCCC-CCC---------CCCC
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLV---RGTDD-IIS---------PHGI   84 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~---~~t~~-~~~---------~~~l   84 (190)
                      .+|+||||+|.++.+.++.|++++|++.            .+.+|++||.....+   .+... +..         ...+
T Consensus       120 ~~vl~lDEi~~l~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~iiI~ttn~~~~~i~~~~~~~~~~~~l~~~~~~~~~~~~  199 (311)
T 4fcw_A          120 YSVILFDAIEKAHPDVFNILLQMLDDGRLTDSHGRTVDFRNTVIIMTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHF  199 (311)
T ss_dssp             SEEEEEETGGGSCHHHHHHHHHHHHHSEEECTTSCEEECTTEEEEEEESTTHHHHHTTTTSCCCSSTHHHHTHHHHHHHS
T ss_pred             CeEEEEeChhhcCHHHHHHHHHHHhcCEEEcCCCCEEECCCcEEEEecccCHHHHHhhhcccccHHHHHHHHHHHHHHhC
Confidence            4899999999999999999999999764            245788886310000   00000 000         2246


Q ss_pred             ChhHhhhh-hheeccCCCHHHHHHHHHHHHHh---------cCCCCCHHHHHHHHHhcC--CCCHHHHHHHHHHHHH
Q psy18185         85 PLDLLDRL-LIIRTTPYNQKDMEAIIKLRANT---------EGHVLDDEALVTLSEIGT--RSTLRYVVQLLTPAAL  149 (190)
Q Consensus        85 ~~~l~SR~-~~i~~~~ls~~ei~~iL~~~~~~---------~~~~i~~e~l~~i~~~a~--~gdlR~ai~lL~~~~~  149 (190)
                      +++|++|| .++.|.|++.+++..++...+.+         ..+.++++++++|++++.  .|++|..-+.++.+..
T Consensus       200 ~~~l~~R~~~~~~~~p~~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~gn~R~L~~~i~~~~~  276 (311)
T 4fcw_A          200 RPEFLNRLDEIVVFRPLTKEQIRQIVEIQMSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELE  276 (311)
T ss_dssp             CHHHHTTCSEEEECCCCCHHHHHHHHHHHTHHHHHHHHTTTCEEEECHHHHHHHHHHSCBTTTBTTTHHHHHHHHTH
T ss_pred             CHHHHhcCCeEEEeCCCCHHHHHHHHHHHHHHHHHHHHhCCcEEEeCHHHHHHHHHhCCCccCCchhHHHHHHHHHH
Confidence            78999999 78899999999999999886543         245799999999999865  5899998888887654

>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=99.07  E-value=7.1e-10  Score=90.86  Aligned_cols=126  Identities=19%  Similarity=0.241  Sum_probs=91.4

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhcc------------CCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh--he
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESA------------IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL--II   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~------------~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~--~i   95 (190)
                      .++|||||+|.++.+.|..|++++++.            ..+.+|++||.....      ......+.+++.+|+.  .+
T Consensus       101 ~~~l~lDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~~iI~atn~~~~~------~~~~~~~~~~L~~Rl~~~~i  174 (265)
T 2bjv_A          101 GGTLFLDELATAPMMVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPA------MVNEGTFRADLLDALAFDVV  174 (265)
T ss_dssp             TSEEEEESGGGSCHHHHHHHHHHHHHCEECCCCC--CEECCCEEEEEESSCHHH------HHHHTSSCHHHHHHHCSEEE
T ss_pred             CcEEEEechHhcCHHHHHHHHHHHHhCCeecCCCcccccCCeEEEEecCcCHHH------HHHcCCccHHHHHhhcCcEE
Confidence            479999999999999999999999964            235788888620000      0001246789999984  57


Q ss_pred             eccCCCH--HHHHHHHH----HHHHhcCC----CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHH
Q psy18185         96 RTTPYNQ--KDMEAIIK----LRANTEGH----VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDI  164 (190)
Q Consensus        96 ~~~~ls~--~ei~~iL~----~~~~~~~~----~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V  164 (190)
                      .++|+++  +++..++.    ..+...+.    .+++++++++..+.+.|++|...++++.+...+.   ...||.+++
T Consensus       175 ~lp~L~~R~~di~~l~~~~l~~~~~~~~~~~~~~~~~~a~~~L~~~~~~gn~reL~~~l~~~~~~~~---~~~i~~~~l  250 (265)
T 2bjv_A          175 QLPPLRERESDIMLMAEYFAIQMCREIKLPLFPGFTERARETLLNYRWPGNIRELKNVVERSVYRHG---TSDYPLDDI  250 (265)
T ss_dssp             ECCCGGGCHHHHHHHHHHHHHHHHHHTTCSSCCCBCHHHHHHHHHSCCTTHHHHHHHHHHHHHHHHC---CSSSCBCCC
T ss_pred             eCCChhhhhHHHHHHHHHHHHHHHHHhCCCcccCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCC---CCcCcHHHc
Confidence            8999987  67766544    33444554    6899999999988668999999999999886653   235665544

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.07  E-value=1.3e-09  Score=100.17  Aligned_cols=130  Identities=21%  Similarity=0.286  Sum_probs=101.4

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC----------------------CCEEEEEecCCcccccCCCCCCCCCCCChh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI----------------------APIVIFATNRGRCLVRGTDDIISPHGIPLD   87 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~----------------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~   87 (190)
                      .++|||||+|.|++..|+.|++++|+..                      .+.+|++||.         +  ....++++
T Consensus       202 ~gvL~LDEi~~l~~~~q~~Ll~~Le~~~~~~~g~~~~~~~~~l~~~~~p~~~~vI~atn~---------~--~~~~l~~~  270 (604)
T 3k1j_A          202 KGVLFIDEIATLSLKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVLVAAGNL---------D--TVDKMHPA  270 (604)
T ss_dssp             TSEEEETTGGGSCHHHHHHHHHHHHHSEECCBCSCTTSGGGGCBCSCEECCCEEEEEECH---------H--HHHHSCHH
T ss_pred             CCEEEEechhhCCHHHHHHHHHHHHcCcEEecccccccccccCCCCccceeEEEEEecCH---------H--HHhhcCHH
Confidence            3699999999999999999999999431                      1458888852         1  12468899


Q ss_pred             Hhhhhh----heecc---CCCHHHHHHHHHHHHHhc-----CCCCCHHHHHHHHHhcC--CC-------CHHHHHHHHHH
Q psy18185         88 LLDRLL----IIRTT---PYNQKDMEAIIKLRANTE-----GHVLDDEALVTLSEIGT--RS-------TLRYVVQLLTP  146 (190)
Q Consensus        88 l~SR~~----~i~~~---~ls~~ei~~iL~~~~~~~-----~~~i~~e~l~~i~~~a~--~g-------dlR~ai~lL~~  146 (190)
                      |++||.    .+.|+   +.+.+.+..++...+...     ...++++++..|++.+.  .|       ++|.+.+++..
T Consensus       271 l~~R~~v~~i~i~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ls~eAl~~Li~~~~r~~g~r~~l~~~~R~l~~llr~  350 (604)
T 3k1j_A          271 LRSRIRGYGYEVYMRTTMPDTIENRRKLVQFVAQEVKRDGKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDLGGIVRA  350 (604)
T ss_dssp             HHHHHHHHSEEEECCSEEECCHHHHHHHHHHHHHHHHHHCSSCCBBHHHHHHHHHHHHHTTCSTTEEECCHHHHHHHHHH
T ss_pred             HHHHhhccceEeeccccccCCHHHHHHHHHHHHHHHhhccCcccCCHHHHHHHHHHHhhhhccccccccCHHHHHHHHHH
Confidence            999995    34443   446667777777665432     25799999999999742  44       59999999999


Q ss_pred             HHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        147 AALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       147 ~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      +..+|...++..||.++|.+++..
T Consensus       351 A~~~A~~~~~~~I~~edv~~A~~~  374 (604)
T 3k1j_A          351 AGDIAVKKGKKYVEREDVIEAVKM  374 (604)
T ss_dssp             HHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             HHHHHHhcCcccccHHHHHHHHHh
Confidence            998898889999999999999854

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.07  E-value=4.2e-09  Score=87.35  Aligned_cols=128  Identities=26%  Similarity=0.265  Sum_probs=98.4

Q ss_pred             CeEEEEecCCCCC-----------HHHHHHHHHHhhccCC------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh
Q psy18185         30 PGVLFIDEVHMLD-----------LETFTYLHRALESAIA------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL   92 (190)
Q Consensus        30 ~~Il~IDEi~~L~-----------~~~~~~L~~~~E~~~~------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~   92 (190)
                      ++||||||+|.+.           ...++.|+..++..+.      +.+|++||             .|..+++++++||
T Consensus       114 ~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn-------------~~~~l~~~l~~R~  180 (297)
T 3b9p_A          114 PSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATN-------------RPQELDEAALRRF  180 (297)
T ss_dssp             SEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC------CEEEEEEES-------------CGGGBCHHHHHHC
T ss_pred             CcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCCCcEEEEeecC-------------ChhhCCHHHHhhC
Confidence            5899999999883           4567778888886432      34556664             2667899999999


Q ss_pred             -hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHH-HHHHHHHHHhhhcC------------CCc
Q psy18185         93 -LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVV-QLLTPAALTAKTNG------------RTA  158 (190)
Q Consensus        93 -~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai-~lL~~~~~~a~~~g------------~~~  158 (190)
                       ..+.++.++.++...++...+...+..++++.++.++.. +.|..+..+ +++..+...+.++.            ...
T Consensus       181 ~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~~la~~-~~g~~~~~l~~l~~~a~~~a~r~~~~~~~~~~~~~~~~~  259 (297)
T 3b9p_A          181 TKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKI-TDGYSGSDLTALAKDAALEPIRELNVEQVKCLDISAMRA  259 (297)
T ss_dssp             CEEEECCCCCHHHHHHHHHHHHGGGSCCSCHHHHHHHHHH-TTTCCHHHHHHHHHHHTTHHHHTCC--------CCCCCC
T ss_pred             CeEEEeCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH-cCCCCHHHHHHHHHHHHHHHHHHHhhhhcccccccccCC
Confidence             578999999999999999999888888999999999999 577666555 56666665555432            247


Q ss_pred             ccHHHHHHHHHhc
Q psy18185        159 ISKQDILEVSTLF  171 (190)
Q Consensus       159 It~~~V~~~~~~f  171 (190)
                      ||.+++..++...
T Consensus       260 i~~~d~~~a~~~~  272 (297)
T 3b9p_A          260 ITEQDFHSSLKRI  272 (297)
T ss_dssp             CCHHHHHHHTTSC
T ss_pred             cCHHHHHHHHHHc
Confidence            9999999887654

>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=99.06  E-value=1.8e-08  Score=86.67  Aligned_cols=109  Identities=20%  Similarity=0.228  Sum_probs=85.2

Q ss_pred             CeEEEEecCCCCCH-----------HHHHHHHHHhhcc----CCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-h
Q psy18185         30 PGVLFIDEVHMLDL-----------ETFTYLHRALESA----IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-L   93 (190)
Q Consensus        30 ~~Il~IDEi~~L~~-----------~~~~~L~~~~E~~----~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~   93 (190)
                      +.||||||+|.|..           ..++.|+..++..    ..+.+|++||             .|..+++++++|| .
T Consensus       144 ~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vI~atn-------------~~~~ld~al~rRf~~  210 (355)
T 2qp9_X          144 PSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATN-------------IPWQLDSAIRRRFER  210 (355)
T ss_dssp             SEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CCEEEEEEES-------------CGGGSCHHHHHTCCE
T ss_pred             CeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCCeEEEeecC-------------CcccCCHHHHcccCE
Confidence            58999999999963           3577788877632    2245566664             3678899999999 6


Q ss_pred             heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhh
Q psy18185         94 IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTPAALTAK  152 (190)
Q Consensus        94 ~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~~~~~a~  152 (190)
                      .+.+++++.++..++++..+...+..+++..++.|+.. +.| ..+..-+++..|...|.
T Consensus       211 ~i~i~~P~~~~r~~il~~~l~~~~~~~~~~~l~~la~~-t~G~sg~dl~~l~~~A~~~a~  269 (355)
T 2qp9_X          211 RIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAM-TEGYSGSDIAVVVKDALMQPI  269 (355)
T ss_dssp             EEECCCCCHHHHHHHHHHHHTTSCBCCCHHHHHHHHHH-TTTCCHHHHHHHHHHHHHHHH
T ss_pred             EEEeCCcCHHHHHHHHHHHHhhCCCCCCHHHHHHHHHH-cCCCCHHHHHHHHHHHHHHHH
Confidence            78999999999999999999888777899999999999 466 66666667776665443

>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=99.05  E-value=3.3e-10  Score=103.03  Aligned_cols=127  Identities=18%  Similarity=0.265  Sum_probs=92.3

Q ss_pred             CeEEEEecCCCCCHH----HHHHHHHHhhccC----------------CCEEEEEecCCcccccCCCCCCCCCCCChhHh
Q psy18185         30 PGVLFIDEVHMLDLE----TFTYLHRALESAI----------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLL   89 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~----~~~~L~~~~E~~~----------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~   89 (190)
                      .+|+||||+|.+..+    .++.|+++++...                .+.+|++||             ++..++++|+
T Consensus       176 ~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN-------------~~~~l~~aL~  242 (543)
T 3m6a_A          176 NPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATAN-------------NLATIPGPLR  242 (543)
T ss_dssp             SEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECS-------------STTTSCHHHH
T ss_pred             CCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEeccC-------------ccccCCHHHH
Confidence            469999999999876    5699999997431                245666664             3678999999


Q ss_pred             hhhhheeccCCCHHHHHHHHHHHHH-----h-----cCCCCCHHHHHHHHHh-cCCCCHHHHHHHHHHHHHHhhh-----
Q psy18185         90 DRLLIIRTTPYNQKDMEAIIKLRAN-----T-----EGHVLDDEALVTLSEI-GTRSTLRYVVQLLTPAALTAKT-----  153 (190)
Q Consensus        90 SR~~~i~~~~ls~~ei~~iL~~~~~-----~-----~~~~i~~e~l~~i~~~-a~~gdlR~ai~lL~~~~~~a~~-----  153 (190)
                      +||.++.|++|+.++...+++....     .     .++.++++++..++.. ...|++|..-+.++.+...+..     
T Consensus       243 ~R~~vi~~~~~~~~e~~~Il~~~l~~~~~~~~~~~~~~i~i~~~~l~~l~~~~~~~~~vR~L~~~i~~~~~~aa~~~~~~  322 (543)
T 3m6a_A          243 DRMEIINIAGYTEIEKLEIVKDHLLPKQIKEHGLKKSNLQLRDQAILDIIRYYTREAGVRSLERQLAAICRKAAKAIVAE  322 (543)
T ss_dssp             HHEEEEECCCCCHHHHHHHHHHTHHHHHHHHTTCCGGGCEECHHHHHHHHHHHCCCSSSHHHHHHHHHHHHHHHHHHHTT
T ss_pred             hhcceeeeCCCCHHHHHHHHHHHHHHHHHHHcCCCcccccCCHHHHHHHHHhCChhhchhHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999987652     2     2557899999998874 3347888877777665543321     


Q ss_pred             -cCCCcccHHHHHHHHH
Q psy18185        154 -NGRTAISKQDILEVST  169 (190)
Q Consensus       154 -~g~~~It~~~V~~~~~  169 (190)
                       .+...||.+++.++++
T Consensus       323 ~~~~~~It~~~l~~~Lg  339 (543)
T 3m6a_A          323 ERKRITVTEKNLQDFIG  339 (543)
T ss_dssp             CCSCCEECTTTTHHHHC
T ss_pred             CCcceecCHHHHHHHhC
Confidence             1344699999988874

>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=99.04  E-value=4.5e-10  Score=96.81  Aligned_cols=139  Identities=17%  Similarity=0.229  Sum_probs=93.4

Q ss_pred             CeEEEEecCCCCCHH--------------HHHHHHHHhhcc----------------------CCCEEEEEecCCc--c-
Q psy18185         30 PGVLFIDEVHMLDLE--------------TFTYLHRALESA----------------------IAPIVIFATNRGR--C-   70 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~--------------~~~~L~~~~E~~----------------------~~~~iIlatn~~~--~-   70 (190)
                      .+|+||||+|.+...              .++.|++++|.+                      ..+.+|++||...  . 
T Consensus       138 ~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~l~~~  217 (376)
T 1um8_A          138 KGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEI  217 (376)
T ss_dssp             TSEEEEETGGGC--------------CHHHHHHHHHHHHCCEEC---------------CEECTTCEEEEEECCTTHHHH
T ss_pred             CeEEEEcCHHHHhhhcCCCceecccchHHHHHHHHHHhhccceecccccccccCCcceEEEecCCeEEEecCCHHHHHHH
Confidence            589999999999887              999999999964                      1135666664100  0 


Q ss_pred             ---cc----cCCCCCCC------------------CCCCChhHhhhh-hheeccCCCHHHHHHHHHH-----------HH
Q psy18185         71 ---LV----RGTDDIIS------------------PHGIPLDLLDRL-LIIRTTPYNQKDMEAIIKL-----------RA  113 (190)
Q Consensus        71 ---~~----~~t~~~~~------------------~~~l~~~l~SR~-~~i~~~~ls~~ei~~iL~~-----------~~  113 (190)
                         +.    -|......                  ...+.|+|++|| .++.|+|++.+++..++..           ..
T Consensus       218 l~~R~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~~p~l~~R~~~~i~~~~l~~~~l~~i~~~~~~~~~~~~~~~~  297 (376)
T 1um8_A          218 IKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLF  297 (376)
T ss_dssp             TTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHH
T ss_pred             HHHHhcccccCCCchhhhccchhHHHhhcCHHHHhhcCCChHHhcCCCceeeccCCCHHHHHHHHhhhHHHHHHHHHHHH
Confidence               00    01000000                  124678999999 7899999999999999962           11


Q ss_pred             H--hcCCCCCHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHhhh-----c-CCCcccHHHHHHHH
Q psy18185        114 N--TEGHVLDDEALVTLSEIGT--RSTLRYVVQLLTPAALTAKT-----N-GRTAISKQDILEVS  168 (190)
Q Consensus       114 ~--~~~~~i~~e~l~~i~~~a~--~gdlR~ai~lL~~~~~~a~~-----~-g~~~It~~~V~~~~  168 (190)
                      .  ..++.++++++++|++.+.  .|++|.+.+.++.+...+..     . +...||.++|....
T Consensus       298 ~~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~le~~~~~~~~~~~~~~~~~~~i~~~~v~~~~  362 (376)
T 1um8_A          298 KMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIEDFCLDIMFDLPKLKGSEVRITKDCVLKQA  362 (376)
T ss_dssp             HTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHHHHHHHHHHHHTGGGGTTSEEEECHHHHTTSS
T ss_pred             hhcCceEEECHHHHHHHHHHhcccccCcHHHHHHHHHHHHHHHhhccCCCCCEEEEeHHHhcCCC
Confidence            1  2356799999999999953  38999999999888753211     1 12258988887654

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.00  E-value=8.5e-09  Score=84.91  Aligned_cols=129  Identities=22%  Similarity=0.288  Sum_probs=96.8

Q ss_pred             CeEEEEecCCCC-----------CHHHHHHHHHHhhc-----cCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHML-----------DLETFTYLHRALES-----AIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L-----------~~~~~~~L~~~~E~-----~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.||||||+|.+           +.+.+..|..+++.     ... +.+|++||             .+..+++++++  
T Consensus       111 ~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn-------------~~~~l~~~l~~~~  177 (285)
T 3h4m_A          111 PSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATN-------------RPDILDPAILRPG  177 (285)
T ss_dssp             SEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECS-------------CGGGBCHHHHSTT
T ss_pred             CeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCC-------------CchhcCHHHcCCC
Confidence            479999999998           45666777776653     112 34555553             36778899998  


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      |+ ..+.|++++.++..++++..+...++. ++..+..++..+.+...|..-+++..|...|..++...||.+++.+++.
T Consensus       178 Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~a~~~~~~~I~~~d~~~al~  256 (285)
T 3h4m_A          178 RFDRIIEVPAPDEKGRLEILKIHTRKMNLA-EDVNLEEIAKMTEGCVGAELKAICTEAGMNAIRELRDYVTMDDFRKAVE  256 (285)
T ss_dssp             SEEEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHHCTTCCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             cCCeEEEECCCCHHHHHHHHHHHHhcCCCC-CcCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhccCcCCHHHHHHHHH
Confidence            77 578999999999999999888766543 2334777888843337778888888888888888888999999999986


Q ss_pred             hcc
Q psy18185        170 LFL  172 (190)
Q Consensus       170 ~f~  172 (190)
                      -+.
T Consensus       257 ~~~  259 (285)
T 3h4m_A          257 KIM  259 (285)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>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=99.00  E-value=6.5e-09  Score=88.00  Aligned_cols=108  Identities=19%  Similarity=0.221  Sum_probs=83.8

Q ss_pred             CeEEEEecCCCCCH-----------HHHHHHHHHhhcc---CC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-h
Q psy18185         30 PGVLFIDEVHMLDL-----------ETFTYLHRALESA---IA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-L   93 (190)
Q Consensus        30 ~~Il~IDEi~~L~~-----------~~~~~L~~~~E~~---~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~   93 (190)
                      ++||||||+|.|..           ..++.|+..++..   .. +.+|++||             .|..+++++++|| .
T Consensus       111 ~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~atn-------------~~~~ld~al~~Rf~~  177 (322)
T 3eie_A          111 PSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATN-------------IPWQLDSAIRRRFER  177 (322)
T ss_dssp             SEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCEEEEEEES-------------CGGGSCHHHHHHCCE
T ss_pred             CeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCceEEEEecC-------------ChhhCCHHHHcccCe
Confidence            58999999999853           4567788887743   22 45555664             3678999999999 5


Q ss_pred             heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHh
Q psy18185         94 IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTPAALTA  151 (190)
Q Consensus        94 ~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~~~~~a  151 (190)
                      .+.+++++.++..++++..+...+..++++.+..|++.+ .| +.+..-+++..|...+
T Consensus       178 ~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~l~~la~~t-~g~sg~di~~l~~~a~~~a  235 (322)
T 3eie_A          178 RIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMT-EGYSGSDIAVVVKDALMQP  235 (322)
T ss_dssp             EEECCCCCHHHHHHHHHHHHTTCCCCCCHHHHHHHHHTT-TTCCHHHHHHHHHHHTTHH
T ss_pred             EEEeCCCCHHHHHHHHHHHhccCCCCCCHHHHHHHHHHc-CCCCHHHHHHHHHHHHHHH
Confidence            789999999999999999998888888999999999994 55 6666666666665444

>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=99.00  E-value=3.7e-09  Score=85.68  Aligned_cols=126  Identities=19%  Similarity=0.194  Sum_probs=83.0

Q ss_pred             CeEEEEecCCCCC------------HHHHHHHHHHhh---c--c-CCCEEEEEecCCcccccCCCCCCCCCCCChhHhh-
Q psy18185         30 PGVLFIDEVHMLD------------LETFTYLHRALE---S--A-IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLD-   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~------------~~~~~~L~~~~E---~--~-~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S-   90 (190)
                      +.||||||+|.+.            .+.+..++.+++   .  + ..+.+|++||             .+..+++++++ 
T Consensus        99 ~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~tn-------------~~~~ld~~l~~~  165 (262)
T 2qz4_A           99 PCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTN-------------RADILDGALMRP  165 (262)
T ss_dssp             SEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEEEEES-------------CGGGGGSGGGST
T ss_pred             CeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecCC-------------ChhhcCHHHhcC
Confidence            5899999999993            333444444444   3  1 1245555564             25567788888 


Q ss_pred             -hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHhcCCC-CHHHHHHHHHHHHHHhhhcCCCcccHHHHHH
Q psy18185         91 -RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEA-LVTLSEIGTRS-TLRYVVQLLTPAALTAKTNGRTAISKQDILE  166 (190)
Q Consensus        91 -R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~-l~~i~~~a~~g-dlR~ai~lL~~~~~~a~~~g~~~It~~~V~~  166 (190)
                       |+ ..+.|++++.++..++++..+...++..+++. ...++.. +.| ..+..-+++..+...|..++...||.+++..
T Consensus       166 ~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~-~~g~~~~~l~~l~~~a~~~a~~~~~~~i~~~d~~~  244 (262)
T 2qz4_A          166 GRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAEL-TPGFSGADIANICNEAALHAAREGHTSVHTLNFEY  244 (262)
T ss_dssp             TSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHT-CTTCCHHHHHHHHHHHHTC--------CCBCCHHH
T ss_pred             CcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHH-CCCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHH
Confidence             88 67899999999999999999988888877764 5788888 455 5567778888888777777778899888888


Q ss_pred             HHH
Q psy18185        167 VST  169 (190)
Q Consensus       167 ~~~  169 (190)
                      ++.
T Consensus       245 a~~  247 (262)
T 2qz4_A          245 AVE  247 (262)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            775

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=98.99  E-value=1.3e-09  Score=100.17  Aligned_cols=145  Identities=17%  Similarity=0.163  Sum_probs=100.9

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC--------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-hh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI--------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LI   94 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~--------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~~   94 (190)
                      .+|+||||+|.++++.++.|+.++|++.              ...+|.|||...-...++........++++++||| .+
T Consensus       392 ~gil~IDEid~l~~~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp~~G~~~~~~~~~~ni~l~~aLl~RFDl~  471 (595)
T 3f9v_A          392 GGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKFGRYISERPVSDNINLPPTILSRFDLI  471 (595)
T ss_dssp             SSEECCTTTTCCCSHHHHHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECCTTCCSCTTSCSCTTTCSCSSSGGGCSCC
T ss_pred             CCcEEeehhhhCCHhHhhhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCCcCCccCcccCchhccCCCHHHHhhCeEE
Confidence            3899999999999999999999999643              13477777632000000000000016889999999 67


Q ss_pred             eeccCCCHHHHHHHHHHHHHhc-------------------------CCCCCHHHHHHHHHh--------------cCCC
Q psy18185         95 IRTTPYNQKDMEAIIKLRANTE-------------------------GHVLDDEALVTLSEI--------------GTRS  135 (190)
Q Consensus        95 i~~~~ls~~ei~~iL~~~~~~~-------------------------~~~i~~e~l~~i~~~--------------a~~g  135 (190)
                      +.+.++.+++-..+++......                         ...+++++.++|.+.              ...+
T Consensus       472 ~~~~~~~~~e~~~i~~~il~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~l~~~y~~lR~~~~~~~~~~~~~  551 (595)
T 3f9v_A          472 FILKDQPGEQDRELANYILDVHSGKSTKNIIDIDTLRKYIAYARKYVTPKITSEAKNLITDFFVEMRKKSSETPDSPILI  551 (595)
T ss_dssp             EEECCTTHHHHHHHHHHHHTTTCCCSSSSTTCCTTTHHHHHHHHHHHCCCCCCCTHHHHHHHHTTSSCSCCBCSSSCBCS
T ss_pred             EEeCCCCCHHHHHHHHHHHHHhhccccccCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHhhccCCCccccc
Confidence            7777777766333333222211                         226778888888887              2367


Q ss_pred             CHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhccCh
Q psy18185        136 TLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDA  174 (190)
Q Consensus       136 dlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~~~  174 (190)
                      ++|.+..++..+..+|...++..||.++|.+++.++...
T Consensus       552 s~R~l~~lirla~a~A~l~~~~~V~~~dv~~Ai~l~~~s  590 (595)
T 3f9v_A          552 TPRQLEALIRISEAYAKMALKAEVTREDAERAINIMRLF  590 (595)
T ss_dssp             STTTTTHHHHHHHHHHHTTSSCCSSHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHHHHHHHH
Confidence            999999999999888988899999999999999876543

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=98.95  E-value=6.4e-09  Score=87.84  Aligned_cols=126  Identities=20%  Similarity=0.202  Sum_probs=91.4

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh--he
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL--II   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~--~i   95 (190)
                      .++|||||+|.|+.+.|..|++++++..            .+.+|++||....      .......+.+++.+|+.  .+
T Consensus        97 ~g~L~LDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~riI~atn~~l~------~~v~~g~fr~~L~~Rl~~~~i  170 (304)
T 1ojl_A           97 GGTLFLDEIGDISPLMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLA------EEVSAGRFRQDLYYRLNVVAI  170 (304)
T ss_dssp             TSEEEEESCTTCCHHHHHHHHHHHHSSBCCBTTBCCCCBCCCEEEEEESSCHH------HHHHHTSSCHHHHHHHSSEEE
T ss_pred             CCEEEEeccccCCHHHHHHHHHHHhcCEeeecCCcccccCCeEEEEecCccHH------HHHHhCCcHHHHHhhcCeeEE
Confidence            3799999999999999999999999753            2578888862100      00001245678999974  46


Q ss_pred             eccCCC--HHHHHHHHHHHHH----hc---CCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHH
Q psy18185         96 RTTPYN--QKDMEAIIKLRAN----TE---GHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDI  164 (190)
Q Consensus        96 ~~~~ls--~~ei~~iL~~~~~----~~---~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V  164 (190)
                      .++|+.  .+|+..++....+    ..   ...+++++++.+..+.+.|++|...++++.+...+.   ...|+.+++
T Consensus       171 ~lPpL~eR~edi~~l~~~~l~~~~~~~~~~~~~~s~~a~~~L~~~~wpGnvReL~~~l~~~~~~~~---~~~i~~~~l  245 (304)
T 1ojl_A          171 EMPSLRQRREDIPLLADHFLRRFAERNRKVVKGFTPQAMDLLIHYDWPGNIRELENAIERAVVLLT---GEYISEREL  245 (304)
T ss_dssp             ECCCSGGGGGGHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHHCCCSSHHHHHHHHHHHHHHHCC---SSSBCGGGS
T ss_pred             eccCHHHhHhhHHHHHHHHHHHHHHHhccCccCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHhCC---CCcccHHhh
Confidence            799998  5777766664433    22   357999999999999668999999999999987653   234554444

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=98.95  E-value=1.8e-08  Score=86.63  Aligned_cols=128  Identities=22%  Similarity=0.193  Sum_probs=95.8

Q ss_pred             CeEEEEecCCCCC-----------HHHHHHHHHHhhccC-----CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh
Q psy18185         30 PGVLFIDEVHMLD-----------LETFTYLHRALESAI-----APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL   93 (190)
Q Consensus        30 ~~Il~IDEi~~L~-----------~~~~~~L~~~~E~~~-----~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~   93 (190)
                      ++||||||+|.|.           ...++.|+..++...     ...+|++||             .+..+++++++||.
T Consensus       177 ~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn-------------~~~~l~~~l~~Rf~  243 (357)
T 3d8b_A          177 PAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRILVVGATN-------------RPQEIDEAARRRLV  243 (357)
T ss_dssp             SEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCCEEEEEEES-------------CGGGBCHHHHTTCC
T ss_pred             CeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCCEEEEEecC-------------ChhhCCHHHHhhCc
Confidence            5899999998883           246677788877421     245566664             26678899999995


Q ss_pred             -heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhhc------------CCCcc
Q psy18185         94 -IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTPAALTAKTN------------GRTAI  159 (190)
Q Consensus        94 -~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~~~~~a~~~------------g~~~I  159 (190)
                       .+.++.++.++..+++...++..++.++++.++.|++. +.| +.+..-.++..+...+.++            ....|
T Consensus       244 ~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~l~~la~~-t~G~s~~dl~~l~~~a~~~~ir~l~~~~~~~~~~~~~~~i  322 (357)
T 3d8b_A          244 KRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQ-SDAFSGADMTQLCREASLGPIRSLQTADIATITPDQVRPI  322 (357)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTSCBCCCHHHHHHHHHH-TTTCCHHHHHHHHHHHHTHHHHHCCC----------CCCB
T ss_pred             eEEEeCCcCHHHHHHHHHHHHhhcCCCccHHHHHHHHHH-cCCCCHHHHHHHHHHHHHHHHHHhhhhhhccccccccCCc
Confidence             78999999999999999999888888999999999999 466 5565556666665444331            23579


Q ss_pred             cHHHHHHHHHhc
Q psy18185        160 SKQDILEVSTLF  171 (190)
Q Consensus       160 t~~~V~~~~~~f  171 (190)
                      +.+++..++.-+
T Consensus       323 ~~~d~~~al~~~  334 (357)
T 3d8b_A          323 AYIDFENAFRTV  334 (357)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CHHHHHHHHHhc
Confidence            999999888543

>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=98.93  E-value=2.3e-09  Score=100.31  Aligned_cols=120  Identities=17%  Similarity=0.205  Sum_probs=87.4

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCC-CCCCCC-----------CCCC
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGT-DDIISP-----------HGIP   85 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t-~~~~~~-----------~~l~   85 (190)
                      ++||||||+|.++++.++.|++++|++.            .+.+|++||.....+... -+....           ..++
T Consensus       558 ~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~tsN~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~  637 (758)
T 1r6b_X          558 HAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFT  637 (758)
T ss_dssp             SEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECSSCC-----------------CHHHHHHHSC
T ss_pred             CcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEecCcchhhhhhcccCccccchHHHHHHHHHHhcC
Confidence            5899999999999999999999999752            245888886321000000 000000           1467


Q ss_pred             hhHhhhh-hheeccCCCHHHHHHHHHHHHHh-------c--CCCCCHHHHHHHHHhcC--CCCHHHHHHHHHHHHH
Q psy18185         86 LDLLDRL-LIIRTTPYNQKDMEAIIKLRANT-------E--GHVLDDEALVTLSEIGT--RSTLRYVVQLLTPAAL  149 (190)
Q Consensus        86 ~~l~SR~-~~i~~~~ls~~ei~~iL~~~~~~-------~--~~~i~~e~l~~i~~~a~--~gdlR~ai~lL~~~~~  149 (190)
                      |+|++|| .++.|+|++.+++..++...+++       .  .+.++++++++|++.+.  ++++|.+.++++.+..
T Consensus       638 ~~l~~R~~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~g~R~l~~~i~~~~~  713 (758)
T 1r6b_X          638 PEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQEARNWLAEKGYDRAMGARPMARVIQDNLK  713 (758)
T ss_dssp             HHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEEEECHHHHHHHHHHHCBTTTBTTTHHHHHHHHHT
T ss_pred             HHHHhhCCcceeeCCCCHHHHHHHHHHHHHHHHHHHHHCCcEEEeCHHHHHHHHHhCCCcCCCchHHHHHHHHHHH
Confidence            8999999 78999999999999999988753       1  35789999999999853  4458888888877653

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.91  E-value=9.7e-08  Score=81.09  Aligned_cols=108  Identities=19%  Similarity=0.198  Sum_probs=82.9

Q ss_pred             CeEEEEecCCCCC-----------HHHHHHHHHHhhcc----CCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-h
Q psy18185         30 PGVLFIDEVHMLD-----------LETFTYLHRALESA----IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-L   93 (190)
Q Consensus        30 ~~Il~IDEi~~L~-----------~~~~~~L~~~~E~~----~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~   93 (190)
                      +.||||||+|.+.           ....+.|+..++..    ..+.+|++||             .|..+++++++|| .
T Consensus       106 ~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn-------------~~~~ld~al~rRf~~  172 (322)
T 1xwi_A          106 PSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATN-------------IPWVLDSAIRRRFEK  172 (322)
T ss_dssp             SEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEES-------------CTTTSCHHHHHTCCE
T ss_pred             CcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCEEEEEecC-------------CcccCCHHHHhhcCe
Confidence            5799999999992           24566777777642    2245566664             3778999999999 6


Q ss_pred             heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHh
Q psy18185         94 IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTPAALTA  151 (190)
Q Consensus        94 ~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~~~~~a  151 (190)
                      .+.+++++.++..++++..+...+..+++..+..|++.+ .| +.+..-.++..|...|
T Consensus       173 ~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t-~G~sgadl~~l~~~A~~~a  230 (322)
T 1xwi_A          173 RIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKT-DGYSGADISIIVRDALMQP  230 (322)
T ss_dssp             EEECCCCCHHHHHHHHHHHHTTCCBCCCHHHHHHHHHTC-TTCCHHHHHHHHHHHHTHH
T ss_pred             EEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHc-CCCCHHHHHHHHHHHHHHH
Confidence            789999999999999999988877778999999999994 55 5666666666665443

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.89  E-value=6e-09  Score=97.77  Aligned_cols=107  Identities=20%  Similarity=0.294  Sum_probs=84.3

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCC-----------CCh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHG-----------IPL   86 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~-----------l~~   86 (190)
                      ++||||||+|.++++.++.|++++|++.            .+.+|++||.            ++..           ++|
T Consensus       580 ~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~------------~~~~~~~~~~~~~~~f~p  647 (758)
T 3pxi_A          580 YSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNV------------GASEKDKVMGELKRAFRP  647 (758)
T ss_dssp             SSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESS------------STTCCHHHHHHHHHHSCH
T ss_pred             CeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCC------------ChhhHHHHHHHHHhhCCH
Confidence            4799999999999999999999999843            2478888862            1221           789


Q ss_pred             hHhhhh-hheeccCCCHHHHHHHHHHHHHh---------cCCCCCHHHHHHHHHhc--CCCCHHHHHHHHHHHH
Q psy18185         87 DLLDRL-LIIRTTPYNQKDMEAIIKLRANT---------EGHVLDDEALVTLSEIG--TRSTLRYVVQLLTPAA  148 (190)
Q Consensus        87 ~l~SR~-~~i~~~~ls~~ei~~iL~~~~~~---------~~~~i~~e~l~~i~~~a--~~gdlR~ai~lL~~~~  148 (190)
                      +|++|| .++.|+|++.+++.+++...+..         .++.++++++++|++.+  ..|++|..-+.++.+.
T Consensus       648 ~l~~Rl~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~i~~~v  721 (758)
T 3pxi_A          648 EFINRIDEIIVFHSLEKKHLTEIVSLMSDQLTKRLKEQDLSIELTDAAKAKVAEEGVDLEYGARPLRRAIQKHV  721 (758)
T ss_dssp             HHHTTSSEEEECC--CHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHHGGGCCTTTTTTTHHHHHHHHT
T ss_pred             HHHhhCCeEEecCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEECHHHHHHHHHhCCCCCCCChHHHHHHHHHH
Confidence            999999 89999999999999999887654         25679999999998853  4577887777776554

>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=98.82  E-value=1.5e-08  Score=86.97  Aligned_cols=130  Identities=15%  Similarity=0.188  Sum_probs=94.3

Q ss_pred             CeEEEEecCCCCC------HHHHHHHHHHhhccC-----C-CEEEEEecCCcccccCCCCCCCCCCCC---hhHhhhh-h
Q psy18185         30 PGVLFIDEVHMLD------LETFTYLHRALESAI-----A-PIVIFATNRGRCLVRGTDDIISPHGIP---LDLLDRL-L   93 (190)
Q Consensus        30 ~~Il~IDEi~~L~------~~~~~~L~~~~E~~~-----~-~~iIlatn~~~~~~~~t~~~~~~~~l~---~~l~SR~-~   93 (190)
                      +.||+|||+|.+.      .+.+..|.+.++..+     . ..+|++|+        ..+  ....+.   +.+.+|+ .
T Consensus       139 ~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v~lI~~~~--------~~~--~~~~l~~~~~~~~~~~~~  208 (412)
T 1w5s_A          139 YLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVAS--------DVR--ALSYMREKIPQVESQIGF  208 (412)
T ss_dssp             EEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEEEEEEEE--------ETH--HHHHHHHHCHHHHTTCSE
T ss_pred             eEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceEEEEEEec--------ccc--HHHHHhhhcchhhhhcCC
Confidence            3589999999985      367777777776532     3 45666663        100  000122   3455554 3


Q ss_pred             heeccCCCHHHHHHHHHHHHHhc--CCCCCHHHHHHHHHhcCC------CCHHHHHHHHHHHHHHhhhcCCCcccHHHHH
Q psy18185         94 IIRTTPYNQKDMEAIIKLRANTE--GHVLDDEALVTLSEIGTR------STLRYVVQLLTPAALTAKTNGRTAISKQDIL  165 (190)
Q Consensus        94 ~i~~~~ls~~ei~~iL~~~~~~~--~~~i~~e~l~~i~~~a~~------gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~  165 (190)
                      .+.|+|++.+++.+++..++...  +..++++++..++.. +.      |++|.+++++..+...+...+...++.+++.
T Consensus       209 ~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~  287 (412)
T 1w5s_A          209 KLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDV-YGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVR  287 (412)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHH-HCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHH
T ss_pred             eeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHH-HHHhccCCCcHHHHHHHHHHHHHHHHHcCCCCCCHHHHH
Confidence            39999999999999999887642  235899999999999 57      9999999999988877777777789999988


Q ss_pred             HHHHh
Q psy18185        166 EVSTL  170 (190)
Q Consensus       166 ~~~~~  170 (190)
                      .++..
T Consensus       288 ~~~~~  292 (412)
T 1w5s_A          288 KAVSE  292 (412)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77643

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.81  E-value=3.1e-08  Score=80.64  Aligned_cols=125  Identities=22%  Similarity=0.262  Sum_probs=94.1

Q ss_pred             CeEEEEecCCCCCH--------------HHHHHHHHHhhcc---CCCEEEEEecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHMLDL--------------ETFTYLHRALESA---IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~---~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.++||||+|.+..              ..++.++..++..   ....+|.+||             .|..+++.+++  
T Consensus       105 ~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn-------------~~~~l~~~l~r~~  171 (257)
T 1lv7_A          105 PCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATN-------------RPDVLDPALLRPG  171 (257)
T ss_dssp             SEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEES-------------CTTTSCGGGGSTT
T ss_pred             CeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccCCCEEEEEeeC-------------CchhCCHHHcCCC
Confidence            47999999987742              3456666666642   2245566664             36778888887  


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHhcCCC-CHHHHHHHHHHHHHHhhhcCCCcccHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEA-LVTLSEIGTRS-TLRYVVQLLTPAALTAKTNGRTAISKQDILEV  167 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~-l~~i~~~a~~g-dlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~  167 (190)
                      |+ ..+.+++++.++..++++..++..+  +++++ +..++.. +.| +.|...+++..|...|...+...||.+++.++
T Consensus       172 rf~~~i~i~~P~~~~r~~il~~~~~~~~--l~~~~~~~~la~~-~~G~~~~dl~~l~~~a~~~a~~~~~~~i~~~~~~~a  248 (257)
T 1lv7_A          172 RFDRQVVVGLPDVRGREQILKVHMRRVP--LAPDIDAAIIARG-TPGFSGADLANLVNEAALFAARGNKRVVSMVEFEKA  248 (257)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHHHTTSC--BCTTCCHHHHHHT-CTTCCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHH
T ss_pred             cCCeEEEeCCCCHHHHHHHHHHHHhcCC--CCccccHHHHHHH-cCCCCHHHHHHHHHHHHHHHHHhCCCcccHHHHHHH
Confidence            65 5688999999999999988776543  44443 6677777 688 99999999999998888888889999999998


Q ss_pred             HHh
Q psy18185        168 STL  170 (190)
Q Consensus       168 ~~~  170 (190)
                      +..
T Consensus       249 ~~~  251 (257)
T 1lv7_A          249 KDK  251 (257)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            853

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=98.79  E-value=4.2e-08  Score=86.94  Aligned_cols=109  Identities=18%  Similarity=0.199  Sum_probs=86.0

Q ss_pred             CeEEEEecCCCCC-----------HHHHHHHHHHhhcc----CCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-h
Q psy18185         30 PGVLFIDEVHMLD-----------LETFTYLHRALESA----IAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-L   93 (190)
Q Consensus        30 ~~Il~IDEi~~L~-----------~~~~~~L~~~~E~~----~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~   93 (190)
                      ++||||||+|.|.           ...++.|+..++..    ..+.+|++||             .|..+++++++|| .
T Consensus       228 ~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~v~vI~atn-------------~~~~ld~al~rRf~~  294 (444)
T 2zan_A          228 PSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATN-------------IPWVLDSAIRRRFEK  294 (444)
T ss_dssp             SEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSSCEEEEEES-------------CGGGSCHHHHTTCCE
T ss_pred             CeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCCEEEEecCC-------------CccccCHHHHhhcce
Confidence            5899999999992           35777888888752    2256777775             3678999999999 5


Q ss_pred             heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhh
Q psy18185         94 IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTPAALTAK  152 (190)
Q Consensus        94 ~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~~~~~a~  152 (190)
                      .+.+++++.++...+++..+...+..+++..+..|+.. +.| +.+..-+++..|...+.
T Consensus       295 ~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~-t~G~sgadl~~l~~~a~~~a~  353 (444)
T 2zan_A          295 RIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRK-TDGYSGADISIIVRDALMQPV  353 (444)
T ss_dssp             EEECCCCCHHHHHHHHHHHHTTSCEECCHHHHHHHHHH-TTTCCHHHHHHHHHHHHTHHH
T ss_pred             EEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHH-cCCCCHHHHHHHHHHHHHHHH
Confidence            78999999999999999998887777899999999999 466 66666667777665443

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.79  E-value=1e-08  Score=97.50  Aligned_cols=120  Identities=18%  Similarity=0.252  Sum_probs=89.3

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccC-CCCCC------------CCCCC
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRG-TDDII------------SPHGI   84 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~-t~~~~------------~~~~l   84 (190)
                      ++||||||+|.++.+.++.|++++|++.            .+++|++||.....+.+ +.+..            ....+
T Consensus       661 ~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~tsn~~~~~~~~~~~~~~~~~~l~~~v~~~~~~~f  740 (854)
T 1qvr_A          661 YSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHF  740 (854)
T ss_dssp             SEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTS
T ss_pred             CeEEEEecccccCHHHHHHHHHHhccCceECCCCCEeccCCeEEEEecCcChHHHhhhcccccchHHHHHHHHHHHHhhC
Confidence            4899999999999999999999999763            24588888632100000 00000            02346


Q ss_pred             ChhHhhhh-hheeccCCCHHHHHHHHHHHHHh---------cCCCCCHHHHHHHHHhcC--CCCHHHHHHHHHHHHH
Q psy18185         85 PLDLLDRL-LIIRTTPYNQKDMEAIIKLRANT---------EGHVLDDEALVTLSEIGT--RSTLRYVVQLLTPAAL  149 (190)
Q Consensus        85 ~~~l~SR~-~~i~~~~ls~~ei~~iL~~~~~~---------~~~~i~~e~l~~i~~~a~--~gdlR~ai~lL~~~~~  149 (190)
                      .|+|++|| .++.|.|++.+++..++...++.         ..+.++++++++|++++.  .|++|..-++++.+..
T Consensus       741 ~~~l~~Rl~~~i~~~pl~~edi~~i~~~~l~~~~~~~~~~~~~~~~~~~a~~~L~~~~~~~~gn~R~L~~~i~~~~~  817 (854)
T 1qvr_A          741 RPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELE  817 (854)
T ss_dssp             CHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHHHHHCBTTTBTSTHHHHHHHHTH
T ss_pred             CHHHHHhcCeEEeCCCCCHHHHHHHHHHHHHHHHHHHHhCCceEEECHHHHHHHHHcCCCCCCChHHHHHHHHHHHH
Confidence            78999999 78899999999999999877652         135799999999999865  5899998888887653

>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=98.79  E-value=3.9e-08  Score=92.00  Aligned_cols=133  Identities=19%  Similarity=0.208  Sum_probs=100.0

Q ss_pred             CeEEEEecCCCC---------CHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCC
Q psy18185         30 PGVLFIDEVHML---------DLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPY  100 (190)
Q Consensus        30 ~~Il~IDEi~~L---------~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~l  100 (190)
                      .+||||||+|.|         ..+.++.|..+++.+ ...+|++|+        .+.......+++++++||..+.|+++
T Consensus       279 ~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~~-~~~~I~at~--------~~~~~~~~~~d~aL~~Rf~~i~v~~p  349 (758)
T 1r6b_X          279 NSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG-KIRVIGSTT--------YQEFSNIFEKDRALARRFQKIDITEP  349 (758)
T ss_dssp             CEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSC-CCEEEEEEC--------HHHHHCCCCCTTSSGGGEEEEECCCC
T ss_pred             CeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhCC-CeEEEEEeC--------chHHhhhhhcCHHHHhCceEEEcCCC
Confidence            489999999999         356778888888875 467788884        11111133456789999999999999


Q ss_pred             CHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHHhhh----cCCCcccHHHHHHH
Q psy18185        101 NQKDMEAIIKLRANT----EGHVLDDEALVTLSEIG-----TRSTLRYVVQLLTPAALTAKT----NGRTAISKQDILEV  167 (190)
Q Consensus       101 s~~ei~~iL~~~~~~----~~~~i~~e~l~~i~~~a-----~~gdlR~ai~lL~~~~~~a~~----~g~~~It~~~V~~~  167 (190)
                      +.++..++|+..+..    .++.++++++..++..+     ....+..++++++.+...+..    .+...|+.+++..+
T Consensus       350 ~~~e~~~il~~l~~~~~~~~~v~~~~~al~~~~~~s~~~i~~~~lp~~~i~lld~a~~~~~~~~~~~~~~~v~~~di~~~  429 (758)
T 1r6b_X          350 SIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAGARARLMPVSKRKKTVNVADIESV  429 (758)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHHHHHHHHHHHHHHSSSCCCCCSCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhcccccCchHHHHHHHHHHHHHhcccccccCCccCHHHHHHH
Confidence            999999999987754    68889999999999883     123456899999888755433    24557999999988


Q ss_pred             HHhc
Q psy18185        168 STLF  171 (190)
Q Consensus       168 ~~~f  171 (190)
                      +..+
T Consensus       430 ~~~~  433 (758)
T 1r6b_X          430 VARI  433 (758)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            7543

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=98.75  E-value=1.4e-08  Score=83.42  Aligned_cols=103  Identities=14%  Similarity=0.196  Sum_probs=75.8

Q ss_pred             CeEEEEecCCCC----------CHHHHHHHHHHhhcc---CCCE-EEEEecCCcccccCCCCCCCCCCCCh-hHhhh-hh
Q psy18185         30 PGVLFIDEVHML----------DLETFTYLHRALESA---IAPI-VIFATNRGRCLVRGTDDIISPHGIPL-DLLDR-LL   93 (190)
Q Consensus        30 ~~Il~IDEi~~L----------~~~~~~~L~~~~E~~---~~~~-iIlatn~~~~~~~~t~~~~~~~~l~~-~l~SR-~~   93 (190)
                      +++|||||+|.|          ....++.|...++..   ...+ +|.+||             .+..+++ .+++| |.
T Consensus       125 ~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn-------------~~~~l~~~~l~~rf~~  191 (272)
T 1d2n_A          125 LSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTS-------------RKDVLQEMEMLNAFST  191 (272)
T ss_dssp             EEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEES-------------CHHHHHHTTCTTTSSE
T ss_pred             CcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecC-------------Chhhcchhhhhcccce
Confidence            489999999997          567788888888752   2233 444553             1333444 57888 57


Q ss_pred             heeccCCCH-HHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-----CHHHHHHHHHHHHHHh
Q psy18185         94 IIRTTPYNQ-KDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-----TLRYVVQLLTPAALTA  151 (190)
Q Consensus        94 ~i~~~~ls~-~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-----dlR~ai~lL~~~~~~a  151 (190)
                      .+.++++++ +++..++...    + .++++++..+++. +.|     ++|.++++++.+...+
T Consensus       192 ~i~~p~l~~r~~i~~i~~~~----~-~~~~~~~~~l~~~-~~g~~~~g~ir~l~~~l~~a~~~~  249 (272)
T 1d2n_A          192 TIHVPNIATGEQLLEALELL----G-NFKDKERTTIAQQ-VKGKKVWIGIKKLLMLIEMSLQMD  249 (272)
T ss_dssp             EEECCCEEEHHHHHHHHHHH----T-CSCHHHHHHHHHH-HTTSEEEECHHHHHHHHHHHTTSC
T ss_pred             EEcCCCccHHHHHHHHHHhc----C-CCCHHHHHHHHHH-hcCCCccccHHHHHHHHHHHhhhc
Confidence            899999998 7777777542    2 5789999999999 466     9999999999986543

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=98.73  E-value=6.9e-08  Score=87.17  Aligned_cols=126  Identities=15%  Similarity=0.216  Sum_probs=95.7

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC-----------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh-heec
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI-----------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL-IIRT   97 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~-----------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~-~i~~   97 (190)
                      .+|+||||++.+++..++.|+.++|+..           .+.+|++||.          ........+++++|+. .+.+
T Consensus       110 ~~IL~IDEI~r~~~~~q~~LL~~lee~~v~i~G~~~~~~~~~iI~ATN~----------lpe~~~~~~aLldRF~~~i~v  179 (500)
T 3nbx_X          110 AEIVFLDEIWKAGPAILNTLLTAINERQFRNGAHVEKIPMRLLVAASNE----------LPEADSSLEALYDRMLIRLWL  179 (500)
T ss_dssp             CSEEEEESGGGCCHHHHHHHHHHHHSSEEECSSSEEECCCCEEEEEESS----------CCCTTCTTHHHHTTCCEEEEC
T ss_pred             ceeeeHHhHhhhcHHHHHHHHHHHHHHhccCCCCcCCcchhhhhhcccc----------CCCccccHHHHHHHHHHHHHH
Confidence            4689999999999999999999998532           1345777751          1012234568999974 4788


Q ss_pred             cCCCH-HHHHHHHHHHH-----------------------HhcCCCCCHHHHHHHHHhc---------CCCCHHHHHHHH
Q psy18185         98 TPYNQ-KDMEAIIKLRA-----------------------NTEGHVLDDEALVTLSEIG---------TRSTLRYVVQLL  144 (190)
Q Consensus        98 ~~ls~-~ei~~iL~~~~-----------------------~~~~~~i~~e~l~~i~~~a---------~~gdlR~ai~lL  144 (190)
                      +++++ ++...++..+.                       ...++.+++++++++++..         ...+.|.++.++
T Consensus       180 ~~p~~~ee~~~IL~~~~~~~~~~~~~~~~~~~e~l~~~~~~~~~v~v~d~v~e~i~~l~~~lr~~r~~~~iS~R~~~~ll  259 (500)
T 3nbx_X          180 DKVQDKANFRSMLTSQQDENDNPVPDALQVTDEEYERWQKEIGEITLPDHVFELIFMLRQQLDKLPDAPYVSDRRWKKAI  259 (500)
T ss_dssp             CSCCCHHHHHHHHTCCCCTTSCCSCTTTSBCHHHHHHHHHHHTTCBCCHHHHHHHHHHHHHHHHCSSSCCCCHHHHHHHH
T ss_pred             HHhhhhhhHHHHHhcccccCCCCCCccceecHHHHHHHHhcCCcccCchHHHHHHHHHHHHhhcCCCCCccchhHHHHHH
Confidence            88887 56677776543                       1237789999999999873         134889999999


Q ss_pred             HHHHHHhhhcCCCcccHHHHH
Q psy18185        145 TPAALTAKTNGRTAISKQDIL  165 (190)
Q Consensus       145 ~~~~~~a~~~g~~~It~~~V~  165 (190)
                      ..+...|...|+..||.++|.
T Consensus       260 r~A~A~A~l~gr~~Vt~eDv~  280 (500)
T 3nbx_X          260 RLLQASAFFSGRSAVAPVDLI  280 (500)
T ss_dssp             HHHHHHHHHTTCSBCCGGGGG
T ss_pred             HHHHHHHhhcCCccccchHHH
Confidence            988888888999999999998

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.72  E-value=7.3e-07  Score=78.56  Aligned_cols=126  Identities=20%  Similarity=0.211  Sum_probs=93.0

Q ss_pred             CeEEEEecCCCCCH--------------HHHHHHHHHhhccC--C-CEEEEEecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHMLDL--------------ETFTYLHRALESAI--A-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~--~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.||||||+|.+..              ...+.|+..++.-.  . +.+|+|||             .|..++|+++.  
T Consensus       242 P~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATN-------------rpd~LDpAllRpG  308 (405)
T 4b4t_J          242 PSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATN-------------RLDILDPALLRPG  308 (405)
T ss_dssp             SEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEES-------------CSSSSCHHHHSTT
T ss_pred             CceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEEeccC-------------ChhhCCHhHcCCC
Confidence            57999999999942              23455666665322  2 45666775             38889999987  


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDE-ALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e-~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      |+ ..|.|+.++.++..++++..+++.++  +++ -++.|++.+.+-+-...-+++..|+..|.++++..||.+++..++
T Consensus       309 RfD~~I~i~lPd~~~R~~Il~~~~~~~~l--~~dvdl~~lA~~t~G~SGADi~~l~~eA~~~Air~~~~~vt~~Df~~Al  386 (405)
T 4b4t_J          309 RIDRKIEFPPPSVAARAEILRIHSRKMNL--TRGINLRKVAEKMNGCSGADVKGVCTEAGMYALRERRIHVTQEDFELAV  386 (405)
T ss_dssp             SSCCEEECCCCCHHHHHHHHHHHHTTSBC--CSSCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHH
T ss_pred             cCceEEEcCCcCHHHHHHHHHHHhcCCCC--CccCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHH
Confidence            66 67999999999999999988766543  222 278888884333666667778888888888888899999998887


Q ss_pred             Hh
Q psy18185        169 TL  170 (190)
Q Consensus       169 ~~  170 (190)
                      .-
T Consensus       387 ~~  388 (405)
T 4b4t_J          387 GK  388 (405)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=98.67  E-value=5.1e-08  Score=84.50  Aligned_cols=116  Identities=28%  Similarity=0.271  Sum_probs=87.5

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhh--e
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLI--I   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~--i   95 (190)
                      .|.|||||||.|+.+.|..|++++|++.            .+.+|.+||.....      ......+.++|..|+.+  +
T Consensus       223 ~gtlfldei~~l~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~------~v~~g~fr~dL~~rl~~~~i  296 (368)
T 3dzd_A          223 QGTLFLDEVGELDQRVQAKLLRVLETGSFTRLGGNQKIEVDIRVISATNKNLEE------EIKKGNFREDLYYRLSVFQI  296 (368)
T ss_dssp             TSEEEEETGGGSCHHHHHHHHHHHHHSEECCBTCCCBEECCCEEEEEESSCHHH------HHHTTSSCHHHHHHHTSEEE
T ss_pred             CCeEEecChhhCCHHHHHHHHHHHHhCCcccCCCCcceeeeeEEEEecCCCHHH------HHHcCCccHHHHHHhCCeEE
Confidence            3799999999999999999999999742            14588888631000      00123456789999865  5


Q ss_pred             eccCCCH--HHHHHHHHHHHH----hcC---CCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHh
Q psy18185         96 RTTPYNQ--KDMEAIIKLRAN----TEG---HVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTA  151 (190)
Q Consensus        96 ~~~~ls~--~ei~~iL~~~~~----~~~---~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a  151 (190)
                      .++|+.+  +|+..++..-.+    ..+   ..+++++++.+..+.+.|++|...|.++.+...+
T Consensus       297 ~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpGNvreL~n~i~~~~~~~  361 (368)
T 3dzd_A          297 YLPPLRERGKDVILLAEYFLKKFAKEYKKNCFELSEETKEYLMKQEWKGNVRELKNLIERAVILC  361 (368)
T ss_dssp             ECCCGGGSTTHHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHTCCCTTHHHHHHHHHHHHHHTC
T ss_pred             eCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhC
Confidence            6999998  787766555443    233   4599999999999977999999999999998654

>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=98.64  E-value=1.7e-07  Score=76.14  Aligned_cols=125  Identities=28%  Similarity=0.370  Sum_probs=89.8

Q ss_pred             CCeEEEEecCCCCCH--------------HHHHHHHHHhhccCC--CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh
Q psy18185         29 VPGVLFIDEVHMLDL--------------ETFTYLHRALESAIA--PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL   92 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~~--~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~   92 (190)
                      .+.++++||+|.+..              ..++.++..++....  +.+++++         ++   .|..+++++++|+
T Consensus       108 ~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~a~---------t~---~p~~ld~~l~r~~  175 (254)
T 1ixz_A          108 APCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAA---------TN---RPDILDPALLRPG  175 (254)
T ss_dssp             SSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEE---------ES---CGGGSCGGGGSTT
T ss_pred             CCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEEEEc---------cC---CchhCCHHHcCCC
Confidence            357999999987731              234455555554322  4455555         32   3677889999854


Q ss_pred             ---hheeccCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHhcCCCC-HHHHHHHHHHHHHHhhhcCCCcccHHHHHHH
Q psy18185         93 ---LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEA-LVTLSEIGTRST-LRYVVQLLTPAALTAKTNGRTAISKQDILEV  167 (190)
Q Consensus        93 ---~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~-l~~i~~~a~~gd-lR~ai~lL~~~~~~a~~~g~~~It~~~V~~~  167 (190)
                         ..+.+++++.++..++++..++  +..+++++ +..++.. +.|. .|...+++..+...|...+...||.+++.++
T Consensus       176 rf~~~i~i~~p~~~~r~~il~~~~~--~~~~~~~~~~~~la~~-~~G~~~~dl~~~~~~a~~~a~~~~~~~I~~~dl~~a  252 (254)
T 1ixz_A          176 RFDRQIAIDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKR-TPGFVGADLENLLNEAALLAAREGRRKITMKDLEEA  252 (254)
T ss_dssp             SSCEEEECCSCCHHHHHHHHHHHHT--TSCBCTTCCHHHHHHT-CTTCCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHH
T ss_pred             cCCeEEeeCCcCHHHHHHHHHHHHc--CCCCCcccCHHHHHHH-cCCCCHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHH
Confidence               4689999999999999987764  34555554 7888888 5664 4888889998888887777788999999886


Q ss_pred             H
Q psy18185        168 S  168 (190)
Q Consensus       168 ~  168 (190)
                      +
T Consensus       253 ~  253 (254)
T 1ixz_A          253 A  253 (254)
T ss_dssp             T
T ss_pred             h
Confidence            4

>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=98.63  E-value=2e-07  Score=83.70  Aligned_cols=126  Identities=25%  Similarity=0.351  Sum_probs=93.7

Q ss_pred             CeEEEEecCCCCCH--------------HHHHHHHHHhhc---cCCCEEEEEecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHMLDL--------------ETFTYLHRALES---AIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~--------------~~~~~L~~~~E~---~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.||||||+|.+..              ..++.|+..++.   ..++++|++||             .|..+++.+++  
T Consensus       109 p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn-------------~~~~Ld~allR~g  175 (476)
T 2ce7_A          109 PCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATN-------------RPDILDPALLRPG  175 (476)
T ss_dssp             SEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEEEES-------------CGGGSCGGGGSTT
T ss_pred             CCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecC-------------ChhhhchhhcccC
Confidence            58999999999843              356677777763   22245666664             25667788776  


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHhcCCCCH-HHHHHHHHHHHHHhhhcCCCcccHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEA-LVTLSEIGTRSTL-RYVVQLLTPAALTAKTNGRTAISKQDILEV  167 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~-l~~i~~~a~~gdl-R~ai~lL~~~~~~a~~~g~~~It~~~V~~~  167 (190)
                      |+ ..+.+++++.++..++++..++..+  +.+++ +..++.. +.|.. |..-+++..+...|.+.+...||.+++.++
T Consensus       176 RFd~~i~i~~Pd~~~R~~Il~~~~~~~~--l~~~v~l~~la~~-t~G~sgadL~~lv~~Aal~A~~~~~~~I~~~dl~~a  252 (476)
T 2ce7_A          176 RFDKKIVVDPPDMLGRKKILEIHTRNKP--LAEDVNLEIIAKR-TPGFVGADLENLVNEAALLAAREGRDKITMKDFEEA  252 (476)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHHHTTSC--BCTTCCHHHHHHT-CTTCCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHH
T ss_pred             cceeEeecCCCCHHHHHHHHHHHHHhCC--CcchhhHHHHHHh-cCCCcHHHHHHHHHHHHHHHHHcCCCeecHHHHHHH
Confidence            66 3789999999999999988876543  33443 7778888 57755 788889999988887778889999999998


Q ss_pred             HHhc
Q psy18185        168 STLF  171 (190)
Q Consensus       168 ~~~f  171 (190)
                      +.-.
T Consensus       253 l~~v  256 (476)
T 2ce7_A          253 IDRV  256 (476)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8543

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=98.63  E-value=1.2e-06  Score=78.69  Aligned_cols=144  Identities=17%  Similarity=0.068  Sum_probs=99.9

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC----------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-hheec-
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI----------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LIIRT-   97 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~----------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~~i~~-   97 (190)
                      .|++||||++.+.+..|.+|+.+||+..          ...+|.++|... .-.....+ .-..+|++++||+ +++-+ 
T Consensus       301 gGvl~lDEIn~~~~~~qsaLlEaMEe~~VtI~G~~lparf~VIAA~NP~~-~yd~~~s~-~~~~Lp~alLDRFDLi~i~~  378 (506)
T 3f8t_A          301 GGILAVDHLEGAPEPHRWALMEAMDKGTVTVDGIALNARCAVLAAINPGE-QWPSDPPI-ARIDLDQDFLSHFDLIAFLG  378 (506)
T ss_dssp             TSEEEEECCTTCCHHHHHHHHHHHHHSEEEETTEEEECCCEEEEEECCCC---CCSCGG-GGCCSCHHHHTTCSEEEETT
T ss_pred             CCeeehHhhhhCCHHHHHHHHHHHhCCcEEECCEEcCCCeEEEEEeCccc-ccCCCCCc-cccCCChHHhhheeeEEEec
Confidence            4899999999999999999999999742          245666665311 00000000 0126889999998 43322 


Q ss_pred             -------------cCCCHHHHHHHHHHHH-HhcCCCCCHHHHHHHHHhc-----------------CCCCHHHHHHHHHH
Q psy18185         98 -------------TPYNQKDMEAIIKLRA-NTEGHVLDDEALVTLSEIG-----------------TRSTLRYVVQLLTP  146 (190)
Q Consensus        98 -------------~~ls~~ei~~iL~~~~-~~~~~~i~~e~l~~i~~~a-----------------~~gdlR~ai~lL~~  146 (190)
                                   +.++.+++...+...- ..-.+.+++++.++|.+..                 ..-++|....++..
T Consensus       379 d~pd~e~d~e~~~~~ls~e~L~~yi~~ar~~~~~p~ls~ea~~yI~~~y~~tR~~~~~~~~~~~~~~giSpR~leaLiRl  458 (506)
T 3f8t_A          379 VDPRPGEPEEQDTEVPSYTLLRRYLLYAIREHPAPELTEEARKRLEHWYETRREEVEERLGMGLPTLPVTRRQLESVERL  458 (506)
T ss_dssp             C--------------CCHHHHHHHHHHHHHHCSCCEECHHHHHHHHHHHHHHHHHHHHHHHTTCCCCCCCHHHHHHHHHH
T ss_pred             CCCChhHhhcccCCCCCHHHHHHHHHHHHhcCCCceeCHHHHHHHHHHHHHHhcCcccccccccccccccHHHHHHHHHH
Confidence                         2355566666666443 2336789999999888651                 12377988888888


Q ss_pred             HHHHhhhcCCCcccHHHHHHHHHhccChH
Q psy18185        147 AALTAKTNGRTAISKQDILEVSTLFLDAK  175 (190)
Q Consensus       147 ~~~~a~~~g~~~It~~~V~~~~~~f~~~~  175 (190)
                      +..+|.-.++..++.+||++++.++....
T Consensus       459 A~A~A~L~gR~~V~~eDV~~Ai~L~~~Sl  487 (506)
T 3f8t_A          459 AKAHARMRLSDDVEPEDVDIAAELVDWYL  487 (506)
T ss_dssp             HHHHHHHTTCSEECHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCcCCCCHHHHHHHHHHHHHHH
Confidence            88899999999999999999998875544

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.63  E-value=2.6e-06  Score=75.76  Aligned_cols=127  Identities=18%  Similarity=0.199  Sum_probs=93.3

Q ss_pred             CeEEEEecCCCCCH--------------HHHHHHHHHhhccCC---CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh
Q psy18185         30 PGVLFIDEVHMLDL--------------ETFTYLHRALESAIA---PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL   92 (190)
Q Consensus        30 ~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~~---~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~   92 (190)
                      +.||||||+|.+..              ...+.|+..++....   +.+|+|||             .|..++|++++|.
T Consensus       275 P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATN-------------rp~~LDpAllRpG  341 (437)
T 4b4t_L          275 PCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATN-------------RPDTLDPALLRPG  341 (437)
T ss_dssp             SEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEES-------------STTSSCTTTTSTT
T ss_pred             CceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEEEecC-------------CchhhCHHHhCCC
Confidence            57999999999831              235566666664322   57777886             2788999998774


Q ss_pred             ---hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         93 ---LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        93 ---~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                         ..|.|+.++.++..++++..+.+..+. ++--+..|++.+.+-+....-+++..|+..|.+++...||.+++..++.
T Consensus       342 RfD~~I~i~lPd~~~R~~Il~~~~~~~~~~-~d~dl~~lA~~t~G~sGADi~~l~~eA~~~air~~~~~i~~~d~~~Al~  420 (437)
T 4b4t_L          342 RLDRKVEIPLPNEAGRLEIFKIHTAKVKKT-GEFDFEAAVKMSDGFNGADIRNCATEAGFFAIRDDRDHINPDDLMKAVR  420 (437)
T ss_dssp             SEEEEECCCCCCHHHHHHHHHHHHHTSCBC-SCCCHHHHHHTCCSCCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             ccceeeecCCcCHHHHHHHHHHHhcCCCCC-cccCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence               478999999999999999888765432 1112678888842336666667788888888888888999999988875


Q ss_pred             h
Q psy18185        170 L  170 (190)
Q Consensus       170 ~  170 (190)
                      -
T Consensus       421 ~  421 (437)
T 4b4t_L          421 K  421 (437)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=98.60  E-value=3.6e-07  Score=75.38  Aligned_cols=124  Identities=27%  Similarity=0.359  Sum_probs=87.5

Q ss_pred             CeEEEEecCCCCC-----------HHHHHHHHHH---hhccCC--CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-
Q psy18185         30 PGVLFIDEVHMLD-----------LETFTYLHRA---LESAIA--PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-   92 (190)
Q Consensus        30 ~~Il~IDEi~~L~-----------~~~~~~L~~~---~E~~~~--~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-   92 (190)
                      +.++++||+|.+.           .+....+..+   ++.+..  +.+++++         ++   .|..+++++++|+ 
T Consensus       133 ~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a~---------t~---~p~~ld~~l~r~~r  200 (278)
T 1iy2_A          133 PCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAA---------TN---RPDILDPALLRPGR  200 (278)
T ss_dssp             SEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEEEEE---------ES---CTTSSCHHHHSTTS
T ss_pred             CcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEEEEe---------cC---CchhCCHhHcCCCc
Confidence            5799999998762           1223333333   333222  3455544         22   3677899998854 


Q ss_pred             --hheeccCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHhcCCCCH-HHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185         93 --LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEA-LVTLSEIGTRSTL-RYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus        93 --~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~-l~~i~~~a~~gdl-R~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                        ..+.|++++.++..++|+..++.  ..+++++ +..++.. +.|.. |..-+++..+...|...+...||.+++.+++
T Consensus       201 f~~~i~i~~p~~~~r~~il~~~~~~--~~~~~~~~~~~la~~-~~G~~~~dl~~l~~~a~~~a~~~~~~~I~~~dl~~a~  277 (278)
T 1iy2_A          201 FDRQIAIDAPDVKGREQILRIHARG--KPLAEDVDLALLAKR-TPGFVGADLENLLNEAALLAAREGRRKITMKDLEEAA  277 (278)
T ss_dssp             SCCEEECCCCCHHHHHHHHHHHHTT--SCBCTTCCHHHHHHT-CTTCCHHHHHHHHHHHHHHHHHTTCCSBCHHHHHHHT
T ss_pred             CCeEEEeCCcCHHHHHHHHHHHHcc--CCCCcccCHHHHHHH-cCCCCHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHh
Confidence              46899999999999999877643  4555554 7888888 57755 7777888888888877777889999998874

>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=98.59  E-value=3.6e-07  Score=81.42  Aligned_cols=134  Identities=19%  Similarity=0.253  Sum_probs=91.4

Q ss_pred             eEEEEecCCCCCH------------HHHHHHHHHhhcc-----------CCCEEEEEecCCcccccCCCCCCCCCCCChh
Q psy18185         31 GVLFIDEVHMLDL------------ETFTYLHRALESA-----------IAPIVIFATNRGRCLVRGTDDIISPHGIPLD   87 (190)
Q Consensus        31 ~Il~IDEi~~L~~------------~~~~~L~~~~E~~-----------~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~   87 (190)
                      +++++||+|.+..            ..|++|++++|..           ....||.++..   -   ..   .|..+.|+
T Consensus       252 ~il~~DEidki~~~~~~~~~D~s~egvq~aLL~~le~~~~~~~~~~~d~~~ilfI~~gaf---~---~~---~~~dlipe  322 (444)
T 1g41_A          252 GIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAF---Q---VA---RPSDLIPE  322 (444)
T ss_dssp             CEEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECC---S---SC---CGGGSCHH
T ss_pred             CeeeHHHHHHHhhccCCCCCCchHHHHHHHHHHHhcccccccccceecCCcEEEEecccc---c---cC---ChhhcchH
Confidence            7999999999953            3789999999952           12456655521   0   11   24446688


Q ss_pred             Hhhhhhh-eeccCCCHHHHHHHHH---------HH--HHhc--CCCCCHHHHHHHHHhc-------CCCCHHHHHHHHHH
Q psy18185         88 LLDRLLI-IRTTPYNQKDMEAIIK---------LR--ANTE--GHVLDDEALVTLSEIG-------TRSTLRYVVQLLTP  146 (190)
Q Consensus        88 l~SR~~~-i~~~~ls~~ei~~iL~---------~~--~~~~--~~~i~~e~l~~i~~~a-------~~gdlR~ai~lL~~  146 (190)
                      |++|+-+ +.|++||.+|+..|+.         +.  ...+  .+.++++++..|++.|       .++++|..-+.++.
T Consensus       323 l~~R~~i~i~l~~lt~~e~~~Il~~~~~~l~~q~~~~~~~~~~~l~~~~~al~~i~~~a~~~~~~t~~~GaR~L~~~ie~  402 (444)
T 1g41_A          323 LQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMER  402 (444)
T ss_dssp             HHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCCCGGGHHHHHHHH
T ss_pred             HhcccceeeeCCCCCHHHHHHHHHHHHHhHHHHHHHHhcccCceEEECHHHHHHHHHHHHHhccCCccCCchHHHHHHHH
Confidence            9999966 8999999999999994         11  1123  4469999999999963       25778887777776


Q ss_pred             HHHH----hhh-cCC-CcccHHHHHHHHHhccC
Q psy18185        147 AALT----AKT-NGR-TAISKQDILEVSTLFLD  173 (190)
Q Consensus       147 ~~~~----a~~-~g~-~~It~~~V~~~~~~f~~  173 (190)
                      +..-    ... .+. -.||.+.|.+.++-...
T Consensus       403 ~~~~~~~~~~~~~~~~~~i~~~~v~~~l~~~~~  435 (444)
T 1g41_A          403 LMDKISFSASDMNGQTVNIDAAYVADALGEVVE  435 (444)
T ss_dssp             HHHHHHHHGGGCTTCEEEECHHHHHHHHTTTTT
T ss_pred             HHHHHHhhccccCCCeEEEeHHHHHHhcCcccc
Confidence            5532    111 111 24899999887754433

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.58  E-value=1.8e-06  Score=76.68  Aligned_cols=125  Identities=22%  Similarity=0.268  Sum_probs=91.2

Q ss_pred             CeEEEEecCCCCCH-----------H---HHHHHHHHhhccC---CCEEEEEecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHMLDL-----------E---TFTYLHRALESAI---APIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~-----------~---~~~~L~~~~E~~~---~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.||||||+|.+..           .   .++.|+..++...   .+.+|+|||             .|..++++++.  
T Consensus       276 P~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATN-------------rpd~LDpALlRpG  342 (437)
T 4b4t_I          276 PSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATN-------------KIETLDPALIRPG  342 (437)
T ss_dssp             SEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEES-------------CSTTCCTTSSCTT
T ss_pred             CcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeCC-------------ChhhcCHHHhcCC
Confidence            57999999999832           2   3444555554322   245666775             37889999987  


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDE-ALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e-~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      |+ ..|.|+.++.++..++++..+++..  ++++ -++.|++.+.+-+-...-+++..|+..|.++++..||.+++..++
T Consensus       343 RfD~~I~v~lPd~~~R~~Il~~~l~~~~--l~~dvdl~~LA~~T~GfSGADI~~l~~eA~~~Air~~~~~It~eDf~~Al  420 (437)
T 4b4t_I          343 RIDRKILFENPDLSTKKKILGIHTSKMN--LSEDVNLETLVTTKDDLSGADIQAMCTEAGLLALRERRMQVTAEDFKQAK  420 (437)
T ss_dssp             TEEEEECCCCCCHHHHHHHHHHHHTTSC--BCSCCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHTTCSCBCHHHHHHHH
T ss_pred             ceeEEEEcCCcCHHHHHHHHHHHhcCCC--CCCcCCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHH
Confidence            66 5689999999999999998886644  3333 277888884333666667778888888888888899999998887


Q ss_pred             H
Q psy18185        169 T  169 (190)
Q Consensus       169 ~  169 (190)
                      .
T Consensus       421 ~  421 (437)
T 4b4t_I          421 E  421 (437)
T ss_dssp             H
T ss_pred             H
Confidence            5

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=98.57  E-value=6.2e-09  Score=85.11  Aligned_cols=125  Identities=22%  Similarity=0.300  Sum_probs=89.6

Q ss_pred             CeEEEEecCCCCCHH---------------HHHHHHHHhhccCC----CEEEEEecCCcccccCCCCCCCCCCCChhHhh
Q psy18185         30 PGVLFIDEVHMLDLE---------------TFTYLHRALESAIA----PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~---------------~~~~L~~~~E~~~~----~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S   90 (190)
                      ++||||||+|.|...               .++.|+..++....    ..+|++||             .+..+++++++
T Consensus       104 ~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~ttn-------------~~~~ld~~l~r  170 (268)
T 2r62_A          104 PSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATN-------------RPEILDPALMR  170 (268)
T ss_dssp             SCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSCSCCEEEECBS-------------CCTTSCGGGGS
T ss_pred             CeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCCCCEEEEEecC-------------CchhcCHhHcC
Confidence            479999999999643               35567777765322    34555553             36678888888


Q ss_pred             --hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhhcCCCcccHHHHHH
Q psy18185         91 --RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTPAALTAKTNGRTAISKQDILE  166 (190)
Q Consensus        91 --R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~~~~~a~~~g~~~It~~~V~~  166 (190)
                        |+ ..+.|++++.++..++|+..++..++. ++..+..++.. +.| ..|...+++..+...|...+...||.+++.+
T Consensus       171 ~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~-~~g~~g~dl~~l~~~a~~~a~~~~~~~i~~~~~~~  248 (268)
T 2r62_A          171 PGRFDRQVLVDKPDFNGRVEILKVHIKGVKLA-NDVNLQEVAKL-TAGLAGADLANIINEAALLAGRNNQKEVRQQHLKE  248 (268)
T ss_dssp             SSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCC-SSCCTTTTTSS-SCSSCHHHHHHHHHHHHHTTSSSCCCSCCHHHHHT
T ss_pred             CCCCCeEEEecCcCHHHHHHHHHHHHhcCCCC-CccCHHHHHHH-cCCCCHHHHHHHHHHHHHHHHHhccCCcCHHHHHH
Confidence              54 578999999999999998887654332 22236667777 354 5678888899988888777778899999987


Q ss_pred             HHH
Q psy18185        167 VST  169 (190)
Q Consensus       167 ~~~  169 (190)
                      ++.
T Consensus       249 a~~  251 (268)
T 2r62_A          249 AVE  251 (268)
T ss_dssp             SCT
T ss_pred             HHH
Confidence            764

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.55  E-value=3.1e-07  Score=81.85  Aligned_cols=110  Identities=17%  Similarity=0.155  Sum_probs=78.8

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHHHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAII  109 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL  109 (190)
                      ++|||||    .+.++++.|+++++.+ ...+|++||        .+.+.....+++++++||..+.|++++.++...+|
T Consensus       268 ~~iLfiD----~~~~a~~~L~~~L~~g-~v~vI~at~--------~~e~~~~~~~~~al~~Rf~~i~v~~p~~e~~~~iL  334 (468)
T 3pxg_A          268 NIILFID----AAIDASNILKPSLARG-ELQCIGATT--------LDEYRKYIEKDAALERRFQPIQVDQPSVDESIQIL  334 (468)
T ss_dssp             CCEEEEC----C--------CCCTTSS-SCEEEEECC--------TTTTHHHHTTCSHHHHSEEEEECCCCCHHHHHHHH
T ss_pred             CeEEEEe----CchhHHHHHHHhhcCC-CEEEEecCC--------HHHHHHHhhcCHHHHHhCccceeCCCCHHHHHHHH
Confidence            4799999    5668999999999975 467888885        11000002478899999999999999999999999


Q ss_pred             HHHHHh----cCCCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHHhh
Q psy18185        110 KLRANT----EGHVLDDEALVTLSEIG-----TRSTLRYVVQLLTPAALTAK  152 (190)
Q Consensus       110 ~~~~~~----~~~~i~~e~l~~i~~~a-----~~gdlR~ai~lL~~~~~~a~  152 (190)
                      +..+..    .++.++++++.+++.++     .+.-.++|+++|+.+...+.
T Consensus       335 ~~~~~~~~~~~~~~i~~~al~~l~~~s~~~~~~~~lp~~ai~ll~~a~~~~~  386 (468)
T 3pxg_A          335 QGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGSKVR  386 (468)
T ss_dssp             HHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhccCcCCcHHHHHHHHHHHHHH
Confidence            987765    78899999999999983     12236789999998875443

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.54  E-value=3.5e-06  Score=75.37  Aligned_cols=125  Identities=20%  Similarity=0.243  Sum_probs=90.2

Q ss_pred             CeEEEEecCCCCCH--------------HHHHHHHHHhhccCC---CEEEEEecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHMLDL--------------ETFTYLHRALESAIA---PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~~---~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.||||||+|.+..              ..++.|+..++....   +.+|+|||             .|..++++++.  
T Consensus       303 P~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATN-------------rpd~LDpALlRpG  369 (467)
T 4b4t_H          303 ACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATN-------------RPNTLDPALLRPG  369 (467)
T ss_dssp             SEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECS-------------CTTSBCHHHHSTT
T ss_pred             CceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEEEeCCC-------------CcccCChhhhccc
Confidence            57999999999832              234445555553222   35566665             38889999987  


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDE-ALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e-~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      |+ ..|.|+.++.++..++++..+++..+  +++ -++.|++.+.+-+....-+++..|+..|.++++..||.+++..++
T Consensus       370 RFD~~I~i~lPd~~~R~~Ilk~~l~~~~l--~~dvdl~~LA~~T~GfSGADI~~l~~eAa~~Air~~~~~it~~Df~~Al  447 (467)
T 4b4t_H          370 RIDRKVEFSLPDLEGRANIFRIHSKSMSV--ERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRKVATEKDFLKAV  447 (467)
T ss_dssp             TCCEEECCCCCCHHHHHHHHHHHHTTSCB--CSSCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHH
T ss_pred             cccEEEEeCCcCHHHHHHHHHHHhcCCCC--CCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHH
Confidence            77 57899999999999999988866433  222 267788884333566666778888888888888899999988877


Q ss_pred             H
Q psy18185        169 T  169 (190)
Q Consensus       169 ~  169 (190)
                      .
T Consensus       448 ~  448 (467)
T 4b4t_H          448 D  448 (467)
T ss_dssp             H
T ss_pred             H
Confidence            4

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.53  E-value=8.5e-08  Score=91.21  Aligned_cols=113  Identities=20%  Similarity=0.227  Sum_probs=78.1

Q ss_pred             CeEEEEecCCCCC--------HHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCC
Q psy18185         30 PGVLFIDEVHMLD--------LETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYN  101 (190)
Q Consensus        30 ~~Il~IDEi~~L~--------~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls  101 (190)
                      +.||||||+|.|.        .++++.|..+++.+ ...+|++||        .+... ...+.+++++||..+.|++++
T Consensus       264 ~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~~-~i~~I~at~--------~~~~~-~~~~d~aL~rRf~~i~l~~p~  333 (854)
T 1qvr_A          264 EVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG-ELRLIGATT--------LDEYR-EIEKDPALERRFQPVYVDEPT  333 (854)
T ss_dssp             SEEEEECCC-------------------HHHHHTT-CCCEEEEEC--------HHHHH-HHTTCTTTCSCCCCEEECCCC
T ss_pred             CeEEEEecHHHHhccCCccchHHHHHHHHHHHhCC-CeEEEEecC--------chHHh-hhccCHHHHhCCceEEeCCCC
Confidence            4799999999996        56788899999875 356777774        11000 024578899999999999999


Q ss_pred             HHHHHHHHHHHHH----hcCCCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHHhh
Q psy18185        102 QKDMEAIIKLRAN----TEGHVLDDEALVTLSEIG-----TRSTLRYVVQLLTPAALTAK  152 (190)
Q Consensus       102 ~~ei~~iL~~~~~----~~~~~i~~e~l~~i~~~a-----~~gdlR~ai~lL~~~~~~a~  152 (190)
                      .++...+|+..+.    ..++.++++++..++..+     .+.-.+.|+.+++.+...+.
T Consensus       334 ~~e~~~iL~~~~~~~~~~~~~~i~~~al~~~~~ls~r~i~~~~lp~kai~lldea~a~~~  393 (854)
T 1qvr_A          334 VEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAAARLR  393 (854)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhhhhhcCCCCCHHHHHHHHHHHhhhcccccChHHHHHHHHHHHHHHH
Confidence            9999999986655    358899999999999983     12337899999998875443

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.53  E-value=2.4e-06  Score=75.85  Aligned_cols=127  Identities=22%  Similarity=0.266  Sum_probs=92.7

Q ss_pred             CeEEEEecCCCCC-----------HH---HHHHHHHHhhccCC---CEEEEEecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHMLD-----------LE---TFTYLHRALESAIA---PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~-----------~~---~~~~L~~~~E~~~~---~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.||||||+|.+.           ..   .++.|+..++...+   +.+|+|||             .|..++|++++  
T Consensus       275 P~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTN-------------rp~~LD~AllRpG  341 (434)
T 4b4t_M          275 PTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATN-------------RVDVLDPALLRSG  341 (434)
T ss_dssp             SEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECS-------------SCCCCCTTTCSTT
T ss_pred             CeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCC-------------CchhcCHhHhcCC
Confidence            5799999999882           12   34556666654322   46666775             28889999977  


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEA-LVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~-l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      |+ ..|.|+.++.++..++++..+++..+  ++++ ++.|++.+.+-+....-+++..|+..|.+++...||.++..+++
T Consensus       342 RfD~~I~i~lPd~~~R~~Il~~~~~~~~~--~~dvdl~~lA~~t~G~sGADi~~l~~eA~~~a~r~~~~~i~~~Df~~Al  419 (434)
T 4b4t_M          342 RLDRKIEFPLPSEDSRAQILQIHSRKMTT--DDDINWQELARSTDEFNGAQLKAVTVEAGMIALRNGQSSVKHEDFVEGI  419 (434)
T ss_dssp             SEEEEEECCCCCHHHHHHHHHHHHHHSCB--CSCCCHHHHHHHCSSCCHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHH
T ss_pred             ceeEEEEeCCcCHHHHHHHHHHHhcCCCC--CCcCCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHH
Confidence            66 57899999999999999988876543  2222 67788884233666666778888888888889999999998888


Q ss_pred             Hhc
Q psy18185        169 TLF  171 (190)
Q Consensus       169 ~~f  171 (190)
                      .-.
T Consensus       420 ~~v  422 (434)
T 4b4t_M          420 SEV  422 (434)
T ss_dssp             HSC
T ss_pred             HHH
Confidence            643

>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=98.48  E-value=1.2e-06  Score=78.66  Aligned_cols=126  Identities=20%  Similarity=0.205  Sum_probs=89.4

Q ss_pred             CeEEEEecCCCCCH-----------HHHHHHHHHhhccCC---CEEEEEecCCcccccCCCCCCCCCCCChhHhh--hh-
Q psy18185         30 PGVLFIDEVHMLDL-----------ETFTYLHRALESAIA---PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--RL-   92 (190)
Q Consensus        30 ~~Il~IDEi~~L~~-----------~~~~~L~~~~E~~~~---~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--R~-   92 (190)
                      +++|||||+|.|..           ..++.|++.++....   +.+|.+||             .|..+++++++  |+ 
T Consensus       298 p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn-------------~~~~Ld~al~r~gRf~  364 (489)
T 3hu3_A          298 PAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATN-------------RPNSIDPALRRFGRFD  364 (489)
T ss_dssp             SEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEEEEEEES-------------CGGGBCGGGGSTTSSC
T ss_pred             CcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceEEEEecC-------------CccccCHHHhCCCcCc
Confidence            47999999987743           688999999985322   45666664             25678899999  44 


Q ss_pred             hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhhcCCC--------------
Q psy18185         93 LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTPAALTAKTNGRT--------------  157 (190)
Q Consensus        93 ~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~~~~~a~~~g~~--------------  157 (190)
                      ..+.|++++.++..++|+.+++..++.. +..+..++..+ .| ..+..-.++..+...+.+++..              
T Consensus       365 ~~i~i~~P~~~eR~~IL~~~~~~~~l~~-~~~l~~la~~t-~g~s~~dL~~L~~~A~~~a~r~~~~~i~~~~~~~~~~~~  442 (489)
T 3hu3_A          365 REVDIGIPDATGRLEILQIHTKNMKLAD-DVDLEQVANET-HGHVGADLAALCSEAALQAIRKKMDLIDLEDETIDAEVM  442 (489)
T ss_dssp             EEEECCCCCHHHHHHHHHHHTTTSCBCT-TCCHHHHHHTC-TTCCHHHHHHHHHHHHHHHHHTTTTTCCTTCSSCCHHHH
T ss_pred             eEEEeCCCCHHHHHHHHHHHHhcCCCcc-hhhHHHHHHHc-cCCcHHHHHHHHHHHHHHHHHhccccccccccccchhhc
Confidence            3689999999999999998887655432 22467778874 54 5666666677777777654432              


Q ss_pred             ---cccHHHHHHHHHh
Q psy18185        158 ---AISKQDILEVSTL  170 (190)
Q Consensus       158 ---~It~~~V~~~~~~  170 (190)
                         .||.+++..++..
T Consensus       443 ~~~~vt~edf~~Al~~  458 (489)
T 3hu3_A          443 NSLAVTMDDFRWALSQ  458 (489)
T ss_dssp             HHCCBCHHHHHHHHTS
T ss_pred             ccCcCCHHHHHHHHHh
Confidence               3777777777653

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=98.43  E-value=2.1e-06  Score=71.83  Aligned_cols=128  Identities=21%  Similarity=0.215  Sum_probs=84.6

Q ss_pred             CeEEEEecCCCCCHH--------------HHHHHHHHhhccC---CCEEEEEecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHMLDLE--------------TFTYLHRALESAI---APIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~--------------~~~~L~~~~E~~~---~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.|+||||+|.|...              .++.|++.++.-.   .+.+|++||             .|..+++++++  
T Consensus       109 p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~v~vi~atn-------------~~~~ld~al~r~g  175 (301)
T 3cf0_A          109 PCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATN-------------RPDIIDPAILRPG  175 (301)
T ss_dssp             SEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTSSEEEEEEES-------------CGGGSCGGGGSTT
T ss_pred             CeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCCCEEEEEecC-------------CccccChHHhcCC
Confidence            589999999988543              4677888887421   245666665             26678888888  


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhc---------------
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTN---------------  154 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~---------------  154 (190)
                      |+ ..+.+++++.++..++++..+++.++. .+-.++.++..+.+-+.+..-++++.|...|..+               
T Consensus       176 Rf~~~i~i~~p~~~~r~~il~~~l~~~~~~-~~~~~~~la~~~~g~sg~dl~~l~~~a~~~a~~~~~~~~~~~~~~~~~~  254 (301)
T 3cf0_A          176 RLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIESEIRRERERQTN  254 (301)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHHHTTSCBC-SSCCHHHHHHTCSSCCHHHHHHHHHHHHHHHHHHHHHHHC---------
T ss_pred             ccceEEecCCcCHHHHHHHHHHHHccCCCC-ccchHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccc
Confidence            77 578999999999999999888766542 1222456666632223445555555555433211               


Q ss_pred             ----------CCCcccHHHHHHHHHhc
Q psy18185        155 ----------GRTAISKQDILEVSTLF  171 (190)
Q Consensus       155 ----------g~~~It~~~V~~~~~~f  171 (190)
                                ....|+.+++..++...
T Consensus       255 ~~~~~~~~~~~~~~v~~~~~~~al~~~  281 (301)
T 3cf0_A          255 PSAMEVEEDDPVPEIRRDHFEEAMRFA  281 (301)
T ss_dssp             -----------CCCBCHHHHHHHHTTC
T ss_pred             cccccccccccCCccCHHHHHHHHHHc
Confidence                      01358888888888654

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.41  E-value=7.8e-06  Score=72.44  Aligned_cols=126  Identities=23%  Similarity=0.244  Sum_probs=90.8

Q ss_pred             CeEEEEecCCCCCH--------------HHHHHHHHHhhccC--C-CEEEEEecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHMLDL--------------ETFTYLHRALESAI--A-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~--~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.|+||||+|.+..              ...+.|+..++.-.  . +.+|+|||             .|..++|+++.  
T Consensus       266 P~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI~aTN-------------~~~~LD~AllRpG  332 (428)
T 4b4t_K          266 PSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATN-------------RADTLDPALLRPG  332 (428)
T ss_dssp             SEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEEEEEES-------------CSSSCCHHHHSSS
T ss_pred             CCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEEEEecC-------------ChhhcChhhhcCC
Confidence            57999999997721              24566666666422  2 45666665             37889999987  


Q ss_pred             hh-hheecc-CCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHH
Q psy18185         91 RL-LIIRTT-PYNQKDMEAIIKLRANTEGHVLDDE-ALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEV  167 (190)
Q Consensus        91 R~-~~i~~~-~ls~~ei~~iL~~~~~~~~~~i~~e-~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~  167 (190)
                      |+ ..|.|+ +++.++...+++..+.+.++  +++ -++.|+..+.+-+....-+++..|+..|.++++..||.+++.++
T Consensus       333 Rfd~~I~~p~lPd~~~R~~Il~~~~~~~~l--~~~~dl~~lA~~t~G~sgadi~~l~~eA~~~a~r~~~~~i~~~d~~~A  410 (428)
T 4b4t_K          333 RLDRKIEFPSLRDRRERRLIFGTIASKMSL--APEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKNRYVILQSDLEEA  410 (428)
T ss_dssp             SEEEEEECCSSCCHHHHHHHHHHHHHSSCB--CTTCCHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHH
T ss_pred             cceEEEEcCCCCCHHHHHHHHHHHhcCCCC--CcccCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH
Confidence            55 468896 67888889999888766543  333 27888888433366666777888888888888889999999988


Q ss_pred             HHh
Q psy18185        168 STL  170 (190)
Q Consensus       168 ~~~  170 (190)
                      +..
T Consensus       411 ~~~  413 (428)
T 4b4t_K          411 YAT  413 (428)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            753

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=98.41  E-value=9e-07  Score=77.02  Aligned_cols=128  Identities=23%  Similarity=0.226  Sum_probs=92.9

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh--he
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL--II   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~--~i   95 (190)
                      .|+|||||++.|+.+.|..|++++|++.            .+.+|.+||......      .....+.+++..|..  .+
T Consensus       232 ~gtlfldei~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~------~~~g~fr~dl~~rl~~~~i  305 (387)
T 1ny5_A          232 GGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKEL------VKEGKFREDLYYRLGVIEI  305 (387)
T ss_dssp             TSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHH------HHTTSSCHHHHHHHTTEEE
T ss_pred             CcEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCCCCHHHH------HHcCCccHHHHHhhcCCee
Confidence            4799999999999999999999999632            246888886311000      012345577888864  46


Q ss_pred             eccCCCH--HHHHHHHHHHH----HhcC---CCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHH
Q psy18185         96 RTTPYNQ--KDMEAIIKLRA----NTEG---HVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILE  166 (190)
Q Consensus        96 ~~~~ls~--~ei~~iL~~~~----~~~~---~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~  166 (190)
                      .++|+.+  +|+..+...-.    .+.+   ..+++++++.+..+.+.|++|..-|.++.+...+.   ...|+.+++..
T Consensus       306 ~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~l~~~~wpGNvreL~~~i~~~~~~~~---~~~i~~~~l~~  382 (387)
T 1ny5_A          306 EIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSYPWYGNVRELKNVIERAVLFSE---GKFIDRGELSC  382 (387)
T ss_dssp             ECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHSCCTTHHHHHHHHHHHHHHHCC---SSEECHHHHHH
T ss_pred             cCCcchhccccHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhCC---CCcCcHHHCcH
Confidence            7888876  67765555433    3333   24899999999999889999999999999987653   24788887753

>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=98.40  E-value=3.2e-07  Score=78.53  Aligned_cols=85  Identities=18%  Similarity=0.196  Sum_probs=59.2

Q ss_pred             CChhHhhhhhh-eeccCCCHHHHHHHHHH----HH-------H--hcCCCCCHHHHHHHHHhc--CCCCHHHHHHHHHHH
Q psy18185         84 IPLDLLDRLLI-IRTTPYNQKDMEAIIKL----RA-------N--TEGHVLDDEALVTLSEIG--TRSTLRYVVQLLTPA  147 (190)
Q Consensus        84 l~~~l~SR~~~-i~~~~ls~~ei~~iL~~----~~-------~--~~~~~i~~e~l~~i~~~a--~~gdlR~ai~lL~~~  147 (190)
                      +.|+|.+|+-. +.|.|++.+++.+++..    ..       .  ...+.++++++++|++.+  .++++|..-+.++.+
T Consensus       239 ~~~~l~~R~~~~~~~~pl~~~~~~~I~~~~~~~l~~~~~~~~~~~~~~l~~~~~a~~~L~~~~~~~~~gaR~L~~~ie~~  318 (363)
T 3hws_A          239 LIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAA  318 (363)
T ss_dssp             CCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTTTTHHHHHHHH
T ss_pred             CCHHHhcccCeeeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHHHHHHhhcCCccCchHHHHHHHHH
Confidence            67899999954 56999999999999875    21       1  123468999999999753  467788888888777


Q ss_pred             HHHh--hhcCC-C----cccHHHHHHHH
Q psy18185        148 ALTA--KTNGR-T----AISKQDILEVS  168 (190)
Q Consensus       148 ~~~a--~~~g~-~----~It~~~V~~~~  168 (190)
                      ..-+  +.... .    .||.+.|++..
T Consensus       319 ~~~~l~~~~~~~~~~~~~I~~~~v~~~~  346 (363)
T 3hws_A          319 LLDTMYDLPSMEDVEKVVIDESVIDGQS  346 (363)
T ss_dssp             HHHHHHSTTTCCCSEEEECHHHHTTCCS
T ss_pred             HHHHHHhcccccCCceeEEcHHHHhCcC
Confidence            6432  22121 1    47777776544

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=98.40  E-value=6.8e-07  Score=80.69  Aligned_cols=127  Identities=28%  Similarity=0.378  Sum_probs=91.6

Q ss_pred             CCeEEEEecCCCCCH--------------HHHHHHHHHhhccC--CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh
Q psy18185         29 VPGVLFIDEVHMLDL--------------ETFTYLHRALESAI--APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL   92 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~--~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~   92 (190)
                      .+.++||||+|.+..              ..++.|+..++...  ...+++++         |+   .|..+++++++++
T Consensus       123 ~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAa---------tn---~p~~LD~aLlr~g  190 (499)
T 2dhr_A          123 APCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAA---------TN---RPDILDPALLRPG  190 (499)
T ss_dssp             SSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEEC---------CS---CGGGSCTTTSSTT
T ss_pred             CCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEEEe---------cC---ChhhcCccccccc
Confidence            357999999998842              23445555555322  23444444         32   2566888898865


Q ss_pred             ---hheeccCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHhcCCCCH-HHHHHHHHHHHHHhhhcCCCcccHHHHHHH
Q psy18185         93 ---LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEA-LVTLSEIGTRSTL-RYVVQLLTPAALTAKTNGRTAISKQDILEV  167 (190)
Q Consensus        93 ---~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~-l~~i~~~a~~gdl-R~ai~lL~~~~~~a~~~g~~~It~~~V~~~  167 (190)
                         ..+.+++++.++..++|+..++  ++.+++++ +..++.. +.|.. |..-+++..++..|.+.+...||.+++.++
T Consensus       191 Rfdr~i~i~~Pd~~~R~~IL~~~~~--~~~l~~dv~l~~lA~~-t~G~~gadL~~lv~~Aa~~A~~~~~~~It~~dl~~a  267 (499)
T 2dhr_A          191 RFDRQIAIDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKR-TPGFVGADLENLLNEAALLAAREGRRKITMKDLEEA  267 (499)
T ss_dssp             SSCCEEECCCCCHHHHHHHHHHTTS--SSCCCCSSTTHHHHTT-SCSCCHHHHHHHHHHHHHHHTTTCCSSCCSHHHHHH
T ss_pred             ccceEEecCCCCHHHHHHHHHHHHh--cCCCChHHHHHHHHHh-cCCCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHH
Confidence               4789999999999999987654  44566555 7888888 57765 888899999988887777788999999998


Q ss_pred             HHh
Q psy18185        168 STL  170 (190)
Q Consensus       168 ~~~  170 (190)
                      +.-
T Consensus       268 l~~  270 (499)
T 2dhr_A          268 ADR  270 (499)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            853

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.23  E-value=1.2e-06  Score=66.21  Aligned_cols=71  Identities=24%  Similarity=0.211  Sum_probs=52.2

Q ss_pred             CeEEEEecCCCCC--------HHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCC
Q psy18185         30 PGVLFIDEVHMLD--------LETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYN  101 (190)
Q Consensus        30 ~~Il~IDEi~~L~--------~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls  101 (190)
                      +.||+|||+|.+.        .+.++.|..+++.+ ...+|++|+        .........+++++++||..+.|++++
T Consensus       116 ~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~i~~~~--------~~~~~~~~~~~~~l~~r~~~i~~~~p~  186 (195)
T 1jbk_A          116 NVILFIDELHTMVGAGKADGAMDAGNMLKPALARG-ELHCVGATT--------LDEYRQYIEKDAALERRFQKVFVAEPS  186 (195)
T ss_dssp             TEEEEEETGGGGTT------CCCCHHHHHHHHHTT-SCCEEEEEC--------HHHHHHHTTTCHHHHTTEEEEECCCCC
T ss_pred             CeEEEEeCHHHHhccCcccchHHHHHHHHHhhccC-CeEEEEeCC--------HHHHHHHHhcCHHHHHHhceeecCCCC
Confidence            4699999999995        34488888888775 356777774        100000025789999999999999999


Q ss_pred             HHHHHHHH
Q psy18185        102 QKDMEAII  109 (190)
Q Consensus       102 ~~ei~~iL  109 (190)
                      .++..++|
T Consensus       187 ~~~~~~il  194 (195)
T 1jbk_A          187 VEDTIAIL  194 (195)
T ss_dssp             HHHHHTTC
T ss_pred             HHHHHHHh
Confidence            99988765

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.23  E-value=2.9e-06  Score=79.47  Aligned_cols=110  Identities=17%  Similarity=0.155  Sum_probs=78.0

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHHHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAII  109 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL  109 (190)
                      ++|||||    .+.++++.|++.++.+ ...+|++||        .+.+.....+++++++||..+.|++++.++..++|
T Consensus       268 ~~iLfiD----~~~~~~~~L~~~l~~~-~v~~I~at~--------~~~~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il  334 (758)
T 3pxi_A          268 NIILFID----AAIDASNILKPSLARG-ELQCIGATT--------LDEYRKYIEKDAALERRFQPIQVDQPSVDESIQIL  334 (758)
T ss_dssp             CCEEEEC----C--------CCCTTSS-SCEEEEECC--------TTTTHHHHTTCSHHHHSEEEEECCCCCHHHHHHHH
T ss_pred             CEEEEEc----CchhHHHHHHHHHhcC-CEEEEeCCC--------hHHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHH
Confidence            4799999    5567899999999975 467888885        11000002578899999999999999999999999


Q ss_pred             HHHHHh----cCCCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHHhh
Q psy18185        110 KLRANT----EGHVLDDEALVTLSEIG-----TRSTLRYVVQLLTPAALTAK  152 (190)
Q Consensus       110 ~~~~~~----~~~~i~~e~l~~i~~~a-----~~gdlR~ai~lL~~~~~~a~  152 (190)
                      +..+..    .++.++++++.+++..+     .+.-.+.|+.+++.+...+.
T Consensus       335 ~~~~~~~~~~~~~~i~~~al~~~~~~s~~~i~~~~~p~~ai~ll~~a~~~~~  386 (758)
T 3pxi_A          335 QGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGSKVR  386 (758)
T ss_dssp             HHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHhhcccccCcCCcHHHHHHHHHHHHHH
Confidence            977654    68899999999999873     12345889999998875443

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.97  E-value=0.00013  Score=60.53  Aligned_cols=109  Identities=11%  Similarity=0.136  Sum_probs=72.7

Q ss_pred             CeEEEEecCCCCCH-------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-hheeccCCC
Q psy18185         30 PGVLFIDEVHMLDL-------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LIIRTTPYN  101 (190)
Q Consensus        30 ~~Il~IDEi~~L~~-------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~~i~~~~ls  101 (190)
                      +-+|+|||+|.+..       +....|..+.+..+...+|+++..... +...   ........++..|. ..+.+.|++
T Consensus       129 ~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~~~~~~~~il~g~~~~~-l~~~---l~~~~~~~~l~~~~~~~i~l~pl~  204 (350)
T 2qen_A          129 EFIVAFDEAQYLRFYGSRGGKELLALFAYAYDSLPNLKIILTGSEVGL-LHDF---LKITDYESPLYGRIAGEVLVKPFD  204 (350)
T ss_dssp             CEEEEEETGGGGGGBTTTTTHHHHHHHHHHHHHCTTEEEEEEESSHHH-HHHH---HCTTCTTSTTTTCCCEEEECCCCC
T ss_pred             CEEEEEeCHHHHhccCccchhhHHHHHHHHHHhcCCeEEEEECCcHHH-HHHH---HhhcCCCCccccCccceeeCCCCC
Confidence            36899999999864       667777777776544566776631000 0000   00001112244454 489999999


Q ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHH
Q psy18185        102 QKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLL  144 (190)
Q Consensus       102 ~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL  144 (190)
                      .+|..+.+.......|..++++.+..+... ++|.+.. ++.+
T Consensus       205 ~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~-tgG~P~~-l~~~  245 (350)
T 2qen_A          205 KDTSVEFLKRGFREVNLDVPENEIEEAVEL-LDGIPGW-LVVF  245 (350)
T ss_dssp             HHHHHHHHHHHHHTTTCCCCHHHHHHHHHH-HTTCHHH-HHHH
T ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-hCCCHHH-HHHH
Confidence            999999999887777888999999999999 5888864 4444

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.85  E-value=0.00088  Score=55.70  Aligned_cols=93  Identities=13%  Similarity=0.068  Sum_probs=59.6

Q ss_pred             CCeEEEEecCCCCCH-------------HHHHHHHHHhhcc--------------CCCEEEEEecCCcccccCCCCCCCC
Q psy18185         29 VPGVLFIDEVHMLDL-------------ETFTYLHRALESA--------------IAPIVIFATNRGRCLVRGTDDIISP   81 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~-------------~~~~~L~~~~E~~--------------~~~~iIlatn~~~~~~~~t~~~~~~   81 (190)
                      .+.||||||+|.+..             ..++.|+.+++..              ..+.+|++||             .+
T Consensus        99 ~~~vl~iDEiD~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN-------------~~  165 (293)
T 3t15_A           99 NMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGN-------------DF  165 (293)
T ss_dssp             SCCCEEEECCC--------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECS-------------SC
T ss_pred             CCeEEEEechhhhcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecC-------------Cc
Confidence            358999999998854             3568899998622              1256777775             26


Q ss_pred             CCCChhHhh--hhhh-eeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHH
Q psy18185         82 HGIPLDLLD--RLLI-IRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLR  138 (190)
Q Consensus        82 ~~l~~~l~S--R~~~-i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR  138 (190)
                      ..+++++++  |+.. +.  .++.++..++++......+  ++.+.+..++...+..++.
T Consensus       166 ~~ld~al~R~~R~d~~i~--~P~~~~r~~Il~~~~~~~~--~~~~~l~~~~~~~~~~~l~  221 (293)
T 3t15_A          166 STLYAPLIRDGRMEKFYW--APTREDRIGVCTGIFRTDN--VPAEDVVKIVDNFPGQSID  221 (293)
T ss_dssp             CC--CHHHHHHHEEEEEE--CCCHHHHHHHHHHHHGGGC--CCHHHHHHHHHHSCSCCHH
T ss_pred             ccCCHHHhCCCCCceeEe--CcCHHHHHHHHHHhccCCC--CCHHHHHHHhCCCCcccHH
Confidence            778888885  5533 43  3499999999998876665  4566666666553455664

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.70  E-value=3.5e-05  Score=58.08  Aligned_cols=63  Identities=24%  Similarity=0.160  Sum_probs=45.8

Q ss_pred             CeEEEEecCCCCC---------HHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCC
Q psy18185         30 PGVLFIDEVHMLD---------LETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPY  100 (190)
Q Consensus        30 ~~Il~IDEi~~L~---------~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~l  100 (190)
                      +.+|||||+|.+.         .+.++.|...++.+ ...+|+++|        .........+++++++||..+.++++
T Consensus       116 ~~vl~iDe~~~l~~~~~~~~~~~~~~~~l~~~~~~~-~~~ii~~~~--------~~~~~~~~~~~~~l~~R~~~i~i~~p  186 (187)
T 2p65_A          116 QVVMFIDEIHTVVGAGAVAEGALDAGNILKPMLARG-ELRCIGATT--------VSEYRQFIEKDKALERRFQQILVEQP  186 (187)
T ss_dssp             SEEEEETTGGGGSSSSSSCTTSCCTHHHHHHHHHTT-CSCEEEEEC--------HHHHHHHTTTCHHHHHHEEEEECCSC
T ss_pred             ceEEEEeCHHHhcccccccccchHHHHHHHHHHhcC-CeeEEEecC--------HHHHHHHHhccHHHHHhcCcccCCCC
Confidence            4699999999997         57788888888875 456777774        10000012578999999998998887


Q ss_pred             C
Q psy18185        101 N  101 (190)
Q Consensus       101 s  101 (190)
                      +
T Consensus       187 ~  187 (187)
T 2p65_A          187 S  187 (187)
T ss_dssp             C
T ss_pred             C
Confidence            5

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=97.38  E-value=0.00048  Score=57.12  Aligned_cols=109  Identities=11%  Similarity=0.092  Sum_probs=67.9

Q ss_pred             CeEEEEecCCCCCH----HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-hheeccCCCHHH
Q psy18185         30 PGVLFIDEVHMLDL----ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LIIRTTPYNQKD  104 (190)
Q Consensus        30 ~~Il~IDEi~~L~~----~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~~i~~~~ls~~e  104 (190)
                      +-+|+|||+|.++.    +....|..+.+......+|+++.... .+...   ........++..|. ..+.+.|++.+|
T Consensus       138 ~~vlvlDe~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~g~~~~-~l~~~---l~~~~~~~~l~~r~~~~i~l~~l~~~e  213 (357)
T 2fna_A          138 NVIIVLDEAQELVKLRGVNLLPALAYAYDNLKRIKFIMSGSEMG-LLYDY---LRVEDPESPLFGRAFSTVELKPFSREE  213 (357)
T ss_dssp             CEEEEEETGGGGGGCTTCCCHHHHHHHHHHCTTEEEEEEESSHH-HHHHH---TTTTCTTSTTTTCCCEEEEECCCCHHH
T ss_pred             CeEEEEECHHHhhccCchhHHHHHHHHHHcCCCeEEEEEcCchH-HHHHH---HhccCCCCccccCccceeecCCCCHHH
Confidence            46899999999853    45666766776644456777763100 00000   00001112355564 689999999999


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHH
Q psy18185        105 MEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLT  145 (190)
Q Consensus       105 i~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~  145 (190)
                      ..+++.......|...++.  ..+... ++|.+...-.+..
T Consensus       214 ~~~~l~~~~~~~~~~~~~~--~~i~~~-t~G~P~~l~~~~~  251 (357)
T 2fna_A          214 AIEFLRRGFQEADIDFKDY--EVVYEK-IGGIPGWLTYFGF  251 (357)
T ss_dssp             HHHHHHHHHHHHTCCCCCH--HHHHHH-HCSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCcH--HHHHHH-hCCCHHHHHHHHH
Confidence            9999998776556666554  777788 5888876444433

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.36  E-value=0.00021  Score=53.06  Aligned_cols=59  Identities=17%  Similarity=0.189  Sum_probs=44.3

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC--CCEEEEEecCCcccccCCCCCCCCCC----CChhHhhhh--hheeccCC
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI--APIVIFATNRGRCLVRGTDDIISPHG----IPLDLLDRL--LIIRTTPY  100 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~--~~~iIlatn~~~~~~~~t~~~~~~~~----l~~~l~SR~--~~i~~~~l  100 (190)
                      .+++||||+|.++.+.|..|++++++..  .+.+|++||.         +   +..    +.+++..|+  ..+.++|+
T Consensus        76 ~~~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~iI~~tn~---------~---~~~~~~~~~~~L~~rl~~~~i~lPpL  142 (143)
T 3co5_A           76 GGVLYVGDIAQYSRNIQTGITFIIGKAERCRVRVIASCSY---------A---AGSDGISCEEKLAGLFSESVVRIPPL  142 (143)
T ss_dssp             TSEEEEEECTTCCHHHHHHHHHHHHHHTTTTCEEEEEEEE---------C---TTTC--CHHHHHHHHSSSEEEEECCC
T ss_pred             CCeEEEeChHHCCHHHHHHHHHHHHhCCCCCEEEEEecCC---------C---HHHHHhCccHHHHHHhcCcEEeCCCC
Confidence            3799999999999999999999999853  3678888862         1   222    445677775  34677776

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.19  E-value=0.00055  Score=50.81  Aligned_cols=64  Identities=16%  Similarity=0.059  Sum_probs=45.3

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hheeccCC
Q psy18185         31 GVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LIIRTTPY  100 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i~~~~l  100 (190)
                      ++|||||+|.|+.+.|..|+++++.... ..+|++||......      .....+.+++..|+  ..+.++|+
T Consensus        78 g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~~~~~~------~~~~~~~~~L~~rl~~~~i~lPpL  144 (145)
T 3n70_A           78 GTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDTSLVEL------AASNHIIAELYYCFAMTQIACLPL  144 (145)
T ss_dssp             SCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESSCHHHH------HHHSCCCHHHHHHHHHHEEECCCC
T ss_pred             cEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCcCHHHH------HHcCCCCHHHHHHhcCCEEeCCCC
Confidence            7999999999999999999999976543 67888886210000      00224567888885  45777776

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.09  E-value=0.0015  Score=61.99  Aligned_cols=108  Identities=22%  Similarity=0.274  Sum_probs=72.0

Q ss_pred             CCeEEEEecCCCCCH-----------HHHHHHHHHhhccC---CCEEEEEecCCcccccCCCCCCCCCCCChhHhh--hh
Q psy18185         29 VPGVLFIDEVHMLDL-----------ETFTYLHRALESAI---APIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--RL   92 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~-----------~~~~~L~~~~E~~~---~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--R~   92 (190)
                      .+.||||||+|.|.+           ...+.|+..++.-.   .+.+|.+||             .|..+++.+++  |+
T Consensus       297 ~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN-------------~~d~LD~ALrR~GRF  363 (806)
T 3cf2_A          297 APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATN-------------RPNSIDPALRRFGRF  363 (806)
T ss_dssp             CSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEEEECS-------------STTTSCTTTTSTTSS
T ss_pred             CCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEEEEecC-------------ChhhcCHHHhCCccc
Confidence            368999999999942           34556666665422   244555664             37889999998  66


Q ss_pred             -hheeccCCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHhcCCCCHHHHHHHHHHHHHHh
Q psy18185         93 -LIIRTTPYNQKDMEAIIKLRANTEGHVLDDE-ALVTLSEIGTRSTLRYVVQLLTPAALTA  151 (190)
Q Consensus        93 -~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e-~l~~i~~~a~~gdlR~ai~lL~~~~~~a  151 (190)
                       ..+.++.++.++-.++|+...++..  +.++ -+..|+..+.+......-.++..|+..|
T Consensus       364 d~~I~i~~Pd~~~R~~IL~~~l~~~~--~~~dvdl~~lA~~T~GfsgaDL~~Lv~eA~~~A  422 (806)
T 3cf2_A          364 DREVDIGIPDATGRLEILQIHTKNMK--LADDVDLEQVANETHGHVGADLAALCSEAALQA  422 (806)
T ss_dssp             CEEEECCCCCHHHHHHHHHHTCSSSE--ECTTCCHHHHHHHCCSCCHHHHHHHHHHHHHHH
T ss_pred             ceEEecCCCCHHHHHHHHHHHhcCCC--CCcccCHHHHHHhcCCCCHHHHHHHHHHHHHHH
Confidence             5789999999999999987665432  2222 3677888843335555555666665444

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.04  E-value=0.021  Score=46.93  Aligned_cols=131  Identities=24%  Similarity=0.212  Sum_probs=77.5

Q ss_pred             CCeEEEEecCCCCCH-----------HHHHHHHHHhhccCC--CEEEEEecCCcccccCCCCCCCCCCCChhHhh--hh-
Q psy18185         29 VPGVLFIDEVHMLDL-----------ETFTYLHRALESAIA--PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--RL-   92 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~-----------~~~~~L~~~~E~~~~--~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--R~-   92 (190)
                      .+.++|+||+|.+..           ...+.++..+..+..  ..+++++         ++   .|..++++++.  |+ 
T Consensus       103 ~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~---------tn---~p~~LD~al~r~gRfd  170 (274)
T 2x8a_A          103 APCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAA---------TN---RPDIIDPAILRPGRLD  170 (274)
T ss_dssp             CSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEE---------ES---CGGGSCHHHHSTTSSC
T ss_pred             CCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEee---------cC---ChhhCCHhhcCcccCC
Confidence            357999999998732           233444555543222  3444444         22   36778888887  66 


Q ss_pred             hheeccCCCHHHHHHHHHHHHHhc-CCCCCH-HHHHHHHHhc--CCCCHHHHHHHHHHHHHHhhhc-----------CCC
Q psy18185         93 LIIRTTPYNQKDMEAIIKLRANTE-GHVLDD-EALVTLSEIG--TRSTLRYVVQLLTPAALTAKTN-----------GRT  157 (190)
Q Consensus        93 ~~i~~~~ls~~ei~~iL~~~~~~~-~~~i~~-e~l~~i~~~a--~~gdlR~ai~lL~~~~~~a~~~-----------g~~  157 (190)
                      ..+.++.++.++..++++...+.. ...+++ --+..++..+  .+-+....-+++..|+..|.++           +..
T Consensus       171 ~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~~~~la~~~~~~g~sgadl~~l~~~a~~~a~~~~~~~~~~~~~~~~~  250 (274)
T 2x8a_A          171 KTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQEMARQKSGNEKGEL  250 (274)
T ss_dssp             EEEECCSCCHHHHHHHHHHHTTTTBTTBBCTTCCHHHHHTCSGGGSCCHHHHHHHHHHHHHHHHHHHC-----------C
T ss_pred             eEEEeCCcCHHHHHHHHHHHHhcccCCCCccccCHHHHHHhhccCCcCHHHHHHHHHHHHHHHHHHHHhhccccccccCC
Confidence            568899999999999998876532 222222 2255666531  1223444455566665444321           233


Q ss_pred             cccHHHHHHHHHhc
Q psy18185        158 AISKQDILEVSTLF  171 (190)
Q Consensus       158 ~It~~~V~~~~~~f  171 (190)
                      .||.++...++..+
T Consensus       251 ~i~~~df~~al~~~  264 (274)
T 2x8a_A          251 KVSHKHFEEAFKKV  264 (274)
T ss_dssp             CBCHHHHHHHHTTC
T ss_pred             eecHHHHHHHHHHh
Confidence            68888888887643

>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=96.69  E-value=0.002  Score=61.11  Aligned_cols=105  Identities=25%  Similarity=0.296  Sum_probs=55.4

Q ss_pred             CeEEEEecCCCCCH--------------HHHHHHHHHhhccCC--CEEEE-EecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHMLDL--------------ETFTYLHRALESAIA--PIVIF-ATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~~--~~iIl-atn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.||||||+|.+..              ...+.|+..++.-..  .++|+ +||             .|..++++++.  
T Consensus       571 P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~~V~vi~aTN-------------~p~~lD~AllRpg  637 (806)
T 3cf2_A          571 PCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATN-------------RPDIIDPAILRPG  637 (806)
T ss_dssp             SEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSSSSEEEECC-C-------------CSSSSCHHHHSTT
T ss_pred             CceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCCCCEEEEEeCC-------------CchhCCHhHcCCC
Confidence            58999999999942              245677777774322  34544 554             37889999987  


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhc---CCCCHHHHHHHHHHHHHHh
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIG---TRSTLRYVVQLLTPAALTA  151 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a---~~gdlR~ai~lL~~~~~~a  151 (190)
                      |+ ..+.++.++.++..++++...++..+.- +--++.|++.+   +..|+..+   +..|+..|
T Consensus       638 Rfd~~i~v~lPd~~~R~~il~~~l~~~~~~~-~~dl~~la~~t~g~SGadi~~l---~~~A~~~a  698 (806)
T 3cf2_A          638 RLDQLIYIPLPDEKSRVAILKANLRKSPVAK-DVDLEFLAKMTNGFSGADLTEI---CQRACKLA  698 (806)
T ss_dssp             TSCCEEEC-----CHHHHTTTTTSSCC--CC-C----------------CHHHH---HHHHHHHH
T ss_pred             cceEEEEECCcCHHHHHHHHHHHhcCCCCCC-CCCHHHHHHhCCCCCHHHHHHH---HHHHHHHH
Confidence            77 5788999999999999887665543321 12256666663   23366543   44444433

>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=96.67  E-value=0.0024  Score=53.07  Aligned_cols=88  Identities=13%  Similarity=0.186  Sum_probs=54.9

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHhh--------ccC------CCEEEEEecCCccc-ccCCCCCCCCCCCChhHhhhhhhe
Q psy18185         31 GVLFIDEVHMLDLETFTYLHRALE--------SAI------APIVIFATNRGRCL-VRGTDDIISPHGIPLDLLDRLLII   95 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~~~~L~~~~E--------~~~------~~~iIlatn~~~~~-~~~t~~~~~~~~l~~~l~SR~~~i   95 (190)
                      +.|+++|-..+..++++.+.++++        ...      .+.+|++||-.-.. +.|..   +.....+.|+|||.+|
T Consensus       149 k~i~l~Ee~~~~~d~~~~lr~i~~G~~~~id~K~k~~~~v~~tPvIitsN~~i~~~~~g~~---~s~~~~~~L~sR~~~f  225 (267)
T 1u0j_A          149 KMVIWWEEGKMTAKVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNS---TTFEHQQPLQDRMFKF  225 (267)
T ss_dssp             CSEEEECSCCEETTTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTE---EECTTHHHHHTTEEEE
T ss_pred             cEEEEeccccchhHHHHHHHHHhCCCcEEEecCcCCcccccCCCEEEEecCCcccccccCc---cchhhhHHHhhhEEEE
Confidence            444445555565677788888888        211      24577777621000 00100   0123446799999999


Q ss_pred             ecc--------CCCHHHHHHHHHHHHHhcCCCCCH
Q psy18185         96 RTT--------PYNQKDMEAIIKLRANTEGHVLDD  122 (190)
Q Consensus        96 ~~~--------~ls~~ei~~iL~~~~~~~~~~i~~  122 (190)
                      +|+        ++++++....+... +.+++++++
T Consensus       226 ~F~~~~p~~~~~lt~~~~~~f~~w~-~~~~~~~~~  259 (267)
T 1u0j_A          226 ELTRRLDHDFGKVTKQEVKDFFRWA-KDHVVEVEH  259 (267)
T ss_dssp             ECCSCCCTTSCCCCHHHHHHHHHHH-HHTCCCCCC
T ss_pred             ECCCcCCcccCCCCHHHHHHHHHHH-HHcCCCCcc
Confidence            999        99999999999844 677766654

>1taf_A TFIID TBP associated factor 42; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3

Probab=96.41  E-value=0.024  Score=37.46  Aligned_cols=61  Identities=20%  Similarity=0.243  Sum_probs=51.9

Q ss_pred             HHHHHHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhcc
Q psy18185        108 IIKLRANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFL  172 (190)
Q Consensus       108 iL~~~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~  172 (190)
                      ++.+..+..|+ .+++.+...+.+++    -|++..+|..|..+|+..|++.|+.++|+-++..-.
T Consensus         6 ~i~~iLk~~G~~~~~~~v~~~L~e~~----~ry~~~il~dA~~~a~HAgrktv~~eDVkLAi~~~~   67 (68)
T 1taf_A            6 VIMSILKELNVQEYEPRVVNQLLEFT----FRYVTSILDDAKVYANHARKKTIDLDDVRLATEVTL   67 (68)
T ss_dssp             HHHHHHHHTTCCCBCTHHHHHHHHHH----HHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHTC
T ss_pred             HHHHHHHHCCCcccCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHhcc
Confidence            44555566777 79999999999995    599999999999999999999999999998886543

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.05  E-value=0.0071  Score=45.31  Aligned_cols=51  Identities=22%  Similarity=0.329  Sum_probs=33.8

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhh----ccCCCEEEEEecCCcccccCCCCCCCCCCCC--hhHhhhhh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALE----SAIAPIVIFATNRGRCLVRGTDDIISPHGIP--LDLLDRLL   93 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E----~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~--~~l~SR~~   93 (190)
                      +++|+|||++.++...+..|..+++    .+ .+.+|++||.            +|..+.  ++++||+.
T Consensus        84 ~~lLilDE~~~~~~~~~~~l~~li~~~~~~g-~~~iiits~~------------~p~~l~~~~~L~SRl~  140 (149)
T 2kjq_A           84 AEYLAVDQVEKLGNEEQALLFSIFNRFRNSG-KGFLLLGSEY------------TPQQLVIREDLRTRMA  140 (149)
T ss_dssp             CSEEEEESTTCCCSHHHHHHHHHHHHHHHHT-CCEEEEEESS------------CTTTSSCCHHHHHHGG
T ss_pred             CCEEEEeCccccChHHHHHHHHHHHHHHHcC-CcEEEEECCC------------CHHHccccHHHHHHHh
Confidence            4799999999998655666666554    32 2446777752            233332  89999984

>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=95.33  E-value=0.028  Score=59.58  Aligned_cols=72  Identities=19%  Similarity=0.230  Sum_probs=56.2

Q ss_pred             eEEEEecCCCCCH------HHHHHHHHHhhccC-------------CCEEEEEecCCcccccCCCCCCCC-----CCCCh
Q psy18185         31 GVLFIDEVHMLDL------ETFTYLHRALESAI-------------APIVIFATNRGRCLVRGTDDIISP-----HGIPL   86 (190)
Q Consensus        31 ~Il~IDEi~~L~~------~~~~~L~~~~E~~~-------------~~~iIlatn~~~~~~~~t~~~~~~-----~~l~~   86 (190)
                      .|+||||+|.-..      .....|+..+|.+.             ...+|.|+|             ||     +.+++
T Consensus      1338 ~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~N-------------pp~~gGR~~l~~ 1404 (2695)
T 4akg_A         1338 LVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACN-------------PPTDPGRIPMSE 1404 (2695)
T ss_dssp             EEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEEC-------------CTTSTTCCCCCH
T ss_pred             EEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecC-------------CCccCCCccCCh
Confidence            5999999887643      47788888888532             135666774             23     46899


Q ss_pred             hHhhhhhheeccCCCHHHHHHHHHHHHHh
Q psy18185         87 DLLDRLLIIRTTPYNQKDMEAIIKLRANT  115 (190)
Q Consensus        87 ~l~SR~~~i~~~~ls~~ei~~iL~~~~~~  115 (190)
                      .|++||.++.++.++++++..|+..+...
T Consensus      1405 rllRrf~vi~i~~P~~~~l~~I~~~il~~ 1433 (2695)
T 4akg_A         1405 RFTRHAAILYLGYPSGKSLSQIYEIYYKA 1433 (2695)
T ss_dssp             HHHTTEEEEECCCCTTTHHHHHHHHHHHH
T ss_pred             hhhheeeEEEeCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999999999877653

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=94.82  E-value=0.018  Score=44.60  Aligned_cols=62  Identities=21%  Similarity=0.232  Sum_probs=40.6

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh-hheeccCC
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LIIRTTPY  100 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~-~~i~~~~l  100 (190)
                      ..+|+|||+|.++++....|.++.+.+  ..+++++..       ++-..+|+..++.+++++ .+.+++.+
T Consensus        77 ~dvviIDE~Q~~~~~~~~~l~~l~~~~--~~Vi~~Gl~-------~~f~~~~f~~~~~ll~~ad~v~~l~~i  139 (184)
T 2orw_A           77 TRGVFIDEVQFFNPSLFEVVKDLLDRG--IDVFCAGLD-------LTHKQNPFETTALLLSLADTVIKKKAV  139 (184)
T ss_dssp             EEEEEECCGGGSCTTHHHHHHHHHHTT--CEEEEEEES-------BCTTSCBCHHHHHHHHHCSEEEECCBC
T ss_pred             CCEEEEECcccCCHHHHHHHHHHHHCC--CCEEEEeec-------cccccCCccchHHHHHHhhheEEeeee
Confidence            469999999999888888888888873  335554431       211113555567788887 34455544

>4dra_A Centromere protein S; DNA binding complex, DNA damage repair, histone-fold, DNA BI protein; 2.41A {Homo sapiens} PDB: 4drb_A

Probab=94.37  E-value=0.16  Score=36.75  Aligned_cols=60  Identities=15%  Similarity=0.228  Sum_probs=49.0

Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        106 EAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       106 ~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ..+++..+...|+.++++++..|++..    .+++.++..-+..+|+-.|++.|+.+||.-+..
T Consensus        34 ~rIvke~gaer~~~vS~~ai~aL~El~----~~~~~~ia~Dl~~fAkHAgRkTI~~eDV~La~R   93 (113)
T 4dra_A           34 GCLCEEVALDKEMQFSKQTIAAISELT----FRQCENFAKDLEMFARHAKRTTINTEDVKLLAR   93 (113)
T ss_dssp             HHHHHHHHHHHTCCBCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCCcCHHHHHHHHHHH----HHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHH
Confidence            444554555578999999999999993    688889998888889889999999999986653

>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=94.33  E-value=0.041  Score=42.33  Aligned_cols=70  Identities=16%  Similarity=0.175  Sum_probs=49.7

Q ss_pred             CeEEEEecCC---CCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhh--hhheeccCCCHHH
Q psy18185         30 PGVLFIDEVH---MLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR--LLIIRTTPYNQKD  104 (190)
Q Consensus        30 ~~Il~IDEi~---~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR--~~~i~~~~ls~~e  104 (190)
                      +.++++||++   .++...+..+.+++++. ++.+|++++.       +    ....+...+.+|  |.++.+.+.+.++
T Consensus       100 p~llilDEigp~~~ld~~~~~~l~~~l~~~-~~~~i~~~H~-------~----h~~~~~~~i~~r~~~~i~~~~~~~r~~  167 (178)
T 1ye8_A          100 RKVIIIDEIGKMELFSKKFRDLVRQIMHDP-NVNVVATIPI-------R----DVHPLVKEIRRLPGAVLIELTPENRDV  167 (178)
T ss_dssp             TCEEEECCCSTTGGGCHHHHHHHHHHHTCT-TSEEEEECCS-------S----CCSHHHHHHHTCTTCEEEECCTTTTTT
T ss_pred             CCEEEEeCCCCcccCCHHHHHHHHHHHhcC-CCeEEEEEcc-------C----CCchHHHHHHhcCCcEEEEecCcCHHH
Confidence            5899999964   45678899999999884 4556777741       1    122234567888  8899999988877


Q ss_pred             HHHHHHH
Q psy18185        105 MEAIIKL  111 (190)
Q Consensus       105 i~~iL~~  111 (190)
                      +...|..
T Consensus       168 ~~~~l~~  174 (178)
T 1ye8_A          168 ILEDILS  174 (178)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7666543

>3b0b_B CENP-S, centromere protein S; histone fold, DNA binding, DNA, nucleus, DNA binding protein; 2.15A {Gallus gallus}

Probab=94.00  E-value=0.25  Score=35.39  Aligned_cols=60  Identities=17%  Similarity=0.290  Sum_probs=48.5

Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      .+++..+...|..++++++..|.+..    .+++.++..-+..+|+..|++.|+.+||+-++.-
T Consensus        27 rI~~~~g~~~~~~vs~~~i~aL~E~~----~~~~~~ia~Da~~fA~HAgRkTI~~eDV~La~Rr   86 (107)
T 3b0b_B           27 CLCQDVAEDKGVLFSKQTVAAISEIT----FRQCENFARDLEMFARHAKRSTITSEDVKLLARR   86 (107)
T ss_dssp             HHHHHHHHHHTCEECHHHHHHHHHHH----HHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTT
T ss_pred             HHHHHHhhhcCCccCHHHHHHHHHHH----HHHHHHHHHHHHHHHHhcCcCcCCHHHHHHHHHh
Confidence            33444444457789999999999993    6899999999999999899999999999977643

>3v9r_A MHF1, uncharacterized protein YOL086W-A; histone fold, fanconi anemia, DNA repair, DNA BI protein; 2.40A {Saccharomyces cerevisiae}

Probab=93.86  E-value=0.17  Score=35.10  Aligned_cols=49  Identities=16%  Similarity=0.174  Sum_probs=43.1

Q ss_pred             cCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185        116 EGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       116 ~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      .|+.++++++..|++..    .+++.++..-+..+|+..|++.|+.++|.-+.
T Consensus        29 ~g~~vs~~~i~aL~e~~----~~~~~~ia~Dl~~fA~HAgRkTI~~eDV~L~~   77 (90)
T 3v9r_A           29 EDIKYTPRFINSLLELA----YLQLGEMGSDLQAFARHAGRGVVNKSDLMLYL   77 (90)
T ss_dssp             SCCCCCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHTTCSEECHHHHHHHT
T ss_pred             cCceeCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHcCCCccCHHHHHHHH
Confidence            46899999999999993    68888899888888988999999999998654

>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=93.69  E-value=0.23  Score=32.83  Aligned_cols=57  Identities=25%  Similarity=0.194  Sum_probs=44.6

Q ss_pred             HHHHHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        109 IKLRANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       109 L~~~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ++..++.-|+ .+++++...|+... +.   ++-++++.+..+++..|++.+|.+||..++.
T Consensus        12 v~~iaes~Gi~~lsddaa~~LA~dv-Ey---r~~eI~qeA~kfmrHakRk~Lt~~DI~~Alk   69 (70)
T 1taf_B           12 MKVIAESIGVGSLSDDAAKELAEDV-SI---KLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             HHHHHHHTTCCCBCHHHHHHHHHHH-HH---HHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             HHHHHHHCCCCCCCHHHHHHHHHHH-HH---HHHHHHHHHHHHHHHcCCCeecHHHHHHHHc
Confidence            3444556677 79999999999984 43   3566778888888888999999999998764

>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Homo sapiens}

Probab=93.64  E-value=0.26  Score=32.47  Aligned_cols=74  Identities=16%  Similarity=0.170  Sum_probs=54.2

Q ss_pred             cCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhcc
Q psy18185         98 TPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFL  172 (190)
Q Consensus        98 ~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~  172 (190)
                      +.++.++-.+||+...++..+. ++--++.|++.+.+-+-...-+++..|+..|.+++...||.+++..++.-+.
T Consensus         1 plPd~~~R~~Il~~~l~~~~~~-~~~dl~~la~~t~G~SGADi~~l~~eA~~~a~~~~~~~i~~~d~~~Al~~v~   74 (78)
T 3kw6_A            1 PPPNEEARLDILKIHSRKMNLT-RGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVM   74 (78)
T ss_dssp             CCCCHHHHHHHHHHHHTTSEEC-TTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHHhcCCCCC-CccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Confidence            3578888899999887654321 2224788888853336667777888888888888888999999999886543

>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=93.40  E-value=0.18  Score=37.79  Aligned_cols=37  Identities=19%  Similarity=0.126  Sum_probs=27.3

Q ss_pred             CeEEEEecCC--CCCHHHHHHHHHHhhcc--CCCEEEEEec
Q psy18185         30 PGVLFIDEVH--MLDLETFTYLHRALESA--IAPIVIFATN   66 (190)
Q Consensus        30 ~~Il~IDEi~--~L~~~~~~~L~~~~E~~--~~~~iIlatn   66 (190)
                      +.+|+|||++  .++...+..|..+++..  .+..+|++||
T Consensus       101 ~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn  141 (180)
T 3ec2_A          101 SPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTN  141 (180)
T ss_dssp             CSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECC
T ss_pred             CCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcC
Confidence            5899999999  56777777777777643  2356788886

>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=92.59  E-value=0.52  Score=40.09  Aligned_cols=86  Identities=22%  Similarity=0.214  Sum_probs=56.4

Q ss_pred             CeEEEEecCCCCC----HHHHHHHHHHhhccCC--CEEEEEecCCcccccCCCCCCCCCCCC--------hhHhhhhhhe
Q psy18185         30 PGVLFIDEVHMLD----LETFTYLHRALESAIA--PIVIFATNRGRCLVRGTDDIISPHGIP--------LDLLDRLLII   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~----~~~~~~L~~~~E~~~~--~~iIlatn~~~~~~~~t~~~~~~~~l~--------~~l~SR~~~i   95 (190)
                      +.+++|||+|.+.    +.....+.+.+.+..+  ..++++|..             |..+.        .++.+.|...
T Consensus       263 ~~~i~iDEa~~~~~~~~~~~~~~l~~~~~~~Rk~g~~~~~~tQ~-------------~~d~~~~~~~~~~~~il~n~~~~  329 (392)
T 4ag6_A          263 RTVLVVDEAWMLVDPQTPQAIAFLRDTSKRIRKYNGSLIVISQN-------------VIDFLAPEVQRYGQALLDNPTYK  329 (392)
T ss_dssp             TCEEEETTGGGGCCTTCTHHHHHHHHHHHHGGGGTCEEEEEESC-------------GGGGGSTTTHHHHHHHHHSCSEE
T ss_pred             cEEEEEecHHHHhCcCchHHHHHHHHHHHHhhhhCeEEEEEcCC-------------HHHhhChhhHHHHHHHHHhhhhh
Confidence            6799999999995    3455566666655443  678888842             33332        3688888665


Q ss_pred             eccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC
Q psy18185         96 RTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS  135 (190)
Q Consensus        96 ~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g  135 (190)
                      -+-+.++.++..+.+    ..+  ++++.++.|... ..|
T Consensus       330 i~l~~~~~~~~~~~~----~~~--ls~~e~~~l~~~-~~G  362 (392)
T 4ag6_A          330 LLLAQGEKDLEAITT----LMN--LSEAEHDLLVNA-KRG  362 (392)
T ss_dssp             EECSCCHHHHHHHHH----HTT--CCHHHHHHHHTC-CTT
T ss_pred             heeCCChhhHHHHHH----HhC--CCHHHHHhccCC-CCc
Confidence            555667776554332    233  789888888877 344

>3vh5_A CENP-S; histone fold, chromosome segregation, DNA binding, nucleus, binding protein; 2.40A {Gallus gallus} PDB: 3vh6_A

Probab=92.49  E-value=0.44  Score=35.65  Aligned_cols=55  Identities=18%  Similarity=0.318  Sum_probs=46.3

Q ss_pred             HHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185        110 KLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       110 ~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      ...+...|+.++++++..|+...    .+++.++..-+..+|+..|++.|+.+||.-++
T Consensus        30 ee~~~~~~~~vS~~ai~aL~El~----~~~~e~ia~DLe~FAkHAGRKTI~~eDVkLa~   84 (140)
T 3vh5_A           30 QDVAEDKGVLFSKQTVAAISEIT----FRQAENFARDLEMFARHAKRSTITSEDVKLLA   84 (140)
T ss_dssp             HHHHHHHTCEECHHHHHHHHHHH----HHHHHHHHHHHHHHHHHTTCSEECHHHHHHHH
T ss_pred             HHHHHhcCCCcCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHcCCCccCHHHHHHHH
Confidence            33334468999999999999993    68888999888888988999999999998766

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens}

Probab=91.74  E-value=0.38  Score=32.63  Aligned_cols=72  Identities=15%  Similarity=0.127  Sum_probs=51.8

Q ss_pred             cCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185         98 TPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus        98 ~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      .|++.++-.+||+...++..+. ++--++.|++.+.+-+--..-+++..|+..|.+++...||.+++..++.-
T Consensus         9 ~~Pd~~~R~~IL~~~l~~~~l~-~dvdl~~LA~~T~G~SGADL~~l~~eAa~~alr~~~~~I~~~df~~Al~~   80 (86)
T 2krk_A            9 SHPNEEARLDILKIHSRKMNLT-RGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAK   80 (86)
T ss_dssp             CCCCHHHHHHHHHHHTTTSEEC-TTCCCHHHHHTCSSCCHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHHcCCCCC-cccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            4788999999998887654322 12226778888533355666677888888888888889999999888753

>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A {Pyrococcus horikoshii} SCOP: a.22.1.2

Probab=91.68  E-value=0.97  Score=29.37  Aligned_cols=63  Identities=17%  Similarity=0.241  Sum_probs=49.9

Q ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        100 YNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       100 ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ++..-+..+++..   ....+++++...+.+.+    -++..++++.+..+|+..|+..|+.+||.-++.
T Consensus         7 lp~a~v~Rl~r~~---g~~ris~~a~~~l~e~~----~~~~~~v~~dA~~~a~hakRkTI~~~DV~lA~~   69 (70)
T 1ku5_A            7 LPIAPVDRLIRKA---GAERVSEQAAKVLAEYL----EEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIK   69 (70)
T ss_dssp             SCHHHHHHHHHHT---TCSEECHHHHHHHHHHH----HHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHT
T ss_pred             CChHHHHHHHHHc---CcceeCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence            4455566666642   34479999999999994    378899999999999999999999999987753

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=90.31  E-value=0.082  Score=41.56  Aligned_cols=57  Identities=11%  Similarity=0.040  Sum_probs=36.4

Q ss_pred             CeEEEEecCCCC--CH-HHH--HHHHHHhhccCC--CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh-heeccC
Q psy18185         30 PGVLFIDEVHML--DL-ETF--TYLHRALESAIA--PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL-IIRTTP   99 (190)
Q Consensus        30 ~~Il~IDEi~~L--~~-~~~--~~L~~~~E~~~~--~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~-~i~~~~   99 (190)
                      ..||+|||+|.+  .. +..  .-++..++....  ..+|++|+             ++..+...+++|+. .+.+.+
T Consensus        88 ~~vliIDEAq~l~~~~~~~~e~~rll~~l~~~r~~~~~iil~tq-------------~~~~l~~~lr~ri~~~~~l~~  152 (199)
T 2r2a_A           88 GSIVIVDEAQDVWPARSAGSKIPENVQWLNTHRHQGIDIFVLTQ-------------GPKLLDQNLRTLVRKHYHIAS  152 (199)
T ss_dssp             TCEEEETTGGGTSBCCCTTCCCCHHHHGGGGTTTTTCEEEEEES-------------CGGGBCHHHHTTEEEEEEEEE
T ss_pred             ceEEEEEChhhhccCccccchhHHHHHHHHhcCcCCeEEEEECC-------------CHHHHhHHHHHHhheEEEEcC
Confidence            479999999999  22 111  123344444332  56888884             36778889999974 456655

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=90.08  E-value=0.26  Score=39.49  Aligned_cols=59  Identities=19%  Similarity=0.213  Sum_probs=36.4

Q ss_pred             CeEEEEecCCCCCHH-HHHHHHHHhhccC--------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhh
Q psy18185         30 PGVLFIDEVHMLDLE-TFTYLHRALESAI--------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLI   94 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~-~~~~L~~~~E~~~--------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~   94 (190)
                      .+|++|||++.-..+ ....+..+++..+              .|-+|++||        . ++ ......+.|.||+..
T Consensus       104 ~kIiiLDEad~~~~~~~d~~lrn~ldG~~~~iD~Khr~~~~~~~~PlIITtN--------~-~~-~~~~~~~~L~SRi~~  173 (212)
T 1tue_A          104 TKVAMLDDATTTCWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTN--------I-HP-AKDNRWPYLESRITV  173 (212)
T ss_dssp             CSSEEEEEECHHHHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEES--------S-CT-TSSSSCHHHHTSCEE
T ss_pred             CCEEEEECCCchhHHHHHHHHHHHhCCCcccHHHhhcCccccCCCCEEEecC--------C-Cc-ccccchhhhhhhEEE
Confidence            579999999843222 2345666666542              245788886        2 11 112223679999998


Q ss_pred             eecc
Q psy18185         95 IRTT   98 (190)
Q Consensus        95 i~~~   98 (190)
                      +.|+
T Consensus       174 f~F~  177 (212)
T 1tue_A          174 FEFP  177 (212)
T ss_dssp             EECC
T ss_pred             EEcC
Confidence            8887

>2yfw_B Histone H4, H4; cell cycle, kinetochore, centromere, histone chaperone, BUDD; 2.60A {Kluyveromyces lactis nrrl y-1140}

Probab=89.76  E-value=0.87  Score=32.10  Aligned_cols=63  Identities=6%  Similarity=0.161  Sum_probs=48.1

Q ss_pred             CCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        100 YNQKDMEAIIKLRANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       100 ls~~ei~~iL~~~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      ++..-+..+++    ..|+ .|++++.++++... +   .++-++++.|..+++..++..||.+||..++.-
T Consensus        30 ip~~~I~Rlar----~~G~~rIs~~a~~~l~~vl-e---~~~~~V~~dA~~~a~hakRktvt~~DV~~Alr~   93 (103)
T 2yfw_B           30 ITKPAIRRLAR----RGGVKRISGLIYEEVRNVL-K---TFLESVIRDAVTYTEHAKRKTVTSLDVVYALKR   93 (103)
T ss_dssp             CCHHHHHHHHH----HTTCCEECTTHHHHHHHHH-H---HHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             CCHHHHHHHHH----HcCccccCHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHH
Confidence            55555555554    3455 48899999998883 3   467788888888898899999999999988853

>1tzy_D Histone H4-VI; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1f66_B 1eqz_D 1hq3_D 1u35_B 2aro_D 2cv5_B* 2f8n_B 3nqu_B 3r45_B 3azg_B 3a6n_B 3an2_B 3av1_B 3av2_B 3ayw_B 3aze_B 3azf_B 3afa_B 3azh_B 3azk_B ...

Probab=89.63  E-value=0.9  Score=31.99  Aligned_cols=63  Identities=6%  Similarity=0.130  Sum_probs=48.0

Q ss_pred             CCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        100 YNQKDMEAIIKLRANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       100 ls~~ei~~iL~~~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      ++..-+..+++    ..|+ .|++++.++++... +   .++-++++.|..+++..++..||.+||..++.-
T Consensus        30 ip~~~I~Rlar----~~G~~rIs~~a~~~l~~vl-e---~~~~~V~~dA~~~a~hakRktIt~~DV~~Alr~   93 (103)
T 1tzy_D           30 ITKPAIRRLAR----RGGVKRISGLIYEETRGVL-K---VFLENVIRDAVTYTEHAKRKTVTAMDVVYALKR   93 (103)
T ss_dssp             SCHHHHHHHHH----HTTCCEECTTHHHHHHHHH-H---HHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             CCHHHHHHHHH----HcCccccCHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHH
Confidence            55555555544    3455 48899999998883 3   467788888888998899999999999988853

>1f6v_A DNA transposition protein; MU phage, recombination, ATPase, DNA binding, high salt, solution structure, DNA binding protein; HET: DNA; NMR {Enterobacteria phage MU} SCOP: a.49.1.1

Probab=89.56  E-value=0.21  Score=34.77  Aligned_cols=70  Identities=20%  Similarity=0.217  Sum_probs=55.0

Q ss_pred             heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         94 IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGT-RSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        94 ~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~-~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      .+.++....+|+..+++    ..|+ -++++..++..++. .|.+|..-..|..|+-.|..+|.. ||.++|+.++.
T Consensus         7 r~~i~k~kk~DI~Aia~----AW~v-~d~~~~~~l~~I~~KpGaLR~ltktLrLA~m~A~G~g~~-i~~~~I~~A~~   77 (91)
T 1f6v_A            7 RTAINKTKKADVKAIAD----AWQI-NGEKELELLQQIAQKPGALRILNHSLRLAAMTAHGKGER-VNEDYLRQAFR   77 (91)
T ss_dssp             TTCCSSCSGGGTTHHHH----SSTT-SSSHHHHHHHTTSSSCSCHHHHHHHHGGGTCTTCTTSCC-SSHHHHHHHHT
T ss_pred             hhhccCCCHHHHHHHHH----HhCC-CCHHHHHHHHHHccCccHHHHHHHHHHHHHHHhccCCCc-CCHHHHHHHHH
Confidence            45677888888887764    4676 47788888888853 389999999999888777666664 99999999884

>1id3_B Histone H4; nucleosome core particle, chromatin, protein/DNA interaction, nucleoprotein, supercoiled DNA; 3.10A {Saccharomyces cerevisiae} SCOP: a.22.1.1

Probab=89.31  E-value=0.99  Score=31.82  Aligned_cols=66  Identities=5%  Similarity=0.132  Sum_probs=50.0

Q ss_pred             ccCCCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185         97 TTPYNQKDMEAIIKLRANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus        97 ~~~ls~~ei~~iL~~~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      ...++...+..+++    ..|+ .|++++.+.+.... +   .++-++++.|..+++..++..||.+||..++..
T Consensus        26 i~~ip~~~I~Rlar----~~Gv~rIS~da~~~l~~~l-e---~fi~~I~~dA~~~a~HakRKTVt~~DV~~ALkr   92 (102)
T 1id3_B           26 IQGITKPAIRRLAR----RGGVKRISGLIYEEVRAVL-K---SFLESVIRDSVTYTEHAKRKTVTSLDVVYALKR   92 (102)
T ss_dssp             GGGSCHHHHHHHHH----HTTCCEECTTHHHHHHHHH-H---HHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHH----HcCchhccHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHH
Confidence            44466666655554    3466 48999999998883 3   467778888888898899999999999988853

>4dra_E Centromere protein X; DNA binding complex, DNA damage repair, histone-fold, DNA BI protein; 2.41A {Homo sapiens} PDB: 4drb_J

Probab=89.30  E-value=0.74  Score=31.49  Aligned_cols=70  Identities=17%  Similarity=0.271  Sum_probs=46.3

Q ss_pred             CCCCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCccc
Q psy18185         81 PHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAIS  160 (190)
Q Consensus        81 ~~~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It  160 (190)
                      ...+|+++.+|+....|+                ..+-.|+++++..++++. +  + .+...+.++...|+.+|...|+
T Consensus        10 ~~~i~~~li~ril~~~F~----------------~~kTkIs~dAl~l~aeyl-~--i-FV~EAv~RA~~~a~~e~~~~le   69 (84)
T 4dra_E           10 GSGFRKELVSRLLHLHFK----------------DDKTKVSGDALQLMVELL-K--V-FVVEAAVRGVRQAQAEDALRVD   69 (84)
T ss_dssp             -CCCCHHHHHHHHHTTCS----------------STTCEECHHHHHHHHHHH-H--H-HHHHHHHHHHHHHHHTTCSSBC
T ss_pred             CCCCCHHHHHHHHHHHhc----------------CCCccccHHHHHHHHHHH-H--H-HHHHHHHHHHHHHHhcCCCccc
Confidence            345677776665543343                345678999999999883 2  1 2333445555556667888999


Q ss_pred             HHHHHHHHHh
Q psy18185        161 KQDILEVSTL  170 (190)
Q Consensus       161 ~~~V~~~~~~  170 (190)
                      ++++++++.+
T Consensus        70 ~e~LEki~pQ   79 (84)
T 4dra_E           70 VDQLEKVLPQ   79 (84)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998854

>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=89.24  E-value=1  Score=41.06  Aligned_cols=70  Identities=21%  Similarity=0.166  Sum_probs=53.1

Q ss_pred             CCeEEEEecCCCC----CHHHHHHHHHHhhccCC--CEEEEEecCCcccccCCCCCCCCC--CCChhHhhhh-hheeccC
Q psy18185         29 VPGVLFIDEVHML----DLETFTYLHRALESAIA--PIVIFATNRGRCLVRGTDDIISPH--GIPLDLLDRL-LIIRTTP   99 (190)
Q Consensus        29 ~~~Il~IDEi~~L----~~~~~~~L~~~~E~~~~--~~iIlatn~~~~~~~~t~~~~~~~--~l~~~l~SR~-~~i~~~~   99 (190)
                      ++-+++|||+|.|    .++....|.++...+..  ..+|++|.+             |.  .++..+++-| ..+.|.-
T Consensus       343 P~ivvVIDE~~~L~~~~~~~~~~~L~~Iar~GRa~GIhLIlaTQR-------------Ps~d~I~~~Iran~~~RI~lrv  409 (574)
T 2iut_A          343 PTIVVVVDEFADMMMIVGKKVEELIARIAQKARAAGIHLILATQR-------------PSVDVITGLIKANIPTRIAFQV  409 (574)
T ss_dssp             CEEEEEESCCTTHHHHTCHHHHHHHHHHHHHCTTTTEEEEEEESC-------------CCTTTSCHHHHHTCCEEEEECC
T ss_pred             CcEEEEEeCHHHHhhhhhHHHHHHHHHHHHHHhhCCeEEEEEecC-------------cccccccHHHHhhhccEEEEEc
Confidence            4468889999988    35677888888887765  678888842             33  6788899988 4577888


Q ss_pred             CCHHHHHHHHHH
Q psy18185        100 YNQKDMEAIIKL  111 (190)
Q Consensus       100 ls~~ei~~iL~~  111 (190)
                      -+..+...+|..
T Consensus       410 ~s~~Dsr~ILd~  421 (574)
T 2iut_A          410 SSKIDSRTILDQ  421 (574)
T ss_dssp             SCHHHHHHHHSS
T ss_pred             CCHHHHHHhcCc
Confidence            888888888753

>3b0b_C CENP-X, centromere protein X; histone fold, DNA binding, DNA, nucleus, DNA binding protein; 2.15A {Gallus gallus} PDB: 3vh5_D 3vh6_D

Probab=89.07  E-value=0.97  Score=30.65  Aligned_cols=70  Identities=17%  Similarity=0.250  Sum_probs=47.5

Q ss_pred             CCCCChhHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCccc
Q psy18185         81 PHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAIS  160 (190)
Q Consensus        81 ~~~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It  160 (190)
                      ...+||++.+|+..-.|+.                .+-.|+++++..++++- +-   .+..-+.++...|+.+|...|+
T Consensus         6 ~~~~~~~lI~ril~~~f~~----------------~ktrI~~dAl~l~aeyl-~i---FV~EAv~RA~~~a~~e~~~~le   65 (81)
T 3b0b_C            6 EGGFRKETVERLLRLHFRD----------------GRTRVNGDALLLMAELL-KV---FVREAAARAARQAQAEDLEKVD   65 (81)
T ss_dssp             -CCCCHHHHHHHHHHHCCS----------------TTCEECHHHHHHHHHHH-HH---HHHHHHHHHHHHHHHTTCSEEC
T ss_pred             CCCCCHHHHHHHHHHHhcc----------------CcccccHHHHHHHHHHH-HH---HHHHHHHHHHHHHHhCCCCeec
Confidence            3457777777765545543                35578999999999982 21   2333345555556667888999


Q ss_pred             HHHHHHHHHh
Q psy18185        161 KQDILEVSTL  170 (190)
Q Consensus       161 ~~~V~~~~~~  170 (190)
                      ++++++++.+
T Consensus        66 ~~~LEki~pq   75 (81)
T 3b0b_C           66 IEHVEKVLPQ   75 (81)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998844

>2hue_C Histone H4; mini beta sheet, elongated beta sandwhich, DNA binding prote; 1.70A {Xenopus laevis} SCOP: a.22.1.1 PDB: 3nqj_B 1aoi_B 3kwq_B* 1hio_D 2yfv_B

Probab=88.73  E-value=0.92  Score=30.72  Aligned_cols=55  Identities=9%  Similarity=0.106  Sum_probs=43.1

Q ss_pred             HHHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        111 LRANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       111 ~~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +.++..|+ .+++++.+.+.... +   .++-++++.|..+++..|++.||.+||..++.
T Consensus        18 Riar~~Gv~rIs~da~~~l~~~l-~---~~~~~I~~dA~~~a~ha~RKTvt~~DV~~Alk   73 (84)
T 2hue_C           18 RLARRGGVKRISGLIYEETRGVL-K---VFLENVIRDAVTYTEHAKRKTVTAMDVVYALK   73 (84)
T ss_dssp             HHHHHTTCCEECTTHHHHHHHHH-H---HHHHHHHHHHHHHHHHTTCSEECHHHHHHHTT
T ss_pred             HHHHHcCchhccHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHcCCCcCcHHHHHHHHH
Confidence            33444566 48999999998873 3   46777888888888889999999999998874

>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B* 2dvw_B*

Probab=88.26  E-value=1.8  Score=28.48  Aligned_cols=71  Identities=7%  Similarity=0.051  Sum_probs=50.5

Q ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhc
Q psy18185        100 YNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLF  171 (190)
Q Consensus       100 ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f  171 (190)
                      ++.++..+||+...++..+. ++--++.|++.+.+-+--..-+++..|+..|.+++...||.+++..++.-.
T Consensus         1 ~d~~~R~~Il~~~l~~~~~~-~~vdl~~la~~t~G~SGADi~~l~~eA~~~a~~~~~~~i~~~df~~Al~~~   71 (83)
T 3aji_B            1 MDRRQKRLIFSTITSKMNLS-EEVDLEDYVARPDKISGADINSICQESGMLAVRENRYIVLAKDFEKAYKTV   71 (83)
T ss_dssp             CCHHHHHHHHHHHHTTSCBC-TTCCTHHHHTSSCCCCHHHHHHHHHHHHHGGGTSCCSSBCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhCCCCCC-cccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhccCCcCHHHHHHHHHHH
Confidence            46778888998877654332 122377888884233556666778888888888888899999999888644

>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=87.29  E-value=14  Score=39.64  Aligned_cols=108  Identities=13%  Similarity=0.097  Sum_probs=68.0

Q ss_pred             eEEEEecCCCCCHHHHHHHH-------HHhhccC--------------CCEEEEEecCCcccccCCCCCCCCCCCChhHh
Q psy18185         31 GVLFIDEVHMLDLETFTYLH-------RALESAI--------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLL   89 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~~~~L~-------~~~E~~~--------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~   89 (190)
                      ..+++||++++..+..+++.       ..+.+..              .+.++++.|      +   ++..-..+|..++
T Consensus       699 aw~~~DE~nr~~~evLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~N------P---gy~g~~eLP~~Lk  769 (2695)
T 4akg_A          699 AWGCFDEFNRLDEKVLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLN------P---GYNGRSELPENLK  769 (2695)
T ss_dssp             CEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEEC------C---CSSSSCCCCHHHH
T ss_pred             CEeeehhhhhcChHHHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeC------C---CccCcccccHHHH
Confidence            58999999999998888883       3332211              122333333      1   1112346899999


Q ss_pred             hhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh-------cC-----CCCHHHHHHHHHHHHHH
Q psy18185         90 DRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEI-------GT-----RSTLRYVVQLLTPAALT  150 (190)
Q Consensus        90 SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~-------a~-----~gdlR~ai~lL~~~~~~  150 (190)
                      +||..+.+..++.+.+.+++...   .|+...+.....+...       .+     ..++|....+|..|..+
T Consensus       770 ~~Fr~v~m~~Pd~~~i~ei~l~s---~Gf~~a~~la~kiv~~~~l~~e~ls~q~hydfglRalksvL~~ag~l  839 (2695)
T 4akg_A          770 KSFREFSMKSPQSGTIAEMILQI---MGFEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNCSPL  839 (2695)
T ss_dssp             TTEEEEECCCCCHHHHHHHHHHH---HHCSSHHHHHHHHHHHHHHHHHHSCCCTTCCCSHHHHHHHHHHHHHH
T ss_pred             hheEEEEeeCCCHHHHHHHHHHh---cCCCchHHHHHHHHHHHHHHHHHhCcCCcccccHHHHHHHHHHHHHh
Confidence            99999999999999988887644   3544444443333321       11     24788877777766543

>3b0c_T CENP-T, centromere protein T; histone fold, DNA binding, DNA binding protein; HET: CIT; 2.20A {Gallus gallus} PDB: 3b0d_T* 3vh5_T 3vh6_T

Probab=87.28  E-value=2.4  Score=30.26  Aligned_cols=63  Identities=13%  Similarity=0.150  Sum_probs=48.1

Q ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        100 YNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       100 ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ++...+..++++.   .+..+++++.+.+.+..    -.++.++...+..+|+..|++.|+.+||..++.
T Consensus         8 lP~a~I~Ri~r~~---g~~rIS~~a~~~l~e~l----~~f~~~v~~da~~~A~HA~RKTV~~eDV~lalr   70 (111)
T 3b0c_T            8 IASSLIKQIFSHY---VKTPVTRDAYKIVEKCS----ERYFKQISSDLEAYSQHAGRKTVEMADVELLMR   70 (111)
T ss_dssp             --CHHHHHHHHHH---HCSCBCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             CCHHHHHHHHHHC---CCCccCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence            3344555555433   34579999999999984    367888888888899989999999999999883

>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone, chaperone-protein binding complex; HET: DNA; 3.80A {Saccharomyces cerevisiae} PDB: 4a3v_B*

Probab=86.53  E-value=1.8  Score=29.11  Aligned_cols=69  Identities=14%  Similarity=0.127  Sum_probs=48.1

Q ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        101 NQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       101 s~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      +.++-.+||+...++..+. ++--++.|++.+.+-+--..-+++..|+..|.+++...||.+++..++.-
T Consensus         2 d~~~R~~Il~~~~~~~~~~-~dvdl~~lA~~t~G~SGADl~~l~~eAa~~a~r~~~~~i~~~df~~Al~~   70 (88)
T 3vlf_B            2 DLEGRANIFRIHSKSMSVE-RGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRKVATEKDFLKAVDK   70 (88)
T ss_dssp             CSSHHHHHHHHHHTTSCBC-SCCCHHHHHHTCSSCCHHHHHHHHHHHHHHHHHHSCSSBCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHCCCCCC-CccCHHHHHHHcCCCcHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHH
Confidence            3445667777766554332 12237788888533355666778888888888888889999999998864

>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=85.11  E-value=1.3  Score=35.30  Aligned_cols=36  Identities=25%  Similarity=0.220  Sum_probs=27.6

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecC
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNR   67 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~   67 (190)
                      +.+|+|||++.++.+....+..+...  ...+|+++..
T Consensus        90 ~dvViIDEaQ~l~~~~ve~l~~L~~~--gi~Vil~Gl~  125 (223)
T 2b8t_A           90 TKVIGIDEVQFFDDRICEVANILAEN--GFVVIISGLD  125 (223)
T ss_dssp             CCEEEECSGGGSCTHHHHHHHHHHHT--TCEEEEECCS
T ss_pred             CCEEEEecCccCcHHHHHHHHHHHhC--CCeEEEEecc
Confidence            58999999999998877777665554  4567887764

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=85.01  E-value=1.6  Score=47.33  Aligned_cols=75  Identities=15%  Similarity=0.127  Sum_probs=52.5

Q ss_pred             eEEEEecCCCCCH------HHHHHHHHHhhccC-----C--------CEEEEEecCCcccccCCCCCCCCCCCChhHhhh
Q psy18185         31 GVLFIDEVHMLDL------ETFTYLHRALESAI-----A--------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR   91 (190)
Q Consensus        31 ~Il~IDEi~~L~~------~~~~~L~~~~E~~~-----~--------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR   91 (190)
                      .|+||||++.-..      .....|+.++|.+.     .        +.+|.|.|-     .|.   ..-+.+++.|++|
T Consensus      1376 ~VlFiDDiNmp~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnP-----p~~---gGr~~l~~Rf~r~ 1447 (3245)
T 3vkg_A         1376 LVVFCDEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNP-----PTD---AGRVQLTHRFLRH 1447 (3245)
T ss_dssp             EEEEETTTTCCCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECC-----TTS---TTCCCCCHHHHTT
T ss_pred             EEEEecccCCCCccccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCC-----CCC---CCCccCCHHHHhh
Confidence            4888999997754      47788888888531     1        235555531     000   0124588999999


Q ss_pred             hhheeccCCCHHHHHHHHHHHH
Q psy18185         92 LLIIRTTPYNQKDMEAIIKLRA  113 (190)
Q Consensus        92 ~~~i~~~~ls~~ei~~iL~~~~  113 (190)
                      |.++.++.++++++..|.....
T Consensus      1448 F~vi~i~~ps~esL~~If~til 1469 (3245)
T 3vkg_A         1448 APILLVDFPSTSSLTQIYGTFN 1469 (3245)
T ss_dssp             CCEEECCCCCHHHHHHHHHHHH
T ss_pred             ceEEEeCCCCHHHHHHHHHHHH
Confidence            9999999999999999865443

>1b67_A Protein (histone HMFA); DNA binding protein; 1.48A {Methanothermus fervidus} SCOP: a.22.1.2 PDB: 1hta_A 1a7w_A 1b6w_A 1bfm_A

Probab=84.54  E-value=3.9  Score=26.09  Aligned_cols=61  Identities=23%  Similarity=0.282  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        103 KDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       103 ~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      .-+..+++..   .+..++.++...+.+.+ +   -+...+...+...|...++..|+.+||..++..
T Consensus         6 a~v~Ri~k~~---~~~ris~~A~~~l~~a~-e---~fi~~l~~~A~~~a~~~kRkTI~~~Di~~A~~~   66 (68)
T 1b67_A            6 APIGRIIKNA---GAERVSDDARIALAKVL-E---EMGEEIASEAVKLAKHAGRKTIKAEDIELARKM   66 (68)
T ss_dssp             HHHHHHHHHT---TCSEECHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHTTCSEECHHHHHHHGGG
T ss_pred             cHHHHHHhcC---CcccCCHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHh
Confidence            3445555544   45679999999999884 3   366777888888999899999999999988753

>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=82.69  E-value=2.2  Score=38.01  Aligned_cols=92  Identities=9%  Similarity=0.038  Sum_probs=52.2

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHHHHH
Q psy18185         31 GVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIK  110 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL~  110 (190)
                      -+|+||+++....-   .+..    .++..+|++|+        ..      .+......-...+.+++++.++-.+.+.
T Consensus       245 ~LlVLDdv~~~~~~---~~~~----~~gs~ilvTTR--------~~------~v~~~~~~~~~~~~l~~L~~~ea~~Lf~  303 (549)
T 2a5y_B          245 TLFVFDDVVQEETI---RWAQ----ELRLRCLVTTR--------DV------EISNAASQTCEFIEVTSLEIDECYDFLE  303 (549)
T ss_dssp             EEEEEEEECCHHHH---HHHH----HTTCEEEEEES--------BG------GGGGGCCSCEEEEECCCCCHHHHHHHHH
T ss_pred             EEEEEECCCCchhh---cccc----cCCCEEEEEcC--------CH------HHHHHcCCCCeEEECCCCCHHHHHHHHH
Confidence            58889999985321   2221    13456777774        11      0111010112468999999999999998


Q ss_pred             HHHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHH
Q psy18185        111 LRANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLT  145 (190)
Q Consensus       111 ~~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~  145 (190)
                      .++-.... .-.++....|++. ++| +.-|+.++.
T Consensus       304 ~~a~~~~~~~~~~~~~~~I~~~-c~G-lPLAl~~~g  337 (549)
T 2a5y_B          304 AYGMPMPVGEKEEDVLNKTIEL-SSG-NPATLMMFF  337 (549)
T ss_dssp             HTSCCCC--CHHHHHHHHHHHH-HTT-CHHHHHHHH
T ss_pred             HHhcCCCCchhHHHHHHHHHHH-hCC-ChHHHHHHH
Confidence            77422211 1113457778888 355 556777663

>1h3o_B Transcription initiation factor TFIID 20/15 kDa subunits; transcription/TBP-associated factors, TBP-associated factors; 2.3A {Homo sapiens} SCOP: a.22.1.3

Probab=82.54  E-value=8.4  Score=25.63  Aligned_cols=64  Identities=14%  Similarity=0.259  Sum_probs=50.4

Q ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        100 YNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       100 ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ++...+.+.+++..  .+..+++++-+.+.+.| .   -..-+.+..+..+|+.++...+.+.+|+-.++
T Consensus         6 l~k~~L~~Lv~~id--p~~~ld~~vee~ll~lA-D---dFV~~V~~~ac~lAKhR~s~~le~kDvql~Le   69 (76)
T 1h3o_B            6 LTKKKLQDLVREVD--PNEQLDEDVEEMLLQIA-D---DFIESVVTAACQLARHRKSSTLEVKDVQLHLE   69 (76)
T ss_dssp             SCHHHHHHHHHHHC--SSCCCCHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHTTCCEECHHHHHHHHH
T ss_pred             ccHHHHHHHHHhcC--CCCCCCHHHHHHHHHHH-H---HHHHHHHHHHHHHHHhcCCCCccHHHHHHHHH
Confidence            56777888887764  45579999999999996 3   24556778888999988998999999976663

>3b0c_W CENP-W, centromere protein W; histone fold, DNA binding, DNA binding protein; HET: CIT; 2.20A {Gallus gallus} PDB: 3b0d_W* 3vh5_W 3vh6_W

Probab=81.37  E-value=5.6  Score=26.11  Aligned_cols=67  Identities=15%  Similarity=0.101  Sum_probs=46.5

Q ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhcc
Q psy18185        100 YNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFL  172 (190)
Q Consensus       100 ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~  172 (190)
                      |...-+..+++...  .+..++.++...+.+.+ +   -+...+-..|...|..+++..|+.+||..++...+
T Consensus         5 LP~A~V~rI~K~~~--p~~~is~~A~~~i~~~~-~---~Fi~~la~eA~~~a~~~~rKTI~~~dI~~A~~~ll   71 (76)
T 3b0c_W            5 VPRGTLRKIIKKHK--PHLRLAANTDLLVHLSF-L---LFLHRLAEEARTNAFENKSKIIKPEHTIAAAKVIL   71 (76)
T ss_dssp             CCHHHHHHHHHHHC--TTCEECTTHHHHHHHHH-H---HHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHHHHH
T ss_pred             ccccHHHHHHHHhC--CCCccCHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence            33445566666442  35678899999988884 1   23444445566788889999999999999886543

---

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	190
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	2e-05
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	5e-04
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	8e-04

>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 = 42.1 bits (97), Expect = 2e-05
 Identities = 21/143 (14%), Positives = 42/143 (29%), Gaps = 7/143 (4%)

Query: 32  VLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR 91
              +     +  E    L R  E   +   +                     IP      
Sbjct: 141 FQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQI 200

Query: 92  LLIIRTTPYNQKDMEAIIKLRANTEGH--VLDDEALVTLSE-----IGTRSTLRYVVQLL 144
              +    Y  +++  I++ RA       V +   L  +S+      G   + R  +  L
Sbjct: 201 GFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSARRAIVAL 260

Query: 145 TPAALTAKTNGRTAISKQDILEV 167
             A   A+  GR ++S+  + + 
Sbjct: 261 KMACEMAEAMGRDSLSEDLVRKA 283

>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 = 37.4 bits (86), Expect = 5e-04
 Identities = 29/136 (21%), Positives = 48/136 (35%), Gaps = 17/136 (12%)

Query: 32  VLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDR 91
           V  IDEVHML   +F  L + LE     +                    P  +P+ +L R
Sbjct: 118 VYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT------------DPQKLPVTILSR 165

Query: 92  LLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTA 151
            L       + + +   ++   N E    +  AL  L+      +LR  + L   A    
Sbjct: 166 CLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARA-AEGSLRDALSLTDQAIA-- 222

Query: 152 KTNGRTAISKQDILEV 167
             +G   +S Q +  +
Sbjct: 223 --SGDGQVSTQAVSAM 236

>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 = 37.0 bits (85), Expect = 8e-04
 Identities = 16/179 (8%), Positives = 31/179 (17%), Gaps = 27/179 (15%)

Query: 1   MSAYKSDKLRKEINKVVNKYIDQGIA-----ELVPGVLFIDEVHML-------DLETFTY 48
           +   + +              +           +P    I+ +  L              
Sbjct: 187 LPLDRLNFELGVAIDQFLVVFEDVKGTGGESRDLPSGQGINNLDNLRDYLDGSVKVNLEK 246

Query: 49  LHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAI 108
            H    + I P  I   N                   L       I        K     
Sbjct: 247 KHLNKRTQIFPPGIVTMNEYS------------VPKTLQARFVKQIDFRPKDYLKHCLER 294

Query: 109 IKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEV 167
            +              L+ L      +      Q +    +  K       S     ++
Sbjct: 295 SEFLLEKRIIQSGIALLLMLIWYRPVAEFA---QSIQSRIVEWKERLDKEFSLSVYQKM 350

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	190
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.89
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.85
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.83
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.81
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.8
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.74
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.73
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.64
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.6
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.59
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.48
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.33
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.28
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.01
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.95
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.86
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.82
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.57
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	98.52
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	98.45
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.23
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.16
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.86
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.81
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.66
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	97.46
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.33
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.77
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	96.47
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	94.95
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	94.47
d1tafa_	68	TAF(II)42 {Fruit fly (Drosophila melanogaster) [Ta	94.31
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	94.18
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.05
d1htaa_	68	Archaeal histone {Archaeon Methanothermus fervidus	92.93
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	92.73
d2huec1	82	Histone H4 {African clawed frog (Xenopus laevis) [	87.72
d1tafb_	70	TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta	87.57
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	86.54
d1ku5a_	66	Archaeal histone {Archaeon (Pyrococcus horikoshii)	85.33
d1f1ea_	151	Archaeal histone {Archaeon Methanopyrus kandleri [	84.64
d1u0sy_	118	CheY protein {Thermotoga maritima [TaxId: 2336]}	82.36

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.89  E-value=9.3e-23  Score=165.24  Aligned_cols=124  Identities=25%  Similarity=0.328  Sum_probs=111.9

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         28 LVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      ..++|+||||+|.|+.++|++|++++|+++. +.||++||             .+..+.++++|||+.+.|++++.+++.
T Consensus       114 ~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn-------------~~~~i~~~i~SRc~~i~~~~~~~~~i~  180 (239)
T d1njfa_         114 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT-------------DPQKLPVTILSRCLQFHLKALDVEQIR  180 (239)
T ss_dssp             SSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEES-------------CGGGSCHHHHTTSEEEECCCCCHHHHH
T ss_pred             CCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcC-------------CccccChhHhhhhcccccccCcHHHhh
Confidence            3468999999999999999999999999766 67888885             267899999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      .++..+++.++..+++++++.|++. ++||+|.|+++|+.+..    .|...||.++|+++++
T Consensus       181 ~~l~~i~~~e~~~~~~~~l~~i~~~-s~Gd~R~ain~l~~~~~----~~~~~I~~~~v~~~lg  238 (239)
T d1njfa_         181 HQLEHILNEEHIAHEPRALQLLARA-AEGSLRDALSLTDQAIA----SGDGQVSTQAVSAMLG  238 (239)
T ss_dssp             HHHHHHHHHHTCCBCHHHHHHHHHH-TTTCHHHHHHHHHHHHH----HTTTSBCHHHHHHHHT
T ss_pred             hHHHHHHhhhccCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHH----hCCCCcCHHHHHHHhC
Confidence            9999999999999999999999999 79999999999987653    4667899999998875

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.85  E-value=1.6e-21  Score=155.40  Aligned_cols=127  Identities=21%  Similarity=0.211  Sum_probs=114.7

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      .+++++|||+|.++...+++|++++|+++. +.++++||             .+..++++++|||..+.|++++.+++..
T Consensus        99 ~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~-------------~~~~i~~~i~sr~~~i~~~~~~~~~i~~  165 (227)
T d1sxjc2          99 GFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLAN-------------YAHKLTPALLSQCTRFRFQPLPQEAIER  165 (227)
T ss_dssp             SCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEES-------------CGGGSCHHHHTTSEEEECCCCCHHHHHH
T ss_pred             CeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccC-------------cHHHhHHHHHHHHhhhcccccccccccc
Confidence            357999999999999999999999999766 56777774             2678999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +|.++++.+|+.+++++++.|++. ++||+|.|++.|+.+...+...+...||.++|+++++
T Consensus       166 ~l~~I~~~e~i~i~~~~l~~i~~~-s~Gd~R~ain~Lq~~~~~~~~~~~~~It~~~v~e~~g  226 (227)
T d1sxjc2         166 RIANVLVHEKLKLSPNAEKALIEL-SNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCG  226 (227)
T ss_dssp             HHHHHHHTTTCCBCHHHHHHHHHH-HTTCHHHHHHHTTTTTTTTCSSSCCCBCHHHHHHHTT
T ss_pred             ccccccccccccCCHHHHHHHHHH-cCCcHHHHHHHHHHHHHhcCCCCCCeeCHHHHHHHhC
Confidence            999999999999999999999999 6999999999999887766666778999999999875

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.83  E-value=4.5e-20  Score=147.00  Aligned_cols=127  Identities=18%  Similarity=0.219  Sum_probs=112.2

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAI  108 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~i  108 (190)
                      ++|++|||+|.|+.++++.+.++++.+.. +.+|++++             .+..++++++|||+.++|+|++.+++..+
T Consensus       109 ~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~-------------~~~~~~~~l~sr~~~i~f~~~~~~~~~~~  175 (237)
T d1sxjd2         109 YKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICN-------------YVTRIIDPLASQCSKFRFKALDASNAIDR  175 (237)
T ss_dssp             CEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEES-------------CGGGSCHHHHHHSEEEECCCCCHHHHHHH
T ss_pred             ceEEEEecccccCHHHHHHHhhcccccccccccccccc-------------ccccccccccchhhhhccccccccccchh
Confidence            46999999999999999999999998776 55666663             25678899999999999999999999999


Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCC-CcccHHHHHHHHHh
Q psy18185        109 IKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGR-TAISKQDILEVSTL  170 (190)
Q Consensus       109 L~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~-~~It~~~V~~~~~~  170 (190)
                      |..+++++++.++++++++|++. ++||+|.|+++|+.+...++..+. ..||.++|++++++
T Consensus       176 L~~i~~~e~i~i~~~~l~~ia~~-s~gd~R~ai~~L~~~~~~~~~~~~~~~It~~~i~e~~g~  237 (237)
T d1sxjd2         176 LRFISEQENVKCDDGVLERILDI-SAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAGV  237 (237)
T ss_dssp             HHHHHHTTTCCCCHHHHHHHHHH-TSSCHHHHHHHHHHTHHHHHHHCSCCCCCHHHHHHHHTC
T ss_pred             hhhhhhhhcCcCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhchhcCCCCccCHHHHHHhhCc
Confidence            99999999999999999999999 799999999999998876665443 57999999998763

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.81  E-value=5.8e-20  Score=146.48  Aligned_cols=122  Identities=15%  Similarity=0.207  Sum_probs=107.7

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      ..+++||||+|.++..++++|++.+|.++. +.++++|+             +...++++++|||+.++|++++.+++..
T Consensus       101 ~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~-------------~~~~i~~~l~sr~~~i~~~~~~~~~i~~  167 (224)
T d1sxjb2         101 KHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACN-------------QSNKIIEPLQSQCAILRYSKLSDEDVLK  167 (224)
T ss_dssp             CCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEES-------------CGGGSCHHHHTTSEEEECCCCCHHHHHH
T ss_pred             ceEEEEEecccccchhHHHHHhhhccccccceeeeeccC-------------chhhhhhHHHHHHHHhhhcccchhhhHH
Confidence            357999999999999999999999999776 56677774             2567899999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      +|.+++++||+.+++++++.|++. ++||+|.|++.|+.+..     +.+.||.+.|.++++
T Consensus       168 ~l~~i~~~e~~~i~~~~l~~I~~~-s~Gd~R~ai~~Lq~~~~-----~~~~i~~~~i~~~~d  223 (224)
T d1sxjb2         168 RLLQIIKLEDVKYTNDGLEAIIFT-AEGDMRQAINNLQSTVA-----GHGLVNADNVFKIVD  223 (224)
T ss_dssp             HHHHHHHHHTCCBCHHHHHHHHHH-HTTCHHHHHHHHHHHHH-----HHSSBCHHHHHHHHT
T ss_pred             HHHHHHHhcccCCCHHHHHHHHHH-cCCcHHHHHHHHHHHHH-----cCCCcCHHHHHHHhC
Confidence            999999999999999999999999 69999999999998753     334799999987753

>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=99.80  E-value=3.7e-20  Score=147.41  Aligned_cols=101  Identities=15%  Similarity=0.160  Sum_probs=89.2

Q ss_pred             cccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHH
Q psy18185         26 AELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKD  104 (190)
Q Consensus        26 ~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~e  104 (190)
                      ....++|++|||+|.|+.++|++|++++|+|+. +.||++|+             .++.+.++++|||+.+.|++++.++
T Consensus       105 ~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~-------------~~~~ll~tI~SRc~~i~~~~~~~~~  171 (207)
T d1a5ta2         105 RLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATR-------------EPERLLATLRSRCRLHYLAPPPEQY  171 (207)
T ss_dssp             TTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEES-------------CGGGSCHHHHTTSEEEECCCCCHHH
T ss_pred             ccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeec-------------ChhhhhhhhcceeEEEecCCCCHHH
Confidence            334568999999999999999999999999876 67888884             2678999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHH
Q psy18185        105 MEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLT  145 (190)
Q Consensus       105 i~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~  145 (190)
                      +..+|..     ++.++++++..+++. ++||+|.|+++|+
T Consensus       172 ~~~~L~~-----~~~~~~~~~~~i~~~-s~Gs~r~al~~le  206 (207)
T d1a5ta2         172 AVTWLSR-----EVTMSQDALLAALRL-SAGSPGAALALFQ  206 (207)
T ss_dssp             HHHHHHH-----HCCCCHHHHHHHHHH-TTTCHHHHHHTTS
T ss_pred             HHHHHHH-----cCCCCHHHHHHHHHH-cCCCHHHHHHHhC
Confidence            9999963     346899999999999 6999999999874

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.74  E-value=8e-18  Score=134.89  Aligned_cols=106  Identities=20%  Similarity=0.265  Sum_probs=96.0

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAI  108 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~i  108 (190)
                      ..+++|||+|.|+.+.++.|++.+|+++. +.||++||             .+..++++++|||+.|+|+|++.+++.++
T Consensus       132 ~~iiiide~d~l~~~~~~~l~~~~e~~~~~~~~Il~tn-------------~~~~i~~~l~sR~~~i~~~~~~~~~~~~~  198 (252)
T d1sxje2         132 YKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCD-------------SMSPIIAPIKSQCLLIRCPAPSDSEISTI  198 (252)
T ss_dssp             CEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEES-------------CSCSSCHHHHTTSEEEECCCCCHHHHHHH
T ss_pred             ceEEEeccccccccccchhhhcccccccccccceeeec-------------cccchhhhhhcchheeeecccchhhHHHH
Confidence            46999999999999999999999999766 56888885             36789999999999999999999999999


Q ss_pred             HHHHHHhcCCCCC-HHHHHHHHHhcCCCCHHHHHHHHHHHHH
Q psy18185        109 IKLRANTEGHVLD-DEALVTLSEIGTRSTLRYVVQLLTPAAL  149 (190)
Q Consensus       109 L~~~~~~~~~~i~-~e~l~~i~~~a~~gdlR~ai~lL~~~~~  149 (190)
                      |..++.++++.++ +++++.|++. ++||+|.|++.|+.+..
T Consensus       199 l~~i~~~e~~~~~~~~~l~~i~~~-s~Gd~R~ai~~Lq~~~~  239 (252)
T d1sxje2         199 LSDVVTNERIQLETKDILKRIAQA-SNGNLRVSLLMLESMAL  239 (252)
T ss_dssp             HHHHHHHHTCEECCSHHHHHHHHH-HTTCHHHHHHHHTHHHH
T ss_pred             HHHHHHHcCCCCCcHHHHHHHHHH-cCCcHHHHHHHHHHHHH
Confidence            9999999998775 7889999999 69999999999998764

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.73  E-value=1.5e-17  Score=132.45  Aligned_cols=121  Identities=23%  Similarity=0.337  Sum_probs=106.6

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCCC-EEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHH
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIAP-IVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA  107 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~~-~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~  107 (190)
                      ...|+++||+|.+....++.|+++++.+..+ .+|++||             .+..++++++|||..+.|++++.+++..
T Consensus       109 ~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n-------------~~~~i~~~l~sR~~~i~~~~~~~~~~~~  175 (231)
T d1iqpa2         109 SFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCN-------------YSSKIIEPIQSRCAIFRFRPLRDEDIAK  175 (231)
T ss_dssp             SCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEES-------------CGGGSCHHHHHTEEEEECCCCCHHHHHH
T ss_pred             CceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccC-------------ChhhchHhHhCccccccccccchhhHHH
Confidence            4579999999999999999999999998764 5566664             2567899999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185        108 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       108 iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      +|++.++++++.+++++++.|++. ++||+|.|++.|+.+..     +...||.++|.++.
T Consensus       176 ~l~~~~~~e~i~i~~~~l~~I~~~-~~gdiR~ai~~Lq~~~~-----~~~~it~e~v~~v~  230 (231)
T d1iqpa2         176 RLRYIAENEGLELTEEGLQAILYI-AEGDMRRAINILQAAAA-----LDKKITDENVFMVA  230 (231)
T ss_dssp             HHHHHHHTTTCEECHHHHHHHHHH-HTTCHHHHHHHHHHHHT-----TCSEECHHHHHHHT
T ss_pred             HHHHHHHHhCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHH-----cCCCcCHHHHHhhh
Confidence            999999999999999999999999 69999999999998763     35579999887653

>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=99.64  E-value=5.1e-15  Score=118.10  Aligned_cols=128  Identities=22%  Similarity=0.218  Sum_probs=111.5

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC-------------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI-------------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLD   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~-------------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S   90 (190)
                      ..|++|||+|.+++..+..++..+|+..                   ...++++|+          +  ++...++.+++
T Consensus        88 ~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~----------~--~~~~~~~~l~~  155 (239)
T d1ixsb2          88 GDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATT----------R--PGLITAPLLSR  155 (239)
T ss_dssp             TCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEES----------C--CSSCSCGGGGG
T ss_pred             CCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeecc----------C--cccccchhhcc
Confidence            4699999999999999999999998531                   234666664          1  34556678889


Q ss_pred             hhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185         91 RLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus        91 R~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      +|..+.|.+++.+++..++...+..+++.++++++..+++. ++||+|.|+++|+.+..+++..|...||.+.+.++++.
T Consensus       156 ~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~~~~~l~~ia~~-s~gd~R~a~~~l~~~~~~a~~~~~~~It~~~~~~~l~~  234 (239)
T d1ixsb2         156 FGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRR-SRGTMRVAKRLFRRVRDFAQVAGEEVITRERALEALAA  234 (239)
T ss_dssp             CSEEEECCCCCHHHHHHHHHHHHGGGCCCBCHHHHHHHHHH-TTSSHHHHHHHHHHHHHHHTTSCCSCBCHHHHHHHHHH
T ss_pred             cceeeEeeccChhhhhHHHHHHHHHhCCccchHHHHHHHHH-cCCCHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHHhh
Confidence            99999999999999999999999999999999999999999 69999999999999998888888899999999998863

>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=99.60  E-value=1.4e-14  Score=115.24  Aligned_cols=127  Identities=24%  Similarity=0.244  Sum_probs=110.6

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC-------------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhh
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI-------------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLD   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~-------------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S   90 (190)
                      ..++++||+|.+++..++.++..+|.+.                   ...+|++||             .+..+++++++
T Consensus        87 ~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~-------------~~~~~~~~~~~  153 (238)
T d1in4a2          87 GDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATT-------------RSGLLSSPLRS  153 (238)
T ss_dssp             TCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEES-------------CGGGSCHHHHT
T ss_pred             CCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecC-------------CCcccccccee
Confidence            3799999999999999999999998743                   236777774             14567889999


Q ss_pred             hhh-heeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         91 RLL-IIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        91 R~~-~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ||. .+.|++++.+++..++...+..++..+++++++.+++. ++||+|.|+++|+.+...+...+...||.+.+.+++.
T Consensus       154 r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~-s~gd~R~ai~~l~~~~~~~~~~~~~~it~~~~~~al~  232 (238)
T d1in4a2         154 RFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKR-SRGTPRIAIRLTKRVRDMLTVVKADRINTDIVLKTME  232 (238)
T ss_dssp             TCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHT-STTCHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHH
T ss_pred             eeeEEEEecCCCHHHHHHHHHHhhhhccchhhHHHHHHHHHh-CCCCHHHHHHHHHHHHHHHHHhcCCccCHHHHHHHHH
Confidence            985 57999999999999999999999999999999999999 6999999999999988777777888999999999886


Q ss_pred             h
Q psy18185        170 L  170 (190)
Q Consensus       170 ~  170 (190)
                      .
T Consensus       233 ~  233 (238)
T d1in4a2         233 V  233 (238)
T ss_dssp             H
T ss_pred             h
Confidence            5

>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=99.59  E-value=3.1e-16  Score=123.97  Aligned_cols=123  Identities=12%  Similarity=0.144  Sum_probs=81.5

Q ss_pred             cchhHHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCC
Q psy18185          4 YKSDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPH   82 (190)
Q Consensus         4 ~~~~~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~   82 (190)
                      ++-+++|+ +.+.    +.....+..++|++|||+|.|+.++||+|++++|+|+. +.||++|+             .+.
T Consensus        59 I~Id~IR~-i~~~----~~~~~~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~-------------~~~  120 (198)
T d2gnoa2          59 IGIDDIRT-IKDF----LNYSPELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTR-------------RWH  120 (198)
T ss_dssp             BCHHHHHH-HHHH----HTSCCSSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEES-------------CGG
T ss_pred             CCHHHHHH-HHHH----HhhCcccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccC-------------Chh
Confidence            45577773 3333    33444444569999999999999999999999999877 78888884             267


Q ss_pred             CCChhHhhhhhheeccCCCHHHHHHHHHHHHH----h-----cCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHH
Q psy18185         83 GIPLDLLDRLLIIRTTPYNQKDMEAIIKLRAN----T-----EGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAA  148 (190)
Q Consensus        83 ~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~----~-----~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~  148 (190)
                      .++||++|||+.+.|+++++  ..+++.....    .     .+.....++++.++.. .. +++.++++++...
T Consensus       121 ~ll~TI~SRC~~i~~~~p~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~l~~ld~~~  191 (198)
T d2gnoa2         121 YLLPTIKSRVFRVVVNVPKE--FRDLVKEKIGDLWEELPLLERDFKTALEAYKLGAEK-LS-GLMESLKVLETEK  191 (198)
T ss_dssp             GSCHHHHTTSEEEECCCCHH--HHHHHHHHHTTHHHHCGGGGTCHHHHHHHHHHHHHH-HH-HHHHHHHHSCHHH
T ss_pred             hCHHHHhcceEEEeCCCchH--HHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHH-hh-CHHHHHHHHHHHH
Confidence            89999999999999987753  3444443321    1     2222333444444444 23 2555555555443

>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=99.48  E-value=2.4e-14  Score=114.47  Aligned_cols=120  Identities=20%  Similarity=0.175  Sum_probs=95.3

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhc---cCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALES---AIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDME  106 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~---~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~  106 (190)
                      ..++++||+|.++...+..+..+++.   ...+ ++++++        +.    ......++++||..++|++++.+++.
T Consensus       124 ~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~~~-ii~i~~--------~~----~~~~~~~l~~~~~~i~f~~~~~~~i~  190 (253)
T d1sxja2         124 HFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTP-LILICN--------ER----NLPKMRPFDRVCLDIQFRRPDANSIK  190 (253)
T ss_dssp             SEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSC-EEEEES--------CT----TSSTTGGGTTTSEEEECCCCCHHHHH
T ss_pred             ceEEEeeeccccccchhhhhHHHhhhhcccccc-cccccc--------cc----cccccccccceeeeeeccccchhHHH
Confidence            46899999999988777766666663   3224 445553        21    33355679999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHH
Q psy18185        107 AIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVS  168 (190)
Q Consensus       107 ~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~  168 (190)
                      .+|+.+++++|+.++++++..|++. ++||+|.|++.|+.+..     +...++.+.|.++.
T Consensus       191 ~~l~~i~~~e~i~i~~~~l~~i~~~-s~GDiR~ai~~L~~~~~-----~~~~i~~~~~~~~~  246 (253)
T d1sxja2         191 SRLMTIAIREKFKLDPNVIDRLIQT-TRGDIRQVINLLSTIST-----TTKTINHENINEIS  246 (253)
T ss_dssp             HHHHHHHHHHTCCCCTTHHHHHHHH-TTTCHHHHHHHHTHHHH-----HSSCCCTTHHHHHH
T ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHh-CCCcHHHHHHHHHHHHH-----cCCCCCHHHHHHHh
Confidence            9999999999999999999999999 79999999999987653     23457777776554

>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=99.33  E-value=3.3e-12  Score=101.89  Aligned_cols=131  Identities=15%  Similarity=0.172  Sum_probs=98.7

Q ss_pred             eEEEEecCCCC------CHHHHHHHHHHhhccCC------CEEEEEecCCcccccCCCCC-CCCCCCChhHhhh-hhhee
Q psy18185         31 GVLFIDEVHML------DLETFTYLHRALESAIA------PIVIFATNRGRCLVRGTDDI-ISPHGIPLDLLDR-LLIIR   96 (190)
Q Consensus        31 ~Il~IDEi~~L------~~~~~~~L~~~~E~~~~------~~iIlatn~~~~~~~~t~~~-~~~~~l~~~l~SR-~~~i~   96 (190)
                      .++++||+|.+      +.+..+.+.+++|....      ..+|++++        ..+. .......+.+++| +..+.
T Consensus       134 ~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~i~i~~--------~~~~~~~~~~~~~~~~~r~~~~i~  205 (287)
T d1w5sa2         134 LLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVAS--------DVRALSYMREKIPQVESQIGFKLH  205 (287)
T ss_dssp             EEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEEEEEEEE--------ETHHHHHHHHHCHHHHTTCSEEEE
T ss_pred             cccceeEEEEeccccccchhHHHHHHHHHHhcchhhcccceeEEeecc--------cHHHHHHHHhhccchhcccceeee
Confidence            68889999988      34677777777775322      34555553        1110 0001123456666 57899


Q ss_pred             ccCCCHHHHHHHHHHHHHh--cCCCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         97 TTPYNQKDMEAIIKLRANT--EGHVLDDEALVTLSEIG-----TRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        97 ~~~ls~~ei~~iL~~~~~~--~~~~i~~e~l~~i~~~a-----~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      |++|+.+|+.++++.+++.  ....++++++++|++.+     +.||+|.|+++|+.|...|..+|...||.++|++++.
T Consensus       206 f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~~~~~~~~~gd~R~ai~~l~~a~~~A~~~~~~~It~~~V~~A~~  285 (287)
T d1w5sa2         206 LPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVS  285 (287)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHHHHhccccCCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHh
Confidence            9999999999999999875  34468999999999874     3799999999999999999999999999999999875

>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=99.28  E-value=5.9e-11  Score=93.87  Aligned_cols=131  Identities=19%  Similarity=0.259  Sum_probs=104.0

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccC-----CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh--heeccCCCH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAI-----APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL--IIRTTPYNQ  102 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~-----~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~--~i~~~~ls~  102 (190)
                      ..+.++|++|.+.....+.+....+...     ...+|++++        +  ......+.+.++||+.  .+.|+|++.
T Consensus       125 ~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~--------~--~~~~~~~~~~~~~r~~~~~i~~~~~~~  194 (276)
T d1fnna2         125 YMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGH--------N--DAVLNNLDPSTRGIMGKYVIRFSPYTK  194 (276)
T ss_dssp             CEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEES--------S--THHHHTSCHHHHHHHTTCEEECCCCBH
T ss_pred             ccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCC--------c--hhhhhhcchhhhhhhcchhccccchhH
Confidence            4688899999999877777777665421     135666664        2  1123456788999984  489999999


Q ss_pred             HHHHHHHHHHHHh--cCCCCCHHHHHHHHHhc--------CCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        103 KDMEAIIKLRANT--EGHVLDDEALVTLSEIG--------TRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       103 ~ei~~iL~~~~~~--~~~~i~~e~l~~i~~~a--------~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      +|+.++|..+++.  .+..+++++++.|+..+        +.||+|.|+++|+.|...|..+|...||.++|+++..-
T Consensus       195 ~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~~~~~~~~~~~G~~R~a~~ll~~a~~~A~~~~~~~I~~edv~~A~~~  272 (276)
T d1fnna2         195 DQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSKE  272 (276)
T ss_dssp             HHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcccccccHHHHHHHHHHhhhhhhhhhcCCCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHH
Confidence            9999999998875  44568999999998863        46999999999999999999999999999999998853

>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=99.01  E-value=2e-09  Score=84.98  Aligned_cols=104  Identities=21%  Similarity=0.266  Sum_probs=78.6

Q ss_pred             CeEEEEecCCCCC--H----HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh---hheeccCC
Q psy18185         30 PGVLFIDEVHMLD--L----ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL---LIIRTTPY  100 (190)
Q Consensus        30 ~~Il~IDEi~~L~--~----~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~---~~i~~~~l  100 (190)
                      ..+|+|||+|.+.  +    ..++.++.+++.+.  .+|++++.         .|.....+.++++||+   .++.++ +
T Consensus        98 ~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~--~iiits~~---------~p~~l~~~~~dL~SRL~~g~~~~i~-p  165 (213)
T d1l8qa2          98 VDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEK--QIILASDR---------HPQKLDGVSDRLVSRFEGGILVEIE-L  165 (213)
T ss_dssp             CSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTC--EEEEEESS---------CGGGCTTSCHHHHHHHHTSEEEECC-C
T ss_pred             ccchhhhhhhhhcCchHHHHHHHHHHHHHhhccc--eEEEecCC---------cchhccccchHHHHHhhCceEEEEC-C
Confidence            3899999999994  2    46777777777764  37777752         2211234568999996   577886 5


Q ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHH
Q psy18185        101 NQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPA  147 (190)
Q Consensus       101 s~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~  147 (190)
                      ++++..++|+.++...|+.++++++++|+++ . .|+|.....|...
T Consensus       166 ~d~~~~~iL~~~a~~rgl~l~~~v~~yl~~~-~-~~~R~L~~~l~~l  210 (213)
T d1l8qa2         166 DNKTRFKIIKEKLKEFNLELRKEVIDYLLEN-T-KNVREIEGKIKLI  210 (213)
T ss_dssp             CHHHHHHHHHHHHHHTTCCCCHHHHHHHHHH-C-SSHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCCCHHHHHHHHHh-c-CcHHHHHHHHHHh
Confidence            7889999999999999999999999999999 4 4788765555443

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.95  E-value=2.4e-09  Score=87.64  Aligned_cols=148  Identities=18%  Similarity=0.205  Sum_probs=107.7

Q ss_pred             HHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCC---------HHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCC
Q psy18185          8 KLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLD---------LETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDI   78 (190)
Q Consensus         8 ~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~---------~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~   78 (190)
                      ++.+.+..++......+     .-|+||||+|.|-         .++.+.|...++.+ ...+|++|+        .+.+
T Consensus        94 ~~e~r~~~i~~~~~~~~-----~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg-~i~vIgatT--------~eey  159 (268)
T d1r6bx2          94 DFEKRFKALLKQLEQDT-----NSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG-KIRVIGSTT--------YQEF  159 (268)
T ss_dssp             CHHHHHHHHHHHHSSSS-----CEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSC-CCEEEEEEC--------HHHH
T ss_pred             hHHHHHHHHHHHhhccC-----CceEEecchHHHhcCCCCCCccccHHHHhhHHHhCC-CCeEEEeCC--------HHHH
Confidence            34455666666532222     3599999999992         36788888888875 478888884        2222


Q ss_pred             CCCCCCChhHhhhhhheeccCCCHHHHHHHHHHHHH----hcCCCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHH
Q psy18185         79 ISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRAN----TEGHVLDDEALVTLSEIG-----TRSTLRYVVQLLTPAAL  149 (190)
Q Consensus        79 ~~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~----~~~~~i~~e~l~~i~~~a-----~~gdlR~ai~lL~~~~~  149 (190)
                      .....-.++|.+|++.+.+++++.++...+|.....    ..++.+++++++.+...+     .+.=+.+|+.+|+.++.
T Consensus       160 ~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~~~~e~~h~v~~~~~al~~~v~ls~ryi~~~~~PdKAIdllDea~a  239 (268)
T d1r6bx2         160 SNIFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAGA  239 (268)
T ss_dssp             HCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHHHHHHHHHH
T ss_pred             HHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhhHHHhccCCEEeChHHHHHHHHHHHhhccCCCCCcHHHHHHHHHHH
Confidence            223344578999999999999999999999987653    368999999999999884     23457899999999886


Q ss_pred             Hhhh----cCCCcccHHHHHHHHH
Q psy18185        150 TAKT----NGRTAISKQDILEVST  169 (190)
Q Consensus       150 ~a~~----~g~~~It~~~V~~~~~  169 (190)
                      .+..    .....|+.++|..++.
T Consensus       240 ~~~~~~~~~~~~~i~~~di~~~i~  263 (268)
T d1r6bx2         240 RARLMPVSKRKKTVNVADIESVVA  263 (268)
T ss_dssp             HHHHSSSCCCCCSCCHHHHHHHHH
T ss_pred             HHHhhccccCcccCCHHHHHHHHH
Confidence            5543    2234588888877664

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=98.86  E-value=6.6e-09  Score=83.70  Aligned_cols=125  Identities=27%  Similarity=0.357  Sum_probs=91.4

Q ss_pred             CCeEEEEecCCCCCH--------------HHHHHHHHHhhccC--CC-EEEEEecCCcccccCCCCCCCCCCCChhHh--
Q psy18185         29 VPGVLFIDEVHMLDL--------------ETFTYLHRALESAI--AP-IVIFATNRGRCLVRGTDDIISPHGIPLDLL--   89 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~--~~-~iIlatn~~~~~~~~t~~~~~~~~l~~~l~--   89 (190)
                      .+.||||||+|.+..              ...+.|+..++...  .. .+|++||             .|..++++++  
T Consensus       101 ~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn-------------~~~~ld~al~R~  167 (247)
T d1ixza_         101 APCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATN-------------RPDILDPALLRP  167 (247)
T ss_dssp             SSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEES-------------CGGGSCGGGGST
T ss_pred             CCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCC-------------CccccCHhHcCC
Confidence            357999999998721              24566777776432  23 4445554             3788999988  


Q ss_pred             hhh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhhcCCCcccHHHHHHH
Q psy18185         90 DRL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTPAALTAKTNGRTAISKQDILEV  167 (190)
Q Consensus        90 SR~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~  167 (190)
                      +|+ ..+.|++++.++..++++......+.. ++..+..+++.+ .| +.+..-+++..|...|.++++..||.+++.+|
T Consensus       168 ~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~-~~~~~~~la~~t-~g~s~~di~~lv~~A~l~a~~~~~~~i~~~d~~~A  245 (247)
T d1ixza_         168 GRFDRQIAIDAPDVKGREQILRIHARGKPLA-EDVDLALLAKRT-PGFVGADLENLLNEAALLAAREGRRKITMKDLEEA  245 (247)
T ss_dssp             TSSCEEEECCSCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTC-TTCCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHH
T ss_pred             CCCcEEEEECCcCHHHHHHHHHHHhcccCCc-cccCHHHHHHHC-CCCCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHh
Confidence            477 589999999999999999887665432 333478888884 54 56666667778887777788889999999887


Q ss_pred             H
Q psy18185        168 S  168 (190)
Q Consensus       168 ~  168 (190)
                      +
T Consensus       246 ~  246 (247)
T d1ixza_         246 A  246 (247)
T ss_dssp             T
T ss_pred             h
Confidence            5

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=98.82  E-value=2.6e-08  Score=80.65  Aligned_cols=127  Identities=19%  Similarity=0.241  Sum_probs=93.8

Q ss_pred             CCeEEEEecCCCCCH--------------HHHHHHHHHhhccC--CCEEEE-EecCCcccccCCCCCCCCCCCChhHhh-
Q psy18185         29 VPGVLFIDEVHMLDL--------------ETFTYLHRALESAI--APIVIF-ATNRGRCLVRGTDDIISPHGIPLDLLD-   90 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~--~~~iIl-atn~~~~~~~~t~~~~~~~~l~~~l~S-   90 (190)
                      .+.||||||+|.+..              ...+.|+..++...  ..++++ +||             .|..+++++++ 
T Consensus       104 ~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn-------------~~~~ld~al~R~  170 (256)
T d1lv7a_         104 APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATN-------------RPDVLDPALLRP  170 (256)
T ss_dssp             CSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEES-------------CTTTSCGGGGST
T ss_pred             CCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCC-------------CcccCCHhHcCC
Confidence            357999999998621              24566777776432  234444 553             38889999984 


Q ss_pred             -hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhhcCCCcccHHHHHHH
Q psy18185         91 -RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTPAALTAKTNGRTAISKQDILEV  167 (190)
Q Consensus        91 -R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~  167 (190)
                       |+ ..+.|++++.++..++++....+.++. .+..+..+++.+ .| +.+..-+++..|...|.++++..|+.+++.++
T Consensus       171 gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~-~~~~~~~la~~t-~G~s~adi~~l~~~A~~~a~~~~~~~i~~~d~~~A  248 (256)
T d1lv7a_         171 GRFDRQVVVGLPDVRGREQILKVHMRRVPLA-PDIDAAIIARGT-PGFSGADLANLVNEAALFAARGNKRVVSMVEFEKA  248 (256)
T ss_dssp             TSSCEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTC-TTCCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHH
T ss_pred             CCCCEEEECCCcCHHHHHHHHHHhccCCCcC-cccCHHHHHHhC-CCCCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHH
Confidence             67 689999999999999999887666543 344567888884 54 77777788888887777888889999999988


Q ss_pred             HHh
Q psy18185        168 STL  170 (190)
Q Consensus       168 ~~~  170 (190)
                      +.-
T Consensus       249 l~r  251 (256)
T d1lv7a_         249 KDK  251 (256)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            753

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.57  E-value=9.1e-08  Score=81.75  Aligned_cols=130  Identities=18%  Similarity=0.240  Sum_probs=88.3

Q ss_pred             HHHHHHHHHHHHHHHcCccccCCeEEEEecCCCC--------CHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCC
Q psy18185          8 KLRKEINKVVNKYIDQGIAELVPGVLFIDEVHML--------DLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDII   79 (190)
Q Consensus         8 ~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L--------~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~   79 (190)
                      ++.+.+..++.......    +.-||||||+|.|        +.++.+.|...+..+ ...+|++|+        .+.+.
T Consensus        98 ~~e~r~~~i~~~~~~~~----~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg-~~~~I~~tT--------~~ey~  164 (387)
T d1qvra2          98 EFEERLKAVIQEVVQSQ----GEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG-ELRLIGATT--------LDEYR  164 (387)
T ss_dssp             CHHHHHHHHHHHHHTTC----SSEEEEECCC-------------------HHHHHTT-CCCEEEEEC--------HHHHH
T ss_pred             hHHHHHHHHHHHhccCC----CceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCC-CcceeeecC--------HHHHH
Confidence            44455666666533221    1248999999999        237789999999986 477888884        22221


Q ss_pred             CCCCCChhHhhhhhheeccCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHH
Q psy18185         80 SPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANT----EGHVLDDEALVTLSEIG-----TRSTLRYVVQLLTPAALT  150 (190)
Q Consensus        80 ~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL~~~~~~----~~~~i~~e~l~~i~~~a-----~~gdlR~ai~lL~~~~~~  150 (190)
                      . ..=.++|.+|++.+.+++++.++...+|+.....    .++.++++++..+.+.+     .+.=+.+||.+|+.|+..
T Consensus       165 ~-~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~~~~e~~h~v~~~~~ai~~~v~ls~ryi~~r~~PdKAidlld~a~a~  243 (387)
T d1qvra2         165 E-IEKDPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAAAR  243 (387)
T ss_dssp             H-HTTCTTTCSCCCCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHHHH
T ss_pred             H-hcccHHHHHhcccccCCCCcHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHhcccccccccChhhHHHHHHHHHHH
Confidence            1 1224679999999999999999999999977653    59999999999999974     346779999999998854


Q ss_pred             h
Q psy18185        151 A  151 (190)
Q Consensus       151 a  151 (190)
                      .
T Consensus       244 ~  244 (387)
T d1qvra2         244 L  244 (387)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=98.52  E-value=6.8e-07  Score=73.70  Aligned_cols=130  Identities=22%  Similarity=0.270  Sum_probs=91.1

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC-------------CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhh-he
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA-------------PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLL-II   95 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-------------~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~-~i   95 (190)
                      .||+||||++.+.+..+++|+..||++..             ..++++|         . |+ .+..+++++++|+. .+
T Consensus       128 ~gvl~iDEi~~~~~~~~~aLl~~me~~~v~i~r~g~~~~~p~~f~liaa---------~-Np-~~~~l~~~llDRf~~~i  196 (333)
T d1g8pa_         128 RGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGS---------G-NP-EEGDLRPQLLDRFGLSV  196 (333)
T ss_dssp             TEEEEETTGGGSCHHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEE---------E-CS-CSCCCCHHHHTTCSEEE
T ss_pred             ccEeecccHHHHHHHHHHHHhhhhcCCeEEecccCceecCCCCEEEEEe---------c-Cc-cccccccchhhhhccee
Confidence            38999999999999999999999996531             1233333         2 33 35789999999984 45


Q ss_pred             eccCCCH-HHHHHHHHHH-----------------------------HHhcCCCCCHHHHHHHHHhcC--C-CCHHHHHH
Q psy18185         96 RTTPYNQ-KDMEAIIKLR-----------------------------ANTEGHVLDDEALVTLSEIGT--R-STLRYVVQ  142 (190)
Q Consensus        96 ~~~~ls~-~ei~~iL~~~-----------------------------~~~~~~~i~~e~l~~i~~~a~--~-gdlR~ai~  142 (190)
                      .+..+.+ ++-..++..+                             .....+.++++....++....  . -++|-...
T Consensus       197 ~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~v~~~~~~~~~~~~~~~~~~~~S~R~~~~  276 (333)
T d1g8pa_         197 EVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELT  276 (333)
T ss_dssp             ECCCCCSHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHH
T ss_pred             eccCcchhhHHHHHHHhhhhcccChHHHHHHHHHHHHHHHHHHHHHhhcccceecCHHHHHHHHHHHHHcCCCChHHHHH
Confidence            6655432 2222222111                             111356777888777776631  2 27899999


Q ss_pred             HHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        143 LLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       143 lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      ++..|..+|..+|+..|+.+||.+++.+
T Consensus       277 llrvArtiA~L~gr~~V~~~di~~a~~l  304 (333)
T d1g8pa_         277 LLRSARALAALEGATAVGRDHLKRVATM  304 (333)
T ss_dssp             HHHHHHHHHHHTTCSBCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            9998888888899999999999997754

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.45  E-value=7.7e-07  Score=71.21  Aligned_cols=128  Identities=23%  Similarity=0.258  Sum_probs=92.7

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHhhccC------------CCEEEEEecCCcccccCCCCCCCCCCCChhHhhhh--hhee
Q psy18185         31 GVLFIDEVHMLDLETFTYLHRALESAI------------APIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL--LIIR   96 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~~~~L~~~~E~~~------------~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~--~~i~   96 (190)
                      |.|||||+|.|+.+.|..|++++++..            .+.+|++|+.....      ......+.++|..|+  ..+.
T Consensus        96 GtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~~~~~~~~~~~RlI~~s~~~l~~------l~~~~~f~~~L~~~l~~~~i~  169 (247)
T d1ny5a2          96 GTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKE------LVKEGKFREDLYYRLGVIEIE  169 (247)
T ss_dssp             SEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHH------HHHTTSSCHHHHHHHTTEEEE
T ss_pred             CEEEEeChHhCCHHHHHHHHHHHHhCCEEECCCCCceecCeEEEEecCCCHHH------HHHcCCCcHHHHhhcCeeeec
Confidence            799999999999999999999998532            14578887521000      001124567888886  4578


Q ss_pred             ccCCCH--HHHHHHHHHHHH----hcC---CCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHH
Q psy18185         97 TTPYNQ--KDMEAIIKLRAN----TEG---HVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEV  167 (190)
Q Consensus        97 ~~~ls~--~ei~~iL~~~~~----~~~---~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~  167 (190)
                      ++|+.+  +|+..++...++    +.+   ..+++++++.|..+.+.|++|..-+.++.+...+.   .+.|+++++...
T Consensus       170 lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~ls~~al~~L~~~~WPGNl~EL~~~l~~a~~~~~---~~~I~~~dl~~l  246 (247)
T d1ny5a2         170 IPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSYPWYGNVRELKNVIERAVLFSE---GKFIDRGELSCL  246 (247)
T ss_dssp             CCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHSCCTTHHHHHHHHHHHHHHHCC---SSEECHHHHHHH
T ss_pred             CCChhhchhhHhhhhhhhhhhhhhhcCCCCCCCCHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCC---CCeECHHHcccc
Confidence            889964  677665555433    333   34899999999999778999999999999886653   347999998753

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.23  E-value=3.8e-06  Score=67.17  Aligned_cols=107  Identities=22%  Similarity=0.270  Sum_probs=71.9

Q ss_pred             CeEEEEecCCCCCH-----------HHHHHHHHHhhccCC---CEEEEEecCCcccccCCCCCCCCCCCChhHhh--hh-
Q psy18185         30 PGVLFIDEVHMLDL-----------ETFTYLHRALESAIA---PIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--RL-   92 (190)
Q Consensus        30 ~~Il~IDEi~~L~~-----------~~~~~L~~~~E~~~~---~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--R~-   92 (190)
                      +.||+|||+|.+..           ...+.++..++....   +.+|++||             .|..+++++++  |+ 
T Consensus        98 p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn-------------~~~~ld~al~r~gRfd  164 (258)
T d1e32a2          98 PAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATN-------------RPNSIDPALRRFGRFD  164 (258)
T ss_dssp             SEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEES-------------CGGGSCGGGTSTTSSC
T ss_pred             CeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccEEEeCC-------------Cccccchhhhhccccc
Confidence            57999999999942           234455555443222   34455554             37889999987  67 


Q ss_pred             hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHh
Q psy18185         93 LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-TLRYVVQLLTPAALTA  151 (190)
Q Consensus        93 ~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-dlR~ai~lL~~~~~~a  151 (190)
                      ..+.|++++.++..++++...++..+. ++.-+..|++.+ .| +.+..-+++..|...|
T Consensus       165 ~~i~~~~P~~~~R~~il~~~l~~~~~~-~~~~~~~la~~t-~G~s~adl~~lv~~A~~~a  222 (258)
T d1e32a2         165 REVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANET-HGHVGADLAALCSEAALQA  222 (258)
T ss_dssp             EEEECCCCCHHHHHHHHHHTTTTSCBC-TTCCHHHHHHHC-TTCCHHHHHHHHHHHHHHH
T ss_pred             ceeECCCCCHHHHHHHhhhhccCcccc-cccchhhhhhcc-cCCCHHHHHHHHHHHHHHH
Confidence            679999999999999998877654332 222378888884 54 5555555666555444

>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=98.16  E-value=4.9e-06  Score=68.70  Aligned_cols=104  Identities=20%  Similarity=0.287  Sum_probs=73.7

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC------------CEEEEEecCCcccccC----CC---------CCCCCCC
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA------------PIVIFATNRGRCLVRG----TD---------DIISPHG   83 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~------------~~iIlatn~~~~~~~~----t~---------~~~~~~~   83 (190)
                      +.+|+++||+|.++++.++.|+.+++++.-            .++|++||-+...+..    ..         ...-...
T Consensus       125 p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~~~gr~v~~~~~i~i~tsnlG~~~i~~~~~~~~~~~~~~~~~~~~l~~~  204 (315)
T d1qvra3         125 PYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQH  204 (315)
T ss_dssp             SSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTT
T ss_pred             CCcEEEEehHhhcCHHHHHHHHHHhccCceeCCCCcEecCcceEEEEecccChHHHhhhcccccchhhhhHHHHHHHHhh
Confidence            358999999999999999999999997521            2567777632100000    00         0000134


Q ss_pred             CChhHhhhhh-heeccCCCHHHHHHHHHHHHHh---------cCCCCCHHHHHHHHHhc
Q psy18185         84 IPLDLLDRLL-IIRTTPYNQKDMEAIIKLRANT---------EGHVLDDEALVTLSEIG  132 (190)
Q Consensus        84 l~~~l~SR~~-~i~~~~ls~~ei~~iL~~~~~~---------~~~~i~~e~l~~i~~~a  132 (190)
                      ++|+|++|+- ++.|.|++.+++.+++......         ..+.++++++++|++.+
T Consensus       205 f~pEflnRid~Ii~F~~L~~~~~~~I~~~~l~~l~~rl~~~~i~l~i~~~~~~~L~~~~  263 (315)
T d1qvra3         205 FRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERG  263 (315)
T ss_dssp             SCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHHHHH
T ss_pred             cCHHHHhcCCeeeeccchhhhhhHHHHHHHHHHHHHHHHhccccccccHHHHHHHHHhC
Confidence            7899999995 6689999999999998755432         34578999999999984

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.86  E-value=4.7e-05  Score=62.50  Aligned_cols=113  Identities=17%  Similarity=0.184  Sum_probs=77.1

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHhhccCC------------CEEEEEecCCcccccCCCC----CCCC--------CCC
Q psy18185         29 VPGVLFIDEVHMLDLETFTYLHRALESAIA------------PIVIFATNRGRCLVRGTDD----IISP--------HGI   84 (190)
Q Consensus        29 ~~~Il~IDEi~~L~~~~~~~L~~~~E~~~~------------~~iIlatn~~~~~~~~t~~----~~~~--------~~l   84 (190)
                      ++.|+++||+|.++++.++.|+.+++++.-            .++|+++|-+...+.....    ....        ..+
T Consensus       121 ~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~Tsnig~~~i~~~~~~~~~~~~~~~~~~~l~~~f  200 (315)
T d1r6bx3         121 PHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIF  200 (315)
T ss_dssp             SSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECSSCC-----------------CHHHHHHHS
T ss_pred             ccchhhhcccccccchHhhhhHHhhccceecCCCCCccCccceEEEeccchhhHHHHhhhccchhhhhhHhHHHHHHHhc
Confidence            358999999999999999999999986431            3577777743221100000    0000        125


Q ss_pred             ChhHhhhhh-heeccCCCHHHHHHHHHHHHHh---------cCCCCCHHHHHHHHHhcCC-----CCHHHHH
Q psy18185         85 PLDLLDRLL-IIRTTPYNQKDMEAIIKLRANT---------EGHVLDDEALVTLSEIGTR-----STLRYVV  141 (190)
Q Consensus        85 ~~~l~SR~~-~i~~~~ls~~ei~~iL~~~~~~---------~~~~i~~e~l~~i~~~a~~-----gdlR~ai  141 (190)
                      +|+|++|+- ++.|.|++.+++.+|+....+.         ..+.++++++++|+..+..     ..++.++
T Consensus       201 ~pEflnRid~ii~f~~l~~~~~~~I~~~~l~~~~~~l~~~~i~l~~~~~a~~~l~~~~yd~~~GaR~L~r~I  272 (315)
T d1r6bx3         201 TPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQEARNWLAEKGYDRAMGARPMARVI  272 (315)
T ss_dssp             CHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEEEECHHHHHHHHHHHCBTTTBTTTHHHHH
T ss_pred             CHHHHhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhcCcchhhHHHHHHHHHHhCCCCCCChhhHHHHH
Confidence            789999995 7899999999999987655432         3457899999999987411     2565555

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.81  E-value=2.2e-05  Score=62.94  Aligned_cols=110  Identities=23%  Similarity=0.235  Sum_probs=69.3

Q ss_pred             CeEEEEecCCCCCH--------------HHHHHHHHHhhccC---CCEEEEEecCCcccccCCCCCCCCCCCChhHhh--
Q psy18185         30 PGVLFIDEVHMLDL--------------ETFTYLHRALESAI---APIVIFATNRGRCLVRGTDDIISPHGIPLDLLD--   90 (190)
Q Consensus        30 ~~Il~IDEi~~L~~--------------~~~~~L~~~~E~~~---~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~S--   90 (190)
                      +.|++|||+|.+..              ...+.|+..++...   +..+|++||             .|..+++++++  
T Consensus       101 p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn-------------~~~~ld~al~r~g  167 (265)
T d1r7ra3         101 PCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATN-------------RPDIIDPAILRPG  167 (265)
T ss_dssp             SEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCB-------------SCTTTSCGGGSST
T ss_pred             CcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCC-------------CchhCCHHHhCCC
Confidence            57999999998842              13466777765321   234455553             37889999986  


Q ss_pred             hh-hheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhh
Q psy18185         91 RL-LIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKT  153 (190)
Q Consensus        91 R~-~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~  153 (190)
                      |+ ..+.|++++.++..++++...++.... .+.-++.|++.+.+-+.+..-+++..|...|.+
T Consensus       168 Rf~~~i~~~~p~~~~R~~il~~~l~~~~~~-~~~~l~~la~~t~g~s~~di~~lv~~A~~~A~~  230 (265)
T d1r7ra3         168 RLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEICQRACKLAIR  230 (265)
T ss_dssp             TSEEEEECCCCCCHHHHHHHHHHTTCC-----CCCCHHHHHHHCSSCCHHHHHHHHHHHHHHHH
T ss_pred             CccEEEEecchHHHHHHHHHHHHhccCCch-hhhhHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            66 478999999999999998766542211 122356677774222445555666666655544

>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=97.66  E-value=1.2e-05  Score=62.21  Aligned_cols=89  Identities=22%  Similarity=0.195  Sum_probs=63.5

Q ss_pred             HHHHHHHHHHHHHHHcCccccCCeEEEEecCCCCCH--------HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCC
Q psy18185          8 KLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDL--------ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDII   79 (190)
Q Consensus         8 ~~R~~I~~~v~~~~~~~~~~~~~~Il~IDEi~~L~~--------~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~   79 (190)
                      ++.+.+..+++.......    .-||||||+|.|-.        ++.+.|...++.+ ...+|++|+        .+.+.
T Consensus        98 ~~E~rl~~il~e~~~~~~----~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~rg-~l~~IgatT--------~eey~  164 (195)
T d1jbka_          98 EFEERLKGVLNDLAKQEG----NVILFIDELHTMVGAGKADGAMDAGNMLKPALARG-ELHCVGATT--------LDEYR  164 (195)
T ss_dssp             HHHHHHHHHHHHHHHSTT----TEEEEEETGGGGTT------CCCCHHHHHHHHHTT-SCCEEEEEC--------HHHHH
T ss_pred             HHHHHHHHHHHHHhcCCC----cEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhCC-CceEEecCC--------HHHHH
Confidence            566667777766433321    25999999999932        3669999999985 467888883        22222


Q ss_pred             CCCCCChhHhhhhhheeccCCCHHHHHHHH
Q psy18185         80 SPHGIPLDLLDRLLIIRTTPYNQKDMEAII  109 (190)
Q Consensus        80 ~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL  109 (190)
                      ....-.++|.+|++.+.+++++.++...+|
T Consensus       165 ~~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         165 QYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            223336889999999999999999988775

>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=97.46  E-value=0.0002  Score=59.98  Aligned_cols=50  Identities=16%  Similarity=0.363  Sum_probs=39.8

Q ss_pred             CCChhHhhhh-hheeccCCCHHHHHHHHHH-----------HHHhcCC--CCCHHHHHHHHHhc
Q psy18185         83 GIPLDLLDRL-LIIRTTPYNQKDMEAIIKL-----------RANTEGH--VLDDEALVTLSEIG  132 (190)
Q Consensus        83 ~l~~~l~SR~-~~i~~~~ls~~ei~~iL~~-----------~~~~~~~--~i~~e~l~~i~~~a  132 (190)
                      .+.|+|..|. .++.|+|++.+++.+|+..           ..+.+|+  +++++++++|++.|
T Consensus       251 ~f~PEf~gRi~~iv~f~~L~~~~l~~Il~~~~~~l~kq~~~~l~~~gi~L~~td~a~~~la~~g  314 (364)
T d1um8a_         251 GLIPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLA  314 (364)
T ss_dssp             TCCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHH
T ss_pred             hhHHHHHHHhcchhhHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhc
Confidence            4678999998 4679999999999999962           1222444  68899999999985

>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=97.33  E-value=0.00025  Score=55.99  Aligned_cols=100  Identities=14%  Similarity=0.216  Sum_probs=63.4

Q ss_pred             CeEEEEecCCCC----------CHHHHHHHHHHhhccCC---CE-EEEEecCCcccccCCCCCCCCCCCCh-hHhhhhh-
Q psy18185         30 PGVLFIDEVHML----------DLETFTYLHRALESAIA---PI-VIFATNRGRCLVRGTDDIISPHGIPL-DLLDRLL-   93 (190)
Q Consensus        30 ~~Il~IDEi~~L----------~~~~~~~L~~~~E~~~~---~~-iIlatn~~~~~~~~t~~~~~~~~l~~-~l~SR~~-   93 (190)
                      +.||||||+|.+          .....+.|+..++....   ++ +|++||             .|+.+++ .+++|+. 
T Consensus       101 p~il~iDEid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~tTn-------------~~~~ld~~~~~~rF~~  167 (246)
T d1d2na_         101 LSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTS-------------RKDVLQEMEMLNAFST  167 (246)
T ss_dssp             EEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEES-------------CHHHHHHTTCTTTSSE
T ss_pred             cceeehhhhhhHhhhcccccchhHHHHHHHHHHhcCCCccccceeeeeccC-------------ChhhccchhhcCccce
Confidence            579999999876          23556777777776432   34 445554             2445544 3677773 


Q ss_pred             heeccCCC-HHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-----CHHHHHHHHHHHH
Q psy18185         94 IIRTTPYN-QKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRS-----TLRYVVQLLTPAA  148 (190)
Q Consensus        94 ~i~~~~ls-~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~g-----dlR~ai~lL~~~~  148 (190)
                      .+.++.++ .+++..++...    + .+++.....+++.+ .|     +++.++..++.+.
T Consensus       168 ~i~~P~~~~r~~il~~l~~~----~-~~~~~~~~~i~~~~-~g~~~~~~ik~ll~~ie~a~  222 (246)
T d1d2na_         168 TIHVPNIATGEQLLEALELL----G-NFKDKERTTIAQQV-KGKKVWIGIKKLLMLIEMSL  222 (246)
T ss_dssp             EEECCCEEEHHHHHHHHHHH----T-CSCHHHHHHHHHHH-TTSEEEECHHHHHHHHHHHT
T ss_pred             EEecCCchhHHHHHHHHHhc----c-CCChHHHHHHHHHc-CCCccchhHHHHHHHHHHHH
Confidence            57786554 45666666543    2 46677778888874 43     5788887776653

>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=96.77  E-value=0.0029  Score=51.10  Aligned_cols=93  Identities=20%  Similarity=0.290  Sum_probs=60.4

Q ss_pred             CeEEEEecCCCCCH------------HHHHHHHHHhhccC-----------CCEEEEEecCCcccccCCCCCCCCCCCCh
Q psy18185         30 PGVLFIDEVHMLDL------------ETFTYLHRALESAI-----------APIVIFATNRGRCLVRGTDDIISPHGIPL   86 (190)
Q Consensus        30 ~~Il~IDEi~~L~~------------~~~~~L~~~~E~~~-----------~~~iIlatn~~~~~~~~t~~~~~~~~l~~   86 (190)
                      +.|+||||+|.+++            ..++.|+..++...           ...+|.+++        . +...|..+.|
T Consensus       116 ~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~~~~~i~~s~ilfi~~ga--------~-~~~~~~~~~p  186 (309)
T d1ofha_         116 NGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGA--------F-QVARPSDLIP  186 (309)
T ss_dssp             HCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEEC--------C-SSSCGGGSCH
T ss_pred             CceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEecCCeEEEccceeEEeccc--------h-hhcCcccchh
Confidence            47999999999953            25677888888421           122333221        1 1123667789


Q ss_pred             hHhhhh-hheeccCCCHHHHHHHHHHH-----------HHh--cCCCCCHHHHHHHHHh
Q psy18185         87 DLLDRL-LIIRTTPYNQKDMEAIIKLR-----------ANT--EGHVLDDEALVTLSEI  131 (190)
Q Consensus        87 ~l~SR~-~~i~~~~ls~~ei~~iL~~~-----------~~~--~~~~i~~e~l~~i~~~  131 (190)
                      +++.|+ .++.|++++.+++.+++...           ...  ..+.+++.+....+..
T Consensus       187 ~l~~R~~~~i~~~~~~~~~~~~Il~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (309)
T d1ofha_         187 ELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEA  245 (309)
T ss_dssp             HHHHTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHHTTCEEEECHHHHHHHHHH
T ss_pred             hhhhhhheeeeccCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCCccccchHHHHHHHHH
Confidence            999998 56899999999999997431           111  2335667766665543

>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=96.47  E-value=0.017  Score=48.94  Aligned_cols=141  Identities=18%  Similarity=0.274  Sum_probs=92.2

Q ss_pred             eEEEEecCCCCC------------HHHHHHHHHHhhccCC-----------CEEEEEecCCcccccCCCCCCCCCCCChh
Q psy18185         31 GVLFIDEVHMLD------------LETFTYLHRALESAIA-----------PIVIFATNRGRCLVRGTDDIISPHGIPLD   87 (190)
Q Consensus        31 ~Il~IDEi~~L~------------~~~~~~L~~~~E~~~~-----------~~iIlatn~~~~~~~~t~~~~~~~~l~~~   87 (190)
                      +++|+||++...            ...+..++..+|....           ..++.++         ......|+++.|+
T Consensus       251 ~~~~~dei~k~~~~~~~~g~d~~~eg~~~~ll~~~e~~~v~~~~~~~~~~~~l~i~~~---------~~~~~~~~gliPE  321 (443)
T d1g41a_         251 GIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASG---------AFQVARPSDLIPE  321 (443)
T ss_dssp             CEEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEE---------CCSSCCGGGSCHH
T ss_pred             CccccchhhhhhhcccCCCCCcccchhhhhhhhhccccccccccccccccchhhcccc---------chhhcccccchhh
Confidence            789999998763            2567788888775321           1233333         2223356788999


Q ss_pred             Hhhhh-hheeccCCCHHHHHHHHHHH-----------HHhcCCC--CCHHHHHHHHHhcC------CC-CHHHHHHHHHH
Q psy18185         88 LLDRL-LIIRTTPYNQKDMEAIIKLR-----------ANTEGHV--LDDEALVTLSEIGT------RS-TLRYVVQLLTP  146 (190)
Q Consensus        88 l~SR~-~~i~~~~ls~~ei~~iL~~~-----------~~~~~~~--i~~e~l~~i~~~a~------~g-dlR~ai~lL~~  146 (190)
                      |..|+ .++.|.+|+.+++.+||..-           .+.+|++  +++++++.|++.|.      ++ ++|..-.+++.
T Consensus       322 liGRlPi~v~L~~L~~~dL~rILtEPknsLikQy~~lf~~~gv~L~ft~~al~~iA~~A~~~n~~~~~~GAR~Lr~i~E~  401 (443)
T d1g41a_         322 LQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMER  401 (443)
T ss_dssp             HHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCCCGGGHHHHHHHH
T ss_pred             hccceEEEEEccCccHHHHHHHHHhhhhhHHHHHHHHHhhcCcEEEEcHHHHHHHHHHHHHhhhhcccCCchHHHHHHHH
Confidence            99997 56799999999999999531           1225664  58999999999863      22 45655444444


Q ss_pred             H----HHHhhhc-CC-CcccHHHHHHHHHhccChHHHHHH
Q psy18185        147 A----ALTAKTN-GR-TAISKQDILEVSTLFLDAKSSARI  180 (190)
Q Consensus       147 ~----~~~a~~~-g~-~~It~~~V~~~~~~f~~~~~~~~~  180 (190)
                      .    .+-+... +. -.||.+.|+..+.-+.......|+
T Consensus       402 ~l~~~~f~~p~~~~~~v~Id~~~v~~~l~~~~~~~dl~k~  441 (443)
T d1g41a_         402 LMDKISFSASDMNGQTVNIDAAYVADALGEVVENEDLSRF  441 (443)
T ss_dssp             HHHHHHHHGGGCTTCEEEECHHHHHHHHTTTTTCHHHHHH
T ss_pred             HHHHHhccCCCCCCCEEEECHHHHHhhhhchhhcCCcccc
Confidence            4    3323222 22 248899998888666655555544

>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=94.95  E-value=0.14  Score=38.25  Aligned_cols=107  Identities=8%  Similarity=0.028  Sum_probs=63.9

Q ss_pred             CeEEEEecCCCCCH----HHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhH-hhhhhheeccCCCHHH
Q psy18185         30 PGVLFIDEVHMLDL----ETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDL-LDRLLIIRTTPYNQKD  104 (190)
Q Consensus        30 ~~Il~IDEi~~L~~----~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l-~SR~~~i~~~~ls~~e  104 (190)
                      +-++++||.|.+..    +....+...........+++++..... +....   .......++ ..+...+.+.|++.++
T Consensus       137 ~~~i~id~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~-~~~~~---~~~~~~~~~~~~~~~~i~L~~l~~~e  212 (283)
T d2fnaa2         137 NVIIVLDEAQELVKLRGVNLLPALAYAYDNLKRIKFIMSGSEMGL-LYDYL---RVEDPESPLFGRAFSTVELKPFSREE  212 (283)
T ss_dssp             CEEEEEETGGGGGGCTTCCCHHHHHHHHHHCTTEEEEEEESSHHH-HHHHT---TTTCTTSTTTTCCCEEEEECCCCHHH
T ss_pred             ccccccchhhhhcccchHHHHHHHHHHHHhhhhhhhhhccccchH-HHHHH---HhhhhcchhcccceeEEeeCCCCHHH
Confidence            35788999998843    455566666666544445555421100 00000   000011112 2234678999999999


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHH
Q psy18185        105 MEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLL  144 (190)
Q Consensus       105 i~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL  144 (190)
                      ..+++...+...++..  +.++.+.+. ++|.+. .++++
T Consensus       213 ~~~~l~~~~~~~~~~~--~~~~~i~~~-~~G~P~-~L~~~  248 (283)
T d2fnaa2         213 AIEFLRRGFQEADIDF--KDYEVVYEK-IGGIPG-WLTYF  248 (283)
T ss_dssp             HHHHHHHHHHHHTCCC--CCHHHHHHH-HCSCHH-HHHHH
T ss_pred             HHHHHHhhhhhcCCCH--HHHHHHHHH-hCCCHH-HHHHH
Confidence            9999999888777554  447788888 578775 45555

>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=94.47  E-value=0.033  Score=38.45  Aligned_cols=36  Identities=28%  Similarity=0.373  Sum_probs=24.1

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhh---ccCCCEEEEEe
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALE---SAIAPIVIFAT   65 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E---~~~~~~iIlat   65 (190)
                      ++++|+||+|.++.+....+.++++   ..+.+.+++.|
T Consensus        95 ~~~vIiDE~H~~~~~~~~~~~~~l~~~~~~~~~~~l~~T  133 (136)
T d1a1va1          95 YDIIICDECHSTDATSILGIGTVLDQAETAGARLVVLAT  133 (136)
T ss_dssp             CSEEEEETTTCCSHHHHHHHHHHHHHTTTTTCSEEEEEE
T ss_pred             CCEEEEecccccCHHHHHHHHHHHHHHHHCCCCcEEEEe
Confidence            4899999999998865444544444   43345566655

>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=94.31  E-value=0.16  Score=31.89  Aligned_cols=60  Identities=20%  Similarity=0.230  Sum_probs=50.0

Q ss_pred             HHHHHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhcc
Q psy18185        109 IKLRANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFL  172 (190)
Q Consensus       109 L~~~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f~  172 (190)
                      +....+..|+ ++++.++..+.+++    .|+.-.+|+-|..++...|++.|+.++|+-++..-.
T Consensus         7 i~~iL~~~GV~~yeprV~~qlLef~----yRYtt~VL~DA~vys~HA~k~~id~dDVkLAi~~r~   67 (68)
T d1tafa_           7 IMSILKELNVQEYEPRVVNQLLEFT----FRYVTSILDDAKVYANHARKKTIDLDDVRLATEVTL   67 (68)
T ss_dssp             HHHHHHHTTCCCBCTHHHHHHHHHH----HHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCccccHHHHHHHHHHH----HHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhcc
Confidence            3444455676 68999999999994    799999999999999989999999999998876543

>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=94.18  E-value=0.083  Score=35.54  Aligned_cols=38  Identities=24%  Similarity=0.236  Sum_probs=23.2

Q ss_pred             cCCeEEEEecCCCCCHHHHH--HHHHHhhccCCCEEEEEe
Q psy18185         28 LVPGVLFIDEVHMLDLETFT--YLHRALESAIAPIVIFAT   65 (190)
Q Consensus        28 ~~~~Il~IDEi~~L~~~~~~--~L~~~~E~~~~~~iIlat   65 (190)
                      ...+++++||+|++++....  .+...+.......+|+.|
T Consensus        97 ~~~~lvIiDEaH~~~~~~~~~~~~~~~~~~~~~~~~l~lT  136 (140)
T d1yksa1          97 VNWEVIIMDEAHFLDPASIAARGWAAHRARANESATILMT  136 (140)
T ss_dssp             CCCSEEEETTTTCCSHHHHHHHHHHHHHHHTTSCEEEEEC
T ss_pred             cceeEEEEccccccChhhHHHHHHHHHHhhCCCCCEEEEE
Confidence            35689999999999775432  333333333345555555

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=94.05  E-value=0.00052  Score=57.29  Aligned_cols=59  Identities=8%  Similarity=-0.225  Sum_probs=43.8

Q ss_pred             hHhhhhhheeccCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHH
Q psy18185         87 DLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLT  145 (190)
Q Consensus        87 ~l~SR~~~i~~~~ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~  145 (190)
                      ..|.++.++.+.|........++...++++.+.++.+++..+....+++|++..++-+.
T Consensus       273 ~~Rf~~~i~~~~~~~~~~~~~~l~~i~~~~~l~~~~~~L~~li~~~s~~D~~~~i~~~~  331 (362)
T d1svma_         273 QARFVKQIDFRPKDYLKHCLERSEFLLEKRIIQSGIALLLMLIWYRPVAEFAQSIQSRI  331 (362)
T ss_dssp             HTTEEEEEECCCCHHHHHHHHTCTHHHHTTCTTCHHHHHHHHHHHSCGGGSCGGGHHHH
T ss_pred             cccCceEEeecCCCcHHHHHHHHHHHhcccCCCCCHHHHHHHccCCCHHHHHHHHHHHH
Confidence            45666778788888777777888888889999888888766554425678888776553

>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=92.93  E-value=0.4  Score=29.42  Aligned_cols=65  Identities=23%  Similarity=0.287  Sum_probs=47.7

Q ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHhc
Q psy18185        100 YNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLF  171 (190)
Q Consensus       100 ls~~ei~~iL~~~~~~~~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~f  171 (190)
                      ++..-+..+++.-   ....++.|+...+.+.+ +   -+.-++.+.+..+++..+++.|+.+||..++..|
T Consensus         4 LP~a~I~ri~k~~---~~~ris~ea~~~l~~~~-e---~fi~~l~~~a~~~a~~~kRkTi~~~DV~~Alk~~   68 (68)
T d1htaa_           4 LPIAPIGRIIKNA---GAERVSDDARIALAKVL-E---EMGEEIASEAVKLAKHAGRKTIKAEDIELARKMF   68 (68)
T ss_dssp             SCHHHHHHHHHHT---TCSCCCHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHTC
T ss_pred             CcHHHHHHHHHHC---CcchhhHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHhC
Confidence            3444455555431   33468999999999984 3   3556677888888888999999999999998754

>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=92.73  E-value=0.11  Score=42.10  Aligned_cols=68  Identities=13%  Similarity=0.054  Sum_probs=40.2

Q ss_pred             eEEEEecCCCCCH------------HHHHHHHHHhh---ccCCCEEEEEecCCcccccCCCCCCCCCCCChhHh------
Q psy18185         31 GVLFIDEVHMLDL------------ETFTYLHRALE---SAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLL------   89 (190)
Q Consensus        31 ~Il~IDEi~~L~~------------~~~~~L~~~~E---~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~------   89 (190)
                      .||||||+|.+..            ...+-|+.-++   ....+.+|.+||              |..+++++-      
T Consensus       184 ~ilf~DEid~~~~~r~~~~~~~~~~r~v~~lL~e~dg~~~~~~v~viaatN--------------~~~~~~~i~~~~~r~  249 (321)
T d1w44a_         184 RVIVIDSLKNVIGAAGGNTTSGGISRGAFDLLSDIGAMAASRGCVVIASLN--------------PTSNDDKIVELVKEA  249 (321)
T ss_dssp             SEEEEECCTTTC-----------CCHHHHHHHHHHHHHHHHHTCEEEEECC--------------CCCCCHHHHHHHHHH
T ss_pred             cEEEeehhhhhccccccCCCCCcchhhhhhhhhhccccccCCCeEEEEeCC--------------Ccccccchhhhhhcc
Confidence            6999999999943            23344444443   222255555664              555665554      


Q ss_pred             hhh-hheeccCCCHHHHHHHHHHH
Q psy18185         90 DRL-LIIRTTPYNQKDMEAIIKLR  112 (190)
Q Consensus        90 SR~-~~i~~~~ls~~ei~~iL~~~  112 (190)
                      +|+ ..+.+.+++.++-.++|...
T Consensus       250 ~Rf~~~v~v~~pd~~~r~~il~~~  273 (321)
T d1w44a_         250 SRSNSTSLVISTDVDGEWQVLTRT  273 (321)
T ss_dssp             HHHSCSEEEEECSSTTEEEEEEEC
T ss_pred             CcccceeecCCCChHHHHHHHHHh
Confidence            344 56777777777666666433

>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H4
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

Probab=87.72  E-value=0.74  Score=29.50  Aligned_cols=63  Identities=8%  Similarity=0.104  Sum_probs=44.7

Q ss_pred             CCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185         99 PYNQKDMEAIIKLRANTEGHV-LDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus        99 ~ls~~ei~~iL~~~~~~~~~~-i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      .++...+.    +.++..|+. +++++.+.+.... +   -++-++++.+..+++..++..||.+||..++.
T Consensus         9 gI~k~~i~----Riar~~Gv~ris~d~~~~l~~~l-~---~~l~~i~~~a~~~~~hakRKTvt~~DV~~Alk   72 (82)
T d2huec1           9 GITKPAIR----RLARRGGVKRISGLIYEETRGVL-K---VFLENVIRDAVTYTEHAKRKTVTAMDVVYALK   72 (82)
T ss_dssp             SSCHHHHH----HHHHHTTCCEECTTHHHHHHHHH-H---HHHHHHHHHHHHHHHHTTCSEECHHHHHHHTT
T ss_pred             CcCHHHHH----HHHHHcCcccchHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHH
Confidence            35555444    344455665 8999999988873 2   23456677777788888899999999988764

>d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)62
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=87.57  E-value=0.67  Score=29.00  Aligned_cols=57  Identities=28%  Similarity=0.237  Sum_probs=39.6

Q ss_pred             HHHHHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        109 IKLRANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       109 L~~~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ++-.|+-.|+ .++|+++..|+.-. +.-+|..+   +.|...-....+.++|.++|..++.
T Consensus        12 ik~iAeS~Gi~~l~de~a~~LA~Dv-eYRl~eii---QeA~KFMrhskR~~Ltt~Did~ALk   69 (70)
T d1tafb_          12 MKVIAESIGVGSLSDDAAKELAEDV-SIKLKRIV---QDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             HHHHHHHTTCCCBCHHHHHHHHHHH-HHHHHHHH---HHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             HHHHHHHcCCCCCCHHHHHHHHHHH-HHHHHHHH---HHHHHHHHHhccCcCcHHHHHHHHc
Confidence            4445666788 59999999999883 55455544   4444333344567899999998874

>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=86.54  E-value=0.38  Score=37.30  Aligned_cols=92  Identities=11%  Similarity=0.082  Sum_probs=56.5

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHhhccCCCEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHHHHH
Q psy18185         31 GVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIK  110 (190)
Q Consensus        31 ~Il~IDEi~~L~~~~~~~L~~~~E~~~~~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~iL~  110 (190)
                      -++++|+++..  +....+    ... +..+|++|+        .      ..+.....+++..+.+++++.+|..+.+.
T Consensus       137 ~LlVLDDv~~~--~~~~~~----~~~-~srilvTTR--------~------~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~  195 (277)
T d2a5yb3         137 TLFVFDDVVQE--ETIRWA----QEL-RLRCLVTTR--------D------VEISNAASQTCEFIEVTSLEIDECYDFLE  195 (277)
T ss_dssp             EEEEEEEECCH--HHHHHH----HHT-TCEEEEEES--------B------GGGGGGCCSCEEEEECCCCCHHHHHHHHH
T ss_pred             eeEecchhhHH--hhhhhh----ccc-CceEEEEee--------h------HHHHHhcCCCCceEECCCCCHHHHHHHHH
Confidence            58889999853  333322    222 355777673        1      12223344556789999999999999987


Q ss_pred             HHHHhcC-CCCCHHHHHHHHHhcCCCCHHHHHHHHH
Q psy18185        111 LRANTEG-HVLDDEALVTLSEIGTRSTLRYVVQLLT  145 (190)
Q Consensus       111 ~~~~~~~-~~i~~e~l~~i~~~a~~gdlR~ai~lL~  145 (190)
                      .++-... ..-.++....|++. |+| +.-|+.++.
T Consensus       196 ~~~~~~~~~~~~~~~~~~iv~~-c~G-lPLAl~~ig  229 (277)
T d2a5yb3         196 AYGMPMPVGEKEEDVLNKTIEL-SSG-NPATLMMFF  229 (277)
T ss_dssp             HTSCCCC--CHHHHHHHHHHHH-HTT-CHHHHHHHH
T ss_pred             HHhCCccCchhhHHHHHHHHHH-hCC-CHHHHHHHH
Confidence            6542211 11235667788888 465 457887774

>d1ku5a_ a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococcus horikoshii) [TaxId: 53953]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon (Pyrococcus horikoshii) [TaxId: 53953]

Probab=85.33  E-value=1.5  Score=26.48  Aligned_cols=49  Identities=20%  Similarity=0.292  Sum_probs=40.2

Q ss_pred             CCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHH
Q psy18185        117 GHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVST  169 (190)
Q Consensus       117 ~~~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~  169 (190)
                      ...++.++...+.+.+ +   -+.-++...+..+++..|++.|+.+||..++.
T Consensus        17 ~~ris~ea~~~l~~a~-e---~Fi~~l~~~a~~~a~~~~RKTI~~~Dv~~Al~   65 (66)
T d1ku5a_          17 AERVSEQAAKVLAEYL-E---EYAIEIAKKAVEFARHAGRKTVKVEDIKLAIK   65 (66)
T ss_dssp             CSEECHHHHHHHHHHH-H---HHHHHHHHHHHHHHHTTTCSEECHHHHHHHHT
T ss_pred             ccccHHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHh
Confidence            3468999999998884 3   36667778888899999999999999998764

>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon Methanopyrus kandleri [TaxId: 2320]

Probab=84.64  E-value=1.6  Score=30.87  Aligned_cols=62  Identities=21%  Similarity=0.244  Sum_probs=48.3

Q ss_pred             CHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhhcCCCcccHHHHHHHHHh
Q psy18185        101 NQKDMEAIIKLRANTEGH-VLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTL  170 (190)
Q Consensus       101 s~~ei~~iL~~~~~~~~~-~i~~e~l~~i~~~a~~gdlR~ai~lL~~~~~~a~~~g~~~It~~~V~~~~~~  170 (190)
                      +..-++.+++    ..|. .++.++..++.+.+ +   -+..++++.+..++...++..|+.+||..++.+
T Consensus        81 p~a~IkRi~k----~~g~~ris~dA~~~l~~~~-E---~fi~~l~~~A~~~a~~~kRkTI~~~DI~~Av~~  143 (151)
T d1f1ea_          81 GRATVRRILK----RAGIERASSDAVDLYNKLI-C---RATEELGEKAAEYADEDGRKTVQGEDVEKAITY  143 (151)
T ss_dssp             CHHHHHHHHH----HTTCCEECHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred             CHHHHHHHHH----cCCcchhhHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHH
Confidence            4455555554    2343 58999999999984 3   367788899999999999999999999998865

>d1u0sy_ c.23.1.1 (Y:) CheY protein {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: CheY protein
species: Thermotoga maritima [TaxId: 2336]

Probab=82.36  E-value=0.6  Score=31.35  Aligned_cols=70  Identities=7%  Similarity=0.154  Sum_probs=42.4

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHhhccCC-CEEEEEecCCcccccCCCCCCCCCCCChhHhhhhhheeccCCCHHHHHHH
Q psy18185         30 PGVLFIDEVHMLDLETFTYLHRALESAIA-PIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAI  108 (190)
Q Consensus        30 ~~Il~IDEi~~L~~~~~~~L~~~~E~~~~-~~iIlatn~~~~~~~~t~~~~~~~~l~~~l~SR~~~i~~~~ls~~ei~~i  108 (190)
                      +.++++| ++.=+.+....+.++.+..+. |++++++.        . +   +......+..-+.-|-.+|++.+++.+.
T Consensus        47 ~dliilD-~~mp~~~G~e~~~~ir~~~~~~pvi~ls~~--------~-~---~~~~~~a~~~Ga~~yl~KP~~~~~L~~~  113 (118)
T d1u0sy_          47 PDIVTMD-ITMPEMNGIDAIKEIMKIDPNAKIIVCSAM--------G-Q---QAMVIEAIKAGAKDFIVKPFQPSRVVEA  113 (118)
T ss_dssp             CSEEEEE-CSCGGGCHHHHHHHHHHHCTTCCEEEEECT--------T-C---HHHHHHHHHTTCCEEEESSCCHHHHHHH
T ss_pred             CCEEEEe-cCCCCCCHHHHHHHHHHhCCCCcEEEEEcc--------C-C---HHHHHHHHHcCCCEEEECCCCHHHHHHH
Confidence            5789998 544455677777766665544 65555552        1 0   1111122333345677899999999999


Q ss_pred             HHHH
Q psy18185        109 IKLR  112 (190)
Q Consensus       109 L~~~  112 (190)
                      |++.
T Consensus       114 l~~v  117 (118)
T d1u0sy_         114 LNKV  117 (118)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            8754