Psyllid ID: psy13774

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110
Protein Sequence
MRIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYKRKIA
Secondary Structure (PSIPRED)
cHHHHHHHHHHHcccEEEEEEcccHHHHccccccccccccHHHHHHHHHHHHHcccccccEEEEEEcccccccccccccccccccEEEEccccHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHcccEEEEEEEEccccccccccccccccHHHHHHHHHHHHcccccccccEEEEEEccccccccHHHccccccccEEEEccccccHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
mriatgasmaraaapcvLFFDELDSIAksrggsvgdgggaADRVINQILTEMDGMGAKKNVFIIgatnrpdiidpailrpgrldqliyiplpdeIWLILSDKFLYKRKIA
Flexible Loop (DISEMBL)
mriatgasmaraaaPCVLFFDELDSIAKSrggsvgdgggaADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYKRKIA
Low Complexity Region (SEG)
MRIATGASMARAAAPCVLFFDELDSIAKsrggsvgdgggaadrvINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYKRKIA
Disordered region (IsUnstruct)
***********AAAPCVLFFDELDSIAK*****VGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYK****
Disordered Region (DISOPRED)
*RIATGASMARAAAPCVLFFDELDSI*****************VINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYK****
Disordered Region (DISEMBL)
**********RAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYKRKIA
Disordered Region (DISPRO)
*RIATGASMARAAAPCVLFFDELDSIAKS********GGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYKRKIA
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYKRKIA
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	110	2.2.26 [Sep-21-2011]
P54812	810	Transitional endoplasmic	yes	N/A	0.745	0.101	0.941	6e-42
Q7KN62	801	Transitional endoplasmic	yes	N/A	0.745	0.102	0.941	1e-41
P54774	807	Cell division cycle prote	yes	N/A	0.745	0.101	0.870	2e-38
Q9SCN8	815	Cell division control pro	yes	N/A	0.745	0.100	0.870	2e-38
P25694	835	Cell division control pro	yes	N/A	0.745	0.098	0.847	6e-38
Q96372	805	Cell division cycle prote	N/A	N/A	0.745	0.101	0.858	6e-38
Q9LZF6	810	Cell division control pro	no	N/A	0.745	0.101	0.847	3e-37
Q5AWS6	823	Cell division control pro	yes	N/A	0.745	0.099	0.776	8e-36
Q7ZU99	806	Transitional endoplasmic	yes	N/A	0.745	0.101	0.941	4e-35
Q6GL04	805	Transitional endoplasmic	yes	N/A	0.745	0.101	0.929	5e-35

>sp|P54812|TERA2_CAEEL Transitional endoplasmic reticulum ATPase homolog 2 OS=Caenorhabditis elegans GN=cdc-48.2 PE=1 SV=2

 Score =  169 bits (427), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 80/85 (94%), Positives = 83/85 (97%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           ARAAAPCVLFFDELDSIAK+RGGSVGD GGAADRVINQ+LTEMDGM AKKNVFIIGATNR
Sbjct: 571 ARAAAPCVLFFDELDSIAKARGGSVGDAGGAADRVINQVLTEMDGMNAKKNVFIIGATNR 630

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPA+LRPGRLDQLIYIPLPDE
Sbjct: 631 PDIIDPAVLRPGRLDQLIYIPLPDE 655

Caenorhabditis elegans (taxid: 6239)

>sp|Q7KN62|TERA_DROME Transitional endoplasmic reticulum ATPase TER94 OS=Drosophila melanogaster GN=TER94 PE=1 SV=1

 Score =  167 bits (424), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 80/85 (94%), Positives = 84/85 (98%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           AR+AAPCVLFFDELDSIAK+RGG+VGD GGAADRVINQILTEMDGMGAKKNVFIIGATNR
Sbjct: 563 ARSAAPCVLFFDELDSIAKARGGNVGDAGGAADRVINQILTEMDGMGAKKNVFIIGATNR 622

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPD+
Sbjct: 623 PDIIDPAILRPGRLDQLIYIPLPDD 647

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation of the transitional endoplasmic reticulum (tER). The transfer of membranes from the endoplasmic reticulum to the Golgi apparatus occurs via 50-70 nm transition vesicles which derive from part-rough, part-smooth transitional elements of the endoplasmic reticulum (tER). Vesicle budding from the tER is an ATP-dependent process (By similarity). Involved in the ubiquitin-proteasome system. Important for oskar mRNA localization and/or anchoring during oogenesis.

Drosophila melanogaster (taxid: 7227)

>sp|P54774|CDC48_SOYBN Cell division cycle protein 48 homolog OS=Glycine max GN=CDC48 PE=2 SV=1

 Score =  157 bits (398), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/85 (87%), Positives = 78/85 (91%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           AR +APCVLFFDELDSIA  RG SVGD GGAADRV+NQ+LTEMDGM AKK VFIIGATNR
Sbjct: 570 ARQSAPCVLFFDELDSIATQRGSSVGDAGGAADRVLNQLLTEMDGMSAKKTVFIIGATNR 629

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPA+LRPGRLDQLIYIPLPDE
Sbjct: 630 PDIIDPALLRPGRLDQLIYIPLPDE 654

Probably functions in cell division and growth processes.

Glycine max (taxid: 3847)

>sp|Q9SCN8|CD48D_ARATH Cell division control protein 48 homolog D OS=Arabidopsis thaliana GN=CDC48D PE=1 SV=1

 Score =  157 bits (397), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/85 (87%), Positives = 78/85 (91%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           AR +APCVLFFDELDSIA  RG SVGD GGAADRV+NQ+LTEMDGM AKK VFIIGATNR
Sbjct: 570 ARQSAPCVLFFDELDSIATQRGNSVGDAGGAADRVLNQLLTEMDGMNAKKTVFIIGATNR 629

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPA+LRPGRLDQLIYIPLPDE
Sbjct: 630 PDIIDPALLRPGRLDQLIYIPLPDE 654

Probably functions in cell division and growth processes. Interacts with certain SNAREs as part of specialized membrane fusion events where vesicles from the same organelle fuse (homotypic fusion).

Arabidopsis thaliana (taxid: 3702)

>sp|P25694|CDC48_YEAST Cell division control protein 48 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=CDC48 PE=1 SV=3

 Score =  155 bits (393), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 72/85 (84%), Positives = 80/85 (94%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           ARAAAP V+F DELDSIAK+RGGS+GD GGA+DRV+NQ+LTEMDGM AKKNVF+IGATNR
Sbjct: 576 ARAAAPTVVFLDELDSIAKARGGSLGDAGGASDRVVNQLLTEMDGMNAKKNVFVIGATNR 635

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PD IDPAILRPGRLDQLIY+PLPDE
Sbjct: 636 PDQIDPAILRPGRLDQLIYVPLPDE 660

Involved in spindle disassembly, degradation of ubiquitinated proteins and protein export from the endoplasmic reticulum to the cytoplasm. Acts as a chaperone that collects ubiquitinated substrates. Has a role in the endoplasmic reticulum-associated degradation (ERAD) pathway. Required for the proteasome-dependent processing/activation of MGA2 and SPT23 transcription factors leading to the subsequent expression of OLE1. Has an additional role in the turnover of OLE1 where it targets ubiquitinated OLE1 and other proteins to the ERAD.

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

>sp|Q96372|CDC48_CAPAN Cell division cycle protein 48 homolog OS=Capsicum annuum GN=CAFP PE=2 SV=1

 Score =  155 bits (392), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 73/85 (85%), Positives = 77/85 (90%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           AR +APCVLFFDELDSIA  RG S GD GGAADRV+NQ+LTEMDGM AKK VFIIGATNR
Sbjct: 570 ARQSAPCVLFFDELDSIATQRGSSSGDAGGAADRVLNQLLTEMDGMNAKKTVFIIGATNR 629

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPA+LRPGRLDQLIYIPLPDE
Sbjct: 630 PDIIDPALLRPGRLDQLIYIPLPDE 654

Probably functions in cell division and growth processes.

Capsicum annuum (taxid: 4072)

>sp|Q9LZF6|CD48E_ARATH Cell division control protein 48 homolog E OS=Arabidopsis thaliana GN=CDC48E PE=1 SV=2

 Score =  153 bits (386), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 72/85 (84%), Positives = 76/85 (89%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           AR +APCVLFFDELDSIA  RG S GD GGAADRV+NQ+LTEMDGM AKK VFIIGATNR
Sbjct: 569 ARQSAPCVLFFDELDSIATQRGNSAGDAGGAADRVLNQLLTEMDGMNAKKTVFIIGATNR 628

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIID A+LRPGRLDQLIYIPLPDE
Sbjct: 629 PDIIDSALLRPGRLDQLIYIPLPDE 653

Probably functions in cell division and growth processes. Interacts with certain SNAREs as part of specialized membrane fusion events where vesicles from the same organelle fuse (homotypic fusion).

Arabidopsis thaliana (taxid: 3702)

>sp|Q5AWS6|CDC48_EMENI Cell division control protein 48 OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) GN=cdc48 PE=1 SV=2

 Score =  148 bits (374), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 66/85 (77%), Positives = 79/85 (92%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           ARAAAPCV+F DELDSIAKSRGGSVGD GGA+DRV+NQ+LTEMDGM +KKNVF+IGATNR
Sbjct: 588 ARAAAPCVVFLDELDSIAKSRGGSVGDAGGASDRVVNQLLTEMDGMTSKKNVFVIGATNR 647

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           P+ +D A++RPGRLD L+Y+PLPD+
Sbjct: 648 PEQLDAALVRPGRLDTLVYVPLPDQ 672

Involved in spindle disassembly, degradation of ubiquitinated proteins and protein export from the endoplasmic reticulum to the cytoplasm (By similarity). Involved in osmoadaptation.

Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) (taxid: 227321)

>sp|Q7ZU99|TERA_DANRE Transitional endoplasmic reticulum ATPase OS=Danio rerio GN=vcp PE=1 SV=1

 Score =  146 bits (368), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 80/85 (94%), Positives = 83/85 (97%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           AR AAPCVLFFDELDSIAK+RGG+VGDGGGAADRVINQILTEMDGM +KKNVFIIGATNR
Sbjct: 566 ARQAAPCVLFFDELDSIAKARGGNVGDGGGAADRVINQILTEMDGMSSKKNVFIIGATNR 625

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 626 PDIIDPAILRPGRLDQLIYIPLPDE 650

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). The transfer of membranes from the endoplasmic reticulum to the Golgi apparatus occurs via 50-70 nm transition vesicles which derive from part-rough, part-smooth transitional elements of the endoplasmic reticulum (tER). Vesicle budding from the tER is an ATP-dependent process (By similarity). Enhances cell cycle progression and inhibits apoptosis at low temperatures.

Danio rerio (taxid: 7955)

>sp|Q6GL04|TERA_XENTR Transitional endoplasmic reticulum ATPase OS=Xenopus tropicalis GN=vcp PE=2 SV=1

 Score =  146 bits (368), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 79/85 (92%), Positives = 82/85 (96%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           AR AAPCVLFFDELDSIAK+RGG++GDGGGAADRVINQILTEMDGM  KKNVFIIGATNR
Sbjct: 566 ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR 625

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 626 PDIIDPAILRPGRLDQLIYIPLPDE 650

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation of the nuclear envelope and of the transitional endoplasmic reticulum (tER). The transfer of membranes from the endoplasmic reticulum to the Golgi apparatus occurs via 50-70 nm transition vesicles which derive from part-rough, part-smooth transitional elements of the endoplasmic reticulum (tER). Vesicle budding from the tER is an ATP-dependent process.

Xenopus tropicalis (taxid: 8364)

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	110
357623246	1316	transitional endoplasmic reticulum ATPas	0.745	0.062	0.952	5e-42
193617621	804	PREDICTED: transitional endoplasmic reti	0.745	0.101	0.976	3e-41
345486620	801	PREDICTED: transitional endoplasmic reti	0.745	0.102	0.976	3e-41
391325496	798	PREDICTED: transitional endoplasmic reti	0.745	0.102	0.988	3e-41
391325494	799	PREDICTED: transitional endoplasmic reti	0.745	0.102	0.988	3e-41
380016377	893	PREDICTED: LOW QUALITY PROTEIN: transiti	0.745	0.091	0.964	4e-41
383861759	811	PREDICTED: transitional endoplasmic reti	0.745	0.101	0.964	4e-41
383861757	801	PREDICTED: transitional endoplasmic reti	0.745	0.102	0.964	4e-41
328783535	811	PREDICTED: transitional endoplasmic reti	0.745	0.101	0.964	5e-41
350426753	811	PREDICTED: transitional endoplasmic reti	0.745	0.101	0.964	6e-41

>gi|357623246|gb|EHJ74479.1| transitional endoplasmic reticulum ATPase TER94 [Danaus plexippus]

 Score =  174 bits (441), Expect = 5e-42,   Method: Composition-based stats.
 Identities = 81/85 (95%), Positives = 83/85 (97%)

Query: 10   ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
            AR+A+PCVLFFDELDSIAKSRGGSV D GGAADRVINQILTEMDGMGAKKNVFIIGATNR
Sbjct: 1075 ARSASPCVLFFDELDSIAKSRGGSVSDAGGAADRVINQILTEMDGMGAKKNVFIIGATNR 1134

Query: 70   PDIIDPAILRPGRLDQLIYIPLPDE 94
            PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 1135 PDIIDPAILRPGRLDQLIYIPLPDE 1159

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193617621|ref|XP_001949588.1| PREDICTED: transitional endoplasmic reticulum ATPase TER94-like [Acyrthosiphon pisum]

 Score =  172 bits (436), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 83/85 (97%), Positives = 84/85 (98%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           ARAAAPCVLFFDELDSIAKSRGG+VGD GGAADRVINQILTEMDGMGAKKNVFIIGATNR
Sbjct: 564 ARAAAPCVLFFDELDSIAKSRGGNVGDAGGAADRVINQILTEMDGMGAKKNVFIIGATNR 623

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 624 PDIIDPAILRPGRLDQLIYIPLPDE 648

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345486620|ref|XP_001605497.2| PREDICTED: transitional endoplasmic reticulum ATPase TER94-like [Nasonia vitripennis]

 Score =  172 bits (436), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 83/85 (97%), Positives = 84/85 (98%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           AR+AAPCVLFFDELDSIAKSRGGSVGD GGAADRVINQILTEMDGMGAKKNVFIIGATNR
Sbjct: 564 ARSAAPCVLFFDELDSIAKSRGGSVGDAGGAADRVINQILTEMDGMGAKKNVFIIGATNR 623

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 624 PDIIDPAILRPGRLDQLIYIPLPDE 648

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|391325496|ref|XP_003737269.1| PREDICTED: transitional endoplasmic reticulum ATPase TER94-like isoform 2 [Metaseiulus occidentalis]

 Score =  172 bits (435), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 84/85 (98%), Positives = 84/85 (98%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           ARAAAPCVLFFDELDSIAKSRGGSVGD GGAADRVINQILTEMDGMGAKKNVFIIGATNR
Sbjct: 564 ARAAAPCVLFFDELDSIAKSRGGSVGDAGGAADRVINQILTEMDGMGAKKNVFIIGATNR 623

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 624 PDIIDPAILRPGRLDQLIYIPLPDE 648

Source: Metaseiulus occidentalis

Species: Metaseiulus occidentalis

Genus: Metaseiulus

Family: Phytoseiidae

Order: Mesostigmata

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|391325494|ref|XP_003737268.1| PREDICTED: transitional endoplasmic reticulum ATPase TER94-like isoform 1 [Metaseiulus occidentalis]

 Score =  172 bits (435), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 84/85 (98%), Positives = 84/85 (98%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           ARAAAPCVLFFDELDSIAKSRGGSVGD GGAADRVINQILTEMDGMGAKKNVFIIGATNR
Sbjct: 565 ARAAAPCVLFFDELDSIAKSRGGSVGDAGGAADRVINQILTEMDGMGAKKNVFIIGATNR 624

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 625 PDIIDPAILRPGRLDQLIYIPLPDE 649

Source: Metaseiulus occidentalis

Species: Metaseiulus occidentalis

Genus: Metaseiulus

Family: Phytoseiidae

Order: Mesostigmata

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380016377|ref|XP_003692162.1| PREDICTED: LOW QUALITY PROTEIN: transitional endoplasmic reticulum ATPase TER94-like [Apis florea]

 Score =  171 bits (434), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 82/85 (96%), Positives = 84/85 (98%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           ARAAAPCVLFFDELDSIAKSRGG++GD GGAADRVINQILTEMDGMGAKKNVFIIGATNR
Sbjct: 645 ARAAAPCVLFFDELDSIAKSRGGTLGDAGGAADRVINQILTEMDGMGAKKNVFIIGATNR 704

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 705 PDIIDPAILRPGRLDQLIYIPLPDE 729

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383861759|ref|XP_003706352.1| PREDICTED: transitional endoplasmic reticulum ATPase TER94-like isoform 2 [Megachile rotundata]

 Score =  171 bits (434), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 82/85 (96%), Positives = 84/85 (98%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           AR+AAPCVLFFDELDSIAKSRGG+VGD GGAADRVINQILTEMDGMGAKKNVFIIGATNR
Sbjct: 563 ARSAAPCVLFFDELDSIAKSRGGTVGDAGGAADRVINQILTEMDGMGAKKNVFIIGATNR 622

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 623 PDIIDPAILRPGRLDQLIYIPLPDE 647

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383861757|ref|XP_003706351.1| PREDICTED: transitional endoplasmic reticulum ATPase TER94-like isoform 1 [Megachile rotundata]

 Score =  171 bits (433), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 82/85 (96%), Positives = 84/85 (98%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           AR+AAPCVLFFDELDSIAKSRGG+VGD GGAADRVINQILTEMDGMGAKKNVFIIGATNR
Sbjct: 564 ARSAAPCVLFFDELDSIAKSRGGTVGDAGGAADRVINQILTEMDGMGAKKNVFIIGATNR 623

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 624 PDIIDPAILRPGRLDQLIYIPLPDE 648

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328783535|ref|XP_392892.3| PREDICTED: transitional endoplasmic reticulum ATPase TER94 isoform 1 [Apis mellifera]

 Score =  171 bits (433), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 82/85 (96%), Positives = 84/85 (98%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           ARAAAPCVLFFDELDSIAKSRGG++GD GGAADRVINQILTEMDGMGAKKNVFIIGATNR
Sbjct: 563 ARAAAPCVLFFDELDSIAKSRGGTLGDAGGAADRVINQILTEMDGMGAKKNVFIIGATNR 622

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 623 PDIIDPAILRPGRLDQLIYIPLPDE 647

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350426753|ref|XP_003494532.1| PREDICTED: transitional endoplasmic reticulum ATPase TER94-like [Bombus impatiens]

 Score =  171 bits (433), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 82/85 (96%), Positives = 84/85 (98%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           ARAAAPCVLFFDELDSIAKSRGG++GD GGAADRVINQILTEMDGMGAKKNVFIIGATNR
Sbjct: 563 ARAAAPCVLFFDELDSIAKSRGGTLGDAGGAADRVINQILTEMDGMGAKKNVFIIGATNR 622

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 623 PDIIDPAILRPGRLDQLIYIPLPDE 647

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	110
FB|FBgn0261014	801	TER94 "TER94" [Drosophila mela	0.772	0.106	0.788	3.1e-29
WB|WBGene00008053	810	cdc-48.2 [Caenorhabditis elega	0.772	0.104	0.776	4.1e-29
UNIPROTKB|P54812	810	cdc-48.2 "Transitional endopla	0.772	0.104	0.776	4.1e-29
UNIPROTKB|H9KYT1	538	LOC430766 "Uncharacterized pro	0.772	0.157	0.776	1e-28
ZFIN|ZDB-GENE-030131-5408	806	vcp "valosin containing protei	0.772	0.105	0.776	2.9e-28
UNIPROTKB|E1BTS8	804	LOC426240 "Uncharacterized pro	0.772	0.105	0.776	3.7e-28
UNIPROTKB|Q6GL04	805	vcp "Transitional endoplasmic	0.772	0.105	0.776	3.7e-28
UNIPROTKB|G3X757	806	VCP "Transitional endoplasmic	0.772	0.105	0.776	3.8e-28
UNIPROTKB|Q3ZBT1	806	VCP "Transitional endoplasmic	0.772	0.105	0.776	3.8e-28
UNIPROTKB|P55072	806	VCP "Transitional endoplasmic	0.772	0.105	0.776	3.8e-28

FB|FBgn0261014 TER94 "TER94" [Drosophila melanogaster (taxid:7227)]

 Score = 334 (122.6 bits), Expect = 3.1e-29, P = 3.1e-29
 Identities = 67/85 (78%), Positives = 69/85 (81%)

Query:    10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
             AR+AAPCVLFFDELDSIAK                INQILTEMDGMGAKKNVFIIGATNR
Sbjct:   563 ARSAAPCVLFFDELDSIAKARGGNVGDAGGAADRVINQILTEMDGMGAKKNVFIIGATNR 622

Query:    70 PDIIDPAILRPGRLDQLIYIPLPDE 94
             PDIIDPAILRPGRLDQLIYIPLPD+
Sbjct:   623 PDIIDPAILRPGRLDQLIYIPLPDD 647

GO:0045169 "fusome" evidence=IDA;NAS

GO:0005737 "cytoplasm" evidence=IDA

GO:0016887 "ATPase activity" evidence=NAS

GO:0005783 "endoplasmic reticulum" evidence=NAS

GO:0007030 "Golgi organization" evidence=IMP

GO:0007317 "regulation of pole plasm oskar mRNA localization" evidence=IMP

GO:0016320 "endoplasmic reticulum membrane fusion" evidence=ISS

GO:0000226 "microtubule cytoskeleton organization" evidence=IMP

GO:0007029 "endoplasmic reticulum organization" evidence=IMP

GO:0045451 "pole plasm oskar mRNA localization" evidence=IMP

GO:0008103 "oocyte microtubule cytoskeleton polarization" evidence=IMP

GO:0008104 "protein localization" evidence=IMP

GO:0042052 "rhabdomere development" evidence=IMP

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

GO:0005524 "ATP binding" evidence=IEA

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IMP

GO:0000502 "proteasome complex" evidence=NAS

GO:0006508 "proteolysis" evidence=IMP

GO:0005811 "lipid particle" evidence=IDA

GO:0005875 "microtubule associated complex" evidence=IDA

GO:0030433 "ER-associated protein catabolic process" evidence=IMP

GO:0006200 "ATP catabolic process" evidence=IGI

GO:0048813 "dendrite morphogenesis" evidence=IMP

GO:0043523 "regulation of neuron apoptotic process" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IMP

WB|WBGene00008053 cdc-48.2 [Caenorhabditis elegans (taxid:6239)]

 Score = 333 (122.3 bits), Expect = 4.1e-29, P = 4.1e-29
 Identities = 66/85 (77%), Positives = 68/85 (80%)

Query:    10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
             ARAAAPCVLFFDELDSIAK                INQ+LTEMDGM AKKNVFIIGATNR
Sbjct:   571 ARAAAPCVLFFDELDSIAKARGGSVGDAGGAADRVINQVLTEMDGMNAKKNVFIIGATNR 630

Query:    70 PDIIDPAILRPGRLDQLIYIPLPDE 94
             PDIIDPA+LRPGRLDQLIYIPLPDE
Sbjct:   631 PDIIDPAVLRPGRLDQLIYIPLPDE 655

GO:0016887 "ATPase activity" evidence=IEA;IDA

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0009378 "four-way junction helicase activity" evidence=IEA

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IGI;IMP

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0040011 "locomotion" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0051301 "cell division" evidence=IMP

GO:0000910 "cytokinesis" evidence=IMP

GO:0007126 "meiosis" evidence=IMP

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=IMP

GO:0071712 "ER-associated misfolded protein catabolic process" evidence=IGI

GO:0034098 "Cdc48p-Npl4p-Ufd1p AAA ATPase complex" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0006200 "ATP catabolic process" evidence=IDA

UNIPROTKB|P54812 cdc-48.2 "Transitional endoplasmic reticulum ATPase homolog 2" [Caenorhabditis elegans (taxid:6239)]

 Score = 333 (122.3 bits), Expect = 4.1e-29, P = 4.1e-29
 Identities = 66/85 (77%), Positives = 68/85 (80%)

Query:    10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
             ARAAAPCVLFFDELDSIAK                INQ+LTEMDGM AKKNVFIIGATNR
Sbjct:   571 ARAAAPCVLFFDELDSIAKARGGSVGDAGGAADRVINQVLTEMDGMNAKKNVFIIGATNR 630

Query:    70 PDIIDPAILRPGRLDQLIYIPLPDE 94
             PDIIDPA+LRPGRLDQLIYIPLPDE
Sbjct:   631 PDIIDPAVLRPGRLDQLIYIPLPDE 655

GO:0042802 "identical protein binding" evidence=IPI

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|H9KYT1 LOC430766 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 324 (119.1 bits), Expect = 1.0e-28, P = 1.0e-28
 Identities = 66/85 (77%), Positives = 66/85 (77%)

Query:    10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
             AR AAPCVLFFDELDSIAK                INQILTEMDGM  KKNVFIIGATNR
Sbjct:   298 ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR 357

Query:    70 PDIIDPAILRPGRLDQLIYIPLPDE 94
             PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct:   358 PDIIDPAILRPGRLDQLIYIPLPDE 382

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

GO:0005524 "ATP binding" evidence=IEA

ZFIN|ZDB-GENE-030131-5408 vcp "valosin containing protein" [Danio rerio (taxid:7955)]

 Score = 325 (119.5 bits), Expect = 2.9e-28, P = 2.9e-28
 Identities = 66/85 (77%), Positives = 67/85 (78%)

Query:    10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
             AR AAPCVLFFDELDSIAK                INQILTEMDGM +KKNVFIIGATNR
Sbjct:   566 ARQAAPCVLFFDELDSIAKARGGNVGDGGGAADRVINQILTEMDGMSSKKNVFIIGATNR 625

Query:    70 PDIIDPAILRPGRLDQLIYIPLPDE 94
             PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct:   626 PDIIDPAILRPGRLDQLIYIPLPDE 650

GO:0016787 "hydrolase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0016567 "protein ubiquitination" evidence=ISS

GO:0035861 "site of double-strand break" evidence=ISS

GO:0006302 "double-strand break repair" evidence=ISS

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=ISS

GO:0019985 "translesion synthesis" evidence=ISS

GO:0030433 "ER-associated protein catabolic process" evidence=ISS

GO:0009790 "embryo development" evidence=IMP

GO:2000058 "regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IMP

GO:0005634 "nucleus" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0008289 "lipid binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

UNIPROTKB|E1BTS8 LOC426240 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 324 (119.1 bits), Expect = 3.7e-28, P = 3.7e-28
 Identities = 66/85 (77%), Positives = 66/85 (77%)

Query:    10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
             AR AAPCVLFFDELDSIAK                INQILTEMDGM  KKNVFIIGATNR
Sbjct:   564 ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR 623

Query:    70 PDIIDPAILRPGRLDQLIYIPLPDE 94
             PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct:   624 PDIIDPAILRPGRLDQLIYIPLPDE 648

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

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|Q6GL04 vcp "Transitional endoplasmic reticulum ATPase" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 324 (119.1 bits), Expect = 3.7e-28, P = 3.7e-28
 Identities = 66/85 (77%), Positives = 66/85 (77%)

Query:    10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
             AR AAPCVLFFDELDSIAK                INQILTEMDGM  KKNVFIIGATNR
Sbjct:   566 ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR 625

Query:    70 PDIIDPAILRPGRLDQLIYIPLPDE 94
             PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct:   626 PDIIDPAILRPGRLDQLIYIPLPDE 650

GO:0000785 "chromatin" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0006200 "ATP catabolic process" evidence=ISS

GO:0006302 "double-strand break repair" evidence=ISS

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

GO:0016567 "protein ubiquitination" evidence=ISS

GO:0016887 "ATPase activity" evidence=ISS

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=ISS

GO:0019985 "translesion synthesis" evidence=ISS

GO:0030433 "ER-associated protein catabolic process" evidence=ISS

GO:0032403 "protein complex binding" evidence=ISS

GO:0034214 "protein hexamerization" evidence=ISS

GO:0035861 "site of double-strand break" evidence=ISS

GO:0035101 "FACT complex" evidence=ISS

UNIPROTKB|G3X757 VCP "Transitional endoplasmic reticulum ATPase" [Bos taurus (taxid:9913)]

 Score = 324 (119.1 bits), Expect = 3.8e-28, P = 3.8e-28
 Identities = 66/85 (77%), Positives = 66/85 (77%)

Query:    10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
             AR AAPCVLFFDELDSIAK                INQILTEMDGM  KKNVFIIGATNR
Sbjct:   566 ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR 625

Query:    70 PDIIDPAILRPGRLDQLIYIPLPDE 94
             PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct:   626 PDIIDPAILRPGRLDQLIYIPLPDE 650

GO:0070842 "aggresome assembly" evidence=IEA

GO:0045732 "positive regulation of protein catabolic process" evidence=IEA

GO:0035861 "site of double-strand break" evidence=IEA

GO:0031593 "polyubiquitin binding" evidence=IEA

GO:0031334 "positive regulation of protein complex assembly" evidence=IEA

GO:0030970 "retrograde protein transport, ER to cytosol" evidence=IEA

GO:0019904 "protein domain specific binding" evidence=IEA

GO:0019903 "protein phosphatase binding" evidence=IEA

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=IEA

GO:0006919 "activation of cysteine-type endopeptidase activity involved in apoptotic process" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0006302 "double-strand break repair" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|Q3ZBT1 VCP "Transitional endoplasmic reticulum ATPase" [Bos taurus (taxid:9913)]

 Score = 324 (119.1 bits), Expect = 3.8e-28, P = 3.8e-28
 Identities = 66/85 (77%), Positives = 66/85 (77%)

Query:    10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
             AR AAPCVLFFDELDSIAK                INQILTEMDGM  KKNVFIIGATNR
Sbjct:   566 ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR 625

Query:    70 PDIIDPAILRPGRLDQLIYIPLPDE 94
             PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct:   626 PDIIDPAILRPGRLDQLIYIPLPDE 650

GO:0019985 "translesion synthesis" evidence=ISS

GO:0016567 "protein ubiquitination" evidence=ISS

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

GO:0006302 "double-strand break repair" evidence=ISS

GO:0035861 "site of double-strand break" evidence=ISS

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=ISS

GO:0030433 "ER-associated protein catabolic process" evidence=ISS

GO:0005829 "cytosol" evidence=IEA

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008289 "lipid binding" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|P55072 VCP "Transitional endoplasmic reticulum ATPase" [Homo sapiens (taxid:9606)]

 Score = 324 (119.1 bits), Expect = 3.8e-28, P = 3.8e-28
 Identities = 66/85 (77%), Positives = 66/85 (77%)

Query:    10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
             AR AAPCVLFFDELDSIAK                INQILTEMDGM  KKNVFIIGATNR
Sbjct:   566 ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR 625

Query:    70 PDIIDPAILRPGRLDQLIYIPLPDE 94
             PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct:   626 PDIIDPAILRPGRLDQLIYIPLPDE 650

GO:0008289 "lipid binding" evidence=IEA

GO:0005102 "receptor binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IEA

GO:0032403 "protein complex binding" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0051260 "protein homooligomerization" evidence=IEA

GO:0070842 "aggresome assembly" evidence=IEA

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

GO:0006919 "activation of cysteine-type endopeptidase activity involved in apoptotic process" evidence=ISS

GO:0006281 "DNA repair" evidence=NAS

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

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA;TAS

GO:0005829 "cytosol" evidence=IDA

GO:0006302 "double-strand break repair" evidence=IDA

GO:0019904 "protein domain specific binding" evidence=IPI

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=NAS

GO:0030970 "retrograde protein transport, ER to cytosol" evidence=IDA

GO:0030433 "ER-associated protein catabolic process" evidence=IMP;TAS

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=TAS

GO:0016887 "ATPase activity" evidence=TAS

GO:0005783 "endoplasmic reticulum" evidence=IDA

GO:0016567 "protein ubiquitination" evidence=IDA;NAS

GO:0042981 "regulation of apoptotic process" evidence=TAS

GO:0045184 "establishment of protein localization" evidence=TAS

GO:0019985 "translesion synthesis" evidence=IMP

GO:0035861 "site of double-strand break" evidence=IDA

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=IMP

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IDA

GO:0000502 "proteasome complex" evidence=IDA

GO:0019903 "protein phosphatase binding" evidence=IPI

GO:0045732 "positive regulation of protein catabolic process" evidence=IDA

GO:0031334 "positive regulation of protein complex assembly" evidence=IDA

GO:0031593 "polyubiquitin binding" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

---

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)
O28972	Y1297_ARCFU	No assigned EC number	0.6071	0.7454	0.1118	yes	N/A
Q58556	Y1156_METJA	No assigned EC number	0.5882	0.7545	0.0919	yes	N/A
Q9SCN8	CD48D_ARATH	No assigned EC number	0.8705	0.7454	0.1006	yes	N/A
P46462	TERA_RAT	No assigned EC number	0.9294	0.7454	0.1017	yes	N/A
Q3ZBT1	TERA_BOVIN	No assigned EC number	0.9294	0.7454	0.1017	yes	N/A
Q9P3A7	CDC48_SCHPO	No assigned EC number	0.7764	0.7636	0.1030	yes	N/A
P55072	TERA_HUMAN	No assigned EC number	0.9294	0.7454	0.1017	yes	N/A
Q01853	TERA_MOUSE	No assigned EC number	0.9294	0.7454	0.1017	yes	N/A
Q5AWS6	CDC48_EMENI	No assigned EC number	0.7764	0.7454	0.0996	yes	N/A
Q8SSJ5	CDC48_ENCCU	No assigned EC number	0.7142	0.7545	0.1064	yes	N/A
Q7KN62	TERA_DROME	No assigned EC number	0.9411	0.7454	0.1023	yes	N/A
P54812	TERA2_CAEEL	No assigned EC number	0.9411	0.7454	0.1012	yes	N/A
Q7ZU99	TERA_DANRE	No assigned EC number	0.9411	0.7454	0.1017	yes	N/A
Q6GL04	TERA_XENTR	No assigned EC number	0.9294	0.7454	0.1018	yes	N/A
P54774	CDC48_SOYBN	No assigned EC number	0.8705	0.7454	0.1016	yes	N/A
P25694	CDC48_YEAST	No assigned EC number	0.8470	0.7454	0.0982	yes	N/A
P23787	TERA_XENLA	No assigned EC number	0.9294	0.7454	0.1018	N/A	N/A
P03974	TERA_PIG	No assigned EC number	0.9294	0.7454	0.1017	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	110
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	3e-34
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	1e-31
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	2e-30
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	2e-30
TIGR01241	495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	2e-29
COG0465	596	COG0465, HflB, ATP-dependent Zn proteases [Posttra	1e-28
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	4e-27
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	5e-27
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	4e-26
PRK10733	644	PRK10733, hflB, ATP-dependent metalloprotease; Rev	1e-25
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	6e-23
TIGR03689	512	TIGR03689, pup_AAA, proteasome ATPase	3e-22
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	5e-20
PTZ00361	438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	8e-17
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	3e-16
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	6e-15
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	3e-11
CHL00195	489	CHL00195, ycf46, Ycf46; Provisional	2e-08
smart00382	148	smart00382, AAA, ATPases associated with a variety	3e-07
CHL00206	2281	CHL00206, ycf2, Ycf2; Provisional	0.002

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

 Score =  123 bits (311), Expect = 3e-34
 Identities = 49/85 (57%), Positives = 63/85 (74%), Gaps = 2/85 (2%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           AR AAP ++FFDE+D+IA +RG          DR++NQ+LTEMDG+    NV +I ATNR
Sbjct: 542 ARQAAPAIIFFDEIDAIAPARGARFDTS--VTDRIVNQLLTEMDGIQELSNVVVIAATNR 599

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDI+DPA+LRPGR D+LI +P PDE
Sbjct: 600 PDILDPALLRPGRFDRLILVPPPDE 624

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus. Length = 733

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

 Score =  115 bits (290), Expect = 1e-31
 Identities = 46/87 (52%), Positives = 61/87 (70%), Gaps = 3/87 (3%)

Query: 8   SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGAT 67
             AR  AP ++F DE+DS+A  RG S     G+  RV+ Q+LTE+DG+   + V +I AT
Sbjct: 329 EKARKLAPSIIFIDEIDSLASGRGPSED---GSGRRVVGQLLTELDGIEKAEGVLVIAAT 385

Query: 68  NRPDIIDPAILRPGRLDQLIYIPLPDE 94
           NRPD +DPA+LRPGR D+LIY+PLPD 
Sbjct: 386 NRPDDLDPALLRPGRFDRLIYVPLPDL 412

Length = 494

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

 Score =  110 bits (278), Expect = 2e-30
 Identities = 47/90 (52%), Positives = 60/90 (66%), Gaps = 8/90 (8%)

Query: 9   MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVIN----QILTEMDGMGAKKNVFII 64
           +AR  AP ++F DE+D+IA  R     D G + DR +     Q+L EMDG   + NV II
Sbjct: 219 LAREKAPSIIFIDEIDAIAAKRT----DSGTSGDREVQRTLMQLLAEMDGFDPRGNVKII 274

Query: 65  GATNRPDIIDPAILRPGRLDQLIYIPLPDE 94
            ATNR DI+DPAILRPGR D++I +PLPDE
Sbjct: 275 AATNRIDILDPAILRPGRFDRIIEVPLPDE 304

Length = 389

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

 Score =  111 bits (279), Expect = 2e-30
 Identities = 42/90 (46%), Positives = 58/90 (64%), Gaps = 8/90 (8%)

Query: 9   MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVIN----QILTEMDGMGAKKNVFII 64
           +AR  AP ++F DE+D+I   R     D G + DR +     ++L ++DG   + NV +I
Sbjct: 239 LAREKAPSIIFIDEIDAIGAKRF----DSGTSGDREVQRTMLELLNQLDGFDPRGNVKVI 294

Query: 65  GATNRPDIIDPAILRPGRLDQLIYIPLPDE 94
            ATNRPDI+DPA+LRPGR D+ I  PLPDE
Sbjct: 295 MATNRPDILDPALLRPGRFDRKIEFPLPDE 324

Length = 406

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

 Score =  109 bits (274), Expect = 2e-29
 Identities = 44/100 (44%), Positives = 64/100 (64%), Gaps = 7/100 (7%)

Query: 1   MRIATGAS-------MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMD 53
           M +  GAS        A+  APC++F DE+D++ + RG  +G G    ++ +NQ+L EMD
Sbjct: 127 MFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMD 186

Query: 54  GMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 93
           G G    V +I ATNRPD++DPA+LRPGR D+ + + LPD
Sbjct: 187 GFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPD 226

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 495

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

 Score =  107 bits (269), Expect = 1e-28
 Identities = 41/84 (48%), Positives = 60/84 (71%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           A+  APC++F DE+D++ + RG  +G G    ++ +NQ+L EMDG G  + V +I ATNR
Sbjct: 238 AKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIAATNR 297

Query: 70  PDIIDPAILRPGRLDQLIYIPLPD 93
           PD++DPA+LRPGR D+ I + LPD
Sbjct: 298 PDVLDPALLRPGRFDRQILVELPD 321

Length = 596

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

 Score =  101 bits (254), Expect = 4e-27
 Identities = 42/86 (48%), Positives = 58/86 (67%)

Query: 9   MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATN 68
           +A+  AP ++F DE+D+IA  R  S   G     R + Q+L E+DG   + NV +I ATN
Sbjct: 210 LAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATN 269

Query: 69  RPDIIDPAILRPGRLDQLIYIPLPDE 94
           RPDI+DPA+LRPGR D++I +PLPD 
Sbjct: 270 RPDILDPALLRPGRFDRIIEVPLPDF 295

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

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

 Score =  103 bits (258), Expect = 5e-27
 Identities = 40/84 (47%), Positives = 58/84 (69%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           A+  +PC++F DE+D++ + RG  +G G    ++ +NQ+LTEMDG    K V +I ATNR
Sbjct: 271 AKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNR 330

Query: 70  PDIIDPAILRPGRLDQLIYIPLPD 93
            DI+D A+LRPGR D+ I + LPD
Sbjct: 331 VDILDAALLRPGRFDRQITVSLPD 354

Length = 638

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

 Score = 93.8 bits (234), Expect = 4e-26
 Identities = 43/91 (47%), Positives = 59/91 (64%), Gaps = 5/91 (5%)

Query: 2   RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKK-N 60
           R+      A+  APCV+F DE+D++A SRG     G   + RV+NQ+LTE+DG  +    
Sbjct: 45  RLRELFEAAKKLAPCVIFIDEIDALAGSRGSG---GDSESRRVVNQLLTELDGFTSSLSK 101

Query: 61  VFIIGATNRPDIIDPAILRPGRLDQLIYIPL 91
           V +I ATNRPD +DPA+LR GR D++I  PL
Sbjct: 102 VIVIAATNRPDKLDPALLR-GRFDRIIEFPL 131

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

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

 Score = 99.3 bits (247), Expect = 1e-25
 Identities = 43/100 (43%), Positives = 65/100 (65%), Gaps = 7/100 (7%)

Query: 1   MRIATGAS-------MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMD 53
           M +  GAS        A+ AAPC++F DE+D++ + RG  +G G    ++ +NQ+L EMD
Sbjct: 224 MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMD 283

Query: 54  GMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 93
           G    + + +I ATNRPD++DPA+LRPGR D+ + + LPD
Sbjct: 284 GFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPD 323

Length = 644

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

 Score = 91.0 bits (226), Expect = 6e-23
 Identities = 45/89 (50%), Positives = 55/89 (61%), Gaps = 8/89 (8%)

Query: 9   MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTE----MDGMGAKKNVFII 64
           +AR  AP ++F DE+DSIA  R     D    ADR + +IL E    MDG     NV +I
Sbjct: 233 LARENAPSIIFIDEVDSIATKRF----DAQTGADREVQRILLELLNQMDGFDQTTNVKVI 288

Query: 65  GATNRPDIIDPAILRPGRLDQLIYIPLPD 93
            ATNR D +DPA+LRPGRLD+ I  PLPD
Sbjct: 289 MATNRADTLDPALLRPGRLDRKIEFPLPD 317

Length = 398

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

 Score = 89.4 bits (222), Expect = 3e-22
 Identities = 44/91 (48%), Positives = 60/91 (65%), Gaps = 12/91 (13%)

Query: 10  ARAAA----PCVLFFDELDSIAKSRGGSVGDGGGAAD---RVINQILTEMDGMGAKKNVF 62
           AR  A    P ++FFDE+DS+ ++RG  V     ++D    V+ Q+L E+DG+ +  NV 
Sbjct: 281 AREKASEGRPVIVFFDEMDSLFRTRGSGV-----SSDVETTVVPQLLAEIDGVESLDNVI 335

Query: 63  IIGATNRPDIIDPAILRPGRLDQLIYIPLPD 93
           +IGA+NR D+IDPAILRPGRLD  I I  PD
Sbjct: 336 VIGASNREDMIDPAILRPGRLDVKIRIERPD 366

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 512

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

 Score = 83.0 bits (205), Expect = 5e-20
 Identities = 40/85 (47%), Positives = 55/85 (64%), Gaps = 3/85 (3%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           A   AP ++F DE+D+IA  R    G+      RV+ Q+LT MDG+  +  V +IGATNR
Sbjct: 267 AEENAPSIIFIDEIDAIAPKREEVTGE---VEKRVVAQLLTLMDGLKGRGRVIVIGATNR 323

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PD +DPA+ RPGR D+ I I +PD+
Sbjct: 324 PDALDPALRRPGRFDREIVIRVPDK 348

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus. Length = 733

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

 Score = 74.0 bits (182), Expect = 8e-17
 Identities = 33/86 (38%), Positives = 54/86 (62%)

Query: 9   MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATN 68
           +A   AP ++F DE+D+I   R  +   G     R + ++L ++DG  ++ +V +I ATN
Sbjct: 271 VAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATN 330

Query: 69  RPDIIDPAILRPGRLDQLIYIPLPDE 94
           R + +DPA++RPGR+D+ I  P PDE
Sbjct: 331 RIESLDPALIRPGRIDRKIEFPNPDE 356

Length = 438

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

 Score = 72.2 bits (177), Expect = 3e-16
 Identities = 37/90 (41%), Positives = 54/90 (60%), Gaps = 14/90 (15%)

Query: 10  ARAAAPCVLFFDELDSIAKSRG-----GSVGDGGGAADRVINQILTEMDGMGAKKNVFII 64
           AR AAPC++F DELD+IA  R      G V +       ++N +LTE+DG+   + V  I
Sbjct: 206 ARKAAPCIVFIDELDAIALDRRYQELRGDVSE-------IVNALLTELDGIKENEGVVTI 258

Query: 65  GATNRPDIIDPAILRPGRLDQLIYIPLPDE 94
            ATNRP+++DPAI    R ++ I   LP++
Sbjct: 259 AATNRPELLDPAI--RSRFEEEIEFKLPND 286

Length = 368

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

 Score = 68.7 bits (168), Expect = 6e-15
 Identities = 40/85 (47%), Positives = 53/85 (62%), Gaps = 4/85 (4%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           A   AP ++F DE+D++A  R     D G    RV+ Q+L  MDG+  +  V +IGATNR
Sbjct: 72  AEKLAPSIIFIDEIDALAPKRSS---DQGEVERRVVAQLLALMDGLK-RGQVIVIGATNR 127

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PD +DPA  RPGR D+ I + LPDE
Sbjct: 128 PDGLDPAKRRPGRFDREIEVNLPDE 152

Length = 494

>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

 Score = 56.0 bits (135), Expect = 3e-11
 Identities = 31/83 (37%), Positives = 42/83 (50%), Gaps = 10/83 (12%)

Query: 9   MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATN 68
           +A  A P VLF DE+DS+            GA + ++  + T  D    ++NV +IGATN
Sbjct: 79  LAEKAKPGVLFIDEIDSL----------SRGAQNALLRVLETLNDLRIDRENVRVIGATN 128

Query: 69  RPDIIDPAILRPGRLDQLIYIPL 91
           RP + D       RLD  I IPL
Sbjct: 129 RPLLGDLDRALYDRLDIRIVIPL 151

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases. Length = 151

>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional

 Score = 50.0 bits (120), Expect = 2e-08
 Identities = 30/87 (34%), Positives = 46/87 (52%), Gaps = 4/87 (4%)

Query: 8   SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGAT 67
            +A A +PC+L+ DE+D  A S   S GD G    RV+   +T +     K  VF++   
Sbjct: 312 RIAEALSPCILWIDEIDK-AFSNSESKGDSGTTN-RVLATFITWLSE--KKSPVFVVATA 367

Query: 68  NRPDIIDPAILRPGRLDQLIYIPLPDE 94
           N  D++   ILR GR D++ ++ LP  
Sbjct: 368 NNIDLLPLEILRKGRFDEIFFLDLPSL 394

Length = 489

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

 Score = 45.4 bits (107), Expect = 3e-07
 Identities = 24/93 (25%), Positives = 44/93 (47%), Gaps = 9/93 (9%)

Query: 1   MRIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKN 60
           +R+    ++AR   P VL  DE+ S+  +           A  ++ + L  +  + ++KN
Sbjct: 65  LRLRLALALARKLKPDVLILDEITSLLDAEQ--------EALLLLLEELRLLLLLKSEKN 116

Query: 61  VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 93
           + +I  TN    + PA+LR  R D+ I + L  
Sbjct: 117 LTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment. Length = 148

>gnl|CDD|214396 CHL00206, ycf2, Ycf2; Provisional

 Score = 36.0 bits (83), Expect = 0.002
 Identities = 11/31 (35%), Positives = 21/31 (67%)

Query: 59   KNVFIIGATNRPDIIDPAILRPGRLDQLIYI 89
            +N+ +I +T+ P  +DPA++ P +L+  I I
Sbjct: 1771 RNILVIASTHIPQKVDPALIAPNKLNTCIKI 1801

Length = 2281

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	110
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	100.0
KOG0734|consensus	752		99.97
KOG0733|consensus	802		99.97
KOG0730|consensus	693		99.97
KOG0736|consensus	953		99.96
KOG0733|consensus	802		99.96
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.95
KOG0652|consensus	424		99.94
KOG0728|consensus	404		99.94
KOG0731|consensus	774		99.94
KOG0727|consensus	408		99.94
KOG0735|consensus	952		99.94
KOG0726|consensus	440		99.93
KOG0738|consensus	491		99.93
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.93
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.92
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.92
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.91
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.91
CHL00195	489	ycf46 Ycf46; Provisional	99.91
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.91
CHL00206	2281	ycf2 Ycf2; Provisional	99.91
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.91
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.91
KOG0739|consensus	439		99.9
KOG0729|consensus	435		99.9
CHL00176	638	ftsH cell division protein; Validated	99.89
KOG0651|consensus	388		99.89
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.89
KOG0732|consensus	1080		99.88
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.88
KOG0730|consensus	693		99.87
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.85
KOG0740|consensus	428		99.84
KOG0737|consensus	386		99.84
KOG0741|consensus	744		99.83
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.78
PF00004	132	AAA: ATPase family associated with various cellula	99.69
KOG0743|consensus	457		99.6
KOG0742|consensus	630		99.58
KOG0744|consensus	423		99.33
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.32
KOG0735|consensus	952		99.26
KOG0736|consensus	953		99.22
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.16
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.12
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.01
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.96
CHL00181	287	cbbX CbbX; Provisional	98.96
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.93
PRK10865	857	protein disaggregation chaperone; Provisional	98.91
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.9
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.77
CHL00095	821	clpC Clp protease ATP binding subunit	98.67
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.43
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.36
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.36
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.27
PHA02544	316	44 clamp loader, small subunit; Provisional	98.21
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	98.18
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.17
PRK06964	342	DNA polymerase III subunit delta'; Validated	98.1
PRK06893	229	DNA replication initiation factor; Validated	98.09
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.03
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.03
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	97.98
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.96
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	97.95
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.94
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.94
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	97.92
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	97.92
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.89
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.87
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	97.87
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	97.86
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.85
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.83
PRK13342	413	recombination factor protein RarA; Reviewed	97.83
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.78
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.76
PRK09112	351	DNA polymerase III subunit delta'; Validated	97.74
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	97.73
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.73
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.72
PRK04132	846	replication factor C small subunit; Provisional	97.72
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	97.71
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	97.71
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.71
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.7
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.68
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	97.67
PRK07471	365	DNA polymerase III subunit delta'; Validated	97.66
PRK08727	233	hypothetical protein; Validated	97.64
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.63
COG0714	329	MoxR-like ATPases [General function prediction onl	97.63
smart00382	148	AAA ATPases associated with a variety of cellular	97.62
KOG2004|consensus	906		97.61
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.6
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.58
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	97.58
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	97.58
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.56
PRK12422	445	chromosomal replication initiation protein; Provis	97.56
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	97.56
PRK12402	337	replication factor C small subunit 2; Reviewed	97.56
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.55
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	97.54
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.54
PRK08084	235	DNA replication initiation factor; Provisional	97.54
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	97.5
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	97.48
PLN03025	319	replication factor C subunit; Provisional	97.48
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.46
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	97.44
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.42
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.41
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.41
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	97.39
PRK08903	227	DnaA regulatory inactivator Hda; Validated	97.38
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.37
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.37
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	97.36
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	97.36
PRK05642	234	DNA replication initiation factor; Validated	97.36
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	97.35
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	97.35
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	97.35
PRK04195	482	replication factor C large subunit; Provisional	97.33
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	97.32
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.32
COG2256	436	MGS1 ATPase related to the helicase subunit of the	97.31
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	97.3
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	97.26
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	97.25
smart00350	509	MCM minichromosome maintenance proteins.	97.24
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	97.24
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.21
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	97.21
PRK07276	290	DNA polymerase III subunit delta'; Validated	97.21
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	97.16
PRK05564	313	DNA polymerase III subunit delta'; Validated	97.16
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.14
PRK06620	214	hypothetical protein; Validated	97.12
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.1
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	97.1
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.09
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.07
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	97.06
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.04
PRK09087	226	hypothetical protein; Validated	97.03
PRK00440	319	rfc replication factor C small subunit; Reviewed	97.03
PRK06581	263	DNA polymerase III subunit delta'; Validated	97.01
CHL00095	821	clpC Clp protease ATP binding subunit	96.99
PRK14087	450	dnaA chromosomal replication initiation protein; P	96.96
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	96.96
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.96
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.91
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	96.91
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	96.89
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	96.84
PRK13341	725	recombination factor protein RarA/unknown domain f	96.77
PRK10865	857	protein disaggregation chaperone; Provisional	96.75
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.75
PRK07132	299	DNA polymerase III subunit delta'; Validated	96.65
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	96.65
KOG0741|consensus	744		96.63
PHA02244	383	ATPase-like protein	96.62
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	96.45
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	96.41
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	96.41
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	96.31
PF12846	304	AAA_10: AAA-like domain	96.27
PRK05818	261	DNA polymerase III subunit delta'; Validated	96.26
PRK05917	290	DNA polymerase III subunit delta'; Validated	96.25
COG0593	408	DnaA ATPase involved in DNA replication initiation	96.21
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	96.18
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	96.17
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	96.15
PRK09862	506	putative ATP-dependent protease; Provisional	96.05
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	96.04
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	96.01
PF05729	166	NACHT: NACHT domain	95.84
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	95.8
PRK08485	206	DNA polymerase III subunit delta'; Validated	95.79
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.76
KOG0989|consensus	346		95.52
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	95.07
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	94.95
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	94.94
PRK13531	498	regulatory ATPase RavA; Provisional	94.91
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	94.87
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	94.67
KOG0745|consensus	564		94.52
KOG2028|consensus	554		94.25
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	94.2
KOG1514|consensus	767		94.08
KOG1942|consensus	456		94.08
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	93.99
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	93.97
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	93.46
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	93.4
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	93.27
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	93.08
KOG2228|consensus	408		92.86
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	92.85
PF13304	303	AAA_21: AAA domain; PDB: 3QKS_B 1US8_B 1F2U_B 1F2T	92.51
CHL00195	489	ycf46 Ycf46; Provisional	92.45
TIGR02237	209	recomb_radB DNA repair and recombination protein R	92.02
PHA00012	361	I assembly protein	91.46
PF13173	128	AAA_14: AAA domain	91.24
PF07726	131	AAA_3: ATPase family associated with various cellu	91.23
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	91.18
KOG1051|consensus	898		90.93
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	90.81
KOG0732|consensus	1080		89.75
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	89.58
PRK10365	441	transcriptional regulatory protein ZraR; Provision	89.35
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	88.78
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	88.6
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	88.19
KOG2680|consensus	454		87.53
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	87.45
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	87.26
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	87.16
PF05872	502	DUF853: Bacterial protein of unknown function (DUF	87.07
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	86.99
KOG0478|consensus	804		86.18
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	86.15
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	86.14
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	85.87
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	85.57
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	84.99
KOG1051|consensus	898		84.76
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	84.67
KOG0990|consensus	360		83.92
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	83.87
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	83.82
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	83.71
PF04465	1035	DUF499: Protein of unknown function (DUF499); Inte	83.53
COG1241	682	MCM2 Predicted ATPase involved in replication cont	83.33
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	82.98
PF14516	331	AAA_35: AAA-like domain	82.37
COG4598	256	HisP ABC-type histidine transport system, ATPase c	81.76
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	81.72
PF13872	303	AAA_34: P-loop containing NTP hydrolase pore-1	81.64
cd03240	204	ABC_Rad50 The catalytic domains of Rad50 are simil	81.44
cd01394	218	radB RadB. The archaeal protein radB shares simila	81.43
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	81.34
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	81.06
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	80.85
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	80.76
PRK11823	446	DNA repair protein RadA; Provisional	80.5
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	80.15
PRK10263	1355	DNA translocase FtsK; Provisional	80.12

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

Probab=100.00  E-value=8.1e-34  Score=205.61  Aligned_cols=106  Identities=40%  Similarity=0.611  Sum_probs=99.7

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      .++++|+.|+.++||||||||||+++.+|..++...+.+.++++-+||++|||+.+.++|-||++||+++.||||++|||
T Consensus       232 lVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~LDPALLRPG  311 (406)
T COG1222         232 LVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPG  311 (406)
T ss_pred             HHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCccccChhhcCCC
Confidence            47899999999999999999999999999887766667889999999999999999999999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||+.|+||+||.++|.+||+.+.++
T Consensus       312 R~DRkIEfplPd~~gR~~Il~IHtrk  337 (406)
T COG1222         312 RFDRKIEFPLPDEEGRAEILKIHTRK  337 (406)
T ss_pred             cccceeecCCCCHHHHHHHHHHHhhh
Confidence            99999999999999999999988753

>KOG0734|consensus

Probab=99.97  E-value=5.1e-32  Score=204.18  Aligned_cols=104  Identities=37%  Similarity=0.619  Sum_probs=98.5

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      |++++|+.|++.+||||||||||++..+|......   ..++.+++||.+||++..+.+|+|||+||.|+.||+||.|||
T Consensus       384 RVRdLF~aAk~~APcIIFIDEiDavG~kR~~~~~~---y~kqTlNQLLvEmDGF~qNeGiIvigATNfpe~LD~AL~RPG  460 (752)
T KOG0734|consen  384 RVRDLFAAAKARAPCIIFIDEIDAVGGKRNPSDQH---YAKQTLNQLLVEMDGFKQNEGIIVIGATNFPEALDKALTRPG  460 (752)
T ss_pred             HHHHHHHHHHhcCCeEEEEechhhhcccCCccHHH---HHHHHHHHHHHHhcCcCcCCceEEEeccCChhhhhHHhcCCC
Confidence            78999999999999999999999999999776544   789999999999999999999999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhcc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKRK  108 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~~  108 (110)
                      |||++|.+|.||...|.+|+++|+++.
T Consensus       461 RFD~~v~Vp~PDv~GR~eIL~~yl~ki  487 (752)
T KOG0734|consen  461 RFDRHVTVPLPDVRGRTEILKLYLSKI  487 (752)
T ss_pred             ccceeEecCCCCcccHHHHHHHHHhcC
Confidence            999999999999999999999998764

>KOG0733|consensus

Probab=99.97  E-value=8.8e-31  Score=199.62  Aligned_cols=101  Identities=49%  Similarity=0.831  Sum_probs=96.4

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCc
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGR   82 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~gr   82 (110)
                      ++.+|++|+.++|||||+||+|+|++.|+...   ++...+++++||++|||+....+|+|||+||+|+.||||++||||
T Consensus       593 VR~vFqRAR~saPCVIFFDEiDaL~p~R~~~~---s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGR  669 (802)
T KOG0733|consen  593 VRQVFQRARASAPCVIFFDEIDALVPRRSDEG---SSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGR  669 (802)
T ss_pred             HHHHHHHhhcCCCeEEEecchhhcCcccCCCC---chhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCc
Confidence            78999999999999999999999999998765   347899999999999999989999999999999999999999999


Q ss_pred             cceEEEecCCCHHHHHHHHHHHhh
Q psy13774         83 LDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        83 fd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      ||+.+++++|+.++|..|++.+.|
T Consensus       670 lDk~LyV~lPn~~eR~~ILK~~tk  693 (802)
T KOG0733|consen  670 LDKLLYVGLPNAEERVAILKTITK  693 (802)
T ss_pred             cCceeeecCCCHHHHHHHHHHHhc
Confidence            999999999999999999999988

>KOG0730|consensus

Probab=99.97  E-value=1.2e-30  Score=199.78  Aligned_cols=103  Identities=56%  Similarity=0.901  Sum_probs=96.6

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      .|+++|..|++.+|||||+||||+++.+|+++..   +...+++++||++|||+....+|+|||+||+|+.||+|++|||
T Consensus       515 ~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~---~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPG  591 (693)
T KOG0730|consen  515 AIREVFRKARQVAPCIIFFDEIDALAGSRGGSSS---GVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPG  591 (693)
T ss_pred             HHHHHHHHHhhcCCeEEehhhHHhHhhccCCCcc---chHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCc
Confidence            5899999999999999999999999999975444   5899999999999999988899999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||+.|++|+||.++|.+|++.++++
T Consensus       592 RlD~iiyVplPD~~aR~~Ilk~~~kk  617 (693)
T KOG0730|consen  592 RLDRIIYVPLPDLEARLEILKQCAKK  617 (693)
T ss_pred             ccceeEeecCccHHHHHHHHHHHHhc
Confidence            99999999999999999999988764

>KOG0736|consensus

Probab=99.96  E-value=8.5e-29  Score=192.22  Aligned_cols=105  Identities=49%  Similarity=0.866  Sum_probs=95.4

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC--CCCEEEEEecCCCCCCCccccC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA--KKNVFIIGATNRPDIIDPAILR   79 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~--~~~v~vi~ttn~~~~ld~al~r   79 (110)
                      |+|++|++|+..+|||||+||+|++.++|+.++ ++.+.+.|+++++|.+||+++.  .++|+|||+||+||.||||++|
T Consensus       752 NVR~VFerAR~A~PCVIFFDELDSlAP~RG~sG-DSGGVMDRVVSQLLAELDgls~~~s~~VFViGATNRPDLLDpALLR  830 (953)
T KOG0736|consen  752 NVREVFERARSAAPCVIFFDELDSLAPNRGRSG-DSGGVMDRVVSQLLAELDGLSDSSSQDVFVIGATNRPDLLDPALLR  830 (953)
T ss_pred             HHHHHHHHhhccCCeEEEeccccccCccCCCCC-CccccHHHHHHHHHHHhhcccCCCCCceEEEecCCCccccChhhcC
Confidence            789999999999999999999999999997655 4577999999999999999984  5799999999999999999999


Q ss_pred             CCccceEEEecCCCHHH-HHHHHHHHhhc
Q psy13774         80 PGRLDQLIYIPLPDEIW-LILSDKFLYKR  107 (110)
Q Consensus        80 ~grfd~~i~~~~P~~~~-R~~~~~~~~~~  107 (110)
                      |||||+-+++++++..+ +..+++.+.|+
T Consensus       831 PGRFDKLvyvG~~~d~esk~~vL~AlTrk  859 (953)
T KOG0736|consen  831 PGRFDKLVYVGPNEDAESKLRVLEALTRK  859 (953)
T ss_pred             CCccceeEEecCCccHHHHHHHHHHHHHH
Confidence            99999999999988555 67899988764

>KOG0733|consensus

Probab=99.96  E-value=4.1e-29  Score=190.57  Aligned_cols=102  Identities=35%  Similarity=0.622  Sum_probs=94.3

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCC----CCEEEEEecCCCCCCCccc
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAK----KNVFIIGATNRPDIIDPAI   77 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~----~~v~vi~ttn~~~~ld~al   77 (110)
                      +|+++|..|+.++|||+||||||++.++|...+.+   -.++++++||+.||++...    .+|+|||+||+|+.|||||
T Consensus       270 kiRelF~~A~~~aPcivFiDeIDAI~pkRe~aqre---MErRiVaQLlt~mD~l~~~~~~g~~VlVIgATnRPDslDpaL  346 (802)
T KOG0733|consen  270 KIRELFDQAKSNAPCIVFIDEIDAITPKREEAQRE---MERRIVAQLLTSMDELSNEKTKGDPVLVIGATNRPDSLDPAL  346 (802)
T ss_pred             HHHHHHHHHhccCCeEEEeecccccccchhhHHHH---HHHHHHHHHHHhhhcccccccCCCCeEEEecCCCCcccCHHH
Confidence            68999999999999999999999999999875543   5789999999999998654    6899999999999999999


Q ss_pred             cCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         78 LRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        78 ~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      +|+||||++|.++.|+..+|..|++.+.+
T Consensus       347 RRaGRFdrEI~l~vP~e~aR~~IL~~~~~  375 (802)
T KOG0733|consen  347 RRAGRFDREICLGVPSETAREEILRIICR  375 (802)
T ss_pred             hccccccceeeecCCchHHHHHHHHHHHh
Confidence            99999999999999999999999998765

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

Probab=99.95  E-value=5.6e-28  Score=185.42  Aligned_cols=107  Identities=42%  Similarity=0.759  Sum_probs=98.9

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      ++|+.|..|++++||||||||+|++..+|..+.+..+.+-++.++++|.+||++.++.+|+++++||+|+-+|||++|||
T Consensus       230 RVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gviviaaTNRpdVlD~ALlRpg  309 (596)
T COG0465         230 RVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIAATNRPDVLDPALLRPG  309 (596)
T ss_pred             HHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCceEEEecCCCcccchHhhcCCC
Confidence            68999999999999999999999999999766555555777899999999999998899999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhcc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKRK  108 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~~  108 (110)
                      |||++|.++.||...|+.|++.+.+++
T Consensus       310 RFDRqI~V~~PDi~gRe~IlkvH~~~~  336 (596)
T COG0465         310 RFDRQILVELPDIKGREQILKVHAKNK  336 (596)
T ss_pred             CcceeeecCCcchhhHHHHHHHHhhcC
Confidence            999999999999999999999888754

>KOG0652|consensus

Probab=99.94  E-value=2.7e-27  Score=167.19  Aligned_cols=105  Identities=35%  Similarity=0.569  Sum_probs=98.6

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCc
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGR   82 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~gr   82 (110)
                      ++++|++|++.+|+||||||+|++..+|..+....+.+.++..-+||+++|++++..+|-||++||+.+-+|||++|+||
T Consensus       253 VRDAFaLAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKviAATNRvDiLDPALlRSGR  332 (424)
T KOG0652|consen  253 VRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKVIAATNRVDILDPALLRSGR  332 (424)
T ss_pred             HHHHHHHhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceEEEeecccccccCHHHhhccc
Confidence            68999999999999999999999999998877666667888999999999999999999999999999999999999999


Q ss_pred             cceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         83 LDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        83 fd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      +|+.|+||.|++++|..|++.+.++
T Consensus       333 LDRKIEfP~Pne~aRarIlQIHsRK  357 (424)
T KOG0652|consen  333 LDRKIEFPHPNEEARARILQIHSRK  357 (424)
T ss_pred             ccccccCCCCChHHHHHHHHHhhhh
Confidence            9999999999999999999987764

>KOG0728|consensus

Probab=99.94  E-value=7.2e-27  Score=164.29  Aligned_cols=105  Identities=41%  Similarity=0.593  Sum_probs=97.1

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      .++++|-.|++++|||||.||||++...|..++...+++.++..-+||+++|++....++-||.+||+.+.+|||++|||
T Consensus       228 mvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnridild~allrpg  307 (404)
T KOG0728|consen  228 MVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDPALLRPG  307 (404)
T ss_pred             HHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEeccccccccHhhcCCC
Confidence            46899999999999999999999999999766655566788899999999999999999999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      |+|+.|+||+||+++|..|++.+.+
T Consensus       308 ridrkiefp~p~e~ar~~ilkihsr  332 (404)
T KOG0728|consen  308 RIDRKIEFPPPNEEARLDILKIHSR  332 (404)
T ss_pred             cccccccCCCCCHHHHHHHHHHhhh
Confidence            9999999999999999999998765

>KOG0731|consensus

Probab=99.94  E-value=7.5e-27  Score=182.38  Aligned_cols=107  Identities=43%  Similarity=0.748  Sum_probs=97.2

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCC-CCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGG-SVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRP   80 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~-~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~   80 (110)
                      |++++|..|+.++||||||||||++...|.+ .....+.+.+..+++||.+||++.+..+|+|+++||+++.+|+|++||
T Consensus       391 rvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tnr~d~ld~allrp  470 (774)
T KOG0731|consen  391 RVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATNRPDILDPALLRP  470 (774)
T ss_pred             HHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccCCccccCHHhcCC
Confidence            6899999999999999999999999999953 222334478899999999999998889999999999999999999999


Q ss_pred             CccceEEEecCCCHHHHHHHHHHHhhcc
Q psy13774         81 GRLDQLIYIPLPDEIWLILSDKFLYKRK  108 (110)
Q Consensus        81 grfd~~i~~~~P~~~~R~~~~~~~~~~~  108 (110)
                      ||||++|+++.|+..+|..|++.+++++
T Consensus       471 GRfdr~i~i~~p~~~~r~~i~~~h~~~~  498 (774)
T KOG0731|consen  471 GRFDRQIQIDLPDVKGRASILKVHLRKK  498 (774)
T ss_pred             CccccceeccCCchhhhHHHHHHHhhcc
Confidence            9999999999999999999999988754

>KOG0727|consensus

Probab=99.94  E-value=6.1e-27  Score=164.81  Aligned_cols=104  Identities=38%  Similarity=0.578  Sum_probs=97.0

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      .++++|..|++++|+||||||+|++..+|...+...+.+.++++-+||++||++....+|-||.+||+.+.+|||++|||
T Consensus       236 mvrdvfrlakenapsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~nvkvimatnradtldpallrpg  315 (408)
T KOG0727|consen  236 MVRDVFRLAKENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPG  315 (408)
T ss_pred             HHHHHHHHHhccCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcccceEEEEecCcccccCHhhcCCc
Confidence            47899999999999999999999999999888766677889999999999999999999999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      |+|++|+||+||..++..+|....
T Consensus       316 rldrkiefplpdrrqkrlvf~tit  339 (408)
T KOG0727|consen  316 RLDRKIEFPLPDRRQKRLVFSTIT  339 (408)
T ss_pred             cccccccCCCCchhhhhhhHHhhh
Confidence            999999999999999988877654

>KOG0735|consensus

Probab=99.94  E-value=2.6e-26  Score=177.59  Aligned_cols=103  Identities=50%  Similarity=0.838  Sum_probs=95.9

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++++|.+|+..+|||+|+||+|++.++|+..+   .+...++++++|++|||..+-++|.|+|+|++|+.||||++|||
T Consensus       748 ~vR~lF~rA~~a~PCiLFFDEfdSiAPkRGhDs---TGVTDRVVNQlLTelDG~Egl~GV~i~aaTsRpdliDpALLRpG  824 (952)
T KOG0735|consen  748 NVRDLFERAQSAKPCILFFDEFDSIAPKRGHDS---TGVTDRVVNQLLTELDGAEGLDGVYILAATSRPDLIDPALLRPG  824 (952)
T ss_pred             HHHHHHHHhhccCCeEEEeccccccCcccCCCC---CCchHHHHHHHHHhhccccccceEEEEEecCCccccCHhhcCCC
Confidence            589999999999999999999999999996533   44889999999999999988899999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |+|+.+++++|+..+|.+|++.+...
T Consensus       825 RlD~~v~C~~P~~~eRl~il~~ls~s  850 (952)
T KOG0735|consen  825 RLDKLVYCPLPDEPERLEILQVLSNS  850 (952)
T ss_pred             ccceeeeCCCCCcHHHHHHHHHHhhc
Confidence            99999999999999999999988753

>KOG0726|consensus

Probab=99.93  E-value=1.2e-26  Score=165.69  Aligned_cols=102  Identities=34%  Similarity=0.549  Sum_probs=93.5

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCc
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGR   82 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~gr   82 (110)
                      ++++|..|..++|||+||||||++..+|..+++....+.++..-+||+++|++.+...|-||.+||+++.+|||++||||
T Consensus       267 vRqlF~vA~e~apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFdsrgDvKvimATnrie~LDPaLiRPGr  346 (440)
T KOG0726|consen  267 VRELFRVAEEHAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIMATNRIETLDPALIRPGR  346 (440)
T ss_pred             HHHHHHHHHhcCCceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCccccCCeEEEEecccccccCHhhcCCCc
Confidence            68999999999999999999999999998776655557778888999999999999999999999999999999999999


Q ss_pred             cceEEEecCCCHHHHHHHHHHH
Q psy13774         83 LDQLIYIPLPDEIWLILSDKFL  104 (110)
Q Consensus        83 fd~~i~~~~P~~~~R~~~~~~~  104 (110)
                      +|+.|+|+.||...++.||..+
T Consensus       347 IDrKIef~~pDe~TkkkIf~IH  368 (440)
T KOG0726|consen  347 IDRKIEFPLPDEKTKKKIFQIH  368 (440)
T ss_pred             cccccccCCCchhhhceeEEEe
Confidence            9999999999999998887643

>KOG0738|consensus

Probab=99.93  E-value=3.8e-26  Score=167.41  Aligned_cols=100  Identities=42%  Similarity=0.599  Sum_probs=91.1

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCC-CC---EEEEEecCCCCCCCcccc
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAK-KN---VFIIGATNRPDIIDPAIL   78 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~-~~---v~vi~ttn~~~~ld~al~   78 (110)
                      ++-+|++|+.++|++|||||||+||.+|+++..++  .++++.++||.+|||+... .+   |+|+|+||.||+||.|++
T Consensus       293 vRlLFemARfyAPStIFiDEIDslcs~RG~s~EHE--aSRRvKsELLvQmDG~~~t~e~~k~VmVLAATN~PWdiDEAlr  370 (491)
T KOG0738|consen  293 VRLLFEMARFYAPSTIFIDEIDSLCSQRGGSSEHE--ASRRVKSELLVQMDGVQGTLENSKVVMVLAATNFPWDIDEALR  370 (491)
T ss_pred             HHHHHHHHHHhCCceeehhhHHHHHhcCCCccchh--HHHHHHHHHHHHhhccccccccceeEEEEeccCCCcchHHHHH
Confidence            67899999999999999999999999998876544  7899999999999998553 34   999999999999999999


Q ss_pred             CCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      |  ||.++|++|+||.++|..+++.+++
T Consensus       371 R--RlEKRIyIPLP~~~~R~~Li~~~l~  396 (491)
T KOG0738|consen  371 R--RLEKRIYIPLPDAEARSALIKILLR  396 (491)
T ss_pred             H--HHhhheeeeCCCHHHHHHHHHHhhc
Confidence            9  9999999999999999999888775

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

Probab=99.93  E-value=1.9e-25  Score=169.94  Aligned_cols=103  Identities=46%  Similarity=0.726  Sum_probs=95.2

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++++|..|++.+||||||||+|++++.|+.+...   ...+++++++.+|+++....+|+||++||+|+.+|+|++|||
T Consensus       323 ~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~~~~~---~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~g  399 (494)
T COG0464         323 NIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDG---SGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPG  399 (494)
T ss_pred             HHHHHHHHHHcCCCcEEEEEchhhhhccCCCCCch---HHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccC
Confidence            68999999999999999999999999999765433   347999999999999988899999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||..|++++||.++|..+++.+++.
T Consensus       400 Rfd~~i~v~~pd~~~r~~i~~~~~~~  425 (494)
T COG0464         400 RFDRLIYVPLPDLEERLEIFKIHLRD  425 (494)
T ss_pred             ccceEeecCCCCHHHHHHHHHHHhcc
Confidence            99999999999999999999988873

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

Probab=99.92  E-value=1.2e-24  Score=159.63  Aligned_cols=101  Identities=18%  Similarity=0.175  Sum_probs=84.2

Q ss_pred             cHHHHHHHHHhc-----CCeEEEEcccccccccCCCCCCCCCCchHHHH-HHHHHhhhcC------------CCCCCEEE
Q psy13774          2 RIATGASMARAA-----APCVLFFDELDSIAKSRGGSVGDGGGAADRVI-NQILTEMDGM------------GAKKNVFI   63 (110)
Q Consensus         2 ~l~~~F~~A~~~-----~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~-~~ll~~ld~~------------~~~~~v~v   63 (110)
                      +|+++|..|++.     +||||||||||++++.++.++..   ...+++ .+|++.+|+.            ....+|+|
T Consensus       195 ~IR~~F~~A~~~a~~~~aPcVLFIDEIDA~~g~r~~~~~t---v~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~V  271 (413)
T PLN00020        195 LIRQRYREAADIIKKKGKMSCLFINDLDAGAGRFGTTQYT---VNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPI  271 (413)
T ss_pred             HHHHHHHHHHHHhhccCCCeEEEEehhhhcCCCCCCCCcc---hHHHHHHHHHHHHhcCCccccccccccccccCCCceE
Confidence            689999999864     69999999999999998643322   344554 7999998863            23468999


Q ss_pred             EEecCCCCCCCccccCCCccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         64 IGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        64 i~ttn~~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |+|||+|+.|||+|+||||||+.+  .+|+.++|..|++.++++
T Consensus       272 IaTTNrpd~LDpALlRpGRfDk~i--~lPd~e~R~eIL~~~~r~  313 (413)
T PLN00020        272 IVTGNDFSTLYAPLIRDGRMEKFY--WAPTREDRIGVVHGIFRD  313 (413)
T ss_pred             EEeCCCcccCCHhHcCCCCCCcee--CCCCHHHHHHHHHHHhcc
Confidence            999999999999999999999976  489999999999988764

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

Probab=99.92  E-value=2.1e-24  Score=160.76  Aligned_cols=106  Identities=39%  Similarity=0.584  Sum_probs=94.0

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      .++++|..|+.++||||||||+|+++.+|.+.....+....+.+.+++++++++....+++||++||+++.+||+++|||
T Consensus       226 ~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~LDpAllR~G  305 (398)
T PTZ00454        226 MVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPG  305 (398)
T ss_pred             HHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhCCHHHcCCC
Confidence            47889999999999999999999999888554433334567889999999999988889999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||+.|++++|+.++|..|++.++++
T Consensus       306 Rfd~~I~~~~P~~~~R~~Il~~~~~~  331 (398)
T PTZ00454        306 RLDRKIEFPLPDRRQKRLIFQTITSK  331 (398)
T ss_pred             cccEEEEeCCcCHHHHHHHHHHHHhc
Confidence            99999999999999999999987653

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.91  E-value=2.3e-24  Score=170.44  Aligned_cols=104  Identities=49%  Similarity=0.756  Sum_probs=93.7

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++++|..|++.+||||||||+|+++++|+....  .....+++++|+++||++....+++||+|||+|+.||+|++|||
T Consensus       534 ~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~--~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpg  611 (733)
T TIGR01243       534 AIREIFRKARQAAPAIIFFDEIDAIAPARGARFD--TSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPG  611 (733)
T ss_pred             HHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCC--ccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCC
Confidence            5789999999999999999999999998864332  23568899999999999988889999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||+.|++++||.++|..||+.+.++
T Consensus       612 Rfd~~i~v~~Pd~~~R~~i~~~~~~~  637 (733)
T TIGR01243       612 RFDRLILVPPPDEEARKEIFKIHTRS  637 (733)
T ss_pred             ccceEEEeCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999877653

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.

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.91  E-value=1.7e-24  Score=164.84  Aligned_cols=105  Identities=42%  Similarity=0.613  Sum_probs=91.5

Q ss_pred             cHHHHHHHHHhc----CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccc
Q psy13774          2 RIATGASMARAA----APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAI   77 (110)
Q Consensus         2 ~l~~~F~~A~~~----~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al   77 (110)
                      +++.+|+.|+..    .||||||||+|+++.+|+.....  ...++++++|+++||++....+++||+|||+++.||||+
T Consensus       273 ~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~--d~e~~il~~LL~~LDgl~~~~~ViVI~ATN~~d~LDpAL  350 (512)
T TIGR03689       273 QIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSS--DVETTVVPQLLSELDGVESLDNVIVIGASNREDMIDPAI  350 (512)
T ss_pred             HHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccc--hHHHHHHHHHHHHhcccccCCceEEEeccCChhhCCHhh
Confidence            467889988874    69999999999999888543322  245678899999999998778999999999999999999


Q ss_pred             cCCCccceEEEecCCCHHHHHHHHHHHhhcc
Q psy13774         78 LRPGRLDQLIYIPLPDEIWLILSDKFLYKRK  108 (110)
Q Consensus        78 ~r~grfd~~i~~~~P~~~~R~~~~~~~~~~~  108 (110)
                      +||||||.+|+|++|+.++|..|++.++...
T Consensus       351 lRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~~  381 (512)
T TIGR03689       351 LRPGRLDVKIRIERPDAEAAADIFSKYLTDS  381 (512)
T ss_pred             cCccccceEEEeCCCCHHHHHHHHHHHhhcc
Confidence            9999999999999999999999999887653

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.91  E-value=2.3e-24  Score=163.78  Aligned_cols=102  Identities=26%  Similarity=0.470  Sum_probs=90.4

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++++|+.|+..+||||||||+|.++.++.+..  .++...+++++|+++|++  ...+|+||+|||+++.|||+++|||
T Consensus       306 ~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~--d~~~~~rvl~~lL~~l~~--~~~~V~vIaTTN~~~~Ld~allR~G  381 (489)
T CHL00195        306 RMRQMIRIAEALSPCILWIDEIDKAFSNSESKG--DSGTTNRVLATFITWLSE--KKSPVFVVATANNIDLLPLEILRKG  381 (489)
T ss_pred             HHHHHHHHHHhcCCcEEEehhhhhhhccccCCC--CchHHHHHHHHHHHHHhc--CCCceEEEEecCChhhCCHHHhCCC
Confidence            588999999999999999999999987654322  234678999999999986  4578999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||+.+++++|+.++|..|++.++++
T Consensus       382 RFD~~i~v~lP~~~eR~~Il~~~l~~  407 (489)
T CHL00195        382 RFDEIFFLDLPSLEEREKIFKIHLQK  407 (489)
T ss_pred             cCCeEEEeCCcCHHHHHHHHHHHHhh
Confidence            99999999999999999999988865

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

Probab=99.91  E-value=9.4e-25  Score=153.85  Aligned_cols=102  Identities=38%  Similarity=0.592  Sum_probs=92.6

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +|+++|++|++.+|||+||||+|++.-.|.-..  -.+....+++.||+.||+++++.+|+.|++||+|+.||||+++  
T Consensus       198 ~Ihely~rA~~~aPcivFiDE~DAiaLdRryQe--lRGDVsEiVNALLTelDgi~eneGVvtIaaTN~p~~LD~aiRs--  273 (368)
T COG1223         198 RIHELYERARKAAPCIVFIDELDAIALDRRYQE--LRGDVSEIVNALLTELDGIKENEGVVTIAATNRPELLDPAIRS--  273 (368)
T ss_pred             HHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHH--hcccHHHHHHHHHHhccCcccCCceEEEeecCChhhcCHHHHh--
Confidence            689999999999999999999999998775322  2235778999999999999999999999999999999999999  


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      ||...|+|.+||.++|..|++++.++
T Consensus       274 RFEeEIEF~LP~~eEr~~ile~y~k~  299 (368)
T COG1223         274 RFEEEIEFKLPNDEERLEILEYYAKK  299 (368)
T ss_pred             hhhheeeeeCCChHHHHHHHHHHHHh
Confidence            99999999999999999999988764

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.91  E-value=2e-24  Score=179.39  Aligned_cols=94  Identities=18%  Similarity=0.309  Sum_probs=81.0

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC---CCCCEEEEEecCCCCCCCcccc
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG---AKKNVFIIGATNRPDIIDPAIL   78 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~---~~~~v~vi~ttn~~~~ld~al~   78 (110)
                      +|+.+|+.|++++||||||||||+++.+..         ....+++|+++|++..   ...+|+||||||+|+.||||++
T Consensus      1720 rIr~lFelARk~SPCIIFIDEIDaL~~~ds---------~~ltL~qLLneLDg~~~~~s~~~VIVIAATNRPD~LDPALL 1790 (2281)
T CHL00206       1720 YITLQFELAKAMSPCIIWIPNIHDLNVNES---------NYLSLGLLVNSLSRDCERCSTRNILVIASTHIPQKVDPALI 1790 (2281)
T ss_pred             HHHHHHHHHHHCCCeEEEEEchhhcCCCcc---------ceehHHHHHHHhccccccCCCCCEEEEEeCCCcccCCHhHc
Confidence            478899999999999999999999986521         1224788999999763   3468999999999999999999


Q ss_pred             CCCccceEEEecCCCHHHHHHHHHHH
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILSDKFL  104 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~~~~~  104 (110)
                      ||||||+.|+++.|+..+|+.++..+
T Consensus      1791 RPGRFDR~I~Ir~Pd~p~R~kiL~IL 1816 (2281)
T CHL00206       1791 APNKLNTCIKIRRLLIPQQRKHFFTL 1816 (2281)
T ss_pred             CCCCCCeEEEeCCCCchhHHHHHHHH
Confidence            99999999999999999998776654

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.91  E-value=3e-24  Score=163.61  Aligned_cols=106  Identities=41%  Similarity=0.742  Sum_probs=94.1

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++++|+.|+.++||||||||+|.++.++............+.+++|+.+||++....+++||+|||+|+.|||+++|||
T Consensus       135 ~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~ld~al~r~g  214 (495)
T TIGR01241       135 RVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALLRPG  214 (495)
T ss_pred             HHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhhcCHHHhcCC
Confidence            57899999999999999999999999887653322233566889999999999988889999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||+.|++++|+.++|..|++.+++.
T Consensus       215 Rfd~~i~i~~Pd~~~R~~il~~~l~~  240 (495)
T TIGR01241       215 RFDRQVVVDLPDIKGREEILKVHAKN  240 (495)
T ss_pred             cceEEEEcCCCCHHHHHHHHHHHHhc
Confidence            99999999999999999999988764

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.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.91  E-value=4.8e-24  Score=166.64  Aligned_cols=106  Identities=40%  Similarity=0.747  Sum_probs=94.8

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|..|+..+||||||||+|+++..|............+.++++|.+||++....+++||+|||+|+.||++++|||
T Consensus       232 ~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~Rpg  311 (644)
T PRK10733        232 RVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPG  311 (644)
T ss_pred             HHHHHHHHHHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCc
Confidence            46889999999999999999999999888654333333567899999999999988889999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||++|++++||.++|..|++.++++
T Consensus       312 Rfdr~i~v~~Pd~~~R~~Il~~~~~~  337 (644)
T PRK10733        312 RFDRQVVVGLPDVRGREQILKVHMRR  337 (644)
T ss_pred             ccceEEEcCCCCHHHHHHHHHHHhhc
Confidence            99999999999999999999988764

>KOG0739|consensus

Probab=99.90  E-value=1.3e-24  Score=155.56  Aligned_cols=99  Identities=35%  Similarity=0.590  Sum_probs=90.0

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC-CCCEEEEEecCCCCCCCccccCCC
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA-KKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~-~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      ++.+|++|+++.||||||||||++|..|+.+.+.   ..+++..+||-+|+++.. +++|+|+|+||-||.||.|++|  
T Consensus       214 VknLFemARe~kPSIIFiDEiDslcg~r~enEse---asRRIKTEfLVQMqGVG~d~~gvLVLgATNiPw~LDsAIRR--  288 (439)
T KOG0739|consen  214 VKNLFEMARENKPSIIFIDEIDSLCGSRSENESE---ASRRIKTEFLVQMQGVGNDNDGVLVLGATNIPWVLDSAIRR--  288 (439)
T ss_pred             HHHHHHHHHhcCCcEEEeehhhhhccCCCCCchH---HHHHHHHHHHHhhhccccCCCceEEEecCCCchhHHHHHHH--
Confidence            5789999999999999999999999998765543   789999999999999955 4699999999999999999999  


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      ||+++|++|+|+..+|..+|+..+.
T Consensus       289 RFekRIYIPLPe~~AR~~MF~lhlG  313 (439)
T KOG0739|consen  289 RFEKRIYIPLPEAHARARMFKLHLG  313 (439)
T ss_pred             HhhcceeccCCcHHHhhhhheeccC
Confidence            9999999999999999998887653

>KOG0729|consensus

Probab=99.90  E-value=4.9e-24  Score=151.15  Aligned_cols=105  Identities=35%  Similarity=0.576  Sum_probs=95.6

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      .++++|+.|+...-||||+||+|++...|.......+++.++..-++++++|++....++-|+.+||+|+.+|||++|||
T Consensus       258 mvrelf~martkkaciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdprgnikvlmatnrpdtldpallrpg  337 (435)
T KOG0729|consen  258 MVRELFEMARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKVLMATNRPDTLDPALLRPG  337 (435)
T ss_pred             HHHHHHHHhcccceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCCCCCeEEEeecCCCCCcCHhhcCCc
Confidence            47899999999999999999999999999776655566788888999999999999999999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      |+|+.++|++||.+.|..|++.+.+
T Consensus       338 rldrkvef~lpdlegrt~i~kihak  362 (435)
T KOG0729|consen  338 RLDRKVEFGLPDLEGRTHIFKIHAK  362 (435)
T ss_pred             ccccceeccCCcccccceeEEEecc
Confidence            9999999999999999988876543

>CHL00176 ftsH cell division protein; Validated

Probab=99.89  E-value=3.2e-23  Score=161.57  Aligned_cols=106  Identities=40%  Similarity=0.706  Sum_probs=94.8

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|+.|+.++||||||||+|+++..|+......+......+++|+..+|++....+++||++||+++.+|++++|||
T Consensus       263 ~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~~LD~ALlRpG  342 (638)
T CHL00176        263 RVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLRPG  342 (638)
T ss_pred             HHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCchHhhhhhhhccc
Confidence            46789999999999999999999999887654433344667889999999999988889999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||+.|++++|+.++|..|++.+++.
T Consensus       343 RFd~~I~v~lPd~~~R~~IL~~~l~~  368 (638)
T CHL00176        343 RFDRQITVSLPDREGRLDILKVHARN  368 (638)
T ss_pred             cCceEEEECCCCHHHHHHHHHHHHhh
Confidence            99999999999999999999988765

>KOG0651|consensus

Probab=99.89  E-value=4.4e-24  Score=153.01  Aligned_cols=104  Identities=38%  Similarity=0.578  Sum_probs=93.5

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      .|++.|..|+.+.|||||+||||+....+.+.....+...++.+-+|+++|+++....+|-+|.|||+|+.|||+|+|||
T Consensus       213 lIRemf~yA~~~~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~rVk~ImatNrpdtLdpaLlRpG  292 (388)
T KOG0651|consen  213 LIRDMFRYAREVIPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLHRVKTIMATNRPDTLDPALLRPG  292 (388)
T ss_pred             HHHHHHHHHhhhCceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhcccccEEEecCCccccchhhcCCc
Confidence            48999999999999999999999999988554444455677888899999999988999999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      |+|+.+++|+||+..|..+++...
T Consensus       293 Rldrk~~iPlpne~~r~~I~Kih~  316 (388)
T KOG0651|consen  293 RLDRKVEIPLPNEQARLGILKIHV  316 (388)
T ss_pred             cccceeccCCcchhhceeeEeecc
Confidence            999999999999999998877643

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.89  E-value=5.8e-23  Score=152.74  Aligned_cols=106  Identities=44%  Similarity=0.667  Sum_probs=93.0

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      .++.+|+.|+.++||||||||+|+++.++.+.....+....+.+.+++..++++....++.||+|||+++.+|++++|||
T Consensus       212 ~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~ld~allRpg  291 (389)
T PRK03992        212 LVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPG  291 (389)
T ss_pred             HHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhhCCHHHcCCc
Confidence            36789999999999999999999999887655433334566788889999999877789999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||..|++++|+.++|..|++.++++
T Consensus       292 Rfd~~I~v~~P~~~~R~~Il~~~~~~  317 (389)
T PRK03992        292 RFDRIIEVPLPDEEGRLEILKIHTRK  317 (389)
T ss_pred             cCceEEEECCCCHHHHHHHHHHHhcc
Confidence            99999999999999999999987753

>KOG0732|consensus

Probab=99.88  E-value=5e-23  Score=164.82  Aligned_cols=102  Identities=35%  Similarity=0.606  Sum_probs=94.1

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|+.|++++|+|||+||||-|.+.|++.+..   ....++++||..|||+.+.++|+|||+||+|+.+|||++|||
T Consensus       351 qlrllFeeA~k~qPSIIffdeIdGlapvrSskqEq---ih~SIvSTLLaLmdGldsRgqVvvigATnRpda~dpaLRRPg  427 (1080)
T KOG0732|consen  351 QLRLLFEEAQKTQPSIIFFDEIDGLAPVRSSKQEQ---IHASIVSTLLALMDGLDSRGQVVVIGATNRPDAIDPALRRPG  427 (1080)
T ss_pred             HHHHHHHHHhccCceEEeccccccccccccchHHH---hhhhHHHHHHHhccCCCCCCceEEEcccCCccccchhhcCCc
Confidence            57899999999999999999999999999765543   567899999999999999999999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      |||+.++|++|+.++|..|+....+
T Consensus       428 rfdref~f~lp~~~ar~~Il~Ihtr  452 (1080)
T KOG0732|consen  428 RFDREFYFPLPDVDARAKILDIHTR  452 (1080)
T ss_pred             ccceeEeeeCCchHHHHHHHHHhcc
Confidence            9999999999999999998876554

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

Probab=99.88  E-value=8.7e-23  Score=153.42  Aligned_cols=105  Identities=31%  Similarity=0.498  Sum_probs=92.4

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      .++.+|..|+.++||||||||+|+++.++............+.+.+++.+++++....++.||++||+++.+|++++|||
T Consensus       264 ~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~LDpaLlRpG  343 (438)
T PTZ00361        264 LVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIRPG  343 (438)
T ss_pred             HHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHhhHHhccCC
Confidence            36889999999999999999999999888654433333556788899999999877789999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      |||+.|+|++||.++|..|++.+++
T Consensus       344 Rfd~~I~~~~Pd~~~R~~Il~~~~~  368 (438)
T PTZ00361        344 RIDRKIEFPNPDEKTKRRIFEIHTS  368 (438)
T ss_pred             eeEEEEEeCCCCHHHHHHHHHHHHh
Confidence            9999999999999999999998764

>KOG0730|consensus

Probab=99.87  E-value=3.3e-22  Score=153.67  Aligned_cols=101  Identities=34%  Similarity=0.558  Sum_probs=94.5

Q ss_pred             cHHHHHHHHHhcC-CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCC
Q psy13774          2 RIATGASMARAAA-PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRP   80 (110)
Q Consensus         2 ~l~~~F~~A~~~~-P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~   80 (110)
                      +++++|+.|.+++ |+||||||+|+++++|.+...    ...++.++++++||+.....+++|+++||+|+.||++++| 
T Consensus       265 ~LR~~f~~a~k~~~psii~IdEld~l~p~r~~~~~----~e~Rv~sqlltL~dg~~~~~~vivl~atnrp~sld~alRR-  339 (693)
T KOG0730|consen  265 NLRKAFAEALKFQVPSIIFIDELDALCPKREGADD----VESRVVSQLLTLLDGLKPDAKVIVLAATNRPDSLDPALRR-  339 (693)
T ss_pred             HHHHHHHHHhccCCCeeEeHHhHhhhCCcccccch----HHHHHHHHHHHHHhhCcCcCcEEEEEecCCccccChhhhc-
Confidence            5899999999999 999999999999999977553    5789999999999999888999999999999999999999 


Q ss_pred             CccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         81 GRLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        81 grfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      ||||+.++++.|+..+|..+++.+.++
T Consensus       340 gRfd~ev~IgiP~~~~RldIl~~l~k~  366 (693)
T KOG0730|consen  340 GRFDREVEIGIPGSDGRLDILRVLTKK  366 (693)
T ss_pred             CCCcceeeecCCCchhHHHHHHHHHHh
Confidence            999999999999999999999988764

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.85  E-value=7.5e-21  Score=140.19  Aligned_cols=105  Identities=41%  Similarity=0.656  Sum_probs=91.3

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      .++.+|..|+..+|+||||||+|.++.++.+..........+.+.+++..++++....++.||+|||+++.+|++++|||
T Consensus       203 ~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~al~r~g  282 (364)
T TIGR01242       203 LVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPG  282 (364)
T ss_pred             HHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCChhhcCcc
Confidence            36789999999999999999999999877654433333556778889999998877789999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      |||+.|++++|+.++|..|++.+.+
T Consensus       283 rfd~~i~v~~P~~~~r~~Il~~~~~  307 (364)
T TIGR01242       283 RFDRIIEVPLPDFEGRLEILKIHTR  307 (364)
T ss_pred             cCceEEEeCCcCHHHHHHHHHHHHh
Confidence            9999999999999999999988764

Many proteins may score above the trusted cutoff because an internal

>KOG0740|consensus

Probab=99.84  E-value=3.4e-21  Score=143.46  Aligned_cols=102  Identities=35%  Similarity=0.491  Sum_probs=90.2

Q ss_pred             CcHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC--CCCEEEEEecCCCCCCCcccc
Q psy13774          1 MRIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA--KKNVFIIGATNRPDIIDPAIL   78 (110)
Q Consensus         1 ~~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~--~~~v~vi~ttn~~~~ld~al~   78 (110)
                      +.++.+|+.|+..+|+||||||+|.++.+|.....   ....++..++|.++++...  .++|+||||||.||.+|.|++
T Consensus       232 K~vralf~vAr~~qPsvifidEidslls~Rs~~e~---e~srr~ktefLiq~~~~~s~~~drvlvigaTN~P~e~Dea~~  308 (428)
T KOG0740|consen  232 KLVRALFKVARSLQPSVIFIDEIDSLLSKRSDNEH---ESSRRLKTEFLLQFDGKNSAPDDRVLVIGATNRPWELDEAAR  308 (428)
T ss_pred             HHHHHHHHHHHhcCCeEEEechhHHHHhhcCCccc---ccchhhhhHHHhhhccccCCCCCeEEEEecCCCchHHHHHHH
Confidence            35899999999999999999999999999944332   3677899999999988744  469999999999999999999


Q ss_pred             CCCccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |  ||-+.+++|+|++++|..+++.++++
T Consensus       309 R--rf~kr~yiplPd~etr~~~~~~ll~~  335 (428)
T KOG0740|consen  309 R--RFVKRLYIPLPDYETRSLLWKQLLKE  335 (428)
T ss_pred             H--HhhceeeecCCCHHHHHHHHHHHHHh
Confidence            9  99999999999999999988888764

>KOG0737|consensus

Probab=99.84  E-value=3.8e-21  Score=140.10  Aligned_cols=100  Identities=32%  Similarity=0.457  Sum_probs=89.8

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCC--CEEEEEecCCCCCCCccccCC
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKK--NVFIIGATNRPDIIDPAILRP   80 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~--~v~vi~ttn~~~~ld~al~r~   80 (110)
                      ++.+|..|.+.+||||||||+|.++..|.+++   .+....+.++|....||+.+++  +|+|+|+||+|.++|.|++| 
T Consensus       175 v~AvFslAsKl~P~iIFIDEvds~L~~R~s~d---HEa~a~mK~eFM~~WDGl~s~~~~rVlVlgATNRP~DlDeAiiR-  250 (386)
T KOG0737|consen  175 VKAVFSLASKLQPSIIFIDEVDSFLGQRRSTD---HEATAMMKNEFMALWDGLSSKDSERVLVLGATNRPFDLDEAIIR-  250 (386)
T ss_pred             HHHHHhhhhhcCcceeehhhHHHHHhhcccch---HHHHHHHHHHHHHHhccccCCCCceEEEEeCCCCCccHHHHHHH-
Confidence            57899999999999999999999999984332   2367788899999999998765  59999999999999999999 


Q ss_pred             CccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         81 GRLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        81 grfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                       |+.+++++++|+..+|..|++.++++
T Consensus       251 -R~p~rf~V~lP~~~qR~kILkviLk~  276 (386)
T KOG0737|consen  251 -RLPRRFHVGLPDAEQRRKILKVILKK  276 (386)
T ss_pred             -hCcceeeeCCCchhhHHHHHHHHhcc
Confidence             99999999999999999999998864

>KOG0741|consensus

Probab=99.83  E-value=7.6e-22  Score=149.41  Aligned_cols=104  Identities=40%  Similarity=0.627  Sum_probs=92.6

Q ss_pred             cHHHHHHHHHhcC--------CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCC
Q psy13774          2 RIATGASMARAAA--------PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDII   73 (110)
Q Consensus         2 ~l~~~F~~A~~~~--------P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~l   73 (110)
                      |++++|+-|.+..        --||++||||++|..|++..+. .+....++++||+.||++..-++++|||.||+.+.|
T Consensus       304 NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICKqRGS~~g~-TGVhD~VVNQLLsKmDGVeqLNNILVIGMTNR~DlI  382 (744)
T KOG0741|consen  304 NVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGS-TGVHDTVVNQLLSKMDGVEQLNNILVIGMTNRKDLI  382 (744)
T ss_pred             HHHHHHHhHHHHHHhhCccCCceEEEehhhHHHHHhcCCCCCC-CCccHHHHHHHHHhcccHHhhhcEEEEeccCchhhH
Confidence            6899999987533        2399999999999999776543 458899999999999999888999999999999999


Q ss_pred             CccccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         74 DPAILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        74 d~al~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      |.||+|||||..++++.+||++.|.+|++.+.+
T Consensus       383 DEALLRPGRlEVqmEIsLPDE~gRlQIl~IHT~  415 (744)
T KOG0741|consen  383 DEALLRPGRLEVQMEISLPDEKGRLQILKIHTK  415 (744)
T ss_pred             HHHhcCCCceEEEEEEeCCCccCceEEEEhhhh
Confidence            999999999999999999999999999887664

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.78  E-value=8.9e-19  Score=138.82  Aligned_cols=102  Identities=41%  Similarity=0.623  Sum_probs=90.8

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|+.|..++|+||||||+|.+++++.....   ....++.++|++.++++....+++||++||+++.+|++++|||
T Consensus       259 ~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~---~~~~~~~~~Ll~~ld~l~~~~~vivI~atn~~~~ld~al~r~g  335 (733)
T TIGR01243       259 RLREIFKEAEENAPSIIFIDEIDAIAPKREEVTG---EVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPG  335 (733)
T ss_pred             HHHHHHHHHHhcCCcEEEeehhhhhcccccCCcc---hHHHHHHHHHHHHhhccccCCCEEEEeecCChhhcCHHHhCch
Confidence            4788999999999999999999999988754332   2457789999999999988889999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      |||..+++++|+.++|..|++.+.+
T Consensus       336 Rfd~~i~i~~P~~~~R~~Il~~~~~  360 (733)
T TIGR01243       336 RFDREIVIRVPDKRARKEILKVHTR  360 (733)
T ss_pred             hccEEEEeCCcCHHHHHHHHHHHhc
Confidence            9999999999999999999986654

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.

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=99.69  E-value=1.2e-16  Score=101.26  Aligned_cols=86  Identities=40%  Similarity=0.657  Sum_probs=73.8

Q ss_pred             cHHHHHHHHHhcC-CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCC-CCEEEEEecCCCCCCCccccC
Q psy13774          2 RIATGASMARAAA-PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAK-KNVFIIGATNRPDIIDPAILR   79 (110)
Q Consensus         2 ~l~~~F~~A~~~~-P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~-~~v~vi~ttn~~~~ld~al~r   79 (110)
                      ++..+|..|+..+ ||||||||+|.++.+...   ..+.....+++.++..++..... .++++|+|||.++.+|++++|
T Consensus        45 ~i~~~~~~~~~~~~~~vl~iDe~d~l~~~~~~---~~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~~~~i~~~l~~  121 (132)
T PF00004_consen   45 KIRDFFKKAKKSAKPCVLFIDEIDKLFPKSQP---SSSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNSPDKIDPALLR  121 (132)
T ss_dssp             HHHHHHHHHHHTSTSEEEEEETGGGTSHHCST---SSSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESSGGGSCHHHHS
T ss_pred             ccccccccccccccceeeeeccchhccccccc---ccccccccccceeeecccccccccccceeEEeeCChhhCCHhHHh
Confidence            4788999999998 999999999999988722   22346778899999999998665 579999999999999999998


Q ss_pred             CCccceEEEecC
Q psy13774         80 PGRLDQLIYIPL   91 (110)
Q Consensus        80 ~grfd~~i~~~~   91 (110)
                       |||+..|++++
T Consensus       122 -~rf~~~i~~~~  132 (132)
T PF00004_consen  122 -SRFDRRIEFPL  132 (132)
T ss_dssp             -TTSEEEEEE-S
T ss_pred             -CCCcEEEEcCC
Confidence             89999999974

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 ....

>KOG0743|consensus

Probab=99.60  E-value=2.5e-15  Score=112.26  Aligned_cols=93  Identities=22%  Similarity=0.301  Sum_probs=74.9

Q ss_pred             CCeEEEEcccccccccCCCCCCCCC----CchHHHHHHHHHhhhcCCCCC--CEEEEEecCCCCCCCccccCCCccceEE
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGG----GAADRVINQILTEMDGMGAKK--NVFIIGATNRPDIIDPAILRPGRLDQLI   87 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~----~~~~~~~~~ll~~ld~~~~~~--~v~vi~ttn~~~~ld~al~r~grfd~~i   87 (110)
                      .-|||+|+|||+-+..+........    ....-.++.||+.+||+.+..  --++|.|||+++.|||||+||||.|.+|
T Consensus       286 ~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI  365 (457)
T KOG0743|consen  286 NKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHI  365 (457)
T ss_pred             CCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEE
Confidence            3489999999998764443332111    123457889999999998754  6889999999999999999999999999


Q ss_pred             EecCCCHHHHHHHHHHHhh
Q psy13774         88 YIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        88 ~~~~P~~~~R~~~~~~~~~  106 (110)
                      +++..+.++=+.+++.|+.
T Consensus       366 ~mgyCtf~~fK~La~nYL~  384 (457)
T KOG0743|consen  366 YMGYCTFEAFKTLASNYLG  384 (457)
T ss_pred             EcCCCCHHHHHHHHHHhcC
Confidence            9999999998877777764

>KOG0742|consensus

Probab=99.58  E-value=4.9e-15  Score=110.33  Aligned_cols=102  Identities=25%  Similarity=0.353  Sum_probs=85.9

Q ss_pred             cHHHHHHHHHhcCC-eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCC
Q psy13774          2 RIATGASMARAAAP-CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRP   80 (110)
Q Consensus         2 ~l~~~F~~A~~~~P-~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~   80 (110)
                      +|+++|.+|++... -++||||+|+++..|..+..+  +.....++.||-.-.+  .+..++++.+||+|.++|-|+-. 
T Consensus       430 kiH~lFDWakkS~rGLllFIDEADAFLceRnktymS--EaqRsaLNAlLfRTGd--qSrdivLvlAtNrpgdlDsAV~D-  504 (630)
T KOG0742|consen  430 KIHKLFDWAKKSRRGLLLFIDEADAFLCERNKTYMS--EAQRSALNALLFRTGD--QSRDIVLVLATNRPGDLDSAVND-  504 (630)
T ss_pred             HHHHHHHHHhhcccceEEEehhhHHHHHHhchhhhc--HHHHHHHHHHHHHhcc--cccceEEEeccCCccchhHHHHh-
Confidence            58999999998664 689999999999999776543  3667788888755443  35689999999999999999998 


Q ss_pred             CccceEEEecCCCHHHHHHHHHHHhhccc
Q psy13774         81 GRLDQLIYIPLPDEIWLILSDKFLYKRKI  109 (110)
Q Consensus        81 grfd~~i~~~~P~~~~R~~~~~~~~~~~~  109 (110)
                       |||..|+||+|..++|..++..|+.+.|
T Consensus       505 -Ride~veFpLPGeEERfkll~lYlnkyi  532 (630)
T KOG0742|consen  505 -RIDEVVEFPLPGEEERFKLLNLYLNKYI  532 (630)
T ss_pred             -hhhheeecCCCChHHHHHHHHHHHHHHh
Confidence             9999999999999999998888876654

>KOG0744|consensus

Probab=99.33  E-value=8.5e-13  Score=95.87  Aligned_cols=101  Identities=27%  Similarity=0.327  Sum_probs=84.8

Q ss_pred             HHHHHHHHHhc-----CCeEEEEcccccccccCCC-CCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCcc
Q psy13774          3 IATGASMARAA-----APCVLFFDELDSIAKSRGG-SVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPA   76 (110)
Q Consensus         3 l~~~F~~A~~~-----~P~ii~iDeiD~l~~~r~~-~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~a   76 (110)
                      ++++|+.-.+.     .-..|+|||+|++...|.+ +..+++...-++++.+|+++|.++...+|++.+|+|-.+.||.|
T Consensus       234 V~kmF~kI~ELv~d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~NvliL~TSNl~~siD~A  313 (423)
T KOG0744|consen  234 VAKMFQKIQELVEDRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYPNVLILATSNLTDSIDVA  313 (423)
T ss_pred             HHHHHHHHHHHHhCCCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhccCCCEEEEeccchHHHHHHH
Confidence            45566554332     1246789999999998844 34556678899999999999999999999999999999999999


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      +..  |-|-+.++++|+..+|..|++..+
T Consensus       314 fVD--RADi~~yVG~Pt~~ai~~Ilksci  340 (423)
T KOG0744|consen  314 FVD--RADIVFYVGPPTAEAIYEILKSCI  340 (423)
T ss_pred             hhh--HhhheeecCCccHHHHHHHHHHHH
Confidence            999  999999999999999998887654

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

Probab=99.32  E-value=1.5e-11  Score=94.03  Aligned_cols=101  Identities=41%  Similarity=0.623  Sum_probs=89.4

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|..|+..+|+++++||+|.+.+.+..   .......++.++++..++++.... +++++.||.+..+|+++++||
T Consensus        64 ~~~~~~~~a~~~~~~ii~~d~~~~~~~~~~~---~~~~~~~~v~~~l~~~~d~~~~~~-v~~~~~~~~~~~~~~a~~~~~  139 (494)
T COG0464          64 RLRELFEEAEKLAPSIIFIDEIDALAPKRSS---DQGEVERRVVAQLLALMDGLKRGQ-VIVIGATNRPDGLDPAKRRPG  139 (494)
T ss_pred             HHHHHHHHHHHhCCCeEeechhhhcccCccc---cccchhhHHHHHHHHhcccccCCc-eEEEeecCCccccChhHhCcc
Confidence            5788999999999999999999999999876   223478899999999999998444 999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      ||+..+.+..|+...|..+++...+
T Consensus       140 ~~~~~~~~~~~~~~~~~ei~~~~~~  164 (494)
T COG0464         140 RFDREIEVNLPDEAGRLEILQIHTR  164 (494)
T ss_pred             ccceeeecCCCCHHHHHHHHHHHHh
Confidence            9999999999999999877766543

>KOG0735|consensus

Probab=99.26  E-value=3.1e-11  Score=94.82  Aligned_cols=106  Identities=16%  Similarity=0.282  Sum_probs=84.6

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhh-hcCCC-CCCEEEEEecCCCCCCCccccCC
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEM-DGMGA-KKNVFIIGATNRPDIIDPAILRP   80 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~l-d~~~~-~~~v~vi~ttn~~~~ld~al~r~   80 (110)
                      ++.+|..|..++|+||++|++|.++...+..++ +.+.....++.+++++ ..+.. +..+.+||+.+..+.++|-|..|
T Consensus       483 l~~vfse~~~~~PSiIvLDdld~l~~~s~~e~~-q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~  561 (952)
T KOG0735|consen  483 LNNVFSEALWYAPSIIVLDDLDCLASASSNENG-QDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSP  561 (952)
T ss_pred             HHHHHHHHHhhCCcEEEEcchhhhhccCcccCC-cchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCc
Confidence            567899999999999999999999984333322 2334445556666554 33333 34679999999999999999999


Q ss_pred             CccceEEEecCCCHHHHHHHHHHHhhccc
Q psy13774         81 GRLDQLIYIPLPDEIWLILSDKFLYKRKI  109 (110)
Q Consensus        81 grfd~~i~~~~P~~~~R~~~~~~~~~~~~  109 (110)
                      ++|+.++.++.|+..+|.+|++++..++.
T Consensus       562 ~~Fq~~~~L~ap~~~~R~~IL~~~~s~~~  590 (952)
T KOG0735|consen  562 LLFQIVIALPAPAVTRRKEILTTIFSKNL  590 (952)
T ss_pred             cceEEEEecCCcchhHHHHHHHHHHHhhh
Confidence            99999999999999999999999887754

>KOG0736|consensus

Probab=99.22  E-value=4.8e-11  Score=94.29  Aligned_cols=100  Identities=18%  Similarity=0.197  Sum_probs=80.5

Q ss_pred             CcHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhh---cCCCCCCEEEEEecCCCCCCCccc
Q psy13774          1 MRIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMD---GMGAKKNVFIIGATNRPDIIDPAI   77 (110)
Q Consensus         1 ~~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld---~~~~~~~v~vi~ttn~~~~ld~al   77 (110)
                      +++...|..|+.++|+|||+-++|.+..+.++.      ...++.+.+-.++.   ......+++||++|+..+.+++.+
T Consensus       477 tkl~~~f~~a~~~~pavifl~~~dvl~id~dgg------ed~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~s~~~lp~~i  550 (953)
T KOG0736|consen  477 TKLQAIFSRARRCSPAVLFLRNLDVLGIDQDGG------EDARLLKVIRHLLSNEDFKFSCPPVIVVATTSSIEDLPADI  550 (953)
T ss_pred             HHHHHHHHHHhhcCceEEEEeccceeeecCCCc------hhHHHHHHHHHHHhcccccCCCCceEEEEeccccccCCHHH
Confidence            468899999999999999999999998555441      33444443333332   333567999999999999999999


Q ss_pred             cCCCccceEEEecCCCHHHHHHHHHHHhhcc
Q psy13774         78 LRPGRLDQLIYIPLPDEIWLILSDKFLYKRK  108 (110)
Q Consensus        78 ~r~grfd~~i~~~~P~~~~R~~~~~~~~~~~  108 (110)
                      ++  -|-++|.++.|++++|.+|+++|....
T Consensus       551 ~~--~f~~ei~~~~lse~qRl~iLq~y~~~~  579 (953)
T KOG0736|consen  551 QS--LFLHEIEVPALSEEQRLEILQWYLNHL  579 (953)
T ss_pred             HH--hhhhhccCCCCCHHHHHHHHHHHHhcc
Confidence            99  999999999999999999999987643

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

Probab=99.16  E-value=7.2e-11  Score=94.30  Aligned_cols=92  Identities=23%  Similarity=0.220  Sum_probs=69.7

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC-----CCCcc
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD-----IIDPA   76 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~-----~ld~a   76 (110)
                      +++.+|..+++..|+||||||+|.++..++.+..     .....+.|...+    ....+.+||+|+.++     ..|++
T Consensus       266 rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g-----~~d~~nlLkp~L----~~g~i~vIgATt~~E~~~~~~~D~A  336 (758)
T PRK11034        266 RFKALLKQLEQDTNSILFIDEIHTIIGAGAASGG-----QVDAANLIKPLL----SSGKIRVIGSTTYQEFSNIFEKDRA  336 (758)
T ss_pred             HHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCc-----HHHHHHHHHHHH----hCCCeEEEecCChHHHHHHhhccHH
Confidence            4678888888888999999999999877643221     122222222222    356899999999875     58999


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      +.|  ||+ .|+++.|+.+++..|++.+.
T Consensus       337 L~r--RFq-~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        337 LAR--RFQ-KIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             HHh--hCc-EEEeCCCCHHHHHHHHHHHH
Confidence            999  996 79999999999999888654

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

Probab=99.12  E-value=1.8e-10  Score=91.85  Aligned_cols=92  Identities=23%  Similarity=0.190  Sum_probs=69.5

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC-----CCCCcc
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP-----DIIDPA   76 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~-----~~ld~a   76 (110)
                      +++++|+.|+.+.|+||||||+|.++..+..+.+.     ...-+.|+..+    ..+.+.+||+||..     ...|+|
T Consensus       262 ~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~-----~~~~~~L~~~l----~~g~i~~IgaTt~~e~~~~~~~d~a  332 (731)
T TIGR02639       262 RLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGS-----MDASNLLKPAL----SSGKLRCIGSTTYEEYKNHFEKDRA  332 (731)
T ss_pred             HHHHHHHHHhccCCeEEEEecHHHHhccCCCCCcc-----HHHHHHHHHHH----hCCCeEEEEecCHHHHHHHhhhhHH
Confidence            57889999988889999999999998765432211     11222233333    34678999999974     368999


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      +.|  ||. .|+++.|+.+++..|++.+.
T Consensus       333 l~r--Rf~-~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       333 LSR--RFQ-KIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             HHH--hCc-eEEeCCCCHHHHHHHHHHHH
Confidence            999  997 69999999999998888554

>TIGR00763 lon ATP-dependent protease La

Probab=99.01  E-value=1.7e-09  Score=86.81  Aligned_cols=90  Identities=26%  Similarity=0.347  Sum_probs=66.0

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhc-----CC--------CCCCEEEEEecC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDG-----MG--------AKKNVFIIGATN   68 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~-----~~--------~~~~v~vi~ttn   68 (110)
                      ++.+.|..|....| ||||||+|.+.+...+       .   ..+.|+..+|.     +.        ...++++|+|||
T Consensus       403 ~i~~~l~~~~~~~~-villDEidk~~~~~~~-------~---~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~TtN  471 (775)
T TIGR00763       403 RIIQGLKKAKTKNP-LFLLDEIDKIGSSFRG-------D---PASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIATAN  471 (775)
T ss_pred             hHHHHHHHhCcCCC-EEEEechhhcCCccCC-------C---HHHHHHHhcCHHhcCccccccCCceeccCCEEEEEecC
Confidence            35567888877666 7899999999743211       1   23345555542     11        125799999999


Q ss_pred             CCCCCCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         69 RPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        69 ~~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      .++.+|+++++  ||+ .|+++.|+.+++..|++.++
T Consensus       472 ~~~~i~~~L~~--R~~-vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       472 SIDTIPRPLLD--RME-VIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             CchhCCHHHhC--Cee-EEecCCCCHHHHHHHHHHHH
Confidence            99999999999  995 79999999999998876654

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.96  E-value=2.5e-09  Score=86.64  Aligned_cols=91  Identities=26%  Similarity=0.348  Sum_probs=67.6

Q ss_pred             cHHHHHHHHHh-cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC-----CCCc
Q psy13774          2 RIATGASMARA-AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD-----IIDP   75 (110)
Q Consensus         2 ~l~~~F~~A~~-~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~-----~ld~   75 (110)
                      +|+.+|+.++. ..++|+||||+|.++..++.....   ...   +.|+..+    ..+.+.+||||+..+     .+|+
T Consensus       267 ~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~---d~~---n~Lkp~l----~~G~l~~IgaTT~~e~~~~~~~d~  336 (852)
T TIGR03345       267 RLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQG---DAA---NLLKPAL----ARGELRTIAATTWAEYKKYFEKDP  336 (852)
T ss_pred             HHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccc---cHH---HHhhHHh----hCCCeEEEEecCHHHHhhhhhccH
Confidence            57889998875 468999999999999776432211   111   2222222    456789999999754     4999


Q ss_pred             cccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         76 AILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        76 al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      ||.|  ||. .|.++.|+.+++..|++.+.
T Consensus       337 AL~r--Rf~-~i~v~eps~~~~~~iL~~~~  363 (852)
T TIGR03345       337 ALTR--RFQ-VVKVEEPDEETAIRMLRGLA  363 (852)
T ss_pred             HHHH--hCe-EEEeCCCCHHHHHHHHHHHH
Confidence            9999  995 79999999999998876554

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.

>CHL00181 cbbX CbbX; Provisional

Probab=98.96  E-value=5.6e-09  Score=75.28  Aligned_cols=85  Identities=20%  Similarity=0.230  Sum_probs=64.2

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC-----CCCCccccCCCccceEE
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP-----DIIDPAILRPGRLDQLI   87 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~-----~~ld~al~r~grfd~~i   87 (110)
                      ..++||||||+|.++..+..     +.........|+..|+..  ..+++||++++..     ..++|++.+  ||+..|
T Consensus       121 a~ggVLfIDE~~~l~~~~~~-----~~~~~e~~~~L~~~me~~--~~~~~vI~ag~~~~~~~~~~~np~L~s--R~~~~i  191 (287)
T CHL00181        121 AMGGVLFIDEAYYLYKPDNE-----RDYGSEAIEILLQVMENQ--RDDLVVIFAGYKDRMDKFYESNPGLSS--RIANHV  191 (287)
T ss_pred             ccCCEEEEEccchhccCCCc-----cchHHHHHHHHHHHHhcC--CCCEEEEEeCCcHHHHHHHhcCHHHHH--hCCceE
Confidence            35689999999999754321     113466778888888763  4567777777532     145699999  999999


Q ss_pred             EecCCCHHHHHHHHHHHhh
Q psy13774         88 YIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        88 ~~~~P~~~~R~~~~~~~~~  106 (110)
                      +|+.++.+++..|++.+++
T Consensus       192 ~F~~~t~~el~~I~~~~l~  210 (287)
T CHL00181        192 DFPDYTPEELLQIAKIMLE  210 (287)
T ss_pred             EcCCcCHHHHHHHHHHHHH
Confidence            9999999999988887765

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.93  E-value=5.4e-09  Score=75.20  Aligned_cols=92  Identities=20%  Similarity=0.242  Sum_probs=68.0

Q ss_pred             HHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC--C---CCCcccc
Q psy13774          4 ATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP--D---IIDPAIL   78 (110)
Q Consensus         4 ~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~--~---~ld~al~   78 (110)
                      ..+|+.|   .+++|||||+|.+...+..     ..........|++.|+.  ...++++|++++..  +   .++|++.
T Consensus       114 ~~~~~~a---~~gvL~iDEi~~L~~~~~~-----~~~~~~~~~~Ll~~le~--~~~~~~vI~a~~~~~~~~~~~~np~L~  183 (284)
T TIGR02880       114 KEILKRA---MGGVLFIDEAYYLYRPDNE-----RDYGQEAIEILLQVMEN--QRDDLVVILAGYKDRMDSFFESNPGFS  183 (284)
T ss_pred             HHHHHHc---cCcEEEEechhhhccCCCc-----cchHHHHHHHHHHHHhc--CCCCEEEEEeCCcHHHHHHHhhCHHHH
Confidence            3455554   4689999999998654321     11345677788888876  34677788876642  3   3589999


Q ss_pred             CCCccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      +  ||+..|+||.++.+++..|++.++++
T Consensus       184 s--R~~~~i~fp~l~~edl~~I~~~~l~~  210 (284)
T TIGR02880       184 S--RVAHHVDFPDYSEAELLVIAGLMLKE  210 (284)
T ss_pred             h--hCCcEEEeCCcCHHHHHHHHHHHHHH
Confidence            9  99999999999999999988887754

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.91  E-value=3.2e-09  Score=86.08  Aligned_cols=92  Identities=20%  Similarity=0.242  Sum_probs=67.7

Q ss_pred             cHHHHHHHHH-hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC-----CCCc
Q psy13774          2 RIATGASMAR-AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD-----IIDP   75 (110)
Q Consensus         2 ~l~~~F~~A~-~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~-----~ld~   75 (110)
                      +++.+|..+. ...|+|+||||+|.++..+++.+..   ....++   ...+    ..+.+.+||+|+..+     .+|+
T Consensus       258 ~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~---d~~~~l---kp~l----~~g~l~~IgaTt~~e~r~~~~~d~  327 (857)
T PRK10865        258 RLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAM---DAGNML---KPAL----ARGELHCVGATTLDEYRQYIEKDA  327 (857)
T ss_pred             HHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccch---hHHHHh---cchh----hcCCCeEEEcCCCHHHHHHhhhcH
Confidence            4777888754 4578999999999998766432211   122222   2222    457889999999987     4899


Q ss_pred             cccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         76 AILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        76 al~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      |+.|  ||+ .|.++.|+.+++..+++.+..
T Consensus       328 al~r--Rf~-~i~v~eP~~~~~~~iL~~l~~  355 (857)
T PRK10865        328 ALER--RFQ-KVFVAEPSVEDTIAILRGLKE  355 (857)
T ss_pred             HHHh--hCC-EEEeCCCCHHHHHHHHHHHhh
Confidence            9999  997 589999999999988876653

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.90  E-value=1.3e-08  Score=72.25  Aligned_cols=91  Identities=20%  Similarity=0.172  Sum_probs=64.4

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC-----CCCCccc
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP-----DIIDPAI   77 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~-----~~ld~al   77 (110)
                      ++.+|+.|   .++||||||+|.|.....      .......+..++..|+..  ..++++|+++...     ..++|++
T Consensus        97 ~~~~~~~a---~~~VL~IDE~~~L~~~~~------~~~~~~~i~~Ll~~~e~~--~~~~~vila~~~~~~~~~~~~~p~L  165 (261)
T TIGR02881        97 TREVIKKA---LGGVLFIDEAYSLARGGE------KDFGKEAIDTLVKGMEDN--RNEFVLILAGYSDEMDYFLSLNPGL  165 (261)
T ss_pred             HHHHHHhc---cCCEEEEechhhhccCCc------cchHHHHHHHHHHHHhcc--CCCEEEEecCCcchhHHHHhcChHH
Confidence            34556555   468999999999963111      112355677888888774  3455666554332     2478999


Q ss_pred             cCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         78 LRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        78 ~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      .+  ||+..|+++.++.+++..|++.+.+
T Consensus       166 ~s--Rf~~~i~f~~~~~~el~~Il~~~~~  192 (261)
T TIGR02881       166 RS--RFPISIDFPDYTVEELMEIAERMVK  192 (261)
T ss_pred             Hh--ccceEEEECCCCHHHHHHHHHHHHH
Confidence            99  9999999999999999988887664

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.77  E-value=1.9e-08  Score=81.57  Aligned_cols=91  Identities=21%  Similarity=0.230  Sum_probs=66.3

Q ss_pred             cHHHHHHHHHhc-CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC-----CCCc
Q psy13774          2 RIATGASMARAA-APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD-----IIDP   75 (110)
Q Consensus         2 ~l~~~F~~A~~~-~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~-----~ld~   75 (110)
                      +++.+|+.+... .|+||||||+|.++..++..+.      ....+.|...+    ....+.+||+|+..+     .+|+
T Consensus       253 ~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~------~d~~~~Lk~~l----~~g~i~~IgaTt~~e~r~~~~~d~  322 (852)
T TIGR03346       253 RLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGA------MDAGNMLKPAL----ARGELHCIGATTLDEYRKYIEKDA  322 (852)
T ss_pred             HHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcch------hHHHHHhchhh----hcCceEEEEeCcHHHHHHHhhcCH
Confidence            567888888654 5999999999999865532211      11222222222    456789999999874     5899


Q ss_pred             cccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         76 AILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        76 al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      ++.|  ||. .|.++.|+.+++..+++.+.
T Consensus       323 al~r--Rf~-~i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       323 ALER--RFQ-PVFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             HHHh--cCC-EEEeCCCCHHHHHHHHHHHH
Confidence            9999  996 58999999999998887654

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.67  E-value=6.9e-08  Score=78.11  Aligned_cols=90  Identities=21%  Similarity=0.218  Sum_probs=66.5

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC-----CCCcc
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD-----IIDPA   76 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~-----~ld~a   76 (110)
                      +|+.+|+.++...|+|+||||+|.++..++..+..   ....++   ...+    ..+.+.+||+|+..+     ..|++
T Consensus       259 rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~---~~a~lL---kp~l----~rg~l~~IgaTt~~ey~~~ie~D~a  328 (821)
T CHL00095        259 RLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAI---DAANIL---KPAL----ARGELQCIGATTLDEYRKHIEKDPA  328 (821)
T ss_pred             HHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcc---cHHHHh---HHHH----hCCCcEEEEeCCHHHHHHHHhcCHH
Confidence            57889999988889999999999998765432211   122222   2222    356788999999774     58999


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHHHH
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDKFL  104 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~~~  104 (110)
                      +.+  ||. .|.++.|+.++...+++.+
T Consensus       329 L~r--Rf~-~I~v~ep~~~e~~aILr~l  353 (821)
T CHL00095        329 LER--RFQ-PVYVGEPSVEETIEILFGL  353 (821)
T ss_pred             HHh--cce-EEecCCCCHHHHHHHHHHH
Confidence            999  996 5899999999987777654

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.43  E-value=1.1e-06  Score=65.97  Aligned_cols=81  Identities=12%  Similarity=0.153  Sum_probs=59.6

Q ss_pred             HHHHHHHHHhc----CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCcccc
Q psy13774          3 IATGASMARAA----APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAIL   78 (110)
Q Consensus         3 l~~~F~~A~~~----~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~   78 (110)
                      ++++++.+...    ...|++|||+|.+..              ...+.|++.|+..  ..++++|.+|++++.+.|+++
T Consensus       102 iR~l~~~~~~~p~~~~~kViiIDead~m~~--------------~aanaLLk~LEep--~~~~~fIL~a~~~~~llpTIr  165 (394)
T PRK07940        102 VRELVTIAARRPSTGRWRIVVIEDADRLTE--------------RAANALLKAVEEP--PPRTVWLLCAPSPEDVLPTIR  165 (394)
T ss_pred             HHHHHHHHHhCcccCCcEEEEEechhhcCH--------------HHHHHHHHHhhcC--CCCCeEEEEECChHHChHHHH
Confidence            56777776532    235999999998831              2336688888763  445666666666999999999


Q ss_pred             CCCccceEEEecCCCHHHHHHHHH
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILSDK  102 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~~~  102 (110)
                      +  |+ ..++|++|+.++...++.
T Consensus       166 S--Rc-~~i~f~~~~~~~i~~~L~  186 (394)
T PRK07940        166 S--RC-RHVALRTPSVEAVAEVLV  186 (394)
T ss_pred             h--hC-eEEECCCCCHHHHHHHHH
Confidence            9  88 689999999888766654

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.36  E-value=1.7e-06  Score=63.27  Aligned_cols=44  Identities=18%  Similarity=0.101  Sum_probs=39.3

Q ss_pred             CEEEEEecCCCCCCCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         60 NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        60 ~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      ++.+|++||.+..+++++++  ||...+.+++|+.+++..+++...
T Consensus       150 ~~~li~at~~~~~l~~~L~s--Rf~~~~~l~~~~~~e~~~il~~~~  193 (328)
T PRK00080        150 PFTLIGATTRAGLLTSPLRD--RFGIVQRLEFYTVEELEKIVKRSA  193 (328)
T ss_pred             CceEEeecCCcccCCHHHHH--hcCeeeecCCCCHHHHHHHHHHHH
Confidence            57899999999999999999  999999999999999988777543

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.36  E-value=2.2e-06  Score=61.68  Aligned_cols=77  Identities=16%  Similarity=0.193  Sum_probs=56.1

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC----------------CCCCEEEEEecCCCCCCCcc
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG----------------AKKNVFIIGATNRPDIIDPA   76 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~----------------~~~~v~vi~ttn~~~~ld~a   76 (110)
                      ..+.++||||+|.+....              ...|.+.+++..                ...++++|++||++..++++
T Consensus        80 ~~~~vl~iDEi~~l~~~~--------------~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~  145 (305)
T TIGR00635        80 EEGDVLFIDEIHRLSPAV--------------EELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSP  145 (305)
T ss_pred             ccCCEEEEehHhhhCHHH--------------HHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCHH
Confidence            357899999999884221              112333333211                12358899999999999999


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      +++  ||...+.+++|+.++...+++...
T Consensus       146 l~s--R~~~~~~l~~l~~~e~~~il~~~~  172 (305)
T TIGR00635       146 LRD--RFGIILRLEFYTVEELAEIVSRSA  172 (305)
T ss_pred             HHh--hcceEEEeCCCCHHHHHHHHHHHH
Confidence            999  999999999999999887776544

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.

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.27  E-value=7.2e-06  Score=60.25  Aligned_cols=89  Identities=18%  Similarity=0.126  Sum_probs=61.4

Q ss_pred             HHHHHHH-hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC-CCCCCEEEEEecCCCC---CCCccccC
Q psy13774          5 TGASMAR-AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM-GAKKNVFIIGATNRPD---IIDPAILR   79 (110)
Q Consensus         5 ~~F~~A~-~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~-~~~~~v~vi~ttn~~~---~ld~al~r   79 (110)
                      .+++... ...|.||+|||+|.+....           ..++..++...+.. ....++.+|++||.++   .+++.+.+
T Consensus       119 ~l~~~l~~~~~~~vlvIDE~d~L~~~~-----------~~~L~~l~~~~~~~~~~~~~v~lI~i~n~~~~~~~l~~~~~s  187 (365)
T TIGR02928       119 RLYKELNERGDSLIIVLDEIDYLVGDD-----------DDLLYQLSRARSNGDLDNAKVGVIGISNDLKFRENLDPRVKS  187 (365)
T ss_pred             HHHHHHHhcCCeEEEEECchhhhccCC-----------cHHHHhHhccccccCCCCCeEEEEEEECCcchHhhcCHHHhc
Confidence            3444443 3457899999999997110           12445555442211 1236799999999886   68888887


Q ss_pred             CCccc-eEEEecCCCHHHHHHHHHHHhh
Q psy13774         80 PGRLD-QLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        80 ~grfd-~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                        ||. ..|++++++.++...+++..++
T Consensus       188 --~~~~~~i~f~p~~~~e~~~il~~r~~  213 (365)
T TIGR02928       188 --SLCEEEIIFPPYDAEELRDILENRAE  213 (365)
T ss_pred             --cCCcceeeeCCCCHHHHHHHHHHHHH
Confidence              775 6799999999999988876654

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=98.21  E-value=6.1e-06  Score=59.63  Aligned_cols=73  Identities=21%  Similarity=0.185  Sum_probs=53.1

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      .+.+|+|||+|.+..             ......+...++..  ..++.+|++||.+..+++++++  ||. .+.++.|+
T Consensus       100 ~~~vliiDe~d~l~~-------------~~~~~~L~~~le~~--~~~~~~Ilt~n~~~~l~~~l~s--R~~-~i~~~~p~  161 (316)
T PHA02544        100 GGKVIIIDEFDRLGL-------------ADAQRHLRSFMEAY--SKNCSFIITANNKNGIIEPLRS--RCR-VIDFGVPT  161 (316)
T ss_pred             CCeEEEEECcccccC-------------HHHHHHHHHHHHhc--CCCceEEEEcCChhhchHHHHh--hce-EEEeCCCC
Confidence            578999999997621             11222344445553  3466788899999999999999  984 78999999


Q ss_pred             HHHHHHHHHHH
Q psy13774         94 EIWLILSDKFL  104 (110)
Q Consensus        94 ~~~R~~~~~~~  104 (110)
                      .+++..+++.+
T Consensus       162 ~~~~~~il~~~  172 (316)
T PHA02544        162 KEEQIEMMKQM  172 (316)
T ss_pred             HHHHHHHHHHH
Confidence            99988665543

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

Probab=98.18  E-value=8.3e-06  Score=65.98  Aligned_cols=86  Identities=17%  Similarity=0.231  Sum_probs=58.3

Q ss_pred             HHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhc---------CC----CCCCEEEEEecCCCC
Q psy13774          5 TGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDG---------MG----AKKNVFIIGATNRPD   71 (110)
Q Consensus         5 ~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~---------~~----~~~~v~vi~ttn~~~   71 (110)
                      +.+..+....| ||+|||+|.+.....+       .   ..+.|+..+|.         +-    .-.++++|+|+|.. 
T Consensus       408 ~~l~~~~~~~~-villDEidk~~~~~~g-------~---~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~TaN~~-  475 (784)
T PRK10787        408 QKMAKVGVKNP-LFLLDEIDKMSSDMRG-------D---PASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNSM-  475 (784)
T ss_pred             HHHHhcCCCCC-EEEEEChhhcccccCC-------C---HHHHHHHHhccccEEEEecccccccccCCceEEEEcCCCC-
Confidence            34444444445 7899999988643211       1   23445555552         11    22689999999987 


Q ss_pred             CCCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         72 IIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        72 ~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      .|+|+++.  |++ .|.+..++.++...|.+.++
T Consensus       476 ~i~~aLl~--R~~-ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        476 NIPAPLLD--RME-VIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             CCCHHHhc--cee-eeecCCCCHHHHHHHHHHhh
Confidence            59999999  995 68898888888877765554

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.17  E-value=1.6e-05  Score=53.54  Aligned_cols=71  Identities=20%  Similarity=0.239  Sum_probs=54.2

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      ...||+|||+|.+..              ...+.|+..++..  ....++|.+|+.+..+++++++  |+ ..+++.+|+
T Consensus        96 ~~kviiide~~~l~~--------------~~~~~Ll~~le~~--~~~~~~il~~~~~~~l~~~i~s--r~-~~~~~~~~~  156 (188)
T TIGR00678        96 GRRVVIIEDAERMNE--------------AAANALLKTLEEP--PPNTLFILITPSPEKLLPTIRS--RC-QVLPFPPLS  156 (188)
T ss_pred             CeEEEEEechhhhCH--------------HHHHHHHHHhcCC--CCCeEEEEEECChHhChHHHHh--hc-EEeeCCCCC
Confidence            356999999997732              2345688888773  4466677778888999999999  77 589999999


Q ss_pred             HHHHHHHHHH
Q psy13774         94 EIWLILSDKF  103 (110)
Q Consensus        94 ~~~R~~~~~~  103 (110)
                      .++...+++.
T Consensus       157 ~~~~~~~l~~  166 (188)
T TIGR00678       157 EEALLQWLIR  166 (188)
T ss_pred             HHHHHHHHHH
Confidence            9887776654

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.

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=98.10  E-value=1.2e-05  Score=59.40  Aligned_cols=68  Identities=15%  Similarity=0.160  Sum_probs=55.6

Q ss_pred             EEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCHHH
Q psy13774         17 VLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIW   96 (110)
Q Consensus        17 ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~~   96 (110)
                      |++||++|.+              .....+.||+.+++  ...++++|.+|++++.|.|++++  |+ ..+.|++|+.++
T Consensus       135 V~iI~~ae~m--------------~~~AaNaLLKtLEE--Pp~~t~fiL~t~~~~~LLpTI~S--Rc-q~i~~~~~~~~~  195 (342)
T PRK06964        135 VVVLYPAEAL--------------NVAAANALLKTLEE--PPPGTVFLLVSARIDRLLPTILS--RC-RQFPMTVPAPEA  195 (342)
T ss_pred             EEEEechhhc--------------CHHHHHHHHHHhcC--CCcCcEEEEEECChhhCcHHHHh--cC-EEEEecCCCHHH
Confidence            6666666655              23456789999987  67899999999999999999999  98 789999999988


Q ss_pred             HHHHHHH
Q psy13774         97 LILSDKF  103 (110)
Q Consensus        97 R~~~~~~  103 (110)
                      ...++..
T Consensus       196 ~~~~L~~  202 (342)
T PRK06964        196 AAAWLAA  202 (342)
T ss_pred             HHHHHHH
Confidence            8776653

>PRK06893 DNA replication initiation factor; Validated

Probab=98.09  E-value=9.1e-06  Score=56.71  Aligned_cols=80  Identities=10%  Similarity=0.145  Sum_probs=53.5

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCC-CEEEEEecCCCCCCC---ccccCCCccceEEEe
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKK-NVFIIGATNRPDIID---PAILRPGRLDQLIYI   89 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~-~v~vi~ttn~~~~ld---~al~r~grfd~~i~~   89 (110)
                      ++.+|+|||++.+..+.         ....   .+...++.....+ .+++++++..|..++   |++.+..++...+.+
T Consensus        91 ~~dlLilDDi~~~~~~~---------~~~~---~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l  158 (229)
T PRK06893         91 QQDLVCLDDLQAVIGNE---------EWEL---AIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQL  158 (229)
T ss_pred             cCCEEEEeChhhhcCCh---------HHHH---HHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeC
Confidence            45799999999885322         1122   2444444443333 455666777777665   889984444679999


Q ss_pred             cCCCHHHHHHHHHHHh
Q psy13774         90 PLPDEIWLILSDKFLY  105 (110)
Q Consensus        90 ~~P~~~~R~~~~~~~~  105 (110)
                      +.||.++|..+++...
T Consensus       159 ~~pd~e~~~~iL~~~a  174 (229)
T PRK06893        159 NDLTDEQKIIVLQRNA  174 (229)
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            9999999998877544

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.03  E-value=9e-06  Score=60.98  Aligned_cols=79  Identities=11%  Similarity=0.213  Sum_probs=54.4

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCC---CCccccCCCccc--eEEE
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDI---IDPAILRPGRLD--QLIY   88 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~---ld~al~r~grfd--~~i~   88 (110)
                      .+.+|+|||+|.+..+.            ....+|...++.+...++.++|+++..|..   +++.+.+  ||.  ..++
T Consensus       199 ~~dlLiiDDi~~l~~~~------------~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~S--Rl~~g~~v~  264 (405)
T TIGR00362       199 SVDLLLIDDIQFLAGKE------------RTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRS--RFEWGLVVD  264 (405)
T ss_pred             hCCEEEEehhhhhcCCH------------HHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhh--hccCCeEEE
Confidence            36799999999885322            112234444444433445566766666654   5688998  996  4799


Q ss_pred             ecCCCHHHHHHHHHHHhh
Q psy13774         89 IPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        89 ~~~P~~~~R~~~~~~~~~  106 (110)
                      +++||.++|..|++...+
T Consensus       265 i~~pd~~~r~~il~~~~~  282 (405)
T TIGR00362       265 IEPPDLETRLAILQKKAE  282 (405)
T ss_pred             eCCCCHHHHHHHHHHHHH
Confidence            999999999988887654

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).

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.03  E-value=4.3e-05  Score=56.74  Aligned_cols=81  Identities=15%  Similarity=0.212  Sum_probs=57.9

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC---CCCccccCCCccc-eEEE
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD---IIDPAILRPGRLD-QLIY   88 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~---~ld~al~r~grfd-~~i~   88 (110)
                      ..+.||+|||+|.+. .+.         ....+..++..++... ..++.+|+++|.++   .+++.+.+  ||. ..|+
T Consensus       137 ~~~~viviDE~d~l~-~~~---------~~~~l~~l~~~~~~~~-~~~v~vI~i~~~~~~~~~l~~~~~s--~~~~~~i~  203 (394)
T PRK00411        137 DRVLIVALDDINYLF-EKE---------GNDVLYSLLRAHEEYP-GARIGVIGISSDLTFLYILDPRVKS--VFRPEEIY  203 (394)
T ss_pred             CCEEEEEECCHhHhh-ccC---------CchHHHHHHHhhhccC-CCeEEEEEEECCcchhhhcCHHHHh--cCCcceee
Confidence            456899999999997 211         1235666666666542 34788899988764   57777776  664 5789


Q ss_pred             ecCCCHHHHHHHHHHHhh
Q psy13774         89 IPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        89 ~~~P~~~~R~~~~~~~~~  106 (110)
                      +++++.++...+++..++
T Consensus       204 f~py~~~e~~~il~~r~~  221 (394)
T PRK00411        204 FPPYTADEIFDILKDRVE  221 (394)
T ss_pred             cCCCCHHHHHHHHHHHHH
Confidence            999999998888776554

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.98  E-value=4.6e-05  Score=58.60  Aligned_cols=72  Identities=22%  Similarity=0.178  Sum_probs=54.8

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      ...|++|||+|.+.              ....+.||..++.  ....+++|++|+.++.|.+++++  |+ ..+.|..++
T Consensus       121 ~~KV~IIDEah~Ls--------------~~A~NALLKtLEE--Pp~~viFILaTte~~kI~~TI~S--RC-q~~~f~~ls  181 (484)
T PRK14956        121 KYKVYIIDEVHMLT--------------DQSFNALLKTLEE--PPAHIVFILATTEFHKIPETILS--RC-QDFIFKKVP  181 (484)
T ss_pred             CCEEEEEechhhcC--------------HHHHHHHHHHhhc--CCCceEEEeecCChhhccHHHHh--hh-heeeecCCC
Confidence            45699999999882              2356778888876  45788999999999999999999  98 457887777


Q ss_pred             HHHHHHHHHHH
Q psy13774         94 EIWLILSDKFL  104 (110)
Q Consensus        94 ~~~R~~~~~~~  104 (110)
                      .++-..+++..
T Consensus       182 ~~~i~~~L~~i  192 (484)
T PRK14956        182 LSVLQDYSEKL  192 (484)
T ss_pred             HHHHHHHHHHH
Confidence            66544444443

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.96  E-value=2.8e-05  Score=62.62  Aligned_cols=93  Identities=24%  Similarity=0.263  Sum_probs=68.6

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC-----CCCcc
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD-----IIDPA   76 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~-----~ld~a   76 (110)
                      |++.+.+..++..+.|+||||++.+.+.....++  ......++.-.|       ....+-+||+|..-+     .=|+|
T Consensus       250 Rlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~--a~DAaNiLKPaL-------ARGeL~~IGATT~~EYRk~iEKD~A  320 (786)
T COG0542         250 RLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGG--AMDAANLLKPAL-------ARGELRCIGATTLDEYRKYIEKDAA  320 (786)
T ss_pred             HHHHHHHHHhcCCCeEEEEechhhhcCCCccccc--ccchhhhhHHHH-------hcCCeEEEEeccHHHHHHHhhhchH
Confidence            5777888888888999999999999977654332  113334444333       345667889888654     45899


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      |-|  || ..|.+.-|+.++=..|++-+..
T Consensus       321 L~R--RF-Q~V~V~EPs~e~ti~ILrGlk~  347 (786)
T COG0542         321 LER--RF-QKVLVDEPSVEDTIAILRGLKE  347 (786)
T ss_pred             HHh--cC-ceeeCCCCCHHHHHHHHHHHHH
Confidence            999  99 5699999999998888876543

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.95  E-value=1.8e-05  Score=62.81  Aligned_cols=71  Identities=18%  Similarity=0.217  Sum_probs=57.3

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      ..|++|||+|.|.              ....+.||+.|+.  ...++++|.+||.++.|.+.+++  |+ ..+.|..++.
T Consensus       125 ~KViIIDEah~Ls--------------~~AaNALLKTLEE--PP~~v~FILaTtep~kLlpTIrS--RC-q~f~f~~ls~  185 (700)
T PRK12323        125 FKVYMIDEVHMLT--------------NHAFNAMLKTLEE--PPEHVKFILATTDPQKIPVTVLS--RC-LQFNLKQMPP  185 (700)
T ss_pred             ceEEEEEChHhcC--------------HHHHHHHHHhhcc--CCCCceEEEEeCChHhhhhHHHH--HH-HhcccCCCCh
Confidence            4699999999882              2356778888876  45688999999999999999999  98 7799999988


Q ss_pred             HHHHHHHHHH
Q psy13774         95 IWLILSDKFL  104 (110)
Q Consensus        95 ~~R~~~~~~~  104 (110)
                      ++-..+++..
T Consensus       186 eei~~~L~~I  195 (700)
T PRK12323        186 GHIVSHLDAI  195 (700)
T ss_pred             HHHHHHHHHH
Confidence            8766655543

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.94  E-value=4.8e-05  Score=55.95  Aligned_cols=70  Identities=14%  Similarity=0.247  Sum_probs=56.8

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      ..-|++||++|.+.              ....+.||+.+++  ...++++|.+|+.++.+.|++++  |+. .+.|++|+
T Consensus       106 ~~kv~iI~~a~~m~--------------~~aaNaLLK~LEE--Pp~~~~fiL~t~~~~~ll~TI~S--Rc~-~~~~~~~~  166 (328)
T PRK05707        106 GRKVVLIEPAEAMN--------------RNAANALLKSLEE--PSGDTVLLLISHQPSRLLPTIKS--RCQ-QQACPLPS  166 (328)
T ss_pred             CCeEEEECChhhCC--------------HHHHHHHHHHHhC--CCCCeEEEEEECChhhCcHHHHh--hce-eeeCCCcC
Confidence            34688999999772              3466788888887  45788999999999999999999  984 49999999


Q ss_pred             HHHHHHHHH
Q psy13774         94 EIWLILSDK  102 (110)
Q Consensus        94 ~~~R~~~~~  102 (110)
                      .++-..++.
T Consensus       167 ~~~~~~~L~  175 (328)
T PRK05707        167 NEESLQWLQ  175 (328)
T ss_pred             HHHHHHHHH
Confidence            887665554

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.94  E-value=1.3e-05  Score=60.99  Aligned_cols=79  Identities=14%  Similarity=0.190  Sum_probs=55.6

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCC---CCccccCCCccc--eEEE
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDI---IDPAILRPGRLD--QLIY   88 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~---ld~al~r~grfd--~~i~   88 (110)
                      .+.+|+|||+|.+..++.            ...+|...++.+...++.++|+++..|..   +++.+.+  ||.  ..++
T Consensus       211 ~~dlLiiDDi~~l~~~~~------------~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~S--Rl~~gl~v~  276 (450)
T PRK00149        211 SVDVLLIDDIQFLAGKER------------TQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRS--RFEWGLTVD  276 (450)
T ss_pred             cCCEEEEehhhhhcCCHH------------HHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHh--HhcCCeeEE
Confidence            578999999998843221            12244454554434445566766666655   7789998  996  5899


Q ss_pred             ecCCCHHHHHHHHHHHhh
Q psy13774         89 IPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        89 ~~~P~~~~R~~~~~~~~~  106 (110)
                      +.+|+.++|..+++...+
T Consensus       277 i~~pd~~~r~~il~~~~~  294 (450)
T PRK00149        277 IEPPDLETRIAILKKKAE  294 (450)
T ss_pred             ecCCCHHHHHHHHHHHHH
Confidence            999999999998887654

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.92  E-value=9.3e-05  Score=56.92  Aligned_cols=72  Identities=19%  Similarity=0.246  Sum_probs=55.3

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      ..||+|||+|.+.              ....+.|+..++..  ...+++|++|+.+..+++++++  |+ ..+.+.+|+.
T Consensus       118 ~kVvIIDE~h~Lt--------------~~a~~~LLk~LE~p--~~~vv~Ilattn~~kl~~~L~S--R~-~vv~f~~l~~  178 (472)
T PRK14962        118 YKVYIIDEVHMLT--------------KEAFNALLKTLEEP--PSHVVFVLATTNLEKVPPTIIS--RC-QVIEFRNISD  178 (472)
T ss_pred             eEEEEEEChHHhH--------------HHHHHHHHHHHHhC--CCcEEEEEEeCChHhhhHHHhc--Cc-EEEEECCccH
Confidence            4699999999883              12345677777763  4567888888888999999999  88 5799999999


Q ss_pred             HHHHHHHHHHh
Q psy13774         95 IWLILSDKFLY  105 (110)
Q Consensus        95 ~~R~~~~~~~~  105 (110)
                      ++...+++...
T Consensus       179 ~el~~~L~~i~  189 (472)
T PRK14962        179 ELIIKRLQEVA  189 (472)
T ss_pred             HHHHHHHHHHH
Confidence            88776666544

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=97.92  E-value=5.2e-05  Score=55.49  Aligned_cols=85  Identities=21%  Similarity=0.181  Sum_probs=61.3

Q ss_pred             HHHHHHHHHhc----CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCcccc
Q psy13774          3 IATGASMARAA----APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAIL   78 (110)
Q Consensus         3 l~~~F~~A~~~----~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~   78 (110)
                      ++++++.+...    ...||+|||+|.+.              ....+.++..++.  ....+++|.+|++++.+.++++
T Consensus       102 ~~~l~~~~~~~p~~~~~~vviidea~~l~--------------~~~~~~Ll~~le~--~~~~~~lIl~~~~~~~l~~~l~  165 (355)
T TIGR02397       102 IREILDNVKYAPSSGKYKVYIIDEVHMLS--------------KSAFNALLKTLEE--PPEHVVFILATTEPHKIPATIL  165 (355)
T ss_pred             HHHHHHHHhcCcccCCceEEEEeChhhcC--------------HHHHHHHHHHHhC--CccceeEEEEeCCHHHHHHHHH
Confidence            44566655432    12599999999772              2245667777766  3456778888899999999999


Q ss_pred             CCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      +  |+ ..+++++|+.++...+++...+
T Consensus       166 s--r~-~~~~~~~~~~~~l~~~l~~~~~  190 (355)
T TIGR02397       166 S--RC-QRFDFKRIPLEDIVERLKKILD  190 (355)
T ss_pred             h--he-eEEEcCCCCHHHHHHHHHHHHH
Confidence            8  87 5789999999988877766443

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.

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=97.89  E-value=7.8e-05  Score=56.98  Aligned_cols=70  Identities=29%  Similarity=0.428  Sum_probs=47.8

Q ss_pred             HHHHHHhc--CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhh--------------------cCCCCCCEEE
Q psy13774          6 GASMARAA--APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMD--------------------GMGAKKNVFI   63 (110)
Q Consensus         6 ~F~~A~~~--~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld--------------------~~~~~~~v~v   63 (110)
                      +...|+..  .|++++|||++.--.+             ++..++++.++                    .+....++.+
T Consensus       262 ~~~~A~~~p~~~~vliIDEINRani~-------------kiFGel~~lLE~~~rg~~~~v~l~y~e~d~e~f~iP~Nl~I  328 (459)
T PRK11331        262 FCQQAKEQPEKKYVFIIDEINRANLS-------------KVFGEVMMLMEHDKRGENWSVPLTYSENDEERFYVPENVYI  328 (459)
T ss_pred             HHHHHHhcccCCcEEEEehhhccCHH-------------HhhhhhhhhccccccccccceeeeccccccccccCCCCeEE
Confidence            44566653  5899999999964322             23333333222                    2344578999


Q ss_pred             EEecCCCC----CCCccccCCCccceEEEecC
Q psy13774         64 IGATNRPD----IIDPAILRPGRLDQLIYIPL   91 (110)
Q Consensus        64 i~ttn~~~----~ld~al~r~grfd~~i~~~~   91 (110)
                      |||+|..+    .+|.|++|  ||.. |++.+
T Consensus       329 IgTMNt~Drs~~~lD~AlrR--RF~f-i~i~p  357 (459)
T PRK11331        329 IGLMNTADRSLAVVDYALRR--RFSF-IDIEP  357 (459)
T ss_pred             EEecCccccchhhccHHHHh--hhhe-EEecC
Confidence            99999998    89999999  9954 66654

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.87  E-value=5.8e-05  Score=61.88  Aligned_cols=89  Identities=13%  Similarity=0.122  Sum_probs=61.2

Q ss_pred             HHHHHHHHH--hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCC---CCCCCccc
Q psy13774          3 IATGASMAR--AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR---PDIIDPAI   77 (110)
Q Consensus         3 l~~~F~~A~--~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~---~~~ld~al   77 (110)
                      +..+|....  ....+||+|||||.|..+.           ..++-.|..+...  ...++++||.+|.   ++.++|.+
T Consensus       856 LerLF~~L~k~~r~v~IIILDEID~L~kK~-----------QDVLYnLFR~~~~--s~SKLiLIGISNdlDLperLdPRL  922 (1164)
T PTZ00112        856 LDRLFNQNKKDNRNVSILIIDEIDYLITKT-----------QKVLFTLFDWPTK--INSKLVLIAISNTMDLPERLIPRC  922 (1164)
T ss_pred             HHHHHhhhhcccccceEEEeehHhhhCccH-----------HHHHHHHHHHhhc--cCCeEEEEEecCchhcchhhhhhh
Confidence            345565542  2335799999999996421           2344445544332  3468999999996   56788888


Q ss_pred             cCCCccce-EEEecCCCHHHHHHHHHHHhh
Q psy13774         78 LRPGRLDQ-LIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        78 ~r~grfd~-~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      .+  ||.. .|.|++++.++...|++.-+.
T Consensus       923 RS--RLg~eeIvF~PYTaEQL~dILk~RAe  950 (1164)
T PTZ00112        923 RS--RLAFGRLVFSPYKGDEIEKIIKERLE  950 (1164)
T ss_pred             hh--ccccccccCCCCCHHHHHHHHHHHHH
Confidence            88  7654 488899999999988876543

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.87  E-value=0.00012  Score=54.47  Aligned_cols=73  Identities=19%  Similarity=0.222  Sum_probs=56.0

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      ..|++|||+|.+.              ....+.|+..++.  ....+.+|.+|+.++.+.+++++  |+ ..+++++|+.
T Consensus       120 ~kviIIDEa~~l~--------------~~a~naLLk~lEe--~~~~~~fIl~t~~~~~l~~tI~S--Rc-~~~~~~~l~~  180 (363)
T PRK14961        120 FKVYLIDEVHMLS--------------RHSFNALLKTLEE--PPQHIKFILATTDVEKIPKTILS--RC-LQFKLKIISE  180 (363)
T ss_pred             ceEEEEEChhhcC--------------HHHHHHHHHHHhc--CCCCeEEEEEcCChHhhhHHHHh--hc-eEEeCCCCCH
Confidence            3599999999772              2244567877776  34567777788889999999998  87 6799999999


Q ss_pred             HHHHHHHHHHhh
Q psy13774         95 IWLILSDKFLYK  106 (110)
Q Consensus        95 ~~R~~~~~~~~~  106 (110)
                      ++...+++...+
T Consensus       181 ~el~~~L~~~~~  192 (363)
T PRK14961        181 EKIFNFLKYILI  192 (363)
T ss_pred             HHHHHHHHHHHH
Confidence            998877766443

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=97.86  E-value=9.3e-05  Score=59.74  Aligned_cols=72  Identities=18%  Similarity=0.207  Sum_probs=56.5

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      ..|++|||+|.|.              ....+.||+.|++  ...++.+|.+||++..|.+.+++  |+ ..+.|..++.
T Consensus       120 ~KVIIIDEah~LT--------------~~A~NALLKtLEE--PP~~v~FILaTtd~~KIp~TIrS--RC-q~f~Fk~Ls~  180 (830)
T PRK07003        120 FKVYMIDEVHMLT--------------NHAFNAMLKTLEE--PPPHVKFILATTDPQKIPVTVLS--RC-LQFNLKQMPA  180 (830)
T ss_pred             ceEEEEeChhhCC--------------HHHHHHHHHHHHh--cCCCeEEEEEECChhhccchhhh--he-EEEecCCcCH
Confidence            4699999999882              2346678888876  35688999999999999999999  98 6788988887


Q ss_pred             HHHHHHHHHHh
Q psy13774         95 IWLILSDKFLY  105 (110)
Q Consensus        95 ~~R~~~~~~~~  105 (110)
                      ++-..+++..+
T Consensus       181 eeIv~~L~~Il  191 (830)
T PRK07003        181 GHIVSHLERIL  191 (830)
T ss_pred             HHHHHHHHHHH
Confidence            77665555443

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.85  E-value=7.8e-05  Score=58.05  Aligned_cols=43  Identities=21%  Similarity=0.099  Sum_probs=35.6

Q ss_pred             EEEEEecCCCCCCCccccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         61 VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        61 v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      .++.+||+.|+.++|++++  |+. .|++++++.++...+++..++
T Consensus       235 rlI~ATt~~p~~L~paLrs--R~~-~I~f~pL~~eei~~Il~~~a~  277 (531)
T TIGR02902       235 RLIGATTRNPEEIPPALRS--RCV-EIFFRPLLDEEIKEIAKNAAE  277 (531)
T ss_pred             EEEEEecCCcccCChHHhh--hhh-eeeCCCCCHHHHHHHHHHHHH
Confidence            4566778899999999999  984 688988888888888887664

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.

>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=97.83  E-value=0.00012  Score=45.83  Aligned_cols=67  Identities=43%  Similarity=0.661  Sum_probs=46.7

Q ss_pred             HHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC----CCCEEEEEecCCCC--CCCccccCCC
Q psy13774          8 SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA----KKNVFIIGATNRPD--IIDPAILRPG   81 (110)
Q Consensus         8 ~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~----~~~v~vi~ttn~~~--~ld~al~r~g   81 (110)
                      ..+....+.+|++||++.+.              ......++..+.....    ..++.+|++||...  .+++.+..  
T Consensus        78 ~~~~~~~~~~lilDe~~~~~--------------~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~~~~~~~~~~--  141 (151)
T cd00009          78 ELAEKAKPGVLFIDEIDSLS--------------RGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYD--  141 (151)
T ss_pred             HhhccCCCeEEEEeChhhhh--------------HHHHHHHHHHHHhcCceeccCCCeEEEEecCccccCCcChhHHh--
Confidence            44555678999999999771              1122344444444432    46788899999887  78888888  


Q ss_pred             ccceEEEec
Q psy13774         82 RLDQLIYIP   90 (110)
Q Consensus        82 rfd~~i~~~   90 (110)
                      ||+..++++
T Consensus       142 r~~~~i~~~  150 (151)
T cd00009         142 RLDIRIVIP  150 (151)
T ss_pred             hhccEeecC
Confidence            999888876

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.

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.83  E-value=0.00015  Score=54.69  Aligned_cols=83  Identities=23%  Similarity=0.279  Sum_probs=56.2

Q ss_pred             HHHHHHHHHh----cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecC-C-CCCCCcc
Q psy13774          3 IATGASMARA----AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATN-R-PDIIDPA   76 (110)
Q Consensus         3 l~~~F~~A~~----~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn-~-~~~ld~a   76 (110)
                      ++.+++.+..    ....+|||||+|.+..              .....|+..++    ...+++|++|+ . ...++++
T Consensus        77 ir~ii~~~~~~~~~g~~~vL~IDEi~~l~~--------------~~q~~LL~~le----~~~iilI~att~n~~~~l~~a  138 (413)
T PRK13342         77 LREVIEEARQRRSAGRRTILFIDEIHRFNK--------------AQQDALLPHVE----DGTITLIGATTENPSFEVNPA  138 (413)
T ss_pred             HHHHHHHHHHhhhcCCceEEEEechhhhCH--------------HHHHHHHHHhh----cCcEEEEEeCCCChhhhccHH
Confidence            4556666542    2568999999997731              12234555554    24567776653 3 4589999


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      +++  |+ ..+.+++|+.++...+++..+.
T Consensus       139 L~S--R~-~~~~~~~ls~e~i~~lL~~~l~  165 (413)
T PRK13342        139 LLS--RA-QVFELKPLSEEDIEQLLKRALE  165 (413)
T ss_pred             Hhc--cc-eeeEeCCCCHHHHHHHHHHHHH
Confidence            999  98 7899999999888777766543

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.78  E-value=4.1e-05  Score=58.32  Aligned_cols=80  Identities=14%  Similarity=0.246  Sum_probs=54.1

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCC---CCccccCCCccc--eEE
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDI---IDPAILRPGRLD--QLI   87 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~---ld~al~r~grfd--~~i   87 (110)
                      ..|.+|+|||++.+..+..            .-.++...++.+....+.+++++.+.|..   +++.+.+  ||.  ..+
T Consensus       193 ~~~dvLlIDDi~~l~~~~~------------~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~S--R~~~gl~v  258 (440)
T PRK14088        193 KKVDVLLIDDVQFLIGKTG------------VQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVS--RFQMGLVA  258 (440)
T ss_pred             hcCCEEEEechhhhcCcHH------------HHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhh--HHhcCceE
Confidence            3689999999998753221            11234444444434445566666677765   5577888  884  578


Q ss_pred             EecCCCHHHHHHHHHHHhh
Q psy13774         88 YIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        88 ~~~~P~~~~R~~~~~~~~~  106 (110)
                      .+.+||.+.|..|++...+
T Consensus       259 ~i~~pd~e~r~~IL~~~~~  277 (440)
T PRK14088        259 KLEPPDEETRKKIARKMLE  277 (440)
T ss_pred             eeCCCCHHHHHHHHHHHHH
Confidence            8999999999998877654

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.76  E-value=0.00021  Score=56.05  Aligned_cols=84  Identities=20%  Similarity=0.213  Sum_probs=60.6

Q ss_pred             HHHHHHHHHh----cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCcccc
Q psy13774          3 IATGASMARA----AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAIL   78 (110)
Q Consensus         3 l~~~F~~A~~----~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~   78 (110)
                      ++++...+..    ...-|++|||+|.+.              ....+.|+..++.  ....+++|.+|+.++.++++++
T Consensus       104 ir~i~~~v~~~p~~~~~kViIIDE~~~Lt--------------~~a~naLLKtLEe--pp~~~ifIlatt~~~ki~~tI~  167 (559)
T PRK05563        104 IRDIRDKVKYAPSEAKYKVYIIDEVHMLS--------------TGAFNALLKTLEE--PPAHVIFILATTEPHKIPATIL  167 (559)
T ss_pred             HHHHHHHHhhCcccCCeEEEEEECcccCC--------------HHHHHHHHHHhcC--CCCCeEEEEEeCChhhCcHHHH
Confidence            4455555442    224599999999772              2356678888876  3557778888888999999999


Q ss_pred             CCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      +  |+. .+.|..|+.++-..+++...
T Consensus       168 S--Rc~-~~~f~~~~~~ei~~~L~~i~  191 (559)
T PRK05563        168 S--RCQ-RFDFKRISVEDIVERLKYIL  191 (559)
T ss_pred             h--Hhe-EEecCCCCHHHHHHHHHHHH
Confidence            8  884 68899999887766666544

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=97.74  E-value=0.00018  Score=53.36  Aligned_cols=71  Identities=18%  Similarity=0.169  Sum_probs=55.3

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      ..-||+|||+|.+-              ....+.||+.++.  ...+.++|..|+.++.+.|.+++  |+ ..+.+++|+
T Consensus       141 ~~rVviIDeAd~l~--------------~~aanaLLk~LEE--pp~~~~fiLit~~~~~llptIrS--Rc-~~i~l~pl~  201 (351)
T PRK09112        141 NWRIVIIDPADDMN--------------RNAANAILKTLEE--PPARALFILISHSSGRLLPTIRS--RC-QPISLKPLD  201 (351)
T ss_pred             CceEEEEEchhhcC--------------HHHHHHHHHHHhc--CCCCceEEEEECChhhccHHHHh--hc-cEEEecCCC
Confidence            45699999999882              2344568888877  34566777778889999999999  88 689999999


Q ss_pred             HHHHHHHHHH
Q psy13774         94 EIWLILSDKF  103 (110)
Q Consensus        94 ~~~R~~~~~~  103 (110)
                      .++=..+++.
T Consensus       202 ~~~~~~~L~~  211 (351)
T PRK09112        202 DDELKKALSH  211 (351)
T ss_pred             HHHHHHHHHH
Confidence            8887766654

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=97.73  E-value=0.00028  Score=54.77  Aligned_cols=85  Identities=16%  Similarity=0.157  Sum_probs=62.4

Q ss_pred             HHHHHHHHHhc----CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCcccc
Q psy13774          3 IATGASMARAA----APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAIL   78 (110)
Q Consensus         3 l~~~F~~A~~~----~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~   78 (110)
                      ++.+.+.|...    ...|++|||+|.+.              ....+.|+..++.  ....+++|.+|+.++.++++++
T Consensus       113 Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls--------------~~a~naLLk~LEe--pp~~~vfI~aTte~~kI~~tI~  176 (507)
T PRK06645        113 IRRIIESAEYKPLQGKHKIFIIDEVHMLS--------------KGAFNALLKTLEE--PPPHIIFIFATTEVQKIPATII  176 (507)
T ss_pred             HHHHHHHHHhccccCCcEEEEEEChhhcC--------------HHHHHHHHHHHhh--cCCCEEEEEEeCChHHhhHHHH
Confidence            45555555422    24599999999772              2345677777775  4567788888899999999999


Q ss_pred             CCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      +  |+ ..+++..++.++...+++...+
T Consensus       177 S--Rc-~~~ef~~ls~~el~~~L~~i~~  201 (507)
T PRK06645        177 S--RC-QRYDLRRLSFEEIFKLLEYITK  201 (507)
T ss_pred             h--cc-eEEEccCCCHHHHHHHHHHHHH
Confidence            8  87 5799999999888777665543

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.73  E-value=0.00024  Score=52.18  Aligned_cols=68  Identities=18%  Similarity=0.200  Sum_probs=55.4

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCHH
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEI   95 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~   95 (110)
                      -|++||++|.+.              ....+.||+.+++  ...++++|.+|+.++.|-|.+++  |+ ..+.|++|+.+
T Consensus       115 kV~iI~~ae~m~--------------~~AaNaLLKtLEE--Pp~~~~fiL~~~~~~~lLpTIrS--RC-q~i~~~~~~~~  175 (319)
T PRK08769        115 QVVIVDPADAIN--------------RAACNALLKTLEE--PSPGRYLWLISAQPARLPATIRS--RC-QRLEFKLPPAH  175 (319)
T ss_pred             EEEEeccHhhhC--------------HHHHHHHHHHhhC--CCCCCeEEEEECChhhCchHHHh--hh-eEeeCCCcCHH
Confidence            599999999882              3456788888887  45688899999999999999999  98 56889999887


Q ss_pred             HHHHHHH
Q psy13774         96 WLILSDK  102 (110)
Q Consensus        96 ~R~~~~~  102 (110)
                      +-..++.
T Consensus       176 ~~~~~L~  182 (319)
T PRK08769        176 EALAWLL  182 (319)
T ss_pred             HHHHHHH
Confidence            6655554

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

Probab=97.72  E-value=0.00018  Score=57.43  Aligned_cols=93  Identities=25%  Similarity=0.291  Sum_probs=61.9

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHH------HhhhcC----CCCCCEEEEEecCCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQIL------TEMDGM----GAKKNVFIIGATNRPD   71 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll------~~ld~~----~~~~~v~vi~ttn~~~   71 (110)
                      ||=+..+.|....| ++++||||.+..+-.+       ...+.+-+.|      +..|.+    ..-.+|++|+|+|..+
T Consensus       406 rIiQ~mkka~~~NP-v~LLDEIDKm~ss~rG-------DPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTANsl~  477 (782)
T COG0466         406 KIIQGMKKAGVKNP-VFLLDEIDKMGSSFRG-------DPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATANSLD  477 (782)
T ss_pred             HHHHHHHHhCCcCC-eEEeechhhccCCCCC-------ChHHHHHhhcCHhhcCchhhccccCccchhheEEEeecCccc
Confidence            34566778888888 7778999999654322       1222222222      112222    1235899999999999


Q ss_pred             CCCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         72 IIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        72 ~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      .||..|+.  |. ..|.++==.+++...|.+-++
T Consensus       478 tIP~PLlD--RM-EiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         478 TIPAPLLD--RM-EVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             cCChHHhc--ce-eeeeecCCChHHHHHHHHHhc
Confidence            99999998  88 458887777777777755544

>PRK04132 replication factor C small subunit; Provisional

Probab=97.72  E-value=0.00036  Score=57.03  Aligned_cols=70  Identities=17%  Similarity=0.206  Sum_probs=54.3

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCHH
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEI   95 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~   95 (110)
                      .||+|||+|.+.              ....+.|+..|+..  ..++.+|++||.+..+.+++++  |+ ..+.|++|+.+
T Consensus       632 KVvIIDEaD~Lt--------------~~AQnALLk~lEep--~~~~~FILi~N~~~kIi~tIrS--RC-~~i~F~~ls~~  692 (846)
T PRK04132        632 KIIFLDEADALT--------------QDAQQALRRTMEMF--SSNVRFILSCNYSSKIIEPIQS--RC-AIFRFRPLRDE  692 (846)
T ss_pred             EEEEEECcccCC--------------HHHHHHHHHHhhCC--CCCeEEEEEeCChhhCchHHhh--hc-eEEeCCCCCHH
Confidence            599999999883              22455678888763  4678899999999999999999  87 67999999877


Q ss_pred             HHHHHHHHH
Q psy13774         96 WLILSDKFL  104 (110)
Q Consensus        96 ~R~~~~~~~  104 (110)
                      +-...++..
T Consensus       693 ~i~~~L~~I  701 (846)
T PRK04132        693 DIAKRLRYI  701 (846)
T ss_pred             HHHHHHHHH
Confidence            655444433

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=97.71  E-value=0.0002  Score=58.40  Aligned_cols=74  Identities=16%  Similarity=0.092  Sum_probs=56.5

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCC
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLP   92 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P   92 (110)
                      ....|++|||+|.|.              ....+.||+.|+..  ...+++|++|+.++.|-++|++  |+ ..+.|..+
T Consensus       119 ~~~KV~IIDEad~lt--------------~~a~NaLLK~LEEp--P~~~~fIl~tt~~~kLl~TIrS--Rc-~~v~F~~l  179 (824)
T PRK07764        119 SRYKIFIIDEAHMVT--------------PQGFNALLKIVEEP--PEHLKFIFATTEPDKVIGTIRS--RT-HHYPFRLV  179 (824)
T ss_pred             CCceEEEEechhhcC--------------HHHHHHHHHHHhCC--CCCeEEEEEeCChhhhhHHHHh--he-eEEEeeCC
Confidence            345699999999883              23566788888873  5677888888999999999999  87 67899888


Q ss_pred             CHHHHHHHHHHHh
Q psy13774         93 DEIWLILSDKFLY  105 (110)
Q Consensus        93 ~~~~R~~~~~~~~  105 (110)
                      +.++-..+++..+
T Consensus       180 ~~~~l~~~L~~il  192 (824)
T PRK07764        180 PPEVMRGYLERIC  192 (824)
T ss_pred             CHHHHHHHHHHHH
Confidence            8777665555443

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=97.71  E-value=0.0003  Score=56.02  Aligned_cols=72  Identities=18%  Similarity=0.205  Sum_probs=57.5

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      .-|++|||+|.|.              ....+.||+.|..  ....+.+|.+|+.+..|.+.+++  |+ ..++|..++.
T Consensus       120 ~KV~IIDEah~Ls--------------~~a~NALLKtLEE--Pp~~v~FIL~Tt~~~kLl~TI~S--RC-~~~~f~~Ls~  180 (647)
T PRK07994        120 FKVYLIDEVHMLS--------------RHSFNALLKTLEE--PPEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDV  180 (647)
T ss_pred             CEEEEEechHhCC--------------HHHHHHHHHHHHc--CCCCeEEEEecCCccccchHHHh--hh-eEeeCCCCCH
Confidence            4599999999772              3456788888887  45678888889999999999999  96 7899999988


Q ss_pred             HHHHHHHHHHh
Q psy13774         95 IWLILSDKFLY  105 (110)
Q Consensus        95 ~~R~~~~~~~~  105 (110)
                      ++-..+++..+
T Consensus       181 ~ei~~~L~~il  191 (647)
T PRK07994        181 EQIRQQLEHIL  191 (647)
T ss_pred             HHHHHHHHHHH
Confidence            87665555443

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.71  E-value=0.00013  Score=53.88  Aligned_cols=70  Identities=17%  Similarity=0.295  Sum_probs=57.9

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      .--|++||++|.+.              ....+.||+.+++  ...++++|..|++++.|.|.+++  |.- .+.+++|+
T Consensus       108 ~~kV~iI~~ae~m~--------------~~AaNaLLKtLEE--Pp~~t~fiL~t~~~~~lLpTIrS--RCq-~~~~~~~~  168 (334)
T PRK07993        108 GAKVVWLPDAALLT--------------DAAANALLKTLEE--PPENTWFFLACREPARLLATLRS--RCR-LHYLAPPP  168 (334)
T ss_pred             CceEEEEcchHhhC--------------HHHHHHHHHHhcC--CCCCeEEEEEECChhhChHHHHh--ccc-cccCCCCC
Confidence            34599999999772              3466789999988  67799999999999999999999  985 58999999


Q ss_pred             HHHHHHHHH
Q psy13774         94 EIWLILSDK  102 (110)
Q Consensus        94 ~~~R~~~~~  102 (110)
                      .++-..++.
T Consensus       169 ~~~~~~~L~  177 (334)
T PRK07993        169 EQYALTWLS  177 (334)
T ss_pred             HHHHHHHHH
Confidence            887766654

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.70  E-value=0.0002  Score=52.74  Aligned_cols=69  Identities=16%  Similarity=0.265  Sum_probs=56.5

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      --|++||++|.+.              ....+.||+.+++  ...++++|.+|+.++.|.|++++  |. ..+.+++|+.
T Consensus       108 ~KV~iI~~a~~m~--------------~~AaNaLLKtLEE--Pp~~~~fiL~t~~~~~llpTI~S--RC-~~~~~~~~~~  168 (325)
T PRK06871        108 NKVVYIQGAERLT--------------EAAANALLKTLEE--PRPNTYFLLQADLSAALLPTIYS--RC-QTWLIHPPEE  168 (325)
T ss_pred             ceEEEEechhhhC--------------HHHHHHHHHHhcC--CCCCeEEEEEECChHhCchHHHh--hc-eEEeCCCCCH
Confidence            3599999999772              3456788999988  67789999999999999999999  87 5688999988


Q ss_pred             HHHHHHHH
Q psy13774         95 IWLILSDK  102 (110)
Q Consensus        95 ~~R~~~~~  102 (110)
                      ++-..++.
T Consensus       169 ~~~~~~L~  176 (325)
T PRK06871        169 QQALDWLQ  176 (325)
T ss_pred             HHHHHHHH
Confidence            77665554

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.68  E-value=0.00023  Score=52.28  Aligned_cols=69  Identities=16%  Similarity=0.224  Sum_probs=57.4

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      --|++||++|.+.              ...-+.||+.+++  ...++++|..|++++.+-|.+++  |. ..+.+++|+.
T Consensus       109 ~kV~iI~~ae~m~--------------~~AaNaLLKtLEE--Pp~~t~fiL~t~~~~~lLpTI~S--RC-q~~~~~~~~~  169 (319)
T PRK06090        109 YRLFVIEPADAMN--------------ESASNALLKTLEE--PAPNCLFLLVTHNQKRLLPTIVS--RC-QQWVVTPPST  169 (319)
T ss_pred             ceEEEecchhhhC--------------HHHHHHHHHHhcC--CCCCeEEEEEECChhhChHHHHh--cc-eeEeCCCCCH
Confidence            3699999999772              3456789999988  56789999999999999999999  98 5789999998


Q ss_pred             HHHHHHHH
Q psy13774         95 IWLILSDK  102 (110)
Q Consensus        95 ~~R~~~~~  102 (110)
                      ++-..++.
T Consensus       170 ~~~~~~L~  177 (319)
T PRK06090        170 AQAMQWLK  177 (319)
T ss_pred             HHHHHHHH
Confidence            88766654

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=97.67  E-value=0.00041  Score=52.55  Aligned_cols=89  Identities=19%  Similarity=0.212  Sum_probs=57.2

Q ss_pred             hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC-----------CCCCEEEEEecCCCC---------
Q psy13774         12 AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG-----------AKKNVFIIGATNRPD---------   71 (110)
Q Consensus        12 ~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~-----------~~~~v~vi~ttn~~~---------   71 (110)
                      ...++||||||+|.+..++.+.....+.....+.+.||..|++-.           .....++|.|+|-..         
T Consensus       171 ~a~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~~LL~~Leg~~~~v~~~gg~~~~~~~~~~i~t~nilfi~~Gaf~g~  250 (412)
T PRK05342        171 KAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASVPPQGGRKHPQQEFIQVDTTNILFICGGAFDGL  250 (412)
T ss_pred             HcCCcEEEEechhhhccccCCCCcCCCcccHHHHHHHHHHHhcCeEEeCCCCCcCcCCCCeEEeccCCceeeecccccCc
Confidence            347899999999999877433222222223457778888887521           012345555555410         


Q ss_pred             -------------------------------------------CCCccccCCCccceEEEecCCCHHHHHHHHH
Q psy13774         72 -------------------------------------------IIDPAILRPGRLDQLIYIPLPDEIWLILSDK  102 (110)
Q Consensus        72 -------------------------------------------~ld~al~r~grfd~~i~~~~P~~~~R~~~~~  102 (110)
                                                                 .+.|+++-  |+|..+.|.+.+.+....|+.
T Consensus       251 ~~~~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~dL~~~gf~PEflg--Rld~iv~f~~L~~~~L~~Il~  322 (412)
T PRK05342        251 EKIIKQRLGKKGIGFGAEVKSKKEKRTEGELLKQVEPEDLIKFGLIPEFIG--RLPVVATLEELDEEALVRILT  322 (412)
T ss_pred             HHHHHHHHhhcccCCccccccccccchhHHHHHhcCHHHHHHHhhhHHHhC--CCCeeeecCCCCHHHHHHHHH
Confidence                                                       03455554  999999999999999887765

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=97.66  E-value=0.00023  Score=53.13  Aligned_cols=73  Identities=14%  Similarity=0.127  Sum_probs=56.6

Q ss_pred             hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecC
Q psy13774         12 AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPL   91 (110)
Q Consensus        12 ~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~   91 (110)
                      ...|-||+|||+|.+-              ....+.|++.+..  ...+.++|.+|+.++.+.|.+++  |+ ..+.+++
T Consensus       139 ~~~~kVviIDead~m~--------------~~aanaLLK~LEe--pp~~~~~IL~t~~~~~llpti~S--Rc-~~i~l~~  199 (365)
T PRK07471        139 EGGWRVVIVDTADEMN--------------ANAANALLKVLEE--PPARSLFLLVSHAPARLLPTIRS--RC-RKLRLRP  199 (365)
T ss_pred             cCCCEEEEEechHhcC--------------HHHHHHHHHHHhc--CCCCeEEEEEECCchhchHHhhc--cc-eEEECCC
Confidence            3567899999999772              3455678888876  34567888899999999999998  87 6799999


Q ss_pred             CCHHHHHHHHHH
Q psy13774         92 PDEIWLILSDKF  103 (110)
Q Consensus        92 P~~~~R~~~~~~  103 (110)
                      |+.++=..++..
T Consensus       200 l~~~~i~~~L~~  211 (365)
T PRK07471        200 LAPEDVIDALAA  211 (365)
T ss_pred             CCHHHHHHHHHH
Confidence            988876665543

>PRK08727 hypothetical protein; Validated

Probab=97.64  E-value=0.00021  Score=50.04  Aligned_cols=77  Identities=21%  Similarity=0.207  Sum_probs=49.8

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCC---CccccCCCcc--ceEEE
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDII---DPAILRPGRL--DQLIY   88 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~l---d~al~r~grf--d~~i~   88 (110)
                      +..+|+|||+|.+..+.         ....   .+...++.......-+++.+...|..+   ++++++  ||  ...+.
T Consensus        93 ~~dlLiIDDi~~l~~~~---------~~~~---~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~S--Rl~~~~~~~  158 (233)
T PRK08727         93 GRSLVALDGLESIAGQR---------EDEV---ALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRS--RLAQCIRIG  158 (233)
T ss_pred             cCCEEEEeCcccccCCh---------HHHH---HHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHH--HHhcCceEE
Confidence            45699999999775322         1112   233334433233333455555566655   799999  87  56789


Q ss_pred             ecCCCHHHHHHHHHHH
Q psy13774         89 IPLPDEIWLILSDKFL  104 (110)
Q Consensus        89 ~~~P~~~~R~~~~~~~  104 (110)
                      +++|+.++|..+++..
T Consensus       159 l~~~~~e~~~~iL~~~  174 (233)
T PRK08727        159 LPVLDDVARAAVLRER  174 (233)
T ss_pred             ecCCCHHHHHHHHHHH
Confidence            9999999999888763

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

Probab=97.63  E-value=0.00033  Score=56.73  Aligned_cols=80  Identities=24%  Similarity=0.292  Sum_probs=57.3

Q ss_pred             HHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC--C-------CCCCEEEEEecCCC----------
Q psy13774         10 ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM--G-------AKKNVFIIGATNRP----------   70 (110)
Q Consensus        10 A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~--~-------~~~~v~vi~ttn~~----------   70 (110)
                      .+.+..|||||||+|.+.              ..+.+.|++.|++-  .       .-.++++|+|||.-          
T Consensus       553 v~~~p~sVlllDEieka~--------------~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN~g~~~~~~~~~g  618 (758)
T PRK11034        553 VIKHPHAVLLLDEIEKAH--------------PDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIG  618 (758)
T ss_pred             HHhCCCcEEEeccHhhhh--------------HHHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCCcCHHHHhhcccC
Confidence            344556999999999773              23566777777631  1       11478899999932          


Q ss_pred             ---------------CCCCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         71 ---------------DIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        71 ---------------~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                                     ..+.|.++.  |+|..|.|++.+.+.-..|....+
T Consensus       619 ~~~~~~~~~~~~~~~~~f~pefl~--Rid~ii~f~~L~~~~l~~I~~~~l  666 (758)
T PRK11034        619 LIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQVVDKFI  666 (758)
T ss_pred             cccchhhHHHHHHHHHhcCHHHHc--cCCEEEEcCCCCHHHHHHHHHHHH
Confidence                           235677887  999999999999988776665544

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=97.63  E-value=0.0003  Score=51.47  Aligned_cols=70  Identities=23%  Similarity=0.331  Sum_probs=50.5

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhc----------CCCCCCEEEEEecC-----CCCCCCccccCC
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDG----------MGAKKNVFIIGATN-----RPDIIDPAILRP   80 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~----------~~~~~~v~vi~ttn-----~~~~ld~al~r~   80 (110)
                      +|+|+|||+..              ...+.+.|+..|++          +.-..+.++++|+|     ....+++|+++ 
T Consensus       114 ~ill~DEInra--------------~p~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~viaT~Np~e~~g~~~l~eA~ld-  178 (329)
T COG0714         114 VILLLDEINRA--------------PPEVQNALLEALEERQVTVPGLTTIRLPPPFIVIATQNPGEYEGTYPLPEALLD-  178 (329)
T ss_pred             eEEEEeccccC--------------CHHHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEEccCccccCCCcCCCHHHHh-
Confidence            59999999943              13344556666654          22346789999999     66788999999 


Q ss_pred             CccceEEEecCCC-HHHHHHHH
Q psy13774         81 GRLDQLIYIPLPD-EIWLILSD  101 (110)
Q Consensus        81 grfd~~i~~~~P~-~~~R~~~~  101 (110)
                       ||-..++++.|+ ..+...+.
T Consensus       179 -Rf~~~~~v~yp~~~~e~~~i~  199 (329)
T COG0714         179 -RFLLRIYVDYPDSEEEERIIL  199 (329)
T ss_pred             -hEEEEEecCCCCchHHHHHHH
Confidence             999999999994 44444443

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.62  E-value=0.00032  Score=43.30  Aligned_cols=81  Identities=26%  Similarity=0.330  Sum_probs=49.8

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCC-CCCCCccccCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR-PDIIDPAILRP   80 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~-~~~ld~al~r~   80 (110)
                      .++..++.|+...|.+|+|||++.+.........        ................+..+|+++|. ....+..+.. 
T Consensus        66 ~~~~~~~~~~~~~~~viiiDei~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~-  136 (148)
T smart00382       66 RLRLALALARKLKPDVLILDEITSLLDAEQEALL--------LLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-  136 (148)
T ss_pred             HHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHH--------HhhhhhHHHHHHHhcCCCEEEEEeCCCccCchhhhhh-
Confidence            3567788898888999999999988644321100        00000001111223456788888887 4555555666 


Q ss_pred             CccceEEEecCC
Q psy13774         81 GRLDQLIYIPLP   92 (110)
Q Consensus        81 grfd~~i~~~~P   92 (110)
                       |++.++.+..+
T Consensus       137 -~~~~~~~~~~~  147 (148)
T smart00382      137 -RFDRRIVLLLI  147 (148)
T ss_pred             -ccceEEEecCC
Confidence             99999988765

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>KOG2004|consensus

Probab=97.61  E-value=0.00031  Score=56.32  Aligned_cols=92  Identities=18%  Similarity=0.257  Sum_probs=56.3

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHH------HhhhcC----CCCCCEEEEEecCCCCC
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQIL------TEMDGM----GAKKNVFIIGATNRPDI   72 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll------~~ld~~----~~~~~v~vi~ttn~~~~   72 (110)
                      |=++.+..+-+.| +++|||+|.+...-   ++    ...+.+-++|      +.+|.+    -.-.+|++|+|.|..+.
T Consensus       495 iIq~LK~v~t~NP-liLiDEvDKlG~g~---qG----DPasALLElLDPEQNanFlDHYLdVp~DLSkVLFicTAN~idt  566 (906)
T KOG2004|consen  495 IIQCLKKVKTENP-LILIDEVDKLGSGH---QG----DPASALLELLDPEQNANFLDHYLDVPVDLSKVLFICTANVIDT  566 (906)
T ss_pred             HHHHHHhhCCCCc-eEEeehhhhhCCCC---CC----ChHHHHHHhcChhhccchhhhccccccchhheEEEEecccccc
Confidence            3445555656666 88899999997211   11    1222222222      122222    12358999999999999


Q ss_pred             CCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         73 IDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        73 ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      |++.|+.  |. ..|+++=-..++...|.+-|+
T Consensus       567 IP~pLlD--RM-EvIelsGYv~eEKv~IA~~yL  596 (906)
T KOG2004|consen  567 IPPPLLD--RM-EVIELSGYVAEEKVKIAERYL  596 (906)
T ss_pred             CChhhhh--hh-heeeccCccHHHHHHHHHHhh
Confidence            9999998  87 346665555556666655443

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

Probab=97.60  E-value=0.00047  Score=55.57  Aligned_cols=83  Identities=25%  Similarity=0.323  Sum_probs=59.0

Q ss_pred             HHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC---------CCCCEEEEEecCCCC-------
Q psy13774          8 SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG---------AKKNVFIIGATNRPD-------   71 (110)
Q Consensus         8 ~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~---------~~~~v~vi~ttn~~~-------   71 (110)
                      +..+.+..+||+|||+|.+.              ..+.+.|++.+++-.         .-.++++|+|||...       
T Consensus       547 ~~~~~~p~~VvllDEieka~--------------~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~Tsn~g~~~~~~~~  612 (731)
T TIGR02639       547 EAVRKHPHCVLLLDEIEKAH--------------PDIYNILLQVMDYATLTDNNGRKADFRNVILIMTSNAGASEMSKPP  612 (731)
T ss_pred             HHHHhCCCeEEEEechhhcC--------------HHHHHHHHHhhccCeeecCCCcccCCCCCEEEECCCcchhhhhhcc
Confidence            34455666999999999662              235566777776421         124688999998742       


Q ss_pred             ------------------CCCccccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         72 ------------------IIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        72 ------------------~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                                        .+.|.++.  |+|..|.|.+.+.++...|++..++
T Consensus       613 ~~f~~~~~~~~~~~~~~~~f~pef~~--Rid~Vi~F~pLs~e~l~~Iv~~~L~  663 (731)
T TIGR02639       613 IGFGSENVESKSDKAIKKLFSPEFRN--RLDAIIHFNPLSEEVLEKIVQKFVD  663 (731)
T ss_pred             CCcchhhhHHHHHHHHHhhcChHHHh--cCCeEEEcCCCCHHHHHHHHHHHHH
Confidence                              25677776  9999999999999998877666543

>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=97.58  E-value=0.00017  Score=50.14  Aligned_cols=79  Identities=15%  Similarity=0.199  Sum_probs=50.9

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCC---CCccccCCCccce--EEE
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDI---IDPAILRPGRLDQ--LIY   88 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~---ld~al~r~grfd~--~i~   88 (110)
                      +..+++|||+|.+..+            ......+...++.+...++.+|+.+...|..   +++.+.+  ||..  .+.
T Consensus        97 ~~DlL~iDDi~~l~~~------------~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~S--Rl~~Gl~~~  162 (219)
T PF00308_consen   97 SADLLIIDDIQFLAGK------------QRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRS--RLSWGLVVE  162 (219)
T ss_dssp             TSSEEEEETGGGGTTH------------HHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHH--HHHCSEEEE
T ss_pred             cCCEEEEecchhhcCc------------hHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhh--hHhhcchhh
Confidence            4579999999988422            2233455555666555666677777677764   5678888  8854  899


Q ss_pred             ecCCCHHHHHHHHHHHhh
Q psy13774         89 IPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        89 ~~~P~~~~R~~~~~~~~~  106 (110)
                      +..|+.+.|..+++...+
T Consensus       163 l~~pd~~~r~~il~~~a~  180 (219)
T PF00308_consen  163 LQPPDDEDRRRILQKKAK  180 (219)
T ss_dssp             E----HHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHH
Confidence            999999999988776553

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.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.58  E-value=0.00078  Score=49.87  Aligned_cols=70  Identities=19%  Similarity=0.138  Sum_probs=51.0

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      +.||+|||+|.+..              ...+.|+..++.  .....++|.+|+.+..+.+++.+  |+ ..++++.|+.
T Consensus       109 ~kiviIDE~~~l~~--------------~~~~~ll~~le~--~~~~~~~Il~~~~~~kl~~~l~s--r~-~~v~~~~~~~  169 (367)
T PRK14970        109 YKIYIIDEVHMLSS--------------AAFNAFLKTLEE--PPAHAIFILATTEKHKIIPTILS--RC-QIFDFKRITI  169 (367)
T ss_pred             cEEEEEeChhhcCH--------------HHHHHHHHHHhC--CCCceEEEEEeCCcccCCHHHHh--cc-eeEecCCccH
Confidence            46999999996631              235667777765  23456677778888999999998  76 4689999998


Q ss_pred             HHHHHHHHH
Q psy13774         95 IWLILSDKF  103 (110)
Q Consensus        95 ~~R~~~~~~  103 (110)
                      ++...++..
T Consensus       170 ~~l~~~l~~  178 (367)
T PRK14970        170 KDIKEHLAG  178 (367)
T ss_pred             HHHHHHHHH
Confidence            887665544

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=97.58  E-value=0.00031  Score=53.21  Aligned_cols=90  Identities=20%  Similarity=0.230  Sum_probs=58.4

Q ss_pred             hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC-----------CCCEEEEEecCCC----------
Q psy13774         12 AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA-----------KKNVFIIGATNRP----------   70 (110)
Q Consensus        12 ~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~-----------~~~v~vi~ttn~~----------   70 (110)
                      ...|+||||||+|.+.+++++...........+.+.||+.|++...           ..+.++|.|+|-.          
T Consensus       179 ~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLeG~~~~v~~~~gr~~~~~~~i~i~TsNilfi~~Gaf~g~  258 (413)
T TIGR00382       179 KAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQGGRKHPYQEFIQIDTSNILFICGGAFVGL  258 (413)
T ss_pred             hcccceEEecccchhchhhccccccccccchhHHHHHHHHhhccceecccCCCccccCCCeEEEEcCCceeeecccccCh
Confidence            3467899999999998865433222111223566677777765321           2356777777751          


Q ss_pred             -----------------C-----------------------CCCccccCCCccceEEEecCCCHHHHHHHHHH
Q psy13774         71 -----------------D-----------------------IIDPAILRPGRLDQLIYIPLPDEIWLILSDKF  103 (110)
Q Consensus        71 -----------------~-----------------------~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~  103 (110)
                                       +                       .+.|+++-  |+|..+.+.+.+.+....|+..
T Consensus       259 ~~i~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~dl~~~g~~PEflg--Rld~Iv~f~pL~~~~L~~Il~~  329 (413)
T TIGR00382       259 EKIIKKRTGKSSIGFGAEVKKKSKEKADLLRQVEPEDLVKFGLIPEFIG--RLPVIATLEKLDEEALIAILTK  329 (413)
T ss_pred             HHHHHHHhhhccccccccccccchhhHHHHHHHHHHHHHHHhhHHHHhC--CCCeEeecCCCCHHHHHHHHHH
Confidence                             0                       13466665  9999999999999988776654

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.

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.56  E-value=0.00061  Score=54.86  Aligned_cols=82  Identities=21%  Similarity=0.223  Sum_probs=60.9

Q ss_pred             HHHHHHHHHh----cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCcccc
Q psy13774          3 IATGASMARA----AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAIL   78 (110)
Q Consensus         3 l~~~F~~A~~----~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~   78 (110)
                      ++++.+.+..    ....|++|||+|.+.              ....+.|+..|+.  ....+++|.+|+.++.|.++++
T Consensus       103 IReLie~~~~~P~~g~~KV~IIDEa~~LT--------------~~A~NALLKtLEE--PP~~tifILaTte~~KLl~TI~  166 (725)
T PRK07133        103 IRELIENVKNLPTQSKYKIYIIDEVHMLS--------------KSAFNALLKTLEE--PPKHVIFILATTEVHKIPLTIL  166 (725)
T ss_pred             HHHHHHHHHhchhcCCCEEEEEEChhhCC--------------HHHHHHHHHHhhc--CCCceEEEEEcCChhhhhHHHH
Confidence            4455544442    234699999999873              2356678888887  4567888888899999999999


Q ss_pred             CCCccceEEEecCCCHHHHHHHHHH
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILSDKF  103 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~~~~  103 (110)
                      +  |+ ..+.|.+|+.++-..+++.
T Consensus       167 S--Rc-q~ieF~~L~~eeI~~~L~~  188 (725)
T PRK07133        167 S--RV-QRFNFRRISEDEIVSRLEF  188 (725)
T ss_pred             h--hc-eeEEccCCCHHHHHHHHHH
Confidence            9  88 4799999988886655554

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.56  E-value=0.00014  Score=55.57  Aligned_cols=79  Identities=11%  Similarity=0.205  Sum_probs=51.4

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC---CCCccccCCCccc--eEEE
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD---IIDPAILRPGRLD--QLIY   88 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~---~ld~al~r~grfd--~~i~   88 (110)
                      .+.+++|||++.+..+.         ...   .+|...++.+....+.++++++..|.   .+++.+++  ||.  ..+.
T Consensus       202 ~~dvLiIDDiq~l~~k~---------~~q---eelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~S--R~~~Gl~~~  267 (445)
T PRK12422        202 NVDALFIEDIEVFSGKG---------ATQ---EEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLIS--RFEWGIAIP  267 (445)
T ss_pred             cCCEEEEcchhhhcCCh---------hhH---HHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHh--hhcCCeEEe
Confidence            56799999999874322         111   12333333332233445555555554   57799999  995  7899


Q ss_pred             ecCCCHHHHHHHHHHHhh
Q psy13774         89 IPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        89 ~~~P~~~~R~~~~~~~~~  106 (110)
                      +.+|+.++|..+++...+
T Consensus       268 l~~pd~e~r~~iL~~k~~  285 (445)
T PRK12422        268 LHPLTKEGLRSFLERKAE  285 (445)
T ss_pred             cCCCCHHHHHHHHHHHHH
Confidence            999999999988776543

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=97.56  E-value=0.00024  Score=54.00  Aligned_cols=84  Identities=19%  Similarity=0.277  Sum_probs=60.3

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC--------CCCCEEEEEec----CCCCCCCccccCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG--------AKKNVFIIGAT----NRPDIIDPAILRPG   81 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~--------~~~~v~vi~tt----n~~~~ld~al~r~g   81 (110)
                      +-.||||||||.++.+.+++..  +.....+-..||..+.|..        ...++++|++-    ..|.++=|.|.-  
T Consensus       249 ~~GIVfiDEiDKIa~~~~~~~~--DvS~eGVQ~~LLki~EG~~v~~k~~~i~T~~ILFI~~GAF~~~kp~DlIPEl~G--  324 (443)
T PRK05201        249 QNGIVFIDEIDKIAARGGSSGP--DVSREGVQRDLLPLVEGSTVSTKYGMVKTDHILFIASGAFHVSKPSDLIPELQG--  324 (443)
T ss_pred             cCCEEEEEcchhhcccCCCCCC--CCCccchhcccccccccceeeecceeEECCceeEEecCCcCCCChhhccHHHhC--
Confidence            4579999999999977543222  2233446667888887731        23578888774    356778888886  


Q ss_pred             ccceEEEecCCCHHHHHHHH
Q psy13774         82 RLDQLIYIPLPDEIWLILSD  101 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~  101 (110)
                      ||...+.+..++.+.=..|+
T Consensus       325 R~Pi~v~L~~L~~~dL~~IL  344 (443)
T PRK05201        325 RFPIRVELDALTEEDFVRIL  344 (443)
T ss_pred             ccceEEECCCCCHHHHHHHh
Confidence            99999999999988865555

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=97.56  E-value=0.0011  Score=48.08  Aligned_cols=72  Identities=15%  Similarity=0.196  Sum_probs=49.2

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      +.+|+|||+|.+..              .....|...++...  ....+|.+|+.+..+.+.+.+  |+ ..+.+.+|+.
T Consensus       126 ~~vlilDe~~~l~~--------------~~~~~L~~~le~~~--~~~~~Il~~~~~~~~~~~L~s--r~-~~v~~~~~~~  186 (337)
T PRK12402        126 YKTILLDNAEALRE--------------DAQQALRRIMEQYS--RTCRFIIATRQPSKLIPPIRS--RC-LPLFFRAPTD  186 (337)
T ss_pred             CcEEEEeCcccCCH--------------HHHHHHHHHHHhcc--CCCeEEEEeCChhhCchhhcC--Cc-eEEEecCCCH
Confidence            46999999997721              12234555566542  223455566677788888888  76 5789999999


Q ss_pred             HHHHHHHHHHh
Q psy13774         95 IWLILSDKFLY  105 (110)
Q Consensus        95 ~~R~~~~~~~~  105 (110)
                      ++...+++...
T Consensus       187 ~~~~~~l~~~~  197 (337)
T PRK12402        187 DELVDVLESIA  197 (337)
T ss_pred             HHHHHHHHHHH
Confidence            88887776644

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.55  E-value=0.00024  Score=56.17  Aligned_cols=78  Identities=9%  Similarity=0.212  Sum_probs=51.6

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCC-C---CCCCccccCCCccc--eEE
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR-P---DIIDPAILRPGRLD--QLI   87 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~-~---~~ld~al~r~grfd--~~i   87 (110)
                      .+.+|+|||++.+..+..         ..   ..|...++.+...++-+|| |+|. |   ..+++.|++  ||.  ..+
T Consensus       377 ~~DLLlIDDIq~l~gke~---------tq---eeLF~l~N~l~e~gk~III-TSd~~P~eL~~l~~rL~S--Rf~~GLvv  441 (617)
T PRK14086        377 EMDILLVDDIQFLEDKES---------TQ---EEFFHTFNTLHNANKQIVL-SSDRPPKQLVTLEDRLRN--RFEWGLIT  441 (617)
T ss_pred             cCCEEEEehhccccCCHH---------HH---HHHHHHHHHHHhcCCCEEE-ecCCChHhhhhccHHHHh--hhhcCceE
Confidence            578999999998853321         11   2333444444333444444 5554 3   367899999  994  567


Q ss_pred             EecCCCHHHHHHHHHHHhh
Q psy13774         88 YIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        88 ~~~~P~~~~R~~~~~~~~~  106 (110)
                      ++..||.+.|..|++...+
T Consensus       442 ~I~~PD~EtR~aIL~kka~  460 (617)
T PRK14086        442 DVQPPELETRIAILRKKAV  460 (617)
T ss_pred             EcCCCCHHHHHHHHHHHHH
Confidence            8899999999988877654

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=97.54  E-value=0.00039  Score=51.37  Aligned_cols=72  Identities=15%  Similarity=0.295  Sum_probs=52.7

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC-----------CCCCCEEEEEecCCCC-CCCccccCCCcc
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM-----------GAKKNVFIIGATNRPD-IIDPAILRPGRL   83 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~-----------~~~~~v~vi~ttn~~~-~ld~al~r~grf   83 (110)
                      .++|+||++.+-              ..+.+.|+..|+.-           .-..++++++|+|-.+ .++++++.  ||
T Consensus       130 GiL~lDEInrl~--------------~~~q~~Lle~mee~~v~v~r~G~~~~~p~rfiviAt~NP~e~~l~~aLld--RF  193 (334)
T PRK13407        130 GYLYIDEVNLLE--------------DHIVDLLLDVAQSGENVVEREGLSIRHPARFVLVGSGNPEEGELRPQLLD--RF  193 (334)
T ss_pred             CeEEecChHhCC--------------HHHHHHHHHHHHcCCeEEEECCeEEecCCCEEEEecCCcccCCCCHHHHh--hc
Confidence            589999999762              23444555555431           1235789999988654 68999999  99


Q ss_pred             ceEEEecCCCH-HHHHHHHHH
Q psy13774         84 DQLIYIPLPDE-IWLILSDKF  103 (110)
Q Consensus        84 d~~i~~~~P~~-~~R~~~~~~  103 (110)
                      ...|.++.|.. ++|.++++.
T Consensus       194 ~~~v~v~~~~~~~e~~~il~~  214 (334)
T PRK13407        194 GLSVEVRSPRDVETRVEVIRR  214 (334)
T ss_pred             ceEEEcCCCCcHHHHHHHHHH
Confidence            99999999886 778877664

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.54  E-value=0.0004  Score=49.41  Aligned_cols=74  Identities=19%  Similarity=0.170  Sum_probs=50.3

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC-------C-------CCCCEEEEEecCCCC-----CCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM-------G-------AKKNVFIIGATNRPD-----IID   74 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~-------~-------~~~~v~vi~ttn~~~-----~ld   74 (110)
                      .+.+++|||+|.+-              ..+.+.|+..+++-       .       ...++.+|+|+|...     .++
T Consensus       105 ~g~~lllDEi~r~~--------------~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~~~~~g~~~l~  170 (262)
T TIGR02640       105 EGFTLVYDEFTRSK--------------PETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNPVEYAGVHETQ  170 (262)
T ss_pred             cCCEEEEcchhhCC--------------HHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCCccccceeccc
Confidence            35799999999652              12333344444321       0       113567899999763     668


Q ss_pred             ccccCCCccceEEEecCCCHHHHHHHHHHH
Q psy13774         75 PAILRPGRLDQLIYIPLPDEIWLILSDKFL  104 (110)
Q Consensus        75 ~al~r~grfd~~i~~~~P~~~~R~~~~~~~  104 (110)
                      +++++  || ..++++.|+.++-..|++..
T Consensus       171 ~aL~~--R~-~~i~i~~P~~~~e~~Il~~~  197 (262)
T TIGR02640       171 DALLD--RL-ITIFMDYPDIDTETAILRAK  197 (262)
T ss_pred             HHHHh--hc-EEEECCCCCHHHHHHHHHHh
Confidence            99999  99 67999999988877776643

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).

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.54  E-value=0.00029  Score=49.33  Aligned_cols=74  Identities=15%  Similarity=0.191  Sum_probs=47.9

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCC-EEEEEecCCCCC---CCccccCCCccc--eEEEe
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKN-VFIIGATNRPDI---IDPAILRPGRLD--QLIYI   89 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~-v~vi~ttn~~~~---ld~al~r~grfd--~~i~~   89 (110)
                      .+|+|||++.+..+.         .....+-+++   +.....++ -+++.+++.|..   +.|.+++  |+.  ..+.+
T Consensus        99 dlliiDdi~~~~~~~---------~~~~~lf~l~---n~~~e~g~~~li~ts~~~p~~l~~~~~~L~S--Rl~~g~~~~l  164 (235)
T PRK08084         99 SLVCIDNIECIAGDE---------LWEMAIFDLY---NRILESGRTRLLITGDRPPRQLNLGLPDLAS--RLDWGQIYKL  164 (235)
T ss_pred             CEEEEeChhhhcCCH---------HHHHHHHHHH---HHHHHcCCCeEEEeCCCChHHcCcccHHHHH--HHhCCceeee
Confidence            589999999773221         1222232333   32222333 355555566655   6799999  986  88999


Q ss_pred             cCCCHHHHHHHHHH
Q psy13774         90 PLPDEIWLILSDKF  103 (110)
Q Consensus        90 ~~P~~~~R~~~~~~  103 (110)
                      .+|+.++|..+++.
T Consensus       165 ~~~~~~~~~~~l~~  178 (235)
T PRK08084        165 QPLSDEEKLQALQL  178 (235)
T ss_pred             cCCCHHHHHHHHHH
Confidence            99999999887765

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.50  E-value=0.00075  Score=52.38  Aligned_cols=73  Identities=22%  Similarity=0.272  Sum_probs=56.0

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      .+.||+|||+|.+.              ....+.|+..++.  ....+++|.+|+.+..+.+++.+  |+. .++|..|+
T Consensus       116 ~~kVVIIDEad~ls--------------~~a~naLLk~LEe--p~~~t~~Il~t~~~~kl~~~I~S--Rc~-~~~f~~ls  176 (504)
T PRK14963        116 GRKVYILDEAHMMS--------------KSAFNALLKTLEE--PPEHVIFILATTEPEKMPPTILS--RTQ-HFRFRRLT  176 (504)
T ss_pred             CCeEEEEECccccC--------------HHHHHHHHHHHHh--CCCCEEEEEEcCChhhCChHHhc--ceE-EEEecCCC
Confidence            45799999998551              3356677888776  34567888888999999999998  874 79999999


Q ss_pred             HHHHHHHHHHHh
Q psy13774         94 EIWLILSDKFLY  105 (110)
Q Consensus        94 ~~~R~~~~~~~~  105 (110)
                      .++-..+++...
T Consensus       177 ~~el~~~L~~i~  188 (504)
T PRK14963        177 EEEIAGKLRRLL  188 (504)
T ss_pred             HHHHHHHHHHHH
Confidence            888776665544

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.48  E-value=0.00051  Score=54.47  Aligned_cols=72  Identities=19%  Similarity=0.174  Sum_probs=55.5

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      ...||+|||+|.+.              ....+.|+..++.  ....+++|++|+.+..+.+.+++  |+ ..|+|+.++
T Consensus       119 ~~kVIIIDEad~Lt--------------~~a~naLLk~LEE--P~~~~ifILaTt~~~kll~TI~S--Rc-q~i~F~pLs  179 (624)
T PRK14959        119 RYKVFIIDEAHMLT--------------REAFNALLKTLEE--PPARVTFVLATTEPHKFPVTIVS--RC-QHFTFTRLS  179 (624)
T ss_pred             CceEEEEEChHhCC--------------HHHHHHHHHHhhc--cCCCEEEEEecCChhhhhHHHHh--hh-hccccCCCC
Confidence            34799999999882              2345678888876  34578888999999999999998  87 468999998


Q ss_pred             HHHHHHHHHHH
Q psy13774         94 EIWLILSDKFL  104 (110)
Q Consensus        94 ~~~R~~~~~~~  104 (110)
                      .++-..+++..
T Consensus       180 ~~eL~~~L~~i  190 (624)
T PRK14959        180 EAGLEAHLTKV  190 (624)
T ss_pred             HHHHHHHHHHH
Confidence            88766555543

>PLN03025 replication factor C subunit; Provisional

Probab=97.48  E-value=0.00043  Score=50.46  Aligned_cols=73  Identities=14%  Similarity=0.080  Sum_probs=52.0

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      .+.||+|||+|.+...              ..+.|+..++...  ....+|.+||.+..+.+++++  |+ ..+.|+.|+
T Consensus        99 ~~kviiiDE~d~lt~~--------------aq~aL~~~lE~~~--~~t~~il~~n~~~~i~~~L~S--Rc-~~i~f~~l~  159 (319)
T PLN03025         99 RHKIVILDEADSMTSG--------------AQQALRRTMEIYS--NTTRFALACNTSSKIIEPIQS--RC-AIVRFSRLS  159 (319)
T ss_pred             CeEEEEEechhhcCHH--------------HHHHHHHHHhccc--CCceEEEEeCCccccchhHHH--hh-hcccCCCCC
Confidence            3579999999988321              1234555565432  234466788888999999998  87 579999999


Q ss_pred             HHHHHHHHHHHh
Q psy13774         94 EIWLILSDKFLY  105 (110)
Q Consensus        94 ~~~R~~~~~~~~  105 (110)
                      .++...+++...
T Consensus       160 ~~~l~~~L~~i~  171 (319)
T PLN03025        160 DQEILGRLMKVV  171 (319)
T ss_pred             HHHHHHHHHHHH
Confidence            988776666544

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.46  E-value=0.00025  Score=48.73  Aligned_cols=78  Identities=13%  Similarity=0.197  Sum_probs=46.4

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCC---ccccCCCcc--ceEEE
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIID---PAILRPGRL--DQLIY   88 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld---~al~r~grf--d~~i~   88 (110)
                      .+.+|+|||+|.+....         .....+..+   ++........+++.++..+..++   +.+.+  |+  ...|.
T Consensus        90 ~~~lLvIDdi~~l~~~~---------~~~~~L~~~---l~~~~~~~~~iIits~~~~~~~~~~~~~L~~--r~~~~~~i~  155 (226)
T TIGR03420        90 QADLVCLDDVEAIAGQP---------EWQEALFHL---YNRVREAGGRLLIAGRAAPAQLPLRLPDLRT--RLAWGLVFQ  155 (226)
T ss_pred             cCCEEEEeChhhhcCCh---------HHHHHHHHH---HHHHHHcCCeEEEECCCChHHCCcccHHHHH--HHhcCeeEe
Confidence            34699999999873211         112223233   33322223345555554554433   67777  76  47899


Q ss_pred             ecCCCHHHHHHHHHHHh
Q psy13774         89 IPLPDEIWLILSDKFLY  105 (110)
Q Consensus        89 ~~~P~~~~R~~~~~~~~  105 (110)
                      +++|+.+++..+++.+.
T Consensus       156 l~~l~~~e~~~~l~~~~  172 (226)
T TIGR03420       156 LPPLSDEEKIAALQSRA  172 (226)
T ss_pred             cCCCCHHHHHHHHHHHH
Confidence            99999999888777654

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.

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.44  E-value=0.0005  Score=53.59  Aligned_cols=70  Identities=19%  Similarity=0.250  Sum_probs=54.2

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCHH
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEI   95 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~   95 (110)
                      .|++|||+|.+.              ....+.|++.++.  ....+++|.+|+.++.+.+.+++  |+ ..++|..|+.+
T Consensus       121 kVvIIDEad~ls--------------~~a~naLLK~LEe--pp~~~~fIL~t~d~~kil~tI~S--Rc-~~~~f~~l~~~  181 (527)
T PRK14969        121 KVYIIDEVHMLS--------------KSAFNAMLKTLEE--PPEHVKFILATTDPQKIPVTVLS--RC-LQFNLKQMPPP  181 (527)
T ss_pred             eEEEEcCcccCC--------------HHHHHHHHHHHhC--CCCCEEEEEEeCChhhCchhHHH--HH-HHHhcCCCCHH
Confidence            599999999773              2345678888887  35677888888889999999998  87 77999999888


Q ss_pred             HHHHHHHHH
Q psy13774         96 WLILSDKFL  104 (110)
Q Consensus        96 ~R~~~~~~~  104 (110)
                      +=..+++..
T Consensus       182 ~i~~~L~~i  190 (527)
T PRK14969        182 LIVSHLQHI  190 (527)
T ss_pred             HHHHHHHHH
Confidence            766554443

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.42  E-value=0.00052  Score=53.99  Aligned_cols=70  Identities=19%  Similarity=0.242  Sum_probs=54.1

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCHH
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEI   95 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~   95 (110)
                      -|++|||+|.+.              ....+.|+..|+.  ....+++|.+|+.++.|.+++++  |+ ..+.|..++.+
T Consensus       121 KVvIIdev~~Lt--------------~~a~naLLk~LEe--pp~~~~fIl~t~~~~kl~~tI~S--Rc-~~~~f~~l~~~  181 (576)
T PRK14965        121 KIFIIDEVHMLS--------------TNAFNALLKTLEE--PPPHVKFIFATTEPHKVPITILS--RC-QRFDFRRIPLQ  181 (576)
T ss_pred             eEEEEEChhhCC--------------HHHHHHHHHHHHc--CCCCeEEEEEeCChhhhhHHHHH--hh-hhhhcCCCCHH
Confidence            499999999773              2345788888887  45678888899999999999998  87 57889888877


Q ss_pred             HHHHHHHHH
Q psy13774         96 WLILSDKFL  104 (110)
Q Consensus        96 ~R~~~~~~~  104 (110)
                      +-..+++..
T Consensus       182 ~i~~~L~~i  190 (576)
T PRK14965        182 KIVDRLRYI  190 (576)
T ss_pred             HHHHHHHHH
Confidence            755554443

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.41  E-value=0.0005  Score=53.12  Aligned_cols=73  Identities=21%  Similarity=0.217  Sum_probs=54.9

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      +.|++|||+|.+.              ....+.|+..++..  ...+++|.+|+.++.+++++.+  |+. .+.+.+|+.
T Consensus       120 ~KVvIIDEad~Lt--------------~~a~naLLk~LEep--p~~~v~Il~tt~~~kl~~tI~S--Rc~-~i~f~~ls~  180 (486)
T PRK14953        120 YKVYIIDEAHMLT--------------KEAFNALLKTLEEP--PPRTIFILCTTEYDKIPPTILS--RCQ-RFIFSKPTK  180 (486)
T ss_pred             eeEEEEEChhhcC--------------HHHHHHHHHHHhcC--CCCeEEEEEECCHHHHHHHHHH--hce-EEEcCCCCH
Confidence            4699999999773              22456677777763  4456677777888999999998  874 799999999


Q ss_pred             HHHHHHHHHHhh
Q psy13774         95 IWLILSDKFLYK  106 (110)
Q Consensus        95 ~~R~~~~~~~~~  106 (110)
                      ++...+++...+
T Consensus       181 ~el~~~L~~i~k  192 (486)
T PRK14953        181 EQIKEYLKRICN  192 (486)
T ss_pred             HHHHHHHHHHHH
Confidence            988877766543

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.41  E-value=0.00049  Score=50.56  Aligned_cols=68  Identities=21%  Similarity=0.167  Sum_probs=53.0

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      .-|++|||+|.+.              ....+.|++.+++  ....+++|.+|+.+..|-|++++  |. ..+++.+|+.
T Consensus       111 ~kvviI~~a~~~~--------------~~a~NaLLK~LEE--Pp~~~~~Il~t~~~~~ll~TIrS--Rc-~~i~~~~~~~  171 (329)
T PRK08058        111 KKVYIIEHADKMT--------------ASAANSLLKFLEE--PSGGTTAILLTENKHQILPTILS--RC-QVVEFRPLPP  171 (329)
T ss_pred             ceEEEeehHhhhC--------------HHHHHHHHHHhcC--CCCCceEEEEeCChHhCcHHHHh--hc-eeeeCCCCCH
Confidence            3599999998762              3355678888887  45677888899999999999999  87 6799999988


Q ss_pred             HHHHHHH
Q psy13774         95 IWLILSD  101 (110)
Q Consensus        95 ~~R~~~~  101 (110)
                      ++-..++
T Consensus       172 ~~~~~~L  178 (329)
T PRK08058        172 ESLIQRL  178 (329)
T ss_pred             HHHHHHH
Confidence            7654444

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=97.39  E-value=0.00062  Score=54.57  Aligned_cols=72  Identities=17%  Similarity=0.171  Sum_probs=54.4

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      ..|++|||+|.+.              ....+.|++.|+.  ....+.+|.+|+.+..+.+.+++  |+ ..+.|..++.
T Consensus       120 ~KVIIIDEad~Ls--------------~~A~NALLKtLEE--Pp~~v~fILaTtd~~kL~~TIrS--RC-~~f~f~~Ls~  180 (709)
T PRK08691        120 YKVYIIDEVHMLS--------------KSAFNAMLKTLEE--PPEHVKFILATTDPHKVPVTVLS--RC-LQFVLRNMTA  180 (709)
T ss_pred             cEEEEEECccccC--------------HHHHHHHHHHHHh--CCCCcEEEEEeCCccccchHHHH--HH-hhhhcCCCCH
Confidence            3699999999662              2345678888886  34567888888999999999997  88 6688888888


Q ss_pred             HHHHHHHHHHh
Q psy13774         95 IWLILSDKFLY  105 (110)
Q Consensus        95 ~~R~~~~~~~~  105 (110)
                      ++=..+++..+
T Consensus       181 eeI~~~L~~Il  191 (709)
T PRK08691        181 QQVADHLAHVL  191 (709)
T ss_pred             HHHHHHHHHHH
Confidence            77665555444

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=97.38  E-value=0.00051  Score=47.50  Aligned_cols=76  Identities=12%  Similarity=0.070  Sum_probs=45.9

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCC-C--CCCCccccCCCcc--ceEEE
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR-P--DIIDPAILRPGRL--DQLIY   88 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~-~--~~ld~al~r~grf--d~~i~   88 (110)
                      .+.+|+|||+|.+..           ...   ..+...++........+++.+++. |  ..+.+.+.+  ||  ...++
T Consensus        90 ~~~~liiDdi~~l~~-----------~~~---~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~s--r~~~~~~i~  153 (227)
T PRK08903         90 EAELYAVDDVERLDD-----------AQQ---IALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRT--RLGWGLVYE  153 (227)
T ss_pred             cCCEEEEeChhhcCc-----------hHH---HHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHH--HHhcCeEEE
Confidence            457899999997621           112   233444444433444334444443 3  135577777  77  47999


Q ss_pred             ecCCCHHHHHHHHHHHh
Q psy13774         89 IPLPDEIWLILSDKFLY  105 (110)
Q Consensus        89 ~~~P~~~~R~~~~~~~~  105 (110)
                      +++|+.+++..+++.+.
T Consensus       154 l~pl~~~~~~~~l~~~~  170 (227)
T PRK08903        154 LKPLSDADKIAALKAAA  170 (227)
T ss_pred             ecCCCHHHHHHHHHHHH
Confidence            99999988776665543

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.37  E-value=0.0015  Score=51.96  Aligned_cols=82  Identities=20%  Similarity=0.138  Sum_probs=58.5

Q ss_pred             HHHHHHHHHhc----CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCcccc
Q psy13774          3 IATGASMARAA----APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAIL   78 (110)
Q Consensus         3 l~~~F~~A~~~----~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~   78 (110)
                      ++++.+.+...    ...||+|||+|.+.              ....+.|+..++.  ....+++|++|++++.+-++++
T Consensus       106 IReii~~a~~~p~~~~~KViIIDEad~Lt--------------~~a~naLLK~LEe--Pp~~tvfIL~t~~~~~llpTIr  169 (620)
T PRK14948        106 IRELIERAQFAPVQARWKVYVIDECHMLS--------------TAAFNALLKTLEE--PPPRVVFVLATTDPQRVLPTII  169 (620)
T ss_pred             HHHHHHHHhhChhcCCceEEEEECccccC--------------HHHHHHHHHHHhc--CCcCeEEEEEeCChhhhhHHHH
Confidence            55666655421    23699999999772              2355678888886  4567888888889999999999


Q ss_pred             CCCccceEEEecCCCHHHHHHHHHH
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILSDKF  103 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~~~~  103 (110)
                      +  |+ ..++|..++.++=..+++.
T Consensus       170 S--Rc-~~~~f~~l~~~ei~~~L~~  191 (620)
T PRK14948        170 S--RC-QRFDFRRIPLEAMVQHLSE  191 (620)
T ss_pred             h--he-eEEEecCCCHHHHHHHHHH
Confidence            8  87 5688888877664444443

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=97.37  E-value=0.00054  Score=45.43  Aligned_cols=60  Identities=28%  Similarity=0.396  Sum_probs=45.3

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLP   92 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P   92 (110)
                      ..-|++|||+|.+              .....+.||..|++  ...++++|.+|+.++.|-|.+++  |. ..+.+++.
T Consensus       102 ~~KviiI~~ad~l--------------~~~a~NaLLK~LEe--pp~~~~fiL~t~~~~~il~TI~S--Rc-~~i~~~~l  161 (162)
T PF13177_consen  102 KYKVIIIDEADKL--------------TEEAQNALLKTLEE--PPENTYFILITNNPSKILPTIRS--RC-QVIRFRPL  161 (162)
T ss_dssp             SSEEEEEETGGGS---------------HHHHHHHHHHHHS--TTTTEEEEEEES-GGGS-HHHHT--TS-EEEEE---
T ss_pred             CceEEEeehHhhh--------------hHHHHHHHHHHhcC--CCCCEEEEEEECChHHChHHHHh--hc-eEEecCCC
Confidence            3569999999977              24567789999998  46799999999999999999999  87 55666543

...

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=97.36  E-value=0.0015  Score=51.72  Aligned_cols=84  Identities=18%  Similarity=0.095  Sum_probs=60.3

Q ss_pred             HHHHHHHHHhc----CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCcccc
Q psy13774          3 IATGASMARAA----APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAIL   78 (110)
Q Consensus         3 l~~~F~~A~~~----~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~   78 (110)
                      |+++.+.+...    ...||+|||+|.+.              ....+.|+..|...  ...+++|.+|+.++.+.+.++
T Consensus       117 IReIie~~~~~P~~a~~KVvIIDEad~Ls--------------~~a~naLLKtLEeP--p~~~~fIl~tte~~kll~tI~  180 (598)
T PRK09111        117 IREIIESVRYRPVSARYKVYIIDEVHMLS--------------TAAFNALLKTLEEP--PPHVKFIFATTEIRKVPVTVL  180 (598)
T ss_pred             HHHHHHHHHhchhcCCcEEEEEEChHhCC--------------HHHHHHHHHHHHhC--CCCeEEEEEeCChhhhhHHHH
Confidence            45555554322    24699999999772              23467788888773  456777778888889999999


Q ss_pred             CCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      +  |+ ..++|..|+.++-..+++...
T Consensus       181 S--Rc-q~~~f~~l~~~el~~~L~~i~  204 (598)
T PRK09111        181 S--RC-QRFDLRRIEADVLAAHLSRIA  204 (598)
T ss_pred             h--he-eEEEecCCCHHHHHHHHHHHH
Confidence            8  87 579999999887666655543

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.36  E-value=0.0014  Score=53.93  Aligned_cols=72  Identities=15%  Similarity=0.169  Sum_probs=55.9

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      ..|++|||+|.|.              ....+.||..|..  ....+.+|++|+.+..|.+.+++  |+ ..+.|..++.
T Consensus       120 ~KViIIDEAh~LT--------------~eAqNALLKtLEE--PP~~vrFILaTTe~~kLl~TIlS--RC-q~f~fkpLs~  180 (944)
T PRK14949        120 FKVYLIDEVHMLS--------------RSSFNALLKTLEE--PPEHVKFLLATTDPQKLPVTVLS--RC-LQFNLKSLTQ  180 (944)
T ss_pred             cEEEEEechHhcC--------------HHHHHHHHHHHhc--cCCCeEEEEECCCchhchHHHHH--hh-eEEeCCCCCH
Confidence            3699999999882              4466788888887  35677788889999999999999  87 6789988887


Q ss_pred             HHHHHHHHHHh
Q psy13774         95 IWLILSDKFLY  105 (110)
Q Consensus        95 ~~R~~~~~~~~  105 (110)
                      ++-..+++..+
T Consensus       181 eEI~~~L~~il  191 (944)
T PRK14949        181 DEIGTQLNHIL  191 (944)
T ss_pred             HHHHHHHHHHH
Confidence            77665555433

>PRK05642 DNA replication initiation factor; Validated

Probab=97.36  E-value=0.00056  Score=47.90  Aligned_cols=73  Identities=14%  Similarity=0.160  Sum_probs=51.5

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCC---CCccccCCCccc--eEEEec
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDI---IDPAILRPGRLD--QLIYIP   90 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~---ld~al~r~grfd--~~i~~~   90 (110)
                      .+++|||++.+..+.            .....|...++.+...++.++++++..|..   ..|++++  ||.  ..+.+.
T Consensus        99 d~LiiDDi~~~~~~~------------~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~S--Rl~~gl~~~l~  164 (234)
T PRK05642         99 ELVCLDDLDVIAGKA------------DWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKS--RLTLALVFQMR  164 (234)
T ss_pred             CEEEEechhhhcCCh------------HHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHH--HHhcCeeeecC
Confidence            588999999773221            112345555565555667788888776643   3689999  984  678889


Q ss_pred             CCCHHHHHHHHH
Q psy13774         91 LPDEIWLILSDK  102 (110)
Q Consensus        91 ~P~~~~R~~~~~  102 (110)
                      .|+.++|..+++
T Consensus       165 ~~~~e~~~~il~  176 (234)
T PRK05642        165 GLSDEDKLRALQ  176 (234)
T ss_pred             CCCHHHHHHHHH
Confidence            999999988777

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=97.35  E-value=0.00089  Score=49.52  Aligned_cols=73  Identities=15%  Similarity=0.277  Sum_probs=51.8

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhc---------C--CCCCCEEEEEecCCCC-CCCccccCCCc
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDG---------M--GAKKNVFIIGATNRPD-IIDPAILRPGR   82 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~---------~--~~~~~v~vi~ttn~~~-~ld~al~r~gr   82 (110)
                      ..++|+||++.+-              ....+.|+..|+.         .  .-..++++++|+|-.+ .++++++.  |
T Consensus       132 ~GvL~lDEi~~L~--------------~~~Q~~Ll~~l~~g~~~v~r~G~~~~~~~r~iviat~np~eg~l~~~Lld--R  195 (337)
T TIGR02030       132 RGILYIDEVNLLE--------------DHLVDVLLDVAASGWNVVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--R  195 (337)
T ss_pred             CCEEEecChHhCC--------------HHHHHHHHHHHHhCCeEEEECCEEEEcCCCEEEEeccccccCCCCHHHHh--h
Confidence            4799999999762              2233344444432         1  1134788888888555 69999999  9


Q ss_pred             cceEEEecCCCH-HHHHHHHHH
Q psy13774         83 LDQLIYIPLPDE-IWLILSDKF  103 (110)
Q Consensus        83 fd~~i~~~~P~~-~~R~~~~~~  103 (110)
                      |...+.++.|+. ++|.++++.
T Consensus       196 f~l~i~l~~p~~~eer~eIL~~  217 (337)
T TIGR02030       196 FGLHAEIRTVRDVELRVEIVER  217 (337)
T ss_pred             cceEEECCCCCCHHHHHHHHHh
Confidence            999999999986 777777655

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.

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.35  E-value=0.0016  Score=51.79  Aligned_cols=71  Identities=14%  Similarity=0.188  Sum_probs=54.5

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCHH
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEI   95 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~   95 (110)
                      -|++|||+|.+.              ....+.|+..++.  ....+.+|.+|+.+..+.+.+++  |+ ..++|..++.+
T Consensus       126 KV~IIDEvh~Ls--------------~~a~NaLLKtLEE--PP~~~~fIL~Ttd~~kil~TIlS--Rc-~~~~f~~Ls~e  186 (618)
T PRK14951        126 KVFMIDEVHMLT--------------NTAFNAMLKTLEE--PPEYLKFVLATTDPQKVPVTVLS--RC-LQFNLRPMAPE  186 (618)
T ss_pred             eEEEEEChhhCC--------------HHHHHHHHHhccc--CCCCeEEEEEECCchhhhHHHHH--hc-eeeecCCCCHH
Confidence            499999999872              2245678877776  35677888888899999999998  87 77999888888


Q ss_pred             HHHHHHHHHh
Q psy13774         96 WLILSDKFLY  105 (110)
Q Consensus        96 ~R~~~~~~~~  105 (110)
                      +-..+++...
T Consensus       187 ei~~~L~~i~  196 (618)
T PRK14951        187 TVLEHLTQVL  196 (618)
T ss_pred             HHHHHHHHHH
Confidence            7666655443

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.35  E-value=0.00099  Score=51.57  Aligned_cols=72  Identities=19%  Similarity=0.134  Sum_probs=56.4

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      .-|++|||+|.+.              ....+.|+..++.  ....+.+|.+|+.++.+.+.+++  |+ ..+++..++.
T Consensus       117 ~KVvIIDEah~Ls--------------~~A~NaLLK~LEe--Pp~~v~fIlatte~~Kl~~tI~S--Rc-~~~~f~~l~~  177 (491)
T PRK14964        117 FKVYIIDEVHMLS--------------NSAFNALLKTLEE--PAPHVKFILATTEVKKIPVTIIS--RC-QRFDLQKIPT  177 (491)
T ss_pred             ceEEEEeChHhCC--------------HHHHHHHHHHHhC--CCCCeEEEEEeCChHHHHHHHHH--hh-eeeecccccH
Confidence            4599999999772              2356778888887  34578888888999999999999  87 6699999998


Q ss_pred             HHHHHHHHHHh
Q psy13774         95 IWLILSDKFLY  105 (110)
Q Consensus        95 ~~R~~~~~~~~  105 (110)
                      ++-..+++...
T Consensus       178 ~el~~~L~~ia  188 (491)
T PRK14964        178 DKLVEHLVDIA  188 (491)
T ss_pred             HHHHHHHHHHH
Confidence            88776666544

>PRK04195 replication factor C large subunit; Provisional

Probab=97.33  E-value=0.0012  Score=50.72  Aligned_cols=75  Identities=16%  Similarity=0.078  Sum_probs=51.2

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCc-cccCCCccceEEEecCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDP-AILRPGRLDQLIYIPLP   92 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~-al~r~grfd~~i~~~~P   92 (110)
                      .+.+|+|||+|.+..+.          .......++..+..    .+..+|.++|.+..+++ .+++  |+ ..|.|+.|
T Consensus        98 ~~kvIiIDEaD~L~~~~----------d~~~~~aL~~~l~~----~~~~iIli~n~~~~~~~k~Lrs--r~-~~I~f~~~  160 (482)
T PRK04195         98 RRKLILLDEVDGIHGNE----------DRGGARAILELIKK----AKQPIILTANDPYDPSLRELRN--AC-LMIEFKRL  160 (482)
T ss_pred             CCeEEEEecCccccccc----------chhHHHHHHHHHHc----CCCCEEEeccCccccchhhHhc--cc-eEEEecCC
Confidence            57899999999885421          11233455555553    23356678899998887 5655  44 67999999


Q ss_pred             CHHHHHHHHHHHh
Q psy13774         93 DEIWLILSDKFLY  105 (110)
Q Consensus        93 ~~~~R~~~~~~~~  105 (110)
                      +..+...+++...
T Consensus       161 ~~~~i~~~L~~i~  173 (482)
T PRK04195        161 STRSIVPVLKRIC  173 (482)
T ss_pred             CHHHHHHHHHHHH
Confidence            9998877666544

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=97.32  E-value=0.00071  Score=51.50  Aligned_cols=84  Identities=20%  Similarity=0.260  Sum_probs=59.5

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC--------CCCCEEEEEecC----CCCCCCccccCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG--------AKKNVFIIGATN----RPDIIDPAILRPG   81 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~--------~~~~v~vi~ttn----~~~~ld~al~r~g   81 (110)
                      +-.||||||+|.++.+..+...+  .....+-..||..+.+..        ...++++|++-.    .|.++=|.|.-  
T Consensus       247 ~~GIVfiDEiDKIa~~~~~~~~D--vS~eGVQ~~LLkilEGt~v~~k~~~v~T~~ILFI~~GAF~~~kp~DlIPEl~G--  322 (441)
T TIGR00390       247 QSGIIFIDEIDKIAKKGESSGAD--VSREGVQRDLLPIVEGSTVNTKYGMVKTDHILFIAAGAFQLAKPSDLIPELQG--  322 (441)
T ss_pred             cCCEEEEEchhhhcccCCCCCCC--CCccchhccccccccCceeeecceeEECCceeEEecCCcCCCChhhccHHHhC--
Confidence            45799999999999765322222  233446667888887631        235788887754    56677778875  


Q ss_pred             ccceEEEecCCCHHHHHHHH
Q psy13774         82 RLDQLIYIPLPDEIWLILSD  101 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~  101 (110)
                      ||...+.+..++.+.=..|+
T Consensus       323 R~Pi~v~L~~L~~edL~rIL  342 (441)
T TIGR00390       323 RFPIRVELQALTTDDFERIL  342 (441)
T ss_pred             ccceEEECCCCCHHHHHHHh
Confidence            99999999999998865554

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.

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.32  E-value=0.0015  Score=49.98  Aligned_cols=73  Identities=19%  Similarity=0.185  Sum_probs=55.8

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCC
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLP   92 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P   92 (110)
                      ....||+|||+|.+.              ....+.|+..++..  ...+++|++|+.+..|.+++++  |+ ..+++..+
T Consensus       120 ~~~kvvIIdead~lt--------------~~~~n~LLk~lEep--~~~~~~Il~t~~~~kl~~tI~s--Rc-~~v~f~~l  180 (451)
T PRK06305        120 SRYKIYIIDEVHMLT--------------KEAFNSLLKTLEEP--PQHVKFFLATTEIHKIPGTILS--RC-QKMHLKRI  180 (451)
T ss_pred             CCCEEEEEecHHhhC--------------HHHHHHHHHHhhcC--CCCceEEEEeCChHhcchHHHH--hc-eEEeCCCC
Confidence            456899999999773              12356788888873  4577788888999999999998  87 46899999


Q ss_pred             CHHHHHHHHHHH
Q psy13774         93 DEIWLILSDKFL  104 (110)
Q Consensus        93 ~~~~R~~~~~~~  104 (110)
                      +.++-..+++..
T Consensus       181 ~~~el~~~L~~~  192 (451)
T PRK06305        181 PEETIIDKLALI  192 (451)
T ss_pred             CHHHHHHHHHHH
Confidence            888866555544

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

Probab=97.31  E-value=0.00099  Score=50.26  Aligned_cols=79  Identities=23%  Similarity=0.338  Sum_probs=54.6

Q ss_pred             HHHHHHHHHhcC----CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecC-CC-CCCCcc
Q psy13774          3 IATGASMARAAA----PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATN-RP-DIIDPA   76 (110)
Q Consensus         3 l~~~F~~A~~~~----P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn-~~-~~ld~a   76 (110)
                      |+++|+.|+...    ..|+|||||+.+-...    +          ..||-.+    +...+++||+|. +| -.|.+|
T Consensus        89 lr~i~e~a~~~~~~gr~tiLflDEIHRfnK~Q----Q----------D~lLp~v----E~G~iilIGATTENPsF~ln~A  150 (436)
T COG2256          89 LREIIEEARKNRLLGRRTILFLDEIHRFNKAQ----Q----------DALLPHV----ENGTIILIGATTENPSFELNPA  150 (436)
T ss_pred             HHHHHHHHHHHHhcCCceEEEEehhhhcChhh----h----------hhhhhhh----cCCeEEEEeccCCCCCeeecHH
Confidence            788999996554    4899999999883211    1          1244444    456677777654 55 589999


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHH
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDK  102 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~  102 (110)
                      +++  |. ..+.+.+.+.++-...++
T Consensus       151 LlS--R~-~vf~lk~L~~~di~~~l~  173 (436)
T COG2256         151 LLS--RA-RVFELKPLSSEDIKKLLK  173 (436)
T ss_pred             Hhh--hh-heeeeecCCHHHHHHHHH
Confidence            999  86 567888888777654443

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.30  E-value=0.0005  Score=53.41  Aligned_cols=70  Identities=17%  Similarity=0.198  Sum_probs=52.5

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCHH
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEI   95 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~   95 (110)
                      .|++|||+|.+.              ....+.|+..|+..  ...+.+|.+|+.+..+.+.+++  |+ ..++|..++.+
T Consensus       121 kV~iIDE~~~ls--------------~~a~naLLk~LEep--p~~~~fIlattd~~kl~~tI~S--Rc-~~~~f~~l~~~  181 (509)
T PRK14958        121 KVYLIDEVHMLS--------------GHSFNALLKTLEEP--PSHVKFILATTDHHKLPVTVLS--RC-LQFHLAQLPPL  181 (509)
T ss_pred             EEEEEEChHhcC--------------HHHHHHHHHHHhcc--CCCeEEEEEECChHhchHHHHH--Hh-hhhhcCCCCHH
Confidence            599999999873              23456788888873  4567888888999999999998  87 66888887776


Q ss_pred             HHHHHHHHH
Q psy13774         96 WLILSDKFL  104 (110)
Q Consensus        96 ~R~~~~~~~  104 (110)
                      +-..+++..
T Consensus       182 ~i~~~l~~i  190 (509)
T PRK14958        182 QIAAHCQHL  190 (509)
T ss_pred             HHHHHHHHH
Confidence            654444433

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.26  E-value=0.002  Score=50.86  Aligned_cols=72  Identities=17%  Similarity=0.152  Sum_probs=56.1

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      .-|++|||+|.+.              ....+.||..|..  ....+++|.+|+.++.|.+++++  |. ..++|..++.
T Consensus       119 ~KVvIIDEah~Lt--------------~~A~NALLK~LEE--pp~~~~fIL~tte~~kll~TI~S--Rc-~~~~F~~l~~  179 (584)
T PRK14952        119 YRIFIVDEAHMVT--------------TAGFNALLKIVEE--PPEHLIFIFATTEPEKVLPTIRS--RT-HHYPFRLLPP  179 (584)
T ss_pred             ceEEEEECCCcCC--------------HHHHHHHHHHHhc--CCCCeEEEEEeCChHhhHHHHHH--hc-eEEEeeCCCH
Confidence            3599999999773              2256678888887  45688888888999999999999  85 6799999888


Q ss_pred             HHHHHHHHHHh
Q psy13774         95 IWLILSDKFLY  105 (110)
Q Consensus        95 ~~R~~~~~~~~  105 (110)
                      ++-..+++...
T Consensus       180 ~~i~~~L~~i~  190 (584)
T PRK14952        180 RTMRALIARIC  190 (584)
T ss_pred             HHHHHHHHHHH
Confidence            77666655544

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=97.25  E-value=0.0013  Score=51.97  Aligned_cols=71  Identities=21%  Similarity=0.139  Sum_probs=55.1

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCHH
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEI   95 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~   95 (110)
                      .|++|||+|.+.              ....+.|+..++.  ....+++|++|+.+..+.+++++  |+. .++|..|+.+
T Consensus       121 KVIIIDEad~Lt--------------~~A~NaLLKtLEE--Pp~~tvfIL~Tt~~~KLl~TI~S--Rcq-~ieF~~Ls~~  181 (605)
T PRK05896        121 KVYIIDEAHMLS--------------TSAWNALLKTLEE--PPKHVVFIFATTEFQKIPLTIIS--RCQ-RYNFKKLNNS  181 (605)
T ss_pred             EEEEEechHhCC--------------HHHHHHHHHHHHh--CCCcEEEEEECCChHhhhHHHHh--hhh-hcccCCCCHH
Confidence            599999999773              1234678888887  35578888888999999999999  874 7999999988


Q ss_pred             HHHHHHHHHh
Q psy13774         96 WLILSDKFLY  105 (110)
Q Consensus        96 ~R~~~~~~~~  105 (110)
                      +-..+++...
T Consensus       182 eL~~~L~~il  191 (605)
T PRK05896        182 ELQELLKSIA  191 (605)
T ss_pred             HHHHHHHHHH
Confidence            8766655543

>smart00350 MCM minichromosome maintenance proteins

Probab=97.24  E-value=0.0018  Score=50.29  Aligned_cols=75  Identities=21%  Similarity=0.189  Sum_probs=51.3

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhc---------CC--CCCCEEEEEecCCCC------------
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDG---------MG--AKKNVFIIGATNRPD------------   71 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~---------~~--~~~~v~vi~ttn~~~------------   71 (110)
                      ..+++|||+|.+-.              ...+.|+..|++         ..  -..+..||||+|-.+            
T Consensus       301 ~Gil~iDEi~~l~~--------------~~q~~L~e~me~~~i~i~k~G~~~~l~~~~~viAa~NP~~g~y~~~~~~~~n  366 (509)
T smart00350      301 NGVCCIDEFDKMDD--------------SDRTAIHEAMEQQTISIAKAGITTTLNARCSVLAAANPIGGRYDPKLTPEEN  366 (509)
T ss_pred             CCEEEEechhhCCH--------------HHHHHHHHHHhcCEEEEEeCCEEEEecCCcEEEEEeCCCCcccCCCcChhhc
Confidence            46899999997721              122233334432         10  125788999999653            


Q ss_pred             -CCCccccCCCccceEEEe-cCCCHHHHHHHHHHHh
Q psy13774         72 -IIDPAILRPGRLDQLIYI-PLPDEIWLILSDKFLY  105 (110)
Q Consensus        72 -~ld~al~r~grfd~~i~~-~~P~~~~R~~~~~~~~  105 (110)
                       .+++++++  |||..+.+ +.|+.+.+.++.++.+
T Consensus       367 ~~l~~~lLs--RFdLi~~~~d~~~~~~d~~i~~~i~  400 (509)
T smart00350      367 IDLPAPILS--RFDLLFVVLDEVDEERDRELAKHVV  400 (509)
T ss_pred             cCCChHHhC--ceeeEEEecCCCChHHHHHHHHHHH
Confidence             69999999  99986555 7899999888877654

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.24  E-value=0.0015  Score=52.23  Aligned_cols=73  Identities=14%  Similarity=0.127  Sum_probs=55.4

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      ...|++|||+|.|.              ....+.|+..++.  ....+.+|++|+.+..+++.+++  |+ ..+.|..++
T Consensus       118 k~KV~IIDEVh~LS--------------~~A~NALLKtLEE--PP~~v~FILaTtd~~kIp~TIlS--RC-q~feFkpLs  178 (702)
T PRK14960        118 RFKVYLIDEVHMLS--------------THSFNALLKTLEE--PPEHVKFLFATTDPQKLPITVIS--RC-LQFTLRPLA  178 (702)
T ss_pred             CcEEEEEechHhcC--------------HHHHHHHHHHHhc--CCCCcEEEEEECChHhhhHHHHH--hh-heeeccCCC
Confidence            34699999999772              2345678888876  34677888888999999999998  88 679999998


Q ss_pred             HHHHHHHHHHHh
Q psy13774         94 EIWLILSDKFLY  105 (110)
Q Consensus        94 ~~~R~~~~~~~~  105 (110)
                      .++-..+++..+
T Consensus       179 ~eEI~k~L~~Il  190 (702)
T PRK14960        179 VDEITKHLGAIL  190 (702)
T ss_pred             HHHHHHHHHHHH
Confidence            887665555443

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.21  E-value=0.0017  Score=50.73  Aligned_cols=71  Identities=21%  Similarity=0.220  Sum_probs=54.0

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCHH
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEI   95 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~   95 (110)
                      -|++|||+|.+.              ....+.|+..+...  ...+.+|.+|+.+..|.+++++  |. ..++|.+++.+
T Consensus       119 KVvIIDEad~Lt--------------~~A~NALLK~LEEp--p~~t~FIL~ttd~~kL~~tI~S--Rc-~~~~F~~Ls~~  179 (535)
T PRK08451        119 KIFIIDEVHMLT--------------KEAFNALLKTLEEP--PSYVKFILATTDPLKLPATILS--RT-QHFRFKQIPQN  179 (535)
T ss_pred             EEEEEECcccCC--------------HHHHHHHHHHHhhc--CCceEEEEEECChhhCchHHHh--hc-eeEEcCCCCHH
Confidence            499999998772              33566788888874  4567777778889999999999  86 68999999887


Q ss_pred             HHHHHHHHHh
Q psy13774         96 WLILSDKFLY  105 (110)
Q Consensus        96 ~R~~~~~~~~  105 (110)
                      +-..+++..+
T Consensus       180 ei~~~L~~Il  189 (535)
T PRK08451        180 SIISHLKTIL  189 (535)
T ss_pred             HHHHHHHHHH
Confidence            7665555433

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.21  E-value=0.0027  Score=49.81  Aligned_cols=71  Identities=20%  Similarity=0.167  Sum_probs=54.1

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      ..|++|||+|.+.              ....+.|+..++.  ....+++|++|+.+..+.+++++  |+ ..++|..++.
T Consensus       120 ~kViIIDEa~~ls--------------~~a~naLLK~LEe--pp~~v~fIL~Ttd~~kil~tI~S--Rc-~~~~f~~Ls~  180 (546)
T PRK14957        120 YKVYLIDEVHMLS--------------KQSFNALLKTLEE--PPEYVKFILATTDYHKIPVTILS--RC-IQLHLKHISQ  180 (546)
T ss_pred             cEEEEEechhhcc--------------HHHHHHHHHHHhc--CCCCceEEEEECChhhhhhhHHH--he-eeEEeCCCCH
Confidence            4699999999772              2355678888886  34667777777889999999998  87 7899999988


Q ss_pred             HHHHHHHHHH
Q psy13774         95 IWLILSDKFL  104 (110)
Q Consensus        95 ~~R~~~~~~~  104 (110)
                      ++-..+++..
T Consensus       181 ~eI~~~L~~i  190 (546)
T PRK14957        181 ADIKDQLKII  190 (546)
T ss_pred             HHHHHHHHHH
Confidence            8765555443

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=97.21  E-value=0.0019  Score=46.93  Aligned_cols=57  Identities=21%  Similarity=0.369  Sum_probs=47.4

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecC
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPL   91 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~   91 (110)
                      .|++||++|.+.              ....+.||+.+++  ...++++|.+|+.++.+-|.+++  |+ ..|.|+.
T Consensus       106 kV~II~~ad~m~--------------~~AaNaLLKtLEE--Pp~~t~~iL~t~~~~~lLpTI~S--Rc-q~i~f~~  162 (290)
T PRK07276        106 QVFIIKDADKMH--------------VNAANSLLKVIEE--PQSEIYIFLLTNDENKVLPTIKS--RT-QIFHFPK  162 (290)
T ss_pred             EEEEeehhhhcC--------------HHHHHHHHHHhcC--CCCCeEEEEEECChhhCchHHHH--cc-eeeeCCC
Confidence            699999999772              3456788999887  56778999999999999999999  87 5677865

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=97.16  E-value=0.0021  Score=47.37  Aligned_cols=78  Identities=17%  Similarity=0.102  Sum_probs=52.9

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHh-----hhc----CCCCCCEEEEEecCCCC------------
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTE-----MDG----MGAKKNVFIIGATNRPD------------   71 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~-----ld~----~~~~~~v~vi~ttn~~~------------   71 (110)
                      ..++++++||+|..-+           .....++.+|..     +.+    +.....+.||||+|..+            
T Consensus       133 ~~g~illlDEin~a~p-----------~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~Gd~~G~y~Gt~  201 (327)
T TIGR01650       133 QHNVALCFDEYDAGRP-----------DVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLGDTTGLYHGTQ  201 (327)
T ss_pred             hCCeEEEechhhccCH-----------HHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcCCCCcceeeee
Confidence            3578999999996621           223344444442     111    11234688999999865            


Q ss_pred             CCCccccCCCccceEEEecCCCHHHHHHHHHH
Q psy13774         72 IIDPAILRPGRLDQLIYIPLPDEIWLILSDKF  103 (110)
Q Consensus        72 ~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~  103 (110)
                      .++.|++.  ||-..+.++.|+.+.-..|+..
T Consensus       202 ~l~~A~lD--RF~i~~~~~Yp~~e~E~~Il~~  231 (327)
T TIGR01650       202 QINQAQMD--RWSIVTTLNYLEHDNEAAIVLA  231 (327)
T ss_pred             cCCHHHHh--heeeEeeCCCCCHHHHHHHHHh
Confidence            45889999  9988889999998887776653

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.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=97.16  E-value=0.0018  Score=47.05  Aligned_cols=69  Identities=17%  Similarity=0.140  Sum_probs=53.4

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      .-|++||++|.+.              ....+.|+..+.+  ...++++|.+|+.++.+-|++++  |. ..+++..|+.
T Consensus        94 ~kv~iI~~ad~m~--------------~~a~naLLK~LEe--pp~~t~~il~~~~~~~ll~TI~S--Rc-~~~~~~~~~~  154 (313)
T PRK05564         94 KKVIIIYNSEKMT--------------EQAQNAFLKTIEE--PPKGVFIILLCENLEQILDTIKS--RC-QIYKLNRLSK  154 (313)
T ss_pred             ceEEEEechhhcC--------------HHHHHHHHHHhcC--CCCCeEEEEEeCChHhCcHHHHh--hc-eeeeCCCcCH
Confidence            4599999998662              3345678888887  45677777777889999999999  87 5899999988


Q ss_pred             HHHHHHHH
Q psy13774         95 IWLILSDK  102 (110)
Q Consensus        95 ~~R~~~~~  102 (110)
                      ++-..+++
T Consensus       155 ~~~~~~l~  162 (313)
T PRK05564        155 EEIEKFIS  162 (313)
T ss_pred             HHHHHHHH
Confidence            87665554

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.14  E-value=0.0029  Score=50.27  Aligned_cols=44  Identities=20%  Similarity=0.250  Sum_probs=34.0

Q ss_pred             CEEEEE-ecCCCCCCCccccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         60 NVFIIG-ATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        60 ~v~vi~-ttn~~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      .+++|+ ||+.++.+++++++  ||. .+++++.+.++...+++...+
T Consensus       323 ~~VLI~aTt~~~~~l~~aLrS--R~~-~i~~~pls~edi~~Il~~~a~  367 (615)
T TIGR02903       323 DFVLIGATTRDPEEINPALRS--RCA-EVFFEPLTPEDIALIVLNAAE  367 (615)
T ss_pred             eEEEEEeccccccccCHHHHh--cee-EEEeCCCCHHHHHHHHHHHHH
Confidence            455555 55678899999998  996 578888998888888776654

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.

>PRK06620 hypothetical protein; Validated

Probab=97.12  E-value=0.0014  Score=45.37  Aligned_cols=72  Identities=10%  Similarity=0.265  Sum_probs=50.5

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCC--CCccccCCCccc--eEEEec
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDI--IDPAILRPGRLD--QLIYIP   90 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~--ld~al~r~grfd--~~i~~~   90 (110)
                      ..+++|||+|.+              ...   .+...++.+...++.++++++..|..  + |++++  |+.  ..+.+.
T Consensus        86 ~d~lliDdi~~~--------------~~~---~lf~l~N~~~e~g~~ilits~~~p~~l~l-~~L~S--Rl~~gl~~~l~  145 (214)
T PRK06620         86 YNAFIIEDIENW--------------QEP---ALLHIFNIINEKQKYLLLTSSDKSRNFTL-PDLSS--RIKSVLSILLN  145 (214)
T ss_pred             CCEEEEeccccc--------------hHH---HHHHHHHHHHhcCCEEEEEcCCCccccch-HHHHH--HHhCCceEeeC
Confidence            368999999933              011   34444454445566788888877765  5 78999  985  369999


Q ss_pred             CCCHHHHHHHHHHHhh
Q psy13774         91 LPDEIWLILSDKFLYK  106 (110)
Q Consensus        91 ~P~~~~R~~~~~~~~~  106 (110)
                      .|+.+.+..+++...+
T Consensus       146 ~pd~~~~~~~l~k~~~  161 (214)
T PRK06620        146 SPDDELIKILIFKHFS  161 (214)
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999999877765543

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.10  E-value=0.00063  Score=43.41  Aligned_cols=54  Identities=26%  Similarity=0.446  Sum_probs=35.9

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC-----------CCCC------CEEEEEecCCCC----C
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM-----------GAKK------NVFIIGATNRPD----I   72 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~-----------~~~~------~v~vi~ttn~~~----~   72 (110)
                      .++|++|||++..              ...++..++..+++-           ....      ++.+|+|+|..+    .
T Consensus        65 ~~~il~lDEin~a--------------~~~v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~~~~~~  130 (139)
T PF07728_consen   65 KGGILVLDEINRA--------------PPEVLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRDKGRKE  130 (139)
T ss_dssp             EEEEEEESSCGG----------------HHHHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST--TTT
T ss_pred             ceeEEEECCcccC--------------CHHHHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCCCCcCc
Confidence            5799999999954              133444444444421           0111      389999999999    9


Q ss_pred             CCccccCCCcc
Q psy13774         73 IDPAILRPGRL   83 (110)
Q Consensus        73 ld~al~r~grf   83 (110)
                      +++++++  ||
T Consensus       131 l~~al~~--Rf  139 (139)
T PF07728_consen  131 LSPALLD--RF  139 (139)
T ss_dssp             TCHHHHT--T-
T ss_pred             CCHHHHh--hC
Confidence            9999999  87

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=97.10  E-value=0.0019  Score=48.07  Aligned_cols=73  Identities=14%  Similarity=0.257  Sum_probs=51.8

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhc---------C--CCCCCEEEEEecCCCC-CCCccccCCCc
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDG---------M--GAKKNVFIIGATNRPD-IIDPAILRPGR   82 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~---------~--~~~~~v~vi~ttn~~~-~ld~al~r~gr   82 (110)
                      ..++|+||++.+-+              .+.+.|+..|+.         .  .-..++++++|.|-.+ .+.++++.  |
T Consensus       145 ~GiL~lDEInrL~~--------------~~Q~~LLeam~e~~~~ier~G~s~~~p~rfiviaT~np~eg~l~~~Lld--R  208 (350)
T CHL00081        145 RGILYVDEVNLLDD--------------HLVDILLDSAASGWNTVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--R  208 (350)
T ss_pred             CCEEEecChHhCCH--------------HHHHHHHHHHHhCCeEEeeCCeeeecCCCEEEEeccCcccCCCCHHHHH--H
Confidence            46999999997732              233334444432         1  1134788888888555 69999999  9


Q ss_pred             cceEEEecCCC-HHHHHHHHHH
Q psy13774         83 LDQLIYIPLPD-EIWLILSDKF  103 (110)
Q Consensus        83 fd~~i~~~~P~-~~~R~~~~~~  103 (110)
                      |...+.++.|+ .+.|.++++.
T Consensus       209 f~l~i~l~~~~~~~~e~~il~~  230 (350)
T CHL00081        209 FGMHAEIRTVKDPELRVKIVEQ  230 (350)
T ss_pred             hCceeecCCCCChHHHHHHHHh
Confidence            99999999998 5788777654

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.09  E-value=0.0027  Score=49.95  Aligned_cols=72  Identities=17%  Similarity=0.134  Sum_probs=55.4

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      ..-|++|||+|.+.              ....+.|+..++.  ....+++|++|+.++.+.+++++  |+. .++|.+|+
T Consensus       119 ~~KVvIIDEa~~Ls--------------~~a~naLLK~LEe--pp~~~vfI~~tte~~kL~~tI~S--Rc~-~~~f~~l~  179 (563)
T PRK06647        119 RYRVYIIDEVHMLS--------------NSAFNALLKTIEE--PPPYIVFIFATTEVHKLPATIKS--RCQ-HFNFRLLS  179 (563)
T ss_pred             CCEEEEEEChhhcC--------------HHHHHHHHHhhcc--CCCCEEEEEecCChHHhHHHHHH--hce-EEEecCCC
Confidence            34699999999772              2355678888876  45678888888889999999999  874 68999998


Q ss_pred             HHHHHHHHHHH
Q psy13774         94 EIWLILSDKFL  104 (110)
Q Consensus        94 ~~~R~~~~~~~  104 (110)
                      .++...+++..
T Consensus       180 ~~el~~~L~~i  190 (563)
T PRK06647        180 LEKIYNMLKKV  190 (563)
T ss_pred             HHHHHHHHHHH
Confidence            88877665543

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.07  E-value=0.0045  Score=50.85  Aligned_cols=79  Identities=22%  Similarity=0.283  Sum_probs=54.1

Q ss_pred             HhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC--C-------CCCCEEEEEecCCCCC---------
Q psy13774         11 RAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM--G-------AKKNVFIIGATNRPDI---------   72 (110)
Q Consensus        11 ~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~--~-------~~~~v~vi~ttn~~~~---------   72 (110)
                      +.+.-+||++||+|.+              ...+.+.|++.++.=  .       .-.+.+||+|||....         
T Consensus       664 ~~~p~~vlllDeieka--------------~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TSn~g~~~~~~~~~~~  729 (852)
T TIGR03346       664 RRKPYSVVLFDEVEKA--------------HPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSNLGSQFIQELAGGD  729 (852)
T ss_pred             HcCCCcEEEEeccccC--------------CHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeCCcchHhHhhhcccc
Confidence            3444579999999965              233455666666431  1       1246889999997321         


Q ss_pred             ----------------CCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         73 ----------------IDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        73 ----------------ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                                      ..|.|+.  |+|..+.|.+++.+....|....+
T Consensus       730 ~~~~~~~~~~~~~~~~F~pel~~--Rid~IivF~PL~~e~l~~I~~l~L  776 (852)
T TIGR03346       730 DYEEMREAVMEVLRAHFRPEFLN--RIDEIVVFHPLGREQIARIVEIQL  776 (852)
T ss_pred             cHHHHHHHHHHHHHhhcCHHHhc--CcCeEEecCCcCHHHHHHHHHHHH
Confidence                            3466776  999999999999998877665543

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.

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=97.06  E-value=0.0024  Score=47.61  Aligned_cols=82  Identities=20%  Similarity=0.293  Sum_probs=55.8

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC--------CCCCEEEEEe----cCCCCCCCccccCCCc
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG--------AKKNVFIIGA----TNRPDIIDPAILRPGR   82 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~--------~~~~v~vi~t----tn~~~~ld~al~r~gr   82 (110)
                      -.||||||||.++.+.+.+..+  ..-+.+-..+|-.+.|..        ..+.+++||+    ...|.+|=|.|.-  |
T Consensus       251 ~GIvFIDEIDKIa~~~~~g~~d--vSREGVQRDlLPlvEGstV~TKyG~VkTdHILFIasGAFh~sKPSDLiPELQG--R  326 (444)
T COG1220         251 NGIVFIDEIDKIAKRGGSGGPD--VSREGVQRDLLPLVEGSTVSTKYGPVKTDHILFIASGAFHVAKPSDLIPELQG--R  326 (444)
T ss_pred             cCeEEEehhhHHHhcCCCCCCC--cchhhhcccccccccCceeeccccccccceEEEEecCceecCChhhcChhhcC--C
Confidence            4699999999999776533221  122334445666666531        2346888887    4578888888875  9


Q ss_pred             cceEEEecCCCHHHHHHH
Q psy13774         83 LDQLIYIPLPDEIWLILS  100 (110)
Q Consensus        83 fd~~i~~~~P~~~~R~~~  100 (110)
                      |.-++++...+.+.=..|
T Consensus       327 fPIRVEL~~Lt~~Df~rI  344 (444)
T COG1220         327 FPIRVELDALTKEDFERI  344 (444)
T ss_pred             CceEEEcccCCHHHHHHH
Confidence            999999998887764433

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.04  E-value=0.0022  Score=46.98  Aligned_cols=69  Identities=20%  Similarity=0.243  Sum_probs=53.3

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      ..|++||++|.+.              ....+.||+.+....   +.++|..|+.++.|-|++++  |. ..+.|++|+.
T Consensus       125 ~kVvII~~ae~m~--------------~~aaNaLLK~LEEPp---~~~fILi~~~~~~Ll~TI~S--Rc-q~i~f~~l~~  184 (314)
T PRK07399        125 RKVVVIEDAETMN--------------EAAANALLKTLEEPG---NGTLILIAPSPESLLPTIVS--RC-QIIPFYRLSD  184 (314)
T ss_pred             ceEEEEEchhhcC--------------HHHHHHHHHHHhCCC---CCeEEEEECChHhCcHHHHh--hc-eEEecCCCCH
Confidence            4688889988762              335567888888753   44677788899999999999  87 6799999998


Q ss_pred             HHHHHHHHH
Q psy13774         95 IWLILSDKF  103 (110)
Q Consensus        95 ~~R~~~~~~  103 (110)
                      ++-..+++.
T Consensus       185 ~~~~~~L~~  193 (314)
T PRK07399        185 EQLEQVLKR  193 (314)
T ss_pred             HHHHHHHHH
Confidence            876665554

>PRK09087 hypothetical protein; Validated

Probab=97.03  E-value=0.00074  Score=47.18  Aligned_cols=74  Identities=14%  Similarity=0.192  Sum_probs=50.8

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC--C-CCccccCCCccc--eEEEec
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD--I-IDPAILRPGRLD--QLIYIP   90 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~--~-ld~al~r~grfd--~~i~~~   90 (110)
                      .+|+|||+|.+.    .       ..    .+|...++.+...++.++++++..|.  . ..+.+++  ||.  ..+++.
T Consensus        89 ~~l~iDDi~~~~----~-------~~----~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~S--Rl~~gl~~~l~  151 (226)
T PRK09087         89 GPVLIEDIDAGG----F-------DE----TGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKS--RLKAATVVEIG  151 (226)
T ss_pred             CeEEEECCCCCC----C-------CH----HHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHH--HHhCCceeecC
Confidence            478889999651    0       11    12444555544455667777766554  2 3688999  986  789999


Q ss_pred             CCCHHHHHHHHHHHhh
Q psy13774         91 LPDEIWLILSDKFLYK  106 (110)
Q Consensus        91 ~P~~~~R~~~~~~~~~  106 (110)
                      .|+.+.|..+++...+
T Consensus       152 ~pd~e~~~~iL~~~~~  167 (226)
T PRK09087        152 EPDDALLSQVIFKLFA  167 (226)
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999999988776554

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=97.03  E-value=0.0041  Score=44.69  Aligned_cols=72  Identities=15%  Similarity=0.152  Sum_probs=50.3

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      +.+|+|||+|.+...              ....|...++...  ....+|.++|.+..+.+++.+  |+. .+++++|+.
T Consensus       103 ~~vviiDe~~~l~~~--------------~~~~L~~~le~~~--~~~~lIl~~~~~~~l~~~l~s--r~~-~~~~~~l~~  163 (319)
T PRK00440        103 FKIIFLDEADNLTSD--------------AQQALRRTMEMYS--QNTRFILSCNYSSKIIDPIQS--RCA-VFRFSPLKK  163 (319)
T ss_pred             ceEEEEeCcccCCHH--------------HHHHHHHHHhcCC--CCCeEEEEeCCccccchhHHH--Hhh-eeeeCCCCH
Confidence            469999999977311              2234566666543  234566677888888888888  775 589999998


Q ss_pred             HHHHHHHHHHh
Q psy13774         95 IWLILSDKFLY  105 (110)
Q Consensus        95 ~~R~~~~~~~~  105 (110)
                      ++...+++...
T Consensus       164 ~ei~~~l~~~~  174 (319)
T PRK00440        164 EAVAERLRYIA  174 (319)
T ss_pred             HHHHHHHHHHH
Confidence            88776666554

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=97.01  E-value=0.005  Score=43.88  Aligned_cols=67  Identities=19%  Similarity=0.046  Sum_probs=53.4

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      .--|++|+++|.+.              ....+.||+.+++  +..++++|..|+.+..+.|.+++  |+ ..+.+..|+
T Consensus        89 ~~KViII~~ae~mt--------------~~AANALLKtLEE--PP~~t~fILit~~~~~LLpTIrS--RC-q~i~~~~p~  149 (263)
T PRK06581         89 GYKVAIIYSAELMN--------------LNAANSCLKILED--APKNSYIFLITSRAASIISTIRS--RC-FKINVRSSI  149 (263)
T ss_pred             CcEEEEEechHHhC--------------HHHHHHHHHhhcC--CCCCeEEEEEeCChhhCchhHhh--ce-EEEeCCCCC
Confidence            34599999999773              3456788888888  56788999999999999999999  87 678888888


Q ss_pred             HHHHHH
Q psy13774         94 EIWLIL   99 (110)
Q Consensus        94 ~~~R~~   99 (110)
                      ...=.+
T Consensus       150 ~~~~~e  155 (263)
T PRK06581        150 LHAYNE  155 (263)
T ss_pred             HHHHHH
Confidence            755433

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.99  E-value=0.0067  Score=49.66  Aligned_cols=83  Identities=23%  Similarity=0.299  Sum_probs=56.7

Q ss_pred             HHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC---------CCCCEEEEEecCCCCC-----
Q psy13774          7 ASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG---------AKKNVFIIGATNRPDI-----   72 (110)
Q Consensus         7 F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~---------~~~~v~vi~ttn~~~~-----   72 (110)
                      ....+.+..+||+|||+|..              ...+.+.|++.++.-.         ...+.++|.|||....     
T Consensus       604 ~~~~~~~p~~VvllDeieka--------------~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Tsn~g~~~i~~~  669 (821)
T CHL00095        604 TEAVRKKPYTVVLFDEIEKA--------------HPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTSNLGSKVIETN  669 (821)
T ss_pred             HHHHHhCCCeEEEECChhhC--------------CHHHHHHHHHHhccCceecCCCcEEecCceEEEEeCCcchHHHHhh
Confidence            34444444599999999965              2345666777776411         1357899999986421     


Q ss_pred             --------------------------------CCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         73 --------------------------------IDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        73 --------------------------------ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                                                      ..|.++.  |+|..|.|.+.+.++-..|.+..+
T Consensus       670 ~~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~f~pefln--Rid~ii~F~pL~~~~l~~Iv~~~l  732 (821)
T CHL00095        670 SGGLGFELSENQLSEKQYKRLSNLVNEELKQFFRPEFLN--RLDEIIVFRQLTKNDVWEIAEIML  732 (821)
T ss_pred             ccccCCcccccccccccHHHHHHHHHHHHHHhcCHHHhc--cCCeEEEeCCCCHHHHHHHHHHHH
Confidence                                            2255676  999999999999888776655544

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=96.96  E-value=0.0016  Score=49.87  Aligned_cols=80  Identities=15%  Similarity=0.146  Sum_probs=51.1

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC---CCCccccCCCccc--eEE
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD---IIDPAILRPGRLD--QLI   87 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~---~ld~al~r~grfd--~~i   87 (110)
                      ..+.+++|||++.+..+.         .   ....|...++.....++-+|+.+...|.   .+++.+.+  ||.  ..+
T Consensus       205 ~~~dvLiIDDiq~l~~k~---------~---~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~S--R~~~Gl~~  270 (450)
T PRK14087        205 CQNDVLIIDDVQFLSYKE---------K---TNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLIT--RFNMGLSI  270 (450)
T ss_pred             ccCCEEEEeccccccCCH---------H---HHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHH--HHhCCcee
Confidence            356799999999874221         1   2223434444433334434444444443   46789999  985  678


Q ss_pred             EecCCCHHHHHHHHHHHhh
Q psy13774         88 YIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        88 ~~~~P~~~~R~~~~~~~~~  106 (110)
                      .+.+|+.++|..+++..++
T Consensus       271 ~L~~pd~e~r~~iL~~~~~  289 (450)
T PRK14087        271 AIQKLDNKTATAIIKKEIK  289 (450)
T ss_pred             ccCCcCHHHHHHHHHHHHH
Confidence            8899999999988877654

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

Probab=96.96  E-value=0.0027  Score=49.41  Aligned_cols=76  Identities=25%  Similarity=0.238  Sum_probs=57.5

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      .-|.+|||++-|              +....+.||+.+..  ....|++|.+|..++.+++.+++  |+ .++.|..-+.
T Consensus       120 yKVyiIDEvHML--------------S~~afNALLKTLEE--PP~hV~FIlATTe~~Kip~TIlS--Rc-q~f~fkri~~  180 (515)
T COG2812         120 YKVYIIDEVHML--------------SKQAFNALLKTLEE--PPSHVKFILATTEPQKIPNTILS--RC-QRFDFKRLDL  180 (515)
T ss_pred             ceEEEEecHHhh--------------hHHHHHHHhccccc--CccCeEEEEecCCcCcCchhhhh--cc-ccccccCCCH
Confidence            349999999966              35577888888887  57799999999999999999999  88 4577777676


Q ss_pred             HHHHH-HHHHHhhccc
Q psy13774         95 IWLIL-SDKFLYKRKI  109 (110)
Q Consensus        95 ~~R~~-~~~~~~~~~~  109 (110)
                      ++-.. +-..+.+.+|
T Consensus       181 ~~I~~~L~~i~~~E~I  196 (515)
T COG2812         181 EEIAKHLAAILDKEGI  196 (515)
T ss_pred             HHHHHHHHHHHHhcCC
Confidence            66444 4444444443

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.96  E-value=0.0054  Score=50.43  Aligned_cols=81  Identities=21%  Similarity=0.229  Sum_probs=54.8

Q ss_pred             HHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC---------CCCCEEEEEecCCCC-------
Q psy13774          8 SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG---------AKKNVFIIGATNRPD-------   71 (110)
Q Consensus         8 ~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~---------~~~~v~vi~ttn~~~-------   71 (110)
                      ...+++..|||+|||+|..              ...+.+.|++.+|.-.         .-.+.++|.|||...       
T Consensus       662 ~~v~~~p~svvllDEieka--------------~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSNlg~~~~~~~~  727 (852)
T TIGR03345       662 EAVRRKPYSVVLLDEVEKA--------------HPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLTSNAGSDLIMALC  727 (852)
T ss_pred             HHHHhCCCcEEEEechhhc--------------CHHHHHHHHHHhhcceeecCCCcEEeccccEEEEeCCCchHHHHHhc
Confidence            3445667799999999844              2335556666666421         125789999998521       


Q ss_pred             ----------------------CCCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         72 ----------------------IIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        72 ----------------------~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                                            .+.|+++.  |++ .|.|.+.+.+.-..|.+..+
T Consensus       728 ~~~~~~~~~~~~~~~~~~~~~~~f~PEfln--Ri~-iI~F~pLs~e~l~~Iv~~~L  780 (852)
T TIGR03345       728 ADPETAPDPEALLEALRPELLKVFKPAFLG--RMT-VIPYLPLDDDVLAAIVRLKL  780 (852)
T ss_pred             cCcccCcchHHHHHHHHHHHHHhccHHHhc--cee-EEEeCCCCHHHHHHHHHHHH
Confidence                                  15577777  997 78999999888776655443

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.

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

Probab=96.91  E-value=0.0043  Score=44.59  Aligned_cols=68  Identities=29%  Similarity=0.307  Sum_probs=52.4

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      .-||+|||+|.+..              ...+.++..+..  ...+..+|.+||.++.+-+.+++  |+ ..+.|++|+.
T Consensus       110 ~kviiidead~mt~--------------~A~nallk~lEe--p~~~~~~il~~n~~~~il~tI~S--Rc-~~i~f~~~~~  170 (325)
T COG0470         110 YKVVIIDEADKLTE--------------DAANALLKTLEE--PPKNTRFILITNDPSKILPTIRS--RC-QRIRFKPPSR  170 (325)
T ss_pred             ceEEEeCcHHHHhH--------------HHHHHHHHHhcc--CCCCeEEEEEcCChhhccchhhh--cc-eeeecCCchH
Confidence            46999999998843              345667777766  46678889999999999999999  87 5688887776


Q ss_pred             HHHHHHH
Q psy13774         95 IWLILSD  101 (110)
Q Consensus        95 ~~R~~~~  101 (110)
                      ..+....
T Consensus       171 ~~~i~~~  177 (325)
T COG0470         171 LEAIAWL  177 (325)
T ss_pred             HHHHHHh
Confidence            6655443

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=96.91  E-value=0.0036  Score=49.47  Aligned_cols=74  Identities=15%  Similarity=0.157  Sum_probs=52.1

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC---------C--CCCCEEEEEecCCCC---CCCccccCCC
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM---------G--AKKNVFIIGATNRPD---IIDPAILRPG   81 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~---------~--~~~~v~vi~ttn~~~---~ld~al~r~g   81 (110)
                      .++|+||++.+-              ..+.+.|+..|+.-         .  -..++.+|+|+|..+   .++++++.  
T Consensus        86 GvL~lDEi~rl~--------------~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g~L~~~Lld--  149 (589)
T TIGR02031        86 GVLYVDMANLLD--------------DGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGGGLPDHLLD--  149 (589)
T ss_pred             CcEeccchhhCC--------------HHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccCCCCHHHHH--
Confidence            589999999772              23444555555421         1  124688999888765   79999999  


Q ss_pred             ccceEEEecC-CCHHHHHHHHHHHh
Q psy13774         82 RLDQLIYIPL-PDEIWLILSDKFLY  105 (110)
Q Consensus        82 rfd~~i~~~~-P~~~~R~~~~~~~~  105 (110)
                      ||+.+|.+.. |+.++|.++++...
T Consensus       150 Rf~l~v~~~~~~~~~er~eil~~~~  174 (589)
T TIGR02031       150 RLALHVSLEDVASQDLRVEIVRRER  174 (589)
T ss_pred             hccCeeecCCCCCHHHHHHHHHHHH
Confidence            9999988864 56777887766543

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.

>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=96.89  E-value=0.02  Score=38.79  Aligned_cols=90  Identities=14%  Similarity=0.125  Sum_probs=49.0

Q ss_pred             HHHHHHHHHhcC-CeEEEEccccccc-ccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC------CCCC
Q psy13774          3 IATGASMARAAA-PCVLFFDELDSIA-KSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP------DIID   74 (110)
Q Consensus         3 l~~~F~~A~~~~-P~ii~iDeiD~l~-~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~------~~ld   74 (110)
                      +..+++...+.. ..||+|||+|.+. ...         .....+..+.+.++......++.+|.+++..      ..-.
T Consensus       106 l~~~~~~l~~~~~~~iiviDe~~~~~~~~~---------~~~~~~~~l~~~~~~~~~~~~~~~v~~~S~~~~~~~~~~~~  176 (234)
T PF01637_consen  106 LERLLEKLKKKGKKVIIVIDEFQYLAIASE---------EDKDFLKSLRSLLDSLLSQQNVSIVITGSSDSLMEEFLDDK  176 (234)
T ss_dssp             HHHHHHHHHHCHCCEEEEEETGGGGGBCTT---------TTHHHHHHHHHHHHH----TTEEEEEEESSHHHHHHTT-TT
T ss_pred             HHHHHHHHHhcCCcEEEEEecHHHHhhccc---------chHHHHHHHHHHHhhccccCCceEEEECCchHHHHHhhccc
Confidence            456666666544 4999999999997 222         2356777777777775555555555554432      1222


Q ss_pred             ccccCCCccceEEEecCCCHHHHHHHHHHH
Q psy13774         75 PAILRPGRLDQLIYIPLPDEIWLILSDKFL  104 (110)
Q Consensus        75 ~al~r~grfd~~i~~~~P~~~~R~~~~~~~  104 (110)
                      ..+.  ||+.. +++++-+.++-..+++..
T Consensus       177 ~~~~--~~~~~-~~l~~l~~~e~~~~~~~~  203 (234)
T PF01637_consen  177 SPLF--GRFSH-IELKPLSKEEAREFLKEL  203 (234)
T ss_dssp             STTT--T---E-EEE----HHHHHHHHHHH
T ss_pred             Cccc--cccce-EEEeeCCHHHHHHHHHHH
Confidence            3344  48877 999888877766666554

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

>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=96.84  E-value=0.0074  Score=42.49  Aligned_cols=73  Identities=21%  Similarity=0.277  Sum_probs=46.6

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC-----C-----------CCCEEEEEecCCCCCCCccc
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG-----A-----------KKNVFIIGATNRPDIIDPAI   77 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~-----~-----------~~~v~vi~ttn~~~~ld~al   77 (110)
                      ...|+|||||+.+-              +..-..|+..|++..     +           -.+.-+||+|++...+.+.+
T Consensus       101 ~~~ILFIDEIHRln--------------k~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~g~ls~pL  166 (233)
T PF05496_consen  101 EGDILFIDEIHRLN--------------KAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRAGLLSSPL  166 (233)
T ss_dssp             TT-EEEECTCCC----------------HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSGCCTSHCC
T ss_pred             CCcEEEEechhhcc--------------HHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeeccccccchhH
Confidence            46899999999772              222234556665421     1           13588999999999999999


Q ss_pred             cCCCccceEEEecCCCHHHHHHHHH
Q psy13774         78 LRPGRLDQLIYIPLPDEIWLILSDK  102 (110)
Q Consensus        78 ~r~grfd~~i~~~~P~~~~R~~~~~  102 (110)
                      +.  ||.....+..-+.++=..|.+
T Consensus       167 rd--RFgi~~~l~~Y~~~el~~Iv~  189 (233)
T PF05496_consen  167 RD--RFGIVLRLEFYSEEELAKIVK  189 (233)
T ss_dssp             CT--TSSEEEE----THHHHHHHHH
T ss_pred             Hh--hcceecchhcCCHHHHHHHHH
Confidence            99  999988888878777666554

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.

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

Probab=96.77  E-value=0.0078  Score=48.75  Aligned_cols=72  Identities=21%  Similarity=0.235  Sum_probs=49.3

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCC--CCCCCccccCCCccceEEEecC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR--PDIIDPAILRPGRLDQLIYIPL   91 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~--~~~ld~al~r~grfd~~i~~~~   91 (110)
                      ...++||||+|.+...              ....|+..++    ...+++|++|+.  ...+++++++  |. ..+.+++
T Consensus       109 ~~~IL~IDEIh~Ln~~--------------qQdaLL~~lE----~g~IiLI~aTTenp~~~l~~aL~S--R~-~v~~l~p  167 (725)
T PRK13341        109 KRTILFIDEVHRFNKA--------------QQDALLPWVE----NGTITLIGATTENPYFEVNKALVS--RS-RLFRLKS  167 (725)
T ss_pred             CceEEEEeChhhCCHH--------------HHHHHHHHhc----CceEEEEEecCCChHhhhhhHhhc--cc-cceecCC
Confidence            4579999999987311              1123444443    345677776543  3578999998  75 5699999


Q ss_pred             CCHHHHHHHHHHHhh
Q psy13774         92 PDEIWLILSDKFLYK  106 (110)
Q Consensus        92 P~~~~R~~~~~~~~~  106 (110)
                      ++.++...+++..+.
T Consensus       168 Ls~edi~~IL~~~l~  182 (725)
T PRK13341        168 LSDEDLHQLLKRALQ  182 (725)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999998887776654

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.75  E-value=0.0074  Score=49.69  Aligned_cols=78  Identities=19%  Similarity=0.309  Sum_probs=53.2

Q ss_pred             hcCC-eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC--C-------CCCCEEEEEecCCC-----------
Q psy13774         12 AAAP-CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM--G-------AKKNVFIIGATNRP-----------   70 (110)
Q Consensus        12 ~~~P-~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~--~-------~~~~v~vi~ttn~~-----------   70 (110)
                      ...| ++|+|||+|.+-              ..+.+.|++.++.-  .       ...+.++|+|||..           
T Consensus       667 ~~~p~~vLllDEieka~--------------~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~TSN~g~~~~~~~~~~~  732 (857)
T PRK10865        667 RRRPYSVILLDEVEKAH--------------PDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNLGSDLIQERFGEL  732 (857)
T ss_pred             HhCCCCeEEEeehhhCC--------------HHHHHHHHHHHhhCceecCCceEEeecccEEEEeCCcchHHHHHhcccc
Confidence            3344 899999998652              23455566666431  1       12357889999973           


Q ss_pred             --------------CCCCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         71 --------------DIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        71 --------------~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                                    ..+.|+++.  |+|..+.+.+++.+.-..|.+.++
T Consensus       733 ~~~~~~~~~~~~~~~~f~PELln--Rld~iivF~PL~~edl~~Iv~~~L  779 (857)
T PRK10865        733 DYAHMKELVLGVVSHNFRPEFIN--RIDEVVVFHPLGEQHIASIAQIQL  779 (857)
T ss_pred             chHHHHHHHHHHHcccccHHHHH--hCCeeEecCCCCHHHHHHHHHHHH
Confidence                          134578888  999999999999888666666554

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.75  E-value=0.0041  Score=45.76  Aligned_cols=69  Identities=16%  Similarity=0.224  Sum_probs=52.4

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      .-|++||++|.+-              ....+.+++.++...  .++.+|.+|++++.+.+++.+  |+ ..+.|++|+.
T Consensus       114 ~kV~iiEp~~~Ld--------------~~a~naLLk~LEep~--~~~~~Ilvth~~~~ll~ti~S--Rc-~~~~~~~~~~  174 (325)
T PRK08699        114 LRVILIHPAESMN--------------LQAANSLLKVLEEPP--PQVVFLLVSHAADKVLPTIKS--RC-RKMVLPAPSH  174 (325)
T ss_pred             ceEEEEechhhCC--------------HHHHHHHHHHHHhCc--CCCEEEEEeCChHhChHHHHH--Hh-hhhcCCCCCH
Confidence            3589999999772              234556777777753  446677899999999999998  87 6788999998


Q ss_pred             HHHHHHHH
Q psy13774         95 IWLILSDK  102 (110)
Q Consensus        95 ~~R~~~~~  102 (110)
                      ++-..++.
T Consensus       175 ~~~~~~L~  182 (325)
T PRK08699        175 EEALAYLR  182 (325)
T ss_pred             HHHHHHHH
Confidence            87666554

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=96.65  E-value=0.0097  Score=43.39  Aligned_cols=68  Identities=16%  Similarity=0.368  Sum_probs=50.5

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      .-|++||++|.+              .....+.|++.++.  ....+++|.+|+.++.+-|++++  |. ..+++.+|+.
T Consensus        91 ~KvvII~~~e~m--------------~~~a~NaLLK~LEE--Pp~~t~~il~~~~~~kll~TI~S--Rc-~~~~f~~l~~  151 (299)
T PRK07132         91 KKILIIKNIEKT--------------SNSLLNALLKTIEE--PPKDTYFLLTTKNINKVLPTIVS--RC-QVFNVKEPDQ  151 (299)
T ss_pred             ceEEEEeccccc--------------CHHHHHHHHHHhhC--CCCCeEEEEEeCChHhChHHHHh--Ce-EEEECCCCCH
Confidence            357777776644              23456678999988  56677888888899999999998  76 5699999887


Q ss_pred             HHHHHHH
Q psy13774         95 IWLILSD  101 (110)
Q Consensus        95 ~~R~~~~  101 (110)
                      ++-..++
T Consensus       152 ~~l~~~l  158 (299)
T PRK07132        152 QKILAKL  158 (299)
T ss_pred             HHHHHHH
Confidence            7655444

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.65  E-value=0.0072  Score=47.72  Aligned_cols=71  Identities=17%  Similarity=0.146  Sum_probs=52.4

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      ..||+|||+|.+.              ....+.|+..++..  ...+++|.+|+.++.+.+.+++  |+ ..++|..++.
T Consensus       121 ~kVvIIDEa~~L~--------------~~a~naLLk~LEep--p~~tv~Il~t~~~~kll~tI~S--R~-~~i~f~~l~~  181 (585)
T PRK14950        121 YKVYIIDEVHMLS--------------TAAFNALLKTLEEP--PPHAIFILATTEVHKVPATILS--RC-QRFDFHRHSV  181 (585)
T ss_pred             eEEEEEeChHhCC--------------HHHHHHHHHHHhcC--CCCeEEEEEeCChhhhhHHHHh--cc-ceeeCCCCCH
Confidence            4599999999773              23456788888774  3567777778888889999988  77 4688988888


Q ss_pred             HHHHHHHHHH
Q psy13774         95 IWLILSDKFL  104 (110)
Q Consensus        95 ~~R~~~~~~~  104 (110)
                      .+-..+++..
T Consensus       182 ~el~~~L~~~  191 (585)
T PRK14950        182 ADMAAHLRKI  191 (585)
T ss_pred             HHHHHHHHHH
Confidence            7766555544

>KOG0741|consensus

Probab=96.63  E-value=0.0049  Score=48.39  Aligned_cols=87  Identities=17%  Similarity=0.277  Sum_probs=64.0

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCC-CCEEEEEecCCCCCCCc-cccC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAK-KNVFIIGATNRPDIIDP-AILR   79 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~-~~v~vi~ttn~~~~ld~-al~r   79 (110)
                      -|..+|+-|.+..-+||++|++|.|..--.=    ...-++.++..|+-.+...... .+.+|++||++.+-+.. .+..
T Consensus       586 ~i~k~F~DAYkS~lsiivvDdiErLiD~vpI----GPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~  661 (744)
T KOG0741|consen  586 HIKKIFEDAYKSPLSIIVVDDIERLLDYVPI----GPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILD  661 (744)
T ss_pred             HHHHHHHHhhcCcceEEEEcchhhhhccccc----CchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHH
Confidence            3788999999999999999999998743211    1114566777888888776554 47889999988765553 3555


Q ss_pred             CCccceEEEecCCCH
Q psy13774         80 PGRLDQLIYIPLPDE   94 (110)
Q Consensus        80 ~grfd~~i~~~~P~~   94 (110)
                        .|+..|++|.-..
T Consensus       662 --~F~~~i~Vpnl~~  674 (744)
T KOG0741|consen  662 --CFSSTIHVPNLTT  674 (744)
T ss_pred             --hhhheeecCccCc
Confidence              8999999987665

>PHA02244 ATPase-like protein

Probab=96.62  E-value=0.014  Score=43.90  Aligned_cols=70  Identities=27%  Similarity=0.307  Sum_probs=45.1

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHH-----hhhc-CCCCCCEEEEEecCCC-----------CCCCcc
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILT-----EMDG-MGAKKNVFIIGATNRP-----------DIIDPA   76 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~-----~ld~-~~~~~~v~vi~ttn~~-----------~~ld~a   76 (110)
                      .+.+++|||++.+.+.           ....++.++.     ..++ +....++-+|+|+|.+           ..+++|
T Consensus       180 ~GgvLiLDEId~a~p~-----------vq~~L~~lLd~r~l~l~g~~i~~h~~FRlIATsN~~~~G~~~~y~G~k~L~~A  248 (383)
T PHA02244        180 KGGLFFIDEIDASIPE-----------ALIIINSAIANKFFDFADERVTAHEDFRVISAGNTLGKGADHIYVARNKIDGA  248 (383)
T ss_pred             cCCEEEEeCcCcCCHH-----------HHHHHHHHhccCeEEecCcEEecCCCEEEEEeeCCCccCcccccCCCcccCHH
Confidence            5689999999966321           1122222221     1111 1123578999999973           688999


Q ss_pred             ccCCCccceEEEecCCCHHHH
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWL   97 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R   97 (110)
                      ++.  || ..|+++.|...+.
T Consensus       249 llD--RF-v~I~~dyp~~~E~  266 (383)
T PHA02244        249 TLD--RF-APIEFDYDEKIEH  266 (383)
T ss_pred             HHh--hc-EEeeCCCCcHHHH
Confidence            999  99 5699999984443

>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot)

Probab=96.45  E-value=0.0062  Score=41.33  Aligned_cols=68  Identities=18%  Similarity=0.071  Sum_probs=42.7

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLP   92 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P   92 (110)
                      ..++|+|||+..+++++......    .    ...+..+..- ...+.-++.+|.++..||+.++.  ..+..+++..+
T Consensus        79 ~~~liviDEa~~~~~~r~~~~~~----~----~~~~~~l~~h-Rh~g~diiliTQ~~~~id~~ir~--lve~~~~~~k~  146 (193)
T PF05707_consen   79 KGSLIVIDEAQNFFPSRSWKGKK----V----PEIIEFLAQH-RHYGWDIILITQSPSQIDKFIRD--LVEYHYHCRKL  146 (193)
T ss_dssp             TT-EEEETTGGGTSB---T-T------------HHHHGGGGC-CCTT-EEEEEES-GGGB-HHHHC--CEEEEEEEEE-
T ss_pred             CCcEEEEECChhhcCCCcccccc----c----hHHHHHHHHh-CcCCcEEEEEeCCHHHHhHHHHH--HHheEEEEEee
Confidence            57999999999999988653211    1    1233444332 45678899999999999999987  99998888655

Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.

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

Probab=96.41  E-value=0.063  Score=38.25  Aligned_cols=91  Identities=16%  Similarity=0.256  Sum_probs=61.4

Q ss_pred             HHHHHHHHH-hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC--CCCCCEEEEEecCCCCCCCccccC
Q psy13774          3 IATGASMAR-AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM--GAKKNVFIIGATNRPDIIDPAILR   79 (110)
Q Consensus         3 l~~~F~~A~-~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~--~~~~~v~vi~ttn~~~~ld~al~r   79 (110)
                      |.+++...+ ...+-|||+||+-  |...           ..--..|.+.|+|-  ....+|++.+|||+-..++..+..
T Consensus        94 l~~l~~~l~~~~~kFIlf~DDLs--Fe~~-----------d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~E~~~d  160 (249)
T PF05673_consen   94 LPELLDLLRDRPYKFILFCDDLS--FEEG-----------DTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVPESFSD  160 (249)
T ss_pred             HHHHHHHHhcCCCCEEEEecCCC--CCCC-----------cHHHHHHHHHhcCccccCCCcEEEEEecchhhccchhhhh
Confidence            455666655 3456899999854  2111           11224566666653  235699999999987766654332


Q ss_pred             ---------------------CCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         80 ---------------------PGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        80 ---------------------~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                                           ..||...|.|..||.++=..|.+.+.+
T Consensus       161 ~~~~~~~eih~~d~~eEklSLsDRFGL~l~F~~~~q~~YL~IV~~~~~  208 (249)
T PF05673_consen  161 REDIQDDEIHPSDTIEEKLSLSDRFGLWLSFYPPDQEEYLAIVRHYAE  208 (249)
T ss_pred             ccCCCccccCcchHHHHHHhHHHhCCcEEEecCCCHHHHHHHHHHHHH
Confidence                                 138999999999999998888777764

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.41  E-value=0.015  Score=46.22  Aligned_cols=69  Identities=19%  Similarity=0.231  Sum_probs=51.6

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCHH
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEI   95 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~   95 (110)
                      -|++|||+|.+.              ....+.|+..|+..  ....++|.+|+.+..|-+++++  |+ ..++|..++.+
T Consensus       123 KVvIIdea~~Ls--------------~~a~naLLK~LEep--p~~tifIL~tt~~~kIl~tI~S--Rc-~iv~f~~ls~~  183 (614)
T PRK14971        123 KIYIIDEVHMLS--------------QAAFNAFLKTLEEP--PSYAIFILATTEKHKILPTILS--RC-QIFDFNRIQVA  183 (614)
T ss_pred             EEEEEECcccCC--------------HHHHHHHHHHHhCC--CCCeEEEEEeCCchhchHHHHh--hh-heeecCCCCHH
Confidence            399999999772              23466788888873  4566777777788999999999  87 55999988877


Q ss_pred             HHHHHHHH
Q psy13774         96 WLILSDKF  103 (110)
Q Consensus        96 ~R~~~~~~  103 (110)
                      +=..+++.
T Consensus       184 ei~~~L~~  191 (614)
T PRK14971        184 DIVNHLQY  191 (614)
T ss_pred             HHHHHHHH
Confidence            76555544

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

Probab=96.31  E-value=0.028  Score=42.10  Aligned_cols=79  Identities=23%  Similarity=0.278  Sum_probs=58.4

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC---CCCCccccCCCcc-ceEEE
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP---DIIDPAILRPGRL-DQLIY   88 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~---~~ld~al~r~grf-d~~i~   88 (110)
                      ....||.+||+|.|..+..           .++-+|....+..  ..++.+|+.+|..   +.+||.+.+  +| ..+|.
T Consensus       122 ~~~~IvvLDEid~L~~~~~-----------~~LY~L~r~~~~~--~~~v~vi~i~n~~~~~~~ld~rv~s--~l~~~~I~  186 (366)
T COG1474         122 GKTVIVILDEVDALVDKDG-----------EVLYSLLRAPGEN--KVKVSIIAVSNDDKFLDYLDPRVKS--SLGPSEIV  186 (366)
T ss_pred             CCeEEEEEcchhhhccccc-----------hHHHHHHhhcccc--ceeEEEEEEeccHHHHHHhhhhhhh--ccCcceee
Confidence            4568999999999975442           3555565555543  5689999999987   488998887  66 34588


Q ss_pred             ecCCCHHHHHHHHHHHhh
Q psy13774         89 IPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        89 ~~~P~~~~R~~~~~~~~~  106 (110)
                      |++=+.+|-..|++.-.+
T Consensus       187 F~pY~a~el~~Il~~R~~  204 (366)
T COG1474         187 FPPYTAEELYDILRERVE  204 (366)
T ss_pred             eCCCCHHHHHHHHHHHHH
Confidence            888888887777766544

>PF12846 AAA_10: AAA-like domain

Probab=96.27  E-value=0.013  Score=41.41  Aligned_cols=75  Identities=23%  Similarity=0.240  Sum_probs=55.5

Q ss_pred             hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCC-----ccccCCCccceE
Q psy13774         12 AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIID-----PAILRPGRLDQL   86 (110)
Q Consensus        12 ~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld-----~al~r~grfd~~   86 (110)
                      ...|+++++||+..+....         .....+..++...    ...++.++.+|..+.+++     ++++.  -+...
T Consensus       218 ~~~~~~i~iDEa~~~~~~~---------~~~~~~~~~~~~~----Rk~g~~~~l~tQ~~~~l~~~~~~~~i~~--n~~~~  282 (304)
T PF12846_consen  218 RGRPKIIVIDEAHNFLSNP---------SGAEFLDELLREG----RKYGVGLILATQSPSDLPKSPIEDAILA--NCNTK  282 (304)
T ss_pred             CCceEEEEeCCcccccccc---------chhhhhhHHHHHH----HhcCCEEEEeeCCHHHHhccchHHHHHH--hCCcE
Confidence            3678999999999887553         1222333444433    345778999999999999     78888  88899


Q ss_pred             EEecCCCHHHHHHHHH
Q psy13774         87 IYIPLPDEIWLILSDK  102 (110)
Q Consensus        87 i~~~~P~~~~R~~~~~  102 (110)
                      |.+..++.+.+. +.+
T Consensus       283 i~~~~~~~~~~~-l~~  297 (304)
T PF12846_consen  283 IIFRLEDSDDAE-LAE  297 (304)
T ss_pred             EEecCChHHHHH-HHH
Confidence            999999988776 444

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=96.26  E-value=0.0097  Score=42.63  Aligned_cols=59  Identities=17%  Similarity=0.172  Sum_probs=47.2

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCC
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLP   92 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P   92 (110)
                      --|++|+++|.+.              ....+.||+.+++  ...++++|..|+.++.+.|.+++  |.- .+.++.+
T Consensus        89 ~KV~II~~ae~m~--------------~~AaNaLLK~LEE--Pp~~t~fiLit~~~~~lLpTI~S--RCq-~~~~~~~  147 (261)
T PRK05818         89 KKIYIIYGIEKLN--------------KQSANSLLKLIEE--PPKNTYGIFTTRNENNILNTILS--RCV-QYVVLSK  147 (261)
T ss_pred             CEEEEeccHhhhC--------------HHHHHHHHHhhcC--CCCCeEEEEEECChHhCchHhhh--hee-eeecCCh
Confidence            3688888888762              3466789999988  67899999999999999999999  873 4566555

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=96.25  E-value=0.013  Score=42.55  Aligned_cols=58  Identities=22%  Similarity=0.357  Sum_probs=46.7

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCC
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLP   92 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P   92 (110)
                      -|++||++|.+.              ...-+.||+.+++  ...++++|..|+.++.+.|.+++  |+ ..+.|+++
T Consensus        97 kv~ii~~ad~mt--------------~~AaNaLLK~LEE--Pp~~~~fiL~~~~~~~ll~TI~S--Rc-q~~~~~~~  154 (290)
T PRK05917         97 KIYIIHEADRMT--------------LDAISAFLKVLED--PPQHGVIILTSAKPQRLPPTIRS--RS-LSIHIPME  154 (290)
T ss_pred             eEEEEechhhcC--------------HHHHHHHHHHhhc--CCCCeEEEEEeCChhhCcHHHHh--cc-eEEEccch
Confidence            588999999772              3456778888888  57789999999999999999999  87 45666654

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

Probab=96.21  E-value=0.018  Score=43.78  Aligned_cols=77  Identities=12%  Similarity=0.228  Sum_probs=53.2

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCC---ccccCCCccc--eEEE
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIID---PAILRPGRLD--QLIY   88 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld---~al~r~grfd--~~i~   88 (110)
                      +-.+++|||++.+..+..        ..    .+|-..++.+...++-+++.+-..|..+.   |.|++  ||+  ..++
T Consensus       175 ~~dlllIDDiq~l~gk~~--------~q----eefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~S--R~~~Gl~~~  240 (408)
T COG0593         175 SLDLLLIDDIQFLAGKER--------TQ----EEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRS--RLEWGLVVE  240 (408)
T ss_pred             ccCeeeechHhHhcCChh--------HH----HHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHH--HHhceeEEe
Confidence            446999999998864432        12    23444444444455567777777776554   88999  996  4778


Q ss_pred             ecCCCHHHHHHHHHHH
Q psy13774         89 IPLPDEIWLILSDKFL  104 (110)
Q Consensus        89 ~~~P~~~~R~~~~~~~  104 (110)
                      +.+||.+.|..+++..
T Consensus       241 I~~Pd~e~r~aiL~kk  256 (408)
T COG0593         241 IEPPDDETRLAILRKK  256 (408)
T ss_pred             eCCCCHHHHHHHHHHH
Confidence            8999999999887763

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=96.18  E-value=0.025  Score=45.18  Aligned_cols=72  Identities=17%  Similarity=0.276  Sum_probs=49.9

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC-----------CCCCCEEEEEecCCC-CCCCccccCCCcc
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM-----------GAKKNVFIIGATNRP-DIIDPAILRPGRL   83 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~-----------~~~~~v~vi~ttn~~-~~ld~al~r~grf   83 (110)
                      .|+||||++.+-              ..+.+.|+..|+.-           .-..++.+|+|+|-. ..+.++++.  ||
T Consensus       128 GiL~lDEi~~l~--------------~~~q~~Ll~~le~g~~~v~r~g~~~~~~~~~~lIat~np~eg~l~~~L~d--R~  191 (633)
T TIGR02442       128 GILYIDEVNLLD--------------DHLVDVLLDAAAMGVNRVEREGLSVSHPARFVLIGTMNPEEGDLRPQLLD--RF  191 (633)
T ss_pred             CeEEeChhhhCC--------------HHHHHHHHHHHhcCCEEEEECCceeeecCCeEEEEecCCCCCCCCHHHHh--hc
Confidence            599999999772              23444555555421           112468999998843 368899999  99


Q ss_pred             ceEEEecCCC-HHHHHHHHHH
Q psy13774         84 DQLIYIPLPD-EIWLILSDKF  103 (110)
Q Consensus        84 d~~i~~~~P~-~~~R~~~~~~  103 (110)
                      +..|.++.|. .++|.++++.
T Consensus       192 ~l~i~v~~~~~~~~~~~il~~  212 (633)
T TIGR02442       192 GLCVDVAAPRDPEERVEIIRR  212 (633)
T ss_pred             ceEEEccCCCchHHHHHHHHH
Confidence            9999998775 5666666543

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.

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.17  E-value=0.021  Score=45.55  Aligned_cols=71  Identities=17%  Similarity=0.106  Sum_probs=52.0

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      .-|++|||+|.+.              ....+.|+..++..  ...+++|.+|+.+..|.+++++  |. ..++|..++.
T Consensus       128 ~KVvIIdEad~Lt--------------~~a~naLLK~LEeP--p~~tv~IL~t~~~~kLl~TI~S--Rc-~~vef~~l~~  188 (620)
T PRK14954        128 YRVYIIDEVHMLS--------------TAAFNAFLKTLEEP--PPHAIFIFATTELHKIPATIAS--RC-QRFNFKRIPL  188 (620)
T ss_pred             CEEEEEeChhhcC--------------HHHHHHHHHHHhCC--CCCeEEEEEeCChhhhhHHHHh--hc-eEEecCCCCH
Confidence            3599999998773              12356788888873  3456677777888999999998  76 6799999988


Q ss_pred             HHHHHHHHHH
Q psy13774         95 IWLILSDKFL  104 (110)
Q Consensus        95 ~~R~~~~~~~  104 (110)
                      ++=..+++..
T Consensus       189 ~ei~~~L~~i  198 (620)
T PRK14954        189 DEIQSQLQMI  198 (620)
T ss_pred             HHHHHHHHHH
Confidence            7755555443

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=96.15  E-value=0.012  Score=43.73  Aligned_cols=48  Identities=21%  Similarity=0.365  Sum_probs=34.5

Q ss_pred             HHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC
Q psy13774          7 ASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM   55 (110)
Q Consensus         7 F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~   55 (110)
                      |..+++.. .||||||||.+..+..+.+-..+...+.+-..||..+.+.
T Consensus       156 ydV~rAer-GIIyIDEIDKIarkSeN~SITRDVSGEGVQQALLKiiEGT  203 (408)
T COG1219         156 YDVERAER-GIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGT  203 (408)
T ss_pred             cCHHHHhC-CeEEEechhhhhccCCCCCcccccCchHHHHHHHHHHcCc
Confidence            44455544 7999999999998776555444445566777889988874

>PRK09862 putative ATP-dependent protease; Provisional

Probab=96.05  E-value=0.022  Score=44.44  Aligned_cols=64  Identities=25%  Similarity=0.379  Sum_probs=44.9

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC-------C----CCCCEEEEEecCCCC-------------
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM-------G----AKKNVFIIGATNRPD-------------   71 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~-------~----~~~~v~vi~ttn~~~-------------   71 (110)
                      .++|+||++.+-              ..+...|+.-|+.-       .    -..++.+|+|+|...             
T Consensus       296 GvLfLDEi~e~~--------------~~~~~~L~~~LE~g~v~I~r~g~~~~~pa~f~lIAa~NP~pcG~~~~~~c~c~~  361 (506)
T PRK09862        296 GVLFLDELPEFE--------------RRTLDALREPIESGQIHLSRTRAKITYPARFQLVAAMNPSPTGHYQGNHNRCTP  361 (506)
T ss_pred             CEEecCCchhCC--------------HHHHHHHHHHHHcCcEEEecCCcceeccCCEEEEEeecCccceecCCCCCCcCH
Confidence            699999998651              23445555555321       0    134789999999752             


Q ss_pred             --------CCCccccCCCccceEEEecCCCHH
Q psy13774         72 --------IIDPAILRPGRLDQLIYIPLPDEI   95 (110)
Q Consensus        72 --------~ld~al~r~grfd~~i~~~~P~~~   95 (110)
                              .+...++.  |||..+.++.|+.+
T Consensus       362 ~~~~~Y~~~ls~plLD--RfdL~v~v~~~~~~  391 (506)
T PRK09862        362 EQTLRYLNRLSGPFLD--RFDLSLEIPLPPPG  391 (506)
T ss_pred             HHHHHHHhhCCHhHHh--hccEEEEeCCCCHH
Confidence                    47778998  99999999998644

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.04  E-value=0.0085  Score=40.17  Aligned_cols=54  Identities=24%  Similarity=0.326  Sum_probs=36.0

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC-----C----CCCCEEEEEecCCCCC
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM-----G----AKKNVFIIGATNRPDI   72 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~-----~----~~~~v~vi~ttn~~~~   72 (110)
                      .|||+||||...+..+.   ..+.....+.+.||+.+++-     .    ...++++|+|+|--..
T Consensus        70 gVVllDEidKa~~~~~~---~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~~~~  132 (171)
T PF07724_consen   70 GVVLLDEIDKAHPSNSG---GADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNFGAE  132 (171)
T ss_dssp             TEEEEETGGGCSHTTTT---CSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESSSTH
T ss_pred             hhhhhHHHhhccccccc---cchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEecccccc
Confidence            39999999999876211   11123346777888888742     1    1257999999997543

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 ....

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=96.01  E-value=0.042  Score=41.84  Aligned_cols=77  Identities=19%  Similarity=0.317  Sum_probs=53.7

Q ss_pred             HHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhc---------CC--CCCCEEEEEecCCC-CCCCcc
Q psy13774          9 MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDG---------MG--AKKNVFIIGATNRP-DIIDPA   76 (110)
Q Consensus         9 ~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~---------~~--~~~~v~vi~ttn~~-~~ld~a   76 (110)
                      .|++|. .|+||||+-.|              ..++...||.-+..         ++  -..++++|||+|-- ..|-|-
T Consensus       140 La~AnR-GIlYvDEvnlL--------------~d~lvd~LLd~aaeG~n~vereGisi~hpa~fvligTmNPEeGeLrpq  204 (423)
T COG1239         140 LARANR-GILYVDEVNLL--------------DDHLVDALLDVAAEGVNDVEREGISIRHPARFLLIGTMNPEEGELRPQ  204 (423)
T ss_pred             hhhccC-CEEEEeccccc--------------cHHHHHHHHHHHHhCCceeeeCceeeccCccEEEEeecCccccccchh
Confidence            356665 69999999866              23455555544432         22  13479999999965 478888


Q ss_pred             ccCCCccceEEEecCCC-HHHHHHHHH
Q psy13774         77 ILRPGRLDQLIYIPLPD-EIWLILSDK  102 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~-~~~R~~~~~  102 (110)
                      |+.  ||...|.+..|. .++|..+.+
T Consensus       205 LlD--Rfg~~v~~~~~~~~~~rv~Ii~  229 (423)
T COG1239         205 LLD--RFGLEVDTHYPLDLEERVEIIR  229 (423)
T ss_pred             hHh--hhcceeeccCCCCHHHHHHHHH
Confidence            998  999999997776 666776543

>PF05729 NACHT: NACHT domain

Probab=95.84  E-value=0.059  Score=34.57  Aligned_cols=89  Identities=9%  Similarity=0.118  Sum_probs=48.6

Q ss_pred             HHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhc-CCCCCCEEEEEecCCCCCCCccccCCCccceEE
Q psy13774          9 MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDG-MGAKKNVFIIGATNRPDIIDPAILRPGRLDQLI   87 (110)
Q Consensus         9 ~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~-~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i   87 (110)
                      .+....+.+++||.+|.+......   .   ........+...+.. .....++++.+.+.....+...+..    ...+
T Consensus        76 ~~~~~~~~llilDglDE~~~~~~~---~---~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~----~~~~  145 (166)
T PF05729_consen   76 LLEKNKRVLLILDGLDELEEQDQS---Q---ERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQ----AQIL  145 (166)
T ss_pred             HHHcCCceEEEEechHhcccchhh---h---HHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCC----CcEE
Confidence            345567789999999999754322   0   122222233333433 2122333333333322233333332    1578


Q ss_pred             EecCCCHHHHHHHHHHHhhc
Q psy13774         88 YIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        88 ~~~~P~~~~R~~~~~~~~~~  107 (110)
                      .+..-+.++...+++.+++.
T Consensus       146 ~l~~~~~~~~~~~~~~~f~~  165 (166)
T PF05729_consen  146 ELEPFSEEDIKQYLRKYFSN  165 (166)
T ss_pred             EECCCCHHHHHHHHHHHhhc
Confidence            99888999998888777653

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.80  E-value=0.014  Score=43.88  Aligned_cols=70  Identities=16%  Similarity=0.092  Sum_probs=49.0

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCHH
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEI   95 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~   95 (110)
                      .|++|||+|.+..              ...+.|+..++.  .....++|.+|+.+..+-+++.+  |+. .+++.+++.+
T Consensus       129 kvvIIdea~~l~~--------------~~~~~LLk~LEe--p~~~t~~Il~t~~~~kl~~tl~s--R~~-~v~f~~l~~~  189 (397)
T PRK14955        129 RVYIIDEVHMLSI--------------AAFNAFLKTLEE--PPPHAIFIFATTELHKIPATIAS--RCQ-RFNFKRIPLE  189 (397)
T ss_pred             EEEEEeChhhCCH--------------HHHHHHHHHHhc--CCCCeEEEEEeCChHHhHHHHHH--HHH-HhhcCCCCHH
Confidence            5999999997731              234567777775  34456666677778899999998  774 6899888877


Q ss_pred             HHHHHHHHH
Q psy13774         96 WLILSDKFL  104 (110)
Q Consensus        96 ~R~~~~~~~  104 (110)
                      +=..+++..
T Consensus       190 ei~~~l~~~  198 (397)
T PRK14955        190 EIQQQLQGI  198 (397)
T ss_pred             HHHHHHHHH
Confidence            655444443

>PRK08485 DNA polymerase III subunit delta'; Validated

Probab=95.79  E-value=0.11  Score=36.05  Aligned_cols=70  Identities=19%  Similarity=0.082  Sum_probs=53.1

Q ss_pred             EEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccce-----------
Q psy13774         17 VLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQ-----------   85 (110)
Q Consensus        17 ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~-----------   85 (110)
                      -++|+++|.+              .....+.||+.+..  +..++++|..|+.+..+.|.+++  |+-.           
T Consensus        57 k~iI~~a~~l--------------~~~A~NaLLK~LEE--Pp~~~~fiL~t~~~~~llpTI~S--Rc~~~~~~~~~~~~~  118 (206)
T PRK08485         57 KIIVIAAPSY--------------GIEAQNALLKILEE--PPKNICFIIVAKSKNLLLPTIRS--RLIIEKRKQKKPVKP  118 (206)
T ss_pred             EEEEEchHhh--------------CHHHHHHHHHHhcC--CCCCeEEEEEeCChHhCchHHHh--hheeccccccccccc
Confidence            3457788766              24466788988888  67789999999999999999999  8753           


Q ss_pred             -EEEecCCCHHHHHHHHHHH
Q psy13774         86 -LIYIPLPDEIWLILSDKFL  104 (110)
Q Consensus        86 -~i~~~~P~~~~R~~~~~~~  104 (110)
                       .+.+...+.++-..+++.+
T Consensus       119 l~l~l~~l~~~~i~~~L~~~  138 (206)
T PRK08485        119 LDLDLKKLDLKDIYEFLKEL  138 (206)
T ss_pred             cccccCCCCHHHHHHHHHHH
Confidence             4667777777776666554

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=95.76  E-value=0.045  Score=44.72  Aligned_cols=80  Identities=24%  Similarity=0.271  Sum_probs=58.0

Q ss_pred             HHhcC-CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC--C-C------CCCEEEEEecCCCC--------
Q psy13774         10 ARAAA-PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM--G-A------KKNVFIIGATNRPD--------   71 (110)
Q Consensus        10 A~~~~-P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~--~-~------~~~v~vi~ttn~~~--------   71 (110)
                      |-+.. .|||++||||.              .+..+++.||+-||.=  . +      -.+.++|+|||--.        
T Consensus       588 aVRr~PySViLlDEIEK--------------AHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN~Gs~~i~~~~~  653 (786)
T COG0542         588 AVRRKPYSVILLDEIEK--------------AHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNAGSEEILRDAD  653 (786)
T ss_pred             hhhcCCCeEEEechhhh--------------cCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEecccchHHHHhhcc
Confidence            44444 59999999993              3567889999998852  1 1      13688999988531        


Q ss_pred             --------------------CCCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         72 --------------------IIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        72 --------------------~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                                          ...|+++.  |+|..|.|.+.+.+.-..|....+
T Consensus       654 ~~~~~~~~~~~~~v~~~l~~~F~PEFLN--Rid~II~F~~L~~~~l~~Iv~~~L  705 (786)
T COG0542         654 GDDFADKEALKEAVMEELKKHFRPEFLN--RIDEIIPFNPLSKEVLERIVDLQL  705 (786)
T ss_pred             ccccchhhhHHHHHHHHHHhhCCHHHHh--hcccEEeccCCCHHHHHHHHHHHH
Confidence                                23466777  999999999999888777666554

>KOG0989|consensus

Probab=95.52  E-value=0.054  Score=39.93  Aligned_cols=62  Identities=19%  Similarity=0.229  Sum_probs=45.8

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEe-cCCCH
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYI-PLPDE   94 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~-~~P~~   94 (110)
                      -||++||+|.+.              ...-+.|..-|+.+  ...+.++..||+.+.|.+-+.+  |..+ +.| ++++.
T Consensus       131 KiiIlDEcdsmt--------------sdaq~aLrr~mE~~--s~~trFiLIcnylsrii~pi~S--RC~K-frFk~L~d~  191 (346)
T KOG0989|consen  131 KIIILDECDSMT--------------SDAQAALRRTMEDF--SRTTRFILICNYLSRIIRPLVS--RCQK-FRFKKLKDE  191 (346)
T ss_pred             eEEEEechhhhh--------------HHHHHHHHHHHhcc--ccceEEEEEcCChhhCChHHHh--hHHH-hcCCCcchH
Confidence            699999999884              22334677777773  5577888899999999999999  9865 555 44554


Q ss_pred             HH
Q psy13774         95 IW   96 (110)
Q Consensus        95 ~~   96 (110)
                      ..
T Consensus       192 ~i  193 (346)
T KOG0989|consen  192 DI  193 (346)
T ss_pred             HH
Confidence            43

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=95.07  E-value=0.08  Score=39.03  Aligned_cols=76  Identities=17%  Similarity=0.251  Sum_probs=42.4

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhc----CCC-------CCCEEEEEecCCCC------------
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDG----MGA-------KKNVFIIGATNRPD------------   71 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~----~~~-------~~~v~vi~ttn~~~------------   71 (110)
                      ..|++|||+|.+-.              .....+..-|++    +..       ..+.-|+|++|-..            
T Consensus       122 ~GiccIDe~dk~~~--------------~~~~~l~eaMEqq~isi~kagi~~~l~ar~svlaa~NP~~g~~~~~~~~~~n  187 (331)
T PF00493_consen  122 GGICCIDEFDKMKE--------------DDRDALHEAMEQQTISIAKAGIVTTLNARCSVLAAANPKFGRYDPNKSLSEN  187 (331)
T ss_dssp             TSEEEECTTTT--C--------------HHHHHHHHHHHCSCEEECTSSSEEEEE---EEEEEE--TT--S-TTS-CGCC
T ss_pred             Cceeeecccccccc--------------hHHHHHHHHHHcCeeccchhhhcccccchhhhHHHHhhhhhhcchhhhhHHh
Confidence            47999999997621              123344444543    111       34678899998766            


Q ss_pred             -CCCccccCCCccceEEEe-cCCCHHHHHHHHHHHhh
Q psy13774         72 -IIDPAILRPGRLDQLIYI-PLPDEIWLILSDKFLYK  106 (110)
Q Consensus        72 -~ld~al~r~grfd~~i~~-~~P~~~~R~~~~~~~~~  106 (110)
                       .+++.+++  |||-.+.+ +.||.+.=..+.++.++
T Consensus       188 i~l~~~LLS--RFDLif~l~D~~d~~~D~~la~~il~  222 (331)
T PF00493_consen  188 INLPPPLLS--RFDLIFLLRDKPDEEEDERLAEHILD  222 (331)
T ss_dssp             T-S-CCCHC--C-SEEECC--TTT-HHHHHHHHHHHT
T ss_pred             cccchhhHh--hcCEEEEeccccccccccccceEEEe
Confidence             58999999  99988775 77776665556555543

; 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.

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

Probab=94.95  E-value=0.43  Score=34.29  Aligned_cols=89  Identities=17%  Similarity=0.219  Sum_probs=57.6

Q ss_pred             HHHHHHHh-cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC-C-CCCCEEEEEecCCCCCCCcccc---
Q psy13774          5 TGASMARA-AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM-G-AKKNVFIIGATNRPDIIDPAIL---   78 (110)
Q Consensus         5 ~~F~~A~~-~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~-~-~~~~v~vi~ttn~~~~ld~al~---   78 (110)
                      .+++..+. ...-|||+||+-  +       ..    .......|...++|- . ...+|++-+|+|+-..++..+.   
T Consensus       129 ~l~~~Lr~~~~kFIlFcDDLS--F-------e~----gd~~yK~LKs~LeG~ve~rP~NVl~YATSNRRHLl~e~~~dn~  195 (287)
T COG2607         129 DLVELLRARPEKFILFCDDLS--F-------EE----GDDAYKALKSALEGGVEGRPANVLFYATSNRRHLLPEDMKDNE  195 (287)
T ss_pred             HHHHHHhcCCceEEEEecCCC--C-------CC----CchHHHHHHHHhcCCcccCCCeEEEEEecCCcccccHhhhhCC
Confidence            45555554 346899999864  1       11    111223444555552 2 3569999999999877774332   


Q ss_pred             -----------------CCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         79 -----------------RPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        79 -----------------r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                                       =+.||...+.|.+++.++=..+...|.+
T Consensus       196 ~~~~eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~  240 (287)
T COG2607         196 GSTGEIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYAK  240 (287)
T ss_pred             CcccccChhHHHHHhhchhhhcceeecccCCCHHHHHHHHHHHHH
Confidence                             1348999999999999888777776664

>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=94.94  E-value=0.095  Score=39.58  Aligned_cols=69  Identities=28%  Similarity=0.287  Sum_probs=36.5

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecC------------CCCCCCccccCCCc
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATN------------RPDIIDPAILRPGR   82 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn------------~~~~ld~al~r~gr   82 (110)
                      |.|+||||++-|             .. ..++-|-..++.   .---++|.+||            .|..+|..|+.  |
T Consensus       279 pGVLFIDEvHmL-------------Di-EcFsfLnralEs---~~sPiiIlATNRg~~~irGt~~~sphGiP~DlLD--R  339 (398)
T PF06068_consen  279 PGVLFIDEVHML-------------DI-ECFSFLNRALES---ELSPIIILATNRGITKIRGTDIISPHGIPLDLLD--R  339 (398)
T ss_dssp             E-EEEEESGGGS-------------BH-HHHHHHHHHHTS---TT--EEEEEES-SEEE-BTTS-EEETT--HHHHT--T
T ss_pred             cceEEecchhhc-------------cH-HHHHHHHHHhcC---CCCcEEEEecCceeeeccCccCcCCCCCCcchHh--h
Confidence            899999999976             12 233333333432   22235666666            45677888887  7


Q ss_pred             cceEEEecCCCHHHHHHHHHH
Q psy13774         83 LDQLIYIPLPDEIWLILSDKF  103 (110)
Q Consensus        83 fd~~i~~~~P~~~~R~~~~~~  103 (110)
                      + ..|...+.+.++-..|++.
T Consensus       340 l-lII~t~py~~~ei~~Il~i  359 (398)
T PF06068_consen  340 L-LIIRTKPYSEEEIKQILKI  359 (398)
T ss_dssp             E-EEEEE----HHHHHHHHHH
T ss_pred             c-EEEECCCCCHHHHHHHHHh
Confidence            6 5666667777665555543

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.

>PRK13531 regulatory ATPase RavA; Provisional

Probab=94.91  E-value=0.11  Score=40.38  Aligned_cols=70  Identities=14%  Similarity=0.153  Sum_probs=42.0

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC--------CCCCEEEEEecCCCCC---CCccccCCCccc
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG--------AKKNVFIIGATNRPDI---IDPAILRPGRLD   84 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~--------~~~~v~vi~ttn~~~~---ld~al~r~grfd   84 (110)
                      .++|+|||..+              .....+.|+..|+.-.        .-...++++|||....   ..+|+.-  ||-
T Consensus       109 ~lLfLDEI~ra--------------sp~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~ATN~LPE~g~~leAL~D--RFl  172 (498)
T PRK13531        109 EIVFLDEIWKA--------------GPAILNTLLTAINERRFRNGAHEEKIPMRLLVTASNELPEADSSLEALYD--RML  172 (498)
T ss_pred             cEEeecccccC--------------CHHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECCCCcccCCchHHhHh--hEE
Confidence            48999999632              3456667777774311        1122455555563321   2248888  998


Q ss_pred             eEEEecCCCH-HHHHHHH
Q psy13774         85 QLIYIPLPDE-IWLILSD  101 (110)
Q Consensus        85 ~~i~~~~P~~-~~R~~~~  101 (110)
                      ..+.+|+|+. +.-..++
T Consensus       173 iri~vp~l~~~~~e~~lL  190 (498)
T PRK13531        173 IRLWLDKVQDKANFRSML  190 (498)
T ss_pred             EEEECCCCCchHHHHHHH
Confidence            8999999973 4433333

>TIGR00368 Mg chelatase-related protein

Probab=94.87  E-value=0.091  Score=40.96  Aligned_cols=65  Identities=22%  Similarity=0.312  Sum_probs=44.1

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC-----------CCCCEEEEEecCCC-----C-------
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG-----------AKKNVFIIGATNRP-----D-------   71 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~-----------~~~~v~vi~ttn~~-----~-------   71 (110)
                      ..++||||++.+-              ......|...|+.-.           -..++.+|++||.-     .       
T Consensus       296 ~GvLfLDEi~e~~--------------~~~~~~L~~~LE~~~v~i~r~g~~~~~pa~frlIaa~Npcpcg~~~~~~~~c~  361 (499)
T TIGR00368       296 NGVLFLDELPEFK--------------RSVLDALREPIEDGSISISRASAKIFYPARFQLVAAMNPCPCGHYGGKNTHCR  361 (499)
T ss_pred             CCeEecCChhhCC--------------HHHHHHHHHHHHcCcEEEEecCcceeccCCeEEEEecCCcccCcCCCCccccc
Confidence            3799999999762              233444444443210           12478899999852     1       


Q ss_pred             -----------CCCccccCCCccceEEEecCCCHH
Q psy13774         72 -----------IIDPAILRPGRLDQLIYIPLPDEI   95 (110)
Q Consensus        72 -----------~ld~al~r~grfd~~i~~~~P~~~   95 (110)
                                 .+...++.  |||..+.++.++..
T Consensus       362 c~~~~~~~y~~~is~pllD--R~dl~~~~~~~~~~  394 (499)
T TIGR00368       362 CSPQQISRYWNKLSGPFLD--RIDLSVEVPLLPPE  394 (499)
T ss_pred             CCHHHHHHHhhhccHhHHh--hCCEEEEEcCCCHH
Confidence                       58888998  99999999877543

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

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

Probab=94.67  E-value=0.21  Score=37.84  Aligned_cols=70  Identities=26%  Similarity=0.284  Sum_probs=38.4

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCC------------CCCCCccccCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR------------PDIIDPAILRPG   81 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~------------~~~ld~al~r~g   81 (110)
                      =|.|+||||++-|             ..+ .++-|-..|..  .-.+ ++|.+||+            |..||..|+.  
T Consensus       291 VpGVLFIDEvHmL-------------DIE-~FsFlnrAlEs--e~aP-Iii~AtNRG~~kiRGTd~~sPhGIP~DlLD--  351 (450)
T COG1224         291 VPGVLFIDEVHML-------------DIE-CFSFLNRALES--ELAP-IIILATNRGMTKIRGTDIESPHGIPLDLLD--  351 (450)
T ss_pred             ecceEEEechhhh-------------hHH-HHHHHHHHhhc--ccCc-EEEEEcCCceeeecccCCcCCCCCCHhhhh--
Confidence            3899999999966             121 22222223322  1123 55556664            5677777776  


Q ss_pred             ccceEEEecCCCHHHHHHHHHH
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKF  103 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~  103 (110)
                      |+ ..|...+-+.++-++|++.
T Consensus       352 Rl-lII~t~py~~~EireIi~i  372 (450)
T COG1224         352 RL-LIISTRPYSREEIREIIRI  372 (450)
T ss_pred             he-eEEecCCCCHHHHHHHHHH
Confidence            65 3444444455555555543

>KOG0745|consensus

Probab=94.52  E-value=0.091  Score=40.60  Aligned_cols=84  Identities=24%  Similarity=0.351  Sum_probs=51.0

Q ss_pred             HHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC------C-----C--------CCEEEEEec
Q psy13774          7 ASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG------A-----K--------KNVFIIGAT   67 (110)
Q Consensus         7 F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~------~-----~--------~~v~vi~tt   67 (110)
                      |+.+++++ .||||||+|.+..+-.+-....+...+.+-..||+.+.+.-      .     .        .++++| ++
T Consensus       285 ~nVekAQq-GIVflDEvDKi~~~~~~i~~~RDVsGEGVQQaLLKllEGtvVnVpeK~~~~~~rgd~vqiDTtnILFi-as  362 (564)
T KOG0745|consen  285 YNVEKAQQ-GIVFLDEVDKITKKAESIHTSRDVSGEGVQQALLKLLEGTVVNVPEKGSRRKPRGDTVQIDTTNILFI-AS  362 (564)
T ss_pred             CCHHHHhc-CeEEEehhhhhcccCccccccccccchhHHHHHHHHhcccEEcccCCCCCCCCCCCeEEEeccceEEE-ec
Confidence            44555554 79999999999865544332223344556677888887630      0     1        123333 33


Q ss_pred             CCCCCCCccccCCCcc-ceEEEecCCCH
Q psy13774         68 NRPDIIDPAILRPGRL-DQLIYIPLPDE   94 (110)
Q Consensus        68 n~~~~ld~al~r~grf-d~~i~~~~P~~   94 (110)
                      -....||.-+-|  |. |..+-|+.|+.
T Consensus       363 GAF~~Ldk~I~r--R~~d~slGFg~~s~  388 (564)
T KOG0745|consen  363 GAFVGLDKIISR--RLDDKSLGFGAPSS  388 (564)
T ss_pred             ccccchHHHHHH--hhcchhcccCCCCC
Confidence            445678877776  65 56778888844

>KOG2028|consensus

Probab=94.25  E-value=0.14  Score=39.07  Aligned_cols=73  Identities=22%  Similarity=0.320  Sum_probs=46.2

Q ss_pred             HHHHHHHHHhc-----CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecC-CC-CCCCc
Q psy13774          3 IATGASMARAA-----APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATN-RP-DIIDP   75 (110)
Q Consensus         3 l~~~F~~A~~~-----~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn-~~-~~ld~   75 (110)
                      ++++|+.|+..     ..+|+|||||+.+......              .||-.   + +.+.+.+||+|. +| -.+..
T Consensus       206 vR~ife~aq~~~~l~krkTilFiDEiHRFNksQQD--------------~fLP~---V-E~G~I~lIGATTENPSFqln~  267 (554)
T KOG2028|consen  206 VRDIFEQAQNEKSLTKRKTILFIDEIHRFNKSQQD--------------TFLPH---V-ENGDITLIGATTENPSFQLNA  267 (554)
T ss_pred             HHHHHHHHHHHHhhhcceeEEEeHHhhhhhhhhhh--------------cccce---e-ccCceEEEecccCCCccchhH
Confidence            67899998853     3689999999987422211              13222   2 456778887764 44 47889


Q ss_pred             cccCCCccceEEEecCCCHHH
Q psy13774         76 AILRPGRLDQLIYIPLPDEIW   96 (110)
Q Consensus        76 al~r~grfd~~i~~~~P~~~~   96 (110)
                      +|++  |+ +.+.+...+...
T Consensus       268 aLlS--RC-~VfvLekL~~n~  285 (554)
T KOG2028|consen  268 ALLS--RC-RVFVLEKLPVNA  285 (554)
T ss_pred             HHHh--cc-ceeEeccCCHHH
Confidence            9999  76 334444444444

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

Probab=94.20  E-value=0.63  Score=32.57  Aligned_cols=28  Identities=7%  Similarity=-0.218  Sum_probs=21.1

Q ss_pred             cccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         76 AILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        76 al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      .+.+  |+...+++++.+.++-..++...+
T Consensus       178 ~l~~--r~~~~~~l~~l~~~e~~~~l~~~l  205 (269)
T TIGR03015       178 QLRQ--RIIASCHLGPLDREETREYIEHRL  205 (269)
T ss_pred             HHHh--heeeeeeCCCCCHHHHHHHHHHHH
Confidence            3555  788889999999888777666554

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.

>KOG1514|consensus

Probab=94.08  E-value=0.22  Score=40.36  Aligned_cols=81  Identities=17%  Similarity=0.174  Sum_probs=52.4

Q ss_pred             hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccC--CCccc-eEEE
Q psy13774         12 AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILR--PGRLD-QLIY   88 (110)
Q Consensus        12 ~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r--~grfd-~~i~   88 (110)
                      ...|+||+|||+|.|+..           .+.++..|..|-..  .+.+++||+-.|..+....-+.-  .-|++ .+|.
T Consensus       506 ~~~~~VvLiDElD~Lvtr-----------~QdVlYn~fdWpt~--~~sKLvvi~IaNTmdlPEr~l~nrvsSRlg~tRi~  572 (767)
T KOG1514|consen  506 KRSTTVVLIDELDILVTR-----------SQDVLYNIFDWPTL--KNSKLVVIAIANTMDLPERLLMNRVSSRLGLTRIC  572 (767)
T ss_pred             CCCCEEEEeccHHHHhcc-----------cHHHHHHHhcCCcC--CCCceEEEEecccccCHHHHhccchhhhccceeee
Confidence            345899999999999743           24566667666544  56788999888886544333321  01333 4677


Q ss_pred             ecCCCHHHHHHHHHHHh
Q psy13774         89 IPLPDEIWLILSDKFLY  105 (110)
Q Consensus        89 ~~~P~~~~R~~~~~~~~  105 (110)
                      |.+-+..|-..|...-+
T Consensus       573 F~pYth~qLq~Ii~~RL  589 (767)
T KOG1514|consen  573 FQPYTHEQLQEIISARL  589 (767)
T ss_pred             cCCCCHHHHHHHHHHhh
Confidence            77777777666655433

>KOG1942|consensus

Probab=94.08  E-value=0.33  Score=36.08  Aligned_cols=70  Identities=26%  Similarity=0.369  Sum_probs=37.6

Q ss_pred             hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCC-------------CCCCCcccc
Q psy13774         12 AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR-------------PDIIDPAIL   78 (110)
Q Consensus        12 ~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~-------------~~~ld~al~   78 (110)
                      +.-|.++||||++-|             . -..++.|-..+.+  .-.+ +||.+||+             |..+++.++
T Consensus       294 ElvPGVLFIDEVhML-------------D-iEcFTyL~kalES--~iaP-ivifAsNrG~~~irGt~d~~sPhGip~dll  356 (456)
T KOG1942|consen  294 ELVPGVLFIDEVHML-------------D-IECFTYLHKALES--PIAP-IVIFASNRGMCTIRGTEDILSPHGIPPDLL  356 (456)
T ss_pred             hhcCcceEeeehhhh-------------h-hHHHHHHHHHhcC--CCCc-eEEEecCCcceeecCCcCCCCCCCCCHHHh
Confidence            445999999999965             1 1233344344433  1223 44555554             456666666


Q ss_pred             CCCccceEEEecCCCHHHHHHH
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILS  100 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~  100 (110)
                      .  |+=-.=..+.++.+.|..|
T Consensus       357 D--Rl~Iirt~~y~~~e~r~Ii  376 (456)
T KOG1942|consen  357 D--RLLIIRTLPYDEEEIRQII  376 (456)
T ss_pred             h--heeEEeeccCCHHHHHHHH
Confidence            6  6532223344555556544

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

Probab=93.99  E-value=0.23  Score=36.40  Aligned_cols=42  Identities=19%  Similarity=0.150  Sum_probs=35.8

Q ss_pred             CCEEEEEecCCCCCCCccccCCCccceEEEecCCCHHHHHHHHH
Q psy13774         59 KNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDK  102 (110)
Q Consensus        59 ~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~  102 (110)
                      .+.-+||+|.+.-.|..-|+.  ||.....+..-+.++-..|.+
T Consensus       150 ppFTLIGATTr~G~lt~PLrd--RFGi~~rlefY~~~eL~~Iv~  191 (332)
T COG2255         150 PPFTLIGATTRAGMLTNPLRD--RFGIIQRLEFYTVEELEEIVK  191 (332)
T ss_pred             CCeeEeeeccccccccchhHH--hcCCeeeeecCCHHHHHHHHH
Confidence            468899999999999999999  999999998888777665544

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=93.97  E-value=0.35  Score=40.33  Aligned_cols=43  Identities=19%  Similarity=0.145  Sum_probs=30.8

Q ss_pred             CCEEEEEecCCC-------------CCCCccccCCCccceEEEe-cCCCHHHHHHHHHH
Q psy13774         59 KNVFIIGATNRP-------------DIIDPAILRPGRLDQLIYI-PLPDEIWLILSDKF  103 (110)
Q Consensus        59 ~~v~vi~ttn~~-------------~~ld~al~r~grfd~~i~~-~~P~~~~R~~~~~~  103 (110)
                      .++-||||+|-.             -.+++++++  |||....+ +.|+.+.=..+-++
T Consensus       599 ar~rVIAAaNP~~gryd~~~s~~eni~Lp~~LLS--RFDLIf~l~D~~d~~~D~~lA~h  655 (915)
T PTZ00111        599 AETAILASCNPINSRYNKNKAVIENINISPSLFT--RFDLIYLVLDHIDQDTDQLISLS  655 (915)
T ss_pred             CCeEEEEEcCCcccccCcccCcccccCCChHHhh--hhcEEEEecCCCChHHHHHHHHH
Confidence            578899999974             257799999  99987544 77876654444443

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=93.46  E-value=0.25  Score=39.34  Aligned_cols=65  Identities=9%  Similarity=0.012  Sum_probs=47.1

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC-----------CCCCCEEEEEecCCC---CCCCccccCCC
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM-----------GAKKNVFIIGATNRP---DIIDPAILRPG   81 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~-----------~~~~~v~vi~ttn~~---~~ld~al~r~g   81 (110)
                      .|+|+||+..+              ..++++.|+.-|+.=           .-..++++|++-|..   ..++++++.  
T Consensus        95 GvL~lDe~n~~--------------~~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~~~~~L~~~lLD--  158 (584)
T PRK13406         95 GVLVLAMAERL--------------EPGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAEEDERAPAALAD--  158 (584)
T ss_pred             CEEEecCcccC--------------CHHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChhcccCCCHHhHh--
Confidence            69999999866              345677777777631           112468888874322   458999999  


Q ss_pred             ccceEEEecCCCHHH
Q psy13774         82 RLDQLIYIPLPDEIW   96 (110)
Q Consensus        82 rfd~~i~~~~P~~~~   96 (110)
                      ||+..|.++.|+..+
T Consensus       159 Rf~l~v~v~~~~~~~  173 (584)
T PRK13406        159 RLAFHLDLDGLALRD  173 (584)
T ss_pred             heEEEEEcCCCChHH
Confidence            999999999888553

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=93.40  E-value=0.38  Score=30.43  Aligned_cols=64  Identities=16%  Similarity=0.181  Sum_probs=35.0

Q ss_pred             HHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCC
Q psy13774          6 GASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDII   73 (110)
Q Consensus         6 ~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~l   73 (110)
                      +...+....|.+++|||+..+..................+..+....    ...++.+|++++.....
T Consensus        77 ~~~~~~~~~~~~lviDe~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~----~~~~~~vv~~~~~~~~~  140 (165)
T cd01120          77 AERLRERGGDDLIILDELTRLVRALREIREGYPGELDEELRELLERA----RKGGVTVIFTLQVPSGD  140 (165)
T ss_pred             HHHHHhCCCCEEEEEEcHHHHHHHHHHHHhcCChHHHHHHHHHHHHH----hcCCceEEEEEecCCcc
Confidence            45667788899999999999875432100111112223333333333    23455666666655433

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=93.27  E-value=0.23  Score=35.74  Aligned_cols=81  Identities=23%  Similarity=0.376  Sum_probs=44.4

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhh-hc--CCC--------CCCEEEEEecCCCC---CCCccccC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEM-DG--MGA--------KKNVFIIGATNRPD---IIDPAILR   79 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~l-d~--~~~--------~~~v~vi~ttn~~~---~ld~al~r   79 (110)
                      ..+|+||||+..-.....++        ...+ +||.++ +.  +..        -.++.++||++.+.   .+++.++|
T Consensus       100 k~lv~fiDDlN~p~~d~ygt--------q~~i-ElLRQ~i~~~g~yd~~~~~~~~i~~i~~vaa~~p~~Gr~~is~R~~r  170 (272)
T PF12775_consen  100 KKLVLFIDDLNMPQPDKYGT--------QPPI-ELLRQLIDYGGFYDRKKLEWKSIEDIQFVAAMNPTGGRNPISPRFLR  170 (272)
T ss_dssp             SEEEEEEETTT-S---TTS----------HHH-HHHHHHHHCSEEECTTTTEEEEECSEEEEEEESSTTT--SHHHHHHT
T ss_pred             cEEEEEecccCCCCCCCCCC--------cCHH-HHHHHHHHhcCcccCCCcEEEEEeeeEEEEecCCCCCCCCCChHHhh
Confidence            45799999998554433322        2222 344332 21  111        13688889887532   47788887


Q ss_pred             CCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         80 PGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        80 ~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                        .| ..+.++.|+.+.=..|+..++.
T Consensus       171 --~f-~i~~~~~p~~~sl~~If~~il~  194 (272)
T PF12775_consen  171 --HF-NILNIPYPSDESLNTIFSSILQ  194 (272)
T ss_dssp             --TE-EEEE----TCCHHHHHHHHHHH
T ss_pred             --he-EEEEecCCChHHHHHHHHHHHh
Confidence              77 5799999998877666665554

>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=93.08  E-value=0.32  Score=35.04  Aligned_cols=77  Identities=18%  Similarity=0.178  Sum_probs=45.8

Q ss_pred             hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCc----------------
Q psy13774         12 AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDP----------------   75 (110)
Q Consensus        12 ~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~----------------   75 (110)
                      ...+-||+|||+|.+-+.          ..    .+++..+..+-...++++|.+.+.- .+-.                
T Consensus       170 ~~~~iViiIDdLDR~~~~----------~i----~~~l~~ik~~~~~~~i~~Il~~D~~-~l~~ai~~~~~~~~~~~~~~  234 (325)
T PF07693_consen  170 SKKRIVIIIDDLDRCSPE----------EI----VELLEAIKLLLDFPNIIFILAFDPE-ILEKAIEKNYGEGFDEIDGR  234 (325)
T ss_pred             CCceEEEEEcchhcCCcH----------HH----HHHHHHHHHhcCCCCeEEEEEecHH-HHHHHHHhhcCcccccccHH
Confidence            356789999999977211          12    2344444444344778888776532 2222                


Q ss_pred             cccCCCccceEEEecCCCHHHHHHHHHHH
Q psy13774         76 AILRPGRLDQLIYIPLPDEIWLILSDKFL  104 (110)
Q Consensus        76 al~r~grfd~~i~~~~P~~~~R~~~~~~~  104 (110)
                      ..+. --|+..+.+|.|+..+-..++..+
T Consensus       235 ~yLe-Kiiq~~~~lP~~~~~~~~~~~~~~  262 (325)
T PF07693_consen  235 EYLE-KIIQVPFSLPPPSPSDLERYLNEL  262 (325)
T ss_pred             HHHH-hhcCeEEEeCCCCHHHHHHHHHHH
Confidence            2221 146788999999988766555444

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 [].

>KOG2228|consensus

Probab=92.86  E-value=0.19  Score=37.66  Aligned_cols=76  Identities=21%  Similarity=0.271  Sum_probs=45.8

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC-CCCCEEEEEecCCCCCCC---ccccCCCccceE-EEe
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG-AKKNVFIIGATNRPDIID---PAILRPGRLDQL-IYI   89 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~-~~~~v~vi~ttn~~~~ld---~al~r~grfd~~-i~~   89 (110)
                      |.|.++||+|.+++-.           ++++  +-+.+|-.. ...++.+||.|.+.+.++   .-+.+  ||.++ |++
T Consensus       138 ~ViFIldEfDlf~~h~-----------rQtl--lYnlfDisqs~r~Piciig~Ttrld~lE~LEKRVKS--RFshr~I~m  202 (408)
T KOG2228|consen  138 KVIFILDEFDLFAPHS-----------RQTL--LYNLFDISQSARAPICIIGVTTRLDILELLEKRVKS--RFSHRVIFM  202 (408)
T ss_pred             eEEEEeehhhccccch-----------hhHH--HHHHHHHHhhcCCCeEEEEeeccccHHHHHHHHHHh--hcccceeec
Confidence            4566667999886432           1111  223333321 357999999999987655   67778  99887 777


Q ss_pred             cCCC-HHHHHHHHHHHh
Q psy13774         90 PLPD-EIWLILSDKFLY  105 (110)
Q Consensus        90 ~~P~-~~~R~~~~~~~~  105 (110)
                      ++|- .++=..+++.++
T Consensus       203 ~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  203 LPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             cCCCChHHHHHHHHHHh
Confidence            5543 333334444443

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=92.85  E-value=0.35  Score=38.64  Aligned_cols=44  Identities=18%  Similarity=0.311  Sum_probs=31.7

Q ss_pred             CEEEEEecCCC--CCCCccccCCCccc---eEEEec--CCC-HHHHHHHHHHHh
Q psy13774         60 NVFIIGATNRP--DIIDPAILRPGRLD---QLIYIP--LPD-EIWLILSDKFLY  105 (110)
Q Consensus        60 ~v~vi~ttn~~--~~ld~al~r~grfd---~~i~~~--~P~-~~~R~~~~~~~~  105 (110)
                      ++.+|+++|..  ..+||+++.  ||+   .+++++  .|+ .+.|..+.+++.
T Consensus       268 dvrvIa~~~~~~l~~l~~~l~~--rf~~y~v~v~~~~~~~~~~e~~~~~~~~i~  319 (608)
T TIGR00764       268 DFILVASGNLDDLEGMHPALRS--RIRGYGYEVYMKDTMPDTPENRDKLVQFVA  319 (608)
T ss_pred             ceEEEEECCHHHHhhcCHHHHH--HhcCCeEEEEeeccCCCCHHHHHHHHHHHH
Confidence            67888998864  689999999  999   666663  344 555666666543

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PF13304 AAA_21: AAA domain; PDB: 3QKS_B 1US8_B 1F2U_B 1F2T_B 3QKT_A 1II8_B 3QKR_B 3QKU_A

Probab=92.51  E-value=0.28  Score=32.81  Aligned_cols=45  Identities=22%  Similarity=0.381  Sum_probs=26.2

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCC
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIID   74 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld   74 (110)
                      ++++|||.|.-+..             .....++..+..... .++=||.||+.|.-||
T Consensus       259 ~illiDEpE~~LHp-------------~~q~~l~~~l~~~~~-~~~QviitTHSp~ild  303 (303)
T PF13304_consen  259 SILLIDEPENHLHP-------------SWQRKLIELLKELSK-KNIQVIITTHSPFILD  303 (303)
T ss_dssp             SEEEEESSSTTSSH-------------HHHHHHHHHHHHTGG-GSSEEEEEES-GGG--
T ss_pred             eEEEecCCcCCCCH-------------HHHHHHHHHHHhhCc-cCCEEEEeCccchhcC
Confidence            89999999965422             233334444444322 4556789999887654

>CHL00195 ycf46 Ycf46; Provisional

Probab=92.45  E-value=1.3  Score=34.60  Aligned_cols=74  Identities=16%  Similarity=0.234  Sum_probs=48.9

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      |+|+++.|++.++.+.         ...+.+..+......   ..+.+|+.+.+  ..+|+.+.+   +-..+.+++|+.
T Consensus        82 ~~~~vl~d~h~~~~~~---------~~~r~l~~l~~~~~~---~~~~~i~~~~~--~~~p~el~~---~~~~~~~~lP~~  144 (489)
T CHL00195         82 PALFLLKDFNRFLNDI---------SISRKLRNLSRILKT---QPKTIIIIASE--LNIPKELKD---LITVLEFPLPTE  144 (489)
T ss_pred             CcEEEEecchhhhcch---------HHHHHHHHHHHHHHh---CCCEEEEEcCC--CCCCHHHHh---ceeEEeecCcCH
Confidence            7899999999998211         234444445444433   44455555543  567777775   446789999999


Q ss_pred             HHHHHHHHHHh
Q psy13774         95 IWLILSDKFLY  105 (110)
Q Consensus        95 ~~R~~~~~~~~  105 (110)
                      ++...+++.+.
T Consensus       145 ~ei~~~l~~~~  155 (489)
T CHL00195        145 SEIKKELTRLI  155 (489)
T ss_pred             HHHHHHHHHHH
Confidence            99887766554

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=92.02  E-value=0.27  Score=33.33  Aligned_cols=66  Identities=11%  Similarity=0.124  Sum_probs=36.8

Q ss_pred             HHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCC
Q psy13774          5 TGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDII   73 (110)
Q Consensus         5 ~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~l   73 (110)
                      .+...+....|++|+||-+.+++.........   ...+.+..++..+..+....++.++.+.......
T Consensus        88 ~l~~~~~~~~~~lvVIDSis~l~~~~~~~~~~---~~~~~l~~~~~~L~~~~~~~~v~vl~t~~~~~~~  153 (209)
T TIGR02237        88 KTSKFIDRDSASLVVVDSFTALYRLELSDDRI---SRNRELARQLTLLLSLARKKNLAVVITNQVYTDV  153 (209)
T ss_pred             HHHHHHhhcCccEEEEeCcHHHhHHHhCCccH---HHHHHHHHHHHHHHHHHHHcCCEEEEEcccEEec
Confidence            34445566689999999999987532111110   1222344444445555456677777765543333

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PHA00012 I assembly protein

Probab=91.46  E-value=0.28  Score=36.62  Aligned_cols=57  Identities=18%  Similarity=0.070  Sum_probs=40.4

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILR   79 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r   79 (110)
                      .-+|+++||+...++.|..+...    ...    ++.++.. ....+.-++.+|.+|..+|..++.
T Consensus        81 ~gsLlVlDEaq~~fp~R~~~sk~----p~~----vie~l~~-hRh~G~DvilITQ~ps~VDs~IR~  137 (361)
T PHA00012         81 KNGLLVLDECGTWFNSRSWNDKE----RQP----VIDWFLH-ARKLGWDIIFIIQDISIMDKQARE  137 (361)
T ss_pred             CCcEEEEECcccccCCCCcCcCC----cHH----HHHHHHH-hccCCceEEEEcCCHHHHhHHHHH
Confidence            45799999999999999755422    111    2232322 245678899999999999998874

>PF13173 AAA_14: AAA domain

Probab=91.24  E-value=1  Score=28.23  Aligned_cols=64  Identities=19%  Similarity=0.169  Sum_probs=33.1

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCC--CccccCCCccceEEEecC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDII--DPAILRPGRLDQLIYIPL   91 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~l--d~al~r~grfd~~i~~~~   91 (110)
                      .+.+|||||+..+-            .....+..+.   |.   ..++-++.|++....+  +-+-.=+||.. .+++.+
T Consensus        61 ~~~~i~iDEiq~~~------------~~~~~lk~l~---d~---~~~~~ii~tgS~~~~l~~~~~~~l~gr~~-~~~l~P  121 (128)
T PF13173_consen   61 GKKYIFIDEIQYLP------------DWEDALKFLV---DN---GPNIKIILTGSSSSLLSKDIAESLAGRVI-EIELYP  121 (128)
T ss_pred             CCcEEEEehhhhhc------------cHHHHHHHHH---Hh---ccCceEEEEccchHHHhhcccccCCCeEE-EEEECC
Confidence            67899999999661            2223333333   32   1233344444433333  22222336874 678887


Q ss_pred             CCHHH
Q psy13774         92 PDEIW   96 (110)
Q Consensus        92 P~~~~   96 (110)
                      .+..+
T Consensus       122 lsf~E  126 (128)
T PF13173_consen  122 LSFRE  126 (128)
T ss_pred             CCHHH
Confidence            77654

>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=91.23  E-value=0.42  Score=30.88  Aligned_cols=52  Identities=21%  Similarity=0.353  Sum_probs=30.4

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC---------CCCCCEEEEEecCCCC-----CCCccccCCC
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM---------GAKKNVFIIGATNRPD-----IIDPAILRPG   81 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~---------~~~~~v~vi~ttn~~~-----~ld~al~r~g   81 (110)
                      .|+++|||..-              .-++-+.++..|.+-         .-..+.+||||-|..+     .++.|++.  
T Consensus        64 ~ill~DEiNra--------------ppktQsAlLeam~Er~Vt~~g~~~~lp~pf~ViATqNp~e~~Gty~Lpea~~D--  127 (131)
T PF07726_consen   64 NILLADEINRA--------------PPKTQSALLEAMEERQVTIDGQTYPLPDPFFVIATQNPVEQEGTYPLPEAQLD--  127 (131)
T ss_dssp             SEEEEETGGGS---------------HHHHHHHHHHHHHSEEEETTEEEE--SS-EEEEEE-TT--S------HHHHT--
T ss_pred             ceeeecccccC--------------CHHHHHHHHHHHHcCeEEeCCEEEECCCcEEEEEecCccccCceecCCHHHhc--
Confidence            48999998743              344556677776542         1235689999999776     67777777  


Q ss_pred             cc
Q psy13774         82 RL   83 (110)
Q Consensus        82 rf   83 (110)
                      ||
T Consensus       128 RF  129 (131)
T PF07726_consen  128 RF  129 (131)
T ss_dssp             TS
T ss_pred             cc
Confidence            76

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.

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=91.18  E-value=0.76  Score=28.36  Aligned_cols=48  Identities=17%  Similarity=0.255  Sum_probs=28.4

Q ss_pred             HHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEec
Q psy13774          5 TGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGAT   67 (110)
Q Consensus         5 ~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~tt   67 (110)
                      .+.+........+|+|||+|.+. +            ...++.+....+  ...-+++++|+.
T Consensus        78 ~~~~~l~~~~~~~lviDe~~~l~-~------------~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   78 LLIDALDRRRVVLLVIDEADHLF-S------------DEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHHHHHCTEEEEEEETTHHHH-T------------HHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HHHHHHHhcCCeEEEEeChHhcC-C------------HHHHHHHHHHHh--CCCCeEEEEECh
Confidence            34444555555699999999975 1            335555555555  223356666654

>KOG1051|consensus

Probab=90.93  E-value=0.5  Score=39.39  Aligned_cols=88  Identities=25%  Similarity=0.305  Sum_probs=55.8

Q ss_pred             cHHHHHHHHH-hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC-----CCCc
Q psy13774          2 RIATGASMAR-AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD-----IIDP   75 (110)
Q Consensus         2 ~l~~~F~~A~-~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~-----~ld~   75 (110)
                      +++.+-+.+. .....|+||||++.+.....+.      ......+-|.-.+    ..+++.+||||..-+     .-||
T Consensus       267 rlk~l~k~v~~~~~gvILfigelh~lvg~g~~~------~~~d~~nlLkp~L----~rg~l~~IGatT~e~Y~k~iekdP  336 (898)
T KOG1051|consen  267 RLKELLKEVESGGGGVILFLGELHWLVGSGSNY------GAIDAANLLKPLL----ARGGLWCIGATTLETYRKCIEKDP  336 (898)
T ss_pred             HHHHHHHHHhcCCCcEEEEecceeeeecCCCcc------hHHHHHHhhHHHH----hcCCeEEEecccHHHHHHHHhhCc
Confidence            4556666666 4456899999999998766441      1222222222222    234489999988433     4689


Q ss_pred             cccCCCccceEEEecCCCHHHHHHHHH
Q psy13774         76 AILRPGRLDQLIYIPLPDEIWLILSDK  102 (110)
Q Consensus        76 al~r~grfd~~i~~~~P~~~~R~~~~~  102 (110)
                      ++-|  ||+. +.++.|+.+.=..++.
T Consensus       337 alEr--rw~l-~~v~~pS~~~~~~iL~  360 (898)
T KOG1051|consen  337 ALER--RWQL-VLVPIPSVENLSLILP  360 (898)
T ss_pred             chhh--Ccce-eEeccCcccchhhhhh
Confidence            9999  9965 7788888665333443

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=90.81  E-value=0.54  Score=33.09  Aligned_cols=66  Identities=17%  Similarity=0.257  Sum_probs=36.6

Q ss_pred             HHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCcc
Q psy13774          4 ATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRL   83 (110)
Q Consensus         4 ~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grf   83 (110)
                      |-+.++|-.+.|.||+-||=         +. .-+......+-.++   ..+....+..+|..|+++     .+-.  +.
T Consensus       150 RVAIARAL~~~P~iilADEP---------Tg-nLD~~t~~~V~~ll---~~~~~~~g~tii~VTHd~-----~lA~--~~  209 (226)
T COG1136         150 RVAIARALINNPKIILADEP---------TG-NLDSKTAKEVLELL---RELNKERGKTIIMVTHDP-----ELAK--YA  209 (226)
T ss_pred             HHHHHHHHhcCCCeEEeeCc---------cc-cCChHHHHHHHHHH---HHHHHhcCCEEEEEcCCH-----HHHH--hC
Confidence            34567788899999999982         11 11112222333333   333334455666667754     3444  66


Q ss_pred             ceEEEe
Q psy13774         84 DQLIYI   89 (110)
Q Consensus        84 d~~i~~   89 (110)
                      |+.|++
T Consensus       210 dr~i~l  215 (226)
T COG1136         210 DRVIEL  215 (226)
T ss_pred             CEEEEE
Confidence            777766

>KOG0732|consensus

Probab=89.75  E-value=0.43  Score=40.39  Aligned_cols=88  Identities=14%  Similarity=0.116  Sum_probs=53.4

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCc
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGR   82 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~gr   82 (110)
                      |..+|..|+++.||||||-++|.-.....          ..+...|+..++.......+..+-+-+.-+--++       
T Consensus       642 iv~i~~eaR~~~psi~~ip~~d~w~~~~p----------~s~~~~~~~~l~~~~~~t~i~e~~t~~~~~~~~~-------  704 (1080)
T KOG0732|consen  642 IVHIFMEARKTTPSIVFIPNVDEWARVIP----------VSFLEEFLSSLDEKALSTPILELHTWDTSFESVN-------  704 (1080)
T ss_pred             HHHHHHHHhccCCceeeccchhhhhhcCc----------chhhhcchhcchhhhhccchhhhccccccccccC-------
Confidence            56789999999999999999996543332          2234445555554433444443333222111001       


Q ss_pred             cceEEEecCCCHHHHHHHHHHHhhcc
Q psy13774         83 LDQLIYIPLPDEIWLILSDKFLYKRK  108 (110)
Q Consensus        83 fd~~i~~~~P~~~~R~~~~~~~~~~~  108 (110)
                       ...+.+..|+...+..+++..++++
T Consensus       705 -~~~~t~~~p~~~s~~~ff~r~I~~~  729 (1080)
T KOG0732|consen  705 -KSVVTLSKPSAESTGAFFKRLIRKI  729 (1080)
T ss_pred             -ccccccccchhhhhHHHHHHHHHHH
Confidence             1345677888888888888777643

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=89.58  E-value=0.65  Score=33.13  Aligned_cols=26  Identities=27%  Similarity=0.374  Sum_probs=23.5

Q ss_pred             CcHHHHHHHHHhcCCeEEEEcccccc
Q psy13774          1 MRIATGASMARAAAPCVLFFDELDSI   26 (110)
Q Consensus         1 ~~l~~~F~~A~~~~P~ii~iDeiD~l   26 (110)
                      |+.|-+|..|....|.|+++||+=+.
T Consensus       152 M~aRLaFsia~~~~pdILllDEvlav  177 (249)
T COG1134         152 MYARLAFSVATHVEPDILLLDEVLAV  177 (249)
T ss_pred             HHHHHHHhhhhhcCCCEEEEehhhhc
Confidence            67889999999999999999998655

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=89.35  E-value=0.74  Score=34.64  Aligned_cols=68  Identities=26%  Similarity=0.364  Sum_probs=38.9

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC-----CC----CCCEEEEEecCCCCCCCccccCCCccc
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM-----GA----KKNVFIIGATNRPDIIDPAILRPGRLD   84 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~-----~~----~~~v~vi~ttn~~~~ld~al~r~grfd   84 (110)
                      .+.++||||+|.+...              .-..++..++.-     ..    ..++-+|++|+..-   .....+|+|.
T Consensus       233 ~~gtl~ldei~~l~~~--------------~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~~---~~~~~~~~~~  295 (441)
T PRK10365        233 DGGTLFLDEIGDISPM--------------MQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDL---AAEVNAGRFR  295 (441)
T ss_pred             CCCEEEEeccccCCHH--------------HHHHHHHHHccCcEEeCCCCceeeeceEEEEeCCCCH---HHHHHcCCch
Confidence            4678999999988422              112333333321     11    12456777776532   2344557775


Q ss_pred             e-------EEEecCCCHHHHH
Q psy13774         85 Q-------LIYIPLPDEIWLI   98 (110)
Q Consensus        85 ~-------~i~~~~P~~~~R~   98 (110)
                      .       .+.+.+|.-.+|.
T Consensus       296 ~~l~~~l~~~~i~~ppLreR~  316 (441)
T PRK10365        296 QDLYYRLNVVAIEVPSLRQRR  316 (441)
T ss_pred             HHHHHHhccceecCCChhhcc
Confidence            3       5677778777774

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=88.78  E-value=1.5  Score=27.78  Aligned_cols=14  Identities=21%  Similarity=0.501  Sum_probs=12.1

Q ss_pred             cCCeEEEEcccccc
Q psy13774         13 AAPCVLFFDELDSI   26 (110)
Q Consensus        13 ~~P~ii~iDeiD~l   26 (110)
                      ..+..+||+|+|.+
T Consensus        68 a~~gtL~l~~i~~L   81 (138)
T PF14532_consen   68 AKGGTLYLKNIDRL   81 (138)
T ss_dssp             CTTSEEEEECGCCS
T ss_pred             cCCCEEEECChHHC
Confidence            37789999999988

>smart00763 AAA_PrkA PrkA AAA domain

Probab=88.60  E-value=2.3  Score=31.99  Aligned_cols=74  Identities=18%  Similarity=0.138  Sum_probs=49.7

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC--C--C-----CCCEEEEEecCCCC-------CCCccccC
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM--G--A-----KKNVFIIGATNRPD-------IIDPAILR   79 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~--~--~-----~~~v~vi~ttn~~~-------~ld~al~r   79 (110)
                      .|+-|+|++..              ...++..||+.++.-  .  +     .-..++|++||..+       ....|+++
T Consensus       238 Gi~~f~Ei~K~--------------~~~~l~~LL~~~qE~~v~~~~~~~~~~~d~liia~sNe~e~~~~~~~k~~eaf~d  303 (361)
T smart00763      238 GILEFVEMFKA--------------DIKFLHPLLTATQEGNIKGTGGFAMIPIDGLIIAHSNESEWQRFKSNKKNEALLD  303 (361)
T ss_pred             ceEEEeehhcC--------------CHHHHHHHhhhhhcceEecCCcccccccceEEEEeCCHHHHhhhhccccchhhhh
Confidence            56777777633              355777888777742  1  1     12468999999883       66889999


Q ss_pred             CCccceEEEecCCCH-HHHHHHHHHHhh
Q psy13774         80 PGRLDQLIYIPLPDE-IWLILSDKFLYK  106 (110)
Q Consensus        80 ~grfd~~i~~~~P~~-~~R~~~~~~~~~  106 (110)
                        |+. .|.++.|-. .+-..|.+..+.
T Consensus       304 --R~~-~i~vpY~l~~~~E~~Iy~k~~~  328 (361)
T smart00763      304 --RII-KVKVPYCLRVSEEAQIYEKLLR  328 (361)
T ss_pred             --ceE-EEeCCCcCCHHHHHHHHHHHhc
Confidence              997 788888763 344456655543

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>TIGR00602 rad24 checkpoint protein rad24

Probab=88.19  E-value=8.1  Score=31.34  Aligned_cols=14  Identities=7%  Similarity=0.233  Sum_probs=11.9

Q ss_pred             CCeEEEEccccccc
Q psy13774         14 APCVLFFDELDSIA   27 (110)
Q Consensus        14 ~P~ii~iDeiD~l~   27 (110)
                      ...||||||+|.++
T Consensus       195 ~~~IILIDEiPn~~  208 (637)
T TIGR00602       195 DKKIILVEDLPNQF  208 (637)
T ss_pred             ceeEEEeecchhhc
Confidence            46799999999875

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

>KOG2680|consensus

Probab=87.53  E-value=3.5  Score=30.93  Aligned_cols=13  Identities=46%  Similarity=0.846  Sum_probs=11.2

Q ss_pred             CCeEEEEcccccc
Q psy13774         14 APCVLFFDELDSI   26 (110)
Q Consensus        14 ~P~ii~iDeiD~l   26 (110)
                      -|.++||||++-|
T Consensus       288 vpGVLFIDEvHML  300 (454)
T KOG2680|consen  288 VPGVLFIDEVHML  300 (454)
T ss_pred             ccceEEEeeehhh
Confidence            3999999999965

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=87.45  E-value=1.9  Score=30.86  Aligned_cols=56  Identities=18%  Similarity=0.155  Sum_probs=33.4

Q ss_pred             HHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCC
Q psy13774          5 TGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIID   74 (110)
Q Consensus         5 ~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld   74 (110)
                      -.+++|-...|.++++||==         . .-+...+..+.+++   .+++.+ +..|+..|.+...+-
T Consensus       148 V~lARAL~~~p~lllLDEP~---------~-gvD~~~~~~i~~lL---~~l~~e-g~tIl~vtHDL~~v~  203 (254)
T COG1121         148 VLLARALAQNPDLLLLDEPF---------T-GVDVAGQKEIYDLL---KELRQE-GKTVLMVTHDLGLVM  203 (254)
T ss_pred             HHHHHHhccCCCEEEecCCc---------c-cCCHHHHHHHHHHH---HHHHHC-CCEEEEEeCCcHHhH
Confidence            35677888999999999932         1 00112333444444   444445 667777887766443

>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=87.26  E-value=0.82  Score=31.75  Aligned_cols=69  Identities=20%  Similarity=0.316  Sum_probs=26.1

Q ss_pred             HHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC-----------CCCCEEEEEecC----------
Q psy13774         10 ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG-----------AKKNVFIIGATN----------   68 (110)
Q Consensus        10 A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~-----------~~~~v~vi~ttn----------   68 (110)
                      +.++. .|+|+||+-.+              ..+++..|..-++.-.           -..+.++|+|+|          
T Consensus       103 slAh~-GVLflDE~~ef--------------~~~vld~Lr~ple~g~v~i~R~~~~~~~Pa~f~lv~a~NPcpCG~~~~~  167 (206)
T PF01078_consen  103 SLAHR-GVLFLDELNEF--------------DRSVLDALRQPLEDGEVTISRAGGSVTYPARFLLVAAMNPCPCGYYGDP  167 (206)
T ss_dssp             GGGTT-SEEEECETTTS---------------HHHHHHHHHHHHHSBEEEEETTEEEEEB--EEEEEEE-S---------
T ss_pred             HHhcC-CEEEechhhhc--------------CHHHHHHHHHHHHCCeEEEEECCceEEEecccEEEEEeccccccccccc
Confidence            34444 69999999866              3557777777765310           023577888754          


Q ss_pred             -------------CCCCCCccccCCCccceEEEecCCCHH
Q psy13774         69 -------------RPDIIDPAILRPGRLDQLIYIPLPDEI   95 (110)
Q Consensus        69 -------------~~~~ld~al~r~grfd~~i~~~~P~~~   95 (110)
                                   +...|...++.  |||..++++..+.+
T Consensus       168 ~~~C~Cs~~~~~~Y~~rlsgpllD--RiDi~v~~~~~~~~  205 (206)
T PF01078_consen  168 DNRCRCSPRQIRRYQSRLSGPLLD--RIDIHVEVPRVSYE  205 (206)
T ss_dssp             ----------------------------------------
T ss_pred             cccccccccccccccccccccccc--cccccccccccccC
Confidence                         23456666777  88888888766654

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.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=87.16  E-value=4.3  Score=30.57  Aligned_cols=28  Identities=11%  Similarity=0.222  Sum_probs=22.9

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccC
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSR   30 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r   30 (110)
                      +..+++......|.+|+||++..+....
T Consensus       147 le~I~~~i~~~~~~lVVIDSIq~l~~~~  174 (372)
T cd01121         147 LEDILASIEELKPDLVIIDSIQTVYSSE  174 (372)
T ss_pred             HHHHHHHHHhcCCcEEEEcchHHhhccc
Confidence            5667777888899999999999987543

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold

Probab=87.07  E-value=0.8  Score=35.63  Aligned_cols=72  Identities=19%  Similarity=0.259  Sum_probs=44.3

Q ss_pred             HHHHHHHHHh----cCCe-EEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccc
Q psy13774          3 IATGASMARA----AAPC-VLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAI   77 (110)
Q Consensus         3 l~~~F~~A~~----~~P~-ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al   77 (110)
                      |.++|+..-+    -.|- |+||||++.||..-          .+.++.. +.++-.+-.+.+|=|+..|.+|.+||..+
T Consensus       239 LsELfe~LPEvGD~dkPklVfFfDEAHLLF~da----------~kall~~-ieqvvrLIRSKGVGv~fvTQ~P~DiP~~V  307 (502)
T PF05872_consen  239 LSELFEQLPEVGDLDKPKLVFFFDEAHLLFNDA----------PKALLDK-IEQVVRLIRSKGVGVYFVTQNPTDIPDDV  307 (502)
T ss_pred             HHHHHHhCccCCCCCCceEEEEEechhhhhcCC----------CHHHHHH-HHHHHHHhhccCceEEEEeCCCCCCCHHH
Confidence            4455555432    2355 56799999998432          2222222 22222333567888889999999999999


Q ss_pred             cCCCccceEE
Q psy13774         78 LRPGRLDQLI   87 (110)
Q Consensus        78 ~r~grfd~~i   87 (110)
                      +.  -+..+|
T Consensus       308 L~--QLGnrI  315 (502)
T PF05872_consen  308 LG--QLGNRI  315 (502)
T ss_pred             HH--hhhhHH
Confidence            86  554444

This family is restricted to bacterial proteins, none of which have currently been characterised.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=86.99  E-value=2  Score=29.13  Aligned_cols=69  Identities=13%  Similarity=0.072  Sum_probs=40.3

Q ss_pred             HHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCcc
Q psy13774          4 ATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRL   83 (110)
Q Consensus         4 ~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grf   83 (110)
                      +-.+..|-...|.++++||--+=+          +......+..++..+.   .. +..+|.+|++.+.++.        
T Consensus       135 rl~la~al~~~p~llllDEPt~~L----------D~~~~~~l~~~l~~~~---~~-~~tiii~sH~~~~~~~--------  192 (207)
T PRK13539        135 RVALARLLVSNRPIWILDEPTAAL----------DAAAVALFAELIRAHL---AQ-GGIVIAATHIPLGLPG--------  192 (207)
T ss_pred             HHHHHHHHhcCCCEEEEeCCcccC----------CHHHHHHHHHHHHHHH---HC-CCEEEEEeCCchhhcc--------
Confidence            345666777889999999965321          1123333333443332   22 4567888888877774        


Q ss_pred             ceEEEecCCCH
Q psy13774         84 DQLIYIPLPDE   94 (110)
Q Consensus        84 d~~i~~~~P~~   94 (110)
                      |..+.+..|..
T Consensus       193 ~~~~~~~~~~~  203 (207)
T PRK13539        193 ARELDLGPFAA  203 (207)
T ss_pred             CcEEeecCccC
Confidence            44566655543

>KOG0478|consensus

Probab=86.18  E-value=3.2  Score=33.96  Aligned_cols=69  Identities=22%  Similarity=0.418  Sum_probs=42.6

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHh------hhcCCC--CCCEEEEEecCCCC-------------CC
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTE------MDGMGA--KKNVFIIGATNRPD-------------II   73 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~------ld~~~~--~~~v~vi~ttn~~~-------------~l   73 (110)
                      -.|-.|||+|.+..           ..+.++.+.+.+      ..|+-.  +.+.-|+|+.|-..             .|
T Consensus       527 ~GiCCIDEFDKM~d-----------StrSvLhEvMEQQTvSIAKAGII~sLNAR~SVLAaANP~~skynp~k~i~eNI~L  595 (804)
T KOG0478|consen  527 NGICCIDEFDKMSD-----------STRSVLHEVMEQQTLSIAKAGIIASLNARCSVLAAANPIRSKYNPNKSIIENINL  595 (804)
T ss_pred             CceEEchhhhhhhH-----------HHHHHHHHHHHHhhhhHhhcceeeeccccceeeeeeccccccCCCCCchhhccCC
Confidence            35778999998732           223344333322      112111  34677889999332             68


Q ss_pred             CccccCCCccceEEEe-cCCCHHH
Q psy13774         74 DPAILRPGRLDQLIYI-PLPDEIW   96 (110)
Q Consensus        74 d~al~r~grfd~~i~~-~~P~~~~   96 (110)
                      +|.|++  |||..+-+ +.||+..
T Consensus       596 pptLLS--RFDLIylllD~~DE~~  617 (804)
T KOG0478|consen  596 PPTLLS--RFDLIFLLLDKPDERS  617 (804)
T ss_pred             Chhhhh--hhcEEEEEecCcchhH
Confidence            899999  99986554 7788763

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=86.15  E-value=1.5  Score=30.88  Aligned_cols=55  Identities=16%  Similarity=0.297  Sum_probs=31.2

Q ss_pred             HHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEec
Q psy13774          8 SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGAT   67 (110)
Q Consensus         8 ~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~tt   67 (110)
                      ..++.+.|.+|+||.+..+........     .....+..++..+..+....++.++.++
T Consensus       134 ~~~~~~~~~~vvID~l~~l~~~~~~~~-----~~~~~~~~~~~~L~~la~~~~vtvll~s  188 (271)
T cd01122         134 YMAVSHGIQHIIIDNLSIMVSDERASG-----DERKALDEIMTKLRGFATEHGIHITLVS  188 (271)
T ss_pred             HHHhcCCceEEEECCHHHHhccCCCch-----hHHHHHHHHHHHHHHHHHHhCCEEEEEe
Confidence            344567899999999998864431111     2233345555555555444454444444

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=86.14  E-value=1.5  Score=33.12  Aligned_cols=67  Identities=25%  Similarity=0.383  Sum_probs=39.5

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC-----CC----CCCEEEEEecCCCCCCCccccCCCccce
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM-----GA----KKNVFIIGATNRPDIIDPAILRPGRLDQ   85 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~-----~~----~~~v~vi~ttn~~~~ld~al~r~grfd~   85 (110)
                      ..+|||||+|.+-..              .-..|+..++.-     ..    ..++-+|++||..  +. .+.+.|+|..
T Consensus       238 ~gtl~ld~i~~l~~~--------------~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~--l~-~~~~~g~~~~  300 (457)
T PRK11361        238 EGTLLLDEIGEMPLV--------------LQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRD--LQ-AMVKEGTFRE  300 (457)
T ss_pred             CCEEEEechhhCCHH--------------HHHHHHHHHhcCcEEeCCCCceeeeceEEEEeCCCC--HH-HHHHcCCchH
Confidence            468999999988322              223344444321     11    1257888998853  11 3344456654


Q ss_pred             -------EEEecCCCHHHHH
Q psy13774         86 -------LIYIPLPDEIWLI   98 (110)
Q Consensus        86 -------~i~~~~P~~~~R~   98 (110)
                             .+.+.+|.-.+|.
T Consensus       301 ~l~~~l~~~~i~~ppLreR~  320 (457)
T PRK11361        301 DLFYRLNVIHLILPPLRDRR  320 (457)
T ss_pred             HHHHHhccceecCCChhhch
Confidence                   4667888888875

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=85.87  E-value=1.3  Score=32.18  Aligned_cols=61  Identities=18%  Similarity=0.169  Sum_probs=37.8

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCc
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDP   75 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~   75 (110)
                      +=+-.+..|-.+.|.++++||=-+        +-  +.....   .+...+..+....+..|+.+|+.++.+..
T Consensus       142 kqrl~ia~aL~~~P~lliLDEPt~--------GL--Dp~~~~---~~~~~l~~l~~~g~~tvlissH~l~e~~~  202 (293)
T COG1131         142 KQRLSIALALLHDPELLILDEPTS--------GL--DPESRR---EIWELLRELAKEGGVTILLSTHILEEAEE  202 (293)
T ss_pred             HHHHHHHHHHhcCCCEEEECCCCc--------CC--CHHHHH---HHHHHHHHHHhCCCcEEEEeCCcHHHHHH
Confidence            445567788889999999999431        11  112233   34444444444555788888888875543

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=85.57  E-value=2.3  Score=31.23  Aligned_cols=82  Identities=15%  Similarity=0.193  Sum_probs=47.1

Q ss_pred             HHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC--CCCccccCCCc
Q psy13774          5 TGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD--IIDPAILRPGR   82 (110)
Q Consensus         5 ~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~--~ld~al~r~gr   82 (110)
                      .+...-+...+-+++|||++.++.....       ..+.+++.+-...+.+  +-.++.+||-....  .-|+.+-+  |
T Consensus       136 ~~~~llr~~~vrmLIIDE~H~lLaGs~~-------~qr~~Ln~LK~L~NeL--~ipiV~vGt~~A~~al~~D~QLa~--R  204 (302)
T PF05621_consen  136 QVLRLLRRLGVRMLIIDEFHNLLAGSYR-------KQREFLNALKFLGNEL--QIPIVGVGTREAYRALRTDPQLAS--R  204 (302)
T ss_pred             HHHHHHHHcCCcEEEeechHHHhcccHH-------HHHHHHHHHHHHhhcc--CCCeEEeccHHHHHHhccCHHHHh--c
Confidence            4556778889999999999998643321       2233333333222221  33667777654443  44667777  9


Q ss_pred             cceEEEecC--CCHHHHH
Q psy13774         83 LDQLIYIPL--PDEIWLI   98 (110)
Q Consensus        83 fd~~i~~~~--P~~~~R~   98 (110)
                      |+. +.+|.  +|.+-+.
T Consensus       205 F~~-~~Lp~W~~d~ef~~  221 (302)
T PF05621_consen  205 FEP-FELPRWELDEEFRR  221 (302)
T ss_pred             cCC-ccCCCCCCCcHHHH
Confidence            854 44544  4444444

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=84.99  E-value=1.7  Score=31.10  Aligned_cols=22  Identities=36%  Similarity=0.472  Sum_probs=18.7

Q ss_pred             CcHHHHHHHHHhcCCeEEEEcc
Q psy13774          1 MRIATGASMARAAAPCVLFFDE   22 (110)
Q Consensus         1 ~~l~~~F~~A~~~~P~ii~iDe   22 (110)
                      |+=+-++++|-...|-|+++||
T Consensus       135 MrQRVaiARAL~~~P~lLLlDE  156 (248)
T COG1116         135 MRQRVAIARALATRPKLLLLDE  156 (248)
T ss_pred             HHHHHHHHHHHhcCCCEEEEcC
Confidence            4556678889999999999999

>KOG1051|consensus

Probab=84.76  E-value=3  Score=34.99  Aligned_cols=51  Identities=24%  Similarity=0.287  Sum_probs=33.4

Q ss_pred             HHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC---------CCCCEEEEEecCCC
Q psy13774          6 GASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG---------AKKNVFIIGATNRP   70 (110)
Q Consensus         6 ~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~---------~~~~v~vi~ttn~~   70 (110)
                      +.+..+...-|||||||||.              ..-.+++.|++.+|.-+         .-.+++||.|+|.-
T Consensus       652 LteavrrrP~sVVLfdeIEk--------------Ah~~v~n~llq~lD~GrltDs~Gr~Vd~kN~I~IMTsn~~  711 (898)
T KOG1051|consen  652 LTEAVKRRPYSVVLFEEIEK--------------AHPDVLNILLQLLDRGRLTDSHGREVDFKNAIFIMTSNVG  711 (898)
T ss_pred             HHHHHhcCCceEEEEechhh--------------cCHHHHHHHHHHHhcCccccCCCcEeeccceEEEEecccc
Confidence            33444444459999999993              23456677777777531         12469999998763

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=84.67  E-value=2.3  Score=27.83  Aligned_cols=48  Identities=19%  Similarity=0.299  Sum_probs=27.1

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCC
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIID   74 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld   74 (110)
                      ..|+++++||...=....         ....+...+......     +..+|.+|++++...
T Consensus        98 ~~~~llllDEp~~gld~~---------~~~~l~~~l~~~~~~-----~~~vii~TH~~~~~~  145 (162)
T cd03227          98 KPRPLYILDEIDRGLDPR---------DGQALAEAILEHLVK-----GAQVIVITHLPELAE  145 (162)
T ss_pred             CCCCEEEEeCCCCCCCHH---------HHHHHHHHHHHHHhc-----CCEEEEEcCCHHHHH
Confidence            378999999988432111         223333334333332     346777888776543

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>KOG0990|consensus

Probab=83.92  E-value=4.5  Score=30.27  Aligned_cols=61  Identities=21%  Similarity=0.264  Sum_probs=39.2

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      .+..|++||+|++...              .-+.|-..+..+..  ++-+..-+|++..+.|+++.  ||-+ +.+.+-+
T Consensus       131 ~fKlvILDEADaMT~~--------------AQnALRRviek~t~--n~rF~ii~n~~~ki~pa~qs--Rctr-frf~pl~  191 (360)
T KOG0990|consen  131 AFKLVILDEADAMTRD--------------AQNALRRVIEKYTA--NTRFATISNPPQKIHPAQQS--RCTR-FRFAPLT  191 (360)
T ss_pred             ceeEEEecchhHhhHH--------------HHHHHHHHHHHhcc--ceEEEEeccChhhcCchhhc--cccc-CCCCCCC
Confidence            6789999999987422              22223334444433  33444678999999999998  8855 4443333

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=83.87  E-value=2.8  Score=30.91  Aligned_cols=68  Identities=26%  Similarity=0.274  Sum_probs=38.1

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC-----C----CCCCEEEEEecCCC-------CCCCccc
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM-----G----AKKNVFIIGATNRP-------DIIDPAI   77 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~-----~----~~~~v~vi~ttn~~-------~~ld~al   77 (110)
                      ....|||||+|.|-.              ..-..|+..++.-     .    ...++-+|++||..       ..+.+.|
T Consensus        93 ~gGtL~Ldei~~L~~--------------~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~~~l~~~~~~g~fr~dL  158 (329)
T TIGR02974        93 DGGTLFLDELATASL--------------LVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADLPALAAEGRFRADL  158 (329)
T ss_pred             CCCEEEeCChHhCCH--------------HHHHHHHHHHHcCcEEecCCCceeccceEEEEechhhHHHHhhcCchHHHH
Confidence            357899999998831              1222344444321     0    12357788888753       1233344


Q ss_pred             cCCCccceEEEecCCCHHHHH
Q psy13774         78 LRPGRLDQLIYIPLPDEIWLI   98 (110)
Q Consensus        78 ~r~grfd~~i~~~~P~~~~R~   98 (110)
                      ..  |+. .+.+.+|.-.+|.
T Consensus       159 ~~--rl~-~~~i~lPpLReR~  176 (329)
T TIGR02974       159 LD--RLA-FDVITLPPLRERQ  176 (329)
T ss_pred             HH--Hhc-chhcCCCchhhhh
Confidence            44  443 3567778877775

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

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=83.82  E-value=0.86  Score=31.26  Aligned_cols=85  Identities=11%  Similarity=0.080  Sum_probs=43.5

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCc-cccCCC------ccce
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDP-AILRPG------RLDQ   85 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~-al~r~g------rfd~   85 (110)
                      ..+.+|+||.+.+++....... .......+.+..++..+..+....++.++.+.......+. .....|      -.|-
T Consensus       106 ~~~~lvVIDsi~al~~~~~~~~-~~~~~~~~~l~~~l~~L~~~a~~~~v~vi~tnq~~~~~~~~~~~~~gg~~~~~~~d~  184 (225)
T PRK09361        106 ENVGLIVLDSATSLYRLELEDE-EDNSKLNRELGRQLTHLLKLARKHDLAVVITNQVYSDIDSDGLRPLGGHTLEHWSKT  184 (225)
T ss_pred             hcccEEEEeCcHHHhHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHhCCEEEEEccceecCCCCcccCCCcchhhhhccE
Confidence            6889999999999875421111 1111223344444444444434556677666544443332 111111      2345


Q ss_pred             EEEecCCCHHHHH
Q psy13774         86 LIYIPLPDEIWLI   98 (110)
Q Consensus        86 ~i~~~~P~~~~R~   98 (110)
                      .|.+..++...|.
T Consensus       185 ii~l~~~~~~~r~  197 (225)
T PRK09361        185 ILRLEKFRNGKRR  197 (225)
T ss_pred             EEEEEEccCCeEE
Confidence            7777665555553

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=83.71  E-value=7.8  Score=25.33  Aligned_cols=25  Identities=4%  Similarity=-0.037  Sum_probs=19.1

Q ss_pred             HHHHHHHHhcCCeEEEEcccccccc
Q psy13774          4 ATGASMARAAAPCVLFFDELDSIAK   28 (110)
Q Consensus         4 ~~~F~~A~~~~P~ii~iDeiD~l~~   28 (110)
                      ..+...+....|.+|+||++-.+..
T Consensus        85 ~~i~~~~~~~~~~~lviD~~~~~~~  109 (187)
T cd01124          85 QRLKDAIEEFKAKRVVIDSVSGLLL  109 (187)
T ss_pred             HHHHHHHHHhCCCEEEEeCcHHHhh
Confidence            3445556678899999999998764

A related protein is found in archaea.

>PF04465 DUF499: Protein of unknown function (DUF499); InterPro: IPR007555 This is a family of uncharacterised hypothetical prokaryotic proteins

Probab=83.53  E-value=3.1  Score=35.52  Aligned_cols=18  Identities=28%  Similarity=0.569  Sum_probs=14.7

Q ss_pred             hcCCeEEEEccccccccc
Q psy13774         12 AAAPCVLFFDELDSIAKS   29 (110)
Q Consensus        12 ~~~P~ii~iDeiD~l~~~   29 (110)
                      ...||+|+|||+=..+.+
T Consensus        97 ~~~P~LILiDEl~~Y~~~  114 (1035)
T PF04465_consen   97 GGRPVLILIDELVAYARQ  114 (1035)
T ss_pred             CCCCEEEEeecHHHHHHH
Confidence            346999999999887763

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=83.33  E-value=1.5  Score=35.74  Aligned_cols=43  Identities=19%  Similarity=0.162  Sum_probs=29.6

Q ss_pred             CCEEEEEecCCCC-------------CCCccccCCCccceEEEe-cCCCHHHHHHHHHH
Q psy13774         59 KNVFIIGATNRPD-------------IIDPAILRPGRLDQLIYI-PLPDEIWLILSDKF  103 (110)
Q Consensus        59 ~~v~vi~ttn~~~-------------~ld~al~r~grfd~~i~~-~~P~~~~R~~~~~~  103 (110)
                      .+.-|+|++|-..             ++++++++  |||..+.+ .-||.+.=+.+.++
T Consensus       425 ARcsvLAAaNP~~Gryd~~~~~~enI~l~~~lLS--RFDLifvl~D~~d~~~D~~ia~h  481 (682)
T COG1241         425 ARCSVLAAANPKFGRYDPKKTVAENINLPAPLLS--RFDLIFVLKDDPDEEKDEEIAEH  481 (682)
T ss_pred             hhhhhhhhhCCCCCcCCCCCCHHHhcCCChhHHh--hCCeeEEecCCCCccchHHHHHH
Confidence            3566788888665             68899999  99987666 55776543333333

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=82.98  E-value=3.1  Score=31.57  Aligned_cols=14  Identities=29%  Similarity=0.563  Sum_probs=11.4

Q ss_pred             CCeEEEEccccccc
Q psy13774         14 APCVLFFDELDSIA   27 (110)
Q Consensus        14 ~P~ii~iDeiD~l~   27 (110)
                      ....|||||+|.+-
T Consensus       228 ~~gtl~l~ei~~l~  241 (463)
T TIGR01818       228 DGGTLFLDEIGDMP  241 (463)
T ss_pred             CCCeEEEEchhhCC
Confidence            36789999999883

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.

>PF14516 AAA_35: AAA-like domain

Probab=82.37  E-value=9.9  Score=27.98  Aligned_cols=17  Identities=41%  Similarity=0.731  Sum_probs=14.6

Q ss_pred             hcCCeEEEEcccccccc
Q psy13774         12 AAAPCVLFFDELDSIAK   28 (110)
Q Consensus        12 ~~~P~ii~iDeiD~l~~   28 (110)
                      ...|-||+|||+|.++.
T Consensus       125 ~~~~lVL~iDEiD~l~~  141 (331)
T PF14516_consen  125 IDKPLVLFIDEIDRLFE  141 (331)
T ss_pred             CCCCEEEEEechhhhcc
Confidence            35799999999999974

>COG4598 HisP ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]

Probab=81.76  E-value=4.6  Score=28.14  Aligned_cols=52  Identities=19%  Similarity=0.340  Sum_probs=38.5

Q ss_pred             HHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecC
Q psy13774          4 ATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATN   68 (110)
Q Consensus         4 ~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn   68 (110)
                      +.+.++|-+..|.++++||=-+-             -.-.++.+.|.-|..+....+.+++.|-.
T Consensus       160 R~aIARaLameP~vmLFDEPTSA-------------LDPElVgEVLkv~~~LAeEgrTMv~VTHE  211 (256)
T COG4598         160 RVAIARALAMEPEVMLFDEPTSA-------------LDPELVGEVLKVMQDLAEEGRTMVVVTHE  211 (256)
T ss_pred             HHHHHHHHhcCCceEeecCCccc-------------CCHHHHHHHHHHHHHHHHhCCeEEEEeee
Confidence            45667888999999999994321             12347788888888888888888877743

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=81.72  E-value=4.6  Score=32.28  Aligned_cols=68  Identities=13%  Similarity=0.233  Sum_probs=37.9

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC-----CCC----CCEEEEEecCCCCCCCccccCCCccc
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM-----GAK----KNVFIIGATNRPDIIDPAILRPGRLD   84 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~-----~~~----~~v~vi~ttn~~~~ld~al~r~grfd   84 (110)
                      ....|||||||.+-.              ..-..|+..++.-     .+.    -++-+|+||+..-   ..+...|+|.
T Consensus       416 ~~GtL~ldei~~l~~--------------~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~t~~~l---~~~~~~~~f~  478 (638)
T PRK11388        416 HGGTLFLEKVEYLSP--------------ELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTADL---AMLVEQNRFS  478 (638)
T ss_pred             CCCEEEEcChhhCCH--------------HHHHHHHHHHhcCcEEeCCCCceEEeeEEEEEeccCCH---HHHHhcCCCh
Confidence            357899999998731              1222344444321     111    1567888888542   2333445653


Q ss_pred             e-------EEEecCCCHHHHH
Q psy13774         85 Q-------LIYIPLPDEIWLI   98 (110)
Q Consensus        85 ~-------~i~~~~P~~~~R~   98 (110)
                      .       .+.+.+|.-.+|.
T Consensus       479 ~dL~~~l~~~~i~lPpLreR~  499 (638)
T PRK11388        479 RQLYYALHAFEITIPPLRMRR  499 (638)
T ss_pred             HHHhhhhceeEEeCCChhhhh
Confidence            2       4667778877774

>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1

Probab=81.64  E-value=13  Score=27.47  Aligned_cols=72  Identities=15%  Similarity=0.173  Sum_probs=39.1

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILR   79 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r   79 (110)
                      |+.++.+..-+.-..+|++||++.......+.  .........+..|...+    ...+|+..-+|-..+--.-+...
T Consensus       160 Rl~ql~~W~g~dfdgvivfDEcH~akn~~~~~--~~~sk~g~avl~LQ~~L----P~ARvvY~SATgasep~NmaYm~  231 (303)
T PF13872_consen  160 RLDQLVDWCGEDFDGVIVFDECHKAKNLSSGS--KKPSKTGIAVLELQNRL----PNARVVYASATGASEPRNMAYMS  231 (303)
T ss_pred             hHHHHHHHHhcCCCceEEeccchhcCCCCccC--ccccHHHHHHHHHHHhC----CCCcEEEecccccCCCceeeeee
Confidence            56677777766566799999999875442211  11112222333333322    55678877777643332334555

>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains

Probab=81.44  E-value=4.4  Score=27.64  Aligned_cols=66  Identities=12%  Similarity=0.141  Sum_probs=34.6

Q ss_pred             HHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccce
Q psy13774          6 GASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQ   85 (110)
Q Consensus         6 ~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~   85 (110)
                      ++..|-...|.++++||-.+-+..          ....  +.+...+..+....+.-+|.+|+.++     +..  .+|+
T Consensus       131 ala~al~~~p~illlDEP~~~LD~----------~~~~--~~l~~~l~~~~~~~~~~iiiitH~~~-----~~~--~~d~  191 (204)
T cd03240         131 ALAETFGSNCGILALDEPTTNLDE----------ENIE--ESLAEIIEERKSQKNFQLIVITHDEE-----LVD--AADH  191 (204)
T ss_pred             HHHHHhccCCCEEEEcCCccccCH----------HHHH--HHHHHHHHHHHhccCCEEEEEEecHH-----HHh--hCCE
Confidence            344455678999999997743311          1222  12333333332332334556666644     333  5677


Q ss_pred             EEEec
Q psy13774         86 LIYIP   90 (110)
Q Consensus        86 ~i~~~   90 (110)
                      .+.+.
T Consensus       192 i~~l~  196 (204)
T cd03240         192 IYRVE  196 (204)
T ss_pred             EEEEe
Confidence            76663

The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.

>cd01394 radB RadB

Probab=81.43  E-value=4.1  Score=27.72  Aligned_cols=79  Identities=11%  Similarity=0.063  Sum_probs=41.1

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCC-------CccceE
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRP-------GRLDQL   86 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~-------grfd~~   86 (110)
                      .+++|+||-+-+++......... .....+.+..++..|..+....++.+|.+.......+..-.+|       ...|-.
T Consensus       103 ~~~lvvIDsi~~l~~~~~~~~~~-~~~~~~~l~~~~~~L~~~a~~~~~~vi~t~q~~~~~~~~~~~p~~g~~~~~~~d~~  181 (218)
T cd01394         103 KVDLVVVDSATALYRLELGDDDT-TIKNYRELAKQLTFLLWLARKHDVAVVITNQVYSDVGSGSVRPLGGHTLEHWSKVI  181 (218)
T ss_pred             CCcEEEEechHHhhhHHhcCccc-hHHHHHHHHHHHHHHHHHHHHhCCEEEEecCCEEcCCCCcccccCCcchhcceeEE
Confidence            48999999999986432211111 1122333444444455554456777777765443333111111       134667


Q ss_pred             EEecCCC
Q psy13774         87 IYIPLPD   93 (110)
Q Consensus        87 i~~~~P~   93 (110)
                      |.+....
T Consensus       182 i~l~~~~  188 (218)
T cd01394         182 LRLEKLR  188 (218)
T ss_pred             EEEEEcC
Confidence            7776554

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>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=81.34  E-value=2.3  Score=31.96  Aligned_cols=41  Identities=24%  Similarity=0.498  Sum_probs=26.6

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP   70 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~   70 (110)
                      -.+|+|||+..-           +-....++..|+..+=    ..++++|+|||++
T Consensus       128 ~~lLcfDEF~V~-----------DiaDAmil~rLf~~l~----~~gvvlVaTSN~~  168 (362)
T PF03969_consen  128 SRLLCFDEFQVT-----------DIADAMILKRLFEALF----KRGVVLVATSNRP  168 (362)
T ss_pred             CCEEEEeeeecc-----------chhHHHHHHHHHHHHH----HCCCEEEecCCCC
Confidence            359999998832           1122345555555542    4688999999975

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

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=81.06  E-value=4.6  Score=29.10  Aligned_cols=64  Identities=14%  Similarity=0.304  Sum_probs=38.8

Q ss_pred             HHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccc-------
Q psy13774          5 TGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAI-------   77 (110)
Q Consensus         5 ~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al-------   77 (110)
                      .++..++.+.|.+|++||+-                ....+..++..+.     .+.-+|++|+.+ .+..+.       
T Consensus       185 ~~~~~i~~~~P~villDE~~----------------~~e~~~~l~~~~~-----~G~~vI~ttH~~-~~~~~~~r~~~~~  242 (270)
T TIGR02858       185 GMMMLIRSMSPDVIVVDEIG----------------REEDVEALLEALH-----AGVSIIATAHGR-DVEDLYKRPVFKE  242 (270)
T ss_pred             HHHHHHHhCCCCEEEEeCCC----------------cHHHHHHHHHHHh-----CCCEEEEEechh-HHHHHHhChHHHH
Confidence            46677888999999999942                0112333333332     345678888864 333333       


Q ss_pred             -cCCCccceEEEec
Q psy13774         78 -LRPGRLDQLIYIP   90 (110)
Q Consensus        78 -~r~grfd~~i~~~   90 (110)
                       +..|-|++.|.+.
T Consensus       243 l~~~~~~~r~i~L~  256 (270)
T TIGR02858       243 LIENEAFERYVVLS  256 (270)
T ss_pred             HHhcCceEEEEEEe
Confidence             3356688888774

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=80.85  E-value=3.7  Score=31.02  Aligned_cols=68  Identities=22%  Similarity=0.279  Sum_probs=37.2

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC-----CC----CCCEEEEEecCCC-------CCCCccc
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM-----GA----KKNVFIIGATNRP-------DIIDPAI   77 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~-----~~----~~~v~vi~ttn~~-------~~ld~al   77 (110)
                      ....|||||+|.+-.              ..-..|+..++.-     ..    ..++-+|++|+..       ..+.+.|
T Consensus       233 ~~gtl~l~~i~~l~~--------------~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~~~~~L  298 (445)
T TIGR02915       233 HGGTLFLDEIGDLPL--------------NLQAKLLRFLQERVIERLGGREEIPVDVRIVCATNQDLKRMIAEGTFREDL  298 (445)
T ss_pred             CCCEEEEechhhCCH--------------HHHHHHHHHHhhCeEEeCCCCceeeeceEEEEecCCCHHHHHHcCCccHHH
Confidence            357899999998831              1222344444321     11    1256788888754       1233333


Q ss_pred             cCCCccceEEEecCCCHHHHH
Q psy13774         78 LRPGRLDQLIYIPLPDEIWLI   98 (110)
Q Consensus        78 ~r~grfd~~i~~~~P~~~~R~   98 (110)
                      ..  |+. .+.+.+|.-.+|.
T Consensus       299 ~~--~l~-~~~i~lPpLr~R~  316 (445)
T TIGR02915       299 FY--RIA-EISITIPPLRSRD  316 (445)
T ss_pred             HH--Hhc-cceecCCCchhch
Confidence            32  332 3667778877775

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).

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=80.76  E-value=4.5  Score=27.56  Aligned_cols=59  Identities=17%  Similarity=0.207  Sum_probs=32.3

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCC
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIID   74 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld   74 (110)
                      ++++++.+....|.++++||.-+=.      +   ......+...++..+..    .+..+|.+|+.++.+.
T Consensus        94 ~~~iL~~~~~~~p~llllDEp~~gl------D---~~~~~~l~~~ll~~l~~----~~~tiiivTH~~~~~~  152 (199)
T cd03283          94 LKEIVEKAKKGEPVLFLLDEIFKGT------N---SRERQAASAAVLKFLKN----KNTIGIISTHDLELAD  152 (199)
T ss_pred             HHHHHHhccCCCCeEEEEecccCCC------C---HHHHHHHHHHHHHHHHH----CCCEEEEEcCcHHHHH
Confidence            4556666655689999999963211      0   00112233344444432    2456777787776543

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>PRK11823 DNA repair protein RadA; Provisional

Probab=80.50  E-value=7.7  Score=29.93  Aligned_cols=28  Identities=7%  Similarity=0.214  Sum_probs=23.0

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccC
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSR   30 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r   30 (110)
                      +.++++..++..|.+|+||++..+....
T Consensus       145 l~~i~~~i~~~~~~lVVIDSIq~l~~~~  172 (446)
T PRK11823        145 LEAILATIEEEKPDLVVIDSIQTMYSPE  172 (446)
T ss_pred             HHHHHHHHHhhCCCEEEEechhhhcccc
Confidence            5567777888899999999999987543

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=80.15  E-value=8.1  Score=29.92  Aligned_cols=31  Identities=6%  Similarity=0.114  Sum_probs=27.4

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGG   32 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~   32 (110)
                      ++.++.+......|.+++||-|-.++...-.
T Consensus       156 ~~e~I~~~l~~~~p~lvVIDSIQT~~s~~~~  186 (456)
T COG1066         156 NLEDIIAELEQEKPDLVVIDSIQTLYSEEIT  186 (456)
T ss_pred             CHHHHHHHHHhcCCCEEEEeccceeeccccc
Confidence            6889999999999999999999999876633

>PRK10263 DNA translocase FtsK; Provisional

Probab=80.12  E-value=2.9  Score=36.44  Aligned_cols=72  Identities=17%  Similarity=0.284  Sum_probs=49.1

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC--CCCccccCCCccceEEEecCCC
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD--IIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~--~ld~al~r~grfd~~i~~~~P~   93 (110)
                      -+|+|||+..|+....          + -+..++..+-.....-++.+|.+|.+|+  .|...++.  -|..+|-+.+-+
T Consensus      1142 IVVIIDE~AdLm~~~~----------k-evE~lI~rLAqkGRAaGIHLILATQRPsvDVItg~IKA--N~ptRIAfrVsS 1208 (1355)
T PRK10263       1142 IVVLVDEFADLMMTVG----------K-KVEELIARLAQKARAAGIHLVLATQRPSVDVITGLIKA--NIPTRIAFTVSS 1208 (1355)
T ss_pred             EEEEEcChHHHHhhhh----------H-HHHHHHHHHHHHhhhcCeEEEEEecCcccccchHHHHh--hccceEEEEcCC
Confidence            4899999988864311          1 1233444444444567999999999996  56666666  788889998888


Q ss_pred             HHHHHHH
Q psy13774         94 EIWLILS  100 (110)
Q Consensus        94 ~~~R~~~  100 (110)
                      ...=..|
T Consensus      1209 ~~DSrtI 1215 (1355)
T PRK10263       1209 KIDSRTI 1215 (1355)
T ss_pred             HHHHHHh
Confidence            6554333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	110
1r7r_A	816	The Crystal Structure Of Murine P97VCP AT 3.6A Leng		9e-32
3cf1_A	806	Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Len		9e-32
3cf0_A	301	Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH		1e-31
2x8a_A	274	Human Nuclear Valosin Containing Protein Like (Nvl)		4e-20
3h4m_A	285	Aaa Atpase Domain Of The Proteasome- Activating Nuc		7e-19
1lv7_A	257	Crystal Structure Of The Aaa Domain Of Ftsh Length		4e-18
3kds_E	465	Apo-ftsh Crystal Structure Length = 465		2e-17
2ce7_A	476	Edta Treated Length = 476		2e-17
2qz4_A	262	Human Paraplegin, Aaa Domain In Complex With Adp Le		4e-17
1iy2_A	278	Crystal Structure Of The Ftsh Atpase Domain From Th		7e-16
1ixz_A	254	Crystal Structure Of The Ftsh Atpase Domain From Th		8e-16
4eiw_A	508	Whole Cytosolic Region Of Atp-Dependent Metalloprot		1e-15
2dhr_A	499	Whole Cytosolic Region Of Atp-Dependent Metalloprot		1e-15
4b4t_L	437	Near-Atomic Resolution Structural Model Of The Yeas		3e-15
4b4t_J	405	Near-Atomic Resolution Structural Model Of The Yeas		3e-14
2r62_A	268	Crystal Structure Of Helicobacter Pylori Atp Depend		9e-14
4b4t_K	428	Near-Atomic Resolution Structural Model Of The Yeas		1e-13
4b4t_H	467	Near-Atomic Resolution Structural Model Of The Yeas		2e-13
4b4t_M	434	Near-Atomic Resolution Structural Model Of The Yeas		7e-13
3hu3_A	489	Structure Of P97 N-D1 R155h Mutant In Complex With		5e-11
1e32_A	458	Structure Of The N-Terminal Domain And The D1 Aaa D		5e-11
3hu2_A	489	Structure Of P97 N-D1 R86a Mutant In Complex With A		5e-11
3hu1_A	489	Structure Of P97 N-D1 R95g Mutant In Complex With A		5e-11
4b4t_I	437	Near-Atomic Resolution Structural Model Of The Yeas		8e-09
2rko_A	331	Crystal Structure Of The Vps4p-Dimer Length = 331		3e-07
2zam_A	444	Crystal Structure Of Mouse Skd1VPS4B APO-Form Lengt		4e-07
3eie_A	322	Crystal Structure Of S.Cerevisiae Vps4 In The So4-B		6e-07
1xwi_A	322	Crystal Structure Of Vps4b Length = 322		6e-07
2qp9_X	355	Crystal Structure Of S.Cerevisiae Vps4 Length = 355		6e-07
3eih_A	340	Crystal Structure Of S.Cerevisiae Vps4 In The Prese		8e-07
3d8b_A	357	Crystal Structure Of Human Fidgetin-Like Protein 1		1e-06
3vfd_A	389	Human Spastin Aaa Domain Length = 389		2e-05
3b9p_A	297	Spastin Length = 297		7e-05

>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A Length = 816

Iteration: 1
 Score =  131 bits (330), Expect = 9e-32,   Method: Compositional matrix adjust.
 Identities = 66/85 (77%), Positives = 66/85 (77%)
Query: 10  ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
           AR AAPCVLFFDELDSIAK                INQILTEMDGM  KKNVFIIGATNR
Sbjct: 566 ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR 625
Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 626 PDIIDPAILRPGRLDQLIYIPLPDE 650

>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Length = 806

Iteration: 1
 Score =  131 bits (330), Expect = 9e-32,   Method: Compositional matrix adjust.
 Identities = 66/85 (77%), Positives = 66/85 (77%)
Query: 10  ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
           AR AAPCVLFFDELDSIAK                INQILTEMDGM  KKNVFIIGATNR
Sbjct: 566 ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR 625
Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 626 PDIIDPAILRPGRLDQLIYIPLPDE 650

>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP Length = 301

Iteration: 1
 Score =  131 bits (329), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 66/85 (77%), Positives = 66/85 (77%)
Query: 10  ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
           AR AAPCVLFFDELDSIAK                INQILTEMDGM  KKNVFIIGATNR
Sbjct: 104 ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR 163
Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 164 PDIIDPAILRPGRLDQLIYIPLPDE 188

>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C- Terminal Aaa-Atpase Domain Length = 274

Iteration: 1
 Score = 92.8 bits (229), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 43/83 (51%), Positives = 59/83 (71%), Gaps = 3/83 (3%)
Query: 10  ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
           A+ +APCV+FFDE+D++                  +NQ+LTEMDG+ A++ VFI+ ATNR
Sbjct: 99  AKNSAPCVIFFDEVDALCPRRSDRETGASVRV---VNQLLTEMDGLEARQQVFIMAATNR 155
Query: 70  PDIIDPAILRPGRLDQLIYIPLP 92
           PDIIDPAILRPGRLD+ +++ LP
Sbjct: 156 PDIIDPAILRPGRLDKTLFVGLP 178

>pdb|3H4M|A Chain A, Aaa Atpase Domain Of The Proteasome- Activating Nucleotidase Length = 285

Iteration: 1
 Score = 89.0 bits (219), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 46/99 (46%), Positives = 60/99 (60%), Gaps = 7/99 (7%)
Query: 3   IATGASM-------ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGM 55
           I  GAS+       A+  AP ++F DE+D+IA                 + Q+L EMDG 
Sbjct: 92  IGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGF 151
Query: 56  GAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE 94
            A+ +V IIGATNRPDI+DPAILRPGR D++I +P PDE
Sbjct: 152 DARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDE 190

>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh Length = 257

Iteration: 1
 Score = 86.3 bits (212), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 39/100 (39%), Positives = 58/100 (58%), Gaps = 7/100 (7%)
Query: 1   MRIATGAS-------MARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMD 53
           M +  GAS        A+ AAPC++F DE+D++ +                +NQ+L EMD
Sbjct: 84  MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMD 143
Query: 54  GMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 93
           G    + + +I ATNRPD++DPA+LRPGR D+ + + LPD
Sbjct: 144 GFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPD 183

>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure Length = 465

Iteration: 1
 Score = 84.0 bits (206), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 36/86 (41%), Positives = 55/86 (63%)
Query: 8   SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGAT 67
           + A+A APC++F DE+D++ +                +NQ+L EMDG  +K+ + ++ AT
Sbjct: 102 AQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAAT 161
Query: 68  NRPDIIDPAILRPGRLDQLIYIPLPD 93
           NRPDI+DPA+LRPGR D+ I +  PD
Sbjct: 162 NRPDILDPALLRPGRFDKKIVVDPPD 187

>pdb|2CE7|A Chain A, Edta Treated Length = 476

Iteration: 1
 Score = 84.0 bits (206), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 36/86 (41%), Positives = 55/86 (63%)
Query: 8   SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGAT 67
           + A+A APC++F DE+D++ +                +NQ+L EMDG  +K+ + ++ AT
Sbjct: 102 AQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAAT 161
Query: 68  NRPDIIDPAILRPGRLDQLIYIPLPD 93
           NRPDI+DPA+LRPGR D+ I +  PD
Sbjct: 162 NRPDILDPALLRPGRFDKKIVVDPPD 187

>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp Length = 262

Iteration: 1
 Score = 82.8 bits (203), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 36/84 (42%), Positives = 54/84 (64%), Gaps = 1/84 (1%)
Query: 10  ARAAAPCVLFFDELDSIAKXXXXXXXX-XXXXXXXXINQILTEMDGMGAKKNVFIIGATN 68
           ARA APC+++ DE+D++ K                 +NQ+L EMDGMG   +V ++ +TN
Sbjct: 94  ARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTN 153
Query: 69  RPDIIDPAILRPGRLDQLIYIPLP 92
           R DI+D A++RPGRLD+ ++I LP
Sbjct: 154 RADILDGALMRPGRLDRHVFIDLP 177

>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 278

Iteration: 1
 Score = 79.0 bits (193), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 35/86 (40%), Positives = 50/86 (58%)
Query: 8   SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGAT 67
             A+  APC++F DE+D++ +                +NQ+L EMDG      + ++ AT
Sbjct: 126 ETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAAT 185
Query: 68  NRPDIIDPAILRPGRLDQLIYIPLPD 93
           NRPDI+DPA+LRPGR D+ I I  PD
Sbjct: 186 NRPDILDPALLRPGRFDRQIAIDAPD 211

>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 254

Iteration: 1
 Score = 78.6 bits (192), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 35/86 (40%), Positives = 50/86 (58%)
Query: 8   SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGAT 67
             A+  APC++F DE+D++ +                +NQ+L EMDG      + ++ AT
Sbjct: 102 ETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAAT 161
Query: 68  NRPDIIDPAILRPGRLDQLIYIPLPD 93
           NRPDI+DPA+LRPGR D+ I I  PD
Sbjct: 162 NRPDILDPALLRPGRFDRQIAIDAPD 187

>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 508

Iteration: 1
 Score = 78.2 bits (191), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 35/84 (41%), Positives = 50/84 (59%)
Query: 10  ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
           A+  APC++F DE+D++ +                +NQ+L EMDG      + ++ ATNR
Sbjct: 128 AKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNR 187
Query: 70  PDIIDPAILRPGRLDQLIYIPLPD 93
           PDI+DPA+LRPGR D+ I I  PD
Sbjct: 188 PDILDPALLRPGRFDRQIAIDAPD 211

>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 499

Iteration: 1
 Score = 78.2 bits (191), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 35/84 (41%), Positives = 50/84 (59%)
Query: 10  ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
           A+  APC++F DE+D++ +                +NQ+L EMDG      + ++ ATNR
Sbjct: 119 AKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNR 178
Query: 70  PDIIDPAILRPGRLDQLIYIPLPD 93
           PDI+DPA+LRPGR D+ I I  PD
Sbjct: 179 PDILDPALLRPGRFDRQIAIDAPD 202

>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score = 76.6 bits (187), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 36/87 (41%), Positives = 51/87 (58%)
Query: 8   SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGAT 67
           + A+   PC++F DE+D+I                  + ++LT+MDG        II AT
Sbjct: 268 AYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMAT 327
Query: 68  NRPDIIDPAILRPGRLDQLIYIPLPDE 94
           NRPD +DPA+LRPGRLD+ + IPLP+E
Sbjct: 328 NRPDTLDPALLRPGRLDRKVEIPLPNE 354

>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 405

Iteration: 1
 Score = 73.2 bits (178), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 43/106 (40%), Positives = 56/106 (52%), Gaps = 5/106 (4%)
Query: 9   MARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATN 68
           MAR  AP ++F DE+DSI                  + ++L ++DG    KN+ II ATN
Sbjct: 236 MAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATN 295
Query: 69  RPDIIDPAILRPGRLDQLIYIPLPD-----EIWLILSDKFLYKRKI 109
           R DI+DPA+LRPGR+D+ I  P P      EI  I S K    R I
Sbjct: 296 RLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGI 341

>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent Protease, Ftsh Length = 268

Iteration: 1
 Score = 72.0 bits (175), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 38/102 (37%), Positives = 57/102 (55%), Gaps = 9/102 (8%)
Query: 1   MRIATGAS-------MARAAAPCVLFFDELDSIAKXXXXXXXXXXX-XXXXXINQILTEM 52
           M +  GAS        A+  AP ++F DE+D+I K                 +NQ+L EM
Sbjct: 83  MFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEM 142
Query: 53  DGMGAKKN-VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 93
           DG G++   V ++ ATNRP+I+DPA++RPGR D+ + +  PD
Sbjct: 143 DGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPD 184

>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 428

Iteration: 1
 Score = 71.2 bits (173), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 36/82 (43%), Positives = 48/82 (58%)
Query: 9   MARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATN 68
           +AR  AP ++F DE+DSIA                 + ++LT+MDG     NV +I ATN
Sbjct: 260 LARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATN 319
Query: 69  RPDIIDPAILRPGRLDQLIYIP 90
           R D +DPA+LRPGRLD+ I  P
Sbjct: 320 RADTLDPALLRPGRLDRKIEFP 341

>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 467

Iteration: 1
 Score = 70.9 bits (172), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 30/86 (34%), Positives = 51/86 (59%)
Query: 8   SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGAT 67
            MAR    C++FFDE+D++                  + +++T++DG   + N+ ++ AT
Sbjct: 296 EMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFAT 355
Query: 68  NRPDIIDPAILRPGRLDQLIYIPLPD 93
           NRP+ +DPA+LRPGR+D+ +   LPD
Sbjct: 356 NRPNTLDPALLRPGRIDRKVEFSLPD 381

>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 434

Iteration: 1
 Score = 68.9 bits (167), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 37/101 (36%), Positives = 53/101 (52%), Gaps = 7/101 (6%)
Query: 1   MRIATGASMARAA-------APCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMD 53
           M I  GA + R A       AP ++F DELD+I                  + ++L ++D
Sbjct: 254 MYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLD 313
Query: 54  GMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE 94
           G  +   V ++ ATNR D++DPA+LR GRLD+ I  PLP E
Sbjct: 314 GFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSE 354

>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 62.8 bits (151), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 33/84 (39%), Positives = 49/84 (58%), Gaps = 3/84 (3%)
Query: 10  ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
           A   AP ++F DELD+IA                 ++Q+LT MDG+  + +V ++ ATNR
Sbjct: 293 AEKNAPAIIFIDELDAIAPKREKTHGEVERRI---VSQLLTLMDGLKQRAHVIVMAATNR 349
Query: 70  PDIIDPAILRPGRLDQLIYIPLPD 93
           P+ IDPA+ R GR D+ + I +PD
Sbjct: 350 PNSIDPALRRFGRFDREVDIGIPD 373

>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain Of Membrane Fusion Atpase P97 Length = 458

Iteration: 1
 Score = 62.8 bits (151), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 33/84 (39%), Positives = 49/84 (58%), Gaps = 3/84 (3%)
Query: 10  ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
           A   AP ++F DELD+IA                 ++Q+LT MDG+  + +V ++ ATNR
Sbjct: 293 AEKNAPAIIFIDELDAIAPKREKTHGEVERRI---VSQLLTLMDGLKQRAHVIVMAATNR 349
Query: 70  PDIIDPAILRPGRLDQLIYIPLPD 93
           P+ IDPA+ R GR D+ + I +PD
Sbjct: 350 PNSIDPALRRFGRFDREVDIGIPD 373

>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 62.8 bits (151), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 33/84 (39%), Positives = 49/84 (58%), Gaps = 3/84 (3%)
Query: 10  ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
           A   AP ++F DELD+IA                 ++Q+LT MDG+  + +V ++ ATNR
Sbjct: 293 AEKNAPAIIFIDELDAIAPKREKTHGEVERRI---VSQLLTLMDGLKQRAHVIVMAATNR 349
Query: 70  PDIIDPAILRPGRLDQLIYIPLPD 93
           P+ IDPA+ R GR D+ + I +PD
Sbjct: 350 PNSIDPALRRFGRFDREVDIGIPD 373

>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 62.4 bits (150), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 33/84 (39%), Positives = 49/84 (58%), Gaps = 3/84 (3%)
Query: 10  ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
           A   AP ++F DELD+IA                 ++Q+LT MDG+  + +V ++ ATNR
Sbjct: 293 AEKNAPAIIFIDELDAIAPKREKTHGEVERRI---VSQLLTLMDGLKQRAHVIVMAATNR 349
Query: 70  PDIIDPAILRPGRLDQLIYIPLPD 93
           P+ IDPA+ R GR D+ + I +PD
Sbjct: 350 PNSIDPALRRFGRFDREVDIGIPD 373

>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 26/80 (32%), Positives = 45/80 (56%)
Query: 14  APCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNRPDII 73
           AP ++F DE+D+I                  + ++L ++DG   + +V +I ATN+ + +
Sbjct: 275 APSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETL 334
Query: 74  DPAILRPGRLDQLIYIPLPD 93
           DPA++RPGR+D+ I    PD
Sbjct: 335 DPALIRPGRIDRKILFENPD 354

>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer Length = 331

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 30/87 (34%), Positives = 47/87 (54%), Gaps = 6/87 (6%)
Query: 8   SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGA-KKNVFIIGA 66
           +MAR   P ++F DE+D++                    ++L +M+G+G   + V ++GA
Sbjct: 113 AMARENKPSIIFIDEVDALTGTRGEGESEASRRIK---TELLVQMNGVGNDSQGVLVLGA 169
Query: 67  TNRPDIIDPAILRPGRLDQLIYIPLPD 93
           TN P  +D AI R  R ++ IYIPLPD
Sbjct: 170 TNIPWQLDSAIRR--RFERRIYIPLPD 194

>pdb|2ZAM|A Chain A, Crystal Structure Of Mouse Skd1VPS4B APO-Form Length = 444

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 28/86 (32%), Positives = 45/86 (52%), Gaps = 6/86 (6%)
Query: 9   MARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKN-VFIIGAT 67
           +AR   P ++F DE+DS+                    + L +M G+G   + + ++GAT
Sbjct: 222 LARENKPSIIFIDEIDSLCGSRSENESEAARRIK---TEFLVQMQGVGVDNDGILVLGAT 278
Query: 68  NRPDIIDPAILRPGRLDQLIYIPLPD 93
           N P ++D AI R  R ++ IYIPLP+
Sbjct: 279 NIPWVLDSAIRR--RFEKRIYIPLPE 302

>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound State Length = 322

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 29/87 (33%), Positives = 47/87 (54%), Gaps = 6/87 (6%)
Query: 8   SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGA-KKNVFIIGA 66
           +MAR   P ++F D++D++                    ++L +M+G+G   + V ++GA
Sbjct: 104 AMARENKPSIIFIDQVDALTGTRGEGESEASRRIK---TELLVQMNGVGNDSQGVLVLGA 160
Query: 67  TNRPDIIDPAILRPGRLDQLIYIPLPD 93
           TN P  +D AI R  R ++ IYIPLPD
Sbjct: 161 TNIPWQLDSAIRR--RFERRIYIPLPD 185

>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b Length = 322

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 28/86 (32%), Positives = 45/86 (52%), Gaps = 6/86 (6%)
Query: 9   MARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKN-VFIIGAT 67
           +AR   P ++F DE+DS+                    + L +M G+G   + + ++GAT
Sbjct: 100 LARENKPSIIFIDEIDSLCGSRSENESEAARRIK---TEFLVQMQGVGVDNDGILVLGAT 156
Query: 68  NRPDIIDPAILRPGRLDQLIYIPLPD 93
           N P ++D AI R  R ++ IYIPLP+
Sbjct: 157 NIPWVLDSAIRR--RFEKRIYIPLPE 180

>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4 Length = 355

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 29/87 (33%), Positives = 47/87 (54%), Gaps = 6/87 (6%)
Query: 8   SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGA-KKNVFIIGA 66
           +MAR   P ++F D++D++                    ++L +M+G+G   + V ++GA
Sbjct: 137 AMARENKPSIIFIDQVDALTGTRGEGESEASRRIK---TELLVQMNGVGNDSQGVLVLGA 193
Query: 67  TNRPDIIDPAILRPGRLDQLIYIPLPD 93
           TN P  +D AI R  R ++ IYIPLPD
Sbjct: 194 TNIPWQLDSAIRR--RFERRIYIPLPD 218

>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of Atpgammas Length = 340

Iteration: 1
 Score = 48.9 bits (115), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 29/87 (33%), Positives = 47/87 (54%), Gaps = 6/87 (6%)
Query: 8   SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGA-KKNVFIIGA 66
           +MAR   P ++F D++D++                    ++L +M+G+G   + V ++GA
Sbjct: 122 AMARENKPSIIFIDQVDALTGTRGEGESEASRRIK---TELLVQMNGVGNDSQGVLVLGA 178
Query: 67  TNRPDIIDPAILRPGRLDQLIYIPLPD 93
           TN P  +D AI R  R ++ IYIPLPD
Sbjct: 179 TNIPWQLDSAIRR--RFERRIYIPLPD 203

>pdb|3D8B|A Chain A, Crystal Structure Of Human Fidgetin-Like Protein 1 In Complex With Adp Length = 357

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 29/88 (32%), Positives = 45/88 (51%), Gaps = 7/88 (7%)
Query: 8   SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDG--MGAKKNVFIIG 65
           ++AR   P V+F DE+DS+                    + L ++DG    ++  + ++G
Sbjct: 170 AVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIK---TEFLVQLDGATTSSEDRILVVG 226
Query: 66  ATNRPDIIDPAILRPGRLDQLIYIPLPD 93
           ATNRP  ID A  R  RL + +YIPLP+
Sbjct: 227 ATNRPQEIDEAARR--RLVKRLYIPLPE 252

>pdb|3VFD|A Chain A, Human Spastin Aaa Domain Length = 389

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 27/89 (30%), Positives = 44/89 (49%), Gaps = 7/89 (7%)
Query: 8   SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGM--GAKKNVFIIG 65
           ++AR   P ++F D++DS+                    + L E DG+       V ++G
Sbjct: 201 AVARELQPSIIFIDQVDSLLCERREGEHDASRRLK---TEFLIEFDGVQSAGDDRVLVMG 257
Query: 66  ATNRPDIIDPAILRPGRLDQLIYIPLPDE 94
           ATNRP  +D A+LR  R  + +Y+ LP+E
Sbjct: 258 ATNRPQELDEAVLR--RFIKRVYVSLPNE 284

>pdb|3B9P|A Chain A, Spastin Length = 297

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 27/90 (30%), Positives = 43/90 (47%), Gaps = 8/90 (8%)
Query: 8   SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKN---VFII 64
           ++AR   P ++F DE+DS+                    + L E DG+    +   + ++
Sbjct: 107 AVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLK---TEFLVEFDGLPGNPDGDRIVVL 163
Query: 65  GATNRPDIIDPAILRPGRLDQLIYIPLPDE 94
            ATNRP  +D A LR  R  + +Y+ LPDE
Sbjct: 164 AATNRPQELDEAALR--RFTKRVYVSLPDE 191

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	110
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	1e-58
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	4e-56
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	2e-50
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	3e-28
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	3e-38
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	8e-38
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	8e-37
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	5e-36
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	1e-35
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	4e-35
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	3e-32
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	5e-32
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	5e-30
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	7e-30
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	1e-29
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	3e-29
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	5e-29
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	1e-28
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	1e-28
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	1e-28
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	1e-27
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	2e-18

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus} Length = 301

 Score =  181 bits (461), Expect = 1e-58
 Identities = 79/85 (92%), Positives = 82/85 (96%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           AR AAPCVLFFDELDSIAK+RGG++GDGGGAADRVINQILTEMDGM  KKNVFIIGATNR
Sbjct: 104 ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR 163

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 164 PDIIDPAILRPGRLDQLIYIPLPDE 188

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score =  173 bits (442), Expect = 4e-56
 Identities = 48/85 (56%), Positives = 65/85 (76%), Gaps = 3/85 (3%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           A+ +APCV+FFDE+D++   R        GA+ RV+NQ+LTEMDG+ A++ VFI+ ATNR
Sbjct: 99  AKNSAPCVIFFDEVDALCPRRSD---RETGASVRVVNQLLTEMDGLEARQQVFIMAATNR 155

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           PDIIDPAILRPGRLD+ +++ LP  
Sbjct: 156 PDIIDPAILRPGRLDKTLFVGLPPP 180

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C Length = 322

 Score =  129 bits (327), Expect = 3e-38
 Identities = 33/88 (37%), Positives = 54/88 (61%), Gaps = 6/88 (6%)

Query: 8   SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG-AKKNVFIIGA 66
           +MAR   P ++F D++D++  +RG        A+ R+  ++L +M+G+G   + V ++GA
Sbjct: 104 AMARENKPSIIFIDQVDALTGTRGEG---ESEASRRIKTELLVQMNGVGNDSQGVLVLGA 160

Query: 67  TNRPDIIDPAILRPGRLDQLIYIPLPDE 94
           TN P  +D AI R  R ++ IYIPLPD 
Sbjct: 161 TNIPWQLDSAIRR--RFERRIYIPLPDL 186

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score =  128 bits (323), Expect = 8e-38
 Identities = 33/88 (37%), Positives = 51/88 (57%), Gaps = 6/88 (6%)

Query: 8   SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA-KKNVFIIGA 66
            +AR   P ++F DE+DS+  SR  +      AA R+  + L +M G+G     + ++GA
Sbjct: 99  QLARENKPSIIFIDEIDSLCGSRSEN---ESEAARRIKTEFLVQMQGVGVDNDGILVLGA 155

Query: 67  TNRPDIIDPAILRPGRLDQLIYIPLPDE 94
           TN P ++D AI R  R ++ IYIPLP+ 
Sbjct: 156 TNIPWVLDSAIRR--RFEKRIYIPLPEP 181

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A* Length = 355

 Score =  126 bits (318), Expect = 8e-37
 Identities = 33/88 (37%), Positives = 54/88 (61%), Gaps = 6/88 (6%)

Query: 8   SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG-AKKNVFIIGA 66
           +MAR   P ++F D++D++  +RG        A+ R+  ++L +M+G+G   + V ++GA
Sbjct: 137 AMARENKPSIIFIDQVDALTGTRGEG---ESEASRRIKTELLVQMNGVGNDSQGVLVLGA 193

Query: 67  TNRPDIIDPAILRPGRLDQLIYIPLPDE 94
           TN P  +D AI R  R ++ IYIPLPD 
Sbjct: 194 TNIPWQLDSAIRR--RFERRIYIPLPDL 219

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score =  122 bits (309), Expect = 5e-36
 Identities = 45/86 (52%), Positives = 61/86 (70%)

Query: 9   MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATN 68
           +A+  AP ++F DE+D+IA  R  ++  G     R + Q+L EMDG  A+ +V IIGATN
Sbjct: 105 LAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATN 164

Query: 69  RPDIIDPAILRPGRLDQLIYIPLPDE 94
           RPDI+DPAILRPGR D++I +P PDE
Sbjct: 165 RPDILDPAILRPGRFDRIIEVPAPDE 190

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A Length = 444

 Score =  125 bits (314), Expect = 1e-35
 Identities = 33/88 (37%), Positives = 51/88 (57%), Gaps = 6/88 (6%)

Query: 8   SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA-KKNVFIIGA 66
            +AR   P ++F DE+DS+  SR  +      AA R+  + L +M G+G     + ++GA
Sbjct: 221 QLARENKPSIIFIDEIDSLCGSRSEN---ESEAARRIKTEFLVQMQGVGVDNDGILVLGA 277

Query: 67  TNRPDIIDPAILRPGRLDQLIYIPLPDE 94
           TN P ++D AI R  R ++ IYIPLP+ 
Sbjct: 278 TNIPWVLDSAIRR--RFEKRIYIPLPEA 303

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Length = 293

 Score =  120 bits (303), Expect = 4e-35
 Identities = 24/110 (21%), Positives = 46/110 (41%), Gaps = 14/110 (12%)

Query: 7   ASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQIL---------TEMDGMGA 57
           A + R    C LF ++LD+ A   GG+        ++++N  L          ++ GM  
Sbjct: 92  AEIIRKGNMCCLFINDLDAGAGRMGGT--TQYTVNNQMVNATLMNIADNPTNVQLPGMYN 149

Query: 58  K---KNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFL 104
           K     V II   N    +   ++R GR+++  + P  ++   + +  F 
Sbjct: 150 KQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDRIGVCTGIFR 199

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* 2pjh_B Length = 489

 Score =  116 bits (292), Expect = 3e-32
 Identities = 36/85 (42%), Positives = 55/85 (64%), Gaps = 3/85 (3%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNR 69
           A   AP ++F DELD+IA  R  + G+      R+++Q+LT MDG+  + +V ++ ATNR
Sbjct: 293 AEKNAPAIIFIDELDAIAPKREKTHGE---VERRIVSQLLTLMDGLKQRAHVIVMAATNR 349

Query: 70  PDIIDPAILRPGRLDQLIYIPLPDE 94
           P+ IDPA+ R GR D+ + I +PD 
Sbjct: 350 PNSIDPALRRFGRFDREVDIGIPDA 374

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens} Length = 262

 Score =  111 bits (281), Expect = 5e-32
 Identities = 40/102 (39%), Positives = 63/102 (61%), Gaps = 10/102 (9%)

Query: 1   MRIATGAS-------MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADR--VINQILTE 51
           +    GA+        ARA APC+++ DE+D++ K R  ++  G    +    +NQ+L E
Sbjct: 78  VIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMS-GFSNTEEEQTLNQLLVE 136

Query: 52  MDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 93
           MDGMG   +V ++ +TNR DI+D A++RPGRLD+ ++I LP 
Sbjct: 137 MDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPT 178

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20 Length = 257

 Score =  106 bits (267), Expect = 5e-30
 Identities = 43/100 (43%), Positives = 65/100 (65%), Gaps = 7/100 (7%)

Query: 1   MRIATGAS-------MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMD 53
           M +  GAS        A+ AAPC++F DE+D++ + RG  +G G    ++ +NQ+L EMD
Sbjct: 84  MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMD 143

Query: 54  GMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 93
           G    + + +I ATNRPD++DPA+LRPGR D+ + + LPD
Sbjct: 144 GFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPD 183

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A* Length = 254

 Score =  106 bits (266), Expect = 7e-30
 Identities = 43/100 (43%), Positives = 62/100 (62%), Gaps = 7/100 (7%)

Query: 1   MRIATGAS-------MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMD 53
           M +  GA+        A+  APC++F DE+D++ + RG  VG G    ++ +NQ+L EMD
Sbjct: 88  MFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMD 147

Query: 54  GMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 93
           G      + ++ ATNRPDI+DPA+LRPGR D+ I I  PD
Sbjct: 148 GFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPD 187

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20 Length = 278

 Score =  105 bits (265), Expect = 1e-29
 Identities = 43/100 (43%), Positives = 62/100 (62%), Gaps = 7/100 (7%)

Query: 1   MRIATGAS-------MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMD 53
           M +  GA+        A+  APC++F DE+D++ + RG  VG G    ++ +NQ+L EMD
Sbjct: 112 MFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMD 171

Query: 54  GMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 93
           G      + ++ ATNRPDI+DPA+LRPGR D+ I I  PD
Sbjct: 172 GFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPD 211

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E* Length = 476

 Score =  108 bits (271), Expect = 3e-29
 Identities = 43/86 (50%), Positives = 62/86 (72%), Gaps = 4/86 (4%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADR--VINQILTEMDGMGAKKNVFIIGAT 67
           A+A APC++F DE+D++ + RG   G GGG  +R   +NQ+L EMDG  +K+ + ++ AT
Sbjct: 104 AKAHAPCIVFIDEIDAVGRHRG--AGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAAT 161

Query: 68  NRPDIIDPAILRPGRLDQLIYIPLPD 93
           NRPDI+DPA+LRPGR D+ I +  PD
Sbjct: 162 NRPDILDPALLRPGRFDKKIVVDPPD 187

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A* Length = 268

 Score =  104 bits (261), Expect = 5e-29
 Identities = 43/103 (41%), Positives = 62/103 (60%), Gaps = 11/103 (10%)

Query: 1   MRIATGAS-------MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADR--VINQILTE 51
           M +  GAS        A+  AP ++F DE+D+I KSR    G   G  +R   +NQ+L E
Sbjct: 83  MFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAG-GVVSGNDEREQTLNQLLAE 141

Query: 52  MDGMGA-KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 93
           MDG G+    V ++ ATNRP+I+DPA++RPGR D+ + +  PD
Sbjct: 142 MDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPD 184

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens} Length = 357

 Score =  105 bits (263), Expect = 1e-28
 Identities = 32/89 (35%), Positives = 50/89 (56%), Gaps = 7/89 (7%)

Query: 8   SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAK--KNVFIIG 65
           ++AR   P V+F DE+DS+   RG    +   ++ R+  + L ++DG        + ++G
Sbjct: 170 AVARCQQPAVIFIDEIDSLLSQRGDGEHE---SSRRIKTEFLVQLDGATTSSEDRILVVG 226

Query: 66  ATNRPDIIDPAILRPGRLDQLIYIPLPDE 94
           ATNRP  ID A  R  RL + +YIPLP+ 
Sbjct: 227 ATNRPQEIDEAARR--RLVKRLYIPLPEA 253

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus} Length = 499

 Score =  106 bits (267), Expect = 1e-28
 Identities = 42/86 (48%), Positives = 58/86 (67%), Gaps = 4/86 (4%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADR--VINQILTEMDGMGAKKNVFIIGAT 67
           A+  APC++F DE+D++ + RG   G GGG  +R   +NQ+L EMDG      + ++ AT
Sbjct: 119 AKRHAPCIVFIDEIDAVGRKRG--SGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAAT 176

Query: 68  NRPDIIDPAILRPGRLDQLIYIPLPD 93
           NRPDI+DPA+LRPGR D+ I I  PD
Sbjct: 177 NRPDILDPALLRPGRFDRQIAIDAPD 202

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score =  103 bits (260), Expect = 1e-28
 Identities = 31/90 (34%), Positives = 49/90 (54%), Gaps = 8/90 (8%)

Query: 8   SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKN---VFII 64
           ++AR   P ++F DE+DS+   R  S      A+ R+  + L E DG+    +   + ++
Sbjct: 107 AVARHMQPSIIFIDEVDSLLSERSSS---EHEASRRLKTEFLVEFDGLPGNPDGDRIVVL 163

Query: 65  GATNRPDIIDPAILRPGRLDQLIYIPLPDE 94
            ATNRP  +D A LR  R  + +Y+ LPDE
Sbjct: 164 AATNRPQELDEAALR--RFTKRVYVSLPDE 191

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score =  102 bits (256), Expect = 1e-27
 Identities = 31/89 (34%), Positives = 52/89 (58%), Gaps = 7/89 (7%)

Query: 8   SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKN--VFIIG 65
           ++AR   P ++F D++DS+   R     D   A+ R+  + L E DG+ +  +  V ++G
Sbjct: 201 AVARELQPSIIFIDQVDSLLCERREGEHD---ASRRLKTEFLIEFDGVQSAGDDRVLVMG 257

Query: 66  ATNRPDIIDPAILRPGRLDQLIYIPLPDE 94
           ATNRP  +D A+LR  R  + +Y+ LP+E
Sbjct: 258 ATNRPQELDEAVLR--RFIKRVYVSLPNE 284

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A* Length = 272

 Score = 76.3 bits (188), Expect = 2e-18
 Identities = 14/96 (14%), Positives = 37/96 (38%), Gaps = 9/96 (9%)

Query: 10  ARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAK-KNVFIIGATN 68
           A  +    +  D+++ +          G   ++ V+  +L  +     + + + IIG T+
Sbjct: 120 AYKSQLSCVVVDDIERLLDYVPI----GPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTS 175

Query: 69  RPDIIDPAILRPGRLDQLIYIPL---PDEIWLILSD 101
           R D++   +         I++P     +++   L  
Sbjct: 176 RKDVLQ-EMEMLNAFSTTIHVPNIATGEQLLEALEL 210

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	110
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.97
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.97
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.97
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.96
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.96
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.96
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.95
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.93
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.87
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.87
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.86
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.84
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.82
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.8
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.8
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.79
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.79
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.79
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.79
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.78
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.78
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.77
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.77
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.75
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.71
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.69
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.68
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.67
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.64
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.4
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.23
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.19
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.11
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.11
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.0
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.98
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.95
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	98.89
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.85
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.82
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.77
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.76
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.75
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.73
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.7
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.69
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.63
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	98.62
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.62
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.61
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.6
2r44_A	331	Uncharacterized protein; putative ATPase, structur	98.58
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.57
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.54
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.53
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.53
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.49
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.43
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	98.41
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.41
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.38
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.36
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.35
3pvs_A	447	Replication-associated recombination protein A; ma	98.34
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.33
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.29
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.28
3bos_A	242	Putative DNA replication factor; P-loop containing	98.23
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.22
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.21
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	98.16
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.15
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.13
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.03
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	97.99
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.99
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.96
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	97.92
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.88
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	97.83
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.67
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	97.64
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.51
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.32
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.31
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.64
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	96.59
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.04
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	96.03
2fna_A	357	Conserved hypothetical protein; structural genomic	96.0
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	95.99
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.87
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	95.74
3co5_A	143	Putative two-component system transcriptional RES	95.69
3f8t_A	506	Predicted ATPase involved in replication control,	95.54
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	95.47
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	94.47
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	94.23
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	93.78
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	92.94
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	90.12
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	89.81
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	89.73
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	89.73
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	89.27
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	85.92
2cvh_A	220	DNA repair and recombination protein RADB; filamen	85.46
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	85.33
2krk_A	86	26S protease regulatory subunit 8; structural geno	84.94
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	84.83
1xp8_A	366	RECA protein, recombinase A; recombination, radior	84.26
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	82.47
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	82.34
1g6h_A	257	High-affinity branched-chain amino acid transport	80.54
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	80.48
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	80.33

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.97  E-value=2.2e-31  Score=197.00  Aligned_cols=106  Identities=38%  Similarity=0.587  Sum_probs=97.4

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++++|..|++++||||||||+|+++++|.......+....+++++||++||++....+|+||||||+|+.||||++|||
T Consensus       229 ~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATNrpd~LDpAllRpG  308 (405)
T 4b4t_J          229 MVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALLRPG  308 (405)
T ss_dssp             HHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEESCSSSSCHHHHSTT
T ss_pred             HHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEEeccCChhhCCHhHcCCC
Confidence            58999999999999999999999999988765544444677899999999999988899999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||++|+|++||.++|..||+.++++
T Consensus       309 RfD~~I~i~lPd~~~R~~Il~~~~~~  334 (405)
T 4b4t_J          309 RIDRKIEFPPPSVAARAEILRIHSRK  334 (405)
T ss_dssp             SSCCEEECCCCCHHHHHHHHHHHHTT
T ss_pred             cCceEEEcCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999988764

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.97  E-value=2e-30  Score=192.93  Aligned_cols=106  Identities=29%  Similarity=0.434  Sum_probs=98.1

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|..|++++||||||||+|+++.+|..+.........+.+++||+++|++....+|+||+|||+|+.||||++|||
T Consensus       263 ~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATNrpd~LDpALlRpG  342 (437)
T 4b4t_I          263 LCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPG  342 (437)
T ss_dssp             HHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEESCSTTCCTTSSCTT
T ss_pred             HHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCChhhcCHHHhcCC
Confidence            57899999999999999999999999999776655555778899999999999988899999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||++|+|++||.++|..||+.++++
T Consensus       343 RfD~~I~v~lPd~~~R~~Il~~~l~~  368 (437)
T 4b4t_I          343 RIDRKILFENPDLSTKKKILGIHTSK  368 (437)
T ss_dssp             TEEEEECCCCCCHHHHHHHHHHHHTT
T ss_pred             ceeEEEEcCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999988764

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.97  E-value=5.2e-30  Score=191.50  Aligned_cols=106  Identities=38%  Similarity=0.574  Sum_probs=98.0

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|..|+.++||||||||+|+++.+|.......+....+++++||++||++.+..+|+||+|||+|+.||||++|||
T Consensus       262 ~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATNrp~~LDpAllRpG  341 (437)
T 4b4t_L          262 IIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALLRPG  341 (437)
T ss_dssp             HHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEESSTTSSCTTTTSTT
T ss_pred             HHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEEEecCCchhhCHHHhCCC
Confidence            57899999999999999999999999999766655555778899999999999988899999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||++|+|++||.++|..||+.++++
T Consensus       342 RfD~~I~i~lPd~~~R~~Il~~~~~~  367 (437)
T 4b4t_L          342 RLDRKVEIPLPNEAGRLEIFKIHTAK  367 (437)
T ss_dssp             SEEEEECCCCCCHHHHHHHHHHHHHT
T ss_pred             ccceeeecCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999988764

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.96  E-value=3.3e-30  Score=192.39  Aligned_cols=106  Identities=34%  Similarity=0.565  Sum_probs=97.1

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|..|+.++||||||||+|+++.+|..+.........+++++||++||++.+..+|+||||||+|+.||||++|||
T Consensus       262 ~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTNrp~~LD~AllRpG  341 (434)
T 4b4t_M          262 LVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDPALLRSG  341 (434)
T ss_dssp             HHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECSSCCCCCTTTCSTT
T ss_pred             HHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCCCchhcCHhHhcCC
Confidence            57899999999999999999999999999766544444667889999999999988899999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||++|+|++||.++|..||+.++++
T Consensus       342 RfD~~I~i~lPd~~~R~~Il~~~~~~  367 (434)
T 4b4t_M          342 RLDRKIEFPLPSEDSRAQILQIHSRK  367 (434)
T ss_dssp             SEEEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             ceeEEEEeCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999988764

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.96  E-value=1.7e-29  Score=188.40  Aligned_cols=106  Identities=39%  Similarity=0.550  Sum_probs=98.0

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++++|..|+.++||||||||+|+++.+|.......+....+++++||++||++.+..+|+||||||+|+.||||++|||
T Consensus       253 ~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI~aTN~~~~LD~AllRpG  332 (428)
T 4b4t_K          253 MVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATNRADTLDPALLRPG  332 (428)
T ss_dssp             HHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEEEEEESCSSSCCHHHHSSS
T ss_pred             HHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhcChhhhcCC
Confidence            58999999999999999999999999999776655556788999999999999988899999999999999999999999


Q ss_pred             ccceEEEec-CCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIP-LPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~-~P~~~~R~~~~~~~~~~  107 (110)
                      |||++|+|| +||.++|..|++.++++
T Consensus       333 Rfd~~I~~p~lPd~~~R~~Il~~~~~~  359 (428)
T 4b4t_K          333 RLDRKIEFPSLRDRRERRLIFGTIASK  359 (428)
T ss_dssp             SEEEEEECCSSCCHHHHHHHHHHHHHS
T ss_pred             cceEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            999999996 89999999999988764

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.96  E-value=2.2e-29  Score=188.72  Aligned_cols=106  Identities=32%  Similarity=0.558  Sum_probs=97.1

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|..|+.++||||||||+|+++.+|............+.++++|++||++....+|+||+|||+|+.||||++|||
T Consensus       290 ~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATNrpd~LDpALlRpG  369 (467)
T 4b4t_H          290 MVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPG  369 (467)
T ss_dssp             HHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECSCTTSBCHHHHSTT
T ss_pred             HHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEEEeCCCCcccCChhhhccc
Confidence            58899999999999999999999999999766544444667889999999999988899999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||++|+|++||.++|..||+.++++
T Consensus       370 RFD~~I~i~lPd~~~R~~Ilk~~l~~  395 (467)
T 4b4t_H          370 RIDRKVEFSLPDLEGRANIFRIHSKS  395 (467)
T ss_dssp             TCCEEECCCCCCHHHHHHHHHHHHTT
T ss_pred             cccEEEEeCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999988764

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=99.95  E-value=1.7e-29  Score=199.55  Aligned_cols=106  Identities=75%  Similarity=1.127  Sum_probs=82.5

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++++|+.|++++||||||||+|+++++|+.+....++...+++++||++||++....+|+||||||+|+.||||++|||
T Consensus       558 ~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~~V~vi~aTN~p~~lD~AllRpg  637 (806)
T 3cf2_A          558 NVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPG  637 (806)
T ss_dssp             HHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSSSSEEEECC-CCSSSSCHHHHSTT
T ss_pred             HHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCCCCEEEEEeCCCchhCCHhHcCCC
Confidence            58999999999999999999999999999765544455788999999999999988899999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||+.|++++||.++|..||+.++++
T Consensus       638 Rfd~~i~v~lPd~~~R~~il~~~l~~  663 (806)
T 3cf2_A          638 RLDQLIYIPLPDEKSRVAILKANLRK  663 (806)
T ss_dssp             TSCCEEEC-----CHHHHTTTTTSSC
T ss_pred             cceEEEEECCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999988764

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=99.93  E-value=3.7e-26  Score=180.58  Aligned_cols=103  Identities=36%  Similarity=0.579  Sum_probs=95.2

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|+.|+.++||||||||+|+++++|+++...   ...+++++|+++|+++....+|+|||+||+++.||++++|||
T Consensus       285 ~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~---~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~LD~ALrR~G  361 (806)
T 3cf2_A          285 NLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGE---VERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFG  361 (806)
T ss_dssp             HHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCT---THHHHHHHHHTHHHHCCGGGCEEEEEECSSTTTSCTTTTSTT
T ss_pred             HHHHHHHHHHHcCCeEEEEehhcccccccCCCCCh---HHHHHHHHHHHHHhcccccCCEEEEEecCChhhcCHHHhCCc
Confidence            58899999999999999999999999998765433   678999999999999988889999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||++|++++||.++|..|++.++++
T Consensus       362 RFd~~I~i~~Pd~~~R~~IL~~~l~~  387 (806)
T 3cf2_A          362 RFDREVDIGIPDATGRLEILQIHTKN  387 (806)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHTCSS
T ss_pred             ccceEEecCCCCHHHHHHHHHHHhcC
Confidence            99999999999999999999988754

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=99.87  E-value=6.1e-22  Score=141.16  Aligned_cols=106  Identities=75%  Similarity=1.127  Sum_probs=93.5

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|..|...+||||||||+|.+...+............+++++++..++++....+++||+|||+++.+|++++|||
T Consensus        96 ~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~v~vi~atn~~~~ld~al~r~g  175 (301)
T 3cf0_A           96 NVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPG  175 (301)
T ss_dssp             HHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTSSEEEEEEESCGGGSCGGGGSTT
T ss_pred             HHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCCCEEEEEecCCccccChHHhcCC
Confidence            46789999999999999999999999887654433334567889999999999877789999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      ||+..|++++|+.++|..|++.++++
T Consensus       176 Rf~~~i~i~~p~~~~r~~il~~~l~~  201 (301)
T 3cf0_A          176 RLDQLIYIPLPDEKSRVAILKANLRK  201 (301)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             ccceEEecCCcCHHHHHHHHHHHHcc
Confidence            99999999999999999999887753

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=99.87  E-value=6.2e-22  Score=149.34  Aligned_cols=106  Identities=39%  Similarity=0.731  Sum_probs=89.2

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|+.|+..+||||||||+|.+..++............+.+++|+..|+++....+++||++||+++.+|++++|||
T Consensus        96 ~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~~~~Ld~allR~g  175 (476)
T 2ce7_A           96 RVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPG  175 (476)
T ss_dssp             HHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESCGGGSCGGGGSTT
T ss_pred             HHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecCChhhhchhhcccC
Confidence            46789999999999999999999999887543322233567889999999999877789999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||+.|++++|+.++|..|++.++++
T Consensus       176 RFd~~i~i~~Pd~~~R~~Il~~~~~~  201 (476)
T 2ce7_A          176 RFDKKIVVDPPDMLGRKKILEIHTRN  201 (476)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             cceeEeecCCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999887754

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.86  E-value=2e-21  Score=137.38  Aligned_cols=103  Identities=49%  Similarity=0.791  Sum_probs=86.6

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|+.|+...||++|+||+|.++..+.....   ....+.+++++.+|++...+..++++++||+|+.||++++|||
T Consensus        91 ~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~---~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD~al~r~g  167 (274)
T 2x8a_A           91 AVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRET---GASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPG  167 (274)
T ss_dssp             HHHHHHHHHHHTCSEEEEEETCTTTCC------------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSCHHHHSTT
T ss_pred             HHHHHHHHHHhcCCCeEeeehhhhhhcccCCCcc---hHHHHHHHHHHHhhhcccccCCEEEEeecCChhhCCHhhcCcc
Confidence            4788999999999999999999999876543221   2345678899999999877789999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||+.|++++|+.++|..|++.+++.
T Consensus       168 Rfd~~i~~~~P~~~~r~~il~~~~~~  193 (274)
T 2x8a_A          168 RLDKTLFVGLPPPADRLAILKTITKN  193 (274)
T ss_dssp             SSCEEEECCSCCHHHHHHHHHHHTTT
T ss_pred             cCCeEEEeCCcCHHHHHHHHHHHHhc
Confidence            99999999999999999999988753

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.84  E-value=5.7e-20  Score=127.69  Aligned_cols=105  Identities=39%  Similarity=0.739  Sum_probs=90.7

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|+.|....|+++||||+|.+...+............+.++.++..++++....+++||++||.++.+|++++|||
T Consensus        92 ~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l~~~l~r~~  171 (257)
T 1lv7_A           92 RVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPG  171 (257)
T ss_dssp             HHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGGSTT
T ss_pred             HHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccCCCEEEEEeeCCchhCCHHHcCCC
Confidence            36789999999999999999999998876543322223455788999999999877789999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      ||++.+++++|+.++|..+++.+++
T Consensus       172 rf~~~i~i~~P~~~~r~~il~~~~~  196 (257)
T 1lv7_A          172 RFDRQVVVGLPDVRGREQILKVHMR  196 (257)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHHHT
T ss_pred             cCCeEEEeCCCCHHHHHHHHHHHHh
Confidence            9999999999999999999888765

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.82  E-value=1e-19  Score=130.99  Aligned_cols=101  Identities=34%  Similarity=0.561  Sum_probs=89.9

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC-CCCEEEEEecCCCCCCCccccCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA-KKNVFIIGATNRPDIIDPAILRP   80 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~-~~~v~vi~ttn~~~~ld~al~r~   80 (110)
                      .++.+|..|+..+|+||||||+|.+++++....   .....+++++++..++++.. ..+++||++||.|+.+|++++| 
T Consensus        93 ~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~---~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~~~~ld~al~r-  168 (322)
T 1xwi_A           93 LVKNLFQLARENKPSIIFIDEIDSLCGSRSENE---SEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR-  168 (322)
T ss_dssp             HHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCC---TTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESCTTTSCHHHHH-
T ss_pred             HHHHHHHHHHhcCCcEEEeecHHHhcccccccc---chHHHHHHHHHHHHHhcccccCCCEEEEEecCCcccCCHHHHh-
Confidence            468899999999999999999999998876543   23678899999999999864 5799999999999999999999 


Q ss_pred             CccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         81 GRLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        81 grfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                       ||+..+++++|+.++|..+++.++++
T Consensus       169 -Rf~~~i~i~~P~~~~r~~il~~~l~~  194 (322)
T 1xwi_A          169 -RFEKRIYIPLPEPHARAAMFKLHLGT  194 (322)
T ss_dssp             -TCCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             -hcCeEEEeCCcCHHHHHHHHHHHHhc
Confidence             99999999999999999999887753

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.80  E-value=2.7e-19  Score=125.56  Aligned_cols=106  Identities=43%  Similarity=0.711  Sum_probs=91.9

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|..|+...|+||||||+|.++.++.+............+..++..++++....++++|+|||.++.+|++++++|
T Consensus        98 ~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~l~~~l~~~~  177 (285)
T 3h4m_A           98 LVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPG  177 (285)
T ss_dssp             HHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGGBCHHHHSTT
T ss_pred             HHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchhcCHHHcCCC
Confidence            36788999999999999999999999887655433333556788888888988877789999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      ||+..++++.|+.++|..+++.+++.
T Consensus       178 Rf~~~i~~~~p~~~~r~~il~~~~~~  203 (285)
T 3h4m_A          178 RFDRIIEVPAPDEKGRLEILKIHTRK  203 (285)
T ss_dssp             SEEEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             cCCeEEEECCCCHHHHHHHHHHHHhc
Confidence            99999999999999999999887653

>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=99.80  E-value=3.4e-19  Score=123.31  Aligned_cols=105  Identities=37%  Similarity=0.646  Sum_probs=79.7

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCC-CCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGD-GGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRP   80 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~-~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~   80 (110)
                      +++.+|..|....|+||||||+|.++.++...... .+......+..++..+++.....++++|+|||.++.+|++++||
T Consensus        86 ~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~tn~~~~ld~~l~~~  165 (262)
T 2qz4_A           86 RVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRP  165 (262)
T ss_dssp             HHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEEEEESCGGGGGSGGGST
T ss_pred             HHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecCCChhhcCHHHhcC
Confidence            36788999999999999999999998877543211 12245567889999999887778999999999999999999999


Q ss_pred             CccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         81 GRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        81 grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      |||+..+++++|+.++|..+++.+++
T Consensus       166 ~R~~~~i~i~~p~~~~r~~il~~~~~  191 (262)
T 2qz4_A          166 GRLDRHVFIDLPTLQERREIFEQHLK  191 (262)
T ss_dssp             TSCCEEEECCSCCHHHHHHHHHHHHH
T ss_pred             CcCCeEEEeCCcCHHHHHHHHHHHHH
Confidence            99999999999999999999887765

>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=99.79  E-value=3.5e-19  Score=127.83  Aligned_cols=101  Identities=33%  Similarity=0.547  Sum_probs=86.5

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC-CCCCEEEEEecCCCCCCCccccCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG-AKKNVFIIGATNRPDIIDPAILRP   80 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~-~~~~v~vi~ttn~~~~ld~al~r~   80 (110)
                      +++.+|..|+..+|+||||||+|.+..++.....   ....++.++++..++++. ...+++||+|||.++.+|++++| 
T Consensus        98 ~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~---~~~~~~~~~ll~~l~~~~~~~~~v~vi~atn~~~~ld~al~~-  173 (322)
T 3eie_A           98 LVKQLFAMARENKPSIIFIDQVDALTGTRGEGES---EASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR-  173 (322)
T ss_dssp             HHHHHHHHHHHTSSEEEEEECGGGGSCC---------CCTHHHHHHHHHHHGGGGTSCCCEEEEEEESCGGGSCHHHHH-
T ss_pred             HHHHHHHHHHhcCCeEEEechhhhhhccCCCCcc---hHHHHHHHHHHHHhccccccCCceEEEEecCChhhCCHHHHc-
Confidence            4678999999999999999999999988754432   267889999999999985 45689999999999999999999 


Q ss_pred             CccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         81 GRLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        81 grfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                       ||+..+++++|+.++|..+++.++++
T Consensus       174 -Rf~~~i~~~~p~~~~r~~il~~~~~~  199 (322)
T 3eie_A          174 -RFERRIYIPLPDLAARTTMFEINVGD  199 (322)
T ss_dssp             -HCCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             -ccCeEEEeCCCCHHHHHHHHHHHhcc
Confidence             99999999999999999999987754

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.79  E-value=1.4e-19  Score=137.23  Aligned_cols=105  Identities=39%  Similarity=0.705  Sum_probs=89.7

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|+.|+...|||+||||+|.+...+............+.+++++..|++...+..++++++||+|+.+|++++|||
T Consensus       111 ~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAatn~p~~LD~aLlr~g  190 (499)
T 2dhr_A          111 RVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPG  190 (499)
T ss_dssp             HHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEECCSCGGGSCTTTSSTT
T ss_pred             HHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEEEecCChhhcCccccccc
Confidence            46788999988899999999999998776532222222456788999999999877778999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      |||+.|++++|+.++|..|++.+.+
T Consensus       191 Rfdr~i~i~~Pd~~~R~~IL~~~~~  215 (499)
T 2dhr_A          191 RFDRQIAIDAPDVKGREQILRIHAR  215 (499)
T ss_dssp             SSCCEEECCCCCHHHHHHHHHHTTS
T ss_pred             ccceEEecCCCCHHHHHHHHHHHHh
Confidence            9999999999999999999987765

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=99.79  E-value=5e-19  Score=133.87  Aligned_cols=103  Identities=36%  Similarity=0.568  Sum_probs=91.9

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|..|...+|++|||||+|.+.+++.....   ....++.+.|+..|++.....+++||+|||+++.+|++++++|
T Consensus       285 ~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~---~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~~Ld~al~r~g  361 (489)
T 3hu3_A          285 NLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHG---EVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFG  361 (489)
T ss_dssp             HHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCC---HHHHHHHHHHHHHHHHSCTTSCEEEEEEESCGGGBCGGGGSTT
T ss_pred             HHHHHHHHHHhcCCcEEEecchhhhccccccccc---hHHHHHHHHHHHHhhccccCCceEEEEecCCccccCHHHhCCC
Confidence            3678999999999999999999999988754432   2567889999999999877889999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      ||+..|++++|+.++|..+++.+.+.
T Consensus       362 Rf~~~i~i~~P~~~eR~~IL~~~~~~  387 (489)
T 3hu3_A          362 RFDREVDIGIPDATGRLEILQIHTKN  387 (489)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHHTTT
T ss_pred             cCceEEEeCCCCHHHHHHHHHHHHhc
Confidence            99999999999999999999987653

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=99.78  E-value=1.2e-18  Score=120.90  Aligned_cols=105  Identities=39%  Similarity=0.705  Sum_probs=85.1

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      ++..+|+.+....|+++++||+|.+...+............+.+++++..+++...+..++++++||.|+.+|++++|+|
T Consensus        96 ~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~a~t~~p~~ld~~l~r~~  175 (254)
T 1ixz_A           96 RVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPG  175 (254)
T ss_dssp             HHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTT
T ss_pred             HHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEEEEccCCchhCCHHHcCCC
Confidence            36778999988899999999999998766432211222456788899999998866778999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      ||+..|++++|+.++|..+++.+.+
T Consensus       176 rf~~~i~i~~p~~~~r~~il~~~~~  200 (254)
T 1ixz_A          176 RFDRQIAIDAPDVKGREQILRIHAR  200 (254)
T ss_dssp             SSCEEEECCSCCHHHHHHHHHHHHT
T ss_pred             cCCeEEeeCCcCHHHHHHHHHHHHc
Confidence            9999999999999999999887664

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.78  E-value=3.2e-19  Score=126.92  Aligned_cols=102  Identities=22%  Similarity=0.255  Sum_probs=73.1

Q ss_pred             cHHHHHHHH----HhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC-----------CCCCEEEEEe
Q psy13774          2 RIATGASMA----RAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG-----------AKKNVFIIGA   66 (110)
Q Consensus         2 ~l~~~F~~A----~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~-----------~~~~v~vi~t   66 (110)
                      +++.+|..|    +..+||||||||+|++++.+.+... .......+.+.|++.+|+..           ...+++||+|
T Consensus        83 ~i~~~f~~a~~~~~~~~~~vl~iDEiD~~~~~~~~~~~-~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~t  161 (293)
T 3t15_A           83 LIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQ-YTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVT  161 (293)
T ss_dssp             HHHHHHHHHHHHHTTSSCCCEEEECCC---------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEE
T ss_pred             HHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCCCCcc-ccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEe
Confidence            367788888    6789999999999999885543221 12245567789999988543           4468999999


Q ss_pred             cCCCCCCCccccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         67 TNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        67 tn~~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      ||+++.+|++++||||||..|+  +|+.++|..|++.++.
T Consensus       162 tN~~~~ld~al~R~~R~d~~i~--~P~~~~r~~Il~~~~~  199 (293)
T 3t15_A          162 GNDFSTLYAPLIRDGRMEKFYW--APTREDRIGVCTGIFR  199 (293)
T ss_dssp             CSSCCC--CHHHHHHHEEEEEE--CCCHHHHHHHHHHHHG
T ss_pred             cCCcccCCHHHhCCCCCceeEe--CcCHHHHHHHHHHhcc
Confidence            9999999999999999999997  5799999999887664

>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=99.77  E-value=1.1e-18  Score=126.99  Aligned_cols=101  Identities=33%  Similarity=0.547  Sum_probs=84.6

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC-CCCEEEEEecCCCCCCCccccCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA-KKNVFIIGATNRPDIIDPAILRP   80 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~-~~~v~vi~ttn~~~~ld~al~r~   80 (110)
                      .++.+|..|+..+|+||||||+|.+...+....   .....++.++|+..++++.. ..+++||++||.++.+|++++| 
T Consensus       131 ~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~---~~~~~~~~~~ll~~l~~~~~~~~~v~vI~atn~~~~ld~al~r-  206 (355)
T 2qp9_X          131 LVKQLFAMARENKPSIIFIDQVDALTGTRGEGE---SEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR-  206 (355)
T ss_dssp             HHHHHHHHHHHTSSEEEEEECGGGGTC---------CTHHHHHHHHHHHHHHHCC---CCEEEEEEESCGGGSCHHHHH-
T ss_pred             HHHHHHHHHHHcCCeEEEEechHhhcccCCCCc---chHHHHHHHHHHHHhhcccccCCCeEEEeecCCcccCCHHHHc-
Confidence            367899999999999999999999998875442   23678889999999998864 4689999999999999999999 


Q ss_pred             CccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         81 GRLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        81 grfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                       ||+..+++++|+.++|..|++.++++
T Consensus       207 -Rf~~~i~i~~P~~~~r~~il~~~l~~  232 (355)
T 2qp9_X          207 -RFERRIYIPLPDLAARTTMFEINVGD  232 (355)
T ss_dssp             -TCCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             -ccCEEEEeCCcCHHHHHHHHHHHHhh
Confidence             99999999999999999999887754

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=99.77  E-value=1.6e-18  Score=129.43  Aligned_cols=101  Identities=33%  Similarity=0.561  Sum_probs=89.6

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC-CCCEEEEEecCCCCCCCccccCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA-KKNVFIIGATNRPDIIDPAILRP   80 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~-~~~v~vi~ttn~~~~ld~al~r~   80 (110)
                      .++.+|..|+..+|+||||||+|.+++++....   .....++.++|+..++++.. ..+++||+|||.|+.+|++++| 
T Consensus       215 ~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~---~~~~~~~~~~lL~~l~~~~~~~~~v~vI~atn~~~~ld~al~r-  290 (444)
T 2zan_A          215 LVKNLFQLARENKPSIIFIDEIDSLCGSRSENE---SEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR-  290 (444)
T ss_dssp             THHHHHHHHHHSCSEEEEESCTTTTCCCSSCCC---CGGGHHHHHHHHTTTTCSSCCCSSCEEEEEESCGGGSCHHHHT-
T ss_pred             HHHHHHHHHHHcCCeEEEEechHhhccCCCCcc---ccHHHHHHHHHHHHHhCcccCCCCEEEEecCCCccccCHHHHh-
Confidence            478899999999999999999999998876543   23678899999999999864 5789999999999999999999 


Q ss_pred             CccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         81 GRLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        81 grfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                       ||+..+++++|+.++|..|++.+++.
T Consensus       291 -Rf~~~i~i~~P~~~~r~~il~~~l~~  316 (444)
T 2zan_A          291 -RFEKRIYIPLPEAHARAAMFRLHLGS  316 (444)
T ss_dssp             -TCCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             -hcceEEEeCCcCHHHHHHHHHHHHhc
Confidence             99999999999999999999887753

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.75  E-value=7.4e-18  Score=118.50  Aligned_cols=105  Identities=39%  Similarity=0.705  Sum_probs=85.3

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      ++..+|+.+....|+++++||+|.+...+..............++.++..+++...+..++++++||.|+.+|++++|+|
T Consensus       120 ~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a~t~~p~~ld~~l~r~~  199 (278)
T 1iy2_A          120 RVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPG  199 (278)
T ss_dssp             HHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEEEEEESCTTSSCHHHHSTT
T ss_pred             HHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEEEEecCCchhCCHhHcCCC
Confidence            36778999988899999999999998766432111122456778889999998766678999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      ||+..|++++|+.++|..+++.+.+
T Consensus       200 rf~~~i~i~~p~~~~r~~il~~~~~  224 (278)
T 1iy2_A          200 RFDRQIAIDAPDVKGREQILRIHAR  224 (278)
T ss_dssp             SSCCEEECCCCCHHHHHHHHHHHHT
T ss_pred             cCCeEEEeCCcCHHHHHHHHHHHHc
Confidence            9999999999999999999987764

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=99.71  E-value=1.4e-18  Score=121.02  Aligned_cols=104  Identities=38%  Similarity=0.640  Sum_probs=81.2

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCC-CCCCCchHHHHHHHHHhhhcCCCC-CCEEEEEecCCCCCCCccccCC
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSV-GDGGGAADRVINQILTEMDGMGAK-KNVFIIGATNRPDIIDPAILRP   80 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~-~~~~~~~~~~~~~ll~~ld~~~~~-~~v~vi~ttn~~~~ld~al~r~   80 (110)
                      ++.+|+.|...+|+||||||+|.+..++.... ...+....+.++.++..+++.... .++++|+|||.++.+|++++|+
T Consensus        92 ~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~ttn~~~~ld~~l~r~  171 (268)
T 2r62_A           92 VRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRP  171 (268)
T ss_dssp             SSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSCSCCEEEECBSCCTTSCGGGGSS
T ss_pred             HHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCCCCEEEEEecCCchhcCHhHcCC
Confidence            46789999999999999999999988763321 111112334566788888877543 4699999999999999999999


Q ss_pred             CccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         81 GRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        81 grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      |||+..+++++|+.++|..+++.+++
T Consensus       172 ~Rf~~~i~i~~p~~~~r~~il~~~~~  197 (268)
T 2r62_A          172 GRFDRQVLVDKPDFNGRVEILKVHIK  197 (268)
T ss_dssp             SSSCCCCBCCCCCTTTHHHHHHHHTS
T ss_pred             CCCCeEEEecCcCHHHHHHHHHHHHh
Confidence            99999999999999999999988765

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.69  E-value=1e-16  Score=117.49  Aligned_cols=101  Identities=33%  Similarity=0.530  Sum_probs=81.7

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC--CCCEEEEEecCCCCCCCccccC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA--KKNVFIIGATNRPDIIDPAILR   79 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~--~~~v~vi~ttn~~~~ld~al~r   79 (110)
                      .++.+|..|+...|+||||||+|.++..+.....   ....++.+.|+..+++...  ..+++||++||.++.+|+++++
T Consensus       195 ~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~---~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~  271 (389)
T 3vfd_A          195 LVRALFAVARELQPSIIFIDQVDSLLCERREGEH---DASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLR  271 (389)
T ss_dssp             HHHHHHHHHHHSSSEEEEEETGGGGC-----------CTHHHHHHHHHHHHHHHC-----CEEEEEEESCGGGCCHHHHT
T ss_pred             HHHHHHHHHHhcCCeEEEEECchhhcccCCCccc---hHHHHHHHHHHHHhhcccccCCCCEEEEEecCCchhcCHHHHc
Confidence            3678999999999999999999999887754332   2578888999999998765  4689999999999999999999


Q ss_pred             CCccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         80 PGRLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        80 ~grfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                        ||+..|++++|+.++|..+++.++.+
T Consensus       272 --R~~~~i~i~~p~~~~r~~il~~~~~~  297 (389)
T 3vfd_A          272 --RFIKRVYVSLPNEETRLLLLKNLLCK  297 (389)
T ss_dssp             --TCCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             --CcceEEEcCCcCHHHHHHHHHHHHHh
Confidence              99999999999999999998877643

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.68  E-value=1.3e-16  Score=112.51  Aligned_cols=101  Identities=33%  Similarity=0.531  Sum_probs=83.0

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCC---CCEEEEEecCCCCCCCcccc
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAK---KNVFIIGATNRPDIIDPAIL   78 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~---~~v~vi~ttn~~~~ld~al~   78 (110)
                      .++.+|..|...+|+||||||+|.++..+.....   ....+..+.++..+++....   .++++|++||.++.+|++++
T Consensus       101 ~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~---~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn~~~~l~~~l~  177 (297)
T 3b9p_A          101 LVRALFAVARHMQPSIIFIDEVDSLLSERSSSEH---EASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAAL  177 (297)
T ss_dssp             HHHHHHHHHHHTCSEEEEEETGGGTSBCC--------CCSHHHHHHHHHHHHHCC------CEEEEEEESCGGGBCHHHH
T ss_pred             HHHHHHHHHHHcCCcEEEeccHHHhccccccCcc---hHHHHHHHHHHHHHhcccccCCCCcEEEEeecCChhhCCHHHH
Confidence            3678899999999999999999999987754332   24577888999999987543   57999999999999999999


Q ss_pred             CCCccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      +  ||+..+++++|+.++|..+++.++++
T Consensus       178 ~--R~~~~i~~~~p~~~~r~~il~~~~~~  204 (297)
T 3b9p_A          178 R--RFTKRVYVSLPDEQTRELLLNRLLQK  204 (297)
T ss_dssp             H--HCCEEEECCCCCHHHHHHHHHHHHGG
T ss_pred             h--hCCeEEEeCCcCHHHHHHHHHHHHHh
Confidence            9  99999999999999999998877653

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=99.67  E-value=2.3e-16  Score=114.73  Aligned_cols=100  Identities=33%  Similarity=0.547  Sum_probs=82.3

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC--CCCEEEEEecCCCCCCCccccCC
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA--KKNVFIIGATNRPDIIDPAILRP   80 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~--~~~v~vi~ttn~~~~ld~al~r~   80 (110)
                      ++.+|..|+..+|+||||||+|.++.++....   .....++.++++..+++...  ..+++||++||.++.+|+++++ 
T Consensus       165 ~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~---~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~-  240 (357)
T 3d8b_A          165 VRALFAVARCQQPAVIFIDEIDSLLSQRGDGE---HESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARR-  240 (357)
T ss_dssp             HHHHHHHHHHTCSEEEEEETHHHHTBC---------CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGBCHHHHT-
T ss_pred             HHHHHHHHHhcCCeEEEEeCchhhhccCCCCc---chHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhCCHHHHh-
Confidence            57889999999999999999999998775432   22567888999999998753  4689999999999999999999 


Q ss_pred             CccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         81 GRLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        81 grfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                       ||+..+++++|+.++|..+++.++++
T Consensus       241 -Rf~~~i~i~~p~~~~r~~il~~~~~~  266 (357)
T 3d8b_A          241 -RLVKRLYIPLPEASARKQIVINLMSK  266 (357)
T ss_dssp             -TCCEEEECCCCCHHHHHHHHHHHHHT
T ss_pred             -hCceEEEeCCcCHHHHHHHHHHHHhh
Confidence             99999999999999999998877653

>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=99.40  E-value=8.7e-15  Score=109.46  Aligned_cols=92  Identities=14%  Similarity=0.182  Sum_probs=63.4

Q ss_pred             HHHHHHHH---HhcCCeEEEEcccccccccCCCCCCCC-CCch---------------HHHHHHHHHhhh--cCCCCCCE
Q psy13774          3 IATGASMA---RAAAPCVLFFDELDSIAKSRGGSVGDG-GGAA---------------DRVINQILTEMD--GMGAKKNV   61 (110)
Q Consensus         3 l~~~F~~A---~~~~P~ii~iDeiD~l~~~r~~~~~~~-~~~~---------------~~~~~~ll~~ld--~~~~~~~v   61 (110)
                      ++++|..|   +..+||||||||+|++++++....... ....               .++.+.++..++  ++...+.+
T Consensus       112 ~~~~f~~a~~~~~~~~~il~iDEid~l~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v  191 (456)
T 2c9o_A          112 LMENFRRAIGLRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFESLQKERVEAGDVI  191 (456)
T ss_dssp             HHHHHHHTEEEEEEEEEEEEEEEEEEEEEC--------------CEEEEEEETTEEEEEEECHHHHHHHHHTTCCTTEEE
T ss_pred             HHHHHHHHHhhhhcCCcEEEEechhhcccccCCCCCCCcchHHHHHHHHHhccccchhHhhhHHHHHHHhhccCCCCCEE
Confidence            57889999   888999999999999999886542111 0001               122334666665  33344557


Q ss_pred             EEEEecCCCCCCCccccCCCccce--EEEecCCCH
Q psy13774         62 FIIGATNRPDIIDPAILRPGRLDQ--LIYIPLPDE   94 (110)
Q Consensus        62 ~vi~ttn~~~~ld~al~r~grfd~--~i~~~~P~~   94 (110)
                      +|++|||+++.+|+++.||||||.  .++++.|+.
T Consensus       192 ~i~attn~~~~ld~a~~r~~rfd~~~~~~v~~p~~  226 (456)
T 2c9o_A          192 YIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKG  226 (456)
T ss_dssp             EEETTTCCEEEEEEETTSCCTTSCSSSSEECCCCS
T ss_pred             EEEcCCCCcccCChhhcCCcccCcceeEecCCCch
Confidence            777999999999999999999999  677788854

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=99.23  E-value=5.9e-13  Score=99.70  Aligned_cols=88  Identities=10%  Similarity=0.014  Sum_probs=15.8

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEe-cCCCCCCCccccCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGA-TNRPDIIDPAILRP   80 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~t-tn~~~~ld~al~r~   80 (110)
                      .++.+|..|....|    +||+|.+....      ......+++++|+.+||++.+...+  +++ ||+++.+|+|++||
T Consensus        99 ~lr~lf~~a~~~~~----~De~d~~~~~~------~~~~e~rvl~~LL~~~dg~~~~~~v--~a~~TN~~~~ld~aL~rg  166 (444)
T 1g41_A           99 IIRDLTDSAMKLVR----QQEIAKNRARA------EDVAEERILDALLPPAKNQWGEVEN--HDSHSSTRQAFRKKLREG  166 (444)
T ss_dssp             HHHHHHHHHHHHHH----HHHHHSCC------------------------------------------------------
T ss_pred             HHHHHHHHHHhcch----hhhhhhhhccc------hhhHHHHHHHHHHHHhhcccccccc--ccccccCHHHHHHHHHcC
Confidence            35778888877654    78888764322      1225678999999999999766555  454 99999999999999


Q ss_pred             CccceEEEecCCCHH-HHHHHH
Q psy13774         81 GRLDQLIYIPLPDEI-WLILSD  101 (110)
Q Consensus        81 grfd~~i~~~~P~~~-~R~~~~  101 (110)
                      ||||+.|++++|+.. .|..++
T Consensus       167 gr~D~~i~i~lP~~~~~~~ei~  188 (444)
T 1g41_A          167 QLDDKEIEIDVSAGVSMGVEIM  188 (444)
T ss_dssp             ----------------------
T ss_pred             CCcceEEEEcCCCCccchhhhh
Confidence            999999999999987 666654

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.19  E-value=2.4e-11  Score=85.72  Aligned_cols=92  Identities=17%  Similarity=0.174  Sum_probs=71.6

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC-----CCCccc
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD-----IIDPAI   77 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~-----~ld~al   77 (110)
                      +...|..+   .++||||||+|.++..+.+.     .......+.|+..++.  ...++++|++||.++     .++|++
T Consensus       122 ~~~~~~~~---~~~vl~iDEid~l~~~~~~~-----~~~~~~~~~Ll~~l~~--~~~~~~~i~~~~~~~~~~~~~~~~~l  191 (309)
T 3syl_A          122 TKEVLKRA---MGGVLFIDEAYYLYRPDNER-----DYGQEAIEILLQVMEN--NRDDLVVILAGYADRMENFFQSNPGF  191 (309)
T ss_dssp             HHHHHHHH---TTSEEEEETGGGSCCCC--------CCTHHHHHHHHHHHHH--CTTTCEEEEEECHHHHHHHHHHSTTH
T ss_pred             HHHHHHhc---CCCEEEEEChhhhccCCCcc-----cccHHHHHHHHHHHhc--CCCCEEEEEeCChHHHHHHHhhCHHH
Confidence            34556655   57899999999998655431     1356788889998887  356788899998654     367999


Q ss_pred             cCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         78 LRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        78 ~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      ++  ||+..|+|++|+.+++..+++.+++
T Consensus       192 ~~--R~~~~i~~~~~~~~~~~~il~~~l~  218 (309)
T 3syl_A          192 RS--RIAHHIEFPDYSDEELFEIAGHMLD  218 (309)
T ss_dssp             HH--HEEEEEEECCCCHHHHHHHHHHHHH
T ss_pred             HH--hCCeEEEcCCcCHHHHHHHHHHHHH
Confidence            99  9999999999999999998887765

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=99.11  E-value=6.1e-11  Score=82.68  Aligned_cols=86  Identities=15%  Similarity=0.233  Sum_probs=66.2

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC-CCCEEEEEecCCCCCCCc-cccCC
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA-KKNVFIIGATNRPDIIDP-AILRP   80 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~-~~~v~vi~ttn~~~~ld~-al~r~   80 (110)
                      ++.+|..|....|++|||||+|.++..+.....    ....++..|...+++... ..++++|+|||.++.+|+ .+.+ 
T Consensus       113 ~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~----~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~l~~-  187 (272)
T 1d2n_A          113 MKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPR----FSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLN-  187 (272)
T ss_dssp             HHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTB----CCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTT-
T ss_pred             HHHHHHHHHhcCCcEEEEEChhhhhccCCCChh----HHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhhhhc-
Confidence            567888888888999999999999876543221    345677777777776643 357889999999999998 5665 


Q ss_pred             CccceEEEecCCCH
Q psy13774         81 GRLDQLIYIPLPDE   94 (110)
Q Consensus        81 grfd~~i~~~~P~~   94 (110)
                       ||+..|++|+++.
T Consensus       188 -rf~~~i~~p~l~~  200 (272)
T 1d2n_A          188 -AFSTTIHVPNIAT  200 (272)
T ss_dssp             -TSSEEEECCCEEE
T ss_pred             -ccceEEcCCCccH
Confidence             9999988866654

>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=99.11  E-value=4.3e-11  Score=91.38  Aligned_cols=89  Identities=24%  Similarity=0.269  Sum_probs=64.2

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC-------------CCCEEEEEecCC
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA-------------KKNVFIIGATNR   69 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~-------------~~~v~vi~ttn~   69 (110)
                      +...|..|....| |+||||+|.+...+.+.          ..+.|+..++....             ..++++|+|||.
T Consensus       165 ~~~~~~~a~~~~~-vl~lDEid~l~~~~~~~----------~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN~  233 (543)
T 3m6a_A          165 IIQGMKKAGKLNP-VFLLDEIDKMSSDFRGD----------PSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATANN  233 (543)
T ss_dssp             HHHHHHTTCSSSE-EEEEEESSSCC-------------------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECSS
T ss_pred             HHHHHHHhhccCC-EEEEhhhhhhhhhhccC----------HHHHHHHHHhhhhcceeecccCCeeecccceEEEeccCc
Confidence            4556777766776 99999999997654221          23346666653211             157899999999


Q ss_pred             CCCCCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         70 PDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        70 ~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      ++.+||++++  ||+ .|+++.|+.++|..+++.++
T Consensus       234 ~~~l~~aL~~--R~~-vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          234 LATIPGPLRD--RME-IINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             TTTSCHHHHH--HEE-EEECCCCCHHHHHHHHHHTH
T ss_pred             cccCCHHHHh--hcc-eeeeCCCCHHHHHHHHHHHH
Confidence            9999999999  995 79999999999998877654

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.00  E-value=2.3e-10  Score=74.32  Aligned_cols=86  Identities=19%  Similarity=0.252  Sum_probs=58.1

Q ss_pred             HHHHHHHH-HhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC-----CCCcc
Q psy13774          3 IATGASMA-RAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD-----IIDPA   76 (110)
Q Consensus         3 l~~~F~~A-~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~-----~ld~a   76 (110)
                      +..+|..+ +...|+||+|||+|.+...+......   .....+..++   +    ..++.+|++||.++     .+|++
T Consensus       103 ~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~---~~~~~l~~~~---~----~~~~~~i~~~~~~~~~~~~~~~~~  172 (195)
T 1jbk_A          103 LKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAM---DAGNMLKPAL---A----RGELHCVGATTLDEYRQYIEKDAA  172 (195)
T ss_dssp             HHHHHHHHHHSTTTEEEEEETGGGGTT------CC---CCHHHHHHHH---H----TTSCCEEEEECHHHHHHHTTTCHH
T ss_pred             HHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchH---HHHHHHHHhh---c----cCCeEEEEeCCHHHHHHHHhcCHH
Confidence            44555544 34568999999999998665322111   2233333332   2    35678899999887     89999


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHH
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSD  101 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~  101 (110)
                      +.+  ||+ .|++++|+.++|..++
T Consensus       173 l~~--r~~-~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          173 LER--RFQ-KVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHT--TEE-EEECCCCCHHHHHTTC
T ss_pred             HHH--Hhc-eeecCCCCHHHHHHHh
Confidence            999  998 6999999999998764

>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=98.98  E-value=4.6e-10  Score=78.75  Aligned_cols=86  Identities=20%  Similarity=0.250  Sum_probs=64.2

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC--------CCCCEEEEEe----cCCCCCCCccccCC
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG--------AKKNVFIIGA----TNRPDIIDPAILRP   80 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~--------~~~~v~vi~t----tn~~~~ld~al~r~   80 (110)
                      ..++||||||+|.+..........  .....+.+.|+..+++..        ...++++|++    ++.+..+++++++ 
T Consensus       115 ~~~~vl~iDEi~~l~~~~~~~~~~--~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~l~~~l~~-  191 (310)
T 1ofh_A          115 EQNGIVFIDEIDKICKKGEYSGAD--VSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQG-  191 (310)
T ss_dssp             HHHCEEEEECGGGGSCCSSCCSSH--HHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSSSCGGGSCHHHHH-
T ss_pred             cCCCEEEEEChhhcCccccccccc--hhHHHHHHHHHHHhcCCeEecccccccCCcEEEEEcCCcccCCcccCCHHHHh-
Confidence            347899999999998765432211  122234667788787631        2347888888    5688899999998 


Q ss_pred             CccceEEEecCCCHHHHHHHHH
Q psy13774         81 GRLDQLIYIPLPDEIWLILSDK  102 (110)
Q Consensus        81 grfd~~i~~~~P~~~~R~~~~~  102 (110)
                       ||+..|++++|+.+++..+++
T Consensus       192 -R~~~~i~~~~~~~~~~~~il~  212 (310)
T 1ofh_A          192 -RLPIRVELTALSAADFERILT  212 (310)
T ss_dssp             -TCCEEEECCCCCHHHHHHHHH
T ss_pred             -hCCceEEcCCcCHHHHHHHHH
Confidence             999999999999999988877

>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=98.95  E-value=1.9e-09  Score=84.64  Aligned_cols=93  Identities=19%  Similarity=0.144  Sum_probs=69.6

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC-----CCCCcc
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP-----DIIDPA   76 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~-----~~ld~a   76 (110)
                      +++.+|..+....++||||||+|.+++.+....     ......    ..+..+-...++.+|++||.+     ..+|++
T Consensus       266 ~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~-----~~~~~~----~~L~~~l~~~~~~~I~at~~~~~~~~~~~d~a  336 (758)
T 1r6b_X          266 RFKALLKQLEQDTNSILFIDEIHTIIGAGAASG-----GQVDAA----NLIKPLLSSGKIRVIGSTTYQEFSNIFEKDRA  336 (758)
T ss_dssp             HHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSS-----CHHHHH----HHHSSCSSSCCCEEEEEECHHHHHCCCCCTTS
T ss_pred             HHHHHHHHHHhcCCeEEEEechHHHhhcCCCCc-----chHHHH----HHHHHHHhCCCeEEEEEeCchHHhhhhhcCHH
Confidence            467888888888899999999999987654321     122222    333333345678899999975     368999


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      +.+  ||+ .+.++.|+.++|..+++.+.+
T Consensus       337 L~~--Rf~-~i~v~~p~~~e~~~il~~l~~  363 (758)
T 1r6b_X          337 LAR--RFQ-KIDITEPSIEETVQIINGLKP  363 (758)
T ss_dssp             SGG--GEE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             HHh--Cce-EEEcCCCCHHHHHHHHHHHHH
Confidence            999  998 699999999999988887654

>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=98.89  E-value=3e-09  Score=77.06  Aligned_cols=98  Identities=15%  Similarity=0.178  Sum_probs=66.4

Q ss_pred             HHHHHHH----HhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC-------------------CCCC
Q psy13774          4 ATGASMA----RAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG-------------------AKKN   60 (110)
Q Consensus         4 ~~~F~~A----~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~-------------------~~~~   60 (110)
                      +.+|..+    ....|+||||||+|.+...+++...........+.+.|+..|++..                   ...+
T Consensus       102 ~~~~~~~~~~~~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~~~~~~~~~~~~~~~~i~tsn  181 (363)
T 3hws_A          102 QKLLQKCDYDVQKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQVDTSK  181 (363)
T ss_dssp             HHHHHHTTTCHHHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC----------------CCCCCTTS
T ss_pred             HHHHHHhhhhHHhcCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCceeeccCccccccCCCceEEEECCC
Confidence            4455554    4456899999999999988765443322233448888999998421                   1234


Q ss_pred             EEEEEecCCC----------CC-----------------------------------CCccccCCCccceEEEecCCCHH
Q psy13774         61 VFIIGATNRP----------DI-----------------------------------IDPAILRPGRLDQLIYIPLPDEI   95 (110)
Q Consensus        61 v~vi~ttn~~----------~~-----------------------------------ld~al~r~grfd~~i~~~~P~~~   95 (110)
                      +++|+++|..          ..                                   +.|+++.  |||..+.+.+|+.+
T Consensus       182 ~~~i~~g~~~~l~~~i~~~~~~~~~~gf~~~~~~~~~~~~~~~l~~~v~~~~l~~~~~~~~l~~--R~~~~~~~~pl~~~  259 (363)
T 3hws_A          182 ILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIG--RLPVVATLNELSEE  259 (363)
T ss_dssp             SEEEEEECCTTHHHHHHHHHCCCC------------CCSCHHHHHHTCCHHHHHHHTCCHHHHT--TCCEEEECCCCCHH
T ss_pred             ceEEecCCcHHHHHHHHHhhhccccCCccccccccccchhhHHHHHhCCHHHHHHcCCCHHHhc--ccCeeeecCCCCHH
Confidence            4555555532          11                                   7888888  99999999999999


Q ss_pred             HHHHHHHH
Q psy13774         96 WLILSDKF  103 (110)
Q Consensus        96 ~R~~~~~~  103 (110)
                      .+..|+..
T Consensus       260 ~~~~I~~~  267 (363)
T 3hws_A          260 ALIQILKE  267 (363)
T ss_dssp             HHHHHHHS
T ss_pred             HHHHHHHH
Confidence            98887764

>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=98.85  E-value=2.9e-09  Score=84.89  Aligned_cols=92  Identities=22%  Similarity=0.269  Sum_probs=59.0

Q ss_pred             cHHHHHHHHHhc-CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC----CCCcc
Q psy13774          2 RIATGASMARAA-APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD----IIDPA   76 (110)
Q Consensus         2 ~l~~~F~~A~~~-~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~----~ld~a   76 (110)
                      +++.+|..++.. .|+||||||+|.+.+.+.....      ....+.+...++    ..++.+|++||.++    .+|++
T Consensus       250 ~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~------~~~~~~L~~~l~----~~~i~~I~at~~~~~~~~~~d~a  319 (854)
T 1qvr_A          250 RLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGA------VDAGNMLKPALA----RGELRLIGATTLDEYREIEKDPA  319 (854)
T ss_dssp             HHHHHHHHHHTTCSSEEEEECCC-------------------------HHHHH----TTCCCEEEEECHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHhcCCCeEEEEecHHHHhccCCccch------HHHHHHHHHHHh----CCCeEEEEecCchHHhhhccCHH
Confidence            367788888875 7899999999999866543211      112223333333    35677899999875    58999


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      +.+  ||+. |.++.|+.+++..|++.+.+
T Consensus       320 L~r--Rf~~-i~l~~p~~~e~~~iL~~~~~  346 (854)
T 1qvr_A          320 LER--RFQP-VYVDEPTVEETISILRGLKE  346 (854)
T ss_dssp             TCS--CCCC-EEECCCCHHHHHHHHHHHHH
T ss_pred             HHh--CCce-EEeCCCCHHHHHHHHHhhhh
Confidence            999  9986 99999999999998886654

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.82  E-value=1.5e-08  Score=72.18  Aligned_cols=78  Identities=17%  Similarity=0.232  Sum_probs=60.7

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC----------------CCCEEEEEecCCCCCCCcc
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA----------------KKNVFIIGATNRPDIIDPA   76 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~----------------~~~v~vi~ttn~~~~ld~a   76 (110)
                      ..+++|||||+|.+.              ......|+..++....                ..++.+|++||....++++
T Consensus       105 ~~~~vl~lDEi~~l~--------------~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~~l~~~  170 (338)
T 3pfi_A          105 SEGDILFIDEIHRLS--------------PAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAGMLSNP  170 (338)
T ss_dssp             CTTCEEEEETGGGCC--------------HHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEESCGGGSCHH
T ss_pred             cCCCEEEEechhhcC--------------HHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCCCccccCHH
Confidence            468999999999883              2234445555554210                1248999999999999999


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      +++  ||+..+++++|+.+++..+++...+
T Consensus       171 L~~--R~~~~i~l~~~~~~e~~~il~~~~~  198 (338)
T 3pfi_A          171 LRD--RFGMQFRLEFYKDSELALILQKAAL  198 (338)
T ss_dssp             HHT--TCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             HHh--hcCEEeeCCCcCHHHHHHHHHHHHH
Confidence            999  9999999999999999988776553

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.77  E-value=2.9e-08  Score=71.20  Aligned_cols=90  Identities=16%  Similarity=0.166  Sum_probs=64.8

Q ss_pred             HHHHHHhc-CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC---CCCCccccCCC
Q psy13774          6 GASMARAA-APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP---DIIDPAILRPG   81 (110)
Q Consensus         6 ~F~~A~~~-~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~---~~ld~al~r~g   81 (110)
                      ++..+... .|++|+|||+|.+...+         .....+..++..++......++.+|++||.+   +.+++++.+  
T Consensus       121 l~~~l~~~~~~~vlilDEi~~l~~~~---------~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~~~~~~~l~~~l~~--  189 (387)
T 2v1u_A          121 LVKRLSRLRGIYIIVLDEIDFLPKRP---------GGQDLLYRITRINQELGDRVWVSLVGITNSLGFVENLEPRVKS--  189 (387)
T ss_dssp             HHHHHTTSCSEEEEEEETTTHHHHST---------THHHHHHHHHHGGGCC-----CEEEEECSCSTTSSSSCHHHHT--
T ss_pred             HHHHHhccCCeEEEEEccHhhhcccC---------CCChHHHhHhhchhhcCCCceEEEEEEECCCchHhhhCHHHHh--
Confidence            34444333 48999999999986432         1345666677766654325688999999988   789999999  


Q ss_pred             ccce-EEEecCCCHHHHHHHHHHHhh
Q psy13774         82 RLDQ-LIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        82 rfd~-~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      ||.. .+++++|+.++...+++..++
T Consensus       190 r~~~~~i~l~~l~~~~~~~il~~~~~  215 (387)
T 2v1u_A          190 SLGEVELVFPPYTAPQLRDILETRAE  215 (387)
T ss_dssp             TTTSEECCBCCCCHHHHHHHHHHHHH
T ss_pred             cCCCeEEeeCCCCHHHHHHHHHHHHH
Confidence            9975 899999999999988877654

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.76  E-value=2.8e-09  Score=69.16  Aligned_cols=79  Identities=23%  Similarity=0.311  Sum_probs=54.3

Q ss_pred             HHHHHHHHHhc-CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC-----CCCcc
Q psy13774          3 IATGASMARAA-APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD-----IIDPA   76 (110)
Q Consensus         3 l~~~F~~A~~~-~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~-----~ld~a   76 (110)
                      +..++..+... .|++|+|||+|.+...+......  ..   +.+.+...++    ..++.+|++||.++     .+|++
T Consensus       103 ~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~--~~---~~~~l~~~~~----~~~~~ii~~~~~~~~~~~~~~~~~  173 (187)
T 2p65_A          103 LKSILKEVQDAEGQVVMFIDEIHTVVGAGAVAEGA--LD---AGNILKPMLA----RGELRCIGATTVSEYRQFIEKDKA  173 (187)
T ss_dssp             HHHHHHHHHHTTTSEEEEETTGGGGSSSSSSCTTS--CC---THHHHHHHHH----TTCSCEEEEECHHHHHHHTTTCHH
T ss_pred             HHHHHHHHHhcCCceEEEEeCHHHhcccccccccc--hH---HHHHHHHHHh----cCCeeEEEecCHHHHHHHHhccHH
Confidence            45566666654 78999999999998665422111  12   2222333333    35678999999875     79999


Q ss_pred             ccCCCccceEEEecCCC
Q psy13774         77 ILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~   93 (110)
                      +++  ||+. |++++|+
T Consensus       174 l~~--R~~~-i~i~~p~  187 (187)
T 2p65_A          174 LER--RFQQ-ILVEQPS  187 (187)
T ss_dssp             HHH--HEEE-EECCSCC
T ss_pred             HHH--hcCc-ccCCCCC
Confidence            999  9985 9999986

>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=98.75  E-value=6.9e-08  Score=68.20  Aligned_cols=78  Identities=19%  Similarity=0.270  Sum_probs=58.9

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC----------------CCCCEEEEEecCCCCCCCcc
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG----------------AKKNVFIIGATNRPDIIDPA   76 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~----------------~~~~v~vi~ttn~~~~ld~a   76 (110)
                      ..+++|||||+|.+..              .....++..++...                ...++.+|++||.+..++++
T Consensus        89 ~~~~~l~lDEi~~l~~--------------~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~  154 (324)
T 1hqc_A           89 EEGDILFIDEIHRLSR--------------QAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAP  154 (324)
T ss_dssp             CTTCEEEETTTTSCCH--------------HHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCS
T ss_pred             cCCCEEEEECCccccc--------------chHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcccCCHH
Confidence            4689999999998742              12233444444321                01358899999999999999


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      +.+  ||+..+.+++|+.+++..+++.+.+
T Consensus       155 l~~--R~~~~i~l~~~~~~e~~~~l~~~~~  182 (324)
T 1hqc_A          155 LLS--RFGIVEHLEYYTPEELAQGVMRDAR  182 (324)
T ss_dssp             TTT--TCSCEEECCCCCHHHHHHHHHHHHH
T ss_pred             HHh--cccEEEecCCCCHHHHHHHHHHHHH
Confidence            999  9999999999999998888776653

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.73  E-value=3.4e-08  Score=70.97  Aligned_cols=73  Identities=19%  Similarity=0.175  Sum_probs=55.0

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEec-----------CCCCCCCccccCCCcc
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGAT-----------NRPDIIDPAILRPGRL   83 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~tt-----------n~~~~ld~al~r~grf   83 (110)
                      |+||||||+|.+.              ....+.|+..++..  ..+++++++.           |.+..+++++++  ||
T Consensus       190 ~~vl~IDEi~~l~--------------~~~~~~L~~~le~~--~~~~~ii~t~~~~~~i~~t~~~~~~~l~~~l~s--R~  251 (368)
T 3uk6_A          190 PGVLFIDEVHMLD--------------IESFSFLNRALESD--MAPVLIMATNRGITRIRGTSYQSPHGIPIDLLD--RL  251 (368)
T ss_dssp             BCEEEEESGGGSB--------------HHHHHHHHHHTTCT--TCCEEEEEESCSEEECBTSSCEEETTCCHHHHT--TE
T ss_pred             CceEEEhhccccC--------------hHHHHHHHHHhhCc--CCCeeeeecccceeeeeccCCCCcccCCHHHHh--hc
Confidence            7899999999873              23455666666652  3356555554           357899999999  99


Q ss_pred             ceEEEecCCCHHHHHHHHHHHhh
Q psy13774         84 DQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        84 d~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      .. +++++|+.+++..+++..++
T Consensus       252 ~~-i~~~~~~~~e~~~il~~~~~  273 (368)
T 3uk6_A          252 LI-VSTTPYSEKDTKQILRIRCE  273 (368)
T ss_dssp             EE-EEECCCCHHHHHHHHHHHHH
T ss_pred             cE-EEecCCCHHHHHHHHHHHHH
Confidence            77 89999999999988876553

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=98.70  E-value=3.4e-08  Score=70.12  Aligned_cols=73  Identities=22%  Similarity=0.152  Sum_probs=56.1

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      .+.||+|||+|.+..             ....+.|+..++..  ..++.+|++||.+..+++++++  ||. .+.+++|+
T Consensus       105 ~~~vliiDEi~~l~~-------------~~~~~~L~~~le~~--~~~~~iI~~~n~~~~l~~~l~s--R~~-~i~~~~~~  166 (324)
T 3u61_B          105 RQKVIVIDEFDRSGL-------------AESQRHLRSFMEAY--SSNCSIIITANNIDGIIKPLQS--RCR-VITFGQPT  166 (324)
T ss_dssp             CEEEEEEESCCCGGG-------------HHHHHHHHHHHHHH--GGGCEEEEEESSGGGSCTTHHH--HSE-EEECCCCC
T ss_pred             CCeEEEEECCcccCc-------------HHHHHHHHHHHHhC--CCCcEEEEEeCCccccCHHHHh--hCc-EEEeCCCC
Confidence            578999999998841             22344566666653  3467888999999999999999  995 69999999


Q ss_pred             HHHHHHHHHHH
Q psy13774         94 EIWLILSDKFL  104 (110)
Q Consensus        94 ~~~R~~~~~~~  104 (110)
                      .++|..+++.+
T Consensus       167 ~~e~~~il~~~  177 (324)
T 3u61_B          167 DEDKIEMMKQM  177 (324)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99987665543

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.69  E-value=4.3e-08  Score=68.88  Aligned_cols=80  Identities=21%  Similarity=0.281  Sum_probs=60.8

Q ss_pred             HhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC--C-------CCCEEEEEecCC------------
Q psy13774         11 RAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG--A-------KKNVFIIGATNR------------   69 (110)
Q Consensus        11 ~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~--~-------~~~v~vi~ttn~------------   69 (110)
                      ....+++|||||+|.+.              ....+.|+..++.-.  .       ..++++|+|||.            
T Consensus       116 ~~~~~~vl~lDEi~~l~--------------~~~~~~Ll~~le~~~~~~~~~~~~~~~~~iiI~ttn~~~~~i~~~~~~~  181 (311)
T 4fcw_A          116 RRRPYSVILFDAIEKAH--------------PDVFNILLQMLDDGRLTDSHGRTVDFRNTVIIMTSNLGSPLILEGLQKG  181 (311)
T ss_dssp             HHCSSEEEEEETGGGSC--------------HHHHHHHHHHHHHSEEECTTSCEEECTTEEEEEEESTTHHHHHTTTTSC
T ss_pred             HhCCCeEEEEeChhhcC--------------HHHHHHHHHHHhcCEEEcCCCCEEECCCcEEEEecccCHHHHHhhhccc
Confidence            33445999999999872              234556666665421  1       137889999998            


Q ss_pred             --------------CCCCCccccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         70 --------------PDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        70 --------------~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                                    ...++++++.  ||+..+.+++|+.+++..+++.+++
T Consensus       182 ~~~~~l~~~~~~~~~~~~~~~l~~--R~~~~~~~~p~~~~~~~~i~~~~l~  230 (311)
T 4fcw_A          182 WPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEIQMS  230 (311)
T ss_dssp             CCSSTHHHHTHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHTH
T ss_pred             ccHHHHHHHHHHHHHHhCCHHHHh--cCCeEEEeCCCCHHHHHHHHHHHHH
Confidence                          5578999998  9999999999999999888887664

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.63  E-value=4.7e-08  Score=76.91  Aligned_cols=80  Identities=26%  Similarity=0.233  Sum_probs=61.1

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC-----CCCcc
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD-----IIDPA   76 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~-----~ld~a   76 (110)
                      +++.+|..+....|+|||||          ..        ....+.|+..+    ....+.+|++||..+     .+|++
T Consensus       255 ~l~~~~~~~~~~~~~iLfiD----------~~--------~~~~~~L~~~l----~~~~v~~I~at~~~~~~~~~~~d~a  312 (758)
T 3pxi_A          255 RLKKVMDEIRQAGNIILFID----------AA--------IDASNILKPSL----ARGELQCIGATTLDEYRKYIEKDAA  312 (758)
T ss_dssp             THHHHHHHHHTCCCCEEEEC----------C----------------CCCT----TSSSCEEEEECCTTTTHHHHTTCSH
T ss_pred             HHHHHHHHHHhcCCEEEEEc----------Cc--------hhHHHHHHHHH----hcCCEEEEeCCChHHHHHHhhccHH
Confidence            57889999999999999999          00        01112233333    356789999999998     79999


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      ++|  || ..|+++.|+.+++..|++.+..
T Consensus       313 l~r--Rf-~~i~v~~p~~~~~~~il~~~~~  339 (758)
T 3pxi_A          313 LER--RF-QPIQVDQPSVDESIQILQGLRD  339 (758)
T ss_dssp             HHH--SE-EEEECCCCCHHHHHHHHHHTTT
T ss_pred             HHh--hC-cEEEeCCCCHHHHHHHHHHHHH
Confidence            999  99 5699999999999999987654

>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=98.62  E-value=2.2e-07  Score=66.15  Aligned_cols=74  Identities=15%  Similarity=0.263  Sum_probs=53.9

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhc----CCC-------CCCEEEEEecCCCC-CCCccccCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDG----MGA-------KKNVFIIGATNRPD-IIDPAILRPG   81 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~----~~~-------~~~v~vi~ttn~~~-~ld~al~r~g   81 (110)
                      .+++|||||+|.+..              ...+.|+..++.    +..       ..++++|+|||..+ .+++++++  
T Consensus       144 ~~~vl~iDEi~~l~~--------------~~~~~Ll~~le~~~~~~~~~g~~~~~~~~~~li~~~n~~~~~l~~~L~~--  207 (350)
T 1g8p_A          144 NRGYLYIDECNLLED--------------HIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--  207 (350)
T ss_dssp             TTEEEEETTGGGSCH--------------HHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--
T ss_pred             CCCEEEEeChhhCCH--------------HHHHHHHHHHhcCceEEEecceEEeeCCceEEEEEeCCCCCCCCHHHHh--
Confidence            378999999998732              233445554443    111       13789999999755 89999999  


Q ss_pred             ccceEEEecCC-CHHHHHHHHHH
Q psy13774         82 RLDQLIYIPLP-DEIWLILSDKF  103 (110)
Q Consensus        82 rfd~~i~~~~P-~~~~R~~~~~~  103 (110)
                      ||+..++++.| +.++|..|++.
T Consensus       208 R~~~~~~l~~~~~~~~~~~il~~  230 (350)
T 1g8p_A          208 RFGLSVEVLSPRDVETRVEVIRR  230 (350)
T ss_dssp             TCSEEEECCCCCSHHHHHHHHHH
T ss_pred             hcceEEEcCCCCcHHHHHHHHHH
Confidence            99999999999 57777676654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.62  E-value=1.5e-07  Score=74.11  Aligned_cols=84  Identities=17%  Similarity=0.260  Sum_probs=62.1

Q ss_pred             HHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC---------CCCCEEEEEecCCCCC-----
Q psy13774          7 ASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG---------AKKNVFIIGATNRPDI-----   72 (110)
Q Consensus         7 F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~---------~~~~v~vi~ttn~~~~-----   72 (110)
                      +...+...++||||||+|.+              ...+.+.|+..++.-.         ...++++|+|||.+..     
T Consensus       572 ~~~~~~~~~~vl~lDEi~~~--------------~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~~~~~~~~  637 (758)
T 3pxi_A          572 TEKVRRKPYSVVLLDAIEKA--------------HPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASEKDKV  637 (758)
T ss_dssp             HHHHHHCSSSEEEEECGGGS--------------CHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSSTTCCHHH
T ss_pred             hHHHHhCCCeEEEEeCcccc--------------CHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCChhhHHHH
Confidence            34455566799999999966              2346667777776521         1246899999997665     


Q ss_pred             -------CCccccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         73 -------IDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        73 -------ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                             ++|+++.  |||..|.|++|+.+++..+++.+++
T Consensus       638 ~~~~~~~f~p~l~~--Rl~~~i~~~~l~~~~~~~i~~~~l~  676 (758)
T 3pxi_A          638 MGELKRAFRPEFIN--RIDEIIVFHSLEKKHLTEIVSLMSD  676 (758)
T ss_dssp             HHHHHHHSCHHHHT--TSSEEEECC--CHHHHHHHHHHHHH
T ss_pred             HHHHHhhCCHHHHh--hCCeEEecCCCCHHHHHHHHHHHHH
Confidence                   7899998  9999999999999999888777653

>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=98.61  E-value=1.8e-07  Score=61.72  Aligned_cols=74  Identities=16%  Similarity=0.064  Sum_probs=58.2

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCC
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLP   92 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P   92 (110)
                      ..+++|+|||+|.+..              .....++..++.  ...++.+|++||.++.+++++.+  ||. .+++++|
T Consensus       101 ~~~~vliiDe~~~l~~--------------~~~~~l~~~l~~--~~~~~~~i~~~~~~~~~~~~l~~--r~~-~i~~~~~  161 (226)
T 2chg_A          101 APFKIIFLDEADALTA--------------DAQAALRRTMEM--YSKSCRFILSCNYVSRIIEPIQS--RCA-VFRFKPV  161 (226)
T ss_dssp             CSCEEEEEETGGGSCH--------------HHHHHHHHHHHH--TTTTEEEEEEESCGGGSCHHHHT--TSE-EEECCCC
T ss_pred             cCceEEEEeChhhcCH--------------HHHHHHHHHHHh--cCCCCeEEEEeCChhhcCHHHHH--hCc-eeecCCC
Confidence            5689999999998742              123455666665  24577889999999999999999  997 8999999


Q ss_pred             CHHHHHHHHHHHh
Q psy13774         93 DEIWLILSDKFLY  105 (110)
Q Consensus        93 ~~~~R~~~~~~~~  105 (110)
                      +.++...+++...
T Consensus       162 ~~~~~~~~l~~~~  174 (226)
T 2chg_A          162 PKEAMKKRLLEIC  174 (226)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            9999887776654

>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=98.60  E-value=1.6e-07  Score=73.80  Aligned_cols=84  Identities=23%  Similarity=0.254  Sum_probs=64.4

Q ss_pred             HHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC---------CCCEEEEEecCCCC------
Q psy13774          7 ASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA---------KKNVFIIGATNRPD------   71 (110)
Q Consensus         7 F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~---------~~~v~vi~ttn~~~------   71 (110)
                      ....+...++||||||+|.+.              ..+.+.|++.|+.-.-         ..++++|+|||...      
T Consensus       550 ~~~~~~~~~~vl~lDEi~~~~--------------~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~tsN~~~~~~~~~  615 (758)
T 1r6b_X          550 TDAVIKHPHAVLLLDEIEKAH--------------PDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERK  615 (758)
T ss_dssp             HHHHHHCSSEEEEEETGGGSC--------------HHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECSSCC-----
T ss_pred             HHHHHhCCCcEEEEeCccccC--------------HHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEecCcchhhhhhc
Confidence            344455667999999999762              3467777877774210         14688999999854      


Q ss_pred             -------------------CCCccccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         72 -------------------IIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        72 -------------------~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                                         .++|+++.  |||..|.|++|+.+++..|++.+++
T Consensus       616 ~~g~~~~~~~~~~~~~~~~~~~~~l~~--R~~~~i~~~~l~~~~~~~i~~~~l~  667 (758)
T 1r6b_X          616 SIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQVVDKFIV  667 (758)
T ss_dssp             ------------CHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             ccCccccchHHHHHHHHHHhcCHHHHh--hCCcceeeCCCCHHHHHHHHHHHHH
Confidence                               67899998  9999999999999999888777654

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=98.58  E-value=2.4e-07  Score=65.97  Aligned_cols=75  Identities=13%  Similarity=0.138  Sum_probs=55.6

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC---------CCCCCEEEEEecCCCC-----CCCccccCCC
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM---------GAKKNVFIIGATNRPD-----IIDPAILRPG   81 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~---------~~~~~v~vi~ttn~~~-----~ld~al~r~g   81 (110)
                      +|+||||+|.+.              ....+.|+..++.-         ....++++++|+|..+     .+++++++  
T Consensus       111 ~vl~iDEi~~~~--------------~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np~~~~~~~~l~~~l~~--  174 (331)
T 2r44_A          111 NFILADEVNRSP--------------AKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNPVEQEGTYPLPEAQVD--  174 (331)
T ss_dssp             SEEEEETGGGSC--------------HHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECTTCCSCCCCCCHHHHT--
T ss_pred             cEEEEEccccCC--------------HHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCCCcccCcccCCHHHHh--
Confidence            799999999762              22344555555531         1234688888888443     38999999  


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      ||+..++++.|+.++|..+++....
T Consensus       175 Rf~~~i~i~~p~~~~~~~il~~~~~  199 (331)
T 2r44_A          175 RFMMKIHLTYLDKESELEVMRRVSN  199 (331)
T ss_dssp             TSSEEEECCCCCHHHHHHHHHHHHC
T ss_pred             heeEEEEcCCCCHHHHHHHHHhccc
Confidence            9999999999999999988876543

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.57  E-value=1.9e-07  Score=67.24  Aligned_cols=87  Identities=8%  Similarity=0.005  Sum_probs=64.8

Q ss_pred             HHHHHHHH--HhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCC----CCcc
Q psy13774          3 IATGASMA--RAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDI----IDPA   76 (110)
Q Consensus         3 l~~~F~~A--~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~----ld~a   76 (110)
                      +++.|...  ....|+||++||+|.+.             .+.++..++.+...  ...++++|+.+|..+.    ++++
T Consensus       119 L~~~f~~~~~~~~~~~ii~lDE~d~l~-------------~q~~L~~l~~~~~~--~~s~~~vI~i~n~~d~~~~~L~~~  183 (318)
T 3te6_A          119 LNFYITNVPKAKKRKTLILIQNPENLL-------------SEKILQYFEKWISS--KNSKLSIICVGGHNVTIREQINIM  183 (318)
T ss_dssp             HHHHHHHSCGGGSCEEEEEEECCSSSC-------------CTHHHHHHHHHHHC--SSCCEEEEEECCSSCCCHHHHHTC
T ss_pred             HHHHHHHhhhccCCceEEEEecHHHhh-------------cchHHHHHHhcccc--cCCcEEEEEEecCcccchhhcchh
Confidence            55667764  35678999999999996             12356666665442  4578999999999875    4556


Q ss_pred             ccCCCccc-eEEEecCCCHHHHHHHHHHHhh
Q psy13774         77 ILRPGRLD-QLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        77 l~r~grfd-~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      +.+  ||. ..|.|++++.++-..|++.-++
T Consensus       184 v~S--R~~~~~i~F~pYt~~el~~Il~~Rl~  212 (318)
T 3te6_A          184 PSL--KAHFTEIKLNKVDKNELQQMIITRLK  212 (318)
T ss_dssp             HHH--HTTEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             hhc--cCCceEEEeCCCCHHHHHHHHHHHHH
Confidence            677  887 6899999999998887776553

>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=98.54  E-value=1.8e-07  Score=67.24  Aligned_cols=82  Identities=22%  Similarity=0.319  Sum_probs=59.8

Q ss_pred             HHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHH-HHHHHHhhhcCCCCCCEEEEEecCCC---CCCCccccCCC
Q psy13774          6 GASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRV-INQILTEMDGMGAKKNVFIIGATNRP---DIIDPAILRPG   81 (110)
Q Consensus         6 ~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~-~~~ll~~ld~~~~~~~v~vi~ttn~~---~~ld~al~r~g   81 (110)
                      ++..+.... ++|+|||+|.+.....          ... +..++...      .++.+|++||.+   +.+++++.+  
T Consensus       126 l~~~l~~~~-~vlilDEi~~l~~~~~----------~~~~l~~l~~~~------~~~~iI~~t~~~~~~~~l~~~l~s--  186 (384)
T 2qby_B          126 IKNGTRNIR-AIIYLDEVDTLVKRRG----------GDIVLYQLLRSD------ANISVIMISNDINVRDYMEPRVLS--  186 (384)
T ss_dssp             HHHHHSSSC-EEEEEETTHHHHHSTT----------SHHHHHHHHTSS------SCEEEEEECSSTTTTTTSCHHHHH--
T ss_pred             HHHHhccCC-CEEEEECHHHhccCCC----------CceeHHHHhcCC------cceEEEEEECCCchHhhhCHHHHh--
Confidence            344443444 4999999999864321          112 33343322      788999999988   789999999  


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      ||...+++++|+.++...+++..++
T Consensus       187 r~~~~i~l~~l~~~~~~~il~~~~~  211 (384)
T 2qby_B          187 SLGPSVIFKPYDAEQLKFILSKYAE  211 (384)
T ss_dssp             TCCCEEEECCCCHHHHHHHHHHHHH
T ss_pred             cCCCeEEECCCCHHHHHHHHHHHHH
Confidence            9988999999999999988887654

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.53  E-value=1.9e-07  Score=70.01  Aligned_cols=80  Identities=25%  Similarity=0.263  Sum_probs=60.3

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC-----CCCcc
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD-----IIDPA   76 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~-----~ld~a   76 (110)
                      +++.+|..+....|+|||||          +..        ...+.|+..+    ....+.+|++||.++     .+|++
T Consensus       255 ~~~~~~~~~~~~~~~iLfiD----------~~~--------~a~~~L~~~L----~~g~v~vI~at~~~e~~~~~~~~~a  312 (468)
T 3pxg_A          255 RLKKVMDEIRQAGNIILFID----------AAI--------DASNILKPSL----ARGELQCIGATTLDEYRKYIEKDAA  312 (468)
T ss_dssp             THHHHHHHHHTCCCCEEEEC----------C----------------CCCT----TSSSCEEEEECCTTTTHHHHTTCSH
T ss_pred             HHHHHHHHHHhcCCeEEEEe----------Cch--------hHHHHHHHhh----cCCCEEEEecCCHHHHHHHhhcCHH
Confidence            56789999999999999999          000        0112233223    345789999999998     79999


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      +++  ||.. |.++.|+.+++..+++.+..
T Consensus       313 l~~--Rf~~-i~v~~p~~e~~~~iL~~~~~  339 (468)
T 3pxg_A          313 LER--RFQP-IQVDQPSVDESIQILQGLRD  339 (468)
T ss_dssp             HHH--SEEE-EECCCCCHHHHHHHHHHTTT
T ss_pred             HHH--hCcc-ceeCCCCHHHHHHHHHHHHH
Confidence            999  9984 99999999999999887654

>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=98.53  E-value=5.3e-07  Score=60.02  Aligned_cols=74  Identities=18%  Similarity=0.199  Sum_probs=58.8

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      .|.+|+|||+|.+.              ....+.++..++.  ...++.+|++||.+..+++++.+  |+ ..+++++|+
T Consensus       126 ~~~vlviDe~~~l~--------------~~~~~~l~~~l~~--~~~~~~~i~~t~~~~~~~~~l~~--r~-~~i~l~~l~  186 (250)
T 1njg_A          126 RFKVYLIDEVHMLS--------------RHSFNALLKTLEE--PPEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALD  186 (250)
T ss_dssp             SSEEEEEETGGGSC--------------HHHHHHHHHHHHS--CCTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCC
T ss_pred             CceEEEEECccccc--------------HHHHHHHHHHHhc--CCCceEEEEEeCChHhCCHHHHH--Hh-hhccCCCCC
Confidence            57999999999872              2244566777765  35678999999999999999998  76 689999999


Q ss_pred             HHHHHHHHHHHhh
Q psy13774         94 EIWLILSDKFLYK  106 (110)
Q Consensus        94 ~~~R~~~~~~~~~  106 (110)
                      .++...+++..++
T Consensus       187 ~~e~~~~l~~~~~  199 (250)
T 1njg_A          187 VEQIRHQLEHILN  199 (250)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9998888776553

>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=98.49  E-value=5.7e-07  Score=64.25  Aligned_cols=89  Identities=21%  Similarity=0.246  Sum_probs=63.7

Q ss_pred             HHHHHHHhcC-CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC---CCCCccccCC
Q psy13774          5 TGASMARAAA-PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP---DIIDPAILRP   80 (110)
Q Consensus         5 ~~F~~A~~~~-P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~---~~ld~al~r~   80 (110)
                      .++....... |++|+|||+|.+....+          ...+..++..++.. ...++.+|++||.+   +.+++.+.+ 
T Consensus       118 ~l~~~l~~~~~~~vlilDE~~~l~~~~~----------~~~l~~l~~~~~~~-~~~~~~~I~~~~~~~~~~~~~~~~~~-  185 (386)
T 2qby_A          118 RLVKAVRDYGSQVVIVLDEIDAFVKKYN----------DDILYKLSRINSEV-NKSKISFIGITNDVKFVDLLDPRVKS-  185 (386)
T ss_dssp             HHHHHHHTCCSCEEEEEETHHHHHHSSC----------STHHHHHHHHHHSC-CC--EEEEEEESCGGGGGGCTTHHHH-
T ss_pred             HHHHHHhccCCeEEEEEcChhhhhccCc----------CHHHHHHhhchhhc-CCCeEEEEEEECCCChHhhhCHHHhc-
Confidence            3444444443 99999999999864431          12456666667655 45688999999987   578888888 


Q ss_pred             Cccc-eEEEecCCCHHHHHHHHHHHhh
Q psy13774         81 GRLD-QLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        81 grfd-~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                       ||. ..+++++++.++...+++..+.
T Consensus       186 -r~~~~~i~l~~l~~~~~~~il~~~~~  211 (386)
T 2qby_A          186 -SLSEEEIIFPPYNAEELEDILTKRAQ  211 (386)
T ss_dssp             -TTTTEEEEECCCCHHHHHHHHHHHHH
T ss_pred             -cCCCeeEEeCCCCHHHHHHHHHHHHH
Confidence             776 5899999999999888776544

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=98.43  E-value=1.3e-06  Score=62.67  Aligned_cols=82  Identities=15%  Similarity=0.242  Sum_probs=62.6

Q ss_pred             HHHHHHHHHh----cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCcccc
Q psy13774          3 IATGASMARA----AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAIL   78 (110)
Q Consensus         3 l~~~F~~A~~----~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~   78 (110)
                      ++++.+.+..    ..+.|++|||+|.+.              ....+.|++.++.  ...++++|.+||.++.++|+++
T Consensus        93 ir~l~~~~~~~~~~~~~kvviIdead~l~--------------~~a~naLLk~lEe--p~~~~~~Il~t~~~~~l~~ti~  156 (334)
T 1a5t_A           93 VREVTEKLNEHARLGGAKVVWVTDAALLT--------------DAAANALLKTLEE--PPAETWFFLATREPERLLATLR  156 (334)
T ss_dssp             HHHHHHHTTSCCTTSSCEEEEESCGGGBC--------------HHHHHHHHHHHTS--CCTTEEEEEEESCGGGSCHHHH
T ss_pred             HHHHHHHHhhccccCCcEEEEECchhhcC--------------HHHHHHHHHHhcC--CCCCeEEEEEeCChHhCcHHHh
Confidence            3455555442    236899999999883              2245678888876  4567899999999999999999


Q ss_pred             CCCccceEEEecCCCHHHHHHHHHH
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILSDKF  103 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~~~~  103 (110)
                      +  |+ ..+.+++|+.++...+++.
T Consensus       157 S--Rc-~~~~~~~~~~~~~~~~L~~  178 (334)
T 1a5t_A          157 S--RC-RLHYLAPPPEQYAVTWLSR  178 (334)
T ss_dssp             T--TS-EEEECCCCCHHHHHHHHHH
T ss_pred             h--cc-eeeeCCCCCHHHHHHHHHH
Confidence            9  88 4799999999988777654

>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=98.41  E-value=8.4e-07  Score=64.33  Aligned_cols=88  Identities=17%  Similarity=0.166  Sum_probs=54.5

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC-------------------CCCCEEEEEecCC----
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG-------------------AKKNVFIIGATNR----   69 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~-------------------~~~~v~vi~ttn~----   69 (110)
                      ..++||||||+|.+...+.+.....+.....+.+.|+..|++..                   ...++++|++||.    
T Consensus       136 ~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~l~  215 (376)
T 1um8_A          136 AQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLA  215 (376)
T ss_dssp             HTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCEEC---------------CEECTTCEEEEEECCTTHH
T ss_pred             cCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHHHHHhhccceecccccccccCCcceEEEecCCeEEEecCCHHHHH
Confidence            36899999999999877544322222223447778888888531                   1245678888772    


Q ss_pred             -------------------------------------CCCCCccccCCCccceEEEecCCCHHHHHHHHH
Q psy13774         70 -------------------------------------PDIIDPAILRPGRLDQLIYIPLPDEIWLILSDK  102 (110)
Q Consensus        70 -------------------------------------~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~  102 (110)
                                                           ...+.|++..  ||+..+.+++++.++...++.
T Consensus       216 ~~l~~R~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~~p~l~~--R~~~~i~~~~l~~~~l~~i~~  283 (376)
T 1um8_A          216 EIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELIG--RLPVLSTLDSISLEAMVDILQ  283 (376)
T ss_dssp             HHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHHT--TCCEEEECCCCCHHHHHHHHH
T ss_pred             HHHHHHhcccccCCCchhhhccchhHHHhhcCHHHHhhcCCChHHhc--CCCceeeccCCCHHHHHHHHh
Confidence                                                 1135677777  999999999999988777664

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=98.41  E-value=3.6e-07  Score=68.07  Aligned_cols=81  Identities=11%  Similarity=0.208  Sum_probs=57.0

Q ss_pred             hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCC---CCccccCCCccc--eE
Q psy13774         12 AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDI---IDPAILRPGRLD--QL   86 (110)
Q Consensus        12 ~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~---ld~al~r~grfd--~~   86 (110)
                      ...|+||||||+|.+..++            .....|+..++.+...+..++++|.+.+..   +++++++  ||+  ..
T Consensus       192 ~~~~~vL~IDEi~~l~~~~------------~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~s--R~~~g~~  257 (440)
T 2z4s_A          192 RKKVDILLIDDVQFLIGKT------------GVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVS--RFQMGLV  257 (440)
T ss_dssp             TTTCSEEEEECGGGGSSCH------------HHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHH--HHHSSBC
T ss_pred             cCCCCEEEEeCcccccCCh------------HHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHh--hccCCeE
Confidence            3378999999999885321            122334444444434455666666655554   8899999  997  78


Q ss_pred             EEecCCCHHHHHHHHHHHhh
Q psy13774         87 IYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        87 i~~~~P~~~~R~~~~~~~~~  106 (110)
                      +.+++|+.++|..+++...+
T Consensus       258 i~l~~p~~e~r~~iL~~~~~  277 (440)
T 2z4s_A          258 AKLEPPDEETRKSIARKMLE  277 (440)
T ss_dssp             CBCCCCCHHHHHHHHHHHHH
T ss_pred             EEeCCCCHHHHHHHHHHHHH
Confidence            99999999999988876553

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=98.38  E-value=7.1e-07  Score=63.39  Aligned_cols=78  Identities=15%  Similarity=0.210  Sum_probs=55.5

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC---CCCccccCCCccc--eEEE
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD---IIDPAILRPGRLD--QLIY   88 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~---~ld~al~r~grfd--~~i~   88 (110)
                      .|++|||||+|.+..++            .....++..++........+++++++.+.   .+++++.+  ||+  ..++
T Consensus        98 ~~~vL~iDEi~~l~~~~------------~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~s--R~~~~~~i~  163 (324)
T 1l8q_A           98 SVDLLLLDDVQFLSGKE------------RTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVS--RFEGGILVE  163 (324)
T ss_dssp             TCSEEEEECGGGGTTCH------------HHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHH--HHHTSEEEE
T ss_pred             CCCEEEEcCcccccCCh------------HHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhh--cccCceEEE
Confidence            48999999999885321            11223334444333345567777877776   78999999  997  7899


Q ss_pred             ecCCCHHHHHHHHHHHhh
Q psy13774         89 IPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        89 ~~~P~~~~R~~~~~~~~~  106 (110)
                      +++ +.++|..+++..++
T Consensus       164 l~~-~~~e~~~il~~~~~  180 (324)
T 1l8q_A          164 IEL-DNKTRFKIIKEKLK  180 (324)
T ss_dssp             CCC-CHHHHHHHHHHHHH
T ss_pred             eCC-CHHHHHHHHHHHHH
Confidence            999 99999988877654

>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=98.36  E-value=2e-06  Score=60.32  Aligned_cols=73  Identities=11%  Similarity=0.052  Sum_probs=57.0

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      .+.+|+|||+|.+..              ...+.|+..++.  ...++.+|++||.+..+++++.+  |+. .+.+++|+
T Consensus       107 ~~~viiiDe~~~l~~--------------~~~~~L~~~le~--~~~~~~~il~~~~~~~l~~~l~s--r~~-~i~~~~~~  167 (323)
T 1sxj_B          107 KHKIVILDEADSMTA--------------GAQQALRRTMEL--YSNSTRFAFACNQSNKIIEPLQS--QCA-ILRYSKLS  167 (323)
T ss_dssp             CCEEEEEESGGGSCH--------------HHHHTTHHHHHH--TTTTEEEEEEESCGGGSCHHHHT--TSE-EEECCCCC
T ss_pred             CceEEEEECcccCCH--------------HHHHHHHHHHhc--cCCCceEEEEeCChhhchhHHHh--hce-EEeecCCC
Confidence            489999999998742              123445666665  34577888899999999999999  875 89999999


Q ss_pred             HHHHHHHHHHHh
Q psy13774         94 EIWLILSDKFLY  105 (110)
Q Consensus        94 ~~~R~~~~~~~~  105 (110)
                      .++...+++...
T Consensus       168 ~~~~~~~l~~~~  179 (323)
T 1sxj_B          168 DEDVLKRLLQII  179 (323)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999888877654

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=98.35  E-value=1.4e-06  Score=76.35  Aligned_cols=85  Identities=24%  Similarity=0.362  Sum_probs=60.2

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC--------CCCEEEEEecCCCC-----CCCccccCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA--------KKNVFIIGATNRPD-----IIDPAILRP   80 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~--------~~~v~vi~ttn~~~-----~ld~al~r~   80 (110)
                      .++|+||||+|.....+.+++     ....++.+++.. .++..        -.++.+|||||.|.     .|||+++| 
T Consensus      1336 k~~VlFiDEinmp~~d~yg~q-----~~lelLRq~le~-gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllR- 1408 (2695)
T 4akg_A         1336 KNLVLFCDEINLPKLDKYGSQ-----NVVLFLRQLMEK-QGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTR- 1408 (2695)
T ss_dssp             SCEEEEEETTTCSCCCSSSCC-----HHHHHHHHHHHT-SSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHT-
T ss_pred             ceEEEEecccccccccccCch-----hHHHHHHHHHhc-CCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhh-
Confidence            357999999996443333221     234444444422 12211        13689999999994     89999999 


Q ss_pred             CccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         81 GRLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        81 grfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                       || ..++++.|+.+++..|+..+++.
T Consensus      1409 -rf-~vi~i~~P~~~~l~~I~~~il~~ 1433 (2695)
T 4akg_A         1409 -HA-AILYLGYPSGKSLSQIYEIYYKA 1433 (2695)
T ss_dssp             -TE-EEEECCCCTTTHHHHHHHHHHHH
T ss_pred             -ee-eEEEeCCCCHHHHHHHHHHHHHH
Confidence             99 88999999999999998877653

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.34  E-value=9.9e-07  Score=65.98  Aligned_cols=83  Identities=22%  Similarity=0.253  Sum_probs=57.3

Q ss_pred             HHHHHHHHHh----cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEec--CCCCCCCcc
Q psy13774          3 IATGASMARA----AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGAT--NRPDIIDPA   76 (110)
Q Consensus         3 l~~~F~~A~~----~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~tt--n~~~~ld~a   76 (110)
                      ++.+|..|..    ..++||||||+|.+....              ...|+..++.    ..+++|++|  |....++++
T Consensus        91 ir~~~~~a~~~~~~~~~~iLfIDEI~~l~~~~--------------q~~LL~~le~----~~v~lI~att~n~~~~l~~a  152 (447)
T 3pvs_A           91 IREAIERARQNRNAGRRTILFVDEVHRFNKSQ--------------QDAFLPHIED----GTITFIGATTENPSFELNSA  152 (447)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEETTTCC--------------------CCHHHHHT----TSCEEEEEESSCGGGSSCHH
T ss_pred             HHHHHHHHHHhhhcCCCcEEEEeChhhhCHHH--------------HHHHHHHHhc----CceEEEecCCCCcccccCHH
Confidence            4556666653    468999999999884221              1235555654    446666666  444689999


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      +++  |+. .+.+++|+.++...+++..++
T Consensus       153 L~s--R~~-v~~l~~l~~edi~~il~~~l~  179 (447)
T 3pvs_A          153 LLS--RAR-VYLLKSLSTEDIEQVLTQAME  179 (447)
T ss_dssp             HHT--TEE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             HhC--cee-EEeeCCcCHHHHHHHHHHHHH
Confidence            999  986 688999999999888777664

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.33  E-value=3.3e-06  Score=60.42  Aligned_cols=84  Identities=15%  Similarity=0.138  Sum_probs=63.6

Q ss_pred             HHHHHHHHHh----cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCcccc
Q psy13774          3 IATGASMARA----AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAIL   78 (110)
Q Consensus         3 l~~~F~~A~~----~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~   78 (110)
                      ++.++..+..    ..+.||+|||+|.+.              ....+.|+..++.  ...++++|++|+.+..+++++.
T Consensus       104 ~~~l~~~~~~~~~~~~~~vliiDe~~~l~--------------~~~~~~Ll~~le~--~~~~~~~Il~~~~~~~l~~~l~  167 (373)
T 1jr3_A          104 TRDLLDNVQYAPARGRFKVYLIDEVHMLS--------------RHSFNALLKTLEE--PPEHVKFLLATTDPQKLPVTIL  167 (373)
T ss_dssp             HHHHHHHTTSCCSSSSSEEEEEECGGGSC--------------HHHHHHHHHHHHS--CCSSEEEEEEESCGGGSCHHHH
T ss_pred             HHHHHHHHhhccccCCeEEEEEECcchhc--------------HHHHHHHHHHHhc--CCCceEEEEEeCChHhCcHHHH
Confidence            3455555442    247899999999872              2245567777776  3567899999999999999999


Q ss_pred             CCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      +  |+ ..+.+++|+.++...+++..+
T Consensus       168 s--r~-~~i~~~~l~~~~~~~~l~~~~  191 (373)
T 1jr3_A          168 S--RC-LQFHLKALDVEQIRHQLEHIL  191 (373)
T ss_dssp             T--TS-EEEECCCCCHHHHHHHHHHHH
T ss_pred             h--he-eEeeCCCCCHHHHHHHHHHHH
Confidence            8  87 789999999999888777655

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=98.29  E-value=1.6e-06  Score=60.63  Aligned_cols=75  Identities=16%  Similarity=0.068  Sum_probs=57.9

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCC
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLP   92 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P   92 (110)
                      ..+.+|+|||+|.+..              ...+.|+..++.  ...++.+|++||.+..+++++.+  |+. .+.+++|
T Consensus       101 ~~~~vliiDe~~~l~~--------------~~~~~L~~~le~--~~~~~~~i~~~~~~~~l~~~l~s--r~~-~i~~~~~  161 (319)
T 2chq_A          101 APFKIIFLDEADALTA--------------DAQAALRRTMEM--YSKSCRFILSCNYVSRIIEPIQS--RCA-VFRFKPV  161 (319)
T ss_dssp             CCCEEEEEETGGGSCH--------------HHHHTTGGGTSS--SSSSEEEEEEESCGGGSCHHHHT--TCE-EEECCCC
T ss_pred             CCceEEEEeCCCcCCH--------------HHHHHHHHHHHh--cCCCCeEEEEeCChhhcchHHHh--hCe-EEEecCC
Confidence            3479999999998732              223445555654  24678899999999999999999  885 8999999


Q ss_pred             CHHHHHHHHHHHhh
Q psy13774         93 DEIWLILSDKFLYK  106 (110)
Q Consensus        93 ~~~~R~~~~~~~~~  106 (110)
                      +.++...+++...+
T Consensus       162 ~~~~~~~~l~~~~~  175 (319)
T 2chq_A          162 PKEAMKKRLLEICE  175 (319)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99998877766543

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.28  E-value=4.9e-06  Score=59.36  Aligned_cols=73  Identities=16%  Similarity=0.131  Sum_probs=57.5

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      .|.|++|||+|.+-              ....+.++..++..  ..+..+|.+||.++.+.+++++  |+ ..+.+++|+
T Consensus       134 ~~~vlilDE~~~L~--------------~~~~~~L~~~le~~--~~~~~~Il~t~~~~~l~~~l~s--R~-~~~~~~~~~  194 (354)
T 1sxj_E          134 RYKCVIINEANSLT--------------KDAQAALRRTMEKY--SKNIRLIMVCDSMSPIIAPIKS--QC-LLIRCPAPS  194 (354)
T ss_dssp             CCEEEEEECTTSSC--------------HHHHHHHHHHHHHS--TTTEEEEEEESCSCSSCHHHHT--TS-EEEECCCCC
T ss_pred             CCeEEEEeCccccC--------------HHHHHHHHHHHHhh--cCCCEEEEEeCCHHHHHHHHHh--hc-eEEecCCcC
Confidence            57799999999852              12344566666664  3467888999999999999999  88 789999999


Q ss_pred             HHHHHHHHHHHh
Q psy13774         94 EIWLILSDKFLY  105 (110)
Q Consensus        94 ~~~R~~~~~~~~  105 (110)
                      .++...+++...
T Consensus       195 ~~~~~~~l~~~~  206 (354)
T 1sxj_E          195 DSEISTILSDVV  206 (354)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999888777654

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=98.23  E-value=7.7e-07  Score=59.72  Aligned_cols=80  Identities=13%  Similarity=0.121  Sum_probs=52.8

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCE-EEEEecCCCC---CCCccccCCCccc--eE
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNV-FIIGATNRPD---IIDPAILRPGRLD--QL   86 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v-~vi~ttn~~~---~ld~al~r~grfd--~~   86 (110)
                      ..|.+|+|||+|.+....            .....++..++.......+ +++++++.+.   .+++++.+  ||.  ..
T Consensus       103 ~~~~vliiDe~~~~~~~~------------~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~l~~--r~~~~~~  168 (242)
T 3bos_A          103 EQFDLICIDDVDAVAGHP------------LWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPDLVS--RMHWGLT  168 (242)
T ss_dssp             GGSSEEEEETGGGGTTCH------------HHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHHHHH--HHHHSEE
T ss_pred             cCCCEEEEeccccccCCH------------HHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhhhhh--HhhcCce
Confidence            347899999999874221            1122344444433233344 5555555554   56688998  886  89


Q ss_pred             EEecCCCHHHHHHHHHHHhh
Q psy13774         87 IYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        87 i~~~~P~~~~R~~~~~~~~~  106 (110)
                      +++++|+.+++..+++.+++
T Consensus       169 i~l~~~~~~~~~~~l~~~~~  188 (242)
T 3bos_A          169 YQLQPMMDDEKLAALQRRAA  188 (242)
T ss_dssp             EECCCCCGGGHHHHHHHHHH
T ss_pred             EEeCCCCHHHHHHHHHHHHH
Confidence            99999999999988877654

>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=98.22  E-value=3.3e-06  Score=60.59  Aligned_cols=78  Identities=9%  Similarity=0.019  Sum_probs=59.6

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC--CCCEEEEEecCCC---CCCCccccCCCccce-E
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA--KKNVFIIGATNRP---DIIDPAILRPGRLDQ-L   86 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~--~~~v~vi~ttn~~---~~ld~al~r~grfd~-~   86 (110)
                      ..|.+|+|||+|.+              ....+..|+..++....  ..++.+|++||.+   +.+++.+.+  ||.. .
T Consensus       124 ~~~~vlilDE~~~l--------------~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l~~~~~~--r~~~~~  187 (389)
T 1fnn_A          124 DLYMFLVLDDAFNL--------------APDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRG--IMGKYV  187 (389)
T ss_dssp             TCCEEEEEETGGGS--------------CHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSCHHHHH--HHTTCE
T ss_pred             CCeEEEEEECcccc--------------chHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHhCHHhhh--cCCCce
Confidence            45899999999988              12355566666655422  2588999999988   788999888  8875 8


Q ss_pred             EEecCCCHHHHHHHHHHHhh
Q psy13774         87 IYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        87 i~~~~P~~~~R~~~~~~~~~  106 (110)
                      +++++++.++...+++..+.
T Consensus       188 i~~~pl~~~~~~~~l~~~~~  207 (389)
T 1fnn_A          188 IRFSPYTKDQIFDILLDRAK  207 (389)
T ss_dssp             EECCCCBHHHHHHHHHHHHH
T ss_pred             EEeCCCCHHHHHHHHHHHHH
Confidence            99999999988877766554

>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=98.21  E-value=5.3e-06  Score=58.20  Aligned_cols=74  Identities=18%  Similarity=0.186  Sum_probs=57.5

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCC
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLP   92 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P   92 (110)
                      ..+.+|+|||+|.+..              ...+.|+..++..  ..++.+|++||.++.+++++.+  |+. .+.+++|
T Consensus       109 ~~~~vliiDe~~~l~~--------------~~~~~L~~~le~~--~~~~~~i~~~~~~~~l~~~l~s--r~~-~~~~~~l  169 (327)
T 1iqp_A          109 ASFKIIFLDEADALTQ--------------DAQQALRRTMEMF--SSNVRFILSCNYSSKIIEPIQS--RCA-IFRFRPL  169 (327)
T ss_dssp             CSCEEEEEETGGGSCH--------------HHHHHHHHHHHHT--TTTEEEEEEESCGGGSCHHHHH--TEE-EEECCCC
T ss_pred             CCCeEEEEeCCCcCCH--------------HHHHHHHHHHHhc--CCCCeEEEEeCCccccCHHHHh--hCc-EEEecCC
Confidence            3578999999998732              2345566666653  4567888899999999999998  886 7999999


Q ss_pred             CHHHHHHHHHHHh
Q psy13774         93 DEIWLILSDKFLY  105 (110)
Q Consensus        93 ~~~~R~~~~~~~~  105 (110)
                      +.++...+++...
T Consensus       170 ~~~~~~~~l~~~~  182 (327)
T 1iqp_A          170 RDEDIAKRLRYIA  182 (327)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            9888887776554

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=98.16  E-value=3.1e-06  Score=65.35  Aligned_cols=76  Identities=21%  Similarity=0.236  Sum_probs=54.4

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC-----------CCCCEEEEEecCCCC-----------
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG-----------AKKNVFIIGATNRPD-----------   71 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~-----------~~~~v~vi~ttn~~~-----------   71 (110)
                      ..+|+||||+|.+.+              ...+.|+..|++-.           -..++.+|+|||.+.           
T Consensus       391 ~~gil~IDEid~l~~--------------~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp~~G~~~~~~~~~~  456 (595)
T 3f9v_A          391 DGGIAVIDEIDKMRD--------------EDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKFGRYISERPVSD  456 (595)
T ss_dssp             SSSEECCTTTTCCCS--------------HHHHHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECCTTCCSCTTSCSCT
T ss_pred             CCCcEEeehhhhCCH--------------hHhhhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCCcCCccCcccCchh
Confidence            358999999997721              13344555555311           134788999999987           


Q ss_pred             --CCCccccCCCccc-eEEEecCCCHHHHHHHHHHHhh
Q psy13774         72 --IIDPAILRPGRLD-QLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        72 --~ld~al~r~grfd-~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                        .+++++++  ||| ..+..+.|+.+ ...+.+..++
T Consensus       457 ni~l~~aLl~--RFDl~~~~~~~~~~e-~~~i~~~il~  491 (595)
T 3f9v_A          457 NINLPPTILS--RFDLIFILKDQPGEQ-DRELANYILD  491 (595)
T ss_dssp             TTCSCSSSGG--GCSCCEEECCTTHHH-HHHHHHHHHT
T ss_pred             ccCCCHHHHh--hCeEEEEeCCCCCHH-HHHHHHHHHH
Confidence              89999999  998 46666788888 7777776554

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.15  E-value=6.2e-06  Score=58.57  Aligned_cols=73  Identities=14%  Similarity=0.050  Sum_probs=55.7

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      .+.||+|||+|.+..              ...+.|+..++..  ..+..+|.+||.+..+++++++  |+. .+.+++|+
T Consensus       133 ~~~vliiDE~~~l~~--------------~~~~~Ll~~le~~--~~~~~~il~~~~~~~l~~~l~s--R~~-~i~~~~~~  193 (353)
T 1sxj_D          133 PYKIIILDEADSMTA--------------DAQSALRRTMETY--SGVTRFCLICNYVTRIIDPLAS--QCS-KFRFKALD  193 (353)
T ss_dssp             SCEEEEETTGGGSCH--------------HHHHHHHHHHHHT--TTTEEEEEEESCGGGSCHHHHH--HSE-EEECCCCC
T ss_pred             CceEEEEECCCccCH--------------HHHHHHHHHHHhc--CCCceEEEEeCchhhCcchhhc--cCc-eEEeCCCC
Confidence            456999999998842              1235566667664  3456677788999999999999  986 79999999


Q ss_pred             HHHHHHHHHHHh
Q psy13774         94 EIWLILSDKFLY  105 (110)
Q Consensus        94 ~~~R~~~~~~~~  105 (110)
                      .++...+++...
T Consensus       194 ~~~~~~~l~~~~  205 (353)
T 1sxj_D          194 ASNAIDRLRFIS  205 (353)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            988877766544

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=98.13  E-value=8e-06  Score=58.23  Aligned_cols=81  Identities=14%  Similarity=0.087  Sum_probs=62.0

Q ss_pred             HHHHHHHHHhcC----CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCcccc
Q psy13774          3 IATGASMARAAA----PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAIL   78 (110)
Q Consensus         3 l~~~F~~A~~~~----P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~   78 (110)
                      ++++.+.|....    ..|++|||+|.+.              ....+.|+..++.  ....+++|.+|+.+..+.|+++
T Consensus        67 ir~li~~~~~~p~~~~~kvviIdead~lt--------------~~a~naLLk~LEe--p~~~t~fIl~t~~~~kl~~tI~  130 (305)
T 2gno_A           67 IRTIKDFLNYSPELYTRKYVIVHDCERMT--------------QQAANAFLKALEE--PPEYAVIVLNTRRWHYLLPTIK  130 (305)
T ss_dssp             HHHHHHHHTSCCSSSSSEEEEETTGGGBC--------------HHHHHHTHHHHHS--CCTTEEEEEEESCGGGSCHHHH
T ss_pred             HHHHHHHHhhccccCCceEEEeccHHHhC--------------HHHHHHHHHHHhC--CCCCeEEEEEECChHhChHHHH
Confidence            566777665322    3699999999883              2235678888886  4567888888899999999999


Q ss_pred             CCCccceEEEecCCCHHHHHHHHHHH
Q psy13774         79 RPGRLDQLIYIPLPDEIWLILSDKFL  104 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R~~~~~~~  104 (110)
                      +  |   .+.+++|+.++-..+++..
T Consensus       131 S--R---~~~f~~l~~~~i~~~L~~~  151 (305)
T 2gno_A          131 S--R---VFRVVVNVPKEFRDLVKEK  151 (305)
T ss_dssp             T--T---SEEEECCCCHHHHHHHHHH
T ss_pred             c--e---eEeCCCCCHHHHHHHHHHH
Confidence            9  8   8999999988877666543

>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=98.03  E-value=1.1e-05  Score=64.37  Aligned_cols=83  Identities=22%  Similarity=0.278  Sum_probs=61.5

Q ss_pred             HHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC---------CCCCEEEEEecCC---------
Q psy13774          8 SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG---------AKKNVFIIGATNR---------   69 (110)
Q Consensus         8 ~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~---------~~~~v~vi~ttn~---------   69 (110)
                      ...+...+++|||||+|.+              ...+.+.|+..++.-.         .-.++++|+|||.         
T Consensus       654 ~~~~~~~~~vl~lDEi~~l--------------~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~tsn~~~~~~~~~~  719 (854)
T 1qvr_A          654 EAVRRRPYSVILFDEIEKA--------------HPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLILEGL  719 (854)
T ss_dssp             HHHHHCSSEEEEESSGGGS--------------CHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEECCTTHHHHHHHH
T ss_pred             HHHHhCCCeEEEEeccccc--------------CHHHHHHHHHHhccCceECCCCCEeccCCeEEEEecCcChHHHhhhc
Confidence            3344555699999999966              2346777888877421         0137889999997         


Q ss_pred             -----------------CCCCCccccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         70 -----------------PDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        70 -----------------~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                                       ...+.|+++.  |||..+.+.+|+.++...|++.+++
T Consensus       720 ~~~~~~~~l~~~v~~~~~~~f~~~l~~--Rl~~~i~~~pl~~edi~~i~~~~l~  771 (854)
T 1qvr_A          720 QKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEIQLS  771 (854)
T ss_dssp             HTTCCHHHHHHHHHHHHHTTSCHHHHH--TCSBCCBCCCCCHHHHHHHHHHHHH
T ss_pred             ccccchHHHHHHHHHHHHhhCCHHHHH--hcCeEEeCCCCCHHHHHHHHHHHHH
Confidence                             2356788887  9999999999999988888777654

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=97.99  E-value=1e-05  Score=61.34  Aligned_cols=74  Identities=14%  Similarity=0.143  Sum_probs=49.3

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC--------CCCCCEEEEEecCCCCC---CCccccCCCc
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM--------GAKKNVFIIGATNRPDI---IDPAILRPGR   82 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~--------~~~~~v~vi~ttn~~~~---ld~al~r~gr   82 (110)
                      .++|+||||++.+              .....+.|+..|+.-        ......++|+|||.+..   ..+++++  |
T Consensus       109 ~~~IL~IDEI~r~--------------~~~~q~~LL~~lee~~v~i~G~~~~~~~~~iI~ATN~lpe~~~~~~aLld--R  172 (500)
T 3nbx_X          109 EAEIVFLDEIWKA--------------GPAILNTLLTAINERQFRNGAHVEKIPMRLLVAASNELPEADSSLEALYD--R  172 (500)
T ss_dssp             GCSEEEEESGGGC--------------CHHHHHHHHHHHHSSEEECSSSEEECCCCEEEEEESSCCCTTCTTHHHHT--T
T ss_pred             cceeeeHHhHhhh--------------cHHHHHHHHHHHHHHhccCCCCcCCcchhhhhhccccCCCccccHHHHHH--H
Confidence            4789999999744              134556677766531        11122356778885322   3459999  9


Q ss_pred             cceEEEecCCCH-HHHHHHHHH
Q psy13774         83 LDQLIYIPLPDE-IWLILSDKF  103 (110)
Q Consensus        83 fd~~i~~~~P~~-~~R~~~~~~  103 (110)
                      |...++++.|+. ++|..+++.
T Consensus       173 F~~~i~v~~p~~~ee~~~IL~~  194 (500)
T 3nbx_X          173 MLIRLWLDKVQDKANFRSMLTS  194 (500)
T ss_dssp             CCEEEECCSCCCHHHHHHHHTC
T ss_pred             HHHHHHHHHhhhhhhHHHHHhc
Confidence            999999999997 667776653

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=97.99  E-value=4.7e-06  Score=70.72  Aligned_cols=72  Identities=19%  Similarity=0.245  Sum_probs=55.6

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCC---CCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC-CCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRG---GSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP-DIID   74 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~---~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~-~~ld   74 (110)
                      .++.+|.+|++.+||+||+|++|+|++.+.   .....+.+...+.+++++..++++....+|+|| +||+. +.+.
T Consensus      1148 ~l~~~~~~ar~~~~~~i~~d~~~al~~~~~~~g~~~~~~~~~~~r~~~q~l~~~~~~~~~~~v~v~-~~n~~~~~~~ 1223 (1706)
T 3cmw_A         1148 ALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLI-FINQIRMKIG 1223 (1706)
T ss_dssp             HHHHHHHHHHHTCCSEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHHTTCEEE-EEECEEECTT
T ss_pred             HHHHHHHHHHhcCCeEEEeCchHhcCcccccccccccccccHHHHHHHHHHHHHHhhhccCCeEEE-Eeccccccch
Confidence            367889999999999999999999999853   222222356778999999999998777888888 66665 3443

>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=97.96  E-value=2.4e-05  Score=58.35  Aligned_cols=72  Identities=21%  Similarity=0.196  Sum_probs=54.8

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEe---------cC---CCCCCCccccCCCc
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGA---------TN---RPDIIDPAILRPGR   82 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~t---------tn---~~~~ld~al~r~gr   82 (110)
                      |.|++|||+|.+.              ....+.|+..|+..  ..++++++|         |+   .+..++|++++  |
T Consensus       296 ~~VliIDEa~~l~--------------~~a~~aLlk~lEe~--~~~~~il~tn~~~~~i~~~~~~~~~~~l~~~i~s--R  357 (456)
T 2c9o_A          296 PGVLFVDEVHMLD--------------IECFTYLHRALESS--IAPIVIFASNRGNCVIRGTEDITSPHGIPLDLLD--R  357 (456)
T ss_dssp             ECEEEEESGGGCB--------------HHHHHHHHHHTTST--TCCEEEEEECCSEEECBTTSSCEEETTCCHHHHT--T
T ss_pred             ceEEEEechhhcC--------------HHHHHHHHHHhhcc--CCCEEEEecCCccccccccccccccccCChhHHh--h
Confidence            4699999999882              34677788888864  334655565         33   27899999999  9


Q ss_pred             cceEEEecCCCHHHHHHHHHHHh
Q psy13774         83 LDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        83 fd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      |.. +.+++|+.++...+++...
T Consensus       358 ~~~-~~~~~~~~~e~~~iL~~~~  379 (456)
T 2c9o_A          358 VMI-IRTMLYTPQEMKQIIKIRA  379 (456)
T ss_dssp             EEE-EECCCCCHHHHHHHHHHHH
T ss_pred             cce-eeCCCCCHHHHHHHHHHHH
Confidence            977 6999999999988877543

>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=97.92  E-value=4e-05  Score=57.41  Aligned_cols=82  Identities=20%  Similarity=0.243  Sum_probs=59.4

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC--------CCCCEEEEEec----CCCCCCCccccCCCcc
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG--------AKKNVFIIGAT----NRPDIIDPAILRPGRL   83 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~--------~~~~v~vi~tt----n~~~~ld~al~r~grf   83 (110)
                      .|+++||+|.++.+.++...  +.....+-..||..+++..        ..+++++|+|.    +.|.++-|.|+.  ||
T Consensus       252 ~il~~DEidki~~~~~~~~~--D~s~egvq~aLL~~le~~~~~~~~~~~d~~~ilfI~~gaf~~~~~~dlipel~~--R~  327 (444)
T 1g41_A          252 GIVFIDEIDKICKKGEYSGA--DVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQG--RL  327 (444)
T ss_dssp             CEEEEETGGGGSCCSSCSSS--HHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSSCCGGGSCHHHHT--TC
T ss_pred             CeeeHHHHHHHhhccCCCCC--CchHHHHHHHHHHHhcccccccccceecCCcEEEEeccccccCChhhcchHHhc--cc
Confidence            49999999999866442211  1122336678898888731        24678999887    345555578887  99


Q ss_pred             ceEEEecCCCHHHHHHHH
Q psy13774         84 DQLIYIPLPDEIWLILSD  101 (110)
Q Consensus        84 d~~i~~~~P~~~~R~~~~  101 (110)
                      +..|.++..+.++-..|+
T Consensus       328 ~i~i~l~~lt~~e~~~Il  345 (444)
T 1g41_A          328 PIRVELTALSAADFERIL  345 (444)
T ss_dssp             CEEEECCCCCHHHHHHHH
T ss_pred             ceeeeCCCCCHHHHHHHH
Confidence            999999999999988777

>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=97.88  E-value=9.4e-05  Score=55.95  Aligned_cols=77  Identities=14%  Similarity=0.116  Sum_probs=50.3

Q ss_pred             hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecC
Q psy13774         12 AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPL   91 (110)
Q Consensus        12 ~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~   91 (110)
                      ...++||+|||+|.+....           ...+..++..++.  ...++++++++.....+++ +.   |+...+.|++
T Consensus       146 ~~~~~vliIDEid~l~~~~-----------~~~l~~L~~~l~~--~~~~iIli~~~~~~~~l~~-l~---~r~~~i~f~~  208 (516)
T 1sxj_A          146 NGKHFVIIMDEVDGMSGGD-----------RGGVGQLAQFCRK--TSTPLILICNERNLPKMRP-FD---RVCLDIQFRR  208 (516)
T ss_dssp             STTSEEEEECSGGGCCTTS-----------TTHHHHHHHHHHH--CSSCEEEEESCTTSSTTGG-GT---TTSEEEECCC
T ss_pred             cCCCeEEEEECCCccchhh-----------HHHHHHHHHHHHh--cCCCEEEEEcCCCCccchh-hH---hceEEEEeCC
Confidence            3568999999999986432           1124455555554  3345666665555455543 44   4557899999


Q ss_pred             CCHHHHHHHHHHHh
Q psy13774         92 PDEIWLILSDKFLY  105 (110)
Q Consensus        92 P~~~~R~~~~~~~~  105 (110)
                      |+.+++..+++...
T Consensus       209 ~~~~~~~~~L~~i~  222 (516)
T 1sxj_A          209 PDANSIKSRLMTIA  222 (516)
T ss_dssp             CCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            99999887765543

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=97.83  E-value=4.5e-05  Score=51.28  Aligned_cols=72  Identities=11%  Similarity=0.105  Sum_probs=52.1

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCC
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLP   92 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P   92 (110)
                      ..++||+|||++.+++.+......     .    .++..+..- ...+.-+|.+|+.++.||.++++  |++..++++.|
T Consensus        86 ~~~~vliIDEAq~l~~~~~~~~e~-----~----rll~~l~~~-r~~~~~iil~tq~~~~l~~~lr~--ri~~~~~l~~~  153 (199)
T 2r2a_A           86 NIGSIVIVDEAQDVWPARSAGSKI-----P----ENVQWLNTH-RHQGIDIFVLTQGPKLLDQNLRT--LVRKHYHIASN  153 (199)
T ss_dssp             GTTCEEEETTGGGTSBCCCTTCCC-----C----HHHHGGGGT-TTTTCEEEEEESCGGGBCHHHHT--TEEEEEEEEEC
T ss_pred             cCceEEEEEChhhhccCccccchh-----H----HHHHHHHhc-CcCCeEEEEECCCHHHHhHHHHH--HhheEEEEcCc
Confidence            457899999999998766432211     1    245555432 34566778888889999999998  99999999887


Q ss_pred             CHHH
Q psy13774         93 DEIW   96 (110)
Q Consensus        93 ~~~~   96 (110)
                      ....
T Consensus       154 ~~~~  157 (199)
T 2r2a_A          154 KMGM  157 (199)
T ss_dssp             SSCC
T ss_pred             ccCc
Confidence            5443

>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=97.67  E-value=0.0002  Score=51.05  Aligned_cols=72  Identities=14%  Similarity=0.102  Sum_probs=54.2

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      +.|++|||+|.+..              ...+.|+..++..  ...+.+|++||.+..+.+++++  |+. .+.+..++.
T Consensus       111 ~~viiiDe~~~l~~--------------~~~~~L~~~le~~--~~~~~~il~~n~~~~i~~~i~s--R~~-~~~~~~l~~  171 (340)
T 1sxj_C          111 FKLIILDEADAMTN--------------AAQNALRRVIERY--TKNTRFCVLANYAHKLTPALLS--QCT-RFRFQPLPQ  171 (340)
T ss_dssp             CEEEEETTGGGSCH--------------HHHHHHHHHHHHT--TTTEEEEEEESCGGGSCHHHHT--TSE-EEECCCCCH
T ss_pred             ceEEEEeCCCCCCH--------------HHHHHHHHHHhcC--CCCeEEEEEecCccccchhHHh--hce-eEeccCCCH
Confidence            68999999998732              2344566777664  3456777889999999999999  885 788988888


Q ss_pred             HHHHHHHHHHh
Q psy13774         95 IWLILSDKFLY  105 (110)
Q Consensus        95 ~~R~~~~~~~~  105 (110)
                      ++...++....
T Consensus       172 ~~~~~~l~~~~  182 (340)
T 1sxj_C          172 EAIERRIANVL  182 (340)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            87766655544

>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=97.64  E-value=8.2e-05  Score=53.69  Aligned_cols=83  Identities=11%  Similarity=0.088  Sum_probs=57.4

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC-C--CCEEEEEecCCCC---CCC---ccccCCCcc
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA-K--KNVFIIGATNRPD---IID---PAILRPGRL   83 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~-~--~~v~vi~ttn~~~---~ld---~al~r~grf   83 (110)
                      ..|.+|+|||+|.+...+.        .....+..++..+..... .  .++.+|++||.++   .++   +.+.+  +|
T Consensus       137 ~~~~llvlDe~~~l~~~~~--------~~~~~l~~l~~~~~~~~~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~--~~  206 (412)
T 1w5s_A          137 NHYLLVILDEFQSMLSSPR--------IAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVES--QI  206 (412)
T ss_dssp             TCEEEEEEESTHHHHSCTT--------SCHHHHHHHHTHHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHT--TC
T ss_pred             CCeEEEEEeCHHHHhhccC--------cchHHHHHHHHHHHhcccCCCCceEEEEEEeccccHHHHHhhhcchhhh--hc
Confidence            5689999999999854321        123455556666665431 3  6889999998765   344   66666  66


Q ss_pred             ceEEEecCCCHHHHHHHHHHHh
Q psy13774         84 DQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        84 d~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      ...+.+++++.++...+++..+
T Consensus       207 ~~~i~l~~l~~~e~~~ll~~~~  228 (412)
T 1w5s_A          207 GFKLHLPAYKSRELYTILEQRA  228 (412)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHH
T ss_pred             CCeeeeCCCCHHHHHHHHHHHH
Confidence            6669999999998887776543

>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=97.51  E-value=0.00051  Score=49.05  Aligned_cols=44  Identities=16%  Similarity=0.138  Sum_probs=39.2

Q ss_pred             CEEEEEecCCCCCCCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         60 NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        60 ~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      ++.++++|+.+..+++.+++  ||...+.+++|+.++...+++...
T Consensus       150 ~~~li~at~~~~~Ls~~l~s--R~~l~~~Ld~~~~~~l~~iL~~~~  193 (334)
T 1in4_A          150 PFTLVGATTRSGLLSSPLRS--RFGIILELDFYTVKELKEIIKRAA  193 (334)
T ss_dssp             CCEEEEEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             CeEEEEecCCcccCCHHHHH--hcCceeeCCCCCHHHHHHHHHHHH
Confidence            46788899999999999999  999899999999999988877654

>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=97.32  E-value=0.0002  Score=49.20  Aligned_cols=67  Identities=24%  Similarity=0.215  Sum_probs=43.0

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC---------CCCCEEEEEecCCC-------CCCCccc
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG---------AKKNVFIIGATNRP-------DIIDPAI   77 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~---------~~~~v~vi~ttn~~-------~~ld~al   77 (110)
                      .+++|||||+|.+..              .....|+..++.-.         ...++.+|+|||.+       ..+++++
T Consensus       100 ~~~~l~lDEi~~l~~--------------~~q~~Ll~~l~~~~~~~~g~~~~~~~~~~iI~atn~~~~~~~~~~~~~~~L  165 (265)
T 2bjv_A          100 DGGTLFLDELATAPM--------------MVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVNEGTFRADL  165 (265)
T ss_dssp             TTSEEEEESGGGSCH--------------HHHHHHHHHHHHCEECCCCC--CEECCCEEEEEESSCHHHHHHHTSSCHHH
T ss_pred             CCcEEEEechHhcCH--------------HHHHHHHHHHHhCCeecCCCcccccCCeEEEEecCcCHHHHHHcCCccHHH
Confidence            468999999998732              23344555555310         12467899999985       2578889


Q ss_pred             cCCCccceEEEecCCCHHHH
Q psy13774         78 LRPGRLDQLIYIPLPDEIWL   97 (110)
Q Consensus        78 ~r~grfd~~i~~~~P~~~~R   97 (110)
                      ..  ||+. +.+.+|+..+|
T Consensus       166 ~~--Rl~~-~~i~lp~L~~R  182 (265)
T 2bjv_A          166 LD--ALAF-DVVQLPPLRER  182 (265)
T ss_dssp             HH--HHCS-EEEECCCGGGC
T ss_pred             HH--hhcC-cEEeCCChhhh
Confidence            88  9864 45555555444

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.31  E-value=0.00016  Score=51.19  Aligned_cols=66  Identities=23%  Similarity=0.321  Sum_probs=41.4

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC---------CCCCEEEEEecCCC-------CCCCcccc
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG---------AKKNVFIIGATNRP-------DIIDPAIL   78 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~---------~~~~v~vi~ttn~~-------~~ld~al~   78 (110)
                      +++|||||+|.+..              .....|+..++...         ...++.+|++||..       ..+++++.
T Consensus        97 ~g~L~LDEi~~l~~--------------~~q~~Ll~~l~~~~~~~~g~~~~~~~~~riI~atn~~l~~~v~~g~fr~~L~  162 (304)
T 1ojl_A           97 GGTLFLDEIGDISP--------------LMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAEEVSAGRFRQDLY  162 (304)
T ss_dssp             TSEEEEESCTTCCH--------------HHHHHHHHHHHSSBCCBTTBCCCCBCCCEEEEEESSCHHHHHHHTSSCHHHH
T ss_pred             CCEEEEeccccCCH--------------HHHHHHHHHHhcCEeeecCCcccccCCeEEEEecCccHHHHHHhCCcHHHHH
Confidence            57999999998832              23344555555421         12368899999986       23555666


Q ss_pred             CCCccceEEEecCCCHHHH
Q psy13774         79 RPGRLDQLIYIPLPDEIWL   97 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~R   97 (110)
                      .  ||+ .+.+.+|...+|
T Consensus       163 ~--Rl~-~~~i~lPpL~eR  178 (304)
T 1ojl_A          163 Y--RLN-VVAIEMPSLRQR  178 (304)
T ss_dssp             H--HHS-SEEEECCCSGGG
T ss_pred             h--hcC-eeEEeccCHHHh
Confidence            6  664 456666665555

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.64  E-value=0.00044  Score=53.27  Aligned_cols=30  Identities=23%  Similarity=0.438  Sum_probs=24.5

Q ss_pred             CCEEEEEecCCC--CCCCccccCCCccc---eEEEec
Q psy13774         59 KNVFIIGATNRP--DIIDPAILRPGRLD---QLIYIP   90 (110)
Q Consensus        59 ~~v~vi~ttn~~--~~ld~al~r~grfd---~~i~~~   90 (110)
                      .++.+|++||..  +.+++++++  ||+   ..++++
T Consensus       251 ~~~~vI~atn~~~~~~l~~~l~~--R~~v~~i~i~l~  285 (604)
T 3k1j_A          251 CDFVLVAAGNLDTVDKMHPALRS--RIRGYGYEVYMR  285 (604)
T ss_dssp             CCCEEEEEECHHHHHHSCHHHHH--HHHHHSEEEECC
T ss_pred             eeEEEEEecCHHHHhhcCHHHHH--HhhccceEeecc
Confidence            368899999987  789999999  997   566654

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=96.59  E-value=0.0014  Score=47.31  Aligned_cols=69  Identities=23%  Similarity=0.371  Sum_probs=39.9

Q ss_pred             HHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccc
Q psy13774          4 ATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAI   77 (110)
Q Consensus         4 ~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al   77 (110)
                      ..+++...+..  +|+||+++.+.........  .+...+.+.+++..|.++....++.+|++|| +...|+++
T Consensus       174 ~~i~~~l~~~~--LLVIDsI~aL~~~~~~~s~--~G~v~~~lrqlL~~L~~~~k~~gvtVIlttn-p~s~deal  242 (331)
T 2vhj_A          174 DDIARAMLQHR--VIVIDSLKNVIGAAGGNTT--SGGISRGAFDLLSDIGAMAASRGCVVIASLN-PTSNDDKI  242 (331)
T ss_dssp             HHHHHHHHHCS--EEEEECCTTTC-------------CCHHHHHHHHHHHHHHHHHTCEEEEECC-CSSCSSSH
T ss_pred             HHHHHHHhhCC--EEEEecccccccccccccc--cchHHHHHHHHHHHHHHHHhhCCCEEEEEeC-CcccchhH
Confidence            34555555544  9999999999654432111  1122345566666666654455678888888 67777775

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.04  E-value=0.013  Score=36.66  Aligned_cols=47  Identities=9%  Similarity=0.145  Sum_probs=29.4

Q ss_pred             HHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC
Q psy13774          5 TGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP   70 (110)
Q Consensus         5 ~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~   70 (110)
                      ..|..|   .+++|||||+|.+..              .....++..+..  ...++.+|++||.+
T Consensus        70 ~~~~~a---~~g~l~ldei~~l~~--------------~~q~~Ll~~l~~--~~~~~~~I~~t~~~  116 (145)
T 3n70_A           70 DFIALA---QGGTLVLSHPEHLTR--------------EQQYHLVQLQSQ--EHRPFRLIGIGDTS  116 (145)
T ss_dssp             HHHHHH---TTSCEEEECGGGSCH--------------HHHHHHHHHHHS--SSCSSCEEEEESSC
T ss_pred             cHHHHc---CCcEEEEcChHHCCH--------------HHHHHHHHHHhh--cCCCEEEEEECCcC
Confidence            345544   458999999998832              122345555543  23456788898874

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=96.03  E-value=0.032  Score=50.44  Aligned_cols=83  Identities=18%  Similarity=0.193  Sum_probs=53.1

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC-------CCCCEEEEEecCCC-----CCCCccccCCCc
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG-------AKKNVFIIGATNRP-----DIIDPAILRPGR   82 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~-------~~~~v~vi~ttn~~-----~~ld~al~r~gr   82 (110)
                      ..|+||||++---....+++     ..-.++.+++..-.-+.       .-.++.+|||+|.|     ..|+++++|  |
T Consensus      1375 ~~VlFiDDiNmp~~D~yGtQ-----~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r--~ 1447 (3245)
T 3vkg_A         1375 WLVVFCDEINLPSTDKYGTQ-----RVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLR--H 1447 (3245)
T ss_dssp             EEEEEETTTTCCCCCTTSCC-----HHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHT--T
T ss_pred             eEEEEecccCCCCccccccc-----cHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHh--h
Confidence            36999999994322222211     22333333333211011       12468899999988     469999999  9


Q ss_pred             cceEEEecCCCHHHHHHHHHHHh
Q psy13774         83 LDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        83 fd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      |.. ++++.|+.++-..|+..++
T Consensus      1448 F~v-i~i~~ps~esL~~If~til 1469 (3245)
T 3vkg_A         1448 API-LLVDFPSTSSLTQIYGTFN 1469 (3245)
T ss_dssp             CCE-EECCCCCHHHHHHHHHHHH
T ss_pred             ceE-EEeCCCCHHHHHHHHHHHH
Confidence            955 9999999999887766544

>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=96.00  E-value=0.17  Score=35.14  Aligned_cols=87  Identities=15%  Similarity=0.038  Sum_probs=49.3

Q ss_pred             HHHHHHHHHhc--CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC---------
Q psy13774          3 IATGASMARAA--APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD---------   71 (110)
Q Consensus         3 l~~~F~~A~~~--~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~---------   71 (110)
                      +..++....+.  .|.+|+|||++.+....+    .   .....+..+.   +..   .++.+|.|++...         
T Consensus       124 ~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~----~---~~~~~l~~~~---~~~---~~~~~i~~g~~~~~l~~~l~~~  190 (357)
T 2fna_A          124 FANLLESFEQASKDNVIIVLDEAQELVKLRG----V---NLLPALAYAY---DNL---KRIKFIMSGSEMGLLYDYLRVE  190 (357)
T ss_dssp             HHHHHHHHHHTCSSCEEEEEETGGGGGGCTT----C---CCHHHHHHHH---HHC---TTEEEEEEESSHHHHHHHTTTT
T ss_pred             HHHHHHHHHhcCCCCeEEEEECHHHhhccCc----h---hHHHHHHHHH---HcC---CCeEEEEEcCchHHHHHHHhcc
Confidence            34455555443  399999999999864210    0   1222333332   221   3566666665432         


Q ss_pred             CCCccccCCCccceEEEecCCCHHHHHHHHHHH
Q psy13774         72 IIDPAILRPGRLDQLIYIPLPDEIWLILSDKFL  104 (110)
Q Consensus        72 ~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~  104 (110)
                      .....+  .||+...+.+++.+.++-..++...
T Consensus       191 ~~~~~l--~~r~~~~i~l~~l~~~e~~~~l~~~  221 (357)
T 2fna_A          191 DPESPL--FGRAFSTVELKPFSREEAIEFLRRG  221 (357)
T ss_dssp             CTTSTT--TTCCCEEEEECCCCHHHHHHHHHHH
T ss_pred             CCCCcc--ccCccceeecCCCCHHHHHHHHHHH
Confidence            111122  2477788999999988877666543

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=95.99  E-value=0.0094  Score=51.83  Aligned_cols=66  Identities=20%  Similarity=0.289  Sum_probs=46.9

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccC---CCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecC
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSR---GGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATN   68 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r---~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn   68 (110)
                      ++.++..++..+|++|+||+++.+.+..   ............+++++++.+|.++....++++|.+-.
T Consensus      1494 l~~~~~lvr~~~~~lVVIDsi~al~p~~~~~g~~~~~~~~~~~R~lsqlL~~L~~~~~~~~v~VI~tNq 1562 (2050)
T 3cmu_A         1494 LEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQ 1562 (2050)
T ss_dssp             HHHHHHHHHHTCCSEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHTTTCEEEEEEC
T ss_pred             HHHHHHHHhcCCCCEEEEcChhHhcccccccccccccccchHHHHHHHHHHHHHHHHHhCCcEEEEEcc
Confidence            4567788889999999999999999753   11111111124678899999998876677777766643

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=95.87  E-value=0.0026  Score=46.57  Aligned_cols=72  Identities=17%  Similarity=0.210  Sum_probs=47.2

Q ss_pred             HHhcCCeEEEEcccccccc-cCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEE
Q psy13774         10 ARAAAPCVLFFDELDSIAK-SRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIY   88 (110)
Q Consensus        10 A~~~~P~ii~iDeiD~l~~-~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~   88 (110)
                      ....+.+++++||++.+.. .++-...    ........+...+++     .+.|+++||+++.+ +++.+||+++..++
T Consensus       212 g~~~q~~~~l~dd~~~~~~~~r~l~~~----~~~~~~~~l~~~ldG-----~v~v~~~tn~~~~l-~alf~pg~ld~~~~  281 (377)
T 1svm_A          212 GVAIDQFLVVFEDVKGTGGESRDLPSG----QGINNLDNLRDYLDG-----SVKVNLEKKHLNKR-TQIFPPGIVTMNEY  281 (377)
T ss_dssp             GGGTTCSCEEETTCCCSTTTTTTCCCC----SHHHHHHTTHHHHHC-----SSCEEECCSSSCCE-EECCCCEEEEECSC
T ss_pred             HHhcchhHHHHHHHHHHHHHHhhcccc----CcchHHHHHHHHhcC-----CCeEeeccCchhhH-HHhhcCcccChhHH
Confidence            3344567889999998875 3321111    111122445555655     24678889999999 79999999998877


Q ss_pred             ecC
Q psy13774         89 IPL   91 (110)
Q Consensus        89 ~~~   91 (110)
                      ...
T Consensus       282 ~l~  284 (377)
T 1svm_A          282 SVP  284 (377)
T ss_dssp             CCC
T ss_pred             hhc
Confidence            754

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=95.74  E-value=0.25  Score=34.28  Aligned_cols=79  Identities=14%  Similarity=0.097  Sum_probs=44.8

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC---------CCCccccCCCccc
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD---------IIDPAILRPGRLD   84 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~---------~ld~al~r~grfd   84 (110)
                      .|.+|+|||++.+.....    .   ....+...+...++..   .++.+|.|++...         .....+.  ||+.
T Consensus       128 ~~~vlvlDe~~~~~~~~~----~---~~~~~~~~L~~~~~~~---~~~~~il~g~~~~~l~~~l~~~~~~~~l~--~~~~  195 (350)
T 2qen_A          128 GEFIVAFDEAQYLRFYGS----R---GGKELLALFAYAYDSL---PNLKIILTGSEVGLLHDFLKITDYESPLY--GRIA  195 (350)
T ss_dssp             SCEEEEEETGGGGGGBTT----T---TTHHHHHHHHHHHHHC---TTEEEEEEESSHHHHHHHHCTTCTTSTTT--TCCC
T ss_pred             CCEEEEEeCHHHHhccCc----c---chhhHHHHHHHHHHhc---CCeEEEEECCcHHHHHHHHhhcCCCCccc--cCcc
Confidence            499999999999864210    0   1123333333334432   3566666654421         1111222  4777


Q ss_pred             eEEEecCCCHHHHHHHHHHH
Q psy13774         85 QLIYIPLPDEIWLILSDKFL  104 (110)
Q Consensus        85 ~~i~~~~P~~~~R~~~~~~~  104 (110)
                      ..+++++.+.++-..++...
T Consensus       196 ~~i~l~pl~~~e~~~~l~~~  215 (350)
T 2qen_A          196 GEVLVKPFDKDTSVEFLKRG  215 (350)
T ss_dssp             EEEECCCCCHHHHHHHHHHH
T ss_pred             ceeeCCCCCHHHHHHHHHHH
Confidence            78999999988766665543

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=95.69  E-value=0.011  Score=36.86  Aligned_cols=42  Identities=12%  Similarity=0.207  Sum_probs=26.6

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP   70 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~   70 (110)
                      .+++|||||+|.+...              ....++..++.- ...++.+|+|||.+
T Consensus        75 ~~~~l~lDei~~l~~~--------------~q~~Ll~~l~~~-~~~~~~iI~~tn~~  116 (143)
T 3co5_A           75 EGGVLYVGDIAQYSRN--------------IQTGITFIIGKA-ERCRVRVIASCSYA  116 (143)
T ss_dssp             TTSEEEEEECTTCCHH--------------HHHHHHHHHHHH-TTTTCEEEEEEEEC
T ss_pred             CCCeEEEeChHHCCHH--------------HHHHHHHHHHhC-CCCCEEEEEecCCC
Confidence            3689999999988321              223344555442 24567788888865

>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=95.54  E-value=0.017  Score=43.94  Aligned_cols=65  Identities=17%  Similarity=0.220  Sum_probs=41.3

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhc-------CCCCCCEEEEEecCCCC-----------CCCccc
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDG-------MGAKKNVFIIGATNRPD-----------IIDPAI   77 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~-------~~~~~~v~vi~ttn~~~-----------~ld~al   77 (110)
                      .++|+||++.+-              ....+.|+.-|++       ..-..++.||||+|...           .|++++
T Consensus       302 Gvl~lDEIn~~~--------------~~~qsaLlEaMEe~~VtI~G~~lparf~VIAA~NP~~~yd~~~s~~~~~Lp~al  367 (506)
T 3f8t_A          302 GILAVDHLEGAP--------------EPHRWALMEAMDKGTVTVDGIALNARCAVLAAINPGEQWPSDPPIARIDLDQDF  367 (506)
T ss_dssp             SEEEEECCTTCC--------------HHHHHHHHHHHHHSEEEETTEEEECCCEEEEEECCCC--CCSCGGGGCCSCHHH
T ss_pred             CeeehHhhhhCC--------------HHHHHHHHHHHhCCcEEECCEEcCCCeEEEEEeCcccccCCCCCccccCCChHH
Confidence            699999999762              2344445555542       11135789999999875           889999


Q ss_pred             cCCCccceEEE-ecCCCHHH
Q psy13774         78 LRPGRLDQLIY-IPLPDEIW   96 (110)
Q Consensus        78 ~r~grfd~~i~-~~~P~~~~   96 (110)
                      +.  |||..+. ++.|+.+.
T Consensus       368 LD--RFDLi~i~~d~pd~e~  385 (506)
T 3f8t_A          368 LS--HFDLIAFLGVDPRPGE  385 (506)
T ss_dssp             HT--TCSEEEETTC------
T ss_pred             hh--heeeEEEecCCCChhH
Confidence            99  9997554 46666443

>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=95.47  E-value=0.1  Score=37.71  Aligned_cols=83  Identities=13%  Similarity=0.020  Sum_probs=54.9

Q ss_pred             HHHHHHh--cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCc--------
Q psy13774          6 GASMARA--AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDP--------   75 (110)
Q Consensus         6 ~F~~A~~--~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~--------   75 (110)
                      +|..+..  ..|.++++||+..++....       ......+..++....    +.++.++.+|..+.++..        
T Consensus       252 i~~~~~~~~~~~~~i~iDEa~~~~~~~~-------~~~~~~l~~~~~~~R----k~g~~~~~~tQ~~~d~~~~~~~~~~~  320 (392)
T 4ag6_A          252 AWNILERDRRERTVLVVDEAWMLVDPQT-------PQAIAFLRDTSKRIR----KYNGSLIVISQNVIDFLAPEVQRYGQ  320 (392)
T ss_dssp             HHHHHHHSCCTTCEEEETTGGGGCCTTC-------THHHHHHHHHHHHGG----GGTCEEEEEESCGGGGGSTTTHHHHH
T ss_pred             HHHHHHhCCCccEEEEEecHHHHhCcCc-------hHHHHHHHHHHHHhh----hhCeEEEEEcCCHHHhhChhhHHHHH
Confidence            4455443  4589999999999975321       134445555555554    345588899999988874        


Q ss_pred             cccCCCccceEEEecCCCHHHHHHHHH
Q psy13774         76 AILRPGRLDQLIYIPLPDEIWLILSDK  102 (110)
Q Consensus        76 al~r~grfd~~i~~~~P~~~~R~~~~~  102 (110)
                      +++.  ..+.+|.++.++. .+..+.+
T Consensus       321 ~il~--n~~~~i~l~~~~~-~~~~~~~  344 (392)
T 4ag6_A          321 ALLD--NPTYKLLLAQGEK-DLEAITT  344 (392)
T ss_dssp             HHHH--SCSEEEECSCCHH-HHHHHHH
T ss_pred             HHHH--hhhhhheeCCChh-hHHHHHH
Confidence            5666  7788999988754 4444443

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=94.47  E-value=0.015  Score=36.80  Aligned_cols=61  Identities=8%  Similarity=0.230  Sum_probs=32.2

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCC-EEEEEecC-CCCCCC--ccccCCCccceEEE
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKN-VFIIGATN-RPDIID--PAILRPGRLDQLIY   88 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~-v~vi~ttn-~~~~ld--~al~r~grfd~~i~   88 (110)
                      ..|.+++|||++.+...           ....+-.++..+.   .... ++++ ||| .|..+.  +.+.+  |+..-..
T Consensus        82 ~~~~lLilDE~~~~~~~-----------~~~~l~~li~~~~---~~g~~~iii-ts~~~p~~l~~~~~L~S--Rl~~g~~  144 (149)
T 2kjq_A           82 FEAEYLAVDQVEKLGNE-----------EQALLFSIFNRFR---NSGKGFLLL-GSEYTPQQLVIREDLRT--RMAYCLV  144 (149)
T ss_dssp             GGCSEEEEESTTCCCSH-----------HHHHHHHHHHHHH---HHTCCEEEE-EESSCTTTSSCCHHHHH--HGGGSEE
T ss_pred             hCCCEEEEeCccccChH-----------HHHHHHHHHHHHH---HcCCcEEEE-ECCCCHHHccccHHHHH--HHhcCee
Confidence            35889999999865211           1223333333332   2223 3444 555 555443  77777  7765444


Q ss_pred             ec
Q psy13774         89 IP   90 (110)
Q Consensus        89 ~~   90 (110)
                      +.
T Consensus       145 ~~  146 (149)
T 2kjq_A          145 YE  146 (149)
T ss_dssp             CC
T ss_pred             EE
Confidence            43

>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=94.23  E-value=0.13  Score=39.65  Aligned_cols=73  Identities=18%  Similarity=0.238  Sum_probs=53.0

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC--CCCccccCCCccceEEEecCCC
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD--IIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~--~ld~al~r~grfd~~i~~~~P~   93 (110)
                      -+|+|||+..++..-.          + -+...+..+-.....-++.+|.+|.+|.  .|+..++.  -|..+|-+.+.+
T Consensus       345 ivvVIDE~~~L~~~~~----------~-~~~~~L~~Iar~GRa~GIhLIlaTQRPs~d~I~~~Ira--n~~~RI~lrv~s  411 (574)
T 2iut_A          345 IVVVVDEFADMMMIVG----------K-KVEELIARIAQKARAAGIHLILATQRPSVDVITGLIKA--NIPTRIAFQVSS  411 (574)
T ss_dssp             EEEEESCCTTHHHHTC----------H-HHHHHHHHHHHHCTTTTEEEEEEESCCCTTTSCHHHHH--TCCEEEEECCSC
T ss_pred             EEEEEeCHHHHhhhhh----------H-HHHHHHHHHHHHHhhCCeEEEEEecCcccccccHHHHh--hhccEEEEEcCC
Confidence            6999999998875321          1 1223333333333567899999999998  89988888  899999999998


Q ss_pred             HHHHHHHH
Q psy13774         94 EIWLILSD  101 (110)
Q Consensus        94 ~~~R~~~~  101 (110)
                      ...-..++
T Consensus       412 ~~Dsr~IL  419 (574)
T 2iut_A          412 KIDSRTIL  419 (574)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhc
Confidence            77765554

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=93.78  E-value=0.22  Score=35.18  Aligned_cols=84  Identities=15%  Similarity=0.046  Sum_probs=51.6

Q ss_pred             HHHHHHHHHh----cCCeEEEEccccc-ccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC------C
Q psy13774          3 IATGASMARA----AAPCVLFFDELDS-IAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP------D   71 (110)
Q Consensus         3 l~~~F~~A~~----~~P~ii~iDeiD~-l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~------~   71 (110)
                      ++++.+.+..    ...-||+|||+|. +.              ....+.|+..+...  ...+++|.+|+.+      .
T Consensus        61 ~~~l~~~~~~~plf~~~kvvii~~~~~kl~--------------~~~~~aLl~~le~p--~~~~~~il~~~~~~~~~~~~  124 (343)
T 1jr3_D           61 WNAIFSLCQAMSLFASRQTLLLLLPENGPN--------------AAINEQLLTLTGLL--HDDLLLIVRGNKLSKAQENA  124 (343)
T ss_dssp             HHHHHHHHHHHHHCCSCEEEEEECCSSCCC--------------TTHHHHHHHHHTTC--BTTEEEEEEESCCCTTTTTS
T ss_pred             HHHHHHHhcCcCCccCCeEEEEECCCCCCC--------------hHHHHHHHHHHhcC--CCCeEEEEEcCCCChhhHhh
Confidence            4455555542    2357999999986 41              11345567777653  3445555555543      3


Q ss_pred             CCCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         72 IIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        72 ~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      .+.+++.+  |. ..+.+.+|+..+...+++..+
T Consensus       125 k~~~~i~s--r~-~~~~~~~l~~~~l~~~l~~~~  155 (343)
T 1jr3_D          125 AWFTALAN--RS-VQVTCQTPEQAQLPRWVAARA  155 (343)
T ss_dssp             HHHHHHTT--TC-EEEEECCCCTTHHHHHHHHHH
T ss_pred             HHHHHHHh--Cc-eEEEeeCCCHHHHHHHHHHHH
Confidence            46677787  65 578998888777766655543

>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=92.94  E-value=0.55  Score=42.22  Aligned_cols=84  Identities=6%  Similarity=-0.024  Sum_probs=54.2

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHH----HHhhhc-----------CCCCCCEEEEEec
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQI----LTEMDG-----------MGAKKNVFIIGAT   67 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~l----l~~ld~-----------~~~~~~v~vi~tt   67 (110)
                      +..+|.-|... ++++++||++.+-.           ..-+.+++.    ...+..           +.-..+..+++|.
T Consensus       687 lg~~~~g~~~~-Gaw~~~DE~nr~~~-----------evLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~  754 (2695)
T 4akg_A          687 LSRLLVGITQI-GAWGCFDEFNRLDE-----------KVLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITL  754 (2695)
T ss_dssp             HHHHHHHHHHH-TCEEEEETTTSSCH-----------HHHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEE
T ss_pred             hhHHHHHHHhc-CCEeeehhhhhcCh-----------HHHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEe
Confidence            34567666554 58999999996522           112222221    222211           1113456788888


Q ss_pred             C----CCCCCCccccCCCccceEEEecCCCHHHHHHHH
Q psy13774         68 N----RPDIIDPAILRPGRLDQLIYIPLPDEIWLILSD  101 (110)
Q Consensus        68 n----~~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~  101 (110)
                      |    ....+++++++  || +.|.+..||.+...++.
T Consensus       755 NPgy~g~~eLP~~Lk~--~F-r~v~m~~Pd~~~i~ei~  789 (2695)
T 4akg_A          755 NPGYNGRSELPENLKK--SF-REFSMKSPQSGTIAEMI  789 (2695)
T ss_dssp             CCCSSSSCCCCHHHHT--TE-EEEECCCCCHHHHHHHH
T ss_pred             CCCccCcccccHHHHh--he-EEEEeeCCCHHHHHHHH
Confidence            8    56789999999  99 78999999998876653

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=90.12  E-value=0.42  Score=36.36  Aligned_cols=75  Identities=16%  Similarity=0.272  Sum_probs=52.3

Q ss_pred             CCe-EEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC--CCCccccCCCccceEEEec
Q psy13774         14 APC-VLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD--IIDPAILRPGRLDQLIYIP   90 (110)
Q Consensus        14 ~P~-ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~--~ld~al~r~grfd~~i~~~   90 (110)
                      -|- +|+|||...++...           ..-+..++..+-......++.+|.+|.+|.  .++..++.  -|..+|-+.
T Consensus       296 lP~ivlvIDE~~~ll~~~-----------~~~~~~~l~~Lar~gRa~GI~LIlaTQrp~~dvl~~~i~~--n~~~RI~lr  362 (512)
T 2ius_A          296 EPYIVVLVDEFADLMMTV-----------GKKVEELIARLAQKARAAGIHLVLATQRPSVDVITGLIKA--NIPTRIAFT  362 (512)
T ss_dssp             CCEEEEEEETHHHHHHHH-----------HHHHHHHHHHHHHHCGGGTEEEEEEESCCCTTTSCHHHHH--HCCEEEEEC
T ss_pred             CCcEEEEEeCHHHHHhhh-----------hHHHHHHHHHHHHHhhhCCcEEEEEecCCccccccHHHHh--hcCCeEEEE
Confidence            464 89999998876421           111223334343333445889999999997  68888887  899999999


Q ss_pred             CCCHHHHHHHH
Q psy13774         91 LPDEIWLILSD  101 (110)
Q Consensus        91 ~P~~~~R~~~~  101 (110)
                      +.+..+...++
T Consensus       363 v~s~~dsr~il  373 (512)
T 2ius_A          363 VSSKIDSRTIL  373 (512)
T ss_dssp             CSSHHHHHHHH
T ss_pred             cCCHHHHHHhc
Confidence            99987766654

>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=89.81  E-value=0.52  Score=34.00  Aligned_cols=66  Identities=24%  Similarity=0.443  Sum_probs=35.7

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhc-----CCCC----CCEEEEEecCCCCCCCccccCCCccce
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDG-----MGAK----KNVFIIGATNRPDIIDPAILRPGRLDQ   85 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~-----~~~~----~~v~vi~ttn~~~~ld~al~r~grfd~   85 (110)
                      ...+|+|||+.+-              ...-..|+..++.     +.+.    -++-+|++||.  ++. .....|+|..
T Consensus       223 ~gtlfldei~~l~--------------~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~--~l~-~~v~~g~fr~  285 (368)
T 3dzd_A          223 QGTLFLDEVGELD--------------QRVQAKLLRVLETGSFTRLGGNQKIEVDIRVISATNK--NLE-EEIKKGNFRE  285 (368)
T ss_dssp             TSEEEEETGGGSC--------------HHHHHHHHHHHHHSEECCBTCCCBEECCCEEEEEESS--CHH-HHHHTTSSCH
T ss_pred             CCeEEecChhhCC--------------HHHHHHHHHHHHhCCcccCCCCcceeeeeEEEEecCC--CHH-HHHHcCCccH
Confidence            3689999999882              1223334444432     1111    25668899984  222 3344466643


Q ss_pred             -------EEEecCCCHHHH
Q psy13774         86 -------LIYIPLPDEIWL   97 (110)
Q Consensus        86 -------~i~~~~P~~~~R   97 (110)
                             .+.+.+|.-.+|
T Consensus       286 dL~~rl~~~~i~lPpLreR  304 (368)
T 3dzd_A          286 DLYYRLSVFQIYLPPLRER  304 (368)
T ss_dssp             HHHHHHTSEEEECCCGGGS
T ss_pred             HHHHHhCCeEEeCCChhhc
Confidence                   344555555554

>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=89.73  E-value=0.59  Score=29.63  Aligned_cols=46  Identities=24%  Similarity=0.081  Sum_probs=25.4

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD   71 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~   71 (110)
                      ..|.+++|||++....         +......+..++....   . .+..+|.|||.+.
T Consensus        99 ~~~~llilDE~~~~~~---------~~~~~~~l~~ll~~~~---~-~~~~ii~tsn~~~  144 (180)
T 3ec2_A           99 LNSPVLVLDDLGSERL---------SDWQRELISYIITYRY---N-NLKSTIITTNYSL  144 (180)
T ss_dssp             HTCSEEEEETCSSSCC---------CHHHHHHHHHHHHHHH---H-TTCEEEEECCCCS
T ss_pred             cCCCEEEEeCCCCCcC---------CHHHHHHHHHHHHHHH---H-cCCCEEEEcCCCh
Confidence            3689999999985421         1123334444443332   1 2345667777654

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=89.73  E-value=0.54  Score=41.32  Aligned_cols=73  Identities=16%  Similarity=0.155  Sum_probs=48.3

Q ss_pred             cHHHHHHHHHh----cCCeEEEEcccccccc-cCCCC--CCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCC
Q psy13774          2 RIATGASMARA----AAPCVLFFDELDSIAK-SRGGS--VGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIID   74 (110)
Q Consensus         2 ~l~~~F~~A~~----~~P~ii~iDeiD~l~~-~r~~~--~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld   74 (110)
                      .+..+++.+++    ..|++|+||.+..+.. .....  ......-..+.+++++..|..+....++.||++..-....+
T Consensus       794 ~i~~i~~~~r~l~~~~~~~LVIIDsLq~i~~~~~~~~~~Gs~~q~La~Reis~ilr~Lk~lAke~~v~VI~l~Qv~r~~e  873 (2050)
T 3cmu_A          794 TGEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIG  873 (2050)
T ss_dssp             SHHHHHHHHHHHHHHTCCSEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHTTTCEEEEEECCEECTT
T ss_pred             CHHHHHHHHHHHhhccCCCEEEEcchhhhcccccccCCCCchhhHHHHHHHHHHHHHHHHHHHHhCCEEEEeccccccch
Confidence            35666776665    7899999999999986 32111  11111233566888888888887777888888766554444

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=89.27  E-value=0.65  Score=30.55  Aligned_cols=67  Identities=10%  Similarity=0.127  Sum_probs=30.6

Q ss_pred             HHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCC
Q psy13774          6 GASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDII   73 (110)
Q Consensus         6 ~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~l   73 (110)
                      +.+.+....|.+|+|||+-.+.....+...+ .....+....++..+..+....++.||.+++.....
T Consensus       111 ~~~~~~~~~~~lliiD~~~~~~~~~~~~~~~-~~~r~~~~~~~~~~l~~~~~~~~~tvi~~~h~~~~~  177 (243)
T 1n0w_A          111 ASAMMVESRYALLIVDSATALYRTDYSGRGE-LSARQMHLARFLRMLLRLADEFGVAVVITNQVVAQV  177 (243)
T ss_dssp             HHHHHHHSCEEEEEEETSSGGGC-------C-HHHHHHHHHHHHHHHHHHHHHHCCEEEEEC------
T ss_pred             HHHHHhcCCceEEEEeCchHHHHHHhcCCcc-HHHHHHHHHHHHHHHHHHHHHcCCEEEEEeeeeecC
Confidence            4455566789999999999887543111100 001111244444444433333355666666644443

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=85.46  E-value=0.52  Score=30.54  Aligned_cols=16  Identities=6%  Similarity=0.177  Sum_probs=13.4

Q ss_pred             CCeEEEEccccccccc
Q psy13774         14 APCVLFFDELDSIAKS   29 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~   29 (110)
                      .|.+|+|||+..+...
T Consensus       105 ~~~lliiD~~~~~l~~  120 (220)
T 2cvh_A          105 NFALVVVDSITAHYRA  120 (220)
T ss_dssp             TEEEEEEECCCCCTTG
T ss_pred             CCCEEEEcCcHHHhhh
Confidence            4999999999988643

>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=85.33  E-value=2.1  Score=27.49  Aligned_cols=14  Identities=21%  Similarity=0.408  Sum_probs=12.3

Q ss_pred             HhcCCeEEEEcccc
Q psy13774         11 RAAAPCVLFFDELD   24 (110)
Q Consensus        11 ~~~~P~ii~iDeiD   24 (110)
                      -...|.++++||++
T Consensus        96 l~~~p~llilDEig  109 (178)
T 1ye8_A           96 KKDRRKVIIIDEIG  109 (178)
T ss_dssp             HHCTTCEEEECCCS
T ss_pred             cccCCCEEEEeCCC
Confidence            57889999999976

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens}

Probab=84.94  E-value=0.66  Score=26.57  Aligned_cols=20  Identities=15%  Similarity=-0.034  Sum_probs=17.1

Q ss_pred             EecCCCHHHHHHHHHHHhhc
Q psy13774         88 YIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        88 ~~~~P~~~~R~~~~~~~~~~  107 (110)
                      +-.+||.++|..||+.++++
T Consensus         7 ~~~~Pd~~~R~~IL~~~l~~   26 (86)
T 2krk_A            7 HHSHPNEEARLDILKIHSRK   26 (86)
T ss_dssp             CCCCCCHHHHHHHHHHHTTT
T ss_pred             CCCCcCHHHHHHHHHHHHcC
Confidence            34789999999999998864

>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial conjugation, F1-ATPase-like quaternary structure, ring helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB: 1e9s_A 1gki_A* 1gl7_A* 1gl6_A*

Probab=84.83  E-value=2.5  Score=30.67  Aligned_cols=72  Identities=18%  Similarity=0.148  Sum_probs=51.5

Q ss_pred             cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCC--------ccccCCCccc
Q psy13774         13 AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIID--------PAILRPGRLD   84 (110)
Q Consensus        13 ~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld--------~al~r~grfd   84 (110)
                      ..|+++++||+..+..-.             .+..++...    ...++.++..|..+..+.        .+++.  -++
T Consensus       278 ~~~~~~~lDE~~~l~~~~-------------~l~~~~~~~----R~~g~~~~~~~Qs~~ql~~~yG~~~a~~i~~--n~~  338 (437)
T 1e9r_A          278 KRRLWLFIDELASLEKLA-------------SLADALTKG----RKAGLRVVAGLQSTSQLDDVYGVKEAQTLRA--SFR  338 (437)
T ss_dssp             TCCEEEEESCGGGSCBCS-------------SHHHHHHHC----TTTTEEEEEEESCHHHHHHHHCHHHHHHHHT--TCC
T ss_pred             CccEEEEEEcccccccch-------------hHHHHHHHH----hccCCEEEEEecCHHHHHHHHCHHHHHHHHh--ccC
Confidence            357999999999886421             122233322    456889999999998886        46776  888


Q ss_pred             eEEEecCC--CHHHHHHHHHH
Q psy13774         85 QLIYIPLP--DEIWLILSDKF  103 (110)
Q Consensus        85 ~~i~~~~P--~~~~R~~~~~~  103 (110)
                      ..|.++..  +.+..+.+-+.
T Consensus       339 ~~i~~~~~~~d~~ta~~~s~~  359 (437)
T 1e9r_A          339 SLVVLGGSRTDPKTNEDMSLS  359 (437)
T ss_dssp             EEEEEECCTTCHHHHHHHHHH
T ss_pred             cEEEEeCCCCCHHHHHHHHHH
Confidence            99999998  88877766543

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=84.26  E-value=1.9  Score=31.20  Aligned_cols=60  Identities=20%  Similarity=0.233  Sum_probs=34.0

Q ss_pred             HHhcCCeEEEEcccccccccCCCCC--CCC-CCchHHHHHHHHHhhhcCCCCCCEEEEEecCC
Q psy13774         10 ARAAAPCVLFFDELDSIAKSRGGSV--GDG-GGAADRVINQILTEMDGMGAKKNVFIIGATNR   69 (110)
Q Consensus        10 A~~~~P~ii~iDeiD~l~~~r~~~~--~~~-~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~   69 (110)
                      .+...+.+|+||.+..+.+...-..  .+. .....+.+++++..+..+....++.||++...
T Consensus       148 ~~~~~~~lVVIDsl~~l~~~~e~~g~~gd~~~~~~~r~~~~~lr~L~~~a~~~~~~VI~~nq~  210 (366)
T 1xp8_A          148 VRSGAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALRKLTAILSKTGTAAIFINQV  210 (366)
T ss_dssp             HTTTCCSEEEEECTTTCCCSTTC--------CCHHHHHHHHHHHHHHHHHTTTCCEEEEEEEC
T ss_pred             HhcCCCCEEEEeChHHhccccccccccccchhhHHHHHHHHHHHHHHHHHHHcCCEEEEEEec
Confidence            3456799999999999985321111  010 01223556677777765545556666665443

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=82.47  E-value=6.7  Score=36.24  Aligned_cols=40  Identities=10%  Similarity=0.074  Sum_probs=33.2

Q ss_pred             CCEEEEEecC----CCCCCCccccCCCccceEEEecCCCHHHHHHHH
Q psy13774         59 KNVFIIGATN----RPDIIDPAILRPGRLDQLIYIPLPDEIWLILSD  101 (110)
Q Consensus        59 ~~v~vi~ttn----~~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~  101 (110)
                      ...-+++|.|    ....++++++.  || +.|.+..||.+.-.++.
T Consensus       706 ~~~~vfiTmNpgY~gr~eLP~nLk~--lF-r~v~m~~Pd~~~i~ei~  749 (3245)
T 3vkg_A          706 QDMGIFVTMNPGYAGRSNLPDNLKK--LF-RSMAMIKPDREMIAQVM  749 (3245)
T ss_dssp             TTCEEEECBCCCGGGCCCSCHHHHT--TE-EEEECCSCCHHHHHHHH
T ss_pred             CCeEEEEEeCCCccCcccChHHHHh--hc-EEEEEeCCCHHHHHHHH
Confidence            4577888888    45799999999  99 77999999998877664

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=82.34  E-value=0.59  Score=33.57  Aligned_cols=20  Identities=15%  Similarity=0.383  Sum_probs=16.5

Q ss_pred             HHHhcCCeEEEEcccccccc
Q psy13774          9 MARAAAPCVLFFDELDSIAK   28 (110)
Q Consensus         9 ~A~~~~P~ii~iDeiD~l~~   28 (110)
                      .++...|.+|+||++.++..
T Consensus       134 l~~~~~~~lIVIDsl~~l~~  153 (349)
T 2zr9_A          134 LVRSGALDIIVIDSVAALVP  153 (349)
T ss_dssp             HHTTTCCSEEEEECGGGCCC
T ss_pred             HHhcCCCCEEEEcChHhhcc
Confidence            44467799999999999984

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=80.54  E-value=3.7  Score=27.90  Aligned_cols=56  Identities=20%  Similarity=0.156  Sum_probs=32.7

Q ss_pred             HHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCC
Q psy13774          5 TGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIID   74 (110)
Q Consensus         5 ~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld   74 (110)
                      -.+..|-...|.++++||-=+=+          +......+..++..+.   .. +..||.+|++.+.+.
T Consensus       162 v~iAraL~~~p~lllLDEPts~L----------D~~~~~~l~~~l~~l~---~~-g~tvi~vtHd~~~~~  217 (257)
T 1g6h_A          162 VEIGRALMTNPKMIVMDEPIAGV----------APGLAHDIFNHVLELK---AK-GITFLIIEHRLDIVL  217 (257)
T ss_dssp             HHHHHHHHTCCSEEEEESTTTTC----------CHHHHHHHHHHHHHHH---HT-TCEEEEECSCCSTTG
T ss_pred             HHHHHHHHcCCCEEEEeCCccCC----------CHHHHHHHHHHHHHHH---HC-CCEEEEEecCHHHHH
Confidence            45667778899999999944211          1123334444444442   22 446677888776553

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=80.48  E-value=1.7  Score=28.04  Aligned_cols=54  Identities=11%  Similarity=0.077  Sum_probs=29.3

Q ss_pred             HHHHHHhcCCe--EEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC
Q psy13774          6 GASMARAAAPC--VLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP   70 (110)
Q Consensus         6 ~F~~A~~~~P~--ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~   70 (110)
                      +.+.+..+.|.  +|++||...+....       ......++..+....    ...++.++.+|+..
T Consensus       113 ~~~~~~~~~~~~~llilDe~~~~~~~d-------~~~~~~~~~~l~~~~----~~~~~~vi~~~h~~  168 (235)
T 2w0m_A          113 VIEAKQKLGYGKARLVIDSVSALFLDK-------PAMARKISYYLKRVL----NKWNFTIYATSQYA  168 (235)
T ss_dssp             HHHHHHHHCSSCEEEEEETGGGGSSSC-------GGGHHHHHHHHHHHH----HHTTEEEEEEEC--
T ss_pred             HHHHHHhhCCCceEEEEECchHhhcCC-------HHHHHHHHHHHHHHH----HhCCCeEEEEeccC
Confidence            44445567898  99999999875321       012233333333322    23456777777765

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=80.33  E-value=3.7  Score=28.09  Aligned_cols=57  Identities=11%  Similarity=0.052  Sum_probs=33.2

Q ss_pred             HHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCC
Q psy13774          4 ATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIID   74 (110)
Q Consensus         4 ~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld   74 (110)
                      +-.+..|-...|.++++||--+=+          +......+..++..+.   .. +..+|.+|++++.+.
T Consensus       146 Rv~lAraL~~~p~lllLDEPts~L----------D~~~~~~l~~~l~~l~---~~-g~tii~vtHd~~~~~  202 (266)
T 2yz2_A          146 RVAIASVIVHEPDILILDEPLVGL----------DREGKTDLLRIVEKWK---TL-GKTVILISHDIETVI  202 (266)
T ss_dssp             HHHHHHHHTTCCSEEEEESTTTTC----------CHHHHHHHHHHHHHHH---HT-TCEEEEECSCCTTTG
T ss_pred             HHHHHHHHHcCCCEEEEcCccccC----------CHHHHHHHHHHHHHHH---Hc-CCEEEEEeCCHHHHH
Confidence            345677778999999999955221          1123333334444432   22 446677788776543

---

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	110
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	5e-38
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	6e-37
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	2e-28
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	4e-24
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	3e-13
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	6e-09
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	9e-09
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	3e-08
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	5e-07

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]} Length = 247

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

 Score =  126 bits (317), Expect = 5e-38
 Identities = 40/87 (45%), Positives = 57/87 (65%)

Query: 8   SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGAT 67
             A+  APC++F DE+D++ + RG  VG G    ++ +NQ+L EMDG      + ++ AT
Sbjct: 95  ETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAAT 154

Query: 68  NRPDIIDPAILRPGRLDQLIYIPLPDE 94
           NRPDI+DPA+LRPGR D+ I I  PD 
Sbjct: 155 NRPDILDPALLRPGRFDRQIAIDAPDV 181

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]} Length = 256

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

 Score =  123 bits (310), Expect = 6e-37
 Identities = 39/87 (44%), Positives = 60/87 (68%)

Query: 8   SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGAT 67
             A+ AAPC++F DE+D++ + RG  +G G    ++ +NQ+L EMDG    + + +I AT
Sbjct: 98  EQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAAT 157

Query: 68  NRPDIIDPAILRPGRLDQLIYIPLPDE 94
           NRPD++DPA+LRPGR D+ + + LPD 
Sbjct: 158 NRPDVLDPALLRPGRFDRQVVVGLPDV 184

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 265

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  101 bits (253), Expect = 2e-28
 Identities = 77/84 (91%), Positives = 80/84 (95%)

Query: 9   MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATN 68
            AR AAPCVLFFDELDSIAK+RGG++GDGGGAADRVINQILTEMDGM  KKNVFIIGATN
Sbjct: 95  KARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATN 154

Query: 69  RPDIIDPAILRPGRLDQLIYIPLP 92
           RPDIIDPAILRPGRLDQLIYIPLP
Sbjct: 155 RPDIIDPAILRPGRLDQLIYIPLP 178

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]} Length = 321

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

 Score = 91.6 bits (227), Expect = 4e-24
 Identities = 16/89 (17%), Positives = 30/89 (33%), Gaps = 5/89 (5%)

Query: 9   MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATN 68
                   V+  D L ++  + GG      G   R    +L+++  M A +   +I + N
Sbjct: 177 ARAMLQHRVIVIDSLKNVIGAAGG--NTTSGGISRGAFDLLSDIGAMAASRGCVVIASLN 234

Query: 69  R---PDIIDPAILRPGRLDQLIYIPLPDE 94
                D I   +    R +    +   D 
Sbjct: 235 PTSNDDKIVELVKEASRSNSTSLVISTDV 263

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 258

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 61.6 bits (148), Expect = 3e-13
 Identities = 36/86 (41%), Positives = 53/86 (61%), Gaps = 3/86 (3%)

Query: 9   MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATN 68
            A   AP ++F DELD+IA  R       G    R+++Q+LT MDG+  + +V ++ ATN
Sbjct: 92  EAEKNAPAIIFIDELDAIAPKREK---THGEVERRIVSQLLTLMDGLKQRAHVIVMAATN 148

Query: 69  RPDIIDPAILRPGRLDQLIYIPLPDE 94
           RP+ IDPA+ R GR D+ + I +PD 
Sbjct: 149 RPNSIDPALRRFGRFDREVDIGIPDA 174

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]} Length = 273

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

 Score = 49.6 bits (117), Expect = 6e-09
 Identities = 10/97 (10%), Positives = 20/97 (20%), Gaps = 8/97 (8%)

Query: 7   ASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQI--------LTEMDGMGAK 58
                  +  +          +     +   G   D  I            T+M  M   
Sbjct: 87  VKHVTPYSNRMTEAIISRLSDQGYNLVIEGTGRTTDVPIQTATMLQAKGYETKMYVMAVP 146

Query: 59  KNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEI 95
           K    +G   R + +        R        +  + 
Sbjct: 147 KINSYLGTIERYETMYADDPMTARATPKQAHDIVVKN 183

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 246

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 48.8 bits (115), Expect = 9e-09
 Identities = 12/90 (13%), Positives = 33/90 (36%), Gaps = 9/90 (10%)

Query: 15  PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFI-IGATNRPDII 73
              +  D+++ +          G   ++ V+  +L  +     +    + IG T+R D++
Sbjct: 101 LSCVVVDDIERLLDYVP----IGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVL 156

Query: 74  DPAILRPGRLDQLIYIPLP---DEIWLILS 100
               +        I++P     +++   L 
Sbjct: 157 QEMEML-NAFSTTIHVPNIATGEQLLEALE 185

>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 = 47.7 bits (113), Expect = 3e-08
 Identities = 12/91 (13%), Positives = 17/91 (18%), Gaps = 13/91 (14%)

Query: 4   ATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFI 63
             G        P     + LD++     GSV              +              
Sbjct: 210 VKGTGGESRDLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPP----------G 259

Query: 64  IGATNRPDIIDPAILRPGRLDQLIYIPLPDE 94
           I   N             R  + I     D 
Sbjct: 260 IVTMNE---YSVPKTLQARFVKQIDFRPKDY 287

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 309

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

 Score = 44.1 bits (103), Expect = 5e-07
 Identities = 20/98 (20%), Positives = 36/98 (36%), Gaps = 4/98 (4%)

Query: 14  APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDII 73
              ++F DE+D I K    S  D     + V   +L  ++G        ++   +   I 
Sbjct: 115 QNGIVFIDEIDKICKKGEYSGADVSR--EGVQRDLLPLVEGSTVSTKHGMVKTDHILFIA 172

Query: 74  DPA--ILRPGRLDQLIYIPLPDEIWLILSDKFLYKRKI 109
             A  + RP  L   +   LP  + L       ++R +
Sbjct: 173 SGAFQVARPSDLIPELQGRLPIRVELTALSAADFERIL 210

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	110
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.96
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.96
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.94
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.94
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.81
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.75
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.37
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.46
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.38
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.36
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.31
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.27
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.16
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.03
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	97.98
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.97
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.95
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.91
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.89
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.77
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.72
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.65
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.48
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.48
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.34
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.28
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	97.24
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	96.25
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	95.52
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.9
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.46
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	89.76
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	86.67
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	85.3
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	84.73
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	84.54
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	81.46
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	80.46

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=99.96  E-value=1.2e-29  Score=176.82  Aligned_cols=106  Identities=40%  Similarity=0.747  Sum_probs=97.0

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +|+++|+.|++++||||||||+|+++.+|+...........+++++|++++|++....+|+||||||+|+.||++++|||
T Consensus        92 ~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld~al~R~g  171 (256)
T d1lv7a_          92 RVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPG  171 (256)
T ss_dssp             HHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGGSTT
T ss_pred             HHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccCCHhHcCCC
Confidence            58899999999999999999999999988766655555677899999999999988889999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||++|+|++|+.++|..|++.++++
T Consensus       172 Rfd~~i~i~~P~~~~R~~il~~~l~~  197 (256)
T d1lv7a_         172 RFDRQVVVGLPDVRGREQILKVHMRR  197 (256)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             CCCEEEECCCcCHHHHHHHHHHhccC
Confidence            99999999999999999999988754

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=99.96  E-value=3.6e-29  Score=173.50  Aligned_cols=106  Identities=39%  Similarity=0.695  Sum_probs=91.0

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +|+++|+.|+.++||||||||+|.++.+++......+....+++++|+++|+++....+|+||+|||+|+.+|++++|||
T Consensus        89 ~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld~al~R~~  168 (247)
T d1ixza_          89 RVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPG  168 (247)
T ss_dssp             HHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTT
T ss_pred             HHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCccccCHhHcCCC
Confidence            57899999999999999999999999988766555555677899999999999988889999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||++|+|++|+.++|..|++.++++
T Consensus       169 Rf~~~i~~~~P~~~eR~~il~~~l~~  194 (247)
T d1ixza_         169 RFDRQIAIDAPDVKGREQILRIHARG  194 (247)
T ss_dssp             SSCEEEECCSCCHHHHHHHHHHHHTT
T ss_pred             CCcEEEEECCcCHHHHHHHHHHHhcc
Confidence            99999999999999999999988854

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.94  E-value=2.6e-27  Score=164.67  Aligned_cols=103  Identities=36%  Similarity=0.568  Sum_probs=93.9

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++++|+.|+.++||||||||+|.++.++++..   ++...++++.++..+++.....+|+||+|||+|+.+|++++|||
T Consensus        85 ~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~---~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al~r~g  161 (258)
T d1e32a2          85 NLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH---GEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFG  161 (258)
T ss_dssp             HHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCC---CTTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGGTSTT
T ss_pred             HHHHHHHHHHhcCCeEEEehhhhhhccCCCCCC---CchHHHHHHHhccccccccccCCccEEEeCCCccccchhhhhcc
Confidence            578999999999999999999999999886543   23567899999999999888889999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||++|++++|+.++|..|++.++++
T Consensus       162 Rfd~~i~~~~P~~~~R~~il~~~l~~  187 (258)
T d1e32a2         162 RFDREVDIGIPDATGRLEILQIHTKN  187 (258)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHTTTT
T ss_pred             cccceeECCCCCHHHHHHHhhhhccC
Confidence            99999999999999999999988864

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.94  E-value=1.7e-27  Score=166.33  Aligned_cols=106  Identities=75%  Similarity=1.127  Sum_probs=90.0

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPG   81 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~g   81 (110)
                      +++.+|..|+.++||||||||+|.++.+++...........++++.|+++++++....+++||||||+++.||++++|||
T Consensus        88 ~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r~g  167 (265)
T d1r7ra3          88 NVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPG  167 (265)
T ss_dssp             HHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGSST
T ss_pred             HHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHhCCC
Confidence            57899999999999999999999999987655444334566789999999999988889999999999999999999999


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhhc
Q psy13774         82 RLDQLIYIPLPDEIWLILSDKFLYKR  107 (110)
Q Consensus        82 rfd~~i~~~~P~~~~R~~~~~~~~~~  107 (110)
                      |||++|++++|+.++|..|++.++++
T Consensus       168 Rf~~~i~~~~p~~~~R~~il~~~l~~  193 (265)
T d1r7ra3         168 RLDQLIYIPLPDEKSRVAILKANLRK  193 (265)
T ss_dssp             TSEEEEECCCCCCHHHHHHHHHHTTC
T ss_pred             CccEEEEecchHHHHHHHHHHHHhcc
Confidence            99999999999999999999988865

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=99.81  E-value=3.3e-23  Score=147.81  Aligned_cols=98  Identities=17%  Similarity=0.176  Sum_probs=76.0

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCC----CCccc
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDI----IDPAI   77 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~----ld~al   77 (110)
                      +++++|+.|++  ||||||||||++.++|.++...  ...+++++++|++||++....+|+|||||| |+.    +|+++
T Consensus       172 ~~~~~f~~a~~--~~ilf~DEid~~~~~r~~~~~~--~~~~r~v~~lL~e~dg~~~~~~v~viaatN-~~~~~~~i~~~~  246 (321)
T d1w44a_         172 FVDDIARAMLQ--HRVIVIDSLKNVIGAAGGNTTS--GGISRGAFDLLSDIGAMAASRGCVVIASLN-PTSNDDKIVELV  246 (321)
T ss_dssp             HHHHHHHHHHH--CSEEEEECCTTTC-------------CCHHHHHHHHHHHHHHHHHTCEEEEECC-CCCCCHHHHHHH
T ss_pred             HHHHHHHHHhh--ccEEEeehhhhhccccccCCCC--CcchhhhhhhhhhccccccCCCeEEEEeCC-Ccccccchhhhh
Confidence            68999999985  8999999999999999654432  245689999999999998888999999999 454    45566


Q ss_pred             cCCCccceEEEecCCCHHHHHHHHHHH
Q psy13774         78 LRPGRLDQLIYIPLPDEIWLILSDKFL  104 (110)
Q Consensus        78 ~r~grfd~~i~~~~P~~~~R~~~~~~~  104 (110)
                      .||||||+.|+++.||.+.|..|++.+
T Consensus       247 ~r~~Rf~~~v~v~~pd~~~r~~il~~~  273 (321)
T d1w44a_         247 KEASRSNSTSLVISTDVDGEWQVLTRT  273 (321)
T ss_dssp             HHHHHHSCSEEEEECSSTTEEEEEEEC
T ss_pred             hccCcccceeecCCCChHHHHHHHHHh
Confidence            899999999999999999987766533

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.75  E-value=2.5e-19  Score=123.40  Aligned_cols=96  Identities=14%  Similarity=0.147  Sum_probs=75.5

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCC-CCEEEEEecCCCCCCCccccCC
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAK-KNVFIIGATNRPDIIDPAILRP   80 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~-~~v~vi~ttn~~~~ld~al~r~   80 (110)
                      +++++|+.|++++||||||||+|.++..+.....    ..++++++++..+++.... .+|+||||||+++.+|++.++ 
T Consensus        88 ~i~~if~~A~~~~p~il~iDEid~l~~~~~~~~~----~~~~~~~~ll~~l~~~~~~~~~v~vi~tTn~~~~ld~~~~~-  162 (246)
T d1d2na_          88 AMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPR----FSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEML-  162 (246)
T ss_dssp             HHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTB----CCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCT-
T ss_pred             hhhhhhhhhhhcccceeehhhhhhHhhhcccccc----hhHHHHHHHHHHhcCCCccccceeeeeccCChhhccchhhc-
Confidence            4789999999999999999999999877654322    3568889999999987543 479999999999999976554 


Q ss_pred             CccceEEEecCCCHHHHHHHHHHH
Q psy13774         81 GRLDQLIYIPLPDEIWLILSDKFL  104 (110)
Q Consensus        81 grfd~~i~~~~P~~~~R~~~~~~~  104 (110)
                      +||+..|++  |+..+|.++++.+
T Consensus       163 ~rF~~~i~~--P~~~~r~~il~~l  184 (246)
T d1d2na_         163 NAFSTTIHV--PNIATGEQLLEAL  184 (246)
T ss_dssp             TTSSEEEEC--CCEEEHHHHHHHH
T ss_pred             CccceEEec--CCchhHHHHHHHH
Confidence            699999987  4544555555443

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.37  E-value=2e-13  Score=96.09  Aligned_cols=97  Identities=20%  Similarity=0.213  Sum_probs=73.4

Q ss_pred             HHHHHHHHHh-----cCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC--------CCCEEEEEe---
Q psy13774          3 IATGASMARA-----AAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA--------KKNVFIIGA---   66 (110)
Q Consensus         3 l~~~F~~A~~-----~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~--------~~~v~vi~t---   66 (110)
                      ++.+|..|..     .+||||||||+|++++.+.+...+.  ....++++||+.+|+...        .+++++|++   
T Consensus        99 ~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~~~~~~~--~~~gv~~~LL~~~dg~~~~~~~~~i~~s~ilfi~~ga~  176 (309)
T d1ofha_          99 IRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADV--SREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAF  176 (309)
T ss_dssp             HHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHH--HHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECC
T ss_pred             ccccchhhhcccccccCCceEEehhhhhhhhhccCcccch--hhhHHHHHhhHHhcCCEEecCCeEEEccceeEEeccch
Confidence            5667777754     3689999999999998775543221  234478889999997421        235667766   


Q ss_pred             -cCCCCCCCccccCCCccceEEEecCCCHHHHHHHHHH
Q psy13774         67 -TNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKF  103 (110)
Q Consensus        67 -tn~~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~  103 (110)
                       ++.++.++|+++.  |||..+.+++|+...+.++++.
T Consensus       177 ~~~~~~~~~p~l~~--R~~~~i~~~~~~~~~~~~Il~~  212 (309)
T d1ofha_         177 QVARPSDLIPELQG--RLPIRVELTALSAADFERILTE  212 (309)
T ss_dssp             SSSCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHS
T ss_pred             hhcCcccchhhhhh--hhheeeeccCCCHHHHHHHHHH
Confidence             6788888888885  9999999999999999988653

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.46  E-value=5.3e-07  Score=59.83  Aligned_cols=74  Identities=16%  Similarity=0.121  Sum_probs=57.0

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      ...+++|||+|.+.              ....+.++..++.  ...++.+|++||+++.+++++++  || ..|+|++|+
T Consensus       131 ~~~iiiide~d~l~--------------~~~~~~l~~~~e~--~~~~~~~Il~tn~~~~i~~~l~s--R~-~~i~~~~~~  191 (252)
T d1sxje2         131 RYKCVIINEANSLT--------------KDAQAALRRTMEK--YSKNIRLIMVCDSMSPIIAPIKS--QC-LLIRCPAPS  191 (252)
T ss_dssp             CCEEEEEECTTSSC--------------HHHHHHHHHHHHH--STTTEEEEEEESCSCSSCHHHHT--TS-EEEECCCCC
T ss_pred             CceEEEeccccccc--------------cccchhhhccccc--ccccccceeeeccccchhhhhhc--ch-heeeecccc
Confidence            34699999999772              2234456666665  35678889999999999999998  99 589999999


Q ss_pred             HHHHHHHHHHHhh
Q psy13774         94 EIWLILSDKFLYK  106 (110)
Q Consensus        94 ~~~R~~~~~~~~~  106 (110)
                      .++...+++...+
T Consensus       192 ~~~~~~~l~~i~~  204 (252)
T d1sxje2         192 DSEISTILSDVVT  204 (252)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHH
Confidence            9998877765543

>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=98.38  E-value=7.2e-07  Score=61.15  Aligned_cols=90  Identities=21%  Similarity=0.169  Sum_probs=63.9

Q ss_pred             cHHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC-----CCCCcc
Q psy13774          2 RIATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP-----DIIDPA   76 (110)
Q Consensus         2 ~l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~-----~~ld~a   76 (110)
                      ++..+++.+.+...+|+||||++.++....++.+     ...    +.+.+..+-..+.+-+||+|..-     ..-|++
T Consensus        98 r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~-----~~d----~a~~Lkp~L~rg~i~vIgatT~eey~~~~e~d~a  168 (268)
T d1r6bx2          98 RFKALLKQLEQDTNSILFIDEIHTIIGAGAASGG-----QVD----AANLIKPLLSSGKIRVIGSTTYQEFSNIFEKDRA  168 (268)
T ss_dssp             HHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSC-----HHH----HHHHHSSCSSSCCCEEEEEECHHHHHCCCCCTTS
T ss_pred             HHHHHHHHhhccCCceEEecchHHHhcCCCCCCc-----ccc----HHHHhhHHHhCCCCeEEEeCCHHHHHHHHhhcHH
Confidence            4677888888888899999999999876543221     112    22333333346678888888643     466899


Q ss_pred             ccCCCccceEEEecCCCHHHHHHHHHH
Q psy13774         77 ILRPGRLDQLIYIPLPDEIWLILSDKF  103 (110)
Q Consensus        77 l~r~grfd~~i~~~~P~~~~R~~~~~~  103 (110)
                      |.|  || ..|.+..|+.++=..|++.
T Consensus       169 l~r--rF-~~I~V~Eps~e~t~~IL~~  192 (268)
T d1r6bx2         169 LAR--RF-QKIDITEPSIEETVQIING  192 (268)
T ss_dssp             SGG--GE-EEEECCCCCHHHHHHHHHH
T ss_pred             HHh--hh-cccccCCCCHHHHHHHHHH
Confidence            999  99 5699999998886666654

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.36  E-value=1.1e-06  Score=57.74  Aligned_cols=70  Identities=17%  Similarity=0.307  Sum_probs=57.8

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      ..-|++|||+|.+.              ....+.|+..|+.  ...++++|.+||++..|.|++++  |+ ..|.|++|+
T Consensus       108 ~~kviIide~d~l~--------------~~a~n~Llk~lEe--p~~~~~fIl~t~~~~~ll~tI~S--Rc-~~i~~~~~~  168 (207)
T d1a5ta2         108 GAKVVWVTDAALLT--------------DAAANALLKTLEE--PPAETWFFLATREPERLLATLRS--RC-RLHYLAPPP  168 (207)
T ss_dssp             SCEEEEESCGGGBC--------------HHHHHHHHHHHTS--CCTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCC
T ss_pred             ccceEEechhhhhh--------------hhhhHHHHHHHHh--hcccceeeeeecChhhhhhhhcc--ee-EEEecCCCC
Confidence            35699999999873              3356678888887  46789999999999999999999  98 889999999


Q ss_pred             HHHHHHHHH
Q psy13774         94 EIWLILSDK  102 (110)
Q Consensus        94 ~~~R~~~~~  102 (110)
                      .++-..+++
T Consensus       169 ~~~~~~~L~  177 (207)
T d1a5ta2         169 EQYAVTWLS  177 (207)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            887665554

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=98.31  E-value=1.5e-06  Score=57.38  Aligned_cols=47  Identities=15%  Similarity=0.126  Sum_probs=41.3

Q ss_pred             CCCEEEEEecCCCCCCCccccCCCccceEEEecCCCHHHHHHHHHHHhh
Q psy13774         58 KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        58 ~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      ..++++|++||++..+++++++  ||+..+.++.|+..++..+++....
T Consensus       132 ~~~~~~I~at~~~~~~~~~~~~--r~~~~~~~~~~~~~~~~~~l~~~~~  178 (238)
T d1in4a2         132 IQPFTLVGATTRSGLLSSPLRS--RFGIILELDFYTVKELKEIIKRAAS  178 (238)
T ss_dssp             -CCCEEEEEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             CCCeEEEEecCCCcccccccee--eeeEEEEecCCCHHHHHHHHHHhhh
Confidence            3478999999999999999999  9999999999999999887776543

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.27  E-value=1.9e-06  Score=57.44  Aligned_cols=70  Identities=19%  Similarity=0.196  Sum_probs=55.1

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      ..||+|||+|.+.              ....+.|+..|+.  ...++.+|++||+++.+.+++++  |+ ..+.++.|+.
T Consensus       116 ~kviiIde~d~l~--------------~~~q~~Llk~lE~--~~~~~~~il~tn~~~~i~~~i~S--Rc-~~i~~~~~~~  176 (239)
T d1njfa_         116 FKVYLIDEVHMLS--------------RHSFNALLKTLEE--PPEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDV  176 (239)
T ss_dssp             SEEEEEETGGGSC--------------HHHHHHHHHHHHS--CCTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCH
T ss_pred             CEEEEEECcccCC--------------HHHHHHHHHHHhc--CCCCeEEEEEcCCccccChhHhh--hh-cccccccCcH
Confidence            3599999999872              2334568888876  45678899999999999999999  88 6799999998


Q ss_pred             HHHHHHHHH
Q psy13774         95 IWLILSDKF  103 (110)
Q Consensus        95 ~~R~~~~~~  103 (110)
                      ++-..++..
T Consensus       177 ~~i~~~l~~  185 (239)
T d1njfa_         177 EQIRHQLEH  185 (239)
T ss_dssp             HHHHHHHHH
T ss_pred             HHhhhHHHH
Confidence            776544443

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.16  E-value=7.8e-07  Score=58.38  Aligned_cols=86  Identities=21%  Similarity=0.251  Sum_probs=54.8

Q ss_pred             cHHHHHHHHHhcC-CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC-----CCCCc
Q psy13774          2 RIATGASMARAAA-PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP-----DIIDP   75 (110)
Q Consensus         2 ~l~~~F~~A~~~~-P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~-----~~ld~   75 (110)
                      ++..+++.+.++. ..|+||||++.++....+..+.   ....++.-.|   .    ...+-+||+|...     -.-|+
T Consensus       102 rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~---d~~~~Lkp~L---~----rg~l~~IgatT~eey~~~~e~d~  171 (195)
T d1jbka_         102 RLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAM---DAGNMLKPAL---A----RGELHCVGATTLDEYRQYIEKDA  171 (195)
T ss_dssp             HHHHHHHHHHHSTTTEEEEEETGGGGTT------CC---CCHHHHHHHH---H----TTSCCEEEEECHHHHHHHTTTCH
T ss_pred             HHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcc---cHHHHHHHHH---h----CCCceEEecCCHHHHHHHHHcCH
Confidence            4667787776665 6899999999998655332211   2334444433   2    3455666776632     35599


Q ss_pred             cccCCCccceEEEecCCCHHHHHHH
Q psy13774         76 AILRPGRLDQLIYIPLPDEIWLILS  100 (110)
Q Consensus        76 al~r~grfd~~i~~~~P~~~~R~~~  100 (110)
                      +|.|  || ..|.+..|+.++=..|
T Consensus       172 aL~r--rF-~~I~V~Ep~~e~t~~I  193 (195)
T d1jbka_         172 ALER--RF-QKVFVAEPSVEDTIAI  193 (195)
T ss_dssp             HHHT--TE-EEEECCCCCHHHHHTT
T ss_pred             HHHh--cC-CEeecCCCCHHHHHHH
Confidence            9999  99 5699999998775443

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=98.03  E-value=9.9e-06  Score=53.12  Aligned_cols=76  Identities=17%  Similarity=0.175  Sum_probs=58.6

Q ss_pred             hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecC
Q psy13774         12 AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPL   91 (110)
Q Consensus        12 ~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~   91 (110)
                      ...+.|+++||+|.+...              ....|+..++.  ...++.+|++||.+..+++++++  |+ ..+.+++
T Consensus       107 ~~~~~iilide~d~~~~~--------------~~~~ll~~l~~--~~~~~~~i~~~n~~~~i~~~l~s--R~-~~i~~~~  167 (231)
T d1iqpa2         107 GASFKIIFLDEADALTQD--------------AQQALRRTMEM--FSSNVRFILSCNYSSKIIEPIQS--RC-AIFRFRP  167 (231)
T ss_dssp             GCSCEEEEEETGGGSCHH--------------HHHHHHHHHHH--TTTTEEEEEEESCGGGSCHHHHH--TE-EEEECCC
T ss_pred             CCCceEEeehhhhhcchh--------------HHHHHhhhccc--CCcceEEEeccCChhhchHhHhC--cc-ccccccc
Confidence            345789999999977422              23346666665  35678999999999999999998  98 5699999


Q ss_pred             CCHHHHHHHHHHHhh
Q psy13774         92 PDEIWLILSDKFLYK  106 (110)
Q Consensus        92 P~~~~R~~~~~~~~~  106 (110)
                      |+..+...+++...+
T Consensus       168 ~~~~~~~~~l~~~~~  182 (231)
T d1iqpa2         168 LRDEDIAKRLRYIAE  182 (231)
T ss_dssp             CCHHHHHHHHHHHHH
T ss_pred             cchhhHHHHHHHHHH
Confidence            999998877666543

>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=97.98  E-value=4.7e-06  Score=59.16  Aligned_cols=97  Identities=11%  Similarity=0.072  Sum_probs=58.0

Q ss_pred             HHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCC-------CCC-----EEEEEecCCCCC
Q psy13774          5 TGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGA-------KKN-----VFIIGATNRPDI   72 (110)
Q Consensus         5 ~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~-------~~~-----v~vi~ttn~~~~   72 (110)
                      ..|.......+++.++|+++.....+.....-   ..-.-+..+...+|+...       ...     ..+|+|||+   
T Consensus       192 s~~~l~~~~~~~~~l~d~~~~~~~~~~~~~~~---~~~DeiD~l~~~~dg~~~~~~~~~~~~~~~~~~~p~i~ttN~---  265 (362)
T d1svma_         192 LNFELGVAIDQFLVVFEDVKGTGGESRDLPSG---QGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNE---  265 (362)
T ss_dssp             HHHHHGGGTTCSCEEETTCCCSTTTTTTCCCC---SHHHHHHTTHHHHHCSSCEEECCSSSCCEEECCCCEEEEECS---
T ss_pred             hHHHHHhHHHHHHHHHHHHHHhhhhccCCCCe---EEEehHhhcccccCCcchhhhhhhhhchhhhccCCceeeccc---
Confidence            44555555666777777777665544332211   122223334444444211       011     137889995   


Q ss_pred             CCccccCCCccceEEEecCCCHHHHH-HHHHHHhhc
Q psy13774         73 IDPAILRPGRLDQLIYIPLPDEIWLI-LSDKFLYKR  107 (110)
Q Consensus        73 ld~al~r~grfd~~i~~~~P~~~~R~-~~~~~~~~~  107 (110)
                      ++.++.+|||||..|++..|+...|. .+++.+.++
T Consensus       266 ~~~~~~r~~Rf~~~i~~~~~~~~~~~~~~l~~i~~~  301 (362)
T d1svma_         266 YSVPKTLQARFVKQIDFRPKDYLKHCLERSEFLLEK  301 (362)
T ss_dssp             CCCCHHHHTTEEEEEECCCCHHHHHHHHTCTHHHHT
T ss_pred             ccccccccccCceEEeecCCCcHHHHHHHHHHHhcc
Confidence            57778899999999999999988885 455555443

>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=97.97  E-value=6.1e-06  Score=59.08  Aligned_cols=90  Identities=24%  Similarity=0.314  Sum_probs=50.7

Q ss_pred             cHHHHHHHHHhcC-CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC-----CCCCc
Q psy13774          2 RIATGASMARAAA-PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP-----DIIDP   75 (110)
Q Consensus         2 ~l~~~F~~A~~~~-P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~-----~~ld~   75 (110)
                      ++..+...+.... +.|+||||++.++....+.++.   ....++.-.|       ..+.+-+||+|..-     +. |+
T Consensus       102 r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~---d~a~~Lkp~L-------~rg~~~~I~~tT~~ey~~~e~-d~  170 (387)
T d1qvra2         102 RLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAV---DAGNMLKPAL-------ARGELRLIGATTLDEYREIEK-DP  170 (387)
T ss_dssp             HHHHHHHHHHTTCSSEEEEECCC----------------------HHHH-------HTTCCCEEEEECHHHHHHHTT-CT
T ss_pred             HHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcc---cHHHHHHHHH-------hCCCcceeeecCHHHHHHhcc-cH
Confidence            4566777777665 6899999999998655332211   2223333333       23455667777632     34 89


Q ss_pred             cccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         76 AILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        76 al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      ||.|  ||. .|.+..|+.++=..|++.+.
T Consensus       171 al~r--rF~-~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         171 ALER--RFQ-PVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             TTCS--CCC-CEEECCCCHHHHHHHHHHHH
T ss_pred             HHHH--hcc-cccCCCCcHHHHHHHHHHHH
Confidence            9999  995 59999999998777766543

>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=97.95  E-value=3e-05  Score=50.95  Aligned_cols=46  Identities=22%  Similarity=0.165  Sum_probs=39.3

Q ss_pred             CCCEEEEEecCCCCCCCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         58 KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        58 ~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                      ..+++++++||++...+++.++  |+...+.+..|+.+++..+++...
T Consensus       133 ~~~~~~i~~~~~~~~~~~~~l~--~~~~~~~~~~~~~~~~~~i~~~~~  178 (239)
T d1ixsb2         133 LPRFTLIGATTRPGLITAPLLS--RFGIVEHLEYYTPEELAQGVMRDA  178 (239)
T ss_dssp             CCCCEEEEEESCCSSCSCGGGG--GCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             CCCEEEEeeccCcccccchhhc--ccceeeEeeccChhhhhHHHHHHH
Confidence            3568899999999999999999  888999999999999987766544

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.91  E-value=1.5e-05  Score=51.93  Aligned_cols=75  Identities=16%  Similarity=0.241  Sum_probs=56.7

Q ss_pred             HHHHHHHHHhc----CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCcccc
Q psy13774          3 IATGASMARAA----APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAIL   78 (110)
Q Consensus         3 l~~~F~~A~~~----~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~   78 (110)
                      ++++.+.+...    ..-|++|||+|.+.              ....+.||..|++  ...++++|.+|++++.|.|+++
T Consensus        64 IR~i~~~~~~~~~~~~~KviIId~ad~l~--------------~~aqNaLLK~LEE--Pp~~t~fiLit~~~~~ll~TI~  127 (198)
T d2gnoa2          64 IRTIKDFLNYSPELYTRKYVIVHDCERMT--------------QQAANAFLKALEE--PPEYAVIVLNTRRWHYLLPTIK  127 (198)
T ss_dssp             HHHHHHHHTSCCSSSSSEEEEETTGGGBC--------------HHHHHHTHHHHHS--CCTTEEEEEEESCGGGSCHHHH
T ss_pred             HHHHHHHHhhCcccCCCEEEEEeCccccc--------------hhhhhHHHHHHhC--CCCCceeeeccCChhhCHHHHh
Confidence            34454444322    23499999999882              3456688899987  4678899999999999999999


Q ss_pred             CCCccceEEEecCCCHHH
Q psy13774         79 RPGRLDQLIYIPLPDEIW   96 (110)
Q Consensus        79 r~grfd~~i~~~~P~~~~   96 (110)
                      +  |+ ..+.++.|+...
T Consensus       128 S--RC-~~i~~~~p~~~~  142 (198)
T d2gnoa2         128 S--RV-FRVVVNVPKEFR  142 (198)
T ss_dssp             T--TS-EEEECCCCHHHH
T ss_pred             c--ce-EEEeCCCchHHH
Confidence            9  98 678898886533

>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=97.89  E-value=3.8e-05  Score=50.02  Aligned_cols=72  Identities=14%  Similarity=0.108  Sum_probs=55.4

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      ..+|+|||+|.+.              ....+.|+..++..  ...++++.+||.+..+++++++  |+ ..+.|..|+.
T Consensus       100 ~kiiiiDe~d~~~--------------~~~~~~Ll~~le~~--~~~~~~~~~~~~~~~i~~~i~s--r~-~~i~~~~~~~  160 (227)
T d1sxjc2         100 FKLIILDEADAMT--------------NAAQNALRRVIERY--TKNTRFCVLANYAHKLTPALLS--QC-TRFRFQPLPQ  160 (227)
T ss_dssp             CEEEEETTGGGSC--------------HHHHHHHHHHHHHT--TTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCH
T ss_pred             eEEEEEeccccch--------------hhHHHHHHHHhhhc--ccceeeccccCcHHHhHHHHHH--HH-hhhccccccc
Confidence            4599999999773              22344566777663  4578899999999999999999  87 6789999998


Q ss_pred             HHHHHHHHHHh
Q psy13774         95 IWLILSDKFLY  105 (110)
Q Consensus        95 ~~R~~~~~~~~  105 (110)
                      .+-..+++..+
T Consensus       161 ~~i~~~l~~I~  171 (227)
T d1sxjc2         161 EAIERRIANVL  171 (227)
T ss_dssp             HHHHHHHHHHH
T ss_pred             ccccccccccc
Confidence            88776665443

>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=97.77  E-value=4.3e-05  Score=49.83  Aligned_cols=72  Identities=11%  Similarity=0.061  Sum_probs=55.5

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      ..+|+|||+|.+...              ..+.++..+..  ......++.+|+....+.+++++  |+ ..|.|+.|+.
T Consensus       102 ~kviiiDe~d~~~~~--------------~~~~ll~~~e~--~~~~~~~i~~~~~~~~i~~~l~s--r~-~~i~~~~~~~  162 (224)
T d1sxjb2         102 HKIVILDEADSMTAG--------------AQQALRRTMEL--YSNSTRFAFACNQSNKIIEPLQS--QC-AILRYSKLSD  162 (224)
T ss_dssp             CEEEEEESGGGSCHH--------------HHHTTHHHHHH--TTTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCH
T ss_pred             eEEEEEecccccchh--------------HHHHHhhhccc--cccceeeeeccCchhhhhhHHHH--HH-HHhhhcccch
Confidence            469999999987432              22345555555  45678888999999999999999  88 5699999999


Q ss_pred             HHHHHHHHHHh
Q psy13774         95 IWLILSDKFLY  105 (110)
Q Consensus        95 ~~R~~~~~~~~  105 (110)
                      ++-..++....
T Consensus       163 ~~i~~~l~~i~  173 (224)
T d1sxjb2         163 EDVLKRLLQII  173 (224)
T ss_dssp             HHHHHHHHHHH
T ss_pred             hhhHHHHHHHH
Confidence            99877766544

>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=97.72  E-value=0.00016  Score=47.40  Aligned_cols=76  Identities=14%  Similarity=0.124  Sum_probs=51.2

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCC
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD   93 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~   93 (110)
                      .+.++++||+|.+....           ......+......  ...+++++++++....+++ + +  |+...|+|++|+
T Consensus       123 ~~~vi~ide~~~~~~~~-----------~~~~~~~~~~~~~--~~~~ii~i~~~~~~~~~~~-l-~--~~~~~i~f~~~~  185 (253)
T d1sxja2         123 KHFVIIMDEVDGMSGGD-----------RGGVGQLAQFCRK--TSTPLILICNERNLPKMRP-F-D--RVCLDIQFRRPD  185 (253)
T ss_dssp             TSEEEEECSGGGCCTTS-----------TTHHHHHHHHHHH--CSSCEEEEESCTTSSTTGG-G-T--TTSEEEECCCCC
T ss_pred             cceEEEeeeccccccch-----------hhhhHHHhhhhcc--ccccccccccccccccccc-c-c--ceeeeeeccccc
Confidence            46799999999885322           1223334444333  2346777777777667764 4 4  567899999999


Q ss_pred             HHHHHHHHHHHhh
Q psy13774         94 EIWLILSDKFLYK  106 (110)
Q Consensus        94 ~~~R~~~~~~~~~  106 (110)
                      .+++..+++...+
T Consensus       186 ~~~i~~~l~~i~~  198 (253)
T d1sxja2         186 ANSIKSRLMTIAI  198 (253)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHH
Confidence            9999888776553

>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=97.65  E-value=7.3e-05  Score=48.64  Aligned_cols=73  Identities=14%  Similarity=0.047  Sum_probs=54.2

Q ss_pred             CeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccceEEEecCCCH
Q psy13774         15 PCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE   94 (110)
Q Consensus        15 P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd~~i~~~~P~~   94 (110)
                      ..||+|||+|.+...              ..+.++..+..  ......++.+++..+.+.+++++  || ..|.|.+|+.
T Consensus       109 ~~viiiDe~d~l~~~--------------~~~~l~~~~~~--~~~~~~~i~~~~~~~~~~~~l~s--r~-~~i~f~~~~~  169 (237)
T d1sxjd2         109 YKIIILDEADSMTAD--------------AQSALRRTMET--YSGVTRFCLICNYVTRIIDPLAS--QC-SKFRFKALDA  169 (237)
T ss_dssp             CEEEEETTGGGSCHH--------------HHHHHHHHHHH--TTTTEEEEEEESCGGGSCHHHHH--HS-EEEECCCCCH
T ss_pred             ceEEEEecccccCHH--------------HHHHHhhcccc--ccccccccccccccccccccccc--hh-hhhccccccc
Confidence            349999999988422              22334444444  34566788899999999999999  98 7899999999


Q ss_pred             HHHHHHHHHHhh
Q psy13774         95 IWLILSDKFLYK  106 (110)
Q Consensus        95 ~~R~~~~~~~~~  106 (110)
                      .+-..+++...+
T Consensus       170 ~~~~~~L~~i~~  181 (237)
T d1sxjd2         170 SNAIDRLRFISE  181 (237)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             cccchhhhhhhh
Confidence            997777666543

>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=97.48  E-value=6.9e-05  Score=49.43  Aligned_cols=88  Identities=9%  Similarity=0.012  Sum_probs=60.6

Q ss_pred             hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCC------CCccccCCCccce
Q psy13774         12 AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDI------IDPAILRPGRLDQ   85 (110)
Q Consensus        12 ~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~------ld~al~r~grfd~   85 (110)
                      ...+.++++||+|.+........     .....+..+...+.......++.+|+.+|.++.      .++.+.+  ||..
T Consensus       130 ~~~~~~~iide~d~l~~~~~~~~-----~~~~~l~~l~~~l~~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~--r~~~  202 (287)
T d1w5sa2         130 ENHYLLVILDEFQSMLSSPRIAA-----EDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVES--QIGF  202 (287)
T ss_dssp             HTCEEEEEEESTHHHHSCTTSCH-----HHHHHHHTHHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHT--TCSE
T ss_pred             ccCccccceeEEEEeccccccch-----hHHHHHHHHHHhcchhhcccceeEEeecccHHHHHHHHhhccchhc--ccce
Confidence            34567889999999865543211     223334444555555555667777887776653      3467777  9999


Q ss_pred             EEEecCCCHHHHHHHHHHHhh
Q psy13774         86 LIYIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        86 ~i~~~~P~~~~R~~~~~~~~~  106 (110)
                      .+++++++.++...|++...+
T Consensus       203 ~i~f~~y~~~el~~Il~~r~~  223 (287)
T d1w5sa2         203 KLHLPAYKSRELYTILEQRAE  223 (287)
T ss_dssp             EEECCCCCHHHHHHHHHHHHH
T ss_pred             eeeccCCcHHHHHHHHhhhHH
Confidence            999999999999988776543

>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=97.48  E-value=0.00017  Score=49.90  Aligned_cols=79  Identities=23%  Similarity=0.288  Sum_probs=57.1

Q ss_pred             HHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC---------CCCCCEEEEEecCC----------
Q psy13774          9 MARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM---------GAKKNVFIIGATNR----------   69 (110)
Q Consensus         9 ~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~---------~~~~~v~vi~ttn~----------   69 (110)
                      ..+++.-|||++||+|...              ..+.+.|+..++.-         -...+.++|+|||-          
T Consensus       120 ~~~~~p~~Vvl~DEieK~~--------------~~v~~~ll~~l~~g~~~~~~gr~v~~~~~i~i~tsnlG~~~i~~~~~  185 (315)
T d1qvra3         120 AVRRRPYSVILFDEIEKAH--------------PDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLILEGLQ  185 (315)
T ss_dssp             HHHHCSSEEEEESSGGGSC--------------HHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEECCTTHHHHHHHHH
T ss_pred             HHHhCCCcEEEEehHhhcC--------------HHHHHHHHHHhccCceeCCCCcEecCcceEEEEecccChHHHhhhcc
Confidence            3445555999999999752              33555666666531         11347999999995          


Q ss_pred             ----------------CCCCCccccCCCccceEEEecCCCHHHHHHHHHH
Q psy13774         70 ----------------PDIIDPAILRPGRLDQLIYIPLPDEIWLILSDKF  103 (110)
Q Consensus        70 ----------------~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~  103 (110)
                                      .+.+.|.++.  |||..+.|.+.+.++-..|...
T Consensus       186 ~~~~~~~~~~~~~~~l~~~f~pEfln--Rid~Ii~F~~L~~~~~~~I~~~  233 (315)
T d1qvra3         186 KGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEI  233 (315)
T ss_dssp             TTCCHHHHHHHHHHHHHTTSCHHHHH--TCSBCCBCCCCCHHHHHHHHHH
T ss_pred             cccchhhhhHHHHHHHHhhcCHHHHh--cCCeeeeccchhhhhhHHHHHH
Confidence                            3669999998  9999999999998886665543

>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=97.34  E-value=0.0009  Score=46.02  Aligned_cols=82  Identities=23%  Similarity=0.275  Sum_probs=58.0

Q ss_pred             HHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC---------CCCCCEEEEEecCCCC-------
Q psy13774          8 SMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM---------GAKKNVFIIGATNRPD-------   71 (110)
Q Consensus         8 ~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~---------~~~~~v~vi~ttn~~~-------   71 (110)
                      ...+++..+|+++||+|...              ..+.+.|++.++.-         ....+.++|.|||--.       
T Consensus       115 ~~~~~~~~~vvl~DeieKa~--------------~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~Tsnig~~~i~~~~  180 (315)
T d1r6bx3         115 DAVIKHPHAVLLLDEIEKAH--------------PDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKS  180 (315)
T ss_dssp             HHHHHCSSEEEEEETGGGSC--------------HHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECSSCC------
T ss_pred             HHHHhCccchhhhccccccc--------------chHhhhhHHhhccceecCCCCCccCccceEEEeccchhhHHHHhhh
Confidence            34455667999999999652              34666777776531         1235788999999432       


Q ss_pred             ------------------CCCccccCCCccceEEEecCCCHHHHHHHHHHHh
Q psy13774         72 ------------------IIDPAILRPGRLDQLIYIPLPDEIWLILSDKFLY  105 (110)
Q Consensus        72 ------------------~ld~al~r~grfd~~i~~~~P~~~~R~~~~~~~~  105 (110)
                                        .+.|.++.  |+|..+.+.+.+.++-..|...++
T Consensus       181 ~~~~~~~~~~~~~~~l~~~f~pEfln--Rid~ii~f~~l~~~~~~~I~~~~l  230 (315)
T d1r6bx3         181 IGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQVVDKFI  230 (315)
T ss_dssp             -----------CHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             ccchhhhhhHhHHHHHHHhcCHHHHh--hhhhhhcccchhhhHHHHHHHHHH
Confidence                              36778887  999999999999888766655444

>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=97.28  E-value=0.00019  Score=46.95  Aligned_cols=77  Identities=13%  Similarity=0.191  Sum_probs=50.2

Q ss_pred             CCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCC---ccccCCCccc--eEEE
Q psy13774         14 APCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIID---PAILRPGRLD--QLIY   88 (110)
Q Consensus        14 ~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld---~al~r~grfd--~~i~   88 (110)
                      ...+|+|||+|.+..+.         ..+   ..|...++.+...++.+++++...|..++   +.+.+  |+.  ..+.
T Consensus        97 ~~dll~iDDi~~i~~~~---------~~~---~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~S--RL~~g~~~~  162 (213)
T d1l8qa2          97 SVDLLLLDDVQFLSGKE---------RTQ---IEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVS--RFEGGILVE  162 (213)
T ss_dssp             TCSEEEEECGGGGTTCH---------HHH---HHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHH--HHHTSEEEE
T ss_pred             hccchhhhhhhhhcCch---------HHH---HHHHHHHHHHhhccceEEEecCCcchhccccchHHHH--HhhCceEEE
Confidence            34799999999885332         122   23444445444566778888888886554   77888  874  4666


Q ss_pred             ecCCCHHHHHHHHHHHh
Q psy13774         89 IPLPDEIWLILSDKFLY  105 (110)
Q Consensus        89 ~~~P~~~~R~~~~~~~~  105 (110)
                      ++ |+.++|..+++...
T Consensus       163 i~-p~d~~~~~iL~~~a  178 (213)
T d1l8qa2         163 IE-LDNKTRFKIIKEKL  178 (213)
T ss_dssp             CC-CCHHHHHHHHHHHH
T ss_pred             EC-CCcHHHHHHHHHHH
Confidence            76 56678877666544

>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=97.24  E-value=0.00095  Score=45.78  Aligned_cols=70  Identities=16%  Similarity=0.251  Sum_probs=51.5

Q ss_pred             eEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCC------C-----CCCEEEEEecCCC-CCCCccccCCCcc
Q psy13774         16 CVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMG------A-----KKNVFIIGATNRP-DIIDPAILRPGRL   83 (110)
Q Consensus        16 ~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~------~-----~~~v~vi~ttn~~-~~ld~al~r~grf   83 (110)
                      .|+|+||++.+              ..++.+.|+.-|++-.      +     ..++++++|+|-. ..++++++.  ||
T Consensus       129 gvl~iDEi~~~--------------~~~~~~aLl~~me~~~v~i~r~g~~~~~p~~f~liaa~Np~~~~l~~~llD--Rf  192 (333)
T d1g8pa_         129 GYLYIDECNLL--------------EDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--RF  192 (333)
T ss_dssp             EEEEETTGGGS--------------CHHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--TC
T ss_pred             cEeecccHHHH--------------HHHHHHHHhhhhcCCeEEecccCceecCCCCEEEEEecCccccccccchhh--hh
Confidence            79999999966              2456777887776310      0     2468889998854 579999999  99


Q ss_pred             ceEEEecCCC-HHHHHHHH
Q psy13774         84 DQLIYIPLPD-EIWLILSD  101 (110)
Q Consensus        84 d~~i~~~~P~-~~~R~~~~  101 (110)
                      +..+.++.|. ...|..+.
T Consensus       193 ~~~i~v~~~~~~~~~~~~~  211 (333)
T d1g8pa_         193 GLSVEVLSPRDVETRVEVI  211 (333)
T ss_dssp             SEEEECCCCCSHHHHHHHH
T ss_pred             cceeeccCcchhhHHHHHH
Confidence            9999998774 55565443

>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=96.25  E-value=0.0053  Score=42.99  Aligned_cols=90  Identities=17%  Similarity=0.190  Sum_probs=52.1

Q ss_pred             HhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcC--C---------CCCCEEEEEecCC----------
Q psy13774         11 RAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGM--G---------AKKNVFIIGATNR----------   69 (110)
Q Consensus        11 ~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~--~---------~~~~v~vi~ttn~----------   69 (110)
                      +....+||++||+|...+...............+.+.||+.+++-  .         ...+.+++.|+|-          
T Consensus       130 ~~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~lLqild~~~~~~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~  209 (364)
T d1um8a_         130 QKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDG  209 (364)
T ss_dssp             HHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCEEC---------------CEECTTCEEEEEECCTT
T ss_pred             HHhhcccchhhhhhhhccccccccccccccchHHHHhhhhhhcCceeccCCCCCCcCCcceeEEEeehhhhhhhcccchh
Confidence            344568999999999886543322222224456788888888841  1         1124556666654          


Q ss_pred             ---------------------------------------CCCCCccccCCCccceEEEecCCCHHHHHHHHH
Q psy13774         70 ---------------------------------------PDIIDPAILRPGRLDQLIYIPLPDEIWLILSDK  102 (110)
Q Consensus        70 ---------------------------------------~~~ld~al~r~grfd~~i~~~~P~~~~R~~~~~  102 (110)
                                                             ...+-|.++-  |||..+.|.+.+.+.=..|+.
T Consensus       210 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEf~g--Ri~~iv~f~~L~~~~l~~Il~  279 (364)
T d1um8a_         210 LAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELIG--RLPVLSTLDSISLEAMVDILQ  279 (364)
T ss_dssp             HHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHHT--TCCEEEECCCCCHHHHHHHHH
T ss_pred             hhhhhhhhcccccccccccccchhhhhhhhccccHHHHhhhhhHHHHHH--HhcchhhHhhhhHHHHHHHHH
Confidence                                                   1236677886  999999999999988766654

>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=95.52  E-value=0.011  Score=38.00  Aligned_cols=81  Identities=11%  Similarity=0.007  Sum_probs=53.3

Q ss_pred             hcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCC---CCCCccccCCCcc-ceEE
Q psy13774         12 AAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRP---DIIDPAILRPGRL-DQLI   87 (110)
Q Consensus        12 ~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~---~~ld~al~r~grf-d~~i   87 (110)
                      ...+.++++|++|.+...           .......++..+... ...++.+|++++..   +.+++.+.+  |+ ...|
T Consensus       122 ~~~~~~~~~~~~d~~~~~-----------~~~~~~~~~~~~~~~-~~~~~~~i~~~~~~~~~~~~~~~~~~--r~~~~~i  187 (276)
T d1fnna2         122 RDLYMFLVLDDAFNLAPD-----------ILSTFIRLGQEADKL-GAFRIALVIVGHNDAVLNNLDPSTRG--IMGKYVI  187 (276)
T ss_dssp             TTCCEEEEEETGGGSCHH-----------HHHHHHHHTTCHHHH-SSCCEEEEEEESSTHHHHTSCHHHHH--HHTTCEE
T ss_pred             cccccccchhHHHHhhhh-----------hhhhHHHHHhccccc-cccceEEeecCCchhhhhhcchhhhh--hhcchhc
Confidence            445788889999976322           122222333322222 34577888888874   578888887  65 3579


Q ss_pred             EecCCCHHHHHHHHHHHhh
Q psy13774         88 YIPLPDEIWLILSDKFLYK  106 (110)
Q Consensus        88 ~~~~P~~~~R~~~~~~~~~  106 (110)
                      .+++|+.++...+++..++
T Consensus       188 ~~~~~~~~e~~~il~~r~~  206 (276)
T d1fnna2         188 RFSPYTKDQIFDILLDRAK  206 (276)
T ss_dssp             ECCCCBHHHHHHHHHHHHH
T ss_pred             cccchhHHHHHHHHHHHHH
Confidence            9999999999888776543

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=89.76  E-value=0.36  Score=31.45  Aligned_cols=49  Identities=12%  Similarity=0.094  Sum_probs=27.9

Q ss_pred             HhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCC
Q psy13774         11 RAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIID   74 (110)
Q Consensus        11 ~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld   74 (110)
                      ....|.+++|||+|+-+..          .   ....++..+.......  =||.||++|.-+|
T Consensus       238 ~~~~~~~~~iDEpe~~Lhp----------~---~~~~l~~~l~~~~~~~--QviitTHsp~~~~  286 (308)
T d1e69a_         238 EIKPSPFYVLDEVDSPLDD----------Y---NAERFKRLLKENSKHT--QFIVITHNKIVME  286 (308)
T ss_dssp             TTSCCSEEEEESCCSSCCH----------H---HHHHHHHHHHHHTTTS--EEEEECCCTTGGG
T ss_pred             hhccCchhhhhhccccCCH----------H---HHHHHHHHHHHhccCC--EEEEEECCHHHHH
Confidence            4566789999999954311          1   2223333333332233  3557899887665

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=86.67  E-value=0.44  Score=28.30  Aligned_cols=83  Identities=17%  Similarity=0.163  Sum_probs=44.4

Q ss_pred             HHHHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCc---cccC
Q psy13774          3 IATGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDP---AILR   79 (110)
Q Consensus         3 l~~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~---al~r   79 (110)
                      .+.++..+....|+++++||+.....           ........+...+.    ..+..++++++... +++   .+.+
T Consensus        88 ~~~~l~~~~~~~~~vlllDE~~~~~~-----------~~~~~~~~l~~~l~----~~~~~il~~~h~~~-~~~~~~~i~~  151 (178)
T d1ye8a1          88 LERAYREAKKDRRKVIIIDEIGKMEL-----------FSKKFRDLVRQIMH----DPNVNVVATIPIRD-VHPLVKEIRR  151 (178)
T ss_dssp             HHHHHHHHHHCTTCEEEECCCSTTGG-----------GCHHHHHHHHHHHT----CTTSEEEEECCSSC-CSHHHHHHHT
T ss_pred             HHHHHHHHHhcCCCceeecCCCccch-----------hhHHHHHHHHHHhc----cCCCEEEEEEccHH-HHHhhceEEE
Confidence            34566778889999999999764321           12233444444443    23445666666543 333   2222


Q ss_pred             CCccc-eEEEecCCCHHH-HHHHHHH
Q psy13774         80 PGRLD-QLIYIPLPDEIW-LILSDKF  103 (110)
Q Consensus        80 ~grfd-~~i~~~~P~~~~-R~~~~~~  103 (110)
                        +-+ ..+++...|.+. .+.++..
T Consensus       152 --~~~~~i~~v~~~nrd~~~~~i~~~  175 (178)
T d1ye8a1         152 --LPGAVLIELTPENRDVILEDILSL  175 (178)
T ss_dssp             --CTTCEEEECCTTTTTTHHHHHHHH
T ss_pred             --EeCCEEEEECCccHHHHHHHHHHH
Confidence              222 356676655443 3455543

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=85.30  E-value=1  Score=29.00  Aligned_cols=65  Identities=14%  Similarity=0.216  Sum_probs=35.7

Q ss_pred             HHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCCCCCccccCCCccc
Q psy13774          5 TGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDPAILRPGRLD   84 (110)
Q Consensus         5 ~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~~ld~al~r~grfd   84 (110)
                      -+.+.|-.+.|.|+++||-=         .. -+......   ++..+..+....+.-+|.+|++++     +.+  ..|
T Consensus       154 vaIAraL~~~P~lLllDEPT---------s~-LD~~~~~~---i~~~l~~l~~~~g~tii~vTHd~~-----~a~--~~d  213 (230)
T d1l2ta_         154 VAIARALANNPPIILADQPT---------GA-LDSKTGEK---IMQLLKKLNEEDGKTVVVVTHDIN-----VAR--FGE  213 (230)
T ss_dssp             HHHHHHHTTCCSEEEEESTT---------TT-SCHHHHHH---HHHHHHHHHHTTCCEEEEECSCHH-----HHT--TSS
T ss_pred             HHHHhhhhcCCCEEEecCCc---------cc-cCHHHHHH---HHHHHHHHHHhhCCEEEEECCCHH-----HHH--hCC
Confidence            35567778999999999942         11 11122333   333333333355666777777432     224  556


Q ss_pred             eEEEe
Q psy13774         85 QLIYI   89 (110)
Q Consensus        85 ~~i~~   89 (110)
                      +.+.+
T Consensus       214 rv~~m  218 (230)
T d1l2ta_         214 RIIYL  218 (230)
T ss_dssp             EEEEE
T ss_pred             EEEEE
Confidence            66655

>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=84.73  E-value=0.81  Score=26.18  Aligned_cols=13  Identities=31%  Similarity=0.283  Sum_probs=10.4

Q ss_pred             CCeEEEEcccccc
Q psy13774         14 APCVLFFDELDSI   26 (110)
Q Consensus        14 ~P~ii~iDeiD~l   26 (110)
                      .-++|++||++.+
T Consensus        94 ~~~~vIiDE~H~~  106 (136)
T d1a1va1          94 AYDIIICDECHST  106 (136)
T ss_dssp             CCSEEEEETTTCC
T ss_pred             cCCEEEEeccccc
Confidence            3478999999965

>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=84.54  E-value=0.48  Score=30.67  Aligned_cols=12  Identities=33%  Similarity=0.656  Sum_probs=10.4

Q ss_pred             CeEEEEcccccc
Q psy13774         15 PCVLFFDELDSI   26 (110)
Q Consensus        15 P~ii~iDeiD~l   26 (110)
                      ...|||||+|.+
T Consensus        95 gGtL~l~~i~~L  106 (247)
T d1ny5a2          95 GGTLFLDEIGEL  106 (247)
T ss_dssp             TSEEEEESGGGC
T ss_pred             CCEEEEeChHhC
Confidence            468999999988

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.46  E-value=0.82  Score=29.78  Aligned_cols=54  Identities=19%  Similarity=0.172  Sum_probs=31.2

Q ss_pred             HHHHHHHhcCCeEEEEcccccccccCCCCCCCCCCchHHHHHHHHHhhhcCCCCCCEEEEEecCCCC
Q psy13774          5 TGASMARAAAPCVLFFDELDSIAKSRGGSVGDGGGAADRVINQILTEMDGMGAKKNVFIIGATNRPD   71 (110)
Q Consensus         5 ~~F~~A~~~~P~ii~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~v~vi~ttn~~~   71 (110)
                      -+.++|-...|.|+++||.=+-+        +     ...-..+...+..+....+.-+|..|++.+
T Consensus       160 vaiARal~~~p~ililDEpTs~L--------D-----~~~~~~i~~~l~~l~~~~~~Tvi~itH~l~  213 (251)
T d1jj7a_         160 VALARALIRKPCVLILDDATSAL--------D-----ANSQLQVEQLLYESPERYSRSVLLITQHLS  213 (251)
T ss_dssp             HHHHHHHTTCCSEEEEESTTTTC--------C-----HHHHHHHHHHHHTCGGGGGCEEEEECSCHH
T ss_pred             EEEeeccccCCcEEEecCcCccc--------C-----hhhHHHHHHHHHHHhhhcCCEEEEEeCCHH
Confidence            35667778899999999954221        1     112233444444443344456667777654

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=80.46  E-value=2.6  Score=27.33  Aligned_cols=21  Identities=24%  Similarity=0.252  Sum_probs=16.3

Q ss_pred             HHHHHHHhcCCeEEEEccccc
Q psy13774          5 TGASMARAAAPCVLFFDELDS   25 (110)
Q Consensus         5 ~~F~~A~~~~P~ii~iDeiD~   25 (110)
                      -+.++|-...|.|+++||.-+
T Consensus       163 i~iARal~~~p~ililDEpts  183 (255)
T d2hyda1         163 LSIARIFLNNPPILILDEATS  183 (255)
T ss_dssp             HHHHHHHHHCCSEEEEESTTT
T ss_pred             HHHHHHHhcCCCEEEEeCccc
Confidence            356667778999999999763