Citrus Sinensis ID: 047225

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------
Protein Sequence
MTLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGSMTVCAR
Secondary Structure (PSIPRED)
ccHHcccccccccccccEEEEEEccccccHHHHHHHHHHHHccccccEEEEcccccccHHHHHHHcccccccccccccccHHHHHcccccEEEEEHHHHccccHHHHHHHHHHccccccccccccEEccccEEEEcccccHHHHHccccccHHHHHHHHHHHHHHccccccccccccEEEEccccHHHHHHHHHHHHHHHHHHHHHcccEEEEcHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHccccccccEEEEEEccccEEEEEEccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHccccccccccccEEEEccccccHHHHHHHHHHHHccccccEEEEcHHHHHHHHHHHHHccccccccccccccHHHHHHHccccEEEEEHHHHHHcHHHHHHHHHHHcccccccccccEEEcccEEEEEEccccHHHHHHHccccHHHHHHHHHHHHHHHccHHHHHHHcEEEEEccccHHHHHHHHHHHHHHHHHHHHHcccEEEEcHHHHHHHHHccccccccccHHHHHHHHHHHcHHHHHHHccccccccEEEEEEcccEEEEEEccccHHHHHHcc
Coil and Loop (DISEMBL)
mtlerarvgirdpnrpissflftgptgvgkTELANALAFEYFGSKEAMVRIDMSEYMekhtvskffgsppgyvgfenggqLTEAvrhrphsvilFDEIEKAHRDVLNVMLQLLddgrvtdgkgqtvdlKNTIIIMTsnigdsviARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIeegynpsygarpLRRAIGRLLEDNLAEIILTGYiqvgdsvtmdcdsggnvimyrhrngsmtvcar
Flexible Loop (DISEMBL)
mtlerarvgirdpnrpissflftgptGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQllddgrvtdgkgqtvdlkntiiimtsnigdsviARESilgsdqmeRGVAEELrrrfrpeflnridevivfrqlnkMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKkklieegynpsygarPLRRAIGRLLEDNLAEIILTgyiqvgdsvTMDCDSGGNVimyrhrngsmtvcar
Low Complexity Region (SEG)
MTLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAeelrrrfrpeflnrIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGSMTVCAR
Disordered region (IsUnstruct)
****************ISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGS*****GVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHR*********
Disordered Region (DISOPRED)
*TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSV***************VAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNV***************
Disordered Region (DISEMBL)
********GIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGSMTVCAR
Disordered Region (DISPRO)
**********RDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRN********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGSMTVCAR
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	287	2.2.26 [Sep-21-2011]
Q7F9I1	918	Chaperone protein ClpC1,	no	no	0.972	0.303	0.608	1e-103
P31542	923	ATP-dependent Clp proteas	N/A	no	0.975	0.303	0.609	1e-103
Q9FI56	929	Chaperone protein ClpC1,	yes	no	0.989	0.305	0.601	1e-103
Q2QVG9	919	Chaperone protein ClpC2,	no	no	0.972	0.303	0.601	1e-103
P35100	922	Chaperone protein ClpC, c	N/A	no	0.975	0.303	0.606	1e-102
P31541	926	ATP-dependent Clp proteas	N/A	no	0.993	0.307	0.595	1e-102
Q9SXJ7	952	Chaperone protein ClpC2,	no	no	0.972	0.293	0.597	1e-101
Q9TM05	854	ATP-dependent Clp proteas	N/A	no	0.944	0.317	0.611	5e-98
Q1XDF4	821	ATP-dependent Clp proteas	N/A	no	0.944	0.330	0.590	3e-97
P46523	874	ATP-dependent Clp proteas	N/A	no	0.989	0.324	0.576	4e-97

>sp|Q7F9I1|CLPC1_ORYSJ Chaperone protein ClpC1, chloroplastic OS=Oryza sativa subsp. japonica GN=CLPC1 PE=2 SV=2

 Score =  374 bits (961), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 177/291 (60%), Positives = 233/291 (80%), Gaps = 12/291 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSE+ME+HT
Sbjct: 617 AIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHT 676

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 677 VSKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDS 736

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E     ++++  V EEL++ FRP
Sbjct: 737 KGRTVDFKNTLLIMTSNVGSSVIEKGGRKIGFDLDYDEKDTSYNRIKSLVTEELKQYFRP 796

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K+++ EI DIMLKE+++RL+AK+++L VT  F+ ++++EGYNPS
Sbjct: 797 EFLNRLDEMIVFRQLTKLEVKEIADIMLKEVFDRLKAKDIDLQVTEKFRDRVVDEGYNPS 856

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNG 280
           YGARPLRRAI RLLED+LAE +L G ++ GDS  +D DS G VI+    +G
Sbjct: 857 YGARPLRRAIMRLLEDSLAEKMLAGEVKEGDSAIVDVDSEGKVIVLNGGSG 907

Molecular chaperone that may interact with a clpP-like protease involved in degradation of denatured proteins in the chloroplast.
Oryza sativa subsp. japonica (taxid: 39947)

>sp|P31542|CLPAB_SOLLC ATP-dependent Clp protease ATP-binding subunit clpA homolog CD4B, chloroplastic OS=Solanum lycopersicum GN=CD4B PE=3 SV=1

 Score =  374 bits (961), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 178/292 (60%), Positives = 232/292 (79%), Gaps = 12/292 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSE+ME+HT
Sbjct: 621 AIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHT 680

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 681 VSKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDS 740

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E     ++++  V EEL++ FRP
Sbjct: 741 KGRTVDFKNTLLIMTSNVGSSVIEKGGRRIGFDLDLDEKDSSYNRIKSLVTEELKQYFRP 800

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K+++ EI DIMLKE++ERL+ K +EL VT  F+ ++++EGYNPS
Sbjct: 801 EFLNRLDEMIVFRQLTKLEVKEIADIMLKEVFERLKVKEIELQVTERFRDRVVDEGYNPS 860

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGS 281
           YGARPLRRAI RLLED++AE +L   I+ GDSV +D DS GNV +    +G+
Sbjct: 861 YGARPLRRAIMRLLEDSMAEKMLANEIKEGDSVIVDVDSDGNVTVLNGSSGT 912

May interact with a clpP-like protease involved in degradation of denatured proteins in the chloroplast.

Solanum lycopersicum (taxid: 4081)

>sp|Q9FI56|CLPC1_ARATH Chaperone protein ClpC1, chloroplastic OS=Arabidopsis thaliana GN=CLPC1 PE=1 SV=1

 Score =  374 bits (959), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 178/296 (60%), Positives = 234/296 (79%), Gaps = 12/296 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSE+ME+HT
Sbjct: 623 AIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHT 682

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 683 VSKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDS 742

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E     ++++  V EEL++ FRP
Sbjct: 743 KGRTVDFKNTLLIMTSNVGSSVIEKGGRRIGFDLDYDEKDSSYNRIKSLVTEELKQYFRP 802

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K+++ EI DI+LKE++ERL+ K +EL VT  FK+++++EGYNPS
Sbjct: 803 EFLNRLDEMIVFRQLTKLEVKEIADILLKEVFERLKKKEIELQVTERFKERVVDEGYNPS 862

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGSMTVC 285
           YGARPLRRAI RLLED++AE +L   I+ GDSV +D D+ GNV +    +G+ T  
Sbjct: 863 YGARPLRRAIMRLLEDSMAEKMLAREIKEGDSVIVDVDAEGNVTVLNGGSGTPTTS 918

Molecular chaperone that hydrolyzes ATP and is associated with the chloroplast protein import apparatus. May function as the motor for chloroplast protein translocation, as translocation requires ATP hydrolysis in the stroma. May interact with a clpP-like protease involved in degradation of denatured proteins in the chloroplast. Involved in the regulation of chlorophyll b biosynthesis through the destabilization of chlorophyllide a oxygenase (CAO) protein in response to the accumulation of chlorophyll b. Involved in leaf iron homeostasis.

Arabidopsis thaliana (taxid: 3702)

>sp|Q2QVG9|CLPC2_ORYSJ Chaperone protein ClpC2, chloroplastic OS=Oryza sativa subsp. japonica GN=CLPC2 PE=2 SV=2

 Score =  373 bits (958), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 175/291 (60%), Positives = 234/291 (80%), Gaps = 12/291 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
           ++ RARVG+++PNRPI+SF+F GPTGVGK+ELA ALA  YFGS+EAM+R+DMSE+ME+HT
Sbjct: 618 SIRRARVGLKNPNRPIASFIFAGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHT 677

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 678 VSKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDS 737

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E      +++  V EE+++ FRP
Sbjct: 738 KGRTVDFKNTLLIMTSNVGSSVIEKGGRKIGFDLDYDEKDSSYSRIKSLVVEEMKQYFRP 797

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K+++ EI +IMLKE+++RL+AK+++L VT  FK+++++EG+NPS
Sbjct: 798 EFLNRLDEMIVFRQLTKLEVKEIAEIMLKEVFDRLKAKDIDLQVTEKFKERIVDEGFNPS 857

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNG 280
           YGARPLRRAI RLLED+LAE +L G ++ GDS  +D DS G VI+   ++G
Sbjct: 858 YGARPLRRAIMRLLEDSLAEKMLAGEVKEGDSAIVDVDSEGKVIVLNGQSG 908

Molecular chaperone that may interact with a clpP-like protease involved in degradation of denatured proteins in the chloroplast.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|P35100|CLPC_PEA Chaperone protein ClpC, chloroplastic OS=Pisum sativum PE=2 SV=1

 Score =  373 bits (957), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 177/292 (60%), Positives = 232/292 (79%), Gaps = 12/292 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSE+ME+HT
Sbjct: 621 AIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHT 680

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 681 VSKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDS 740

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E     ++++  V EEL++ FRP
Sbjct: 741 KGRTVDFKNTLLIMTSNVGSSVIEKGGRRIGFDLDYDEKDSSYNRIKSLVTEELKQYFRP 800

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K+++ EI DIMLKE+++RL+ K +EL VT  F+ ++++EGYNPS
Sbjct: 801 EFLNRLDEMIVFRQLTKLEVKEIADIMLKEVFQRLKTKEIELQVTERFRDRVVDEGYNPS 860

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGS 281
           YGARPLRRAI RLLED++AE +L   I+ GDSV +D DS G VI+    +G+
Sbjct: 861 YGARPLRRAIMRLLEDSMAEKMLAREIKEGDSVIVDVDSDGKVIVLNGSSGT 912

Molecular chaperone tha may interact with a clpP-like protease involved in degradation of denatured proteins in the chloroplast.

Pisum sativum (taxid: 3888)

>sp|P31541|CLPAA_SOLLC ATP-dependent Clp protease ATP-binding subunit clpA homolog CD4A, chloroplastic OS=Solanum lycopersicum GN=CD4A PE=3 SV=1

 Score =  370 bits (949), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 177/297 (59%), Positives = 233/297 (78%), Gaps = 12/297 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGK+ELA +LA  YFGS+EAM+R+DMSE+ME+HT
Sbjct: 624 AIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKSLATYYFGSEEAMIRLDMSEFMERHT 683

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 684 VSKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDS 743

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E     ++++  V EEL++ FRP
Sbjct: 744 KGRTVDFKNTLLIMTSNVGSSVIEKGGRRIGFDLDFDEKDSSYNRIKSLVTEELKQYFRP 803

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+ E+IVFRQL K+++ EI DIMLKE++ RL+ K +EL VT  F+ ++++EGYNPS
Sbjct: 804 EFLNRLSEMIVFRQLTKLEVKEIADIMLKEVFVRLKNKEIELQVTERFRDRVVDEGYNPS 863

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGSMTVCA 286
           YGARPLRRAI RLLED++AE +L G I+ GDSV +D DS GNV +    +G+ +  A
Sbjct: 864 YGARPLRRAIMRLLEDSMAEKMLAGEIKEGDSVIVDVDSDGNVTVLNGTSGAPSDSA 920

May interact with a clpP-like protease involved in degradation of denatured proteins in the chloroplast.

Solanum lycopersicum (taxid: 4081)

>sp|Q9SXJ7|CLPC2_ARATH Chaperone protein ClpC2, chloroplastic OS=Arabidopsis thaliana GN=CLPC2 PE=2 SV=1

 Score =  366 bits (940), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 174/291 (59%), Positives = 231/291 (79%), Gaps = 12/291 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSE+ME+HT
Sbjct: 644 AIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHT 703

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GGQLTEAVR RP++++LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 704 VSKLIGSPPGYVGYTEGGQLTEAVRRRPYTLVLFDEIEKAHPDVFNMMLQILEDGRLTDS 763

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E     ++++  V EEL++ FRP
Sbjct: 764 KGRTVDFKNTLLIMTSNVGSSVIEKGGRRIGFDLDHDEKDSSYNRIKSLVTEELKQYFRP 823

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K+++ EI DIMLKE+  RLE K +EL VT  FK+++++EG++PS
Sbjct: 824 EFLNRLDEMIVFRQLTKLEVKEIADIMLKEVVARLEVKEIELQVTERFKERVVDEGFDPS 883

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNG 280
           YGARPLRRAI RLLED++AE +L+  I+ GDSV +D D+ G+V++     G
Sbjct: 884 YGARPLRRAIMRLLEDSMAEKMLSRDIKEGDSVIVDVDAEGSVVVLSGTTG 934

Molecular chaperone that may act as a suppressor of FtsH-mediated thylakoid membrane biogenesis. May enhance photoinhibition. Seems not involved in chloroplastic protein import.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9TM05|CLPC_CYACA ATP-dependent Clp protease ATP-binding subunit clpA homolog OS=Cyanidium caldarium GN=clpC PE=3 SV=1

 Score =  357 bits (917), Expect = 5e-98,   Method: Compositional matrix adjust.
 Identities = 173/283 (61%), Positives = 221/283 (78%), Gaps = 12/283 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGKTEL  A+A  +FGS+EAMVR+DMSEYME+HT
Sbjct: 557 AIRRARVGLKNPNRPIASFIFSGPTGVGKTELTKAMASYFFGSEEAMVRLDMSEYMERHT 616

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N++LQ+L+DGR+TD 
Sbjct: 617 VSKLIGSPPGYVGYNEGGQLTEAVRKRPYTVVLFDEIEKAHPDVFNLLLQILEDGRLTDS 676

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR----------ESI--LGSDQMERGVAEELRRRFRP 169
           KG+T+D KNT++IMTSNIG  VI +          E+I  L   +M   V EEL++ FRP
Sbjct: 677 KGRTIDFKNTLLIMTSNIGSKVIEKKGGGLGFELEENIEELQYSRMRNLVNEELKQYFRP 736

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K ++ +I  IML+EI+ER++ + + L VT  FK  LIEEGYNPS
Sbjct: 737 EFLNRVDEIIVFRQLTKDEVRDIAHIMLREIFERVKQQGISLQVTERFKNLLIEEGYNPS 796

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNV 272
           YGARPLRRA+ RLLED+LAE +L+G I+ GD+  +D D    V
Sbjct: 797 YGARPLRRALVRLLEDSLAEEVLSGKIKEGDNAMIDVDENKQV 839

May interact with a clpP-like protease involved in degradation of denatured proteins in the chloroplast.

Cyanidium caldarium (taxid: 2771)

>sp|Q1XDF4|CLPC_PORYE ATP-dependent Clp protease ATP-binding subunit clpA homolog OS=Porphyra yezoensis GN=clpC PE=3 SV=1

 Score =  355 bits (910), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 167/283 (59%), Positives = 221/283 (78%), Gaps = 12/283 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGKTEL  ALA  +FGS+ +M+R+DMSEYME+HT
Sbjct: 527 AIRRARVGLKNPNRPIASFIFSGPTGVGKTELTKALASYFFGSEASMIRLDMSEYMERHT 586

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GG LTEAVR +P++VILFDEIEKAH D+ N++LQ+L+DGR+TD 
Sbjct: 587 VSKLIGSPPGYVGYSEGGYLTEAVRKKPYTVILFDEIEKAHPDIFNLLLQILEDGRLTDA 646

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIARES-----ILGSDQMERG-------VAEELRRRFRP 169
           KG+T+D KNT++IMTSNIG  VI +        L  DQ E         V EEL++ FRP
Sbjct: 647 KGRTIDFKNTLLIMTSNIGSKVIEKGGGSLGFELSEDQTESQYTRVRSLVNEELKQYFRP 706

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K ++ EI ++ML E++ R++ ++++L VT  FK++L+EEGYNPS
Sbjct: 707 EFLNRLDEIIVFRQLTKDEVREIAELMLNEVFARIKQQDIQLNVTERFKQRLVEEGYNPS 766

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNV 272
           YGARPLRRA+ RLLED+LAE +L+G I+ GDS  +D  + G V
Sbjct: 767 YGARPLRRAVMRLLEDSLAEEVLSGKIKAGDSAVVDVTNEGEV 809

May interact with a clpP-like protease involved in degradation of denatured proteins in the chloroplast.

Porphyra yezoensis (taxid: 2788)

>sp|P46523|CLPA_BRANA ATP-dependent Clp protease ATP-binding subunit clpA homolog, chloroplastic (Fragment) OS=Brassica napus GN=CLPA PE=2 SV=1

 Score =  354 bits (908), Expect = 4e-97,   Method: Compositional matrix adjust.
 Identities = 170/295 (57%), Positives = 228/295 (77%), Gaps = 11/295 (3%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F GPTGVGK+ELA ALA  YFG +EAM+R+DMSE+ME+HT
Sbjct: 569 AIRRARVGLKNPNRPIASFIFFGPTGVGKSELAKALAAYYFGCEEAMIRLDMSEFMERHT 628

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+    QLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+T+ 
Sbjct: 629 VSKLIGSPPGYVGYTEPPQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTNS 688

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR-----------ESILGSDQMERGVAEELRRRFRPE 170
           KG+TVD KNT++IMTSN+G SVI +           E     ++++  V +EL++ FRPE
Sbjct: 689 KGRTVDFKNTLLIMTSNVGSSVIEKGGRRIGFDLDYEKDSSYNRIKSLVTQELKQYFRPE 748

Query: 171 FLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSY 230
           FLNR+DE+I+FRQL K+++ EI DI+L+E++ERL+ K +EL VT  FK+++++EGYNPSY
Sbjct: 749 FLNRLDEMILFRQLTKLEVKEIADILLQELFERLKKKEVELQVTERFKERVVDEGYNPSY 808

Query: 231 GARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGSMTVC 285
           GARPLRRAI RLLED++ E +L   I+ GDSV +D DS G V +    +G+ T  
Sbjct: 809 GARPLRRAIMRLLEDSMEEKMLAREIKEGDSVIVDVDSEGKVTVLNGGSGTPTTS 863

May interact with a clpP-like protease involved in degradation of denatured proteins in the chloroplast.

Brassica napus (taxid: 3708)

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	287
224085219	643	predicted protein [Populus trichocarpa]	0.951	0.424	0.681	1e-104
255540075	924	ATP-dependent clp protease, putative [Ri	0.975	0.303	0.619	1e-103
224136316	932	predicted protein [Populus trichocarpa]	0.972	0.299	0.611	1e-103
356508861	922	PREDICTED: chaperone protein ClpC, chlor	0.975	0.303	0.616	1e-102
118488171	835	unknown [Populus trichocarpa]	0.972	0.334	0.611	1e-102
357520587	926	ATP-dependent Clp protease ATP-binding s	0.975	0.302	0.613	1e-102
356513459	919	PREDICTED: chaperone protein ClpC, chlor	0.975	0.304	0.609	1e-102
356516495	922	PREDICTED: chaperone protein ClpC, chlor	0.975	0.303	0.613	1e-102
147866973	890	hypothetical protein VITISV_010724 [Viti	0.975	0.314	0.609	1e-101
115458130	403	Os04g0397100 [Oryza sativa Japonica Grou	0.972	0.692	0.608	1e-101

>gi|224085219|ref|XP_002307519.1| predicted protein [Populus trichocarpa] gi|222856968|gb|EEE94515.1| predicted protein [Populus trichocarpa]

 Score =  382 bits (982), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 188/276 (68%), Positives = 228/276 (82%), Gaps = 3/276 (1%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG +DPN+PI+SFLFTGPTGVGKTELA ALA EYFGSKEA+VRIDMSEYMEKHT
Sbjct: 351 AIRRARVGTKDPNKPIASFLFTGPTGVGKTELAKALAVEYFGSKEAVVRIDMSEYMEKHT 410

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK FGSPPGY+G+++GGQ TEAVR R H+V+LFDEIEKAH+DV  V LQ+LDDG +TDG
Sbjct: 411 VSKLFGSPPGYIGYDDGGQFTEAVRCRAHTVVLFDEIEKAHQDVNRVFLQILDDGTLTDG 470

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR---ESILGSDQMERGVAEELRRRFRPEFLNRIDEV 178
           KG+ VD KNTIIIMTSNIG+S+IA+   E  +  + ++  VAEEL++ F PEFLNRIDEV
Sbjct: 471 KGRKVDFKNTIIIMTSNIGNSLIAQEDEEDEIRFNTVKLIVAEELKKEFSPEFLNRIDEV 530

Query: 179 IVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRA 238
           IVFR+LN  QL EI D+ML E+Y RL+AKN+ + VT   K+K+IEEG N SYGARPL+RA
Sbjct: 531 IVFRKLNNAQLNEIADLMLAEVYGRLKAKNIIIRVTDGLKRKIIEEGNNLSYGARPLKRA 590

Query: 239 IGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIM 274
           I RLLEDN+A+ IL G+++ G SV +D +S GNVIM
Sbjct: 591 IVRLLEDNIAKGILNGFVEEGRSVIVDVNSNGNVIM 626

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255540075|ref|XP_002511102.1| ATP-dependent clp protease, putative [Ricinus communis] gi|223550217|gb|EEF51704.1| ATP-dependent clp protease, putative [Ricinus communis]

 Score =  381 bits (979), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 181/292 (61%), Positives = 236/292 (80%), Gaps = 12/292 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSE+ME+HT
Sbjct: 622 AIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHT 681

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 682 VSKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDS 741

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E     ++++  V EEL++ FRP
Sbjct: 742 KGRTVDFKNTLLIMTSNVGSSVIEKGGRRIGFDLDYDEKDSSYNRIKSLVTEELKQYFRP 801

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K+++ EI DIMLKE+++RL+ K++EL VT  F+++++EEGYNPS
Sbjct: 802 EFLNRLDEMIVFRQLTKLEVKEIADIMLKEVFDRLKVKDIELQVTERFRERVVEEGYNPS 861

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGS 281
           YGARPLRRAI RLLED++AE +L G I+ GDSV +D DS GNVI+    +GS
Sbjct: 862 YGARPLRRAIMRLLEDSMAEKMLAGEIKEGDSVIVDVDSDGNVIVLNGSSGS 913

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224136316|ref|XP_002322299.1| predicted protein [Populus trichocarpa] gi|222869295|gb|EEF06426.1| predicted protein [Populus trichocarpa]

 Score =  379 bits (972), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 178/291 (61%), Positives = 235/291 (80%), Gaps = 12/291 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSEYME+HT
Sbjct: 629 AIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEYMERHT 688

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           V+K  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 689 VAKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNIMLQILEDGRLTDS 748

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E     ++++  V EEL++ FRP
Sbjct: 749 KGRTVDFKNTLLIMTSNVGSSVIEKGGRKIGFDLDYDEKDSSYNRIKSLVTEELKQYFRP 808

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K+++ +I DIMLKE++ERL+AK +EL VT  F+ ++++EGYNP+
Sbjct: 809 EFLNRLDEMIVFRQLTKLEVKDIADIMLKEVFERLKAKEIELQVTERFRDRVVDEGYNPA 868

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNG 280
           YGARPLRRAI RLLED++AE +L+  I+ GDSV +D DS GNVI+   ++G
Sbjct: 869 YGARPLRRAIMRLLEDSMAEKMLSAEIKEGDSVIIDVDSDGNVIVLNGQSG 919

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356508861|ref|XP_003523172.1| PREDICTED: chaperone protein ClpC, chloroplastic-like isoform 1 [Glycine max] gi|356508863|ref|XP_003523173.1| PREDICTED: chaperone protein ClpC, chloroplastic-like isoform 2 [Glycine max]

 Score =  378 bits (971), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 180/292 (61%), Positives = 234/292 (80%), Gaps = 12/292 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSE+ME+HT
Sbjct: 621 AIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHT 680

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 681 VSKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDS 740

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E     ++++  V EEL++ FRP
Sbjct: 741 KGRTVDFKNTLLIMTSNVGSSVIEKGGRKIGFDLDYDEKDSSYNRIKSLVTEELKQYFRP 800

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K+++ EI DIMLKE++ERL+ K++EL VT  F+ +++EEGYNPS
Sbjct: 801 EFLNRLDEMIVFRQLTKLEVKEIADIMLKEVFERLKVKDIELQVTERFRDRVVEEGYNPS 860

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGS 281
           YGARPLRRAI RLLED++AE +L   I+ GDSV +D DS GNVI+    +G+
Sbjct: 861 YGARPLRRAIMRLLEDSMAEKMLAREIKEGDSVIVDVDSDGNVIVLNGSSGA 912

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118488171|gb|ABK95905.1| unknown [Populus trichocarpa]

 Score =  377 bits (967), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 178/291 (61%), Positives = 234/291 (80%), Gaps = 12/291 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSEYME+HT
Sbjct: 532 AIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEYMERHT 591

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           V+K  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 592 VAKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNIMLQILEDGRLTDS 651

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E     ++++  V EEL++ FRP
Sbjct: 652 KGRTVDFKNTLLIMTSNVGSSVIEKGGRKIGFDLDYDEKDSSYNRIKSLVTEELKQYFRP 711

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K+++ +I DIMLKE++ERL+AK +EL VT  F  ++++EGYNP+
Sbjct: 712 EFLNRLDEMIVFRQLTKLEVKDIADIMLKEVFERLKAKEIELQVTERFIDRVVDEGYNPA 771

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNG 280
           YGARPLRRAI RLLED++AE +L+  I+ GDSV +D DS GNVI+   ++G
Sbjct: 772 YGARPLRRAIMRLLEDSMAEKMLSAEIKEGDSVIIDVDSDGNVIVLNGQSG 822

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357520587|ref|XP_003630582.1| ATP-dependent Clp protease ATP-binding subunit clpA-like protein [Medicago truncatula] gi|355524604|gb|AET05058.1| ATP-dependent Clp protease ATP-binding subunit clpA-like protein [Medicago truncatula]

 Score =  377 bits (967), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 179/292 (61%), Positives = 234/292 (80%), Gaps = 12/292 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSE+ME+HT
Sbjct: 625 AIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALASYYFGSEEAMIRLDMSEFMERHT 684

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 685 VSKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDS 744

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E     ++++  V EEL++ FRP
Sbjct: 745 KGRTVDFKNTLLIMTSNVGSSVIEKGGRRIGFDLDYDEKDSSYNRIKSLVTEELKQYFRP 804

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K+++ EI DIMLKE++ERL+ K +EL+VT  F++++++EGYNPS
Sbjct: 805 EFLNRLDEMIVFRQLTKLEVKEIADIMLKEVFERLKTKEIELSVTERFRERVVDEGYNPS 864

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGS 281
           YGARPLRRAI RLLED++AE +L   I+ GDSV +D DS GNVI+     G+
Sbjct: 865 YGARPLRRAIMRLLEDSMAEKMLAREIKEGDSVIVDADSDGNVIVLNGSTGA 916

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356513459|ref|XP_003525431.1| PREDICTED: chaperone protein ClpC, chloroplastic-like [Glycine max]

 Score =  377 bits (967), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 178/292 (60%), Positives = 236/292 (80%), Gaps = 12/292 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSE+ME+HT
Sbjct: 618 AIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHT 677

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 678 VSKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDS 737

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E     ++++  V EEL++ FRP
Sbjct: 738 KGRTVDFKNTLLIMTSNVGSSVIEKGGRKIGFDLDYDEKDSSYNRIKSLVTEELKQYFRP 797

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K+++ EI DIMLKE+++RL+AK ++L+VT  F++++++EGYNPS
Sbjct: 798 EFLNRLDEMIVFRQLTKLEVKEIADIMLKEVFDRLKAKEIDLSVTERFRERVVDEGYNPS 857

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGS 281
           YGARPLRRAI RLLED++AE +L   I+ GDSV +D DS GNVI+    +G+
Sbjct: 858 YGARPLRRAIMRLLEDSMAEKMLAREIKEGDSVIVDADSDGNVIVLNGSSGA 909

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356516495|ref|XP_003526929.1| PREDICTED: chaperone protein ClpC, chloroplastic-like [Glycine max]

 Score =  377 bits (967), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 179/292 (61%), Positives = 234/292 (80%), Gaps = 12/292 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSE+ME+HT
Sbjct: 621 AIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHT 680

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 681 VSKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDS 740

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E     ++++  V EEL++ FRP
Sbjct: 741 KGRTVDFKNTLLIMTSNVGSSVIEKGGRKIGFDLDYDEKDSSYNRIKSLVTEELKQYFRP 800

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K+++ EI DIMLKE+++RL+ K++EL VT  F+ +++EEGYNPS
Sbjct: 801 EFLNRLDEMIVFRQLTKLEVKEIADIMLKEVFDRLKVKDIELQVTERFRDRVVEEGYNPS 860

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGS 281
           YGARPLRRAI RLLED++AE +L   I+ GDSV +D DS GNVI+    +G+
Sbjct: 861 YGARPLRRAIMRLLEDSMAEKMLAREIKEGDSVIVDVDSDGNVIVLNGSSGA 912

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147866973|emb|CAN78847.1| hypothetical protein VITISV_010724 [Vitis vinifera]

 Score =  375 bits (963), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 178/292 (60%), Positives = 234/292 (80%), Gaps = 12/292 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSE+ME+HT
Sbjct: 588 AIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHT 647

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 648 VSKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDS 707

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E     ++++  V EEL++ FRP
Sbjct: 708 KGRTVDFKNTLLIMTSNVGSSVIEKGGRRIGFDLDYDEKDSSYNRIKSLVTEELKQYFRP 767

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K+++ +I DIMLKE++ERL+AK++EL VT  F+ ++++EGYNPS
Sbjct: 768 EFLNRLDEMIVFRQLTKLEVKDIADIMLKEVFERLKAKDIELQVTERFRDRVVDEGYNPS 827

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGS 281
           YGARPLRRAI RLLED++AE +L   I+ GDSV +D DS GNV +    +G+
Sbjct: 828 YGARPLRRAIMRLLEDSMAEKMLAREIKEGDSVIVDVDSDGNVTVLNGSSGA 879

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115458130|ref|NP_001052665.1| Os04g0397100 [Oryza sativa Japonica Group] gi|113564236|dbj|BAF14579.1| Os04g0397100, partial [Oryza sativa Japonica Group]

 Score =  375 bits (963), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 177/291 (60%), Positives = 233/291 (80%), Gaps = 12/291 (4%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSE+ME+HT
Sbjct: 102 AIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHT 161

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VSK  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD 
Sbjct: 162 VSKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDS 221

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIAR------------ESILGSDQMERGVAEELRRRFRP 169
           KG+TVD KNT++IMTSN+G SVI +            E     ++++  V EEL++ FRP
Sbjct: 222 KGRTVDFKNTLLIMTSNVGSSVIEKGGRKIGFDLDYDEKDTSYNRIKSLVTEELKQYFRP 281

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K+++ EI DIMLKE+++RL+AK+++L VT  F+ ++++EGYNPS
Sbjct: 282 EFLNRLDEMIVFRQLTKLEVKEIADIMLKEVFDRLKAKDIDLQVTEKFRDRVVDEGYNPS 341

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNG 280
           YGARPLRRAI RLLED+LAE +L G ++ GDS  +D DS G VI+    +G
Sbjct: 342 YGARPLRRAIMRLLEDSLAEKMLAGEVKEGDSAIVDVDSEGKVIVLNGGSG 392

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	287
TAIR|locus:2157383	929	CLPC1 "CLPC homologue 1" [Arab	0.979	0.302	0.573	1.3e-84
TAIR|locus:2099433	952	HSP93-III [Arabidopsis thalian	0.968	0.292	0.568	1.3e-82
UNIPROTKB|Q3A9N1	811	CHY_2348 "Negative regulator o	0.930	0.329	0.518	1.8e-71
TIGR_CMR|CHY_2348	811	CHY_2348 "negative regulator o	0.930	0.329	0.518	1.8e-71
TAIR|locus:2157363	945	ERD1 "EARLY RESPONSIVE TO DEHY	0.979	0.297	0.488	1.3e-70
UNIPROTKB|P63284	857	clpB "ClpB chaperone" [Escheri	0.916	0.306	0.530	6.3e-69
UNIPROTKB|Q6H795	938	CLPD1 "Chaperone protein ClpD1	0.961	0.294	0.496	8e-69
UNIPROTKB|Q81VV9	811	BAS0081 "Negative regulator of	0.944	0.334	0.5	8e-69
TIGR_CMR|BA_0080	811	BA_0080 "negative regulator of	0.944	0.334	0.5	8e-69
TIGR_CMR|GSU_0658	865	GSU_0658 "ClpB protein" [Geoba	0.947	0.314	0.503	2.7e-68

TAIR|locus:2157383 CLPC1 "CLPC homologue 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 847 (303.2 bits), Expect = 1.3e-84, P = 1.3e-84
 Identities = 168/293 (57%), Positives = 222/293 (75%)

Query:     3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV 62
             + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSE+ME+HTV
Sbjct:   624 IRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHTV 683

Query:    63 SKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK 122
             SK  GSPPGYVG+  GGQLTEAVR RP++V+LFDEIEKAH DV N+MLQ+L+DGR+TD K
Sbjct:   684 SKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDSK 743

Query:   123 GQTVDLKNTIIIMTSNIGDSVIARESI-LGSD-----------QMERGVAXXXXXXXXXX 170
             G+TVD KNT++IMTSN+G SVI +    +G D           +++  V           
Sbjct:   744 GRTVDFKNTLLIMTSNVGSSVIEKGGRRIGFDLDYDEKDSSYNRIKSLVTEELKQYFRPE 803

Query:   171 XXXXIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSY 230
                 +DE+IVFRQL K+++ EI DI+LKE++ERL+ K +EL VT  FK+++++EGYNPSY
Sbjct:   804 FLNRLDEMIVFRQLTKLEVKEIADILLKEVFERLKKKEIELQVTERFKERVVDEGYNPSY 863

Query:   231 GARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGSMT 283
             GARPLRRAI RLLED++AE +L   I+ GDSV +D D+ GNV +    +G+ T
Sbjct:   864 GARPLRRAIMRLLEDSMAEKMLAREIKEGDSVIVDVDAEGNVTVLNGGSGTPT 916

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0004518 "nuclease activity" evidence=IEA

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

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

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0019538 "protein metabolic process" evidence=IEA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009532 "plastid stroma" evidence=IDA

GO:0005739 "mitochondrion" evidence=IDA

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA

GO:0009658 "chloroplast organization" evidence=IMP

GO:0031897 "Tic complex" evidence=TAS

GO:0045037 "protein import into chloroplast stroma" evidence=IMP

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0005618 "cell wall" evidence=IDA

GO:0010380 "regulation of chlorophyll biosynthetic process" evidence=IMP

GO:0045036 "protein targeting to chloroplast" evidence=IMP

GO:0005829 "cytosol" evidence=RCA

GO:0009706 "chloroplast inner membrane" evidence=IDA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010304 "PSII associated light-harvesting complex II catabolic process" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0042744 "hydrogen peroxide catabolic process" evidence=RCA

GO:0042793 "transcription from plastid promoter" evidence=RCA

GO:0009536 "plastid" evidence=IDA

GO:0004176 "ATP-dependent peptidase activity" evidence=IDA

TAIR|locus:2099433 HSP93-III [Arabidopsis thaliana (taxid:3702)]

 Score = 828 (296.5 bits), Expect = 1.3e-82, P = 1.3e-82
 Identities = 165/290 (56%), Positives = 218/290 (75%)

Query:     3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV 62
             + RARVG+++PNRPI+SF+F+GPTGVGK+ELA ALA  YFGS+EAM+R+DMSE+ME+HTV
Sbjct:   645 IRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHTV 704

Query:    63 SKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK 122
             SK  GSPPGYVG+  GGQLTEAVR RP++++LFDEIEKAH DV N+MLQ+L+DGR+TD K
Sbjct:   705 SKLIGSPPGYVGYTEGGQLTEAVRRRPYTLVLFDEIEKAHPDVFNMMLQILEDGRLTDSK 764

Query:   123 GQTVDLKNTIIIMTSNIGDSVIAR--ESI---LGSDQMERG-------VAXXXXXXXXXX 170
             G+TVD KNT++IMTSN+G SVI +    I   L  D+ +         V           
Sbjct:   765 GRTVDFKNTLLIMTSNVGSSVIEKGGRRIGFDLDHDEKDSSYNRIKSLVTEELKQYFRPE 824

Query:   171 XXXXIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSY 230
                 +DE+IVFRQL K+++ EI DIMLKE+  RLE K +EL VT  FK+++++EG++PSY
Sbjct:   825 FLNRLDEMIVFRQLTKLEVKEIADIMLKEVVARLEVKEIELQVTERFKERVVDEGFDPSY 884

Query:   231 GARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNG 280
             GARPLRRAI RLLED++AE +L+  I+ GDSV +D D+ G+V++     G
Sbjct:   885 GARPLRRAIMRLLEDSMAEKMLSRDIKEGDSVIVDVDAEGSVVVLSGTTG 934

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0004518 "nuclease activity" evidence=IEA

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

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

GO:0009507 "chloroplast" evidence=ISM;IDA

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

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

GO:0019538 "protein metabolic process" evidence=IEA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009532 "plastid stroma" evidence=IDA

GO:0005739 "mitochondrion" evidence=IDA

GO:0009658 "chloroplast organization" evidence=ISS

GO:0045037 "protein import into chloroplast stroma" evidence=ISS

GO:0016020 "membrane" evidence=IDA

GO:0034214 "protein hexamerization" evidence=IDA

GO:0042803 "protein homodimerization activity" evidence=IDA

GO:0009536 "plastid" evidence=IDA

UNIPROTKB|Q3A9N1 CHY_2348 "Negative regulator of genetic competence clpC/mecB" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 723 (259.6 bits), Expect = 1.8e-71, P = 1.8e-71
 Identities = 143/276 (51%), Positives = 199/276 (72%)

Query:     3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV 62
             + RAR G++DP RPI SF+F GPTGVGKTELA ALA   FG ++A++RIDMSEYMEKHTV
Sbjct:   529 VRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAEALFGDEDALIRIDMSEYMEKHTV 588

Query:    63 SKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK 122
             ++  G+PPGYVG+E GGQLTEAVR +P+SVIL DEIEKAH +V N++LQ+L+DGR+TD K
Sbjct:   589 ARLIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPEVFNILLQVLEDGRLTDSK 648

Query:   123 GQTVDLKNTIIIMTSNIGDSVIARESILG----SDQ-----MERGVAXXXXXXXXXXXXX 173
             G+TVD KNT+IIMTSNIG  +I +E+ LG    +D+     ++  +              
Sbjct:   649 GRTVDFKNTVIIMTSNIGAHLIKKEARLGFKNVADEKKEEDIKEKLMAELKRTFRPEFLN 708

Query:   174 XIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR 233
              IDE+IVF  L +  L +IV +MLKE+ +RLE + M++    +  + +++EGY+ ++GAR
Sbjct:   709 RIDEIIVFHSLTEEHLKQIVRLMLKEVGKRLEEQEMKVEFDDSLIEVILKEGYDEAFGAR 768

Query:   234 PLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSG 269
             PLRRAI +++ED L+E +L G I+ GD+V +  + G
Sbjct:   769 PLRRAIQKIVEDKLSEELLLGNIKKGDTVKLYAEDG 804

GO:0003674 "molecular_function" evidence=ND

GO:0009294 "DNA mediated transformation" evidence=ISS

TIGR_CMR|CHY_2348 CHY_2348 "negative regulator of genetic competence clpC/mecB" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 723 (259.6 bits), Expect = 1.8e-71, P = 1.8e-71
 Identities = 143/276 (51%), Positives = 199/276 (72%)

Query:     3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV 62
             + RAR G++DP RPI SF+F GPTGVGKTELA ALA   FG ++A++RIDMSEYMEKHTV
Sbjct:   529 VRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAEALFGDEDALIRIDMSEYMEKHTV 588

Query:    63 SKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK 122
             ++  G+PPGYVG+E GGQLTEAVR +P+SVIL DEIEKAH +V N++LQ+L+DGR+TD K
Sbjct:   589 ARLIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPEVFNILLQVLEDGRLTDSK 648

Query:   123 GQTVDLKNTIIIMTSNIGDSVIARESILG----SDQ-----MERGVAXXXXXXXXXXXXX 173
             G+TVD KNT+IIMTSNIG  +I +E+ LG    +D+     ++  +              
Sbjct:   649 GRTVDFKNTVIIMTSNIGAHLIKKEARLGFKNVADEKKEEDIKEKLMAELKRTFRPEFLN 708

Query:   174 XIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR 233
              IDE+IVF  L +  L +IV +MLKE+ +RLE + M++    +  + +++EGY+ ++GAR
Sbjct:   709 RIDEIIVFHSLTEEHLKQIVRLMLKEVGKRLEEQEMKVEFDDSLIEVILKEGYDEAFGAR 768

Query:   234 PLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSG 269
             PLRRAI +++ED L+E +L G I+ GD+V +  + G
Sbjct:   769 PLRRAIQKIVEDKLSEELLLGNIKKGDTVKLYAEDG 804

GO:0003674 "molecular_function" evidence=ND

GO:0009294 "DNA mediated transformation" evidence=ISS

TAIR|locus:2157363 ERD1 "EARLY RESPONSIVE TO DEHYDRATION 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 715 (256.8 bits), Expect = 1.3e-70, P = 1.3e-70
 Identities = 144/295 (48%), Positives = 200/295 (67%)

Query:     3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV 62
             ++R+RVG++DP+RPI++ LF GPTGVGKTEL  ALA  YFGS+E+M+R+DMSEYME+HTV
Sbjct:   643 VKRSRVGLKDPDRPIAAMLFCGPTGVGKTELTKALAANYFGSEESMLRLDMSEYMERHTV 702

Query:    63 SKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK 122
             SK  GSPPGYVGFE GG LTEA+R RP +V+LFDEIEKAH D+ N++LQL +DG +TD +
Sbjct:   703 SKLIGSPPGYVGFEEGGMLTEAIRRRPFTVVLFDEIEKAHPDIFNILLQLFEDGHLTDSQ 762

Query:   123 GQTVDLKNTIIIMTSNIGDSVIARES------ILGSDQ-------MERGVAXXXXXXXXX 169
             G+ V  KN +IIMTSN+G   IA+        IL  D+       M+  V          
Sbjct:   763 GRRVSFKNALIIMTSNVGSLAIAKGRHGSIGFILDDDEEAASYTGMKALVVEELKNYFRP 822

Query:   170 XXXXXIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
                  IDE+++FRQL K Q+MEI+++ML+++  RL A  + L V+   K+ + ++GY+P+
Sbjct:   823 ELLNRIDEIVIFRQLEKAQMMEILNLMLQDLKSRLVALGVGLEVSEPVKELICKQGYDPA 882

Query:   230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGSMTV 284
             YGARPLRR +  ++ED L+E  L G  + GD+  +  D  GN  + R +  S T+
Sbjct:   883 YGARPLRRTVTEIVEDPLSEAFLAGSFKPGDTAFVVLDDTGNPSV-RTKPDSSTI 936

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0009507 "chloroplast" evidence=ISM;IDA

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

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

GO:0019538 "protein metabolic process" evidence=IEA

GO:0009570 "chloroplast stroma" evidence=IDA;TAS

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0034214 "protein hexamerization" evidence=IDA

GO:0042803 "protein homodimerization activity" evidence=IDA

GO:0009646 "response to absence of light" evidence=RCA

UNIPROTKB|P63284 clpB "ClpB chaperone" [Escherichia coli K-12 (taxid:83333)]

 Score = 699 (251.1 bits), Expect = 6.3e-69, P = 6.3e-69
 Identities = 140/264 (53%), Positives = 182/264 (68%)

Query:     3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV 62
             + R+R G+ DPNRPI SFLF GPTGVGKTEL  ALA   F S EAMVRIDMSE+MEKH+V
Sbjct:   584 IRRSRAGLADPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDEAMVRIDMSEFMEKHSV 643

Query:    63 SKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK 122
             S+  G+PPGYVG+E GG LTEAVR RP+SVIL DE+EKAH DV N++LQ+LDDGR+TDG+
Sbjct:   644 SRLVGAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQ 703

Query:   123 GQTVDLKNTIIIMTSNIGDSVIA-RESILGSDQMERGVAXXXXXXXXXXXXXXIDEVIVF 181
             G+TVD +NT++IMTSN+G  +I  R   L    M+  V               IDEV+VF
Sbjct:   704 GRTVDFRNTVVIMTSNLGSDLIQERFGELDYAHMKELVLGVVSHNFRPEFINRIDEVVVF 763

Query:   182 RQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGR 241
               L +  +  I  I LK +Y+RLE +  E+ ++    K L E GY+P YGARPL+RAI +
Sbjct:   764 HPLGEQHIASIAQIQLKRLYKRLEERGYEIHISDEALKLLSENGYDPVYGARPLKRAIQQ 823

Query:   242 LLEDNLAEIILTGYIQVGDSVTMD 265
              +E+ LA+ IL+G +  G  + ++
Sbjct:   824 QIENPLAQQILSGELVPGKVIRLE 847

GO:0042802 "identical protein binding" evidence=IPI

GO:0019538 "protein metabolic process" evidence=IEA

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

GO:0016485 "protein processing" evidence=IEA

GO:0009408 "response to heat" evidence=IEA

GO:0006986 "response to unfolded protein" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0005524 "ATP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q6H795 CLPD1 "Chaperone protein ClpD1, chloroplastic" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 698 (250.8 bits), Expect = 8.0e-69, P = 8.0e-69
 Identities = 143/288 (49%), Positives = 196/288 (68%)

Query:     3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV 62
             ++R+RVG+ DP+RPI++ LF GPTGVGKTEL  ALA  YFGS+ AM+R+DMSEYME+HTV
Sbjct:   639 VKRSRVGLNDPDRPIATLLFCGPTGVGKTELTKALAASYFGSESAMLRLDMSEYMERHTV 698

Query:    63 SKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK 122
             SK  GSPPGY+G+   G LTEAVR +P +V+L DEIEKAH D+ N++LQ+ +DG ++D +
Sbjct:   699 SKLIGSPPGYIGYGETGTLTEAVRRKPFTVVLLDEIEKAHPDIFNILLQIFEDGHLSDSQ 758

Query:   123 GQTVDLKNTIIIMTSNIGDSVIA--RESI--LGSDQ-------MERGVAXXXXXXXXXXX 171
             G+ V  KNT+I+MTSNIG + I+  R S+  +  D        M+  V            
Sbjct:   759 GRRVSFKNTLIVMTSNIGSTSISKGRRSMGFMTEDTESSSYVAMKSLVMEELKAFFRPEL 818

Query:   172 XXXIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYG 231
                IDE++VFR L K Q++ I+DI+L+E+  RL A  + L V+   K  + EEGY+ SYG
Sbjct:   819 LNRIDEMVVFRPLEKTQMLAILDIILQEVKGRLLALGIGLEVSDAMKDLICEEGYDKSYG 878

Query:   232 ARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRN 279
             ARPLRRA+  L+ED ++E IL G  + GD++ MD D+GG + M  H N
Sbjct:   879 ARPLRRAVTHLIEDVISEAILFGEYKPGDTILMDIDAGGKLCM-SHLN 925

GO:0034605 "cellular response to heat" evidence=IGI

UNIPROTKB|Q81VV9 BAS0081 "Negative regulator of genetic competence ClpC/MecB" [Bacillus anthracis (taxid:1392)]

 Score = 698 (250.8 bits), Expect = 8.0e-69, P = 8.0e-69
 Identities = 140/280 (50%), Positives = 187/280 (66%)

Query:     3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV 62
             + RAR G++DP RPI SF+F GPTGVGKTELA ALA   FG ++AM+RIDMSEYMEKH+ 
Sbjct:   525 VRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESMFGDEDAMIRIDMSEYMEKHST 584

Query:    63 SKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK 122
             S+  GSPPGYVG+E GGQLTE VR +P+SV+L DE+EKAH DV N++LQ+L+DGR+TD K
Sbjct:   585 SRLVGSPPGYVGYEEGGQLTEKVRRKPYSVVLLDEVEKAHPDVFNILLQVLEDGRLTDSK 644

Query:   123 GQTVDLKNTIIIMTSNIGDSVIARESILG---SDQ------MERGVAXXXXXXXXXXXXX 173
             G+TVD +NTI+IMTSN+G   + R   LG    D+      M+  V              
Sbjct:   645 GRTVDFRNTIVIMTSNVGAEALKRNKHLGFNVQDESRDYSDMKGKVMDELKKAFRPEFLN 704

Query:   174 XIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR 233
              IDE+IVF  L K  + EIV +M+ ++  RL+ + +EL +T      + ++G++  YGAR
Sbjct:   705 RIDEIIVFHMLEKKHIQEIVTLMVNQLVNRLKEQEIELHLTEGAISAIADKGFDREYGAR 764

Query:   234 PLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVI 273
             PLRRAI + +ED L+E +L G I+ G  V  D +    VI
Sbjct:   765 PLRRAIQKHVEDRLSEELLKGAIEKGQKVIFDVEGESFVI 804

GO:0003674 "molecular_function" evidence=ND

TIGR_CMR|BA_0080 BA_0080 "negative regulator of genetic competence ClpC/MecB" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 698 (250.8 bits), Expect = 8.0e-69, P = 8.0e-69
 Identities = 140/280 (50%), Positives = 187/280 (66%)

Query:     3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV 62
             + RAR G++DP RPI SF+F GPTGVGKTELA ALA   FG ++AM+RIDMSEYMEKH+ 
Sbjct:   525 VRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESMFGDEDAMIRIDMSEYMEKHST 584

Query:    63 SKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK 122
             S+  GSPPGYVG+E GGQLTE VR +P+SV+L DE+EKAH DV N++LQ+L+DGR+TD K
Sbjct:   585 SRLVGSPPGYVGYEEGGQLTEKVRRKPYSVVLLDEVEKAHPDVFNILLQVLEDGRLTDSK 644

Query:   123 GQTVDLKNTIIIMTSNIGDSVIARESILG---SDQ------MERGVAXXXXXXXXXXXXX 173
             G+TVD +NTI+IMTSN+G   + R   LG    D+      M+  V              
Sbjct:   645 GRTVDFRNTIVIMTSNVGAEALKRNKHLGFNVQDESRDYSDMKGKVMDELKKAFRPEFLN 704

Query:   174 XIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR 233
              IDE+IVF  L K  + EIV +M+ ++  RL+ + +EL +T      + ++G++  YGAR
Sbjct:   705 RIDEIIVFHMLEKKHIQEIVTLMVNQLVNRLKEQEIELHLTEGAISAIADKGFDREYGAR 764

Query:   234 PLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVI 273
             PLRRAI + +ED L+E +L G I+ G  V  D +    VI
Sbjct:   765 PLRRAIQKHVEDRLSEELLKGAIEKGQKVIFDVEGESFVI 804

GO:0003674 "molecular_function" evidence=ND

GO:0009294 "DNA mediated transformation" evidence=ISS

TIGR_CMR|GSU_0658 GSU_0658 "ClpB protein" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 693 (249.0 bits), Expect = 2.7e-68, P = 2.7e-68
 Identities = 137/272 (50%), Positives = 186/272 (68%)

Query:     3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV 62
             + RAR G+ DPNRPI SFLF GPTGVGKTE A ALA   F   +A+VRIDMSEY EKHTV
Sbjct:   590 IRRARSGLSDPNRPIGSFLFLGPTGVGKTETAKALAEFLFNDDQAIVRIDMSEYQEKHTV 649

Query:    63 SKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK 122
             ++  G+PPGYVG+E GGQLTEAVR RP+S++LFDEIEKAH +V NV+LQ+LDDGR+TDG+
Sbjct:   650 ARLIGAPPGYVGYEEGGQLTEAVRRRPYSIVLFDEIEKAHPEVFNVLLQVLDDGRLTDGQ 709

Query:   123 GQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAXXXXXXXXXXXXXXIDEVIVFR 182
             G+TVD +NT+IIMTSN+G   I +       +M+  V               IDE++++ 
Sbjct:   710 GRTVDFRNTVIIMTSNLGSQWIQQYGSSDYARMKAMVTETLKEGFKPEFLNRIDEIVIYH 769

Query:   183 QLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL 242
              L   Q+ +IVDI ++ + +RL  + + L ++   ++ L  EGY+P+YGARPL+R I R 
Sbjct:   770 ALPLEQIKKIVDIQVECLKQRLADRRIVLELSDKAREYLSREGYDPAYGARPLKRTIQRK 829

Query:   243 LEDNLAEIILTGYIQVGDSVTMDCDSGGNVIM 274
             ++D LA  +L G  Q GD+V +D    G  ++
Sbjct:   830 IQDPLALALLEGKFQEGDTVRVDLSVSGEELV 861

GO:0006508 "proteolysis" evidence=ISS

GO:0008233 "peptidase activity" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_LG_V001142 hypothetical protein (643 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	287
CHL00095	821	CHL00095, clpC, Clp protease ATP binding subunit	1e-138
COG0542	786	COG0542, clpA, ATP-binding subunits of Clp proteas	1e-131
TIGR03346	852	TIGR03346, chaperone_ClpB, ATP-dependent chaperone	1e-131
PRK10865	857	PRK10865, PRK10865, protein disaggregation chapero	1e-106
TIGR02639	730	TIGR02639, ClpA, ATP-dependent Clp protease ATP-bi	3e-98
pfam07724	168	pfam07724, AAA_2, AAA domain (Cdc48 subfamily)	3e-87
PRK11034	758	PRK11034, clpA, ATP-dependent Clp protease ATP-bin	3e-72
TIGR03345	852	TIGR03345, VI_ClpV1, type VI secretion ATPase, Clp	9e-70
pfam10431	81	pfam10431, ClpB_D2-small, C-terminal, D2-small dom	2e-26
smart01086	90	smart01086, ClpB_D2-small, C-terminal, D2-small do	1e-24
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	1e-19
smart00382	148	smart00382, AAA, ATPases associated with a variety	1e-14
pfam07728	135	pfam07728, AAA_5, AAA domain (dynein-related subfa	6e-11
COG0714	329	COG0714, COG0714, MoxR-like ATPases [General funct	2e-10
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	9e-10
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	3e-07
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	5e-05
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	1e-04
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	5e-04
pfam13401	124	pfam13401, AAA_22, AAA domain	5e-04
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	0.002
PRK11331	459	PRK11331, PRK11331, 5-methylcytosine-specific rest	0.004
COG1221	403	COG1221, PspF, Transcriptional regulators containi	0.004

>gnl|CDD|214361 CHL00095, clpC, Clp protease ATP binding subunit

 Score =  409 bits (1052), Expect = e-138
 Identities = 170/286 (59%), Positives = 215/286 (75%), Gaps = 13/286 (4%)

Query: 3   LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV 62
           + RARVG+++PNRPI+SFLF+GPTGVGKTEL  ALA  +FGS++AM+R+DMSEYMEKHTV
Sbjct: 525 IRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHTV 584

Query: 63  SKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK 122
           SK  GSPPGYVG+  GGQLTEAVR +P++V+LFDEIEKAH D+ N++LQ+LDDGR+TD K
Sbjct: 585 SKLIGSPPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSK 644

Query: 123 GQTVDLKNTIIIMTSNIGDSVIARES-ILGSDQMERG------------VAEELRRRFRP 169
           G+T+D KNT+IIMTSN+G  VI   S  LG +  E              V EEL++ FRP
Sbjct: 645 GRTIDFKNTLIIMTSNLGSKVIETNSGGLGFELSENQLSEKQYKRLSNLVNEELKQFFRP 704

Query: 170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS 229
           EFLNR+DE+IVFRQL K  + EI +IMLK +++RL  + ++L VT   K  LIEEGYNP 
Sbjct: 705 EFLNRLDEIIVFRQLTKNDVWEIAEIMLKNLFKRLNEQGIQLEVTERIKTLLIEEGYNPL 764

Query: 230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMY 275
           YGARPLRRAI RLLED LAE +L+  I+ GD + +D +    V + 
Sbjct: 765 YGARPLRRAIMRLLEDPLAEEVLSFKIKPGDIIIVDVNDEKEVKIL 810

Length = 821

>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

 Score =  390 bits (1005), Expect = e-131
 Identities = 157/273 (57%), Positives = 199/273 (72%), Gaps = 4/273 (1%)

Query: 5   RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSK 64
           RAR G+ DPNRPI SFLF GPTGVGKTELA ALA   FG ++A++RIDMSEYMEKH+VS+
Sbjct: 509 RARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSR 568

Query: 65  FFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQ 124
             G+PPGYVG+E GGQLTEAVR +P+SVIL DEIEKAH DV N++LQ+LDDGR+TDG+G+
Sbjct: 569 LIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGR 628

Query: 125 TVDLKNTIIIMTSNIGDSVIARESILGS----DQMERGVAEELRRRFRPEFLNRIDEVIV 180
           TVD +NTIIIMTSN G   I R++        + ++  V EEL++ FRPEFLNRIDE+I 
Sbjct: 629 TVDFRNTIIIMTSNAGSEEILRDADGDDFADKEALKEAVMEELKKHFRPEFLNRIDEIIP 688

Query: 181 FRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG 240
           F  L+K  L  IVD+ L  + +RL  + + L ++   K  L E+GY+P YGARPLRRAI 
Sbjct: 689 FNPLSKEVLERIVDLQLNRLAKRLAERGITLELSDEAKDFLAEKGYDPEYGARPLRRAIQ 748

Query: 241 RLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVI 273
           + +ED LA+ IL G I+ G +V +D D      
Sbjct: 749 QEIEDPLADEILFGKIEDGGTVKVDVDDEKIKF 781

Length = 786

>gnl|CDD|234173 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB

 Score =  391 bits (1006), Expect = e-131
 Identities = 151/267 (56%), Positives = 196/267 (73%), Gaps = 1/267 (0%)

Query: 5   RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSK 64
           R+R G+ DPNRPI SFLF GPTGVGKTELA ALA   F  ++AMVRIDMSEYMEKH+V++
Sbjct: 583 RSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYMEKHSVAR 642

Query: 65  FFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQ 124
             G+PPGYVG+E GGQLTEAVR +P+SV+LFDE+EKAH DV NV+LQ+LDDGR+TDG+G+
Sbjct: 643 LIGAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGR 702

Query: 125 TVDLKNTIIIMTSNIGDSVIARESILGS-DQMERGVAEELRRRFRPEFLNRIDEVIVFRQ 183
           TVD +NT+IIMTSN+G   I   +     ++M   V E LR  FRPEFLNRIDE++VF  
Sbjct: 703 TVDFRNTVIIMTSNLGSQFIQELAGGDDYEEMREAVMEVLRAHFRPEFLNRIDEIVVFHP 762

Query: 184 LNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL 243
           L + Q+  IV+I L  + +RL  + + L ++      L E GY+P YGARPL+RAI R +
Sbjct: 763 LGREQIARIVEIQLGRLRKRLAERKITLELSDAALDFLAEAGYDPVYGARPLKRAIQREI 822

Query: 244 EDNLAEIILTGYIQVGDSVTMDCDSGG 270
           E+ LA+ IL G +  GD++ +D + G 
Sbjct: 823 ENPLAKKILAGEVADGDTIVVDVEGGR 849

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 [Protein fate, Protein folding and stabilization]. Length = 852

>gnl|CDD|182791 PRK10865, PRK10865, protein disaggregation chaperone; Provisional

 Score =  327 bits (841), Expect = e-106
 Identities = 145/268 (54%), Positives = 192/268 (71%), Gaps = 1/268 (0%)

Query: 3   LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV 62
           + R+R G+ DPNRPI SFLF GPTGVGKTEL  ALA   F S +AMVRIDMSE+MEKH+V
Sbjct: 584 IRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEKHSV 643

Query: 63  SKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK 122
           S+  G+PPGYVG+E GG LTEAVR RP+SVIL DE+EKAH DV N++LQ+LDDGR+TDG+
Sbjct: 644 SRLVGAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQ 703

Query: 123 GQTVDLKNTIIIMTSNIGDSVIA-RESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVF 181
           G+TVD +NT++IMTSN+G  +I  R   L    M+  V   +   FRPEF+NRIDEV+VF
Sbjct: 704 GRTVDFRNTVVIMTSNLGSDLIQERFGELDYAHMKELVLGVVSHNFRPEFINRIDEVVVF 763

Query: 182 RQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGR 241
             L +  +  I  I L+ +Y+RLE +  E+ ++    K L E GY+P YGARPL+RAI +
Sbjct: 764 HPLGEQHIASIAQIQLQRLYKRLEERGYEIHISDEALKLLSENGYDPVYGARPLKRAIQQ 823

Query: 242 LLEDNLAEIILTGYIQVGDSVTMDCDSG 269
            +E+ LA+ IL+G +  G  + ++ +  
Sbjct: 824 QIENPLAQQILSGELVPGKVIRLEVNDD 851

Length = 857

>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit clpA

 Score =  303 bits (778), Expect = 3e-98
 Identities = 128/265 (48%), Positives = 176/265 (66%), Gaps = 4/265 (1%)

Query: 3   LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV 62
           ++R+R G+ DPN+P+ SFLF GPTGVGKTELA  LA E  G    ++R DMSEYMEKHTV
Sbjct: 469 IKRSRAGLGDPNKPVGSFLFVGPTGVGKTELAKQLA-EELGV--HLLRFDMSEYMEKHTV 525

Query: 63  SKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK 122
           S+  GSPPGYVGFE GG LT+AVR  PH V+L DEIEKAH D+ N++LQ++D   +TD  
Sbjct: 526 SRLIGSPPGYVGFEQGGLLTDAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNN 585

Query: 123 GQTVDLKNTIIIMTSNIGDSVIARESI-LGSDQMERGVAEELRRRFRPEFLNRIDEVIVF 181
           G+  D +N I+IMTSN G S +++  I  G +  E    + +++ F PEF NR+D +I F
Sbjct: 586 GRKADFRNVILIMTSNAGASEMSKPPIGFGGENSESKSLKAIKKLFSPEFRNRLDAIIHF 645

Query: 182 RQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGR 241
             L++    +IV   L E+ ++L  KN+EL +T   KK L E+GY+  +GARPL R I  
Sbjct: 646 NDLSEEMAEKIVKKFLDELQDQLNEKNIELELTDDAKKYLAEKGYDEEFGARPLARVIQE 705

Query: 242 LLEDNLAEIILTGYIQVGDSVTMDC 266
            ++  L++ IL G ++ G SV +  
Sbjct: 706 EIKKPLSDEILFGKLKKGGSVKISL 730

[Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 730

>gnl|CDD|219536 pfam07724, AAA_2, AAA domain (Cdc48 subfamily)

 Score =  257 bits (659), Expect = 3e-87
 Identities = 93/168 (55%), Positives = 121/168 (72%), Gaps = 4/168 (2%)

Query: 15  RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVG 74
           RPI SFLF GPTGVGKTELA ALA   FG + A++RIDMSEYME+H+VS+  G+PPGYVG
Sbjct: 1   RPIGSFLFLGPTGVGKTELAKALAELLFGDERALIRIDMSEYMEEHSVSRLIGAPPGYVG 60

Query: 75  FENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIII 134
           +E GGQLTEAVR +P+S++L DEIEKAH  V N +LQ+L+ G +TD +G+ VD +NT+ I
Sbjct: 61  YEEGGQLTEAVRRKPYSIVLIDEIEKAHPGVQNDLLQILEGGTLTDKQGRKVDFRNTLFI 120

Query: 135 MTSNIGDSVIARESILGSD----QMERGVAEELRRRFRPEFLNRIDEV 178
           MT N G   I+  S LG       ++  V + L++ F PEFL R+  +
Sbjct: 121 MTGNFGSEKISDASRLGDSPDYELLKELVMDLLKKGFIPEFLGRLPII 168

This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model. Length = 168

>gnl|CDD|236828 PRK11034, clpA, ATP-dependent Clp protease ATP-binding subunit; Provisional

 Score =  235 bits (602), Expect = 3e-72
 Identities = 118/282 (41%), Positives = 173/282 (61%), Gaps = 12/282 (4%)

Query: 6   ARVGIRDPNRPISSFLFTGPTGVGKTE----LANALAFEYFGSKEAMVRIDMSEYMEKHT 61
           +R G+   ++P+ SFLF GPTGVGKTE    L+ AL  E       ++R DMSEYME+HT
Sbjct: 477 SRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIE-------LLRFDMSEYMERHT 529

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VS+  G+PPGYVGF+ GG LT+AV   PH+V+L DEIEKAH DV N++LQ++D+G +TD 
Sbjct: 530 VSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDN 589

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVA-EELRRRFRPEFLNRIDEVIV 180
            G+  D +N +++MT+N G     R+SI    Q     A EE+++ F PEF NR+D +I 
Sbjct: 590 NGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIW 649

Query: 181 FRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG 240
           F  L+   + ++VD  + E+  +L+ K + L V+   +  L E+GY+ + GARP+ R I 
Sbjct: 650 FDHLSTDVIHQVVDKFIVELQAQLDQKGVSLEVSQEARDWLAEKGYDRAMGARPMARVIQ 709

Query: 241 RLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGSM 282
             L+  LA  +L G +  G  VT+  D   N + Y  ++   
Sbjct: 710 DNLKKPLANELLFGSLVDGGQVTVALDKEKNELTYGFQSAQK 751

Length = 758

>gnl|CDD|234172 TIGR03345, VI_ClpV1, type VI secretion ATPase, ClpV1 family

 Score =  230 bits (589), Expect = 9e-70
 Identities = 97/218 (44%), Positives = 133/218 (61%), Gaps = 13/218 (5%)

Query: 6   ARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKF 65
           AR G+ DP +P+  FL  GP+GVGKTE A ALA   +G ++ ++ I+MSE+ E HTVS+ 
Sbjct: 585 ARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEAHTVSRL 644

Query: 66  FGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQT 125
            GSPPGYVG+  GG LTEAVR +P+SV+L DE+EKAH DVL +  Q+ D G + DG+G+ 
Sbjct: 645 KGSPPGYVGYGEGGVLTEAVRRKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGRE 704

Query: 126 VDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAE--------ELRRRFRPEFLNRIDE 177
           +D KNT+I++TSN G  +I     L +D       E        EL + F+P FL R+  
Sbjct: 705 IDFKNTVILLTSNAGSDLIMA---LCADPETAPDPEALLEALRPELLKVFKPAFLGRM-T 760

Query: 178 VIVFRQLNKMQLMEIVDIMLKEIYERLEAK-NMELTVT 214
           VI +  L+   L  IV + L  I  RL+     EL  +
Sbjct: 761 VIPYLPLDDDVLAAIVRLKLDRIARRLKENHGAELVYS 798

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 [Protein fate, Protein and peptide secretion and trafficking, Cellular processes, Pathogenesis]. Length = 852

>gnl|CDD|204486 pfam10431, ClpB_D2-small, C-terminal, D2-small domain, of ClpB protein

 Score = 98.6 bits (247), Expect = 2e-26
 Identities = 40/80 (50%), Positives = 56/80 (70%)

Query: 184 LNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL 243
           L+K +L +IVD+ LK + +RL  + + L +T   K  L E+GY+P YGARPLRRAI R +
Sbjct: 1   LSKEELRQIVDLQLKRLQKRLAERGITLELTDAAKDWLAEKGYDPEYGARPLRRAIQREI 60

Query: 244 EDNLAEIILTGYIQVGDSVT 263
           ED LAE IL+G ++ GD+V 
Sbjct: 61  EDPLAEEILSGELKEGDTVR 80

This is the C-terminal domain of ClpB protein, referred to as the D2-small domain, and is a mixed alpha-beta structure. Compared with the D1-small domain (included in AAA, pfam00004) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighboring subunit and thereby providing enough binding energy to stabilise the functional assembly. The domain is associated with two Clp_N, pfam02861, at the N-terminus as well as AAA, pfam00004 and AAA_2, pfam07724. Length = 81

>gnl|CDD|198154 smart01086, ClpB_D2-small, C-terminal, D2-small domain, of ClpB protein

 Score = 94.0 bits (235), Expect = 1e-24
 Identities = 43/90 (47%), Positives = 57/90 (63%)

Query: 184 LNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL 243
           L+K  L+ IVD+ L  + +RL  K + L  T      L E+GY+P YGARPLRR I R L
Sbjct: 1   LDKEDLVRIVDLPLNALQKRLAEKGITLEFTDEALDWLAEKGYDPKYGARPLRRIIQREL 60

Query: 244 EDNLAEIILTGYIQVGDSVTMDCDSGGNVI 273
           ED LAE+IL+G ++ GD+V +D D G  V 
Sbjct: 61  EDPLAELILSGELKDGDTVVVDVDDGELVF 90

This is the C-terminal domain of ClpB protein, referred to as the D2-small domain, and is a mixed alpha-beta structure. Compared with the D1-small domain (included in AAA) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighbouring subunit and thereby providing enough binding energy to stabilise the functional assembly. The domain is associated with two Clp_N at the N-terminus as well as AAA and AAA_2. Length = 90

>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 = 83.0 bits (205), Expect = 1e-19
 Identities = 38/183 (20%), Positives = 60/183 (32%), Gaps = 34/183 (18%)

Query: 1   MTLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKH 60
                  +       P  + L  GP G GKT LA A+A E F      + ++ S+ +E  
Sbjct: 3   QEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGL 62

Query: 61  TVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTD 120
            V++ F       G      L E        V+  DEI+   R   N +L++L+      
Sbjct: 63  VVAELF-------GHFLVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDL- 114

Query: 121 GKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIV 180
                +D +N  +I  +N                        L         +R+D  IV
Sbjct: 115 ----RIDRENVRVIGATN----------------------RPLLGDLDRALYDRLDIRIV 148

Query: 181 FRQ 183
              
Sbjct: 149 IPL 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|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 69.3 bits (169), Expect = 1e-14
 Identities = 33/137 (24%), Positives = 48/137 (35%), Gaps = 7/137 (5%)

Query: 21  LFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSK----FFGSPPGYVGFE 76
           L  GP G GKT LA ALA E       ++ ID  + +E+           G      G  
Sbjct: 6   LIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGEL 65

Query: 77  NGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMT 136
                    R     V++ DEI          +L LL++ R+          KN  +I+T
Sbjct: 66  RLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSE---KNLTVILT 122

Query: 137 SNIGDSVIARESILGSD 153
           +N    +         D
Sbjct: 123 TNDEKDLGPALLRRRFD 139

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|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily)

 Score = 58.8 bits (143), Expect = 6e-11
 Identities = 45/158 (28%), Positives = 61/158 (38%), Gaps = 32/158 (20%)

Query: 19  SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGS---PPGYVGF 75
             L  GP G GK+ELA  LA          V+  ++      T     G     PG   +
Sbjct: 1   GVLLVGPPGTGKSELAERLAAALSNRPVFYVQ--LTRDT---TEEDLKGRRNIDPGGASW 55

Query: 76  ENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGR--VTDGKGQT-VDLKNTI 132
            +G  L  A R     + + DEI +A+ DVLN +L LLD+ R  + +G            
Sbjct: 56  VDGP-LVRAAREG--EIAVLDEINRANPDVLNSLLSLLDERRLLLPEGGELVKAAPDGFR 112

Query: 133 IIMTSNIGDSVIARESILGSDQMERGVAE---ELRRRF 167
           +I T N  D               RG+ E    LR RF
Sbjct: 113 LIATMNPLD---------------RGLNELSPALRSRF 135

This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model. Length = 135

>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction only]

 Score = 60.1 bits (146), Expect = 2e-10
 Identities = 48/155 (30%), Positives = 65/155 (41%), Gaps = 29/155 (18%)

Query: 21  LFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSP------PGYVG 74
           L  GP GVGKT LA ALA    G     VRI  +  +     S   G+            
Sbjct: 47  LLEGPPGVGKTLLARALA-RALGLP--FVRIQCTPDLLP---SDLLGTYAYAALLLEPGE 100

Query: 75  FEN-GGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKN-TI 132
           F    G L  AVR     ++L DEI +A  +V N +L+ L++ +VT     T+ L    I
Sbjct: 101 FRFVPGPLFAAVRV----ILLLDEINRAPPEVQNALLEALEERQVTVPGLTTIRLPPPFI 156

Query: 133 IIMTSNIGDSVIARESILGSDQMERGVAEELRRRF 167
           +I T N G+         G+  +     E L  RF
Sbjct: 157 VIATQNPGE-------YEGTYPLP----EALLDRF 180

Length = 329

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

 Score = 55.3 bits (134), Expect = 9e-10
 Identities = 40/136 (29%), Positives = 52/136 (38%), Gaps = 32/136 (23%)

Query: 21  LFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQ 80
           L  GP G GKT LA A+A E        + I  SE      VSK+ G     +      +
Sbjct: 2   LLYGPPGTGKTTLAKAVAKE---LGAPFIEISGSE-----LVSKYVGESEKRL-----RE 48

Query: 81  LTEAVRHRPHSVILFDEIEK-----------AHRDVLNVMLQLLDDGRVTDGKGQTVDLK 129
           L EA +     VI  DEI+              R V+N +L  LD        G T  L 
Sbjct: 49  LFEAAKKLAPCVIFIDEIDALAGSRGSGGDSESRRVVNQLLTELD--------GFTSSLS 100

Query: 130 NTIIIMTSNIGDSVIA 145
             I+I  +N  D +  
Sbjct: 101 KVIVIAATNRPDKLDP 116

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

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 51.5 bits (123), Expect = 3e-07
 Identities = 49/193 (25%), Positives = 82/193 (42%), Gaps = 12/193 (6%)

Query: 15  RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSP-PGYV 73
            PI      G  G GK+ L + L  +  G +  +V I + E  +   +   + SP PG  
Sbjct: 150 VPI---YLEGGRGSGKSFLISELC-DEGGQR--IVEIHLREITDAKVLIGTYTSPKPGDF 203

Query: 74  GFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVT-DGKGQTVDLKNTI 132
            +   G L EAV       ILF  I+KA   VL+ +L LL+  R+    +G+TV   +  
Sbjct: 204 EWM-KGVLIEAVVS--GDWILFKRIDKAPHGVLSYLLTLLEKRRLLIPSRGETVLAHDNF 260

Query: 133 -IIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLME 191
            I  TS++   ++ +      D  +     E+ R   P+ +     + VF +  +M   +
Sbjct: 261 QIFFTSSMKTKILGQRLWQILDLTQPDECVEVVRFDMPDLVFVGPLLFVFYKAIEMFEAQ 320

Query: 192 IVDIMLKEIYERL 204
               +L +IY   
Sbjct: 321 CTFRLLTKIYRVF 333

Length = 4600

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

 Score = 44.0 bits (104), Expect = 5e-05
 Identities = 44/148 (29%), Positives = 68/148 (45%), Gaps = 34/148 (22%)

Query: 7   RVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFF 66
           ++GI DP R +   L  GP G GKT LA A+A     +    +R+  SE+     V K+ 
Sbjct: 173 QIGI-DPPRGV---LLYGPPGTGKTMLAKAVAHH---TTATFIRVVGSEF-----VQKYL 220

Query: 67  GSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEK-----------AHRDVLNVMLQLLDD 115
           G  P  V       +    R    S+I  DE++            A R+V  ++L+LL+ 
Sbjct: 221 GEGPRMV-----RDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQ 275

Query: 116 GRVTDGKGQTVDLKNTIIIMTSNIGDSV 143
               DG  QT ++K   +IM +N  D++
Sbjct: 276 ---MDGFDQTTNVK---VIMATNRADTL 297

Length = 398

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

 Score = 43.3 bits (102), Expect = 1e-04
 Identities = 50/236 (21%), Positives = 85/236 (36%), Gaps = 45/236 (19%)

Query: 3   LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV 62
           L+R  +  +   RP    L  GP G GKT LA A+A E   S+   + +  SE +     
Sbjct: 262 LKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALE---SRSRFISVKGSELL----- 313

Query: 63  SKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEK-----------AHRDVLNVMLQ 111
           SK+ G     +         +A +  P S+I  DEI+            + R V+  +L 
Sbjct: 314 SKWVGESEKNI----RELFEKARKLAP-SIIFIDEIDSLASGRGPSEDGSGRRVVGQLLT 368

Query: 112 LLDDGRVTDGKGQTVDLKNTIIIMTSN---IGDSVIARES-------ILGSDQMER-GVA 160
            LD              +  ++I  +N     D  + R         +   D  ER  + 
Sbjct: 369 ELDGIE---------KAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIF 419

Query: 161 EELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYE-RLEAKNMELTVTH 215
           +   R  +P     +D   +          +I  ++ +   E   EA+  E+T+  
Sbjct: 420 KIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAALEALREARRREVTLDD 475

Length = 494

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 41.1 bits (96), Expect = 5e-04
 Identities = 41/123 (33%), Positives = 59/123 (47%), Gaps = 23/123 (18%)

Query: 1   MTLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKH 60
           +   RA      P       L  GPT  GKT +   LA E  G K   VRI+  E+ +  
Sbjct: 878 LNTMRAASLSNFP------LLIQGPTSSGKTSMILYLARE-TGHK--FVRINNHEHTD-- 926

Query: 61  TVSKFFGSPPGYVGFENG------GQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLD 114
            + ++ G+   YV  ++G      G L EA+R R + ++L DE+  A  DVL  + +LLD
Sbjct: 927 -LQEYIGT---YVTDDDGSLSFKEGVLVEALR-RGYWIVL-DELNLAPTDVLEALNRLLD 980

Query: 115 DGR 117
           D R
Sbjct: 981 DNR 983

Length = 4600

>gnl|CDD|222104 pfam13401, AAA_22, AAA domain

 Score = 38.8 bits (91), Expect = 5e-04
 Identities = 19/102 (18%), Positives = 37/102 (36%), Gaps = 7/102 (6%)

Query: 21  LFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK----HTVSKFFGSPPGYVGFE 76
           + TG +G GKT L   LA     ++   V ++             + +  G P       
Sbjct: 8   VLTGESGSGKTTLLRRLA-RQLPNRRV-VYVEAPSLGTPKDLLRKILRALGLPLSGGTTA 65

Query: 77  NG-GQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGR 117
                + +A++ R   +++ DE +    + L  +  L D   
Sbjct: 66  ELLEAILDALKRRGRPLLIIDEAQHLSLEALEELRDLYDLSE 107

Length = 124

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

 Score = 38.9 bits (92), Expect = 0.002
 Identities = 32/121 (26%), Positives = 41/121 (33%), Gaps = 52/121 (42%)

Query: 17  ISSFLFTGPTGVGKTELANALA------FEYF-----GSKEAMVRIDMSEYMEKHTVSKF 65
           +SS +  GP G GKT LA  +A      FE       G K+  +R  + E          
Sbjct: 36  LSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTSGVKD--LREVIEEA--------- 84

Query: 66  FGSPPGYVGFENGGQLTEAVRHRPHSVILF-DEIEKAHR------DVLNVMLQLLDDGRV 118
                               R      ILF DEI   HR      D L   L  ++DG +
Sbjct: 85  -----------------RQRRSAGRRTILFIDEI---HRFNKAQQDAL---LPHVEDGTI 121

Query: 119 T 119
           T
Sbjct: 122 T 122

Length = 413

>gnl|CDD|183088 PRK11331, PRK11331, 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

 Score = 38.1 bits (88), Expect = 0.004
 Identities = 31/108 (28%), Positives = 51/108 (47%), Gaps = 10/108 (9%)

Query: 19  SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFF-GSPPGYVGFEN 77
           + +  GP GVGKT +A  LA+   G K A  R++M ++ + ++   F  G  P  VGF  
Sbjct: 196 NIILQGPPGVGKTFVARRLAYLLTGEK-APQRVNMVQFHQSYSYEDFIQGYRPNGVGFRR 254

Query: 78  GG----QLTEAVRHRPHSVILF--DEIEKAHRDVL--NVMLQLLDDGR 117
                    +  + +P    +F  DEI +A+   +   VM+ +  D R
Sbjct: 255 KDGIFYNFCQQAKEQPEKKYVFIIDEINRANLSKVFGEVMMLMEHDKR 302

Length = 459

>gnl|CDD|224142 COG1221, PspF, Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

 Score = 37.7 bits (88), Expect = 0.004
 Identities = 29/140 (20%), Positives = 52/140 (37%), Gaps = 18/140 (12%)

Query: 21  LFTGPTGVGKTELANALAFEYFGSKEA-MVRIDMSEYMEKHTVSKFFGSPPGYVGFENGG 79
           L  G TG GK   A  +        EA  +  + + Y E    ++ FG           G
Sbjct: 105 LIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSENLQEAELFGHEK--------G 156

Query: 80  QLTEAVRHRP------HSVILF-DEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTI 132
             T A   +       +   LF DEI +   +    +L++L++G      G      +  
Sbjct: 157 AFTGAQGGKAGLFEQANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRVGGSQPRPVDVR 216

Query: 133 IIM--TSNIGDSVIARESIL 150
           +I   T ++ ++V+A   + 
Sbjct: 217 LICATTEDLEEAVLAGADLT 236

Length = 403

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	287
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	100.0
CHL00095	821	clpC Clp protease ATP binding subunit	100.0
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	100.0
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	100.0
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	100.0
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	100.0
PRK10865	857	protein disaggregation chaperone; Provisional	100.0
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	100.0
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.94
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.93
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.9
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.89
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.88
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	99.88
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.87
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	99.87
COG2204	464	AtoC Response regulator containing CheY-like recei	99.86
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.85
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.85
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	99.85
PRK11608	326	pspF phage shock protein operon transcriptional ac	99.84
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	99.84
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.84
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	99.83
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	99.83
PRK15424	538	propionate catabolism operon regulatory protein Pr	99.83
CHL00181	287	cbbX CbbX; Provisional	99.83
PRK05022	509	anaerobic nitric oxide reductase transcription reg	99.83
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.82
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.82
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.82
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	99.82
COG1221	403	PspF Transcriptional regulators containing an AAA-	99.81
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.81
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	99.8
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	99.8
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	99.8
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.79
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.79
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.78
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	99.78
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.77
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	99.77
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	99.76
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.76
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.75
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.74
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	99.74
PLN03025	319	replication factor C subunit; Provisional	99.74
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	99.73
PRK15115	444	response regulator GlrR; Provisional	99.73
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.72
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.72
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	99.72
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.72
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	99.72
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.71
CHL00195	489	ycf46 Ycf46; Provisional	99.71
PRK08084	235	DNA replication initiation factor; Provisional	99.69
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.69
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.68
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.68
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.68
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.68
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.68
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.68
PRK06893	229	DNA replication initiation factor; Validated	99.67
PRK10365	441	transcriptional regulatory protein ZraR; Provision	99.67
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.66
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.66
KOG2028	554	consensus ATPase related to the helicase subunit o	99.66
PHA02244	383	ATPase-like protein	99.66
PRK13341	725	recombination factor protein RarA/unknown domain f	99.66
PF07726	131	AAA_3: ATPase family associated with various cellu	99.66
PRK08727	233	hypothetical protein; Validated	99.66
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	99.66
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.65
PRK05642	234	DNA replication initiation factor; Validated	99.65
PRK13342	413	recombination factor protein RarA; Reviewed	99.65
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.65
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.65
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.64
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.64
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	99.64
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.63
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.63
CHL00176	638	ftsH cell division protein; Validated	99.63
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.63
PRK13531	498	regulatory ATPase RavA; Provisional	99.63
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.63
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.63
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	99.62
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	99.62
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.62
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.62
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.62
PRK12402	337	replication factor C small subunit 2; Reviewed	99.62
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.61
PRK04195	482	replication factor C large subunit; Provisional	99.61
PHA02544	316	44 clamp loader, small subunit; Provisional	99.61
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.61
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	99.61
CHL00206	2281	ycf2 Ycf2; Provisional	99.61
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.61
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.61
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	99.61
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.6
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.6
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.6
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.6
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.6
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.6
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.6
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	99.6
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	99.6
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.6
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	99.6
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.6
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	99.59
PRK12422	445	chromosomal replication initiation protein; Provis	99.59
COG0714	329	MoxR-like ATPases [General function prediction onl	99.59
COG0606	490	Predicted ATPase with chaperone activity [Posttran	99.59
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	99.59
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.58
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.58
PF00004	132	AAA: ATPase family associated with various cellula	99.58
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.58
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.57
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.57
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.57
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	99.57
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.57
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	99.57
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.56
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	99.56
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.55
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	99.55
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	99.55
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	99.55
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.55
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	99.55
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	99.55
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	99.54
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	99.54
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	99.54
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	99.53
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.53
PRK06620	214	hypothetical protein; Validated	99.53
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	99.53
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.53
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.53
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.52
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	99.52
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.52
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	99.52
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	99.51
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.51
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	99.51
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	99.51
PRK09862	506	putative ATP-dependent protease; Provisional	99.5
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.5
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	99.5
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.49
PRK09087	226	hypothetical protein; Validated	99.49
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	99.49
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.49
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.49
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	99.49
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	99.49
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	99.47
smart00350	509	MCM minichromosome maintenance proteins.	99.47
PRK04132	846	replication factor C small subunit; Provisional	99.47
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	99.46
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.46
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	99.45
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	99.45
CHL00095	821	clpC Clp protease ATP binding subunit	99.45
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	99.45
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.44
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	99.44
KOG0480	764	consensus DNA replication licensing factor, MCM6 c	99.43
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.43
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	99.42
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.42
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	99.41
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	99.41
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	99.41
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.39
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	99.38
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.37
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.37
KOG1969	877	consensus DNA replication checkpoint protein CHL12	99.37
PRK05707	328	DNA polymerase III subunit delta'; Validated	99.36
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.36
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.35
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.35
PRK10865	857	protein disaggregation chaperone; Provisional	99.34
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	99.32
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.32
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.31
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.31
KOG0478	804	consensus DNA replication licensing factor, MCM4 c	99.3
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	99.29
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	99.28
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.28
PRK07399	314	DNA polymerase III subunit delta'; Validated	99.27
COG1241	682	MCM2 Predicted ATPase involved in replication cont	99.27
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	99.24
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	99.23
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	99.22
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.22
PRK08058	329	DNA polymerase III subunit delta'; Validated	99.21
PRK06964	342	DNA polymerase III subunit delta'; Validated	99.2
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	99.2
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	99.2
PRK06871	325	DNA polymerase III subunit delta'; Validated	99.19
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	99.19
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.19
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	99.18
PRK12377	248	putative replication protein; Provisional	99.18
PRK08769	319	DNA polymerase III subunit delta'; Validated	99.18
PRK07993	334	DNA polymerase III subunit delta'; Validated	99.17
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	99.17
PRK05564	313	DNA polymerase III subunit delta'; Validated	99.16
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.15
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	99.14
PRK08116	268	hypothetical protein; Validated	99.14
PRK06090	319	DNA polymerase III subunit delta'; Validated	99.14
PF13173	128	AAA_14: AAA domain	99.14
PRK06835	329	DNA replication protein DnaC; Validated	99.12
COG4650	531	RtcR Sigma54-dependent transcription regulator con	99.1
PRK08181	269	transposase; Validated	99.09
smart00382	148	AAA ATPases associated with a variety of cellular	99.08
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	99.08
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	99.08
PF10431	81	ClpB_D2-small: C-terminal, D2-small domain, of Clp	99.06
PRK13765	637	ATP-dependent protease Lon; Provisional	99.05
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	99.04
PF05729	166	NACHT: NACHT domain	99.04
PRK08699	325	DNA polymerase III subunit delta'; Validated	99.04
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.03
PRK06526	254	transposase; Provisional	99.02
PRK07952	244	DNA replication protein DnaC; Validated	99.0
KOG0481	729	consensus DNA replication licensing factor, MCM5 c	98.99
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.99
KOG1514	767	consensus Origin recognition complex, subunit 1, a	98.98
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.95
PRK06921	266	hypothetical protein; Provisional	98.93
KOG0477	854	consensus DNA replication licensing factor, MCM2 c	98.93
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	98.9
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.88
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.84
PRK09183	259	transposase/IS protein; Provisional	98.84
PRK05917	290	DNA polymerase III subunit delta'; Validated	98.84
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.82
KOG0482	721	consensus DNA replication licensing factor, MCM7 c	98.81
PRK08939	306	primosomal protein DnaI; Reviewed	98.76
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	98.76
KOG0479	818	consensus DNA replication licensing factor, MCM3 c	98.75
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	98.74
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.74
PRK07132	299	DNA polymerase III subunit delta'; Validated	98.74
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	98.73
PRK07276	290	DNA polymerase III subunit delta'; Validated	98.73
PRK05818	261	DNA polymerase III subunit delta'; Validated	98.7
PRK15455	644	PrkA family serine protein kinase; Provisional	98.7
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	98.62
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	98.59
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.53
PRK04296	190	thymidine kinase; Provisional	98.47
KOG1808	1856	consensus AAA ATPase containing von Willebrand fac	98.46
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	98.45
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	98.43
PHA00729	226	NTP-binding motif containing protein	98.38
PHA02774	613	E1; Provisional	98.36
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	98.32
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.3
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	98.29
PHA01747	425	putative ATP-dependent protease	98.22
PRK06581	263	DNA polymerase III subunit delta'; Validated	98.2
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.2
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.18
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	98.17
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	98.15
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.15
COG1485	367	Predicted ATPase [General function prediction only	98.13
KOG1968	871	consensus Replication factor C, subunit RFC1 (larg	98.09
PRK10536	262	hypothetical protein; Provisional	98.09
PRK14974	336	cell division protein FtsY; Provisional	98.05
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	98.04
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	98.03
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	98.03
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	98.02
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	98.02
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	98.02
COG5245	3164	DYN1 Dynein, heavy chain [Cytoskeleton]	97.99
PHA02624	647	large T antigen; Provisional	97.97
PF13337	457	Lon_2: Putative ATP-dependent Lon protease	97.97
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.95
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	97.92
PRK13695	174	putative NTPase; Provisional	97.91
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.91
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	97.9
TIGR02533	486	type_II_gspE general secretory pathway protein E.	97.87
PLN02674	244	adenylate kinase	97.87
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.85
PRK07261	171	topology modulation protein; Provisional	97.85
KOG2383	467	consensus Predicted ATPase [General function predi	97.85
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	97.84
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	97.84
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	97.84
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.82
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.81
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.81
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	97.81
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.8
PF14516	331	AAA_35: AAA-like domain	97.8
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	97.79
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.79
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.79
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.79
COG4555	245	NatA ABC-type Na+ transport system, ATPase compone	97.78
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	97.77
PRK08118	167	topology modulation protein; Reviewed	97.77
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.76
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.76
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.76
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.75
PLN03210	1153	Resistant to P. syringae 6; Provisional	97.75
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	97.74
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.71
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.7
COG4178	604	ABC-type uncharacterized transport system, permeas	97.69
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.68
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.68
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	97.68
PRK00131	175	aroK shikimate kinase; Reviewed	97.67
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	97.66
TIGR02653	675	Lon_rel_chp conserved hypothetical protein. This m	97.65
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	97.65
PRK10867	433	signal recognition particle protein; Provisional	97.64
PRK10436	462	hypothetical protein; Provisional	97.63
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	97.63
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.62
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.61
PF01443	234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	97.6
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	97.59
PRK03846	198	adenylylsulfate kinase; Provisional	97.57
PRK03839	180	putative kinase; Provisional	97.57
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.57
cd01128	249	rho_factor Transcription termination factor rho is	97.57
PRK13947	171	shikimate kinase; Provisional	97.56
PRK00625	173	shikimate kinase; Provisional	97.56
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	97.56
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	97.54
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.54
PRK06696	223	uridine kinase; Validated	97.53
PF00519	432	PPV_E1_C: Papillomavirus helicase; InterPro: IPR00	97.53
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	97.53
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	97.53
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.52
TIGR00959	428	ffh signal recognition particle protein. This mode	97.51
TIGR01613	304	primase_Cterm phage/plasmid primase, P4 family, C-	97.5
cd03246	173	ABCC_Protease_Secretion This family represents the	97.49
PF13479	213	AAA_24: AAA domain	97.49
PRK14737	186	gmk guanylate kinase; Provisional	97.49
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.49
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.49
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	97.49
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	97.48
PRK14532	188	adenylate kinase; Provisional	97.48
PRK00889	175	adenylylsulfate kinase; Provisional	97.48
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	97.47
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	97.47
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.47
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.46
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.45
PRK05541	176	adenylylsulfate kinase; Provisional	97.44
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	97.44
PRK08533	230	flagellar accessory protein FlaH; Reviewed	97.44
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	97.43
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.43
PRK06067	234	flagellar accessory protein FlaH; Validated	97.43
PRK10416	318	signal recognition particle-docking protein FtsY;	97.43
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.43
PF10923	416	DUF2791: P-loop Domain of unknown function (DUF279	97.42
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.42
PRK13949	169	shikimate kinase; Provisional	97.42
PRK06217	183	hypothetical protein; Validated	97.41
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.41
PRK10875	615	recD exonuclease V subunit alpha; Provisional	97.41
PRK11823	446	DNA repair protein RadA; Provisional	97.4
PRK04841	903	transcriptional regulator MalT; Provisional	97.4
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.39
PRK14530	215	adenylate kinase; Provisional	97.38
PRK13851	344	type IV secretion system protein VirB11; Provision	97.38
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.37
PRK05480	209	uridine/cytidine kinase; Provisional	97.35
PF13245	76	AAA_19: Part of AAA domain	97.34
TIGR00767	415	rho transcription termination factor Rho. Members	97.34
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.34
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	97.33
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	97.33
PRK06762	166	hypothetical protein; Provisional	97.32
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.32
PRK06547	172	hypothetical protein; Provisional	97.32
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	97.32
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	97.31
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.31
PRK14531	183	adenylate kinase; Provisional	97.3
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.3
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.3
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	97.29
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.28
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	97.28
COG1643	845	HrpA HrpA-like helicases [DNA replication, recombi	97.28
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.28
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.28
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	97.27
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.27
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	97.27
cd03215	182	ABC_Carb_Monos_II This family represents domain II	97.27
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	97.27
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.26
PRK09376	416	rho transcription termination factor Rho; Provisio	97.26
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	97.25
PTZ00088	229	adenylate kinase 1; Provisional	97.25
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	97.25
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.24
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	97.23
PRK12608	380	transcription termination factor Rho; Provisional	97.23
KOG3595	1395	consensus Dyneins, heavy chain [Cytoskeleton]	97.23
PRK13946	184	shikimate kinase; Provisional	97.22
PRK13948	182	shikimate kinase; Provisional	97.22
PTZ00202	550	tuzin; Provisional	97.21
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.21
PRK13833	323	conjugal transfer protein TrbB; Provisional	97.21
PRK13889	988	conjugal transfer relaxase TraA; Provisional	97.21
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	97.2
PRK14528	186	adenylate kinase; Provisional	97.2
PRK05057	172	aroK shikimate kinase I; Reviewed	97.2
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	97.2
PRK07667	193	uridine kinase; Provisional	97.2
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.19
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	97.19
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	97.19
PRK02496	184	adk adenylate kinase; Provisional	97.19
PRK08233	182	hypothetical protein; Provisional	97.18
COG4240	300	Predicted kinase [General function prediction only	97.18
PLN02200	234	adenylate kinase family protein	97.18
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.17
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	97.17
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.16
PRK14733	204	coaE dephospho-CoA kinase; Provisional	97.16
PRK03731	171	aroL shikimate kinase II; Reviewed	97.16
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	97.15
PRK13764	602	ATPase; Provisional	97.15
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	97.15
PRK14738	206	gmk guanylate kinase; Provisional	97.15
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	97.13
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	97.13
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.13
TIGR03819	340	heli_sec_ATPase helicase/secretion neighborhood AT	97.12
PRK14700	300	recombination factor protein RarA; Provisional	97.12
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	97.11
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	97.11
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.09
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	97.09
KOG3928	461	consensus Mitochondrial ribosome small subunit com	97.09
PTZ00293	211	thymidine kinase; Provisional	97.08
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	97.08
PRK04040	188	adenylate kinase; Provisional	97.08
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	97.08
PRK13826	1102	Dtr system oriT relaxase; Provisional	97.07
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	97.06
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.05
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	97.05
PRK00279	215	adk adenylate kinase; Reviewed	97.05
PRK09354	349	recA recombinase A; Provisional	97.04
COG5008	375	PilU Tfp pilus assembly protein, ATPase PilU [Cell	97.04
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.04
PRK09435	332	membrane ATPase/protein kinase; Provisional	97.03
PRK15453	290	phosphoribulokinase; Provisional	97.02
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.02
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.02
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	97.02
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.01
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	97.0
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.99
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	96.98
PRK00300	205	gmk guanylate kinase; Provisional	96.98
PRK14527	191	adenylate kinase; Provisional	96.98
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.97
PF13555	62	AAA_29: P-loop containing region of AAA domain	96.96
PRK05439	311	pantothenate kinase; Provisional	96.96
PLN02165	334	adenylate isopentenyltransferase	96.96
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	96.94
KOG0922	674	consensus DEAH-box RNA helicase [RNA processing an	96.94
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	96.94
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	96.94

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

Probab=100.00  E-value=2.2e-45  Score=341.62  Aligned_cols=272  Identities=58%  Similarity=0.936  Sum_probs=257.9

Q ss_pred             chhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhH
Q 047225            2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL   81 (287)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (287)
                      +|++.|.++.+|++|.++++|.||+|+|||.+|++||..++++...++.+|||+|.+..+++.++|.++||+||.+.+.+
T Consensus       506 aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~EkHsVSrLIGaPPGYVGyeeGG~L  585 (786)
T COG0542         506 AIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRLIGAPPGYVGYEEGGQL  585 (786)
T ss_pred             HHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHHHHHHHHHhCCCCCCceeccccch
Confidence            68999999999999999999999999999999999999999988999999999999999999999999999999999999


Q ss_pred             HHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhcc----CCchHHHH
Q 047225           82 TEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESI----LGSDQMER  157 (287)
Q Consensus        82 ~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~----~~~~~~~~  157 (287)
                      .++++..|++||+||||++++|++.+.|++++++|+++++.|+.+++.|++||+|||.+...+.....    ..+..+.+
T Consensus       586 TEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN~Gs~~i~~~~~~~~~~~~~~~~~  665 (786)
T COG0542         586 TEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNAGSEEILRDADGDDFADKEALKE  665 (786)
T ss_pred             hHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEecccchHHHHhhccccccchhhhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999888766522    22566788


Q ss_pred             HHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHH
Q 047225          158 GVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRR  237 (287)
Q Consensus       158 ~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~  237 (287)
                      .+...+++.|+|+|++|+|.+|.|.|++.+++.+|+..++.+...++..++..+.+++++.++++...|.+.+|+|++++
T Consensus       666 ~v~~~l~~~F~PEFLNRid~II~F~~L~~~~l~~Iv~~~L~~l~~~L~~~~i~l~~s~~a~~~l~~~gyd~~~GARpL~R  745 (786)
T COG0542         666 AVMEELKKHFRPEFLNRIDEIIPFNPLSKEVLERIVDLQLNRLAKRLAERGITLELSDEAKDFLAEKGYDPEYGARPLRR  745 (786)
T ss_pred             HHHHHHHhhCCHHHHhhcccEEeccCCCHHHHHHHHHHHHHHHHHHHHhCCceEEECHHHHHHHHHhccCCCcCchHHHH
Confidence            88899999999999999999999999999999999999999999999988999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhccCCCCCEEEEEEcCCccEE
Q 047225          238 AIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVI  273 (287)
Q Consensus       238 ~i~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~  273 (287)
                      .|++.+...+++.++.+++.++..+.+.+++.+..+
T Consensus       746 ~Iq~~i~~~La~~iL~g~~~~~~~v~v~~~~~~~~~  781 (786)
T COG0542         746 AIQQEIEDPLADEILFGKIEDGGTVKVDVDDEKIKF  781 (786)
T ss_pred             HHHHHHHHHHHHHHHhcccCCCcEEEEEecCceEEE
Confidence            999999999999999999999999999999744443

>CHL00095 clpC Clp protease ATP binding subunit

Probab=100.00  E-value=2.2e-37  Score=299.91  Aligned_cols=272  Identities=62%  Similarity=1.007  Sum_probs=248.8

Q ss_pred             chhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhH
Q 047225            2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL   81 (287)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (287)
                      ++.++|.++..|++|.++++|+||+|||||++|+.||+.+......++.++++++.+...+..++|.++||.|+.+.+.+
T Consensus       524 ~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~~~~~~~l~g~~~gyvg~~~~~~l  603 (821)
T CHL00095        524 AIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHTVSKLIGSPPGYVGYNEGGQL  603 (821)
T ss_pred             HHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhccccccHHHhcCCCCcccCcCccchH
Confidence            46778889999999998899999999999999999999998777899999999999888889999999999999998899


Q ss_pred             HHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhh-ccCC---------
Q 047225           82 TEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARE-SILG---------  151 (287)
Q Consensus        82 ~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~-~~~~---------  151 (287)
                      .+.++..|++|++|||+|++++++++.|++++++|.++++.|+.+++.+++||+|||.+...+... ..+|         
T Consensus       604 ~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Tsn~g~~~i~~~~~~~gf~~~~~~~~  683 (821)
T CHL00095        604 TEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTSNLGSKVIETNSGGLGFELSENQLS  683 (821)
T ss_pred             HHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEeCCcchHHHHhhccccCCcccccccc
Confidence            999999999999999999999999999999999999999999999999999999999988755432 2222         


Q ss_pred             ---chHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCC
Q 047225          152 ---SDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNP  228 (287)
Q Consensus       152 ---~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~  228 (287)
                         +..+...+...++..|+|+|++|+|.+|.|.|++.+++.+|+...+.+...++..++..+.++++++++|+...|.+
T Consensus       684 ~~~~~~~~~~~~~~~~~~f~peflnRid~ii~F~pL~~~~l~~Iv~~~l~~l~~rl~~~~i~l~~~~~~~~~La~~~~~~  763 (821)
T CHL00095        684 EKQYKRLSNLVNEELKQFFRPEFLNRLDEIIVFRQLTKNDVWEIAEIMLKNLFKRLNEQGIQLEVTERIKTLLIEEGYNP  763 (821)
T ss_pred             cccHHHHHHHHHHHHHHhcCHHHhccCCeEEEeCCCCHHHHHHHHHHHHHHHHHHHHHCCcEEEECHHHHHHHHHhcCCC
Confidence               34456667778888999999999999999999999999999999999988888888889999999999999999999


Q ss_pred             CCCchhHHHHHHHHHHHHHHHHHHhccCCCCCEEEEEEcCCccEE
Q 047225          229 SYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVI  273 (287)
Q Consensus       229 ~~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~  273 (287)
                      .+|+|++++++++.+..++++.++.+.+.+++++.+++++++.+.
T Consensus       764 ~~GAR~l~r~i~~~i~~~l~~~~l~~~~~~g~~v~~~~~~~~~~~  808 (821)
T CHL00095        764 LYGARPLRRAIMRLLEDPLAEEVLSFKIKPGDIIIVDVNDEKEVK  808 (821)
T ss_pred             CCChhhHHHHHHHHHHHHHHHHHHhCccCCCCEEEEEEeCCCcEE
Confidence            999999999999999999999999999999999999998877543

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

Probab=100.00  E-value=4.7e-37  Score=291.50  Aligned_cols=271  Identities=41%  Similarity=0.735  Sum_probs=242.4

Q ss_pred             chhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhH
Q 047225            2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL   81 (287)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (287)
                      ++...+.++..+++|.++++|+||||||||.+|+.+|+.+   +.+++.++|+++.+...+..++|.++++.|+...+.+
T Consensus       473 ~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l---~~~~i~id~se~~~~~~~~~LiG~~~gyvg~~~~g~L  549 (758)
T PRK11034        473 AIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL---GIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLL  549 (758)
T ss_pred             HHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh---CCCcEEeechhhcccccHHHHcCCCCCcccccccchH
Confidence            3566778888899999899999999999999999999999   5789999999999887889999999999999888889


Q ss_pred             HHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCch--HHHHHH
Q 047225           82 TEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSD--QMERGV  159 (287)
Q Consensus        82 ~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~--~~~~~~  159 (287)
                      .+.+...+++|+||||+|++++++++.|++++++|.++...|+.+++.+++||+|||.+....... .+|+.  +....+
T Consensus       550 ~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN~g~~~~~~~-~~g~~~~~~~~~~  628 (758)
T PRK11034        550 TDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERK-SIGLIHQDNSTDA  628 (758)
T ss_pred             HHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCCcCHHHHhhc-ccCcccchhhHHH
Confidence            999999999999999999999999999999999999998889999999999999999886654332 23432  112334


Q ss_pred             HHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHH
Q 047225          160 AEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       160 ~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                      ...+++.|.|+|++|+|.+|.|+|++.+++.+|+...+.++..++...+..+.++++++++|+...|.+.+|+|++++.|
T Consensus       629 ~~~~~~~f~pefl~Rid~ii~f~~L~~~~l~~I~~~~l~~~~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GAR~l~r~i  708 (758)
T PRK11034        629 MEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQAQLDQKGVSLEVSQEARDWLAEKGYDRAMGARPMARVI  708 (758)
T ss_pred             HHHHHHhcCHHHHccCCEEEEcCCCCHHHHHHHHHHHHHHHHHHHHHCCCCceECHHHHHHHHHhCCCCCCCCchHHHHH
Confidence            45677899999999999999999999999999999999999999988889999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhccCCCCCEEEEEEcCCccEEEEE
Q 047225          240 GRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYR  276 (287)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  276 (287)
                      ++.+...+++.++.+.+.+++.+.+.+++++..+.+.
T Consensus       709 ~~~l~~~la~~il~~~~~~~~~~~v~~~~~~~~~~~~  745 (758)
T PRK11034        709 QDNLKKPLANELLFGSLVDGGQVTVALDKEKNELTYG  745 (758)
T ss_pred             HHHHHHHHHHHHHhCcccCCCEEEEEEECCceEEEEE
Confidence            9999999999999999999999999998877655554

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=100.00  E-value=6.5e-36  Score=288.62  Aligned_cols=265  Identities=38%  Similarity=0.650  Sum_probs=241.0

Q ss_pred             chhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhH
Q 047225            2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL   81 (287)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (287)
                      ++.++|.++..|++|.++++|+||+|||||.+|++||+.++.....++.++|++|.+...+..++|.++||.|+.+.+.+
T Consensus       581 ~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~~~~~~l~g~~~gyvg~~~~g~L  660 (852)
T TIGR03345       581 RIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEAHTVSRLKGSPPGYVGYGEGGVL  660 (852)
T ss_pred             HHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhhhhhccccCCCCCcccccccchH
Confidence            46778889999999999999999999999999999999998777889999999999999999999999999999998899


Q ss_pred             HHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccC-----CchHHH
Q 047225           82 TEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESIL-----GSDQME  156 (287)
Q Consensus        82 ~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~-----~~~~~~  156 (287)
                      .+.++..+++||+|||++++++++++.|++++++|.+.++.|+.+++.+++||+|||.+...+.+...-     .+..+.
T Consensus       661 ~~~v~~~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSNlg~~~~~~~~~~~~~~~~~~~~~  740 (852)
T TIGR03345       661 TEAVRRKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLTSNAGSDLIMALCADPETAPDPEALL  740 (852)
T ss_pred             HHHHHhCCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEeCCCchHHHHHhccCcccCcchHHHH
Confidence            999999999999999999999999999999999999999999999999999999999988766543111     134556


Q ss_pred             HHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhc-CcEEEeChhHHHHHHHhccCCCCCchhH
Q 047225          157 RGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAK-NMELTVTHTFKKKLIEEGYNPSYGARPL  235 (287)
Q Consensus       157 ~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~-~~~~~i~~~~~~~l~~~~~~~~~~~r~l  235 (287)
                      ..+...++..|+|+|++|++ +|.|.|++.+++.+|+...+.+...++..+ +..+.++++++++|+...+.+.+|+|.+
T Consensus       741 ~~~~~~~~~~f~PEflnRi~-iI~F~pLs~e~l~~Iv~~~L~~l~~rl~~~~gi~l~i~d~a~~~La~~g~~~~~GAR~L  819 (852)
T TIGR03345       741 EALRPELLKVFKPAFLGRMT-VIPYLPLDDDVLAAIVRLKLDRIARRLKENHGAELVYSEALVEHIVARCTEVESGARNI  819 (852)
T ss_pred             HHHHHHHHHhccHHHhccee-EEEeCCCCHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHHHHHHHcCCCCCChHHH
Confidence            77888889999999999995 999999999999999999999887777665 7889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhccCCCCCEEEEEEc
Q 047225          236 RRAIGRLLEDNLAEIILTGYIQVGDSVTMDCD  267 (287)
Q Consensus       236 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~i~~~  267 (287)
                      ++.|++.+..++++.++.+........+|.++
T Consensus       820 ~r~Ie~~i~~~la~~~l~~~~~~~~~~~~~~~  851 (852)
T TIGR03345       820 DAILNQTLLPELSRQILERLAAGEPIERIHLD  851 (852)
T ss_pred             HHHHHHHHHHHHHHHHHhChhcCCCeeEEEEe
Confidence            99999999999999999999998888887764

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.

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

Probab=100.00  E-value=9.2e-36  Score=285.73  Aligned_cols=259  Identities=48%  Similarity=0.825  Sum_probs=235.6

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHH
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLT   82 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (287)
                      +.+.|.++..|++|.++++|+||+|||||++|+.+|+.+   +.+++.+++++|.+......++|.++++.|+...+.+.
T Consensus       470 i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l---~~~~~~~d~se~~~~~~~~~lig~~~gyvg~~~~~~l~  546 (731)
T TIGR02639       470 IKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL---GVHLERFDMSEYMEKHTVSRLIGAPPGYVGFEQGGLLT  546 (731)
T ss_pred             HHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh---cCCeEEEeCchhhhcccHHHHhcCCCCCcccchhhHHH
Confidence            556778888999999899999999999999999999999   57899999999998888899999999999999988999


Q ss_pred             HHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCc--hHHHHHHH
Q 047225           83 EAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGS--DQMERGVA  160 (287)
Q Consensus        83 ~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~--~~~~~~~~  160 (287)
                      +.++..+++|++|||+|++++++++.|++++++|.++.+.|+.+++.+++||+|||.+...+... .+|+  ......+.
T Consensus       547 ~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~Tsn~g~~~~~~~-~~~f~~~~~~~~~~  625 (731)
T TIGR02639       547 EAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVILIMTSNAGASEMSKP-PIGFGSENVESKSD  625 (731)
T ss_pred             HHHHhCCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCEEEECCCcchhhhhhc-cCCcchhhhHHHHH
Confidence            99999999999999999999999999999999999998889999999999999999987655432 1332  23334567


Q ss_pred             HHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          161 EELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      ..+++.|.|+|++|++.+|.|.|++.+++.+|+...+.+....+...+..+.++++++++|+...|.+.+|+|.++++++
T Consensus       626 ~~~~~~f~pef~~Rid~Vi~F~pLs~e~l~~Iv~~~L~~l~~~l~~~~~~l~i~~~a~~~La~~~~~~~~GaR~l~r~i~  705 (731)
T TIGR02639       626 KAIKKLFSPEFRNRLDAIIHFNPLSEEVLEKIVQKFVDELSKQLNEKNIKLELTDDAKKYLAEKGYDEEFGARPLARVIQ  705 (731)
T ss_pred             HHHHhhcChHHHhcCCeEEEcCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEeCHHHHHHHHHhCCCcccCchHHHHHHH
Confidence            77888999999999999999999999999999999999988888877889999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhccCCCCCEEEEE
Q 047225          241 RLLEDNLAEIILTGYIQVGDSVTMD  265 (287)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~~i~  265 (287)
                      +.+...+++.++.+.+.+++++.+.
T Consensus       706 ~~~~~~l~~~~l~~~~~~~~~~~~~  730 (731)
T TIGR02639       706 EEIKKPLSDEILFGKLKKGGSVKVD  730 (731)
T ss_pred             HHhHHHHHHHHHhCcCCCCCEEEEe
Confidence            9999999999999999999988775

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=100.00  E-value=1.7e-35  Score=287.62  Aligned_cols=269  Identities=56%  Similarity=0.935  Sum_probs=243.8

Q ss_pred             chhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhH
Q 047225            2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL   81 (287)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (287)
                      ++.+++.++..|++|.++++|+||+|||||++|+.|++.+.....+++.++|+++.+......++|.++++.|+.+.+.+
T Consensus       580 ~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~~~~~~~l~g~~~g~~g~~~~g~l  659 (852)
T TIGR03346       580 AIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYMEKHSVARLIGAPPGYVGYEEGGQL  659 (852)
T ss_pred             HHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcccchHHHhcCCCCCccCcccccHH
Confidence            46777888999999998999999999999999999999998888899999999998888888999999999999998899


Q ss_pred             HHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhc-cCCchHHHHHHH
Q 047225           82 TEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARES-ILGSDQMERGVA  160 (287)
Q Consensus        82 ~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~-~~~~~~~~~~~~  160 (287)
                      .+.+...+++||+|||++++++++++.|++++++|.+..+.|+.+++.+++||+|||.+...+.... ...+..+...+.
T Consensus       660 ~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TSn~g~~~~~~~~~~~~~~~~~~~~~  739 (852)
T TIGR03346       660 TEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSNLGSQFIQELAGGDDYEEMREAVM  739 (852)
T ss_pred             HHHHHcCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeCCcchHhHhhhcccccHHHHHHHHH
Confidence            9999999999999999999999999999999999999998899999999999999999877554321 011455566677


Q ss_pred             HHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          161 EELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      +.+++.|+|+|++|++.++.|.|++.+++.+|+...+......+...+..+.++++++++|+...|.+.+|+|++++.++
T Consensus       740 ~~~~~~F~pel~~Rid~IivF~PL~~e~l~~I~~l~L~~l~~~l~~~~~~l~i~~~a~~~L~~~~~~~~~gaR~L~~~i~  819 (852)
T TIGR03346       740 EVLRAHFRPEFLNRIDEIVVFHPLGREQIARIVEIQLGRLRKRLAERKITLELSDAALDFLAEAGYDPVYGARPLKRAIQ  819 (852)
T ss_pred             HHHHhhcCHHHhcCcCeEEecCCcCHHHHHHHHHHHHHHHHHHHHHCCCeecCCHHHHHHHHHhCCCCCCCchhHHHHHH
Confidence            77889999999999999999999999999999999999888888777778999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhccCCCCCEEEEEEcCCc
Q 047225          241 RLLEDNLAEIILTGYIQVGDSVTMDCDSGG  270 (287)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  270 (287)
                      +.+...+++.++.+++.+++++.|.+++++
T Consensus       820 ~~i~~~l~~~~l~~~~~~~~~~~~~~~~~~  849 (852)
T TIGR03346       820 REIENPLAKKILAGEVADGDTIVVDVEGGR  849 (852)
T ss_pred             HHHHHHHHHHHHhCCCCCCCEEEEEeeCCE
Confidence            999999999999999999999999996543

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=100.00  E-value=2.8e-35  Score=285.04  Aligned_cols=269  Identities=54%  Similarity=0.912  Sum_probs=240.4

Q ss_pred             chhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhH
Q 047225            2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL   81 (287)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (287)
                      ++.+++.++.+|++|.++++|+||+|||||++|++|++.+.....+++.++|+++.+......++|.++++.|+...+.+
T Consensus       583 ~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se~~~~~~~~~LiG~~pgy~g~~~~g~l  662 (857)
T PRK10865        583 AIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEKHSVSRLVGAPPGYVGYEEGGYL  662 (857)
T ss_pred             HHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHHhhhhhhHHHHhCCCCcccccchhHHH
Confidence            46778888999999988899999999999999999999997777789999999998777788899999999999888888


Q ss_pred             HHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhh-ccCCchHHHHHHH
Q 047225           82 TEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARE-SILGSDQMERGVA  160 (287)
Q Consensus        82 ~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~-~~~~~~~~~~~~~  160 (287)
                      .+.++..++++|+|||++++++++++.|++++++|.+..+.|+.+++.+++||+|||.+...+... ....+..+...+.
T Consensus       663 ~~~v~~~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~TSN~g~~~~~~~~~~~~~~~~~~~~~  742 (857)
T PRK10865        663 TEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNLGSDLIQERFGELDYAHMKELVL  742 (857)
T ss_pred             HHHHHhCCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEeCCcchHHHHHhccccchHHHHHHHH
Confidence            888888899999999999999999999999999999998889999999999999999986654332 1112444566666


Q ss_pred             HHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          161 EELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      ...++.|.|+|++|++.++.|.|++.+++.+|+...+.+...++...+..+.++++++++|+...|.+.+|+|+++++|+
T Consensus       743 ~~~~~~f~PELlnRld~iivF~PL~~edl~~Iv~~~L~~l~~rl~~~gi~l~is~~al~~L~~~gy~~~~GARpL~r~I~  822 (857)
T PRK10865        743 GVVSHNFRPEFINRIDEVVVFHPLGEQHIASIAQIQLQRLYKRLEERGYEIHISDEALKLLSENGYDPVYGARPLKRAIQ  822 (857)
T ss_pred             HHHcccccHHHHHhCCeeEecCCCCHHHHHHHHHHHHHHHHHHHHhCCCcCcCCHHHHHHHHHcCCCccCChHHHHHHHH
Confidence            77888999999999999999999999999999999999887777666677899999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhccCCCCCEEEEEEcCCc
Q 047225          241 RLLEDNLAEIILTGYIQVGDSVTMDCDSGG  270 (287)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  270 (287)
                      +.+...+++.++.+.+.+++++.+.+++++
T Consensus       823 ~~i~~~la~~iL~g~~~~~~~~~~~~~~~~  852 (857)
T PRK10865        823 QQIENPLAQQILSGELVPGKVIRLEVNDDR  852 (857)
T ss_pred             HHHHHHHHHHHHcCcCCCCCEEEEEEECCE
Confidence            999999999999999999999999997644

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=5e-32  Score=255.64  Aligned_cols=265  Identities=51%  Similarity=0.803  Sum_probs=239.9

Q ss_pred             chhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhH
Q 047225            2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL   81 (287)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (287)
                      +|.+||.+++.| +|..+++|.||+|+|||.+|++||..++++...++.+|+++|.+   +.+++|.+++|+|+++.+.+
T Consensus       577 AI~~sr~gl~~~-~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriDmse~~e---vskligsp~gyvG~e~gg~L  652 (898)
T KOG1051|consen  577 AIRRSRAGLKDP-NPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLDMSEFQE---VSKLIGSPPGYVGKEEGGQL  652 (898)
T ss_pred             HHHhhhcccCCC-CCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEechhhhhh---hhhccCCCcccccchhHHHH
Confidence            688999999999 77779999999999999999999999999999999999999997   88999999999999999999


Q ss_pred             HHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhcc------------
Q 047225           82 TEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESI------------  149 (287)
Q Consensus        82 ~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~------------  149 (287)
                      .+.++..|+.||+|||||++++++++.|++++++|++.++.|+.|++.|++||+|+|.+...+.....            
T Consensus       653 teavrrrP~sVVLfdeIEkAh~~v~n~llq~lD~GrltDs~Gr~Vd~kN~I~IMTsn~~~~~i~~~~~~~~~l~~~~~~~  732 (898)
T KOG1051|consen  653 TEAVKRRPYSVVLFEEIEKAHPDVLNILLQLLDRGRLTDSHGREVDFKNAIFIMTSNVGSSAIANDASLEEKLLDMDEKR  732 (898)
T ss_pred             HHHHhcCCceEEEEechhhcCHHHHHHHHHHHhcCccccCCCcEeeccceEEEEecccchHhhhcccccccccccchhhh
Confidence            99999999999999999999999999999999999999999999999999999999998776555432            


Q ss_pred             CCchHHHHHHHHHHH----hcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          150 LGSDQMERGVAEELR----RRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       150 ~~~~~~~~~~~~~~~----~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                      .-+......+.+..+    ..|.++|++|++..+.|.|++.+++.+++...+.+...++...+....+.+.+.+.++...
T Consensus       733 ~~~~~~k~~v~~~~~~~~~~~~r~Ef~nrid~i~lf~~l~~~~~~~i~~~~~~e~~~r~~~~~~~~~v~~~~~~~v~~~~  812 (898)
T KOG1051|consen  733 GSYRLKKVQVSDAVRIYNKQFFRKEFLNRIDELDLNLPLDRDELIEIVNKQLTEIEKRLEERELLLLVTDRVDDKVLFKG  812 (898)
T ss_pred             hhhhhhhhhhhhhhhcccccccChHHhcccceeeeecccchhhHhhhhhhHHHHHHHHhhhhHHHHHHHHHHHhhhhhcC
Confidence            113334455555666    8899999999999999999999999999999998888888776667789999999999999


Q ss_pred             cCCCCCchhHHHHHHHHHHHHHHHHHHhccCCCCCEEEEEEcCCcc
Q 047225          226 YNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGN  271 (287)
Q Consensus       226 ~~~~~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~  271 (287)
                      |.+.+++|.+++.|++.+...++..++ .++.++....|...+..+
T Consensus       813 ~d~~ygAr~ikr~i~~~~~~~la~~~l-~ei~~~~~~~i~~~~~~~  857 (898)
T KOG1051|consen  813 YDFDYGARPIKRSIEERFENRLAEALL-GEVEDGLTERILVADGWS  857 (898)
T ss_pred             cChHHHhhHHHHHHHHHHHHHHhhhhe-eeecCCceEEEEeccccc
Confidence            999999999999999999999999999 999999999999877443

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

Probab=99.94  E-value=7.1e-25  Score=194.90  Aligned_cols=220  Identities=28%  Similarity=0.421  Sum_probs=164.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHH-------hCCc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVR-------HRPH   90 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~   90 (287)
                      .+++|+||||||||++|+.+|..+   +.++..++++.+.           .+++.|.+....+...+.       ....
T Consensus       117 ~~iLL~GP~GsGKT~lAraLA~~l---~~pf~~~da~~L~-----------~~gyvG~d~e~~L~~~~~~~~~~l~~a~~  182 (413)
T TIGR00382       117 SNILLIGPTGSGKTLLAQTLARIL---NVPFAIADATTLT-----------EAGYVGEDVENILLKLLQAADYDVEKAQK  182 (413)
T ss_pred             ceEEEECCCCcCHHHHHHHHHHhc---CCCeEEechhhcc-----------ccccccccHHHHHHHHHHhCcccHHhccc
Confidence            479999999999999999999988   5677777765432           234555543333433332       2344


Q ss_pred             EEEEEcCcccccH--------------HHHHHHHHhhcCceeec---CCCceeeccceEEEEeecC---------Cchhh
Q 047225           91 SVILFDEIEKAHR--------------DVLNVMLQLLDDGRVTD---GKGQTVDLKNTIIIMTSNI---------GDSVI  144 (287)
Q Consensus        91 ~il~iDeid~~~~--------------~~~~~L~~~l~~~~~~~---~~g~~i~~~~~~iI~t~n~---------~~~~~  144 (287)
                      ++|||||+|++++              ++|..|+++++ |.+..   ..|+.+++.++++|.|+|.         +...+
T Consensus       183 gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLe-G~~~~v~~~~gr~~~~~~~i~i~TsNilfi~~Gaf~g~~~i  261 (413)
T TIGR00382       183 GIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIE-GTVANVPPQGGRKHPYQEFIQIDTSNILFICGGAFVGLEKI  261 (413)
T ss_pred             ceEEecccchhchhhccccccccccchhHHHHHHHHhh-ccceecccCCCccccCCCeEEEEcCCceeeecccccChHHH
Confidence            7999999999987              69999999995 66553   3578888899999999998         22211


Q ss_pred             hh----hccCCchH------------HHHHHHHHH-HhcCChhHHhccCceEEeCCCCHHHHHHHHHHH----HHHHHHH
Q 047225          145 AR----ESILGSDQ------------MERGVAEEL-RRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIM----LKEIYER  203 (287)
Q Consensus       145 ~~----~~~~~~~~------------~~~~~~~~~-~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~----l~~~~~~  203 (287)
                      ..    ...+||..            +.....+.+ +..|.|+|+.|++.++.|.|++.+++.+|+...    +.++...
T Consensus       262 ~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~dl~~~g~~PEflgRld~Iv~f~pL~~~~L~~Il~~~~n~l~kq~~~~  341 (413)
T TIGR00382       262 IKKRTGKSSIGFGAEVKKKSKEKADLLRQVEPEDLVKFGLIPEFIGRLPVIATLEKLDEEALIAILTKPKNALVKQYQAL  341 (413)
T ss_pred             HHHHhhhccccccccccccchhhHHHHHHHHHHHHHHHhhHHHHhCCCCeEeecCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            11    12244421            111122333 445999999999999999999999999999875    4455555


Q ss_pred             HHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHHHHHHH
Q 047225          204 LEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIIL  252 (287)
Q Consensus       204 ~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~~~~~~  252 (287)
                      +...+..+.++++++++|+..++.+.+|+|.+++.+++.+...+.+...
T Consensus       342 l~~~gi~L~~t~~a~~~Ia~~~~~~~~GAR~Lr~iie~~l~~~m~e~p~  390 (413)
T TIGR00382       342 FKMDNVELDFEEEALKAIAKKALERKTGARGLRSIVEGLLLDVMFDLPS  390 (413)
T ss_pred             hccCCeEEEECHHHHHHHHHhCCCCCCCchHHHHHHHHhhHHHHhhCCC
Confidence            5556889999999999999999999999999999999999988876643

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.

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

Probab=99.93  E-value=3.4e-24  Score=191.64  Aligned_cols=235  Identities=26%  Similarity=0.367  Sum_probs=167.6

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHH-------HHhC
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEA-------VRHR   88 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~   88 (287)
                      +..+++|+||||||||++|+.+|..+   +.+++.++++.+..           .+|.|......+...       +...
T Consensus       107 ~~~~iLl~Gp~GtGKT~lAr~lA~~l---~~pf~~id~~~l~~-----------~gyvG~d~e~~l~~l~~~~~~~~~~a  172 (412)
T PRK05342        107 QKSNILLIGPTGSGKTLLAQTLARIL---DVPFAIADATTLTE-----------AGYVGEDVENILLKLLQAADYDVEKA  172 (412)
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh---CCCceecchhhccc-----------CCcccchHHHHHHHHHHhccccHHHc
Confidence            34579999999999999999999988   67888888876543           133333222222221       2234


Q ss_pred             CcEEEEEcCcccccH--------------HHHHHHHHhhcCceeecC--CCceeeccceEEEEeecC-----Cc----hh
Q 047225           89 PHSVILFDEIEKAHR--------------DVLNVMLQLLDDGRVTDG--KGQTVDLKNTIIIMTSNI-----GD----SV  143 (287)
Q Consensus        89 ~~~il~iDeid~~~~--------------~~~~~L~~~l~~~~~~~~--~g~~i~~~~~~iI~t~n~-----~~----~~  143 (287)
                      .++||||||+|++++              ++|..|+++|+......+  .|+..+..++++|.|+|.     ++    ..
T Consensus       173 ~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~~LL~~Leg~~~~v~~~gg~~~~~~~~~~i~t~nilfi~~Gaf~g~~~  252 (412)
T PRK05342        173 QRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASVPPQGGRKHPQQEFIQVDTTNILFICGGAFDGLEK  252 (412)
T ss_pred             CCcEEEEechhhhccccCCCCcCCCcccHHHHHHHHHHHhcCeEEeCCCCCcCcCCCCeEEeccCCceeeecccccCcHH
Confidence            568999999999975              489999999986554443  356666667777777777     11    11


Q ss_pred             h----hhhccCCchHH-------------HHHH-HHHHH-hcCChhHHhccCceEEeCCCCHHHHHHHHH----HHHHHH
Q 047225          144 I----ARESILGSDQM-------------ERGV-AEELR-RRFRPEFLNRIDEVIVFRQLNKMQLMEIVD----IMLKEI  200 (287)
Q Consensus       144 ~----~~~~~~~~~~~-------------~~~~-~~~~~-~~~~~~l~~r~~~~i~~~~~~~~~~~~il~----~~l~~~  200 (287)
                      .    .....+||...             ...+ .+.+. ..|.|+|+.|++.++.|.|++.+++.+|+.    ..++++
T Consensus       253 ~~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~dL~~~gf~PEflgRld~iv~f~~L~~~~L~~Il~~~~~~l~~q~  332 (412)
T PRK05342        253 IIKQRLGKKGIGFGAEVKSKKEKRTEGELLKQVEPEDLIKFGLIPEFIGRLPVVATLEELDEEALVRILTEPKNALVKQY  332 (412)
T ss_pred             HHHHHHhhcccCCccccccccccchhHHHHHhcCHHHHHHHhhhHHHhCCCCeeeecCCCCHHHHHHHHHHHHHHHHHHH
Confidence            1    11133454311             1111 12223 348999999999999999999999999998    456666


Q ss_pred             HHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHHHHHHHhccCCCCCEEEEEEc
Q 047225          201 YERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCD  267 (287)
Q Consensus       201 ~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~i~~~  267 (287)
                      ...+...+..+.++++++++|+..++...+|+|.+++.+++.+...+.+.....+   ...+.|+.+
T Consensus       333 ~~~l~~~~i~L~~t~~al~~Ia~~~~~~~~GAR~Lrriie~~l~~~~~~~p~~~~---~~~v~I~~~  396 (412)
T PRK05342        333 QKLFEMDGVELEFTDEALEAIAKKAIERKTGARGLRSILEEILLDVMFELPSRED---VEKVVITKE  396 (412)
T ss_pred             HHHHHhCCcEEEECHHHHHHHHHhCCCCCCCCchHHHHHHHHhHHHHHhccccCC---CceEEECHH
Confidence            6666777889999999999999999999999999999999999988876653322   234555543

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=99.90  E-value=1.9e-23  Score=165.87  Aligned_cols=151  Identities=54%  Similarity=0.825  Sum_probs=122.3

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhc-CCCCceEEeccccccc----ccchhhhhCCCCCCCcccchhhHHHHHHhCC
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYF-GSKEAMVRIDMSEYME----KHTVSKFFGSPPGYVGFENGGQLTEAVRHRP   89 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~-~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (287)
                      +|..+++|.||+|||||.++++|++.+. ....+++.+||+++.+    ...+..+++.++++.++.+            
T Consensus         1 ~p~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~~~~~~~~~~~l~~~~~~~v~~~~------------   68 (171)
T PF07724_consen    1 RPKSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSEGDDVESSVSKLLGSPPGYVGAEE------------   68 (171)
T ss_dssp             S-SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCSHHHCSCHCHHHHHHTTCHHHHHH------------
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccccchHHhhhhhhhhcccceeeccc------------
Confidence            4678999999999999999999999998 7888999999999998    5556666665555443222            


Q ss_pred             cEEEEEcCcccccH-----------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhc---cCCchHH
Q 047225           90 HSVILFDEIEKAHR-----------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARES---ILGSDQM  155 (287)
Q Consensus        90 ~~il~iDeid~~~~-----------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~---~~~~~~~  155 (287)
                      .+|||||||||+++           .+++.|+++++.|.+....|..++..+++||+|+|.+........   .......
T Consensus        69 ~gVVllDEidKa~~~~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~~~~~~~~~~~~~~~~~~~~  148 (171)
T PF07724_consen   69 GGVVLLDEIDKAHPSNSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNFGAEEIIDASRSGEAIEQEQ  148 (171)
T ss_dssp             HTEEEEETGGGCSHTTTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESSSTHHHHHCHHHCTCCHHHH
T ss_pred             hhhhhhHHHhhccccccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEecccccchhhhhhccccccHHHH
Confidence            13999999999999           999999999999999998899999999999999999877665531   1223344


Q ss_pred             HHHHHHHHHhcCChhHHhccCc
Q 047225          156 ERGVAEELRRRFRPEFLNRIDE  177 (287)
Q Consensus       156 ~~~~~~~~~~~~~~~l~~r~~~  177 (287)
                      .....+.++..|.|+|+.||+.
T Consensus       149 ~~~~~~~~~~~f~pEf~~Ri~~  170 (171)
T PF07724_consen  149 EEQIRDLVEYGFRPEFLGRIDV  170 (171)
T ss_dssp             CHHHHHHHHHTS-HHHHTTSSE
T ss_pred             HHHHHHHHHcCCCHHHHccCCc
Confidence            5556777788999999999964

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 ....

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=99.89  E-value=4.2e-22  Score=161.00  Aligned_cols=171  Identities=20%  Similarity=0.369  Sum_probs=112.0

Q ss_pred             CCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh-CCc
Q 047225           12 DPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH-RPH   90 (287)
Q Consensus        12 ~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~   90 (287)
                      ..+.++.+++||||||+||||+|+.+|+.+   +.++...+.......                   ..+...+.. ...
T Consensus        45 ~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~---~~~~~~~sg~~i~k~-------------------~dl~~il~~l~~~  102 (233)
T PF05496_consen   45 KRGEALDHMLFYGPPGLGKTTLARIIANEL---GVNFKITSGPAIEKA-------------------GDLAAILTNLKEG  102 (233)
T ss_dssp             CTTS---EEEEESSTTSSHHHHHHHHHHHC---T--EEEEECCC--SC-------------------HHHHHHHHT--TT
T ss_pred             hcCCCcceEEEECCCccchhHHHHHHHhcc---CCCeEeccchhhhhH-------------------HHHHHHHHhcCCC
Confidence            345567799999999999999999999999   555554443221111                   233333322 345


Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceee--cCCC-----ceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHH
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVT--DGKG-----QTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEEL  163 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~--~~~g-----~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~  163 (287)
                      .||||||++++++.+++.|+..||++.+.  .+.|     ..++++.+.+|.+|+...                      
T Consensus       103 ~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~g----------------------  160 (233)
T PF05496_consen  103 DILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRAG----------------------  160 (233)
T ss_dssp             -EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSGC----------------------
T ss_pred             cEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeecccc----------------------
Confidence            69999999999999999999999999863  3433     355667899998887642                      


Q ss_pred             HhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          164 RRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       164 ~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                        .++++|.+||+....+..++.+++.+|+.+...         -..+.+++++..+|+..+       |...+..++++
T Consensus       161 --~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~---------~l~i~i~~~~~~~Ia~rs-------rGtPRiAnrll  222 (233)
T PF05496_consen  161 --LLSSPLRDRFGIVLRLEFYSEEELAKIVKRSAR---------ILNIEIDEDAAEEIARRS-------RGTPRIANRLL  222 (233)
T ss_dssp             --CTSHCCCTTSSEEEE----THHHHHHHHHHCCH---------CTT-EE-HHHHHHHHHCT-------TTSHHHHHHHH
T ss_pred             --ccchhHHhhcceecchhcCCHHHHHHHHHHHHH---------HhCCCcCHHHHHHHHHhc-------CCChHHHHHHH
Confidence              467899999988899999999999999954432         236899999999999976       45556666555


Q ss_pred             H
Q 047225          244 E  244 (287)
Q Consensus       244 ~  244 (287)
                      .
T Consensus       223 ~  223 (233)
T PF05496_consen  223 R  223 (233)
T ss_dssp             H
T ss_pred             H
Confidence            4

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.

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

Probab=99.88  E-value=1.5e-21  Score=178.42  Aligned_cols=212  Identities=26%  Similarity=0.424  Sum_probs=168.8

Q ss_pred             chhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhH
Q 047225            2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL   81 (287)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (287)
                      ||.+++..++.|     .+||+||||+|||++++.+|+.+   +.+++.+.++...|.   +++-|+...|.|....+-+
T Consensus       340 AV~~l~~~~kGp-----ILcLVGPPGVGKTSLgkSIA~al---~RkfvR~sLGGvrDE---AEIRGHRRTYIGamPGrIi  408 (782)
T COG0466         340 AVQKLTKKLKGP-----ILCLVGPPGVGKTSLGKSIAKAL---GRKFVRISLGGVRDE---AEIRGHRRTYIGAMPGKII  408 (782)
T ss_pred             HHHHHhccCCCc-----EEEEECCCCCCchhHHHHHHHHh---CCCEEEEecCccccH---HHhccccccccccCChHHH
Confidence            456666666665     79999999999999999999999   889999999998886   5667788888888886444


Q ss_pred             HHHHHhC-CcEEEEEcCcccccHH----HHHHHHHhhc---CceeecCC-CceeeccceEEEEeecCCchhhhhhccCCc
Q 047225           82 TEAVRHR-PHSVILFDEIEKAHRD----VLNVMLQLLD---DGRVTDGK-GQTVDLKNTIIIMTSNIGDSVIARESILGS  152 (287)
Q Consensus        82 ~~~~~~~-~~~il~iDeid~~~~~----~~~~L~~~l~---~~~~~~~~-g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~  152 (287)
                      ..+...+ .+.++++||+|++..+    --++|+++++   +..|.++- ....++++++||+|+|.-.           
T Consensus       409 Q~mkka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTANsl~-----------  477 (782)
T COG0466         409 QGMKKAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATANSLD-----------  477 (782)
T ss_pred             HHHHHhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEEeecCccc-----------
Confidence            4443332 2459999999999764    3467888886   34455554 6778889999999999742           


Q ss_pred             hHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhc---CcEEEeChhHHHHHHHhccCCC
Q 047225          153 DQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAK---NMELTVTHTFKKKLIEEGYNPS  229 (287)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~---~~~~~i~~~~~~~l~~~~~~~~  229 (287)
                                   .++.+|++|. ++|.++-++.++-.+|.+.+|-.  ..+..+   ...+.++++++..|.+. |...
T Consensus       478 -------------tIP~PLlDRM-EiI~lsgYt~~EKl~IAk~~LiP--k~~~~~gL~~~el~i~d~ai~~iI~~-YTRE  540 (782)
T COG0466         478 -------------TIPAPLLDRM-EVIRLSGYTEDEKLEIAKRHLIP--KQLKEHGLKKGELTITDEAIKDIIRY-YTRE  540 (782)
T ss_pred             -------------cCChHHhcce-eeeeecCCChHHHHHHHHHhcch--HHHHHcCCCccceeecHHHHHHHHHH-HhHh
Confidence                         3689999999 99999999999999999988742  222222   23489999999999986 7888


Q ss_pred             CCchhHHHHHHHHHHHHHHHHHH
Q 047225          230 YGARPLRRAIGRLLEDNLAEIIL  252 (287)
Q Consensus       230 ~~~r~l~~~i~~~~~~~~~~~~~  252 (287)
                      .|+|.|++-+.+++..+..+.+.
T Consensus       541 AGVR~LeR~i~ki~RK~~~~i~~  563 (782)
T COG0466         541 AGVRNLEREIAKICRKAAKKILL  563 (782)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHh
Confidence            89999999999999988876655

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=99.88  E-value=6.5e-22  Score=176.51  Aligned_cols=215  Identities=19%  Similarity=0.264  Sum_probs=171.2

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhH
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQL   81 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~   81 (287)
                      ++.++..+..+.    ++++.|++||||..+|+++++.....+.+|+.+||....+....+.+||...|. +|....++ 
T Consensus       258 ~~~akr~A~tds----tVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiPe~LlESELFGye~GAFTGA~~~GK-  332 (560)
T COG3829         258 LELAKRIAKTDS----TVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIPETLLESELFGYEKGAFTGASKGGK-  332 (560)
T ss_pred             HHHHHhhcCCCC----cEEEecCCCccHHHHHHHHHhcCcccCCCeEEEecccCCHHHHHHHHhCcCCccccccccCCC-
Confidence            344455554443    699999999999999999999999999999999999999888888999987763 45443211 


Q ss_pred             HHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHH
Q 047225           82 TEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAE  161 (287)
Q Consensus        82 ~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~  161 (287)
                      ...+...+.+.||+|||..++...|..|+++++++.+.--.|...-..++++|+|||......                 
T Consensus       333 ~GlfE~A~gGTLFLDEIgempl~LQaKLLRVLQEkei~rvG~t~~~~vDVRIIAATN~nL~~~-----------------  395 (560)
T COG3829         333 PGLFELANGGTLFLDEIGEMPLPLQAKLLRVLQEKEIERVGGTKPIPVDVRIIAATNRNLEKM-----------------  395 (560)
T ss_pred             CcceeeccCCeEEehhhccCCHHHHHHHHHHHhhceEEecCCCCceeeEEEEEeccCcCHHHH-----------------
Confidence            122233355799999999999999999999999988765444444456899999999864322                 


Q ss_pred             HHHhcCChhHHhccCce-EEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEE-EeChhHHHHHHHhccCCCCCchhHHH
Q 047225          162 ELRRRFRPEFLNRIDEV-IVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMEL-TVTHTFKKKLIEEGYNPSYGARPLRR  237 (287)
Q Consensus       162 ~~~~~~~~~l~~r~~~~-i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~-~i~~~~~~~l~~~~~~~~~~~r~l~~  237 (287)
                      .-++.|+.+|..|++-. |.+||+.  ++|+..++.++++++..++.   ..+ .++++++..+.++.|+.  ++|+|++
T Consensus       396 i~~G~FReDLYYRLNV~~i~iPPLReR~eDI~~L~~~Fl~k~s~~~~---~~v~~ls~~a~~~L~~y~WPG--NVRELeN  470 (560)
T COG3829         396 IAEGTFREDLYYRLNVIPITIPPLRERKEDIPLLAEYFLDKFSRRYG---RNVKGLSPDALALLLRYDWPG--NVRELEN  470 (560)
T ss_pred             HhcCcchhhheeeeceeeecCCCcccCcchHHHHHHHHHHHHHHHcC---CCcccCCHHHHHHHHhCCCCc--hHHHHHH
Confidence            12358999999999755 8999998  88999999999999888874   344 49999999999999976  5699999


Q ss_pred             HHHHHHH
Q 047225          238 AIGRLLE  244 (287)
Q Consensus       238 ~i~~~~~  244 (287)
                      .+++++.
T Consensus       471 viER~v~  477 (560)
T COG3829         471 VIERAVN  477 (560)
T ss_pred             HHHHHHh
Confidence            9998874

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

Probab=99.87  E-value=1.4e-20  Score=180.69  Aligned_cols=213  Identities=26%  Similarity=0.407  Sum_probs=160.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhC--CcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHR--PHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~il~iD   96 (287)
                      .++|+||||+|||++++.+++.+   +.+++.++++...+.   ..+.|+...+.|.... .+...+...  ...+++||
T Consensus       351 ~i~l~GppG~GKTtl~~~ia~~l---~~~~~~i~~~~~~d~---~~i~g~~~~~~g~~~G-~~~~~l~~~~~~~~villD  423 (784)
T PRK10787        351 ILCLVGPPGVGKTSLGQSIAKAT---GRKYVRMALGGVRDE---AEIRGHRRTYIGSMPG-KLIQKMAKVGVKNPLFLLD  423 (784)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh---CCCEEEEEcCCCCCH---HHhccchhccCCCCCc-HHHHHHHhcCCCCCEEEEE
Confidence            69999999999999999999998   567888887765544   3344444444444433 444444432  24599999


Q ss_pred             CcccccHHH----HHHHHHhhcCc---eeecCC-CceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCC
Q 047225           97 EIEKAHRDV----LNVMLQLLDDG---RVTDGK-GQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFR  168 (287)
Q Consensus        97 eid~~~~~~----~~~L~~~l~~~---~~~~~~-g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (287)
                      |+|++.++.    .++|+++++.+   .+.++. ...++++++++|+|+|.-                         .++
T Consensus       424 Eidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~TaN~~-------------------------~i~  478 (784)
T PRK10787        424 EIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNSM-------------------------NIP  478 (784)
T ss_pred             ChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEEEcCCCC-------------------------CCC
Confidence            999998865    58999999854   233332 455677899999999863                         358


Q ss_pred             hhHHhccCceEEeCCCCHHHHHHHHHHHHH-HHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHH
Q 047225          169 PEFLNRIDEVIVFRQLNKMQLMEIVDIMLK-EIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNL  247 (287)
Q Consensus       169 ~~l~~r~~~~i~~~~~~~~~~~~il~~~l~-~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~  247 (287)
                      ++|++|+ ..|.|++++.++..+|++.++. +...+....+..+.++++++++++. .|.+..|+|.+++.+++.+...+
T Consensus       479 ~aLl~R~-~ii~~~~~t~eek~~Ia~~~L~~k~~~~~~l~~~~l~i~~~ai~~ii~-~yt~e~GaR~LeR~I~~i~r~~l  556 (784)
T PRK10787        479 APLLDRM-EVIRLSGYTEDEKLNIAKRHLLPKQIERNALKKGELTVDDSAIIGIIR-YYTREAGVRSLEREISKLCRKAV  556 (784)
T ss_pred             HHHhcce-eeeecCCCCHHHHHHHHHHhhhHHHHHHhCCCCCeEEECHHHHHHHHH-hCCcccCCcHHHHHHHHHHHHHH
Confidence            9999999 8999999999999999999985 3333333334479999999999997 68899999999999999999999


Q ss_pred             HHHHHhccCCCCCEEEEEEcC
Q 047225          248 AEIILTGYIQVGDSVTMDCDS  268 (287)
Q Consensus       248 ~~~~~~~~~~~~~~~~i~~~~  268 (287)
                      ++..+.+...   ++.++.++
T Consensus       557 ~~~~~~~~~~---~v~v~~~~  574 (784)
T PRK10787        557 KQLLLDKSLK---HIEINGDN  574 (784)
T ss_pred             HHHHhcCCCc---eeeecHHH
Confidence            8887765543   45555544

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=99.87  E-value=1.9e-21  Score=170.30  Aligned_cols=203  Identities=19%  Similarity=0.311  Sum_probs=154.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++|+|++||||+++|++++........+++.+||....+......+||...+. .|...  .-...+.....++|||||
T Consensus        24 pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~~~l~~~lfG~~~g~~~ga~~--~~~G~~~~a~gGtL~Lde  101 (329)
T TIGR02974        24 PVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDSELFGHEAGAFTGAQK--RHQGRFERADGGTLFLDE  101 (329)
T ss_pred             CEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCChHHHHHHHhccccccccCccc--ccCCchhhCCCCEEEeCC
Confidence            699999999999999999999887677899999999876554455677765442 22211  112233344567999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC-
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID-  176 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~-  176 (287)
                      ++.++...|..|+++++++.+....+......++.+|++++......                 .-++.|.++|+.|+. 
T Consensus       102 i~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~~~l~~~-----------------~~~g~fr~dL~~rl~~  164 (329)
T TIGR02974       102 LATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADLPAL-----------------AAEGRFRADLLDRLAF  164 (329)
T ss_pred             hHhCCHHHHHHHHHHHHcCcEEecCCCceeccceEEEEechhhHHHH-----------------hhcCchHHHHHHHhcc
Confidence            99999999999999999987654333333345789999998643221                 113468899999995 


Q ss_pred             ceEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcE--EEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          177 EVIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNME--LTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       177 ~~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~--~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ..|.+||+.  .+|+..++.+++.++..+..   ..  ..+++++++.|..+.|+.  ++|+|++++++++..
T Consensus       165 ~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~---~~~~~~ls~~a~~~L~~y~WPG--NvrEL~n~i~~~~~~  232 (329)
T TIGR02974       165 DVITLPPLRERQEDIMLLAEHFAIRMARELG---LPLFPGFTPQAREQLLEYHWPG--NVRELKNVVERSVYR  232 (329)
T ss_pred             hhcCCCchhhhhhhHHHHHHHHHHHHHHHhC---CCCCCCcCHHHHHHHHhCCCCc--hHHHHHHHHHHHHHh
Confidence            459999999  78999999999988766553   23  479999999999999966  559999999988774

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

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=99.86  E-value=2.2e-21  Score=173.15  Aligned_cols=204  Identities=20%  Similarity=0.254  Sum_probs=166.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCCcEEEEEc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iD   96 (287)
                      .++++.|++||||..+|++|++.....+.+++.+||..+........+||+..|. +|...  .-...+...+.++||+|
T Consensus       165 a~VLI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~~l~ESELFGhekGAFTGA~~--~r~G~fE~A~GGTLfLD  242 (464)
T COG2204         165 ASVLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPENLLESELFGHEKGAFTGAIT--RRIGRFEQANGGTLFLD  242 (464)
T ss_pred             CCEEEECCCCCcHHHHHHHHHhhCcccCCCceeeecccCCHHHHHHHhhcccccCcCCccc--ccCcceeEcCCceEEee
Confidence            3699999999999999999999998888999999999999888888999988763 33332  22234445567899999


Q ss_pred             CcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC
Q 047225           97 EIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID  176 (287)
Q Consensus        97 eid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~  176 (287)
                      ||..++.++|..|+++++++.+.--.|...-..++.||.+||..-.                 +..-++.|.++|..|+.
T Consensus       243 EI~~mpl~~Q~kLLRvLqe~~~~rvG~~~~i~vdvRiIaaT~~dL~-----------------~~v~~G~FReDLyyRLn  305 (464)
T COG2204         243 EIGEMPLELQVKLLRVLQEREFERVGGNKPIKVDVRIIAATNRDLE-----------------EEVAAGRFREDLYYRLN  305 (464)
T ss_pred             ccccCCHHHHHHHHHHHHcCeeEecCCCcccceeeEEEeecCcCHH-----------------HHHHcCCcHHHHHhhhc
Confidence            9999999999999999999987764444444458899999987532                 12224689999999996


Q ss_pred             ce-EEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          177 EV-IVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       177 ~~-i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      .. +.+||+.  .+|+.-++.+++.+++......  ...++++++..+..+.|+.  ++|+|++++++++.
T Consensus       306 V~~i~iPpLRER~EDIp~L~~hfl~~~~~~~~~~--~~~~s~~a~~~L~~y~WPG--NVREL~N~ver~~i  372 (464)
T COG2204         306 VVPLRLPPLRERKEDIPLLAEHFLKRFAAELGRP--PKGFSPEALAALLAYDWPG--NVRELENVVERAVI  372 (464)
T ss_pred             cceecCCcccccchhHHHHHHHHHHHHHHHcCCC--CCCCCHHHHHHHHhCCCCh--HHHHHHHHHHHHHh
Confidence            54 8999998  8899999999999988877432  4689999999999999976  56999999998776

>TIGR00763 lon ATP-dependent protease La

Probab=99.85  E-value=5.1e-20  Score=178.21  Aligned_cols=204  Identities=26%  Similarity=0.406  Sum_probs=150.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh--CCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH--RPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~il~iD   96 (287)
                      +++|+||||||||++++++|+.+   +.+++.++++...+.   ..+.+....+.|.... .+.+.+..  ....|++||
T Consensus       349 ~lll~GppG~GKT~lAk~iA~~l---~~~~~~i~~~~~~~~---~~i~g~~~~~~g~~~g-~i~~~l~~~~~~~~villD  421 (775)
T TIGR00763       349 ILCLVGPPGVGKTSLGKSIAKAL---NRKFVRFSLGGVRDE---AEIRGHRRTYVGAMPG-RIIQGLKKAKTKNPLFLLD  421 (775)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh---cCCeEEEeCCCcccH---HHHcCCCCceeCCCCc-hHHHHHHHhCcCCCEEEEe
Confidence            69999999999999999999999   677888887665443   2333444444444332 33333332  233599999


Q ss_pred             CcccccHH----HHHHHHHhhcC---ceeecCC-CceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCC
Q 047225           97 EIEKAHRD----VLNVMLQLLDD---GRVTDGK-GQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFR  168 (287)
Q Consensus        97 eid~~~~~----~~~~L~~~l~~---~~~~~~~-g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (287)
                      |+|++.++    ..++|+++++.   +.+..+. +..+++++++||+|+|...                        .++
T Consensus       422 Eidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~TtN~~~------------------------~i~  477 (775)
T TIGR00763       422 EIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIATANSID------------------------TIP  477 (775)
T ss_pred             chhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEEEEecCCch------------------------hCC
Confidence            99999764    34788888874   3444432 5667778899999999742                        468


Q ss_pred             hhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcC---cEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          169 PEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKN---MELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       169 ~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~---~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ++|++|| ..|.|++|+.++..+|++.++...  .+...+   ..+.++++++.+++. .|....|+|.+++.+.+.+..
T Consensus       478 ~~L~~R~-~vi~~~~~~~~e~~~I~~~~l~~~--~~~~~~l~~~~~~~~~~~l~~i~~-~~~~e~g~R~l~r~i~~~~~~  553 (775)
T TIGR00763       478 RPLLDRM-EVIELSGYTEEEKLEIAKKYLIPK--ALEDHGLKPDELKITDEALLLLIK-YYTREAGVRNLERQIEKICRK  553 (775)
T ss_pred             HHHhCCe-eEEecCCCCHHHHHHHHHHHHHHH--HHHHcCCCcceEEECHHHHHHHHH-hcChhcCChHHHHHHHHHHHH
Confidence            9999999 789999999999999998887532  222222   258999999999998 588899999999999999988


Q ss_pred             HHHHHHHhccCC
Q 047225          246 NLAEIILTGYIQ  257 (287)
Q Consensus       246 ~~~~~~~~~~~~  257 (287)
                      ...+....++..
T Consensus       554 ~~~~~~~~~~~~  565 (775)
T TIGR00763       554 AAVKLVEQGEKK  565 (775)
T ss_pred             HHHHHHhccCcc
Confidence            865554445443

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.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.85  E-value=5.5e-20  Score=156.77  Aligned_cols=200  Identities=21%  Similarity=0.342  Sum_probs=135.0

Q ss_pred             ccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcC----CCCceEEecccccccccchhhhhCCCCCCCcccchhhHHH
Q 047225            8 VGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFG----SKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTE   83 (287)
Q Consensus         8 ~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (287)
                      .++..++.+. +++|+||||||||++|+.+++.+..    ....++.+++++...     ..+|       .. ...+.+
T Consensus        34 ~g~~~~~~~~-~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~~l~~-----~~~g-------~~-~~~~~~   99 (261)
T TIGR02881        34 EGLKTSKQVL-HMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERADLVG-----EYIG-------HT-AQKTRE   99 (261)
T ss_pred             cCCCCCCCcc-eEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHHHhhh-----hhcc-------ch-HHHHHH
Confidence            3455444444 7999999999999999999998632    223555555544321     1111       11 123445


Q ss_pred             HHHhCCcEEEEEcCccccc--------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHH
Q 047225           84 AVRHRPHSVILFDEIEKAH--------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQM  155 (287)
Q Consensus        84 ~~~~~~~~il~iDeid~~~--------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~  155 (287)
                      .+.....+||||||+|.+.        .+.++.|++.++++.           .++++|+++.+.....           
T Consensus       100 ~~~~a~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~-----------~~~~vila~~~~~~~~-----------  157 (261)
T TIGR02881       100 VIKKALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNR-----------NEFVLILAGYSDEMDY-----------  157 (261)
T ss_pred             HHHhccCCEEEEechhhhccCCccchHHHHHHHHHHHHhccC-----------CCEEEEecCCcchhHH-----------
Confidence            5555556799999999865        457788888887632           2345666665432100           


Q ss_pred             HHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHh-------ccCC
Q 047225          156 ERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEE-------GYNP  228 (287)
Q Consensus       156 ~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~-------~~~~  228 (287)
                              -..++|+|.+||+..+.||+++.+++.+|++..+...         ...++++++.+++..       ....
T Consensus       158 --------~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~~~---------~~~l~~~a~~~l~~~~~~~~~~~~~~  220 (261)
T TIGR02881       158 --------FLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVKER---------EYKLTEEAKWKLREHLYKVDQLSSRE  220 (261)
T ss_pred             --------HHhcChHHHhccceEEEECCCCHHHHHHHHHHHHHHc---------CCccCHHHHHHHHHHHHHHHhccCCC
Confidence                    0135689999998889999999999999998777541         456899999988653       2233


Q ss_pred             CCCchhHHHHHHHHHHHHHHHHHHhccCCCCC
Q 047225          229 SYGARPLRRAIGRLLEDNLAEIILTGYIQVGD  260 (287)
Q Consensus       229 ~~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~~  260 (287)
                      ..++|.+++.++.++..+..+.+.+......+
T Consensus       221 ~gn~R~~~n~~e~a~~~~~~r~~~~~~~~~~~  252 (261)
T TIGR02881       221 FSNARYVRNIIEKAIRRQAVRLLDKSDYSKED  252 (261)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHhccCCCCHHH
Confidence            56789999999999988876665555544333

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.

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=99.85  E-value=2e-20  Score=165.06  Aligned_cols=204  Identities=18%  Similarity=0.235  Sum_probs=164.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++|.|++||||..+|++|++.......+++++||....+....+++||+..|. +|....+.  ......+.+.+|+||
T Consensus       248 tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlPesLlESELFGHeKGAFTGA~~~r~--GrFElAdGGTLFLDE  325 (550)
T COG3604         248 TVLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALPESLLESELFGHEKGAFTGAINTRR--GRFELADGGTLFLDE  325 (550)
T ss_pred             eEEEecCCCccHHHHHHHHHhhCcccCCCceeeeccccchHHHHHHHhcccccccccchhccC--cceeecCCCeEechh
Confidence            699999999999999999999998889999999999999888889999988664 23222111  112223457999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCc
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDE  177 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~  177 (287)
                      |..++...|..|++++++|++.--.|...-.-++.+|++||..-.              ..   .-...|..+|..|+..
T Consensus       326 IGelPL~lQaKLLRvLQegEieRvG~~r~ikVDVRiIAATNRDL~--------------~~---V~~G~FRaDLYyRLsV  388 (550)
T COG3604         326 IGELPLALQAKLLRVLQEGEIERVGGDRTIKVDVRVIAATNRDLE--------------EM---VRDGEFRADLYYRLSV  388 (550)
T ss_pred             hccCCHHHHHHHHHHHhhcceeecCCCceeEEEEEEEeccchhHH--------------HH---HHcCcchhhhhhcccc
Confidence            999999999999999999987754444444458899999997422              22   2235799999999975


Q ss_pred             e-EEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          178 V-IVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       178 ~-i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      + +.+||+.  .+|+.-+..++++++..++...  .+.++.++.+.+.++.|+.  ++|+++.+|++++.-
T Consensus       389 ~Pl~lPPLRER~~DIplLA~~Fle~~~~~~gr~--~l~ls~~Al~~L~~y~wPG--NVRELen~veRavll  455 (550)
T COG3604         389 FPLELPPLRERPEDIPLLAGYFLEKFRRRLGRA--ILSLSAEALELLSSYEWPG--NVRELENVVERAVLL  455 (550)
T ss_pred             cccCCCCcccCCccHHHHHHHHHHHHHHhcCCc--ccccCHHHHHHHHcCCCCC--cHHHHHHHHHHHHHH
Confidence            5 8889998  7789999999999988877422  6899999999999988866  569999999988873

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=99.84  E-value=2.8e-20  Score=163.06  Aligned_cols=204  Identities=17%  Similarity=0.287  Sum_probs=151.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++|+|++||||+++|+.++........+++.+||....+......+||...+. .|...  .....+.....++|||||
T Consensus        31 pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~~~~~~~lfg~~~~~~~g~~~--~~~g~l~~a~gGtL~l~~  108 (326)
T PRK11608         31 PVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSELFGHEAGAFTGAQK--RHPGRFERADGGTLFLDE  108 (326)
T ss_pred             CEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCHHHHHHHHccccccccCCccc--ccCCchhccCCCeEEeCC
Confidence            699999999999999999998776667899999999876544345677755432 22111  112233444557999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC-
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID-  176 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~-  176 (287)
                      ++.++...|..|+.+++++.+....+......++.+|++++......                 .-++.|.++|+.|+. 
T Consensus       109 i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~~~l~~l-----------------~~~g~f~~dL~~~l~~  171 (326)
T PRK11608        109 LATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAM-----------------VAEGKFRADLLDRLAF  171 (326)
T ss_pred             hhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCchhHHHH-----------------HHcCCchHHHHHhcCC
Confidence            99999999999999999887654333222224788999987653221                 123478899999994 


Q ss_pred             ceEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          177 EVIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       177 ~~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      ..|.+||+.  .+|+..++.+++.++..+.... ....++++++..+..+.|+.  ++|+|++++++++.
T Consensus       172 ~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~-~~~~~s~~al~~L~~y~WPG--NvrEL~~vl~~a~~  238 (326)
T PRK11608        172 DVVQLPPLRERQSDIMLMAEHFAIQMCRELGLP-LFPGFTERARETLLNYRWPG--NIRELKNVVERSVY  238 (326)
T ss_pred             CEEECCChhhhhhhHHHHHHHHHHHHHHHhCCC-CCCCCCHHHHHHHHhCCCCc--HHHHHHHHHHHHHH
Confidence            569999999  5789999999998876554221 01469999999999999976  55999999998876

>TIGR01817 nifA Nif-specific regulatory protein

Probab=99.84  E-value=2.8e-20  Score=173.83  Aligned_cols=203  Identities=19%  Similarity=0.274  Sum_probs=154.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCC-cccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYV-GFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++|+|++||||+++|+.|+........+++.+||..+.+......+||...+.. |...  .-...+.....++|||||
T Consensus       221 pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~~~~~~~~lfg~~~~~~~~~~~--~~~g~~~~a~~GtL~lde  298 (534)
T TIGR01817       221 TVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSETLLESELFGHEKGAFTGAIA--QRKGRFELADGGTLFLDE  298 (534)
T ss_pred             CEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCCHHHHHHHHcCCCCCccCCCCc--CCCCcccccCCCeEEEec
Confidence            6999999999999999999998876788999999998876554566777654422 2111  111122233457999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCc
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDE  177 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~  177 (287)
                      ++.+++..|..|+++++++.+....+......++.+|++++......                 .-++.|.++|..|+..
T Consensus       299 i~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s~~~l~~~-----------------~~~~~f~~~L~~rl~~  361 (534)
T TIGR01817       299 IGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDLEEA-----------------VAKGEFRADLYYRINV  361 (534)
T ss_pred             hhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeCCCCHHHH-----------------HHcCCCCHHHHHHhcC
Confidence            99999999999999999887664333333334788999988653221                 1145789999999964


Q ss_pred             -eEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          178 -VIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       178 -~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                       .|.+||+.  .+|+..++.+++.++..+.   +..+.+++++++.|..+.|+.  ++|+|++++++++..
T Consensus       362 ~~i~lPpLreR~eDi~~L~~~~l~~~~~~~---~~~~~~s~~a~~~L~~~~WPG--NvrEL~~v~~~a~~~  427 (534)
T TIGR01817       362 VPIFLPPLRERREDIPLLAEAFLEKFNREN---GRPLTITPSAIRVLMSCKWPG--NVRELENCLERTATL  427 (534)
T ss_pred             CeeeCCCcccccccHHHHHHHHHHHHHHHc---CCCCCCCHHHHHHHHhCCCCC--hHHHHHHHHHHHHHh
Confidence             59999999  7899999999998876654   223689999999999999966  559999999988763

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

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

Probab=99.84  E-value=8.1e-20  Score=157.49  Aligned_cols=160  Identities=19%  Similarity=0.308  Sum_probs=117.6

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHH----HhCCcEE
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAV----RHRPHSV   92 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~i   92 (287)
                      .++++|||||||||||+|+.||...   +..+..++.....                 ..+...+++..    ..+...|
T Consensus        48 l~SmIl~GPPG~GKTTlA~liA~~~---~~~f~~~sAv~~g-----------------vkdlr~i~e~a~~~~~~gr~ti  107 (436)
T COG2256          48 LHSMILWGPPGTGKTTLARLIAGTT---NAAFEALSAVTSG-----------------VKDLREIIEEARKNRLLGRRTI  107 (436)
T ss_pred             CceeEEECCCCCCHHHHHHHHHHhh---CCceEEecccccc-----------------HHHHHHHHHHHHHHHhcCCceE
Confidence            3479999999999999999999988   6677766653321                 11112333322    2244689


Q ss_pred             EEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHH
Q 047225           93 ILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFL  172 (287)
Q Consensus        93 l~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  172 (287)
                      ||+||+++++...|+.|++.+|+|.+             ++|.+|...+.                      -.++++|+
T Consensus       108 LflDEIHRfnK~QQD~lLp~vE~G~i-------------ilIGATTENPs----------------------F~ln~ALl  152 (436)
T COG2256         108 LFLDEIHRFNKAQQDALLPHVENGTI-------------ILIGATTENPS----------------------FELNPALL  152 (436)
T ss_pred             EEEehhhhcChhhhhhhhhhhcCCeE-------------EEEeccCCCCC----------------------eeecHHHh
Confidence            99999999999999999999998743             35555433221                      13578999


Q ss_pred             hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          173 NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       173 ~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      ||+ .++.+.|++.+++.+++.+.+......+.  +..+.++++++++++..+.      .+.|++++
T Consensus       153 SR~-~vf~lk~L~~~di~~~l~ra~~~~~rgl~--~~~~~i~~~a~~~l~~~s~------GD~R~aLN  211 (436)
T COG2256         153 SRA-RVFELKPLSSEDIKKLLKRALLDEERGLG--GQIIVLDEEALDYLVRLSN------GDARRALN  211 (436)
T ss_pred             hhh-heeeeecCCHHHHHHHHHHHHhhhhcCCC--cccccCCHHHHHHHHHhcC------chHHHHHH
Confidence            999 99999999999999999886655444443  2246799999999999764      56666666

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=99.83  E-value=5.8e-20  Score=169.25  Aligned_cols=201  Identities=19%  Similarity=0.245  Sum_probs=152.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++|.|++||||+.+|+.+++.......+++.+||....+......+||...|. .|.... .-...+.....+.|||||
T Consensus       237 pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~l~e~lleseLFG~~~gaftga~~~-~~~Gl~e~A~gGTLfLde  315 (526)
T TIGR02329       237 TVLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAIAESLLEAELFGYEEGAFTGARRG-GRTGLIEAAHRGTLFLDE  315 (526)
T ss_pred             cEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEeccccCChhHHHHHhcCCccccccccccc-ccccchhhcCCceEEecC
Confidence            799999999999999999999887778899999999987765566788866543 222110 112233334567999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC-
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID-  176 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~-  176 (287)
                      ++.++...|..|+++++++.+..-.+......++.+|++++......                 .-++.|.++|..|+. 
T Consensus       316 I~~Lp~~~Q~~Ll~~L~~~~~~r~g~~~~~~~dvRiIaat~~~l~~~-----------------v~~g~fr~dL~~rL~~  378 (526)
T TIGR02329       316 IGEMPLPLQTRLLRVLEEREVVRVGGTEPVPVDVRVVAATHCALTTA-----------------VQQGRFRRDLFYRLSI  378 (526)
T ss_pred             hHhCCHHHHHHHHHHHhcCcEEecCCCceeeecceEEeccCCCHHHH-----------------hhhcchhHHHHHhcCC
Confidence            99999999999999999987654333333334778999998753321                 113468889999996 


Q ss_pred             ceEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHH-------HHHhccCCCCCchhHHHHHHHHHH
Q 047225          177 EVIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKK-------LIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       177 ~~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~-------l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      ..|.+||+.  .+|+..++.+++.++....     .+.++++++..       |..+.|+.  ++|+|++.+++++.
T Consensus       379 ~~I~lPPLReR~eDI~~L~~~fl~~~~~~~-----~~~~~~~a~~~~~~~~~~L~~y~WPG--NvrEL~nvier~~i  448 (526)
T TIGR02329       379 LRIALPPLRERPGDILPLAAEYLVQAAAAL-----RLPDSEAAAQVLAGVADPLQRYPWPG--NVRELRNLVERLAL  448 (526)
T ss_pred             cEEeCCCchhchhHHHHHHHHHHHHHHHHc-----CCCCCHHHHHHhHHHHHHHHhCCCCc--hHHHHHHHHHHHHH
Confidence            459999999  5799999999998876543     23588888888       88999976  56999999998876

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.83  E-value=1.7e-18  Score=144.83  Aligned_cols=230  Identities=25%  Similarity=0.361  Sum_probs=159.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCC-------cE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRP-------HS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~   91 (287)
                      |++|.||+|||||.||+.||+.+   +.|+..-|+....+           +||+|-+..+-+...+..+.       ++
T Consensus        99 NILLiGPTGsGKTlLAqTLAk~L---nVPFaiADATtLTE-----------AGYVGEDVENillkLlqaadydV~rAerG  164 (408)
T COG1219          99 NILLIGPTGSGKTLLAQTLAKIL---NVPFAIADATTLTE-----------AGYVGEDVENILLKLLQAADYDVERAERG  164 (408)
T ss_pred             cEEEECCCCCcHHHHHHHHHHHh---CCCeeeccccchhh-----------ccccchhHHHHHHHHHHHcccCHHHHhCC
Confidence            79999999999999999999999   78888777766543           56777666556666555543       48


Q ss_pred             EEEEcCcccccH--------------HHHHHHHHhhcCceeecC--CCcee--------eccceEEEEeecCC-chhhh-
Q 047225           92 VILFDEIEKAHR--------------DVLNVMLQLLDDGRVTDG--KGQTV--------DLKNTIIIMTSNIG-DSVIA-  145 (287)
Q Consensus        92 il~iDeid~~~~--------------~~~~~L~~~l~~~~~~~~--~g~~i--------~~~~~~iI~t~n~~-~~~~~-  145 (287)
                      |++|||+|+...              ++|.+|+++++.-..+.+  .|+..        +-.|..||+..... -..+- 
T Consensus       165 IIyIDEIDKIarkSeN~SITRDVSGEGVQQALLKiiEGTvasVPPqGGRKHP~Qe~iqvDT~NILFIcgGAF~GlekiI~  244 (408)
T COG1219         165 IIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGTVASVPPQGGRKHPQQEFIQVDTSNILFICGGAFAGLEKIIK  244 (408)
T ss_pred             eEEEechhhhhccCCCCCcccccCchHHHHHHHHHHcCceeccCCCCCCCCCccceEEEcccceeEEeccccccHHHHHH
Confidence            999999998633              589999999996444433  24433        33466666644321 11111 


Q ss_pred             ---hhccCCchHH----------HHHH-----HHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHH----HHHHHHHHH
Q 047225          146 ---RESILGSDQM----------ERGV-----AEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVD----IMLKEIYER  203 (287)
Q Consensus       146 ---~~~~~~~~~~----------~~~~-----~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~----~~l~~~~~~  203 (287)
                         ....+||...          ...+     ++..+..+-|+|+.|++.+..+.+++.+++.+|+.    ..+.++...
T Consensus       245 ~R~~~~~iGF~a~~~~~~~~~~~~~~l~~vepeDLvkFGLIPEfIGRlPvia~L~~Lde~aLv~ILtePkNAlvKQYq~L  324 (408)
T COG1219         245 KRLGKKGIGFGAEVKSKSKKKEEGELLKQVEPEDLVKFGLIPEFIGRLPVIATLEELDEDALVQILTEPKNALVKQYQKL  324 (408)
T ss_pred             HhccCCcccccccccchhhhhhHHHHHHhcChHHHHHcCCcHHHhcccceeeehhhcCHHHHHHHHhcccHHHHHHHHHH
Confidence               1133443211          1111     12334456699999999999999999999999995    233444444


Q ss_pred             HHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHHHHHHHhccCCCCCEEEEE
Q 047225          204 LEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMD  265 (287)
Q Consensus       204 ~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~i~  265 (287)
                      +.-.+..+.++++++..+++.+.....|+|.||..++.++...+.+.-   .......+.|+
T Consensus       325 f~~d~V~L~F~~~AL~~IA~~A~~rkTGARGLRsI~E~~lld~MfelP---s~~~v~~v~I~  383 (408)
T COG1219         325 FEMDGVELEFTEEALKAIAKKAIERKTGARGLRSIIEELLLDVMFELP---SLEDVEKVVIT  383 (408)
T ss_pred             hcccCceEEEcHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhhCC---CCCCceEEEEe
Confidence            444677899999999999999999999999999999999886664442   22223455555

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=99.83  E-value=7.2e-20  Score=168.51  Aligned_cols=201  Identities=19%  Similarity=0.269  Sum_probs=148.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHH--------hcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCC
Q 047225           19 SFLFTGPTGVGKTELANALAFE--------YFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRP   89 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~--------l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   89 (287)
                      +++|+|++||||+.+|+.+++.        ....+.+++.+||..+.+......+||...|. .|.... .-...+...+
T Consensus       244 pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inCaal~e~lleseLFG~~~gaftga~~~-~~~Gl~e~A~  322 (538)
T PRK15424        244 AVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNCGAIAESLLEAELFGYEEGAFTGSRRG-GRAGLFEIAH  322 (538)
T ss_pred             cEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeecccCChhhHHHHhcCCccccccCcccc-ccCCchhccC
Confidence            6999999999999999999998        55567899999999988766667788866543 222110 1112333445


Q ss_pred             cEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225           90 HSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus        90 ~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      .++|||||++.++...|..|+++++++.+..-.+...-..++.+|+++|......                 .-++.|.+
T Consensus       323 gGTLfLdeI~~Lp~~~Q~kLl~~L~e~~~~r~G~~~~~~~dvRiIaat~~~L~~~-----------------v~~g~Fr~  385 (538)
T PRK15424        323 GGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQPVPVDVRVISATHCDLEED-----------------VRQGRFRR  385 (538)
T ss_pred             CCEEEEcChHhCCHHHHHHHHhhhhcCeEEecCCCceeccceEEEEecCCCHHHH-----------------HhcccchH
Confidence            6799999999999999999999999987664333333335788999998753321                 11346888


Q ss_pred             hHHhccCc-eEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHH-------HHHHHhccCCCCCchhHHHHH
Q 047225          170 EFLNRIDE-VIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFK-------KKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       170 ~l~~r~~~-~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~-------~~l~~~~~~~~~~~r~l~~~i  239 (287)
                      +|..|+.. .|.+||+.  .+|+..++.+++.++.....     ..++.+++       +.|..+.|+.  ++|+|++.+
T Consensus       386 dL~yrL~~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~-----~~~~~~a~~~~~~a~~~L~~y~WPG--NvREL~nvi  458 (538)
T PRK15424        386 DLFYRLSILRLQLPPLRERVADILPLAESFLKQSLAALS-----APFSAALRQGLQQCETLLLHYDWPG--NVRELRNLM  458 (538)
T ss_pred             HHHHHhcCCeecCCChhhchhHHHHHHHHHHHHHHHHcC-----CCCCHHHHHhhHHHHHHHHhCCCCc--hHHHHHHHH
Confidence            99999864 49999999  57899999999987654431     23566555       7788888866  569999999


Q ss_pred             HHHHH
Q 047225          240 GRLLE  244 (287)
Q Consensus       240 ~~~~~  244 (287)
                      ++++.
T Consensus       459 er~~i  463 (538)
T PRK15424        459 ERLAL  463 (538)
T ss_pred             HHHHH
Confidence            98876

>CHL00181 cbbX CbbX; Provisional

Probab=99.83  E-value=2.9e-19  Score=153.52  Aligned_cols=192  Identities=21%  Similarity=0.381  Sum_probs=129.0

Q ss_pred             cCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcC----CCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHH
Q 047225            9 GIRDPNRPISSFLFTGPTGVGKTELANALAFEYFG----SKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEA   84 (287)
Q Consensus         9 ~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (287)
                      ++..++.+. +++|+||||||||++|+++++.+..    ...+++.++.++..     ...+|.       .. ....+.
T Consensus        52 g~~~~~~~~-~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l~-----~~~~g~-------~~-~~~~~~  117 (287)
T CHL00181         52 GLTSSNPGL-HMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDLV-----GQYIGH-------TA-PKTKEV  117 (287)
T ss_pred             CCCCCCCCc-eEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHHH-----HHHhcc-------ch-HHHHHH
Confidence            444444444 7999999999999999999998743    22346666654322     112221       11 233445


Q ss_pred             HHhCCcEEEEEcCcccc---------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHH
Q 047225           85 VRHRPHSVILFDEIEKA---------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQM  155 (287)
Q Consensus        85 ~~~~~~~il~iDeid~~---------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~  155 (287)
                      +....++||||||++.+         ..+.++.|+++|+++.           .+++||++++...              
T Consensus       118 l~~a~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~-----------~~~~vI~ag~~~~--------------  172 (287)
T CHL00181        118 LKKAMGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQR-----------DDLVVIFAGYKDR--------------  172 (287)
T ss_pred             HHHccCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCC-----------CCEEEEEeCCcHH--------------
Confidence            55555679999999975         5678889999998632           2456777765421              


Q ss_pred             HHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHH----HhccCCCCC
Q 047225          156 ERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLI----EEGYNPSYG  231 (287)
Q Consensus       156 ~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~----~~~~~~~~~  231 (287)
                         ++..+  ..+|+|.+||+..|.|+|++.+++.+|+..++.+..         ..++++....+.    .....+.+|
T Consensus       173 ---~~~~~--~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~~~~---------~~l~~~~~~~L~~~i~~~~~~~~~G  238 (287)
T CHL00181        173 ---MDKFY--ESNPGLSSRIANHVDFPDYTPEELLQIAKIMLEEQQ---------YQLTPEAEKALLDYIKKRMEQPLFA  238 (287)
T ss_pred             ---HHHHH--hcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHHHhc---------CCCChhHHHHHHHHHHHhCCCCCCc
Confidence               11111  236899999999999999999999999999887642         335555544444    333334444


Q ss_pred             -chhHHHHHHHHHHHHHHHHHHh
Q 047225          232 -ARPLRRAIGRLLEDNLAEIILT  253 (287)
Q Consensus       232 -~r~l~~~i~~~~~~~~~~~~~~  253 (287)
                       +|.+++++++++...-.+...+
T Consensus       239 NaR~vrn~ve~~~~~~~~r~~~~  261 (287)
T CHL00181        239 NARSVRNALDRARMRQANRIFES  261 (287)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHcC
Confidence             8999999999998877666444

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=99.83  E-value=1.3e-19  Score=168.03  Aligned_cols=205  Identities=19%  Similarity=0.231  Sum_probs=155.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++|+|++||||+++|+.++......+.+++.+||..+.+......+||...+. .|....  -...+.....++|||||
T Consensus       212 pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~~~~e~~lfG~~~g~~~ga~~~--~~g~~~~a~gGtL~lde  289 (509)
T PRK05022        212 NVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPESLAESELFGHVKGAFTGAISN--RSGKFELADGGTLFLDE  289 (509)
T ss_pred             cEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCChHHHHHHhcCccccccCCCccc--CCcchhhcCCCEEEecC
Confidence            699999999999999999999987777899999999887654445678765442 222111  11122334557999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCc
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDE  177 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~  177 (287)
                      ++.++...|..|+++++++.+....+......++.+|++++......                 ..++.|.++|..|+..
T Consensus       290 I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~l~~~-----------------~~~~~f~~dL~~rl~~  352 (509)
T PRK05022        290 IGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNRDLREE-----------------VRAGRFRADLYHRLSV  352 (509)
T ss_pred             hhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecCCCHHHH-----------------HHcCCccHHHHhcccc
Confidence            99999999999999999887643333322335789999998753221                 1234789999999964


Q ss_pred             e-EEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHH
Q 047225          178 V-IVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDN  246 (287)
Q Consensus       178 ~-i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~  246 (287)
                      . |.+||+.  .+|+..++.+++.++..++..  ..+.++++++..|..+.|+.  ++|+|++++++++..+
T Consensus       353 ~~i~lPpLreR~eDI~~L~~~fl~~~~~~~~~--~~~~~s~~a~~~L~~y~WPG--NvrEL~~~i~ra~~~~  420 (509)
T PRK05022        353 FPLSVPPLRERGDDVLLLAGYFLEQNRARLGL--RSLRLSPAAQAALLAYDWPG--NVRELEHVISRAALLA  420 (509)
T ss_pred             cEeeCCCchhchhhHHHHHHHHHHHHHHHcCC--CCCCCCHHHHHHHHhCCCCC--cHHHHHHHHHHHHHhc
Confidence            4 9999999  578999999999887666532  24689999999999999977  4599999999887744

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=99.82  E-value=2e-19  Score=164.07  Aligned_cols=212  Identities=24%  Similarity=0.409  Sum_probs=166.5

Q ss_pred             chhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhH
Q 047225            2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL   81 (287)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (287)
                      ||.++|..++.+     .+||+||||+|||++++.+|+.+   +..++.+..+...|.   .++-|+...|+|.... .+
T Consensus       428 AV~kLrgs~qGk-----IlCf~GPPGVGKTSI~kSIA~AL---nRkFfRfSvGG~tDv---AeIkGHRRTYVGAMPG-ki  495 (906)
T KOG2004|consen  428 AVGKLRGSVQGK-----ILCFVGPPGVGKTSIAKSIARAL---NRKFFRFSVGGMTDV---AEIKGHRRTYVGAMPG-KI  495 (906)
T ss_pred             HHHhhcccCCCc-----EEEEeCCCCCCcccHHHHHHHHh---CCceEEEeccccccH---HhhcccceeeeccCCh-HH
Confidence            466677766665     79999999999999999999999   889999999888775   5667777888888874 66


Q ss_pred             HHHHHhC--CcEEEEEcCcccccHH----HHHHHHHhhc---CceeecCC-CceeeccceEEEEeecCCchhhhhhccCC
Q 047225           82 TEAVRHR--PHSVILFDEIEKAHRD----VLNVMLQLLD---DGRVTDGK-GQTVDLKNTIIIMTSNIGDSVIARESILG  151 (287)
Q Consensus        82 ~~~~~~~--~~~il~iDeid~~~~~----~~~~L~~~l~---~~~~~~~~-g~~i~~~~~~iI~t~n~~~~~~~~~~~~~  151 (287)
                      .+.++..  .+.+++|||+|++-.+    --.+|+++++   +..+.++- ...++++.++||+|+|.-.          
T Consensus       496 Iq~LK~v~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVLFicTAN~id----------  565 (906)
T KOG2004|consen  496 IQCLKKVKTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVLFICTANVID----------  565 (906)
T ss_pred             HHHHHhhCCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheEEEEeccccc----------
Confidence            6666663  2459999999988542    3467888886   33344443 6788899999999999753          


Q ss_pred             chHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCc---EEEeChhHHHHHHHhccCC
Q 047225          152 SDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNM---ELTVTHTFKKKLIEEGYNP  228 (287)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~---~~~i~~~~~~~l~~~~~~~  228 (287)
                                    .++++|++|+ +.|.++-+..+|..+|.+.+|-...  ....|.   .+.++++++..+..+ |..
T Consensus       566 --------------tIP~pLlDRM-EvIelsGYv~eEKv~IA~~yLip~a--~~~~gl~~e~v~is~~al~~lI~~-Ycr  627 (906)
T KOG2004|consen  566 --------------TIPPPLLDRM-EVIELSGYVAEEKVKIAERYLIPQA--LKDCGLKPEQVKISDDALLALIER-YCR  627 (906)
T ss_pred             --------------cCChhhhhhh-heeeccCccHHHHHHHHHHhhhhHH--HHHcCCCHHhcCccHHHHHHHHHH-HHH
Confidence                          5689999999 9999999999999999998885322  222232   379999999999986 777


Q ss_pred             CCCchhHHHHHHHHHHHHHHHHHHh
Q 047225          229 SYGARPLRRAIGRLLEDNLAEIILT  253 (287)
Q Consensus       229 ~~~~r~l~~~i~~~~~~~~~~~~~~  253 (287)
                      ..|+|.|.+-|++++...-.+..-+
T Consensus       628 EaGVRnLqk~iekI~Rk~Al~vv~~  652 (906)
T KOG2004|consen  628 EAGVRNLQKQIEKICRKVALKVVEG  652 (906)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHh
Confidence            7899999999998887665444333

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

Probab=99.82  E-value=3.4e-19  Score=151.39  Aligned_cols=174  Identities=28%  Similarity=0.385  Sum_probs=126.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++||||||||||.+|+++|+..   +..|+.+..|++..     ..+|..+.     --+.++..++.+..+|+||||+
T Consensus       187 GVLLYGPPGTGKTLLAkAVA~~T---~AtFIrvvgSElVq-----KYiGEGaR-----lVRelF~lArekaPsIIFiDEI  253 (406)
T COG1222         187 GVLLYGPPGTGKTLLAKAVANQT---DATFIRVVGSELVQ-----KYIGEGAR-----LVRELFELAREKAPSIIFIDEI  253 (406)
T ss_pred             ceEeeCCCCCcHHHHHHHHHhcc---CceEEEeccHHHHH-----HHhccchH-----HHHHHHHHHhhcCCeEEEEech
Confidence            49999999999999999999988   78888888877664     34443222     2367888999988899999999


Q ss_pred             cc-----------ccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EK-----------AHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~-----------~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |-           .+.++|..+++++.+-.-..+      ..++.||++||...                        .+
T Consensus       254 DAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~------~~nvKVI~ATNR~D------------------------~L  303 (406)
T COG1222         254 DAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDP------RGNVKVIMATNRPD------------------------IL  303 (406)
T ss_pred             hhhhcccccCCCCchHHHHHHHHHHHHhccCCCC------CCCeEEEEecCCcc------------------------cc
Confidence            93           366899999999886332222      23778999999864                        45


Q ss_pred             ChhHH--hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          168 RPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       168 ~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      +|+|+  .|||..|.||.|+.+...+|++.+-.++       +..-+++-+.+..+     ..+.+.-+++.++..+=+-
T Consensus       304 DPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM-------~l~~dvd~e~la~~-----~~g~sGAdlkaictEAGm~  371 (406)
T COG1222         304 DPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKM-------NLADDVDLELLARL-----TEGFSGADLKAICTEAGMF  371 (406)
T ss_pred             ChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhc-------cCccCcCHHHHHHh-----cCCCchHHHHHHHHHHhHH
Confidence            78888  8999999999999999999996665432       22233444333332     2233446777777765444


Q ss_pred             HH
Q 047225          246 NL  247 (287)
Q Consensus       246 ~~  247 (287)
                      ++
T Consensus       372 Ai  373 (406)
T COG1222         372 AI  373 (406)
T ss_pred             HH
Confidence            43

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.82  E-value=1.2e-18  Score=149.75  Aligned_cols=183  Identities=20%  Similarity=0.327  Sum_probs=129.3

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCC----CCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGS----KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHS   91 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (287)
                      |..+++|+||||||||++|+++++.+...    ..+++.+++.+..     ..++|.       .. ..+.+.+.....+
T Consensus        57 ~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~-----~~~~g~-------~~-~~~~~~~~~a~~g  123 (284)
T TIGR02880        57 PTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLV-----GQYIGH-------TA-PKTKEILKRAMGG  123 (284)
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHh-----Hhhccc-------ch-HHHHHHHHHccCc
Confidence            44479999999999999999998887432    2357777764322     122221       11 2344455555558


Q ss_pred             EEEEcCcccc---------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           92 VILFDEIEKA---------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        92 il~iDeid~~---------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      +|||||++.+         ..++++.|+++++.+.           .++++|++++.....              .    
T Consensus       124 vL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~-----------~~~~vI~a~~~~~~~--------------~----  174 (284)
T TIGR02880       124 VLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQR-----------DDLVVILAGYKDRMD--------------S----  174 (284)
T ss_pred             EEEEechhhhccCCCccchHHHHHHHHHHHHhcCC-----------CCEEEEEeCCcHHHH--------------H----
Confidence            9999999976         4567889999998642           355777877643110              0    


Q ss_pred             HHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHh-------ccCCCCCchhH
Q 047225          163 LRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEE-------GYNPSYGARPL  235 (287)
Q Consensus       163 ~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~-------~~~~~~~~r~l  235 (287)
                       -..++|+|.+||+..|.||||+.+++.+|+..++.+.         ...+++++.+.+..+       .|  ..++|++
T Consensus       175 -~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~~~---------~~~l~~~a~~~L~~~l~~~~~~~~--~GN~R~l  242 (284)
T TIGR02880       175 -FFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLKEQ---------QYRFSAEAEEAFADYIALRRTQPH--FANARSI  242 (284)
T ss_pred             -HHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHHHh---------ccccCHHHHHHHHHHHHHhCCCCC--CChHHHH
Confidence             1134799999999999999999999999999988764         235677888887665       34  4467999


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 047225          236 RRAIGRLLEDNLAEIIL  252 (287)
Q Consensus       236 ~~~i~~~~~~~~~~~~~  252 (287)
                      ++++++++...-.+...
T Consensus       243 rn~ve~~~~~~~~r~~~  259 (284)
T TIGR02880       243 RNAIDRARLRQANRLFC  259 (284)
T ss_pred             HHHHHHHHHHHHHHHhc
Confidence            99999998877765543

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.

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=99.82  E-value=2.1e-19  Score=166.69  Aligned_cols=204  Identities=19%  Similarity=0.284  Sum_probs=151.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCC-cccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYV-GFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++|+|++||||+++|++++........+++.+||....+......+||..++.. +...  .-...+.....++|||||
T Consensus       229 pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~~~~~~e~elFG~~~~~~~~~~~--~~~g~~e~a~~GtL~Lde  306 (520)
T PRK10820        229 PLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPDDVVESELFGHAPGAYPNALE--GKKGFFEQANGGSVLLDE  306 (520)
T ss_pred             CEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccCCHHHHHHHhcCCCCCCcCCccc--CCCChhhhcCCCEEEEeC
Confidence            5999999999999999999988876678999999998876555567787654322 2111  111223334457999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC-
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID-  176 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~-  176 (287)
                      ++.+++..|..|+++++++.+.-..+..-...++.+|++|+.+.....                 -++.|.++|..|+. 
T Consensus       307 I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~~~l~~l~-----------------~~g~f~~dL~~rL~~  369 (520)
T PRK10820        307 IGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVELV-----------------QKGEFREDLYYRLNV  369 (520)
T ss_pred             hhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecCCCHHHHH-----------------HcCCccHHHHhhcCe
Confidence            999999999999999998865443222222346789998876543221                 13468899999985 


Q ss_pred             ceEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          177 EVIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       177 ~~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ..+.+||+.  .+|+..++..++.+++.+....  .+.+++++++.|..+.|+.  ++|+|++.+.+++..
T Consensus       370 ~~i~lPpLreR~~Di~~L~~~fl~~~~~~~g~~--~~~ls~~a~~~L~~y~WPG--NvreL~nvl~~a~~~  436 (520)
T PRK10820        370 LTLNLPPLRDRPQDIMPLTELFVARFADEQGVP--RPKLAADLNTVLTRYGWPG--NVRQLKNAIYRALTQ  436 (520)
T ss_pred             eEEeCCCcccChhHHHHHHHHHHHHHHHHcCCC--CCCcCHHHHHHHhcCCCCC--HHHHHHHHHHHHHHh
Confidence            459999999  5689999999998876655321  3479999999999999966  559999999988763

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=99.81  E-value=1.8e-19  Score=158.26  Aligned_cols=202  Identities=17%  Similarity=0.243  Sum_probs=153.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC-CCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG-SKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iD   96 (287)
                      ++++.|++||||+.+|+.|+..... ...+++.+||..+.+......+||...|. +|...  .-...+.....++||+|
T Consensus       103 ~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~en~~~~eLFG~~kGaftGa~~--~k~Glfe~A~GGtLfLD  180 (403)
T COG1221         103 PVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSENLQEAELFGHEKGAFTGAQG--GKAGLFEQANGGTLFLD  180 (403)
T ss_pred             cEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHhCcCHHHHHHhccccceeecccC--CcCchheecCCCEEehh
Confidence            6999999999999999999966655 57899999999999987777899987663 44332  22233444466799999


Q ss_pred             CcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHh-cc
Q 047225           97 EIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLN-RI  175 (287)
Q Consensus        97 eid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-r~  175 (287)
                      |+..+++..|..|++++++|.+.--.+......++.+|++++......              +.   .+   ..|.+ ++
T Consensus       181 EI~~LP~~~Q~kLl~~le~g~~~rvG~~~~~~~dVRli~AT~~~l~~~--------------~~---~g---~dl~~rl~  240 (403)
T COG1221         181 EIHRLPPEGQEKLLRVLEEGEYRRVGGSQPRPVDVRLICATTEDLEEA--------------VL---AG---ADLTRRLN  240 (403)
T ss_pred             hhhhCCHhHHHHHHHHHHcCceEecCCCCCcCCCceeeeccccCHHHH--------------HH---hh---cchhhhhc
Confidence            999999999999999999998774344444456889999987643211              10   10   36776 66


Q ss_pred             CceEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEE-eChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHH
Q 047225          176 DEVIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELT-VTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNL  247 (287)
Q Consensus       176 ~~~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~-i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~  247 (287)
                      ...|.+||+.  .+|+..++.+++..++.++   +.++. ..++++..+..+.|+.  ++|++++.+++++..+.
T Consensus       241 ~~~I~LPpLrER~~Di~~L~e~Fl~~~~~~l---~~~~~~~~~~a~~~L~~y~~pG--NirELkN~Ve~~~~~~~  310 (403)
T COG1221         241 ILTITLPPLRERKEDILLLAEHFLKSEARRL---GLPLSVDSPEALRALLAYDWPG--NIRELKNLVERAVAQAS  310 (403)
T ss_pred             CceecCCChhhchhhHHHHHHHHHHHHHHHc---CCCCCCCCHHHHHHHHhCCCCC--cHHHHHHHHHHHHHHhc
Confidence            7789999999  6677788888888877776   33433 3358999999988866  56899999998887553

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

Probab=99.81  E-value=2.8e-18  Score=151.14  Aligned_cols=152  Identities=23%  Similarity=0.372  Sum_probs=116.5

Q ss_pred             CcEEEEEcCccccc------------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHH
Q 047225           89 PHSVILFDEIEKAH------------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQME  156 (287)
Q Consensus        89 ~~~il~iDeid~~~------------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~  156 (287)
                      ..+||||||+|++.            .++|..|+++++.-.+.... ..++-.++.||+++.-....            +
T Consensus       249 ~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLki~EG~~v~~k~-~~i~T~~ILFI~~GAF~~~k------------p  315 (443)
T PRK05201        249 QNGIVFIDEIDKIAARGGSSGPDVSREGVQRDLLPLVEGSTVSTKY-GMVKTDHILFIASGAFHVSK------------P  315 (443)
T ss_pred             cCCEEEEEcchhhcccCCCCCCCCCccchhcccccccccceeeecc-eeEECCceeEEecCCcCCCC------------h
Confidence            55799999999864            24899999999965555433 35666788899877543110            0


Q ss_pred             HHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHH----HHHHHHHHHHHhcCcEEEeChhHHHHHHHhccC-----
Q 047225          157 RGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVD----IMLKEIYERLEAKNMELTVTHTFKKKLIEEGYN-----  227 (287)
Q Consensus       157 ~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~----~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~-----  227 (287)
                              .-+-|+|..||+..+.+.+++.+++..|+.    ..+.++...+...|..+.+++++++.|+..++.     
T Consensus       316 --------~DlIPEl~GR~Pi~v~L~~L~~~dL~~ILteP~nsLikQy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~  387 (443)
T PRK05201        316 --------SDLIPELQGRFPIRVELDALTEEDFVRILTEPKASLIKQYQALLATEGVTLEFTDDAIRRIAEIAYQVNEKT  387 (443)
T ss_pred             --------hhccHHHhCccceEEECCCCCHHHHHHHhcCChhHHHHHHHHHHhhcCcEEEEcHHHHHHHHHHHHHhcccc
Confidence                    124599999999999999999999999994    477788788888899999999999999998876     


Q ss_pred             CCCCchhHHHHHHHHHHHHHHHHHHhccCCCCCEEEEE
Q 047225          228 PSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMD  265 (287)
Q Consensus       228 ~~~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~i~  265 (287)
                      .+.|+|.|+..+++++..    ..+...-..+..+.|+
T Consensus       388 ~~iGAR~LrtI~E~~L~d----~~Fe~p~~~~~~v~I~  421 (443)
T PRK05201        388 ENIGARRLHTVMEKLLED----ISFEAPDMSGETVTID  421 (443)
T ss_pred             cccchhhHHHHHHHHHHH----HhccCCCCCCCEEEEC
Confidence            699999999999988884    4444333334455544

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=99.80  E-value=4.7e-18  Score=147.42  Aligned_cols=217  Identities=25%  Similarity=0.394  Sum_probs=153.2

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh-------CCc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH-------RPH   90 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~   90 (287)
                      .|++|.||+|+|||.|++.||+.+   +.|++..||.....           +||+|-+...-+.+.+..       +..
T Consensus       227 SNvLllGPtGsGKTllaqTLAr~l---dVPfaIcDcTtLTQ-----------AGYVGeDVEsvi~KLl~~A~~nVekAQq  292 (564)
T KOG0745|consen  227 SNVLLLGPTGSGKTLLAQTLARVL---DVPFAICDCTTLTQ-----------AGYVGEDVESVIQKLLQEAEYNVEKAQQ  292 (564)
T ss_pred             ccEEEECCCCCchhHHHHHHHHHh---CCCeEEecccchhh-----------cccccccHHHHHHHHHHHccCCHHHHhc
Confidence            379999999999999999999999   89999999987664           456665544444444433       345


Q ss_pred             EEEEEcCccccc--------------HHHHHHHHHhhcCceeecCC--------C--ceeeccceEEEEeecCC--chhh
Q 047225           91 SVILFDEIEKAH--------------RDVLNVMLQLLDDGRVTDGK--------G--QTVDLKNTIIIMTSNIG--DSVI  144 (287)
Q Consensus        91 ~il~iDeid~~~--------------~~~~~~L~~~l~~~~~~~~~--------g--~~i~~~~~~iI~t~n~~--~~~~  144 (287)
                      +|+||||+|++.              ..+|.+|+++++.-.+..+.        |  ..|+-.++.||+.....  ...+
T Consensus       293 GIVflDEvDKi~~~~~~i~~~RDVsGEGVQQaLLKllEGtvVnVpeK~~~~~~rgd~vqiDTtnILFiasGAF~~Ldk~I  372 (564)
T KOG0745|consen  293 GIVFLDEVDKITKKAESIHTSRDVSGEGVQQALLKLLEGTVVNVPEKGSRRKPRGDTVQIDTTNILFIASGAFVGLDKII  372 (564)
T ss_pred             CeEEEehhhhhcccCccccccccccchhHHHHHHHHhcccEEcccCCCCCCCCCCCeEEEeccceEEEecccccchHHHH
Confidence            899999999875              25899999999965444322        2  23444677777754321  1111


Q ss_pred             hh---hccCCchHH---------------------HHHH------HHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHH
Q 047225          145 AR---ESILGSDQM---------------------ERGV------AEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVD  194 (287)
Q Consensus       145 ~~---~~~~~~~~~---------------------~~~~------~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~  194 (287)
                      .+   ...+||...                     .+++      .+....-|-|+|..||+..+.|.+++++++..++.
T Consensus       373 ~rR~~d~slGFg~~s~~~vr~~~~~~s~~~~~~~~~~~lL~~~~~~DLisfGmIPEfVGRfPVlVplh~L~~~~Lv~VLt  452 (564)
T KOG0745|consen  373 SRRLDDKSLGFGAPSSKGVRANMATKSGVENDAEKRDELLEKVESGDLISFGMIPEFVGRFPVLVPLHSLDEDQLVRVLT  452 (564)
T ss_pred             HHhhcchhcccCCCCCccchhhcccccCcchhHHHHHHHHhhccccchhhhcCcHHHhcccceEeeccccCHHHHHHHHh
Confidence            11   122331111                     1111      11223456799999999999999999999999995


Q ss_pred             H----HHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHHH
Q 047225          195 I----MLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLA  248 (287)
Q Consensus       195 ~----~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~~  248 (287)
                      .    .+.++...+...+..+.+++++++.|++.+...+.|+|.||.++++++..++-
T Consensus       453 EPknaL~~Qyk~lf~~~nV~L~fTe~Al~~IAq~Al~r~TGARgLRsIlE~~Lleamf  510 (564)
T KOG0745|consen  453 EPKNALGKQYKKLFGMDNVELHFTEKALEAIAQLALKRKTGARGLRSILESLLLEAMF  510 (564)
T ss_pred             cchhhHHHHHHHHhccCCeeEEecHHHHHHHHHHHHhhccchHHHHHHHHHHHhhhcc
Confidence            3    33444444444677899999999999999999999999999999998886654

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=99.80  E-value=6.2e-19  Score=168.16  Aligned_cols=200  Identities=18%  Similarity=0.264  Sum_probs=151.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+|++||||+++|+++++.......+++.+||....+......+||...+...    ......+.....++|||||+
T Consensus       350 pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~~~~~~elfg~~~~~~~----~~~~g~~~~a~~GtL~ldei  425 (638)
T PRK11388        350 PVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDEALAEEFLGSDRTDSE----NGRLSKFELAHGGTLFLEKV  425 (638)
T ss_pred             CEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCChHHHHHHhcCCCCcCcc----CCCCCceeECCCCEEEEcCh
Confidence            69999999999999999999988766789999999988765545667775422111    01111222335579999999


Q ss_pred             ccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCce
Q 047225           99 EKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEV  178 (287)
Q Consensus        99 d~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~  178 (287)
                      +.++...|..|+++++++.+.-..+......++.+|++++......                 .-++.|.++|..|+...
T Consensus       426 ~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~t~~~l~~~-----------------~~~~~f~~dL~~~l~~~  488 (638)
T PRK11388        426 EYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTADLAML-----------------VEQNRFSRQLYYALHAF  488 (638)
T ss_pred             hhCCHHHHHHHHHHHhcCcEEeCCCCceEEeeEEEEEeccCCHHHH-----------------HhcCCChHHHhhhhcee
Confidence            9999999999999999887654333322234778999998754321                 11247889999999644


Q ss_pred             -EEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          179 -IVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       179 -i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                       |.+||+.  .+|+..++..++.++....   +..+.+++++++.|..+.|+.  ++|+|++.+++++.
T Consensus       489 ~i~lPpLreR~~Di~~L~~~~l~~~~~~~---~~~~~~s~~a~~~L~~y~WPG--NvreL~~~l~~~~~  552 (638)
T PRK11388        489 EITIPPLRMRREDIPALVNNKLRSLEKRF---STRLKIDDDALARLVSYRWPG--NDFELRSVIENLAL  552 (638)
T ss_pred             EEeCCChhhhhhHHHHHHHHHHHHHHHHh---CCCCCcCHHHHHHHHcCCCCC--hHHHHHHHHHHHHH
Confidence             9999999  4699999999998876554   223579999999999999976  45999999998765

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=99.80  E-value=1.4e-18  Score=166.73  Aligned_cols=202  Identities=18%  Similarity=0.247  Sum_probs=153.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++|+|++|||||++|++++......+.+++.++|....+......+||...+. .|...  .-...+.....++|||||
T Consensus       401 pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~~~~~~~~lfg~~~~~~~g~~~--~~~g~le~a~~GtL~Lde  478 (686)
T PRK15429        401 TVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTGASA--QRIGRFELADKSSLFLDE  478 (686)
T ss_pred             CEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCChhHhhhhhcCccccccccccc--chhhHHHhcCCCeEEEec
Confidence            699999999999999999999887678899999999876544455677765432 22111  112233444568999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCc
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDE  177 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~  177 (287)
                      ++.++...|..|+++++++.+....+......++.+|++++......                 .-++.|.++|..|+..
T Consensus       479 i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~l~~~-----------------~~~~~f~~~L~~~l~~  541 (686)
T PRK15429        479 VGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKM-----------------VADREFRSDLYYRLNV  541 (686)
T ss_pred             hhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCCCHHHH-----------------HHcCcccHHHHhccCe
Confidence            99999999999999999887654333333335788999998754321                 1134688899999864


Q ss_pred             e-EEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEE-EeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          178 V-IVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMEL-TVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       178 ~-i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~-~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      . |.+||+.  .+|+..++.+++.++..+.   +..+ .+++++++.+..+.|+.  ++|+|++++++++.
T Consensus       542 ~~i~lPpLreR~~Di~~L~~~~l~~~~~~~---~~~~~~~s~~al~~L~~y~WPG--NvrEL~~~i~~a~~  607 (686)
T PRK15429        542 FPIHLPPLRERPEDIPLLVKAFTFKIARRM---GRNIDSIPAETLRTLSNMEWPG--NVRELENVIERAVL  607 (686)
T ss_pred             eEEeCCChhhhHhHHHHHHHHHHHHHHHHc---CCCCCCcCHHHHHHHHhCCCCC--cHHHHHHHHHHHHH
Confidence            4 9999999  6789999999998876655   3233 59999999999999966  55999999998876

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

Probab=99.79  E-value=1.8e-18  Score=142.75  Aligned_cols=163  Identities=20%  Similarity=0.273  Sum_probs=120.1

Q ss_pred             ccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh
Q 047225            8 VGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH   87 (287)
Q Consensus         8 ~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (287)
                      .+++..+..+.|++|+||||.||||||..+|+++.   ..+..-.......                   .+.+...+..
T Consensus        43 ~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emg---vn~k~tsGp~leK-------------------~gDlaaiLt~  100 (332)
T COG2255          43 KAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELG---VNLKITSGPALEK-------------------PGDLAAILTN  100 (332)
T ss_pred             HHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhc---CCeEecccccccC-------------------hhhHHHHHhc
Confidence            34455667778999999999999999999999993   2222111111111                   1344444444


Q ss_pred             -CCcEEEEEcCcccccHHHHHHHHHhhcCcee--ecCCC-----ceeeccceEEEEeecCCchhhhhhccCCchHHHHHH
Q 047225           88 -RPHSVILFDEIEKAHRDVLNVMLQLLDDGRV--TDGKG-----QTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGV  159 (287)
Q Consensus        88 -~~~~il~iDeid~~~~~~~~~L~~~l~~~~~--~~~~g-----~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~  159 (287)
                       .+++|+|||||+++.+.+.+.|...|++-.+  .++.|     ..++++.+.+|.+|....                  
T Consensus       101 Le~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATTr~G------------------  162 (332)
T COG2255         101 LEEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRAG------------------  162 (332)
T ss_pred             CCcCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeeccccc------------------
Confidence             3456999999999999999999999998653  23322     356668888888776543                  


Q ss_pred             HHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          160 AEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       160 ~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                            .++.+|.+||+....+..++.+|+.+|+.+.-..         +.+.++++....|+..+
T Consensus       163 ------~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~---------l~i~i~~~~a~eIA~rS  213 (332)
T COG2255         163 ------MLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKI---------LGIEIDEEAALEIARRS  213 (332)
T ss_pred             ------cccchhHHhcCCeeeeecCCHHHHHHHHHHHHHH---------hCCCCChHHHHHHHHhc
Confidence                  4567899999999999999999999999555322         26789999999999875

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.79  E-value=1.1e-17  Score=147.31  Aligned_cols=152  Identities=21%  Similarity=0.347  Sum_probs=116.3

Q ss_pred             CcEEEEEcCcccccH------------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHH
Q 047225           89 PHSVILFDEIEKAHR------------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQME  156 (287)
Q Consensus        89 ~~~il~iDeid~~~~------------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~  156 (287)
                      .++||||||+|++..            ++|..|+++++...+.... ..++-.+..||+++.-....            +
T Consensus       247 ~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLkilEGt~v~~k~-~~v~T~~ILFI~~GAF~~~k------------p  313 (441)
T TIGR00390       247 QSGIIFIDEIDKIAKKGESSGADVSREGVQRDLLPIVEGSTVNTKY-GMVKTDHILFIAAGAFQLAK------------P  313 (441)
T ss_pred             cCCEEEEEchhhhcccCCCCCCCCCccchhccccccccCceeeecc-eeEECCceeEEecCCcCCCC------------h
Confidence            457999999998643            4899999999976555433 35677788999877532110            0


Q ss_pred             HHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHH----HHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccC-----
Q 047225          157 RGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIV----DIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYN-----  227 (287)
Q Consensus       157 ~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il----~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~-----  227 (287)
                              .-+-|+|..||+..+.+.+++.+++..|+    ...+.++...+...+..+.++++++..|+..++.     
T Consensus       314 --------~DlIPEl~GR~Pi~v~L~~L~~edL~rILteP~nsLikQy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~  385 (441)
T TIGR00390       314 --------SDLIPELQGRFPIRVELQALTTDDFERILTEPKNSLIKQYKALMKTEGVNIEFSDEAIKRIAELAYNVNEKT  385 (441)
T ss_pred             --------hhccHHHhCccceEEECCCCCHHHHHHHhcCChhHHHHHHHHHHhhcCcEEEEeHHHHHHHHHHHHHhcccc
Confidence                    12459999999999999999999999999    3567777777777899999999999999998776     


Q ss_pred             CCCCchhHHHHHHHHHHHHHHHHHHhccCCCCCEEEEE
Q 047225          228 PSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMD  265 (287)
Q Consensus       228 ~~~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~i~  265 (287)
                      .+.|+|.|+..+++++....    +...-...+.+.|+
T Consensus       386 ~~iGAR~LrtilE~~l~d~~----fe~p~~~~~~v~I~  419 (441)
T TIGR00390       386 ENIGARRLHTVLERLLEDIS----FEAPDLSGQNITID  419 (441)
T ss_pred             cccchhhHHHHHHHHHHHHH----hcCCCCCCCEEEEC
Confidence            69999999999998888544    43333334555554

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.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.78  E-value=1.7e-17  Score=141.28  Aligned_cols=149  Identities=24%  Similarity=0.327  Sum_probs=109.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCC---------------------cccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYV---------------------GFEN   77 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------------~~~~   77 (287)
                      +++|.||||||||++|+.+|+.+   +.+++.++|....+.   .+++|...++.                     .+. 
T Consensus        23 ~vLL~G~~GtGKT~lA~~la~~l---g~~~~~i~~~~~~~~---~dllg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-   95 (262)
T TIGR02640        23 PVHLRGPAGTGKTTLAMHVARKR---DRPVMLINGDAELTT---SDLVGSYAGYTRKKVHDQFIHNVVKLEDIVRQNWV-   95 (262)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh---CCCEEEEeCCccCCH---HHHhhhhcccchhhHHHHHHHHhhhhhcccceeec-
Confidence            69999999999999999999977   778888988764332   23333322111                     111 


Q ss_pred             hhhHHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCC----ceee-ccceEEEEeecCCchhhhhhccCCc
Q 047225           78 GGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKG----QTVD-LKNTIIIMTSNIGDSVIARESILGS  152 (287)
Q Consensus        78 ~~~~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g----~~i~-~~~~~iI~t~n~~~~~~~~~~~~~~  152 (287)
                      .+.+..++..+  +++++||+|++++++++.|+.+++++.+..+++    ..+. .+++++|+|+|+.....        
T Consensus        96 ~g~l~~A~~~g--~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~~~~~g--------  165 (262)
T TIGR02640        96 DNRLTLAVREG--FTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNPVEYAG--------  165 (262)
T ss_pred             CchHHHHHHcC--CEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCCccccc--------
Confidence            23455555544  499999999999999999999999998776542    3333 36889999999863221        


Q ss_pred             hHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHH
Q 047225          153 DQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIM  196 (287)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~  196 (287)
                                 ...++++|.+|| ..+.++.|+.++..+|+...
T Consensus       166 -----------~~~l~~aL~~R~-~~i~i~~P~~~~e~~Il~~~  197 (262)
T TIGR02640       166 -----------VHETQDALLDRL-ITIFMDYPDIDTETAILRAK  197 (262)
T ss_pred             -----------eecccHHHHhhc-EEEECCCCCHHHHHHHHHHh
Confidence                       113467899999 88999999999999998654

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).

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=99.78  E-value=3e-18  Score=158.16  Aligned_cols=204  Identities=19%  Similarity=0.239  Sum_probs=155.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      ++++.|++||||+++|+.++........+++.++|..+.+......+||...+. .|...  .-...+.....+.+||||
T Consensus       163 ~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~~~~~~~lfg~~~g~~~~~~~--~~~g~~~~a~~Gtl~l~~  240 (469)
T PRK10923        163 SVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKDLIESELFGHEKGAFTGANT--IRQGRFEQADGGTLFLDE  240 (469)
T ss_pred             eEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCHHHHHHHhcCCCCCCCCCCCc--CCCCCeeECCCCEEEEec
Confidence            699999999999999999999887778899999999887655566788876552 22221  111223334457999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC-
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID-  176 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~-  176 (287)
                      ++.++...|..|+++++++.+....+......++.+|+|++......                 .-++.|.++|..|+. 
T Consensus       241 i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~-----------------~~~~~~~~~L~~~l~~  303 (469)
T PRK10923        241 IGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQNLEQR-----------------VQEGKFREDLFHRLNV  303 (469)
T ss_pred             cccCCHHHHHHHHHHHhcCcEEeCCCCCeEEeeEEEEEeCCCCHHHH-----------------HHcCCchHHHHHHhcc
Confidence            99999999999999999987765444333335789999998653221                 123468899999995 


Q ss_pred             ceEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          177 EVIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       177 ~~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ..|.+||+.  .+|+..++.+++.++.......  ...++++++..|..+.|+.  ++|+|++++++++..
T Consensus       304 ~~i~~PpLreR~~Di~~l~~~~l~~~~~~~~~~--~~~~~~~a~~~L~~~~wpg--Nv~eL~~~i~~~~~~  370 (469)
T PRK10923        304 IRVHLPPLRERREDIPRLARHFLQVAARELGVE--AKLLHPETEAALTRLAWPG--NVRQLENTCRWLTVM  370 (469)
T ss_pred             eeecCCCcccchhhHHHHHHHHHHHHHHHcCCC--CCCcCHHHHHHHHhCCCCC--hHHHHHHHHHHHHHh
Confidence            559999999  6799999999998876654221  2469999999999999966  559999999988764

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.77  E-value=1.2e-17  Score=143.53  Aligned_cols=195  Identities=17%  Similarity=0.218  Sum_probs=131.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCC-----CC--CcccchhhHHHHHHhCCcE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPP-----GY--VGFENGGQLTEAVRHRPHS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~--~~~~~~~~~~~~~~~~~~~   91 (287)
                      +++|.||||||||++++.+|+.+   +.+++.++++.....   .+++|...     +.  ..+ ..+.+..++..+  .
T Consensus        66 ~ilL~G~pGtGKTtla~~lA~~l---~~~~~rV~~~~~l~~---~DliG~~~~~l~~g~~~~~f-~~GpL~~A~~~g--~  136 (327)
T TIGR01650        66 RVMVQGYHGTGKSTHIEQIAARL---NWPCVRVNLDSHVSR---IDLVGKDAIVLKDGKQITEF-RDGILPWALQHN--V  136 (327)
T ss_pred             cEEEEeCCCChHHHHHHHHHHHH---CCCeEEEEecCCCCh---hhcCCCceeeccCCcceeEE-ecCcchhHHhCC--e
Confidence            69999999999999999999999   788999999776544   34444321     11  111 223455555544  5


Q ss_pred             EEEEcCcccccHHHHHHHHHhhcC-ceeecCC-Cceeec-cceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCC
Q 047225           92 VILFDEIEKAHRDVLNVMLQLLDD-GRVTDGK-GQTVDL-KNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFR  168 (287)
Q Consensus        92 il~iDeid~~~~~~~~~L~~~l~~-~~~~~~~-g~~i~~-~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (287)
                      ++++||+|+++++++..|..+++. +.+...+ +..+.. +++++|+|+|+...+-...-+.|            .+.++
T Consensus       137 illlDEin~a~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~Gd~~G~y~G------------t~~l~  204 (327)
T TIGR01650       137 ALCFDEYDAGRPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLGDTTGLYHG------------TQQIN  204 (327)
T ss_pred             EEEechhhccCHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcCCCCcceee------------eecCC
Confidence            899999999999999999999994 5777654 677744 58999999998542110000000            13568


Q ss_pred             hhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHh-----------ccCCCCCchhHHH
Q 047225          169 PEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEE-----------GYNPSYGARPLRR  237 (287)
Q Consensus       169 ~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~-----------~~~~~~~~r~l~~  237 (287)
                      .++++||...+.+.+|+.++..+|+.......         ....++++++++++.           ......+.|.+.+
T Consensus       205 ~A~lDRF~i~~~~~Yp~~e~E~~Il~~~~~~~---------~~~~~~~i~~~mV~la~~tR~~~~~~~i~~~~SpR~li~  275 (327)
T TIGR01650       205 QAQMDRWSIVTTLNYLEHDNEAAIVLAKAKGF---------DDTEGKDIINAMVRVADMTRNAFINGDISTVMSPRTVIT  275 (327)
T ss_pred             HHHHhheeeEeeCCCCCHHHHHHHHHhhccCC---------CccchHHHHHHHHHHHHHHHhhhccCCccccccHHHHHH
Confidence            89999995567899999999999986543111         000123444444322           1223457788888


Q ss_pred             HHHHHH
Q 047225          238 AIGRLL  243 (287)
Q Consensus       238 ~i~~~~  243 (287)
                      |.....
T Consensus       276 w~~~~~  281 (327)
T TIGR01650       276 WAENAE  281 (327)
T ss_pred             HHHHHH
Confidence            876543

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.

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=99.77  E-value=4.7e-18  Score=134.63  Aligned_cols=150  Identities=21%  Similarity=0.325  Sum_probs=107.3

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHH
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLT   82 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~   82 (287)
                      +.++..+..+   . +++|+|++||||+.+|+++++.......+++.+||+.+.+......+||...+. .+...  .-.
T Consensus        13 ~~~~~~a~~~---~-pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~LFG~~~~~~~~~~~--~~~   86 (168)
T PF00158_consen   13 EQAKRAASSD---L-PVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLESELFGHEKGAFTGARS--DKK   86 (168)
T ss_dssp             HHHHHHTTST---S--EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHHHHHEBCSSSSTTTSS--EBE
T ss_pred             HHHHHHhCCC---C-CEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhhhhhcccccccccccc--ccC
Confidence            3445555554   2 699999999999999999999887778999999999998776667899876543 22222  122


Q ss_pred             HHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           83 EAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        83 ~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      ..+.....++|||||++.+++.+|..|+++++++.+....+......++++|++|+.+....                 .
T Consensus        87 G~l~~A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~~~l~~~-----------------v  149 (168)
T PF00158_consen   87 GLLEQANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTSKDLEEL-----------------V  149 (168)
T ss_dssp             HHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEESS-HHHH-----------------H
T ss_pred             CceeeccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecCcCHHHH-----------------H
Confidence            56666677899999999999999999999999988765444333345899999998753322                 2


Q ss_pred             HHhcCChhHHhccC
Q 047225          163 LRRRFRPEFLNRID  176 (287)
Q Consensus       163 ~~~~~~~~l~~r~~  176 (287)
                      -++.|.++|..|+.
T Consensus       150 ~~g~fr~dLy~rL~  163 (168)
T PF00158_consen  150 EQGRFREDLYYRLN  163 (168)
T ss_dssp             HTTSS-HHHHHHHT
T ss_pred             HcCCChHHHHHHhc
Confidence            23579999999983

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=99.76  E-value=5.7e-18  Score=155.33  Aligned_cols=204  Identities=20%  Similarity=0.231  Sum_probs=153.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCC-cccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYV-GFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++++|++||||+++|+.++........+++.++|....+......+||...+.. |...  .....+.....++|||||
T Consensus       164 ~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~~~~~~~~lfg~~~~~~~~~~~--~~~g~~~~a~~gtl~l~~  241 (445)
T TIGR02915       164 TVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIPENLLESELFGYEKGAFTGAVK--QTLGKIEYAHGGTLFLDE  241 (445)
T ss_pred             CEEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCChHHHHHHhcCCCCCCcCCCcc--CCCCceeECCCCEEEEec
Confidence            5899999999999999999998876678999999998876555566777654432 2111  112233344567999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC-
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID-  176 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~-  176 (287)
                      ++.+++..|..|+++++++.+....+..-...++.+|++++......                 .-++.|.++|..|+. 
T Consensus       242 i~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~-----------------~~~~~~~~~L~~~l~~  304 (445)
T TIGR02915       242 IGDLPLNLQAKLLRFLQERVIERLGGREEIPVDVRIVCATNQDLKRM-----------------IAEGTFREDLFYRIAE  304 (445)
T ss_pred             hhhCCHHHHHHHHHHHhhCeEEeCCCCceeeeceEEEEecCCCHHHH-----------------HHcCCccHHHHHHhcc
Confidence            99999999999999999887654333333334789999998753321                 113468889998885 


Q ss_pred             ceEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          177 EVIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       177 ~~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ..|.+||+.  .+|+..++.+++.++.......  ...++++++..+..+.|+.  ++|+|++.+++++..
T Consensus       305 ~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~--~~~~~~~a~~~L~~~~wpg--NvreL~~~i~~a~~~  371 (445)
T TIGR02915       305 ISITIPPLRSRDGDAVLLANAFLERFARELKRK--TKGFTDDALRALEAHAWPG--NVRELENKVKRAVIM  371 (445)
T ss_pred             ceecCCCchhchhhHHHHHHHHHHHHHHHhCCC--CCCCCHHHHHHHHhCCCCC--hHHHHHHHHHHHHHh
Confidence            449999999  6789999999998876655321  2579999999999999965  569999999988863

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).

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

Probab=99.76  E-value=1.4e-17  Score=135.95  Aligned_cols=170  Identities=26%  Similarity=0.417  Sum_probs=118.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||.+|++||+..   ..+++.++..+..         |...|. |....+.+.+..+....+|+||||+
T Consensus       153 nVLFyGppGTGKTm~Akalane~---kvp~l~vkat~li---------GehVGd-gar~Ihely~rA~~~aPcivFiDE~  219 (368)
T COG1223         153 NVLFYGPPGTGKTMMAKALANEA---KVPLLLVKATELI---------GEHVGD-GARRIHELYERARKAAPCIVFIDEL  219 (368)
T ss_pred             eeEEECCCCccHHHHHHHHhccc---CCceEEechHHHH---------HHHhhh-HHHHHHHHHHHHHhcCCeEEEehhh
Confidence            69999999999999999999988   6778777765433         322221 2223456777777777799999999


Q ss_pred             ccc--cH----------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           99 EKA--HR----------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        99 d~~--~~----------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                      |.+  +.          ++.++|++-|+.-..         -..+..|++||.+.                        .
T Consensus       220 DAiaLdRryQelRGDVsEiVNALLTelDgi~e---------neGVvtIaaTN~p~------------------------~  266 (368)
T COG1223         220 DAIALDRRYQELRGDVSEIVNALLTELDGIKE---------NEGVVTIAATNRPE------------------------L  266 (368)
T ss_pred             hhhhhhhhHHHhcccHHHHHHHHHHhccCccc---------CCceEEEeecCChh------------------------h
Confidence            953  22          466777777764221         12457888888753                        4


Q ss_pred             CChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHH-HHHHHHHH
Q 047225          167 FRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRR-AIGRLLED  245 (287)
Q Consensus       167 ~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~-~i~~~~~~  245 (287)
                      ++++..+||-..|.|.-|+.++..+|+..++.++         ++.++.. +++++..  ..+++.|+++. .+..+++.
T Consensus       267 LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~---------Plpv~~~-~~~~~~~--t~g~SgRdikekvlK~aLh~  334 (368)
T COG1223         267 LDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKF---------PLPVDAD-LRYLAAK--TKGMSGRDIKEKVLKTALHR  334 (368)
T ss_pred             cCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhC---------CCccccC-HHHHHHH--hCCCCchhHHHHHHHHHHHH
Confidence            5789999998889999999999999998887654         4444444 6666654  33456677653 34444443


Q ss_pred             H
Q 047225          246 N  246 (287)
Q Consensus       246 ~  246 (287)
                      +
T Consensus       335 A  335 (368)
T COG1223         335 A  335 (368)
T ss_pred             H
Confidence            3

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.75  E-value=4e-17  Score=151.55  Aligned_cols=204  Identities=22%  Similarity=0.276  Sum_probs=135.9

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhc-------CCCCceEEeccccc--ccccchhhhhCCC--CC
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYF-------GSKEAMVRIDMSEY--MEKHTVSKFFGSP--PG   71 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~-------~~~~~~~~~~~~~~--~~~~~~~~~~~~~--~~   71 (287)
                      ++.++..+..+. +. +++|+||||||||++|+.+++...       ....+++.++|...  .+......+++..  +.
T Consensus        74 i~~l~~al~~~~-~~-~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~~~~~~~~~~~~~li~~~~~p~  151 (531)
T TIGR02902        74 IKALKAALCGPN-PQ-HVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDATTARFDERGIADPLIGSVHDPI  151 (531)
T ss_pred             HHHHHHHHhCCC-Cc-eEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEccccccCCccccchhhcCCcccch
Confidence            444554444332 33 799999999999999999987531       12467889998642  1111112233321  11


Q ss_pred             CCc-----ccc-hhhHHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCC------Cce-----------eec
Q 047225           72 YVG-----FEN-GGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK------GQT-----------VDL  128 (287)
Q Consensus        72 ~~~-----~~~-~~~~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~------g~~-----------i~~  128 (287)
                      +.+     ... ...-...+...++++|||||++.+++..|+.|+++++++.+....      +..           -..
T Consensus       152 ~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L~~~~q~~LL~~Le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  231 (531)
T TIGR02902       152 YQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELHPVQMNKLLKVLEDRKVFLDSAYYNSENPNIPSHIHDIFQNGLP  231 (531)
T ss_pred             hccccccccCCcccccCchhhccCCcEEEEechhhCCHHHHHHHHHHHHhCeeeeccccccccCcccccchhhhcccCcc
Confidence            111     000 001123455556789999999999999999999999987654321      110           012


Q ss_pred             cceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q 047225          129 KNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKN  208 (287)
Q Consensus       129 ~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~  208 (287)
                      .++++|++|+..+.                       .+++++.+|+ ..+.|+|++.+++.++++..+++.        
T Consensus       232 ~d~rlI~ATt~~p~-----------------------~L~paLrsR~-~~I~f~pL~~eei~~Il~~~a~k~--------  279 (531)
T TIGR02902       232 ADFRLIGATTRNPE-----------------------EIPPALRSRC-VEIFFRPLLDEEIKEIAKNAAEKI--------  279 (531)
T ss_pred             cceEEEEEecCCcc-----------------------cCChHHhhhh-heeeCCCCCHHHHHHHHHHHHHHc--------
Confidence            36778877765443                       3578999999 789999999999999998776542        


Q ss_pred             cEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          209 MELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       209 ~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                       .+.+++++++.+..++|    +.|++.+.++.+...
T Consensus       280 -~i~is~~al~~I~~y~~----n~Rel~nll~~Aa~~  311 (531)
T TIGR02902       280 -GINLEKHALELIVKYAS----NGREAVNIVQLAAGI  311 (531)
T ss_pred             -CCCcCHHHHHHHHHhhh----hHHHHHHHHHHHHHH
Confidence             36799999999988776    458888888876653

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.

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

Probab=99.74  E-value=3.9e-17  Score=148.48  Aligned_cols=173  Identities=25%  Similarity=0.343  Sum_probs=125.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||++|+++|+..   +..++.+.+.+....     .+|..     -...+.++...+....+|+||||+
T Consensus       470 GVLlyGPPGC~KT~lAkalAne~---~~nFlsvkgpEL~sk-----~vGeS-----Er~ir~iF~kAR~~aP~IiFfDEi  536 (693)
T KOG0730|consen  470 GVLLYGPPGCGKTLLAKALANEA---GMNFLSVKGPELFSK-----YVGES-----ERAIREVFRKARQVAPCIIFFDEI  536 (693)
T ss_pred             eEEEECCCCcchHHHHHHHhhhh---cCCeeeccCHHHHHH-----hcCch-----HHHHHHHHHHHhhcCCeEEehhhH
Confidence            49999999999999999999998   777888877554432     11110     001245677777766799999999


Q ss_pred             ccc-----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKA-----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~-----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |-+           ...+++.|++-|+....         ..+++||++||.+.                        .+
T Consensus       537 Dsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~---------~k~V~ViAATNRpd------------------------~I  583 (693)
T KOG0730|consen  537 DALAGSRGGSSSGVTDRVLSQLLTEMDGLEA---------LKNVLVIAATNRPD------------------------MI  583 (693)
T ss_pred             HhHhhccCCCccchHHHHHHHHHHHcccccc---------cCcEEEEeccCChh------------------------hc
Confidence            943           34567777777764211         13678999999975                        35


Q ss_pred             ChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChh-HHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          168 RPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHT-FKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       168 ~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~-~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      +++|++  |||..|++|+|+.+...+|++...++.           .++++ -++.|+..+  ..++..++...|+++..
T Consensus       584 D~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkm-----------p~~~~vdl~~La~~T--~g~SGAel~~lCq~A~~  650 (693)
T KOG0730|consen  584 DPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKM-----------PFSEDVDLEELAQAT--EGYSGAEIVAVCQEAAL  650 (693)
T ss_pred             CHHHcCCcccceeEeecCccHHHHHHHHHHHHhcC-----------CCCccccHHHHHHHh--ccCChHHHHHHHHHHHH
Confidence            789997  999999999999999999997776532           34444 556666643  34567899999999888


Q ss_pred             HHHHHH
Q 047225          245 DNLAEI  250 (287)
Q Consensus       245 ~~~~~~  250 (287)
                      -++.+.
T Consensus       651 ~a~~e~  656 (693)
T KOG0730|consen  651 LALRES  656 (693)
T ss_pred             HHHHHh
Confidence            776554

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=99.74  E-value=1.2e-17  Score=139.38  Aligned_cols=172  Identities=19%  Similarity=0.243  Sum_probs=119.6

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC-CceEEe--cccccccccchhhhhCCCCCCCcccchhh
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK-EAMVRI--DMSEYMEKHTVSKFFGSPPGYVGFENGGQ   80 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~-~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (287)
                      ..+++.+...  ..++++|+||||||||+.++++++.+.... .+....  +.++..-..-            .......
T Consensus        46 ~~L~~a~~~~--~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisv------------vr~Kik~  111 (346)
T KOG0989|consen   46 QVLKNALLRR--ILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISV------------VREKIKN  111 (346)
T ss_pred             HHHHHHHhhc--CCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccc------------hhhhhcC
Confidence            3445555553  344899999999999999999999996522 222222  2222111110            0000001


Q ss_pred             HHHH---------HHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCC
Q 047225           81 LTEA---------VRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILG  151 (287)
Q Consensus        81 ~~~~---------~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~  151 (287)
                      +.+.         ....++.|++|||.|-++.+.|.+|++.|++..           ...+||+.||.-.          
T Consensus       112 fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s-----------~~trFiLIcnyls----------  170 (346)
T KOG0989|consen  112 FAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFS-----------RTTRFILICNYLS----------  170 (346)
T ss_pred             HHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccc-----------cceEEEEEcCChh----------
Confidence            1110         011245899999999999999999999999721           2457999998753          


Q ss_pred             chHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCC
Q 047225          152 SDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYG  231 (287)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~  231 (287)
                                    ++.+.+.+|+ ..+.|+++..+++...++....+.         .+.+++++++.|+..+.     
T Consensus       171 --------------rii~pi~SRC-~KfrFk~L~d~~iv~rL~~Ia~~E---------~v~~d~~al~~I~~~S~-----  221 (346)
T KOG0989|consen  171 --------------RIIRPLVSRC-QKFRFKKLKDEDIVDRLEKIASKE---------GVDIDDDALKLIAKISD-----  221 (346)
T ss_pred             --------------hCChHHHhhH-HHhcCCCcchHHHHHHHHHHHHHh---------CCCCCHHHHHHHHHHcC-----
Confidence                          4568899999 999999999999888887776543         57899999999999864     


Q ss_pred             chhHHHHHH
Q 047225          232 ARPLRRAIG  240 (287)
Q Consensus       232 ~r~l~~~i~  240 (287)
                       .++|+++.
T Consensus       222 -GdLR~Ait  229 (346)
T KOG0989|consen  222 -GDLRRAIT  229 (346)
T ss_pred             -CcHHHHHH
Confidence             68888887

>PLN03025 replication factor C subunit; Provisional

Probab=99.74  E-value=5.4e-17  Score=142.31  Aligned_cols=170  Identities=19%  Similarity=0.307  Sum_probs=117.1

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC--CceEEecccccccccchhhhhCCCCCCCcccchhh
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK--EAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQ   80 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (287)
                      ++.++..+.+.+.|  +++|+||||||||++++++++.+....  ..+..++.++......+...               
T Consensus        22 ~~~L~~~~~~~~~~--~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~~~~~vr~~---------------   84 (319)
T PLN03025         22 VSRLQVIARDGNMP--NLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDRGIDVVRNK---------------   84 (319)
T ss_pred             HHHHHHHHhcCCCc--eEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccccccHHHHHHH---------------
Confidence            34455555554433  799999999999999999999985432  22344444332111111111               


Q ss_pred             HHHHHH------hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchH
Q 047225           81 LTEAVR------HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQ  154 (287)
Q Consensus        81 ~~~~~~------~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~  154 (287)
                      +.....      .+.+.+++|||+|.++...+++|++.++...           ..+.+|+++|...             
T Consensus        85 i~~~~~~~~~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~-----------~~t~~il~~n~~~-------------  140 (319)
T PLN03025         85 IKMFAQKKVTLPPGRHKIVILDEADSMTSGAQQALRRTMEIYS-----------NTTRFALACNTSS-------------  140 (319)
T ss_pred             HHHHHhccccCCCCCeEEEEEechhhcCHHHHHHHHHHHhccc-----------CCceEEEEeCCcc-------------
Confidence            111111      1345799999999999999999999998521           2346888888643             


Q ss_pred             HHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchh
Q 047225          155 MERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARP  234 (287)
Q Consensus       155 ~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~  234 (287)
                                 .+.+++.+|+ ..+.|++++.+++.+++...+.+.         .+.++++++++++..+.      ++
T Consensus       141 -----------~i~~~L~SRc-~~i~f~~l~~~~l~~~L~~i~~~e---------gi~i~~~~l~~i~~~~~------gD  193 (319)
T PLN03025        141 -----------KIIEPIQSRC-AIVRFSRLSDQEILGRLMKVVEAE---------KVPYVPEGLEAIIFTAD------GD  193 (319)
T ss_pred             -----------ccchhHHHhh-hcccCCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC------CC
Confidence                       2347899999 899999999999999997766542         46789999999998754      56


Q ss_pred             HHHHHH
Q 047225          235 LRRAIG  240 (287)
Q Consensus       235 l~~~i~  240 (287)
                      ++++++
T Consensus       194 lR~aln  199 (319)
T PLN03025        194 MRQALN  199 (319)
T ss_pred             HHHHHH
Confidence            777766

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=99.73  E-value=4.7e-17  Score=149.78  Aligned_cols=204  Identities=17%  Similarity=0.260  Sum_probs=151.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCC-cccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYV-GFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      ++++.|++||||+++|+.++........+++.++|....+......+||...+.. |...  .-...+.....++|||||
T Consensus       168 ~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~~~~~~~~lfg~~~~~~~~~~~--~~~g~~~~a~~gtl~ld~  245 (457)
T PRK11361        168 SVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPESLLESELFGHEKGAFTGAQT--LRQGLFERANEGTLLLDE  245 (457)
T ss_pred             EEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCCHHHHHHHhcCCCCCCCCCCCC--CCCCceEECCCCEEEEec
Confidence            6999999999999999999998876778999999998876555567787654422 1111  011223334557999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC-
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID-  176 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~-  176 (287)
                      ++.+++..|..|+.+++++.+....+......++.+|++++.......                 -++.|.++|..|+. 
T Consensus       246 i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~l~~~~-----------------~~g~~~~~l~~~l~~  308 (457)
T PRK11361        246 IGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRDLQAMV-----------------KEGTFREDLFYRLNV  308 (457)
T ss_pred             hhhCCHHHHHHHHHHHhcCcEEeCCCCceeeeceEEEEeCCCCHHHHH-----------------HcCCchHHHHHHhcc
Confidence            999999999999999998775533332222347889999987543211                 13468888998885 


Q ss_pred             ceEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          177 EVIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       177 ~~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ..|.+||+.  .+|+..++..++.++.......  .+.+++++++.+..+.|+.  ++|++++.+++++..
T Consensus       309 ~~i~~ppLreR~~di~~l~~~~l~~~~~~~~~~--~~~~~~~a~~~L~~~~wpg--Nv~eL~~~~~~~~~~  375 (457)
T PRK11361        309 IHLILPPLRDRREDISLLANHFLQKFSSENQRD--IIDIDPMAMSLLTAWSWPG--NIRELSNVIERAVVM  375 (457)
T ss_pred             ceecCCChhhchhhHHHHHHHHHHHHHHHcCCC--CCCcCHHHHHHHHcCCCCC--cHHHHHHHHHHHHHh
Confidence            449999998  6788889999988876544211  2579999999999999966  569999999988753

>PRK15115 response regulator GlrR; Provisional

Probab=99.73  E-value=4.8e-17  Score=149.20  Aligned_cols=203  Identities=18%  Similarity=0.240  Sum_probs=150.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCC-cccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYV-GFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      ++++.|++||||+++|+.++......+.+++.++|....+......+||...+.. |...  .-...+.....++|||||
T Consensus       159 ~vli~Ge~GtGk~~lA~~ih~~s~r~~~~f~~i~c~~~~~~~~~~~lfg~~~~~~~~~~~--~~~g~~~~a~~gtl~l~~  236 (444)
T PRK15115        159 SVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGALPEQLLESELFGHARGAFTGAVS--NREGLFQAAEGGTLFLDE  236 (444)
T ss_pred             eEEEEcCCcchHHHHHHHHHHhcCCCCCCeEEEeCCCCCHHHHHHHhcCCCcCCCCCCcc--CCCCcEEECCCCEEEEEc
Confidence            6999999999999999999998876778999999998866555556777654422 1111  111223333457999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCc
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDE  177 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~  177 (287)
                      ++.+++..|..|+++++++.+..-.+......++.+|++++......                 ..++.|.++|..|+..
T Consensus       237 i~~l~~~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii~~~~~~l~~~-----------------~~~~~f~~~l~~~l~~  299 (444)
T PRK15115        237 IGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRDLPKA-----------------MARGEFREDLYYRLNV  299 (444)
T ss_pred             cccCCHHHHHHHHHHHhhCCEEeCCCCceeeeeEEEEEeCCCCHHHH-----------------HHcCCccHHHHHhhce
Confidence            99999999999999999887643222222234788999988643211                 1234788999999864


Q ss_pred             -eEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          178 -VIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       178 -~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                       .|.+||+.  .+|+..++.+++.++......  ....+++++++.|..+.|+.  ++|++++.+++++.
T Consensus       300 ~~i~lPpLr~R~eDi~~l~~~~l~~~~~~~~~--~~~~~~~~a~~~L~~~~Wpg--NvreL~~~i~~~~~  365 (444)
T PRK15115        300 VSLKIPALAERTEDIPLLANHLLRQAAERHKP--FVRAFSTDAMKRLMTASWPG--NVRQLVNVIEQCVA  365 (444)
T ss_pred             eeecCCChHhccccHHHHHHHHHHHHHHHhCC--CCCCcCHHHHHHHHhCCCCC--hHHHHHHHHHHHHH
Confidence             49999999  568899999999887554421  12369999999999999966  56999999998775

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.72  E-value=1.8e-16  Score=139.54  Aligned_cols=171  Identities=20%  Similarity=0.274  Sum_probs=116.7

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh-CCcEE
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH-RPHSV   92 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~i   92 (287)
                      +.+.++++|+||||||||++++.+++.+   +..+...+.......                   ..+...+.. ....+
T Consensus        48 ~~~~~~~ll~GppG~GKT~la~~ia~~l---~~~~~~~~~~~~~~~-------------------~~l~~~l~~l~~~~v  105 (328)
T PRK00080         48 GEALDHVLLYGPPGLGKTTLANIIANEM---GVNIRITSGPALEKP-------------------GDLAAILTNLEEGDV  105 (328)
T ss_pred             CCCCCcEEEECCCCccHHHHHHHHHHHh---CCCeEEEecccccCh-------------------HHHHHHHHhcccCCE
Confidence            4444579999999999999999999998   333433332211111                   122222222 23469


Q ss_pred             EEEcCcccccHHHHHHHHHhhcCceee--cCCCc-----eeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHh
Q 047225           93 ILFDEIEKAHRDVLNVMLQLLDDGRVT--DGKGQ-----TVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRR  165 (287)
Q Consensus        93 l~iDeid~~~~~~~~~L~~~l~~~~~~--~~~g~-----~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (287)
                      +||||++.++...++.|+..+++....  ..++.     ....+.+.+|+++|...                        
T Consensus       106 l~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~------------------------  161 (328)
T PRK00080        106 LFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAG------------------------  161 (328)
T ss_pred             EEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecCCcc------------------------
Confidence            999999999999999999998876432  21211     12335677888887642                        


Q ss_pred             cCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          166 RFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       166 ~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                      .++++|.+||+..+.+++++.+++.++++......         .+.++++++++|+..+.   .++|.+...+.+.
T Consensus       162 ~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~---------~~~~~~~~~~~ia~~~~---G~pR~a~~~l~~~  226 (328)
T PRK00080        162 LLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARIL---------GVEIDEEGALEIARRSR---GTPRIANRLLRRV  226 (328)
T ss_pred             cCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHc---------CCCcCHHHHHHHHHHcC---CCchHHHHHHHHH
Confidence            34678999998889999999999999997665431         46789999999998753   2335555555543

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.72  E-value=1.6e-16  Score=143.04  Aligned_cols=188  Identities=17%  Similarity=0.233  Sum_probs=118.7

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC----ceEEe-cccccccccchhhhhC-CCCCCCcccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE----AMVRI-DMSEYMEKHTVSKFFG-SPPGYVGFEN   77 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~----~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~   77 (287)
                      ..++..+....-+ +.++|+||+|||||++|+.+|+.+.....    ++..+ .|..+.... ...++. ......|.+.
T Consensus        28 ~~L~~~i~~~ri~-ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~g~-~~dviEIdaas~~gVd~  105 (484)
T PRK14956         28 GALQNALKSGKIG-HAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITKGI-SSDVLEIDAASNRGIEN  105 (484)
T ss_pred             HHHHHHHHcCCCC-eEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHccC-CccceeechhhcccHHH
Confidence            4455555554322 34899999999999999999999843211    11100 011111000 000000 0011122222


Q ss_pred             hhhHHHHHH----hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCch
Q 047225           78 GGQLTEAVR----HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSD  153 (287)
Q Consensus        78 ~~~~~~~~~----~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~  153 (287)
                      .+.+.+.+.    .+.+.|+||||+|.++.+.+++|++.+++..           .+++||++|+...            
T Consensus       106 IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp-----------~~viFILaTte~~------------  162 (484)
T PRK14956        106 IRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPP-----------AHIVFILATTEFH------------  162 (484)
T ss_pred             HHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCC-----------CceEEEeecCChh------------
Confidence            233333332    2456799999999999999999999998731           3557888777532            


Q ss_pred             HHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCch
Q 047225          154 QMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR  233 (287)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r  233 (287)
                                  .+.+.+++|| ..+.|.+++.+++.+.+++.+...         ++.++++++..|+..+.   +++|
T Consensus       163 ------------kI~~TI~SRC-q~~~f~~ls~~~i~~~L~~i~~~E---------gi~~e~eAL~~Ia~~S~---Gd~R  217 (484)
T PRK14956        163 ------------KIPETILSRC-QDFIFKKVPLSVLQDYSEKLCKIE---------NVQYDQEGLFWIAKKGD---GSVR  217 (484)
T ss_pred             ------------hccHHHHhhh-heeeecCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---ChHH
Confidence                        3568999999 999999999999998887776542         46789999999998764   3344


Q ss_pred             hHHHHHHH
Q 047225          234 PLRRAIGR  241 (287)
Q Consensus       234 ~l~~~i~~  241 (287)
                      +.-..++.
T Consensus       218 dAL~lLeq  225 (484)
T PRK14956        218 DMLSFMEQ  225 (484)
T ss_pred             HHHHHHHH
Confidence            44444443

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=99.72  E-value=3.5e-16  Score=133.02  Aligned_cols=200  Identities=20%  Similarity=0.317  Sum_probs=159.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      ++++.|.+||||..+|++-+........++..+||....+.....++||..+|..|..      .+......+.+|+|||
T Consensus       229 PLLI~GeTGTGKdLlAkaCH~~S~R~~~pFlalNCA~lPe~~aEsElFG~apg~~gk~------GffE~AngGTVlLDeI  302 (511)
T COG3283         229 PLLITGETGTGKDLLAKACHLASPRHSKPFLALNCASLPEDAAESELFGHAPGDEGKK------GFFEQANGGTVLLDEI  302 (511)
T ss_pred             CeEEecCCCchHHHHHHHHhhcCcccCCCeeEeecCCCchhHhHHHHhcCCCCCCCcc------chhhhccCCeEEeehh
Confidence            5999999999999999999999888889999999999998888899999888743321      2233334569999999


Q ss_pred             ccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCc-
Q 047225           99 EKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDE-  177 (287)
Q Consensus        99 d~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~-  177 (287)
                      ..+++..|..|++++++|.+.--....=-+.++.||++|..+-..+                 .-+..|..+|+.|+.- 
T Consensus       303 gEmSp~lQaKLLRFL~DGtFRRVGee~Ev~vdVRVIcatq~nL~~l-----------------v~~g~fReDLfyRLNVL  365 (511)
T COG3283         303 GEMSPRLQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQVNLVEL-----------------VQKGKFREDLFYRLNVL  365 (511)
T ss_pred             hhcCHHHHHHHHHHhcCCceeecCCcceEEEEEEEEecccccHHHH-----------------HhcCchHHHHHHHhhee
Confidence            9999999999999999998875432222235889999997653221                 1245788999999963 


Q ss_pred             eEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          178 VIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       178 ~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ++.+||+.  .+++..+.+.++.+++..+.--  ...++.+.+.++.++.|+.  ++|++.+.+-+++..
T Consensus       366 tl~~PpLRer~~di~pL~e~Fv~q~s~elg~p--~pkl~~~~~~~L~~y~WpG--NVRqL~N~iyRA~s~  431 (511)
T COG3283         366 TLNLPPLRERPQDIMPLAELFVQQFSDELGVP--RPKLAADLLTVLTRYAWPG--NVRQLKNAIYRALTL  431 (511)
T ss_pred             eecCCccccCcccchHHHHHHHHHHHHHhCCC--CCccCHHHHHHHHHcCCCc--cHHHHHHHHHHHHHH
Confidence            38999998  6789999999999888877421  3689999999999999966  568999888877763

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

Probab=99.72  E-value=2.7e-17  Score=126.88  Aligned_cols=131  Identities=31%  Similarity=0.519  Sum_probs=88.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||++++.+++.+   +.++..++++...+...+........+...+.. +.+..++.  ...+++|||+
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~---~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~-~~l~~a~~--~~~il~lDEi   74 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALL---GRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKD-GPLVRAMR--KGGILVLDEI   74 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH---TCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE--CCCTTHH--EEEEEEESSC
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh---hcceEEEEeccccccccceeeeeeccccccccc-cccccccc--ceeEEEECCc
Confidence            58999999999999999999999   788888888776655332222211122222222 23443444  3369999999


Q ss_pred             ccccHHHHHHHHHhhcCceeecCC-Cceeecc-------ceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChh
Q 047225           99 EKAHRDVLNVMLQLLDDGRVTDGK-GQTVDLK-------NTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        99 d~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~~-------~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      ++++++++..|..+++.+.+.... +.....+       ++.+|+|+|+....                    ...++++
T Consensus        75 n~a~~~v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~~~--------------------~~~l~~a  134 (139)
T PF07728_consen   75 NRAPPEVLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRDKG--------------------RKELSPA  134 (139)
T ss_dssp             GG--HHHHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST----------------------TTTTCHH
T ss_pred             ccCCHHHHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCCCC--------------------cCcCCHH
Confidence            999999999999999999877655 3444333       38999999997622                    2367899


Q ss_pred             HHhcc
Q 047225          171 FLNRI  175 (287)
Q Consensus       171 l~~r~  175 (287)
                      |++||
T Consensus       135 l~~Rf  139 (139)
T PF07728_consen  135 LLDRF  139 (139)
T ss_dssp             HHTT-
T ss_pred             HHhhC
Confidence            99997

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.

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=99.72  E-value=1.7e-16  Score=146.36  Aligned_cols=205  Identities=18%  Similarity=0.245  Sum_probs=154.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      ++++.|++||||++++++++........+++.++|....+......+||...+. .+...  .-...+.....++|||||
T Consensus       159 ~vli~Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~~~~~~~~lfg~~~~~~~~~~~--~~~g~~~~a~~gtl~l~e  236 (463)
T TIGR01818       159 TVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIPKDLIESELFGHEKGAFTGANT--RRQGRFEQADGGTLFLDE  236 (463)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCCHHHHHHHhcCCCCCCCCCccc--CCCCcEEECCCCeEEEEc
Confidence            599999999999999999999887678899999999886554455677765432 22111  111223334457999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCc
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDE  177 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~  177 (287)
                      ++.++...|..|+++++++.+....+......++.+|++++......                 .-++.|.++|+.|+..
T Consensus       237 i~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~-----------------~~~~~f~~~L~~rl~~  299 (463)
T TIGR01818       237 IGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNLEAL-----------------VRQGKFREDLFHRLNV  299 (463)
T ss_pred             hhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCCHHHH-----------------HHcCCcHHHHHHHhCc
Confidence            99999999999999999987665444333334778999998764321                 1124678899999864


Q ss_pred             -eEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHH
Q 047225          178 -VIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDN  246 (287)
Q Consensus       178 -~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~  246 (287)
                       .|.+||+.  .+|+..++.+++.++.......  ...++++++..|..+.|+.  ++|+|++.+++++..+
T Consensus       300 ~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~--~~~~~~~a~~~L~~~~wpg--NvreL~~~~~~~~~~~  367 (463)
T TIGR01818       300 IRIHLPPLRERREDIPRLARHFLALAARELDVE--PKLLDPEALERLKQLRWPG--NVRQLENLCRWLTVMA  367 (463)
T ss_pred             ceecCCCcccchhhHHHHHHHHHHHHHHHhCCC--CCCcCHHHHHHHHhCCCCC--hHHHHHHHHHHHHHhC
Confidence             69999999  8899999999998876654221  2469999999999999966  5699999999887643

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.

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=99.71  E-value=5.6e-18  Score=136.17  Aligned_cols=162  Identities=21%  Similarity=0.276  Sum_probs=70.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCC-ce---EEec-ccc------------ccc---ccchhhhhCCCCCCCcccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKE-AM---VRID-MSE------------YME---KHTVSKFFGSPPGYVGFEN   77 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~-~~---~~~~-~~~------------~~~---~~~~~~~~~~~~~~~~~~~   77 (287)
                      ++++++||||||||++|+.+...++.-.. ..   ..+. ...            +..   ..+...++|..        
T Consensus        23 h~lLl~GppGtGKTmlA~~l~~lLP~l~~~e~le~~~i~s~~~~~~~~~~~~~~Pfr~phhs~s~~~liGgg--------   94 (206)
T PF01078_consen   23 HHLLLIGPPGTGKTMLARRLPSLLPPLTEEEALEVSKIYSVAGLGPDEGLIRQRPFRAPHHSASEAALIGGG--------   94 (206)
T ss_dssp             --EEEES-CCCTHHHHHHHHHHCS--CCEECCESS--S-TT---S---EEEE---EEEE-TT--HHHHHEEG--------
T ss_pred             CCeEEECCCCCCHHHHHHHHHHhCCCCchHHHhhhccccccccCCCCCceecCCCcccCCCCcCHHHHhCCC--------
Confidence            47999999999999999999988843210 00   0000 000            000   00111122210        


Q ss_pred             hhhHHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCC-Cceeecc-ceEEEEeecCCchhhhhhccCCchHH
Q 047225           78 GGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDLK-NTIIIMTSNIGDSVIARESILGSDQM  155 (287)
Q Consensus        78 ~~~~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~  155 (287)
                      ...-...+...+++|||+||+..+++.+++.|++.+++|.+.... |..+.++ ++++|+|+||.+.+............
T Consensus        95 ~~~~PGeislAh~GVLflDE~~ef~~~vld~Lr~ple~g~v~i~R~~~~~~~Pa~f~lv~a~NPcpCG~~~~~~~~C~Cs  174 (206)
T PF01078_consen   95 RPPRPGEISLAHRGVLFLDELNEFDRSVLDALRQPLEDGEVTISRAGGSVTYPARFLLVAAMNPCPCGYYGDPDNRCRCS  174 (206)
T ss_dssp             GGEEE-CGGGGTTSEEEECETTTS-HHHHHHHHHHHHHSBEEEEETTEEEEEB--EEEEEEE-S----------------
T ss_pred             cCCCcCHHHHhcCCEEEechhhhcCHHHHHHHHHHHHCCeEEEEECCceEEEecccEEEEEecccccccccccccccccc
Confidence            011234556667789999999999999999999999999988774 7777776 89999999999887654333335556


Q ss_pred             HHHHHHHHHhcCChhHHhccCceEEeCCCCHHH
Q 047225          156 ERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQ  188 (287)
Q Consensus       156 ~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~  188 (287)
                      +.++..++. +++.++++|||..+.+++.+.++
T Consensus       175 ~~~~~~Y~~-rlsgpllDRiDi~v~~~~~~~~~  206 (206)
T PF01078_consen  175 PRQIRRYQS-RLSGPLLDRIDIHVEVPRVSYEE  206 (206)
T ss_dssp             ---------------------------------
T ss_pred             ccccccccc-cccccccccccccccccccccCC
Confidence            667766654 67889999999999999988654

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.71  E-value=5.2e-16  Score=141.74  Aligned_cols=169  Identities=21%  Similarity=0.291  Sum_probs=118.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCccc--chhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE--NGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~il~iD   96 (287)
                      .++|+||||||||++|+++|+.+   +.+++.++++.....            +.|..  ....++.......++|||||
T Consensus       261 GILL~GPpGTGKTllAkaiA~e~---~~~~~~l~~~~l~~~------------~vGese~~l~~~f~~A~~~~P~IL~ID  325 (489)
T CHL00195        261 GLLLVGIQGTGKSLTAKAIANDW---QLPLLRLDVGKLFGG------------IVGESESRMRQMIRIAEALSPCILWID  325 (489)
T ss_pred             eEEEECCCCCcHHHHHHHHHHHh---CCCEEEEEhHHhccc------------ccChHHHHHHHHHHHHHhcCCcEEEeh
Confidence            59999999999999999999998   778888888653321            11111  12345555566667999999


Q ss_pred             CcccccH------------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           97 EIEKAHR------------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        97 eid~~~~------------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      |+|++-.            .+...++..+++.           ...++||+|||...                       
T Consensus       326 EID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~-----------~~~V~vIaTTN~~~-----------------------  371 (489)
T CHL00195        326 EIDKAFSNSESKGDSGTTNRVLATFITWLSEK-----------KSPVFVVATANNID-----------------------  371 (489)
T ss_pred             hhhhhhccccCCCCchHHHHHHHHHHHHHhcC-----------CCceEEEEecCChh-----------------------
Confidence            9996532            2334455555531           12457888898753                       


Q ss_pred             hcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          165 RRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       165 ~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                       .+++++++  ||+..+.++.|+.++..+|++.++.+...        ....+.-++.++..  ..+++..++++++..+
T Consensus       372 -~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~--------~~~~~~dl~~La~~--T~GfSGAdI~~lv~eA  440 (489)
T CHL00195        372 -LLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRP--------KSWKKYDIKKLSKL--SNKFSGAEIEQSIIEA  440 (489)
T ss_pred             -hCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCC--------CcccccCHHHHHhh--cCCCCHHHHHHHHHHH
Confidence             45788885  99999999999999999999888876311        11234446677765  3467779999998877


Q ss_pred             HHHHH
Q 047225          243 LEDNL  247 (287)
Q Consensus       243 ~~~~~  247 (287)
                      ...+.
T Consensus       441 ~~~A~  445 (489)
T CHL00195        441 MYIAF  445 (489)
T ss_pred             HHHHH
Confidence            76554

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.69  E-value=5.3e-16  Score=130.06  Aligned_cols=163  Identities=13%  Similarity=0.160  Sum_probs=110.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||+|||||++++++++.....+..+.++++......                  ...+.+.+...  .+|+|||+
T Consensus        47 ~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~~------------------~~~~~~~~~~~--dlliiDdi  106 (235)
T PRK08084         47 YIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAWF------------------VPEVLEGMEQL--SLVCIDNI  106 (235)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhhh------------------hHHHHHHhhhC--CEEEEeCh
Confidence            69999999999999999999987555556666666442210                  01233333333  48999999


Q ss_pred             cccc--HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC
Q 047225           99 EKAH--RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID  176 (287)
Q Consensus        99 d~~~--~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~  176 (287)
                      +.+.  +.++..|+.+++.....         .+..+|+|++.++..+.                    .+.++|.+|+.
T Consensus       107 ~~~~~~~~~~~~lf~l~n~~~e~---------g~~~li~ts~~~p~~l~--------------------~~~~~L~SRl~  157 (235)
T PRK08084        107 ECIAGDELWEMAIFDLYNRILES---------GRTRLLITGDRPPRQLN--------------------LGLPDLASRLD  157 (235)
T ss_pred             hhhcCCHHHHHHHHHHHHHHHHc---------CCCeEEEeCCCChHHcC--------------------cccHHHHHHHh
Confidence            9874  55666666666532110         12347777776554331                    23589999995


Q ss_pred             --ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          177 --EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       177 --~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                        ..+.+.||+.+++.++++.....       .  .+.++++++++|+....   .++|.+...++++
T Consensus       158 ~g~~~~l~~~~~~~~~~~l~~~a~~-------~--~~~l~~~v~~~L~~~~~---~d~r~l~~~l~~l  213 (235)
T PRK08084        158 WGQIYKLQPLSDEEKLQALQLRARL-------R--GFELPEDVGRFLLKRLD---REMRTLFMTLDQL  213 (235)
T ss_pred             CCceeeecCCCHHHHHHHHHHHHHH-------c--CCCCCHHHHHHHHHhhc---CCHHHHHHHHHHH
Confidence              67999999999999998654322       1  36899999999998753   3456777777754

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.69  E-value=1.3e-15  Score=132.92  Aligned_cols=165  Identities=19%  Similarity=0.268  Sum_probs=111.2

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh-CCcEEEEEc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH-RPHSVILFD   96 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~il~iD   96 (287)
                      ++++|+||||||||++++.+++.+.   ..+...........                   ..+...+.. ....++|||
T Consensus        31 ~~~ll~Gp~G~GKT~la~~ia~~~~---~~~~~~~~~~~~~~-------------------~~l~~~l~~~~~~~vl~iD   88 (305)
T TIGR00635        31 DHLLLYGPPGLGKTTLAHIIANEMG---VNLKITSGPALEKP-------------------GDLAAILTNLEEGDVLFID   88 (305)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC---CCEEEeccchhcCc-------------------hhHHHHHHhcccCCEEEEe
Confidence            3799999999999999999999883   33333322211110                   122222221 234699999


Q ss_pred             CcccccHHHHHHHHHhhcCceee--cCCC-----ceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225           97 EIEKAHRDVLNVMLQLLDDGRVT--DGKG-----QTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus        97 eid~~~~~~~~~L~~~l~~~~~~--~~~g-----~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      |++.+++..++.|+.+++++...  ...+     .....+.+.+|.++|...                        .+.+
T Consensus        89 Ei~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~------------------------~l~~  144 (305)
T TIGR00635        89 EIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAG------------------------MLTS  144 (305)
T ss_pred             hHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCcc------------------------ccCH
Confidence            99999999999999999876522  1111     122334567777776642                        3467


Q ss_pred             hHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       170 ~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      ++.+||...+.+.|++.+++.+++...+...         .+.++++++++++..+.   ..+|.+.+.++
T Consensus       145 ~l~sR~~~~~~l~~l~~~e~~~il~~~~~~~---------~~~~~~~al~~ia~~~~---G~pR~~~~ll~  203 (305)
T TIGR00635       145 PLRDRFGIILRLEFYTVEELAEIVSRSAGLL---------NVEIEPEAALEIARRSR---GTPRIANRLLR  203 (305)
T ss_pred             HHHhhcceEEEeCCCCHHHHHHHHHHHHHHh---------CCCcCHHHHHHHHHHhC---CCcchHHHHHH
Confidence            8999998889999999999999997665421         45789999999998743   22344444444

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.68  E-value=1.2e-15  Score=136.90  Aligned_cols=175  Identities=28%  Similarity=0.347  Sum_probs=118.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||++|+++|+.+   +.+++.+++++....     ..|..     ......+++.......++|||||+
T Consensus       167 gvLL~GppGtGKT~lAkaia~~~---~~~~i~v~~~~l~~~-----~~g~~-----~~~i~~~f~~a~~~~p~IlfiDEi  233 (389)
T PRK03992        167 GVLLYGPPGTGKTLLAKAVAHET---NATFIRVVGSELVQK-----FIGEG-----ARLVRELFELAREKAPSIIFIDEI  233 (389)
T ss_pred             ceEEECCCCCChHHHHHHHHHHh---CCCEEEeehHHHhHh-----hccch-----HHHHHHHHHHHHhcCCeEEEEech
Confidence            59999999999999999999998   567888877665421     11110     011134555555566689999999


Q ss_pred             ccc-----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKA-----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~-----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |.+           +..++..+.+++..-....      ...++.||+|||...                        .+
T Consensus       234 D~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~------~~~~v~VI~aTn~~~------------------------~l  283 (389)
T PRK03992        234 DAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFD------PRGNVKIIAATNRID------------------------IL  283 (389)
T ss_pred             hhhhcccccCCCCccHHHHHHHHHHHHhccccC------CCCCEEEEEecCChh------------------------hC
Confidence            976           4566677777775321111      113567899998752                        34


Q ss_pred             ChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          168 RPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       168 ~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ++++++  ||+..|.|++|+.++..+|++.++...       .....   ..+..++..  ..+++..+++..+..+...
T Consensus       284 d~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~-------~~~~~---~~~~~la~~--t~g~sgadl~~l~~eA~~~  351 (389)
T PRK03992        284 DPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKM-------NLADD---VDLEELAEL--TEGASGADLKAICTEAGMF  351 (389)
T ss_pred             CHHHcCCccCceEEEECCCCHHHHHHHHHHHhccC-------CCCCc---CCHHHHHHH--cCCCCHHHHHHHHHHHHHH
Confidence            677775  999999999999999999997665321       11111   224555554  3466778999998887775


Q ss_pred             HHH
Q 047225          246 NLA  248 (287)
Q Consensus       246 ~~~  248 (287)
                      ++.
T Consensus       352 a~~  354 (389)
T PRK03992        352 AIR  354 (389)
T ss_pred             HHH
Confidence            543

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

Probab=99.68  E-value=1.1e-15  Score=137.77  Aligned_cols=178  Identities=24%  Similarity=0.335  Sum_probs=129.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCccc--chhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE--NGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~il~iD   96 (287)
                      .++||||||||||.+|+++|++.   +..|+.+...+....            |+|-.  ..+.++...+....+|||||
T Consensus       547 GvLL~GPPGCGKTLlAKAVANEa---g~NFisVKGPELlNk------------YVGESErAVR~vFqRAR~saPCVIFFD  611 (802)
T KOG0733|consen  547 GVLLCGPPGCGKTLLAKAVANEA---GANFISVKGPELLNK------------YVGESERAVRQVFQRARASAPCVIFFD  611 (802)
T ss_pred             ceEEeCCCCccHHHHHHHHhhhc---cCceEeecCHHHHHH------------HhhhHHHHHHHHHHHhhcCCCeEEEec
Confidence            49999999999999999999998   677777766554322            12211  12467777777778999999


Q ss_pred             CcccccH-----------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHh
Q 047225           97 EIEKAHR-----------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRR  165 (287)
Q Consensus        97 eid~~~~-----------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (287)
                      |+|-+-+           .+++.|+.-|+...-.         .++.||.+||.+.                        
T Consensus       612 EiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R---------~gV~viaATNRPD------------------------  658 (802)
T KOG0733|consen  612 EIDALVPRRSDEGSSVSSRVVNQLLTELDGLEER---------RGVYVIAATNRPD------------------------  658 (802)
T ss_pred             chhhcCcccCCCCchhHHHHHHHHHHHhcccccc---------cceEEEeecCCCc------------------------
Confidence            9996533           5777777777642111         2568999999874                        


Q ss_pred             cCChhHH--hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhH-HHHHHHhccCCCCCchhHHHHHHHH
Q 047225          166 RFRPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTF-KKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       166 ~~~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~-~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                      .++|+++  .|||...++++|+.++...|++.....         ....+++++ ++.|+......+++.-+|...+..+
T Consensus       659 iIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tkn---------~k~pl~~dVdl~eia~~~~c~gftGADLaaLvreA  729 (802)
T KOG0733|consen  659 IIDPAILRPGRLDKLLYVGLPNAEERVAILKTITKN---------TKPPLSSDVDLDEIARNTKCEGFTGADLAALVREA  729 (802)
T ss_pred             ccchhhcCCCccCceeeecCCCHHHHHHHHHHHhcc---------CCCCCCcccCHHHHhhcccccCCchhhHHHHHHHH
Confidence            3467777  899999999999999999999776542         122333333 4566665555577778999999999


Q ss_pred             HHHHHHHHHHh
Q 047225          243 LEDNLAEIILT  253 (287)
Q Consensus       243 ~~~~~~~~~~~  253 (287)
                      -..+|.+.++.
T Consensus       730 si~AL~~~~~~  740 (802)
T KOG0733|consen  730 SILALRESLFE  740 (802)
T ss_pred             HHHHHHHHHhh
Confidence            88888877764

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.68  E-value=9.4e-16  Score=128.17  Aligned_cols=160  Identities=13%  Similarity=0.188  Sum_probs=113.7

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      .+++|+||+|||||++++++++.....+..++++++......                      ....  ....+++|||
T Consensus        43 ~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~~~----------------------~~~~--~~~~~liiDd   98 (227)
T PRK08903         43 RFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPLLA----------------------FDFD--PEAELYAVDD   98 (227)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhHHH----------------------Hhhc--ccCCEEEEeC
Confidence            369999999999999999999988666778888888654321                      0111  1235999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC-
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID-  176 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~-  176 (287)
                      ++.++...+..|+.+++....   .      ...+++++++..+..                     ..+.++|.+|+. 
T Consensus        99 i~~l~~~~~~~L~~~~~~~~~---~------~~~~vl~~~~~~~~~---------------------~~l~~~L~sr~~~  148 (227)
T PRK08903         99 VERLDDAQQIALFNLFNRVRA---H------GQGALLVAGPAAPLA---------------------LPLREDLRTRLGW  148 (227)
T ss_pred             hhhcCchHHHHHHHHHHHHHH---c------CCcEEEEeCCCCHHh---------------------CCCCHHHHHHHhc
Confidence            999998888889888864211   0      122466666543211                     134578888983 


Q ss_pred             -ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          177 -EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       177 -~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                       ..+.++||+.++...++.....+       .  .+.++++++++++. .|..  +.+.++..++.+-
T Consensus       149 ~~~i~l~pl~~~~~~~~l~~~~~~-------~--~v~l~~~al~~L~~-~~~g--n~~~l~~~l~~l~  204 (227)
T PRK08903        149 GLVYELKPLSDADKIAALKAAAAE-------R--GLQLADEVPDYLLT-HFRR--DMPSLMALLDALD  204 (227)
T ss_pred             CeEEEecCCCHHHHHHHHHHHHHH-------c--CCCCCHHHHHHHHH-hccC--CHHHHHHHHHHHH
Confidence             67999999988877776544322       1  47899999999999 5755  5588888888643

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=99.68  E-value=4.7e-16  Score=128.80  Aligned_cols=187  Identities=18%  Similarity=0.269  Sum_probs=122.0

Q ss_pred             hhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhc--CCCCceEEecccccccccchhhhhCCCCCCCcccchhhHH
Q 047225            5 RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYF--GSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLT   82 (287)
Q Consensus         5 ~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (287)
                      .++....+++...++++|+||+|+|||+|.+++++.+.  .++..++++++.++......  .+..       .....+.
T Consensus        22 ~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~~~~--~~~~-------~~~~~~~   92 (219)
T PF00308_consen   22 AAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIREFAD--ALRD-------GEIEEFK   92 (219)
T ss_dssp             HHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHHHHH--HHHT-------TSHHHHH
T ss_pred             HHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHHHHH--HHHc-------ccchhhh
Confidence            34444455665555799999999999999999999873  24667888888776643110  0000       1123455


Q ss_pred             HHHHhCCcEEEEEcCcccccH--HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHH
Q 047225           83 EAVRHRPHSVILFDEIEKAHR--DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVA  160 (287)
Q Consensus        83 ~~~~~~~~~il~iDeid~~~~--~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~  160 (287)
                      +.+...+  +|+|||++.+..  .++..|+.+++....          .+..+|+|++..+..+.               
T Consensus        93 ~~~~~~D--lL~iDDi~~l~~~~~~q~~lf~l~n~~~~----------~~k~li~ts~~~P~~l~---------------  145 (219)
T PF00308_consen   93 DRLRSAD--LLIIDDIQFLAGKQRTQEELFHLFNRLIE----------SGKQLILTSDRPPSELS---------------  145 (219)
T ss_dssp             HHHCTSS--EEEEETGGGGTTHHHHHHHHHHHHHHHHH----------TTSEEEEEESS-TTTTT---------------
T ss_pred             hhhhcCC--EEEEecchhhcCchHHHHHHHHHHHHHHh----------hCCeEEEEeCCCCcccc---------------
Confidence            5666555  999999998754  458888888775221          12357788876655441               


Q ss_pred             HHHHhcCChhHHhccCc--eEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHH
Q 047225          161 EELRRRFRPEFLNRIDE--VIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRA  238 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~~--~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~  238 (287)
                           .+.+.|.+|+..  .+.+.||+.++..++++......         .+.++++++++|++.. .  .++|.+..+
T Consensus       146 -----~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~---------~~~l~~~v~~~l~~~~-~--~~~r~L~~~  208 (219)
T PF00308_consen  146 -----GLLPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKER---------GIELPEEVIEYLARRF-R--RDVRELEGA  208 (219)
T ss_dssp             -----TS-HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHT---------T--S-HHHHHHHHHHT-T--SSHHHHHHH
T ss_pred             -----ccChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHh---------CCCCcHHHHHHHHHhh-c--CCHHHHHHH
Confidence                 357889999954  69999999999999997766532         4679999999999873 2  356888888


Q ss_pred             HHHHHH
Q 047225          239 IGRLLE  244 (287)
Q Consensus       239 i~~~~~  244 (287)
                      ++++..
T Consensus       209 l~~l~~  214 (219)
T PF00308_consen  209 LNRLDA  214 (219)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            887654

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.

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.68  E-value=1.3e-15  Score=142.58  Aligned_cols=176  Identities=18%  Similarity=0.221  Sum_probs=113.7

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC----CceEEe-cccccccccchhhhhC-CCCCCCcccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK----EAMVRI-DMSEYMEKHTVSKFFG-SPPGYVGFEN   77 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~----~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~   77 (287)
                      +.++..+... +..+.++|+||+|||||++++.+++.+.-..    .++..+ +|..+.... ..+++. ......+.++
T Consensus        26 ~~L~~aL~~g-RL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~-h~DviEIDAas~rgVDd  103 (830)
T PRK07003         26 RALTHALDGG-RLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGR-FVDYVEMDAASNRGVDE  103 (830)
T ss_pred             HHHHHHHhcC-CCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCC-CceEEEecccccccHHH
Confidence            3444444443 2223479999999999999999999984221    111110 111111100 000110 0011122222


Q ss_pred             hhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCch
Q 047225           78 GGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSD  153 (287)
Q Consensus        78 ~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~  153 (287)
                      .+.+.+.+..    +++.|+||||+|.++...++.|++.||+.           ..++.||++||...            
T Consensus       104 IReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEP-----------P~~v~FILaTtd~~------------  160 (830)
T PRK07003        104 MAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEP-----------PPHVKFILATTDPQ------------  160 (830)
T ss_pred             HHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhc-----------CCCeEEEEEECChh------------
Confidence            2333333322    45689999999999999999999999973           13567888887643            


Q ss_pred             HHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhcc
Q 047225          154 QMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGY  226 (287)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~  226 (287)
                                  .+.+.++||| ..+.|.+++.+++.++++..+...         .+.++++++..|+..+-
T Consensus       161 ------------KIp~TIrSRC-q~f~Fk~Ls~eeIv~~L~~Il~~E---------gI~id~eAL~lIA~~A~  211 (830)
T PRK07003        161 ------------KIPVTVLSRC-LQFNLKQMPAGHIVSHLERILGEE---------RIAFEPQALRLLARAAQ  211 (830)
T ss_pred             ------------hccchhhhhe-EEEecCCcCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC
Confidence                        3467899999 999999999999999998777542         46789999999998753

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.68  E-value=6.9e-16  Score=128.81  Aligned_cols=163  Identities=12%  Similarity=0.202  Sum_probs=114.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||+|||||++++.+++.....+.++++++|.......                  ..+.+.+..  .++|+|||+
T Consensus        40 ~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~~~~------------------~~~~~~~~~--~~lLvIDdi   99 (226)
T TIGR03420        40 FLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQAD------------------PEVLEGLEQ--ADLVCLDDV   99 (226)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHHHhH------------------HHHHhhccc--CCEEEEeCh
Confidence            799999999999999999999886566788889887765321                  112222222  249999999


Q ss_pred             ccccH--HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC
Q 047225           99 EKAHR--DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID  176 (287)
Q Consensus        99 d~~~~--~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~  176 (287)
                      +.++.  ..+..|..+++....          .+..+|++++......                    ....+.|.+|+.
T Consensus       100 ~~l~~~~~~~~~L~~~l~~~~~----------~~~~iIits~~~~~~~--------------------~~~~~~L~~r~~  149 (226)
T TIGR03420       100 EAIAGQPEWQEALFHLYNRVRE----------AGGRLLIAGRAAPAQL--------------------PLRLPDLRTRLA  149 (226)
T ss_pred             hhhcCChHHHHHHHHHHHHHHH----------cCCeEEEECCCChHHC--------------------CcccHHHHHHHh
Confidence            99876  447888887764210          1124777777543221                    011267788874


Q ss_pred             --ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          177 --EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       177 --~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                        ..+.++||+.++...++...+.+       .  .+.+++++++.|+.. |..  +.|+++++++++-
T Consensus       150 ~~~~i~l~~l~~~e~~~~l~~~~~~-------~--~~~~~~~~l~~L~~~-~~g--n~r~L~~~l~~~~  206 (226)
T TIGR03420       150 WGLVFQLPPLSDEEKIAALQSRAAR-------R--GLQLPDEVADYLLRH-GSR--DMGSLMALLDALD  206 (226)
T ss_pred             cCeeEecCCCCHHHHHHHHHHHHHH-------c--CCCCCHHHHHHHHHh-ccC--CHHHHHHHHHHHH
Confidence              57999999999999888654432       1  467999999999994 644  5689999998644

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.

>PRK06893 DNA replication initiation factor; Validated

Probab=99.67  E-value=1.4e-15  Score=127.07  Aligned_cols=163  Identities=13%  Similarity=0.228  Sum_probs=110.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||++++++++.+...+....++++......                  ...+.+.+..  ..+|+|||+
T Consensus        41 ~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~~------------------~~~~~~~~~~--~dlLilDDi  100 (229)
T PRK06893         41 FFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQYF------------------SPAVLENLEQ--QDLVCLDDL  100 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhhh------------------hHHHHhhccc--CCEEEEeCh
Confidence            58999999999999999999987554555566665422110                  0122223333  359999999


Q ss_pred             cccc--HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC
Q 047225           99 EKAH--RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID  176 (287)
Q Consensus        99 d~~~--~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~  176 (287)
                      +...  ..++..|+.+++.....         ...++|+|+|..+..+.                    ...++|.+|+.
T Consensus       101 ~~~~~~~~~~~~l~~l~n~~~~~---------~~~illits~~~p~~l~--------------------~~~~~L~sRl~  151 (229)
T PRK06893        101 QAVIGNEEWELAIFDLFNRIKEQ---------GKTLLLISADCSPHALS--------------------IKLPDLASRLT  151 (229)
T ss_pred             hhhcCChHHHHHHHHHHHHHHHc---------CCcEEEEeCCCChHHcc--------------------ccchhHHHHHh
Confidence            9863  45666777777642110         12346777776654431                    12378889884


Q ss_pred             --ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          177 --EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       177 --~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                        ..+.+++|+.++..+++++.+...         .+.++++++++|+....   .++|.+..+++++
T Consensus       152 ~g~~~~l~~pd~e~~~~iL~~~a~~~---------~l~l~~~v~~~L~~~~~---~d~r~l~~~l~~l  207 (229)
T PRK06893        152 WGEIYQLNDLTDEQKIIVLQRNAYQR---------GIELSDEVANFLLKRLD---RDMHTLFDALDLL  207 (229)
T ss_pred             cCCeeeCCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHhcc---CCHHHHHHHHHHH
Confidence              478999999999999997765421         47899999999998743   3456777777754

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=99.67  E-value=1.3e-15  Score=139.55  Aligned_cols=203  Identities=18%  Similarity=0.223  Sum_probs=150.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCC-cccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYV-GFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++++|++||||+++++.++........+++.++|...........+||...+.. |...  .-...+.....++|||||
T Consensus       164 ~vli~ge~g~gk~~~a~~ih~~s~~~~~~~i~~~c~~~~~~~~~~~lfg~~~~~~~~~~~--~~~g~~~~a~~gtl~lde  241 (441)
T PRK10365        164 TVLIHGDSGTGKELVARAIHASSARSEKPLVTLNCAALNESLLESELFGHEKGAFTGADK--RREGRFVEADGGTLFLDE  241 (441)
T ss_pred             eEEEEecCCCCHHHHHHHHHHcCCCCCCCeeeeeCCCCCHHHHHHHhcCCCCCCcCCCCc--CCCCceeECCCCEEEEec
Confidence            6899999999999999999998877778999999998766544556777654432 1111  111223344568999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC-
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID-  176 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~-  176 (287)
                      ++.+++..|..|+++++++.+....+......++.+|++++......                 .....|.++|..|+. 
T Consensus       242 i~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~~~~~-----------------~~~~~~~~~l~~~l~~  304 (441)
T PRK10365        242 IGDISPMMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAAE-----------------VNAGRFRQDLYYRLNV  304 (441)
T ss_pred             cccCCHHHHHHHHHHHccCcEEeCCCCceeeeceEEEEeCCCCHHHH-----------------HHcCCchHHHHHHhcc
Confidence            99999999999999999987654333222234678888887653221                 123468889999985 


Q ss_pred             ceEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          177 EVIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       177 ~~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      ..+.+||+.  .+|+..++..++.++.......  ...++++++..|..+.|+.  ++|++++.+++++.
T Consensus       305 ~~i~~ppLreR~~Di~~l~~~~l~~~~~~~~~~--~~~~~~~a~~~L~~~~wpg--N~reL~~~~~~~~~  370 (441)
T PRK10365        305 VAIEVPSLRQRREDIPLLAGHFLQRFAERNRKA--VKGFTPQAMDLLIHYDWPG--NIRELENAVERAVV  370 (441)
T ss_pred             ceecCCChhhcchhHHHHHHHHHHHHHHHhCCC--CCCcCHHHHHHHHhCCCCC--HHHHHHHHHHHHHH
Confidence            448899999  5689999999998876654321  2469999999999999966  56999999998775

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.66  E-value=2.6e-15  Score=142.92  Aligned_cols=187  Identities=17%  Similarity=0.209  Sum_probs=116.2

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC----CceEEe-cccccccccchhhhh-CCCCCCCcccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK----EAMVRI-DMSEYMEKHTVSKFF-GSPPGYVGFEN   77 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~----~~~~~~-~~~~~~~~~~~~~~~-~~~~~~~~~~~   77 (287)
                      +.+++.+... +..+.++|+||+|||||++++++++.+....    .++..+ .|....+... ..++ -......+...
T Consensus        26 ~~LknaI~~~-rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~-~DviEidAas~~kVDd  103 (944)
T PRK14949         26 HALTNALTQQ-RLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRF-VDLIEVDAASRTKVDD  103 (944)
T ss_pred             HHHHHHHHhC-CCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCC-ceEEEeccccccCHHH
Confidence            3344444432 3333369999999999999999999984321    111111 0111111000 0000 00111122222


Q ss_pred             hhhHHHHHH----hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCch
Q 047225           78 GGQLTEAVR----HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSD  153 (287)
Q Consensus        78 ~~~~~~~~~----~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~  153 (287)
                      .+.+.+.+.    .+++.|+||||+++++.+.++.|++.|++..           .+++||++|+...            
T Consensus       104 IReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP-----------~~vrFILaTTe~~------------  160 (944)
T PRK14949        104 TRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPP-----------EHVKFLLATTDPQ------------  160 (944)
T ss_pred             HHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccC-----------CCeEEEEECCCch------------
Confidence            233333332    2456899999999999999999999999731           2456777665432            


Q ss_pred             HHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCch
Q 047225          154 QMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR  233 (287)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r  233 (287)
                                  .+.+.+++|| ..+.|.|++.+++.+.+.+.+...         .+.+++++++.|+..+.   +++|
T Consensus       161 ------------kLl~TIlSRC-q~f~fkpLs~eEI~~~L~~il~~E---------gI~~edeAL~lIA~~S~---Gd~R  215 (944)
T PRK14949        161 ------------KLPVTVLSRC-LQFNLKSLTQDEIGTQLNHILTQE---------QLPFEAEALTLLAKAAN---GSMR  215 (944)
T ss_pred             ------------hchHHHHHhh-eEEeCCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CCHH
Confidence                        2457899999 999999999999999997777542         46789999999998753   3344


Q ss_pred             hHHHHHH
Q 047225          234 PLRRAIG  240 (287)
Q Consensus       234 ~l~~~i~  240 (287)
                      ..-..++
T Consensus       216 ~ALnLLd  222 (944)
T PRK14949        216 DALSLTD  222 (944)
T ss_pred             HHHHHHH
Confidence            4444443

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

Probab=99.66  E-value=4.1e-15  Score=133.04  Aligned_cols=175  Identities=25%  Similarity=0.372  Sum_probs=114.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||++++++|+.+   +.+++.+.++.+...     ..|..     ......++..+.....+||||||+
T Consensus       181 gvLL~GppGTGKT~LAkalA~~l---~~~fi~i~~s~l~~k-----~~ge~-----~~~lr~lf~~A~~~~P~ILfIDEI  247 (398)
T PTZ00454        181 GVLLYGPPGTGKTMLAKAVAHHT---TATFIRVVGSEFVQK-----YLGEG-----PRMVRDVFRLARENAPSIIFIDEV  247 (398)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhc---CCCEEEEehHHHHHH-----hcchh-----HHHHHHHHHHHHhcCCeEEEEECH
Confidence            59999999999999999999988   566777766543321     11110     011234556666666789999999


Q ss_pred             ccc-----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKA-----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~-----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |.+           +...+..+.+++..-.-..      ...++.+|++||...                        .+
T Consensus       248 D~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~------~~~~v~VI~aTN~~d------------------------~L  297 (398)
T PTZ00454        248 DSIATKRFDAQTGADREVQRILLELLNQMDGFD------QTTNVKVIMATNRAD------------------------TL  297 (398)
T ss_pred             hhhccccccccCCccHHHHHHHHHHHHHhhccC------CCCCEEEEEecCCch------------------------hC
Confidence            965           2345555666554311010      012567899998753                        35


Q ss_pred             ChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          168 RPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       168 ~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ++++++  ||+..|.|++|+.++..+|++.++.+.       +...++   -++.++..  ..+++..+++..+..+...
T Consensus       298 DpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~-------~l~~dv---d~~~la~~--t~g~sgaDI~~l~~eA~~~  365 (398)
T PTZ00454        298 DPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKM-------NLSEEV---DLEDFVSR--PEKISAADIAAICQEAGMQ  365 (398)
T ss_pred             CHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcC-------CCCccc---CHHHHHHH--cCCCCHHHHHHHHHHHHHH
Confidence            678876  999999999999999999997666432       211122   23445543  3466778999998888775


Q ss_pred             HHH
Q 047225          246 NLA  248 (287)
Q Consensus       246 ~~~  248 (287)
                      ++.
T Consensus       366 A~r  368 (398)
T PTZ00454        366 AVR  368 (398)
T ss_pred             HHH
Confidence            553

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=99.66  E-value=1.8e-15  Score=129.08  Aligned_cols=198  Identities=19%  Similarity=0.256  Sum_probs=124.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHH-hCCcEEEEEc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVR-HRPHSVILFD   96 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~il~iD   96 (287)
                      +.++||||||||||++|+.|+......+..|+.+....-.. ..+.+.|.            .-..... -+...|+|||
T Consensus       163 pSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t-~dvR~ife------------~aq~~~~l~krkTilFiD  229 (554)
T KOG2028|consen  163 PSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKT-NDVRDIFE------------QAQNEKSLTKRKTILFID  229 (554)
T ss_pred             CceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccch-HHHHHHHH------------HHHHHHhhhcceeEEEeH
Confidence            36999999999999999999998755444444443322111 11222221            1111111 1345799999


Q ss_pred             CcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC
Q 047225           97 EIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID  176 (287)
Q Consensus        97 eid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~  176 (287)
                      |++++....|+.+++.++.|.+             .+|.++...+.                      -.+..+|++|| 
T Consensus       230 EiHRFNksQQD~fLP~VE~G~I-------------~lIGATTENPS----------------------Fqln~aLlSRC-  273 (554)
T KOG2028|consen  230 EIHRFNKSQQDTFLPHVENGDI-------------TLIGATTENPS----------------------FQLNAALLSRC-  273 (554)
T ss_pred             HhhhhhhhhhhcccceeccCce-------------EEEecccCCCc----------------------cchhHHHHhcc-
Confidence            9999999999999999998743             45555433221                      13467999999 


Q ss_pred             ceEEeCCCCHHHHHHHHHHHHHHHHH--HHHh-c-CcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHHHHHHH
Q 047225          177 EVIVFRQLNKMQLMEIVDIMLKEIYE--RLEA-K-NMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIIL  252 (287)
Q Consensus       177 ~~i~~~~~~~~~~~~il~~~l~~~~~--~~~~-~-~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~~~~~~  252 (287)
                      .++.+.++..+++..|+.+-+.-+..  +... . +.-..+++.++++++..+-      .+.|.+++.+-+. +.....
T Consensus       274 ~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsd------GDaR~aLN~Lems-~~m~~t  346 (554)
T KOG2028|consen  274 RVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSD------GDARAALNALEMS-LSMFCT  346 (554)
T ss_pred             ceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcC------chHHHHHHHHHHH-HHHHHh
Confidence            99999999999999999775542221  1111 1 1113589999999988754      5777777743332 322322


Q ss_pred             hccCCCCCEEEEEEcCCccEE
Q 047225          253 TGYIQVGDSVTMDCDSGGNVI  273 (287)
Q Consensus       253 ~~~~~~~~~~~i~~~~~~~~~  273 (287)
                      ..  .......+.++|.+..+
T Consensus       347 r~--g~~~~~~lSidDvke~l  365 (554)
T KOG2028|consen  347 RS--GQSSRVLLSIDDVKEGL  365 (554)
T ss_pred             hc--CCcccceecHHHHHHHH
Confidence            22  11245566666655543

>PHA02244 ATPase-like protein

Probab=99.66  E-value=8.2e-15  Score=127.53  Aligned_cols=145  Identities=16%  Similarity=0.187  Sum_probs=101.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||++|++++..+   +.+++.++..  .+.   ..+.|.... .+....+.+..++..+  ++++|||+
T Consensus       121 PVLL~GppGtGKTtLA~aLA~~l---g~pfv~In~l--~d~---~~L~G~i~~-~g~~~dgpLl~A~~~G--gvLiLDEI  189 (383)
T PHA02244        121 PVFLKGGAGSGKNHIAEQIAEAL---DLDFYFMNAI--MDE---FELKGFIDA-NGKFHETPFYEAFKKG--GLFFIDEI  189 (383)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh---CCCEEEEecC--hHH---Hhhcccccc-cccccchHHHHHhhcC--CEEEEeCc
Confidence            59999999999999999999997   6678777632  111   122221111 1222234666666555  49999999


Q ss_pred             ccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCce
Q 047225           99 EKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEV  178 (287)
Q Consensus        99 d~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~  178 (287)
                      +.++++++..|..+++++.+....+.....+++.+|+|+|+...+....    |         .-.+.+++++++|| ..
T Consensus       190 d~a~p~vq~~L~~lLd~r~l~l~g~~i~~h~~FRlIATsN~~~~G~~~~----y---------~G~k~L~~AllDRF-v~  255 (383)
T PHA02244        190 DASIPEALIIINSAIANKFFDFADERVTAHEDFRVISAGNTLGKGADHI----Y---------VARNKIDGATLDRF-AP  255 (383)
T ss_pred             CcCCHHHHHHHHHHhccCeEEecCcEEecCCCEEEEEeeCCCccCcccc----c---------CCCcccCHHHHhhc-EE
Confidence            9999999999999999887776555544557999999999954321000    0         00235789999999 78


Q ss_pred             EEeCCCCHHH
Q 047225          179 IVFRQLNKMQ  188 (287)
Q Consensus       179 i~~~~~~~~~  188 (287)
                      +.|..|+..+
T Consensus       256 I~~dyp~~~E  265 (383)
T PHA02244        256 IEFDYDEKIE  265 (383)
T ss_pred             eeCCCCcHHH
Confidence            9999988433

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

Probab=99.66  E-value=3.2e-15  Score=142.42  Aligned_cols=169  Identities=16%  Similarity=0.281  Sum_probs=115.8

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh-CCcEEEEEc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH-RPHSVILFD   96 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~il~iD   96 (287)
                      ++++|+||||||||++|+++++..   ...++.+++....- ..+...+            ......+.. +...++|||
T Consensus        53 ~slLL~GPpGtGKTTLA~aIA~~~---~~~f~~lna~~~~i-~dir~~i------------~~a~~~l~~~~~~~IL~ID  116 (725)
T PRK13341         53 GSLILYGPPGVGKTTLARIIANHT---RAHFSSLNAVLAGV-KDLRAEV------------DRAKERLERHGKRTILFID  116 (725)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh---cCcceeehhhhhhh-HHHHHHH------------HHHHHHhhhcCCceEEEEe
Confidence            379999999999999999999987   45566666542110 0000000            011111111 345699999


Q ss_pred             CcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC
Q 047225           97 EIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID  176 (287)
Q Consensus        97 eid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~  176 (287)
                      |+|.++...++.|++.++++.             +++|.+++..+..                      .+.+++++|+ 
T Consensus       117 EIh~Ln~~qQdaLL~~lE~g~-------------IiLI~aTTenp~~----------------------~l~~aL~SR~-  160 (725)
T PRK13341        117 EVHRFNKAQQDALLPWVENGT-------------ITLIGATTENPYF----------------------EVNKALVSRS-  160 (725)
T ss_pred             ChhhCCHHHHHHHHHHhcCce-------------EEEEEecCCChHh----------------------hhhhHhhccc-
Confidence            999999999999999998642             2455555432210                      2357889998 


Q ss_pred             ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          177 EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       177 ~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                      ..+.|+|++.+++..++...+......+..  ..+.++++++++|+..+   ..++|.+...++.++
T Consensus       161 ~v~~l~pLs~edi~~IL~~~l~~~~~~~g~--~~v~I~deaL~~La~~s---~GD~R~lln~Le~a~  222 (725)
T PRK13341        161 RLFRLKSLSDEDLHQLLKRALQDKERGYGD--RKVDLEPEAEKHLVDVA---NGDARSLLNALELAV  222 (725)
T ss_pred             cceecCCCCHHHHHHHHHHHHHHHHhhcCC--cccCCCHHHHHHHHHhC---CCCHHHHHHHHHHHH
Confidence            789999999999999999888764443322  24789999999999875   356677777777554

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=99.66  E-value=1.7e-16  Score=117.43  Aligned_cols=123  Identities=30%  Similarity=0.411  Sum_probs=74.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCC-----CCCcccchhhHHHHHHhCCcEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPP-----GYVGFENGGQLTEAVRHRPHSVI   93 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~il   93 (287)
                      |++|.|+||+|||++++++|+.+   +..+..+.+....   ...+++|...     +...+. .++++       .+++
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~---~~~f~RIq~tpdl---lPsDi~G~~v~~~~~~~f~~~-~GPif-------~~il   66 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSL---GLSFKRIQFTPDL---LPSDILGFPVYDQETGEFEFR-PGPIF-------TNIL   66 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHT---T--EEEEE--TT-----HHHHHEEEEEETTTTEEEEE-E-TT--------SSEE
T ss_pred             CEeeECCCccHHHHHHHHHHHHc---CCceeEEEecCCC---CcccceeeeeeccCCCeeEee-cChhh-------hcee
Confidence            68999999999999999999998   5667777664322   2344444321     100011 12222       1499


Q ss_pred             EEcCcccccHHHHHHHHHhhcCceeecCCCceeeccc-eEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHH
Q 047225           94 LFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKN-TIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFL  172 (287)
Q Consensus        94 ~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~-~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  172 (287)
                      ++||++++++.+|++|+++|+++.+.. .|....+++ ++||+|.|+.....                   ...++.+++
T Consensus        67 l~DEiNrappktQsAlLeam~Er~Vt~-~g~~~~lp~pf~ViATqNp~e~~G-------------------ty~Lpea~~  126 (131)
T PF07726_consen   67 LADEINRAPPKTQSALLEAMEERQVTI-DGQTYPLPDPFFVIATQNPVEQEG-------------------TYPLPEAQL  126 (131)
T ss_dssp             EEETGGGS-HHHHHHHHHHHHHSEEEE-TTEEEE--SS-EEEEEE-TT--S-------------------------HHHH
T ss_pred             eecccccCCHHHHHHHHHHHHcCeEEe-CCEEEECCCcEEEEEecCccccCc-------------------eecCCHHHh
Confidence            999999999999999999999999887 688888876 78888889853321                   135678899


Q ss_pred             hcc
Q 047225          173 NRI  175 (287)
Q Consensus       173 ~r~  175 (287)
                      +||
T Consensus       127 DRF  129 (131)
T PF07726_consen  127 DRF  129 (131)
T ss_dssp             TTS
T ss_pred             ccc
Confidence            998

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.

>PRK08727 hypothetical protein; Validated

Probab=99.66  E-value=4.3e-15  Score=124.41  Aligned_cols=164  Identities=18%  Similarity=0.206  Sum_probs=111.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      ++++|+||+|||||++++++++.+...+....++++.+....                  .....+.+...  .+|+|||
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~~~~~------------------~~~~~~~l~~~--dlLiIDD  101 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQAAAGR------------------LRDALEALEGR--SLVALDG  101 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHHhhhh------------------HHHHHHHHhcC--CEEEEeC
Confidence            369999999999999999999988665666667766442211                  01233333333  4999999


Q ss_pred             ccccc--HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhcc
Q 047225           98 IEKAH--RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRI  175 (287)
Q Consensus        98 id~~~--~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~  175 (287)
                      ++.+.  +..+..++.+++....          ....+|+|+|..+..+.                    .+.++|.+|+
T Consensus       102 i~~l~~~~~~~~~lf~l~n~~~~----------~~~~vI~ts~~~p~~l~--------------------~~~~dL~SRl  151 (233)
T PRK08727        102 LESIAGQREDEVALFDFHNRARA----------AGITLLYTARQMPDGLA--------------------LVLPDLRSRL  151 (233)
T ss_pred             cccccCChHHHHHHHHHHHHHHH----------cCCeEEEECCCChhhhh--------------------hhhHHHHHHH
Confidence            99874  4566777777765311          12248888887655431                    2358899996


Q ss_pred             --CceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          176 --DEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       176 --~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                        ...+.++||+.+++.++++......         .+.++++++++|+....   .++|.+...++.+.
T Consensus       152 ~~~~~~~l~~~~~e~~~~iL~~~a~~~---------~l~l~~e~~~~La~~~~---rd~r~~l~~L~~l~  209 (233)
T PRK08727        152 AQCIRIGLPVLDDVARAAVLRERAQRR---------GLALDEAAIDWLLTHGE---RELAGLVALLDRLD  209 (233)
T ss_pred             hcCceEEecCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHhCC---CCHHHHHHHHHHHH
Confidence              3679999999999999997654431         46899999999999753   23344444455433

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

Probab=99.66  E-value=3e-15  Score=128.57  Aligned_cols=183  Identities=22%  Similarity=0.259  Sum_probs=125.9

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccccc--chhhhhCCCCCCCcccchhhHHHHHHhCCcE
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKH--TVSKFFGSPPGYVGFENGGQLTEAVRHRPHS   91 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (287)
                      .+|+..++++||||||||.||+++|.+.   +..|+.+..+......  ....+            .+.++++.+.+..+
T Consensus       242 rrPWkgvLm~GPPGTGKTlLAKAvATEc---~tTFFNVSsstltSKwRGeSEKl------------vRlLFemARfyAPS  306 (491)
T KOG0738|consen  242 RRPWKGVLMVGPPGTGKTLLAKAVATEC---GTTFFNVSSSTLTSKWRGESEKL------------VRLLFEMARFYAPS  306 (491)
T ss_pred             ccccceeeeeCCCCCcHHHHHHHHHHhh---cCeEEEechhhhhhhhccchHHH------------HHHHHHHHHHhCCc
Confidence            4556679999999999999999999999   5666666665544321  11111            24678888888889


Q ss_pred             EEEEcCcccc------------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHH
Q 047225           92 VILFDEIEKA------------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGV  159 (287)
Q Consensus        92 il~iDeid~~------------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~  159 (287)
                      +|||||||-+            +..+-+.|+-.|+.-..... +    ...++|.++||.+=+                 
T Consensus       307 tIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e-~----~k~VmVLAATN~PWd-----------------  364 (491)
T KOG0738|consen  307 TIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLE-N----SKVVMVLAATNFPWD-----------------  364 (491)
T ss_pred             eeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhccccccc-c----ceeEEEEeccCCCcc-----------------
Confidence            9999999943            44566777777763211111 1    012466778887643                 


Q ss_pred             HHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHH
Q 047225          160 AEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       160 ~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                             ++.+|++||-..|.+|-|+.+....+++..|...          ..-++--++.|+...  .+++..+++.+|
T Consensus       365 -------iDEAlrRRlEKRIyIPLP~~~~R~~Li~~~l~~~----------~~~~~~~~~~lae~~--eGySGaDI~nvC  425 (491)
T KOG0738|consen  365 -------IDEALRRRLEKRIYIPLPDAEARSALIKILLRSV----------ELDDPVNLEDLAERS--EGYSGADITNVC  425 (491)
T ss_pred             -------hHHHHHHHHhhheeeeCCCHHHHHHHHHHhhccc----------cCCCCccHHHHHHHh--cCCChHHHHHHH
Confidence                   3579999997779999999999999997777532          112233344555542  345668999999


Q ss_pred             HHHHHHHHHHHHH
Q 047225          240 GRLLEDNLAEIIL  252 (287)
Q Consensus       240 ~~~~~~~~~~~~~  252 (287)
                      ..+-+.++.+.+.
T Consensus       426 reAsm~~mRR~i~  438 (491)
T KOG0738|consen  426 REASMMAMRRKIA  438 (491)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999988876644

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

Probab=99.65  E-value=1.7e-15  Score=130.88  Aligned_cols=180  Identities=16%  Similarity=0.280  Sum_probs=124.0

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcE-E
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHS-V   92 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-i   92 (287)
                      +.|..|++|+||||||||..|+.||...   +..+..++.++...           .|..+.+..+.++++.+....+ +
T Consensus       381 ~apfRNilfyGPPGTGKTm~ArelAr~S---GlDYA~mTGGDVAP-----------lG~qaVTkiH~lFDWakkS~rGLl  446 (630)
T KOG0742|consen  381 QAPFRNILFYGPPGTGKTMFARELARHS---GLDYAIMTGGDVAP-----------LGAQAVTKIHKLFDWAKKSRRGLL  446 (630)
T ss_pred             cchhhheeeeCCCCCCchHHHHHHHhhc---CCceehhcCCCccc-----------cchHHHHHHHHHHHHHhhcccceE
Confidence            4566689999999999999999999988   45555555444331           2233444567899988886655 8


Q ss_pred             EEEcCcc---------cccHHHHHHHHHhh-cCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           93 ILFDEIE---------KAHRDVLNVMLQLL-DDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        93 l~iDeid---------~~~~~~~~~L~~~l-~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      |||||.|         .++.+...+|.-++ .+|.-.         .++++++++|.+.                     
T Consensus       447 lFIDEADAFLceRnktymSEaqRsaLNAlLfRTGdqS---------rdivLvlAtNrpg---------------------  496 (630)
T KOG0742|consen  447 LFIDEADAFLCERNKTYMSEAQRSALNALLFRTGDQS---------RDIVLVLATNRPG---------------------  496 (630)
T ss_pred             EEehhhHHHHHHhchhhhcHHHHHHHHHHHHHhcccc---------cceEEEeccCCcc---------------------
Confidence            9999999         34555555565543 333222         2678899999874                     


Q ss_pred             HHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcC-------------cEEEeChhHHHHHHHhc--cC
Q 047225          163 LRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKN-------------MELTVTHTFKKKLIEEG--YN  227 (287)
Q Consensus       163 ~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~-------------~~~~i~~~~~~~l~~~~--~~  227 (287)
                         .|+.+.-+|||..+.||-|..++..+++..+++++...-...+             -.+.+.....+..++..  -.
T Consensus       497 ---dlDsAV~DRide~veFpLPGeEERfkll~lYlnkyi~~~~~~~~~~~~~~lfkk~sQ~i~l~~~~t~~~~~EaAkkT  573 (630)
T KOG0742|consen  497 ---DLDSAVNDRIDEVVEFPLPGEEERFKLLNLYLNKYILKPATSGKPGKWSHLFKKESQRIKLAGFDTGRKCSEAAKKT  573 (630)
T ss_pred             ---chhHHHHhhhhheeecCCCChHHHHHHHHHHHHHHhcCcCCCCCCchhhHHHhhhhheeeeccchHHHHHHHHHHhc
Confidence               3567899999999999999999999999999988764332222             24555554444444321  23


Q ss_pred             CCCCchhHHHHHH
Q 047225          228 PSYGARPLRRAIG  240 (287)
Q Consensus       228 ~~~~~r~l~~~i~  240 (287)
                      .+++.|++.+.+-
T Consensus       574 eGfSGREiakLva  586 (630)
T KOG0742|consen  574 EGFSGREIAKLVA  586 (630)
T ss_pred             cCCcHHHHHHHHH
Confidence            4667788877654

>PRK05642 DNA replication initiation factor; Validated

Probab=99.65  E-value=3.9e-15  Score=124.70  Aligned_cols=167  Identities=16%  Similarity=0.294  Sum_probs=116.7

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILF   95 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~i   95 (287)
                      +.++++|+||+|+|||+|++++++.+...+..+++++..++...                  ...+.+.+...+  +|+|
T Consensus        44 ~~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~------------------~~~~~~~~~~~d--~Lii  103 (234)
T PRK05642         44 TESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDR------------------GPELLDNLEQYE--LVCL  103 (234)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhh------------------hHHHHHhhhhCC--EEEE
Confidence            33579999999999999999999887555667777777654421                  124455555554  9999


Q ss_pred             cCccccc--HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHh
Q 047225           96 DEIEKAH--RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLN  173 (287)
Q Consensus        96 Deid~~~--~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  173 (287)
                      ||++...  +..+..|+.+++....          .+..+|++++..+..+.                    .+.++|.+
T Consensus       104 DDi~~~~~~~~~~~~Lf~l~n~~~~----------~g~~ilits~~~p~~l~--------------------~~~~~L~S  153 (234)
T PRK05642        104 DDLDVIAGKADWEEALFHLFNRLRD----------SGRRLLLAASKSPRELP--------------------IKLPDLKS  153 (234)
T ss_pred             echhhhcCChHHHHHHHHHHHHHHh----------cCCEEEEeCCCCHHHcC--------------------ccCccHHH
Confidence            9999663  4667778888864211          12357777776554331                    23588999


Q ss_pred             ccC--ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          174 RID--EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       174 r~~--~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      |+.  ..+.+.+|+.++...+++.....       .  .+.++++++++|+....   .++|.+...++++..
T Consensus       154 Rl~~gl~~~l~~~~~e~~~~il~~ka~~-------~--~~~l~~ev~~~L~~~~~---~d~r~l~~~l~~l~~  214 (234)
T PRK05642        154 RLTLALVFQMRGLSDEDKLRALQLRASR-------R--GLHLTDEVGHFILTRGT---RSMSALFDLLERLDQ  214 (234)
T ss_pred             HHhcCeeeecCCCCHHHHHHHHHHHHHH-------c--CCCCCHHHHHHHHHhcC---CCHHHHHHHHHHHHH
Confidence            994  55788999999999999654322       1  36899999999998743   345777777776543

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.65  E-value=5.9e-15  Score=133.74  Aligned_cols=159  Identities=18%  Similarity=0.283  Sum_probs=112.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHH----HhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAV----RHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~il~   94 (287)
                      +++|+||||||||++|+.+++..   ...++.+++..... ..+                ..+.+.+    ..+...++|
T Consensus        38 ~ilL~GppGtGKTtLA~~ia~~~---~~~~~~l~a~~~~~-~~i----------------r~ii~~~~~~~~~g~~~vL~   97 (413)
T PRK13342         38 SMILWGPPGTGKTTLARIIAGAT---DAPFEALSAVTSGV-KDL----------------REVIEEARQRRSAGRRTILF   97 (413)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh---CCCEEEEecccccH-HHH----------------HHHHHHHHHhhhcCCceEEE
Confidence            79999999999999999999987   45666666543211 011                1222221    223557999


Q ss_pred             EcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhc
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNR  174 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r  174 (287)
                      |||++++....++.|++.++++.             +++|.+++..+.                      ..+.+++.+|
T Consensus        98 IDEi~~l~~~~q~~LL~~le~~~-------------iilI~att~n~~----------------------~~l~~aL~SR  142 (413)
T PRK13342         98 IDEIHRFNKAQQDALLPHVEDGT-------------ITLIGATTENPS----------------------FEVNPALLSR  142 (413)
T ss_pred             EechhhhCHHHHHHHHHHhhcCc-------------EEEEEeCCCChh----------------------hhccHHHhcc
Confidence            99999999999999999998642             235554433211                      1346899999


Q ss_pred             cCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          175 IDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       175 ~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                      | ..+.|+|++.+++..++...+....     .+. +.+++++++.++..+   +.++|.+.+.++.+
T Consensus       143 ~-~~~~~~~ls~e~i~~lL~~~l~~~~-----~~~-i~i~~~al~~l~~~s---~Gd~R~aln~Le~~  200 (413)
T PRK13342        143 A-QVFELKPLSEEDIEQLLKRALEDKE-----RGL-VELDDEALDALARLA---NGDARRALNLLELA  200 (413)
T ss_pred             c-eeeEeCCCCHHHHHHHHHHHHHHhh-----cCC-CCCCHHHHHHHHHhC---CCCHHHHHHHHHHH
Confidence            9 8999999999999999988775431     121 378999999998864   34566666666655

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

Probab=99.65  E-value=4.2e-15  Score=134.08  Aligned_cols=181  Identities=23%  Similarity=0.318  Sum_probs=125.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCccc--chhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE--NGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~il~iD   96 (287)
                      .++|+||||||||++|+++|.++   +.+++.++..+...-            +.|-.  ..+.+++.......+|+|||
T Consensus       225 GvLlHGPPGCGKT~lA~AiAgel---~vPf~~isApeivSG------------vSGESEkkiRelF~~A~~~aPcivFiD  289 (802)
T KOG0733|consen  225 GVLLHGPPGCGKTSLANAIAGEL---GVPFLSISAPEIVSG------------VSGESEKKIRELFDQAKSNAPCIVFID  289 (802)
T ss_pred             ceeeeCCCCccHHHHHHHHhhhc---CCceEeecchhhhcc------------cCcccHHHHHHHHHHHhccCCeEEEee
Confidence            49999999999999999999999   788988887654421            11111  12456666666666999999


Q ss_pred             Ccccc-----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHh
Q 047225           97 EIEKA-----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRR  165 (287)
Q Consensus        97 eid~~-----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (287)
                      |||-.           ...+...|++.|++-.....+|.     .++||.+||.+..                       
T Consensus       290 eIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g~-----~VlVIgATnRPDs-----------------------  341 (802)
T KOG0733|consen  290 EIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKGD-----PVLVIGATNRPDS-----------------------  341 (802)
T ss_pred             cccccccchhhHHHHHHHHHHHHHHHhhhcccccccCCC-----CeEEEecCCCCcc-----------------------
Confidence            99954           44577888888886443332333     3589999998753                       


Q ss_pred             cCChhHH--hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          166 RFRPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       166 ~~~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                       +.|+|.  .||+..|.+.-|+.....+|++..++.+.       ....++   ...|+..  .+++-.-+|...+..+-
T Consensus       342 -lDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lr-------l~g~~d---~~qlA~l--TPGfVGADL~AL~~~Aa  408 (802)
T KOG0733|consen  342 -LDPALRRAGRFDREICLGVPSETAREEILRIICRGLR-------LSGDFD---FKQLAKL--TPGFVGADLMALCREAA  408 (802)
T ss_pred             -cCHHHhccccccceeeecCCchHHHHHHHHHHHhhCC-------CCCCcC---HHHHHhc--CCCccchhHHHHHHHHH
Confidence             356665  78999999999999999999987775431       111222   3455554  34444468888888888


Q ss_pred             HHHHHHHHHhccC
Q 047225          244 EDNLAEIILTGYI  256 (287)
Q Consensus       244 ~~~~~~~~~~~~~  256 (287)
                      .-++.+ +++...
T Consensus       409 ~vAikR-~ld~~~  420 (802)
T KOG0733|consen  409 FVAIKR-ILDQSS  420 (802)
T ss_pred             HHHHHH-Hhhccc
Confidence            777755 455433

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.65  E-value=5.2e-15  Score=137.07  Aligned_cols=187  Identities=16%  Similarity=0.200  Sum_probs=115.8

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC----CceEEe-cccccccccchhhhhC-CCCCCCcccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK----EAMVRI-DMSEYMEKHTVSKFFG-SPPGYVGFEN   77 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~----~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~   77 (287)
                      +.++..+.+. +..+.++|+||+|+|||++|+++|+.+.-..    .++-.+ +|...... ...+++. ......+...
T Consensus        25 ~~L~~aI~~g-rl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g-~hpDviEIDAAs~~~Vdd  102 (702)
T PRK14960         25 RALSSALERG-RLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEG-RFIDLIEIDAASRTKVED  102 (702)
T ss_pred             HHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcC-CCCceEEecccccCCHHH
Confidence            3344444443 3334689999999999999999999983211    111000 01111100 0001100 0011122222


Q ss_pred             hhhHHHHHH----hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCch
Q 047225           78 GGQLTEAVR----HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSD  153 (287)
Q Consensus        78 ~~~~~~~~~----~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~  153 (287)
                      .+.+.+.+.    .+++.|++|||+|+++...+++|++.+++..           ..+.||++++...            
T Consensus       103 IReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP-----------~~v~FILaTtd~~------------  159 (702)
T PRK14960        103 TRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPP-----------EHVKFLFATTDPQ------------  159 (702)
T ss_pred             HHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCC-----------CCcEEEEEECChH------------
Confidence            223333221    2456799999999999999999999999731           2446777776432            


Q ss_pred             HHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCch
Q 047225          154 QMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR  233 (287)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r  233 (287)
                                  .+.+.+++|| ..+.|.+++.+++.+.+...+.+.         .+.++++++..|+..+-   .++|
T Consensus       160 ------------kIp~TIlSRC-q~feFkpLs~eEI~k~L~~Il~kE---------gI~id~eAL~~IA~~S~---GdLR  214 (702)
T PRK14960        160 ------------KLPITVISRC-LQFTLRPLAVDEITKHLGAILEKE---------QIAADQDAIWQIAESAQ---GSLR  214 (702)
T ss_pred             ------------hhhHHHHHhh-heeeccCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CCHH
Confidence                        2346888999 999999999999999998877642         46899999999998753   3344


Q ss_pred             hHHHHHH
Q 047225          234 PLRRAIG  240 (287)
Q Consensus       234 ~l~~~i~  240 (287)
                      .+.+.++
T Consensus       215 dALnLLD  221 (702)
T PRK14960        215 DALSLTD  221 (702)
T ss_pred             HHHHHHH
Confidence            4444444

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.64  E-value=3.7e-15  Score=137.73  Aligned_cols=187  Identities=17%  Similarity=0.210  Sum_probs=117.3

Q ss_pred             hhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC---c-eEEecccccccc-----cchhhhhC-CCCCCCc
Q 047225            5 RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE---A-MVRIDMSEYMEK-----HTVSKFFG-SPPGYVG   74 (287)
Q Consensus         5 ~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~---~-~~~~~~~~~~~~-----~~~~~~~~-~~~~~~~   74 (287)
                      .++..+....-+ +.++|+||+|+|||++++.+++.+.-.+.   . +..-.|......     ....+++. ......+
T Consensus        27 ~L~~al~~gRLp-HA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG~hpDviEIdAas~~g  105 (700)
T PRK12323         27 ALTHALEQQRLH-HAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAGRFVDYIEMDAASNRG  105 (700)
T ss_pred             HHHHHHHhCCCc-eEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcCCCCcceEecccccCC
Confidence            344444443322 34799999999999999999999843110   0 000011111000     00001111 0111223


Q ss_pred             ccchhhHHHHHH----hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccC
Q 047225           75 FENGGQLTEAVR----HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESIL  150 (287)
Q Consensus        75 ~~~~~~~~~~~~----~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~  150 (287)
                      .++.+.+.+.+.    .+++.|+||||+|.++...++.|++.||+.           ..+++||++||...         
T Consensus       106 VDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEP-----------P~~v~FILaTtep~---------  165 (700)
T PRK12323        106 VDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEP-----------PEHVKFILATTDPQ---------  165 (700)
T ss_pred             HHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccC-----------CCCceEEEEeCChH---------
Confidence            333334444333    245689999999999999999999999973           13557888877543         


Q ss_pred             CchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCC
Q 047225          151 GSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSY  230 (287)
Q Consensus       151 ~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~  230 (287)
                                     .+.+.++||| ..+.|.+++.+++.+.+...+...         .+.+++++++.|+..+.   .
T Consensus       166 ---------------kLlpTIrSRC-q~f~f~~ls~eei~~~L~~Il~~E---------gi~~d~eAL~~IA~~A~---G  217 (700)
T PRK12323        166 ---------------KIPVTVLSRC-LQFNLKQMPPGHIVSHLDAILGEE---------GIAHEVNALRLLAQAAQ---G  217 (700)
T ss_pred             ---------------hhhhHHHHHH-HhcccCCCChHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---C
Confidence                           3457899999 999999999999999998777542         35688888988887643   3


Q ss_pred             CchhHHHHHH
Q 047225          231 GARPLRRAIG  240 (287)
Q Consensus       231 ~~r~l~~~i~  240 (287)
                      ++|+..++++
T Consensus       218 s~RdALsLLd  227 (700)
T PRK12323        218 SMRDALSLTD  227 (700)
T ss_pred             CHHHHHHHHH
Confidence            4455444444

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.64  E-value=4.4e-15  Score=136.87  Aligned_cols=189  Identities=17%  Similarity=0.208  Sum_probs=119.3

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc-----cchhhhhC-CCCCCCcccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK-----HTVSKFFG-SPPGYVGFEN   77 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~-----~~~~~~~~-~~~~~~~~~~   77 (287)
                      +.+++.+....-+ +.++|+||+|||||++|+.+|+.+.-.... ..-.|......     ....+++. ...+..+.+.
T Consensus        26 ~~L~~~~~~~~l~-ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~-~~~pCg~C~~C~~i~~g~~~d~~eidaas~~~v~~  103 (509)
T PRK14958         26 RALSNALDQQYLH-HAYLFTGTRGVGKTTISRILAKCLNCEKGV-SANPCNDCENCREIDEGRFPDLFEVDAASRTKVED  103 (509)
T ss_pred             HHHHHHHHhCCCC-eeEEEECCCCCCHHHHHHHHHHHhcCCCCC-CcccCCCCHHHHHHhcCCCceEEEEcccccCCHHH
Confidence            4455555443333 248999999999999999999998432110 00111110000     00000000 1111223333


Q ss_pred             hhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCch
Q 047225           78 GGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSD  153 (287)
Q Consensus        78 ~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~  153 (287)
                      .+.+.+.+..    +++.|++|||+|.++...+++|++.+++.           .+.+.||++|+...            
T Consensus       104 iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEep-----------p~~~~fIlattd~~------------  160 (509)
T PRK14958        104 TRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEP-----------PSHVKFILATTDHH------------  160 (509)
T ss_pred             HHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhcc-----------CCCeEEEEEECChH------------
Confidence            3333333322    45689999999999999999999999973           23556777775432            


Q ss_pred             HHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCch
Q 047225          154 QMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR  233 (287)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r  233 (287)
                                  .+.+.+.+|+ ..+.|.+++.+++.+.+...+.+.         ++.+++++++.++..+.   .++|
T Consensus       161 ------------kl~~tI~SRc-~~~~f~~l~~~~i~~~l~~il~~e---------gi~~~~~al~~ia~~s~---GslR  215 (509)
T PRK14958        161 ------------KLPVTVLSRC-LQFHLAQLPPLQIAAHCQHLLKEE---------NVEFENAALDLLARAAN---GSVR  215 (509)
T ss_pred             ------------hchHHHHHHh-hhhhcCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CcHH
Confidence                        2356799999 999999999999999987777642         45789999999988753   3456


Q ss_pred             hHHHHHHHH
Q 047225          234 PLRRAIGRL  242 (287)
Q Consensus       234 ~l~~~i~~~  242 (287)
                      .+.+.++++
T Consensus       216 ~al~lLdq~  224 (509)
T PRK14958        216 DALSLLDQS  224 (509)
T ss_pred             HHHHHHHHH
Confidence            655555544

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

Probab=99.64  E-value=9e-15  Score=123.64  Aligned_cols=152  Identities=25%  Similarity=0.398  Sum_probs=112.1

Q ss_pred             EEEEEcCcccccH------------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHH
Q 047225           91 SVILFDEIEKAHR------------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERG  158 (287)
Q Consensus        91 ~il~iDeid~~~~------------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~  158 (287)
                      +|+||||||+...            ++|.-|+++++.-.+....| .++-.+..||+++...-..            +  
T Consensus       252 GIvFIDEIDKIa~~~~~g~~dvSREGVQRDlLPlvEGstV~TKyG-~VkTdHILFIasGAFh~sK------------P--  316 (444)
T COG1220         252 GIVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLVEGSTVSTKYG-PVKTDHILFIASGAFHVAK------------P--  316 (444)
T ss_pred             CeEEEehhhHHHhcCCCCCCCcchhhhcccccccccCceeecccc-ccccceEEEEecCceecCC------------h--
Confidence            8999999997522            47788888888544443323 2334466777765431100            0  


Q ss_pred             HHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHH----HHHHHHHHHHHhcCcEEEeChhHHHHHHHhccC-----CC
Q 047225          159 VAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVD----IMLKEIYERLEAKNMELTVTHTFKKKLIEEGYN-----PS  229 (287)
Q Consensus       159 ~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~----~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~-----~~  229 (287)
                            +-+-|+|..||+..+.+.+++.+++..|+.    ..+.++...+...+..+.+++++++.|+..+|.     .+
T Consensus       317 ------SDLiPELQGRfPIRVEL~~Lt~~Df~rILtep~~sLikQY~aLlkTE~v~l~FtddaI~~iAeiA~~vN~~~EN  390 (444)
T COG1220         317 ------SDLIPELQGRFPIRVELDALTKEDFERILTEPKASLIKQYKALLKTEGVELEFTDDAIKRIAEIAYQVNEKTEN  390 (444)
T ss_pred             ------hhcChhhcCCCceEEEcccCCHHHHHHHHcCcchHHHHHHHHHHhhcCeeEEecHHHHHHHHHHHHHhcccccc
Confidence                  123489999999999999999999999994    556777777788889999999999999988766     36


Q ss_pred             CCchhHHHHHHHHHHHHHHHHHHhccCCCCCEEEEEEc
Q 047225          230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCD  267 (287)
Q Consensus       230 ~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~i~~~  267 (287)
                      .|+|.|-..+++++.    +.-+...-..++++.|+.+
T Consensus       391 IGARRLhTvlErlLe----diSFeA~d~~g~~v~Id~~  424 (444)
T COG1220         391 IGARRLHTVLERLLE----DISFEAPDMSGQKVTIDAE  424 (444)
T ss_pred             hhHHHHHHHHHHHHH----HhCccCCcCCCCeEEEcHH
Confidence            788877777776666    6767777778888888754

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.63  E-value=5.5e-15  Score=134.91  Aligned_cols=174  Identities=16%  Similarity=0.286  Sum_probs=107.9

Q ss_pred             hhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC----ceEEec-cccccccc--chhhhhCCCCCCCcccc
Q 047225            5 RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE----AMVRID-MSEYMEKH--TVSKFFGSPPGYVGFEN   77 (287)
Q Consensus         5 ~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~----~~~~~~-~~~~~~~~--~~~~~~~~~~~~~~~~~   77 (287)
                      .++..+.+..-| +.++|+||||||||++|+.+++.+.....    ++..++ |.......  .+..+  ......|...
T Consensus        25 ~L~~~i~~~~l~-~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~el--~aa~~~gid~  101 (472)
T PRK14962         25 LIINALKKNSIS-HAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIEL--DAASNRGIDE  101 (472)
T ss_pred             HHHHHHHcCCCC-eEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEEE--eCcccCCHHH
Confidence            344444444322 35899999999999999999999843211    111110 00000000  00000  0001112222


Q ss_pred             hhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCch
Q 047225           78 GGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSD  153 (287)
Q Consensus        78 ~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~  153 (287)
                      .+.+.+.+..    +.+.+++|||+|.+....++.|++.+++..           +.+++|++++...            
T Consensus       102 iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~-----------~~vv~Ilattn~~------------  158 (472)
T PRK14962        102 IRKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPP-----------SHVVFVLATTNLE------------  158 (472)
T ss_pred             HHHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCC-----------CcEEEEEEeCChH------------
Confidence            2233333322    345799999999999999999999998621           2445666665321            


Q ss_pred             HHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhcc
Q 047225          154 QMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGY  226 (287)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~  226 (287)
                                  .+.+++.+|+ ..+.|.|++.+++..+++..+...         .+.++++++++|+..+.
T Consensus       159 ------------kl~~~L~SR~-~vv~f~~l~~~el~~~L~~i~~~e---------gi~i~~eal~~Ia~~s~  209 (472)
T PRK14962        159 ------------KVPPTIISRC-QVIEFRNISDELIIKRLQEVAEAE---------GIEIDREALSFIAKRAS  209 (472)
T ss_pred             ------------hhhHHHhcCc-EEEEECCccHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHhC
Confidence                        2357899999 899999999999999887666432         46799999999998653

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.63  E-value=3e-15  Score=135.51  Aligned_cols=188  Identities=16%  Similarity=0.237  Sum_probs=124.6

Q ss_pred             hhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCC--CCceEEecccccccccchhhhhCCCCCCCcccchhhHH
Q 047225            5 RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGS--KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLT   82 (287)
Q Consensus         5 ~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (287)
                      .++..+..|+...++++|+||+|+|||+|++++++.+...  +..++++++.++....  ...+..       .....+.
T Consensus       124 ~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~--~~~~~~-------~~~~~~~  194 (405)
T TIGR00362       124 AALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDF--VNALRN-------NKMEEFK  194 (405)
T ss_pred             HHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHH--HHHHHc-------CCHHHHH
Confidence            3444444555555579999999999999999999988433  4677788876654321  111110       0113444


Q ss_pred             HHHHhCCcEEEEEcCcccccH--HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHH
Q 047225           83 EAVRHRPHSVILFDEIEKAHR--DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVA  160 (287)
Q Consensus        83 ~~~~~~~~~il~iDeid~~~~--~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~  160 (287)
                      +.+...  .+|+|||++.+..  ..+..|+.+++....          .+..+|+++|..+..+.               
T Consensus       195 ~~~~~~--dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~----------~~~~iiits~~~p~~l~---------------  247 (405)
T TIGR00362       195 EKYRSV--DLLLIDDIQFLAGKERTQEEFFHTFNALHE----------NGKQIVLTSDRPPKELP---------------  247 (405)
T ss_pred             HHHHhC--CEEEEehhhhhcCCHHHHHHHHHHHHHHHH----------CCCCEEEecCCCHHHHh---------------
Confidence            555543  4999999997643  456667666653210          12246777776544331               


Q ss_pred             HHHHhcCChhHHhccC--ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHH
Q 047225          161 EELRRRFRPEFLNRID--EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRA  238 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~--~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~  238 (287)
                           .+.+.+.+||.  ..+.++||+.+++..|++..+...         .+.++++++++|+...   ..++|.+..+
T Consensus       248 -----~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~~~~---------~~~l~~e~l~~ia~~~---~~~~r~l~~~  310 (405)
T TIGR00362       248 -----GLEERLRSRFEWGLVVDIEPPDLETRLAILQKKAEEE---------GLELPDEVLEFIAKNI---RSNVRELEGA  310 (405)
T ss_pred             -----hhhhhhhhhccCCeEEEeCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHhc---CCCHHHHHHH
Confidence                 23578889995  369999999999999997776541         4689999999999763   2356888888


Q ss_pred             HHHHHHH
Q 047225          239 IGRLLED  245 (287)
Q Consensus       239 i~~~~~~  245 (287)
                      ++++...
T Consensus       311 l~~l~~~  317 (405)
T TIGR00362       311 LNRLLAY  317 (405)
T ss_pred             HHHHHHH
Confidence            8877543

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).

>CHL00176 ftsH cell division protein; Validated

Probab=99.63  E-value=7.2e-15  Score=138.33  Aligned_cols=171  Identities=22%  Similarity=0.316  Sum_probs=111.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||++|+++|...   +.+++.++++++...     ..|.     +......++..+.....+||||||+
T Consensus       218 gVLL~GPpGTGKT~LAralA~e~---~~p~i~is~s~f~~~-----~~g~-----~~~~vr~lF~~A~~~~P~ILfIDEI  284 (638)
T CHL00176        218 GVLLVGPPGTGKTLLAKAIAGEA---EVPFFSISGSEFVEM-----FVGV-----GAARVRDLFKKAKENSPCIVFIDEI  284 (638)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh---CCCeeeccHHHHHHH-----hhhh-----hHHHHHHHHHHHhcCCCcEEEEecc
Confidence            59999999999999999999988   678888888775432     1110     1111234555555566689999999


Q ss_pred             cccc-----------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKAH-----------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~~-----------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |.+.           ......|.+++..-.-..      .-.++++|++||...                        .+
T Consensus       285 D~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~------~~~~ViVIaaTN~~~------------------------~L  334 (638)
T CHL00176        285 DAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFK------GNKGVIVIAATNRVD------------------------IL  334 (638)
T ss_pred             hhhhhcccCCCCCCcHHHHHHHHHHHhhhcccc------CCCCeeEEEecCchH------------------------hh
Confidence            9763           233444555543211000      012567888888742                        23


Q ss_pred             ChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          168 RPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       168 ~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      ++++++  ||+..+.+++|+.++..+|++.++...          ...++..+..++..  .++++.++++.+++++..
T Consensus       335 D~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~----------~~~~d~~l~~lA~~--t~G~sgaDL~~lvneAal  401 (638)
T CHL00176        335 DAALLRPGRFDRQITVSLPDREGRLDILKVHARNK----------KLSPDVSLELIARR--TPGFSGADLANLLNEAAI  401 (638)
T ss_pred             hhhhhccccCceEEEECCCCHHHHHHHHHHHHhhc----------ccchhHHHHHHHhc--CCCCCHHHHHHHHHHHHH
Confidence            466664  899999999999999999998877541          11233445555553  234566788877776544

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.63  E-value=9.4e-15  Score=136.75  Aligned_cols=187  Identities=16%  Similarity=0.201  Sum_probs=116.5

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc-----cchhhhhC-CCCCCCcccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK-----HTVSKFFG-SPPGYVGFEN   77 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~-----~~~~~~~~-~~~~~~~~~~   77 (287)
                      +.++..+....-+ +.++|+||+|+|||++|+.+++.+.-... .....|......     ....+++. ......+.+.
T Consensus        26 ~~L~~~l~~~rl~-hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~-~~~~pCg~C~~C~~i~~g~~~D~ieidaas~~~Vdd  103 (647)
T PRK07994         26 TALANALDLGRLH-HAYLFSGTRGVGKTTIARLLAKGLNCETG-ITATPCGECDNCREIEQGRFVDLIEIDAASRTKVED  103 (647)
T ss_pred             HHHHHHHHcCCCC-eEEEEECCCCCCHHHHHHHHHHhhhhccC-CCCCCCCCCHHHHHHHcCCCCCceeecccccCCHHH
Confidence            3445555543322 23799999999999999999999843211 000111111000     00000000 0011122222


Q ss_pred             hhhHHHHHH----hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCch
Q 047225           78 GGQLTEAVR----HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSD  153 (287)
Q Consensus        78 ~~~~~~~~~----~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~  153 (287)
                      .+.+.+.+.    .+++.|++|||+|+++...+++|++.+|+.           .+++.||++|+...            
T Consensus       104 iR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEP-----------p~~v~FIL~Tt~~~------------  160 (647)
T PRK07994        104 TRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEP-----------PEHVKFLLATTDPQ------------  160 (647)
T ss_pred             HHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcC-----------CCCeEEEEecCCcc------------
Confidence            333433332    245689999999999999999999999973           13456777766432            


Q ss_pred             HHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCch
Q 047225          154 QMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR  233 (287)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r  233 (287)
                                  .+.+.+++|| ..+.|.+++.+++.+.+...+...         .+.++++++..|+..+.   +++|
T Consensus       161 ------------kLl~TI~SRC-~~~~f~~Ls~~ei~~~L~~il~~e---------~i~~e~~aL~~Ia~~s~---Gs~R  215 (647)
T PRK07994        161 ------------KLPVTILSRC-LQFHLKALDVEQIRQQLEHILQAE---------QIPFEPRALQLLARAAD---GSMR  215 (647)
T ss_pred             ------------ccchHHHhhh-eEeeCCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CCHH
Confidence                        3457899999 999999999999999998777542         35788999999987653   2344


Q ss_pred             hHHHHHH
Q 047225          234 PLRRAIG  240 (287)
Q Consensus       234 ~l~~~i~  240 (287)
                      .....++
T Consensus       216 ~Al~lld  222 (647)
T PRK07994        216 DALSLTD  222 (647)
T ss_pred             HHHHHHH
Confidence            4444443

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.63  E-value=1.4e-14  Score=130.26  Aligned_cols=205  Identities=16%  Similarity=0.208  Sum_probs=127.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHH----HHHHhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLT----EAVRHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~il~   94 (287)
                      +++|.||||||||++|++++....... ++....+.-..    ..+++|...-+.... .+.+.    +.+...  .++|
T Consensus        41 hVLL~GpPGTGKT~LAraLa~~~~~~~-~F~~~~~~ftt----p~DLfG~l~i~~~~~-~g~f~r~~~G~L~~A--~lLf  112 (498)
T PRK13531         41 SVFLLGPPGIAKSLIARRLKFAFQNAR-AFEYLMTRFST----PEEVFGPLSIQALKD-EGRYQRLTSGYLPEA--EIVF  112 (498)
T ss_pred             CEEEECCCChhHHHHHHHHHHHhcccC-cceeeeeeecC----cHHhcCcHHHhhhhh-cCchhhhcCCccccc--cEEe
Confidence            799999999999999999999874332 34433332111    134554320000000 00111    111111  3999


Q ss_pred             EcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhc
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNR  174 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r  174 (287)
                      +||++++++..++.|+++|+++.++. .|...+.+..++++++|+-+.                     .+.+.+++++|
T Consensus       113 LDEI~rasp~~QsaLLeam~Er~~t~-g~~~~~lp~rfiv~ATN~LPE---------------------~g~~leAL~DR  170 (498)
T PRK13531        113 LDEIWKAGPAILNTLLTAINERRFRN-GAHEEKIPMRLLVTASNELPE---------------------ADSSLEALYDR  170 (498)
T ss_pred             ecccccCCHHHHHHHHHHHHhCeEec-CCeEEeCCCcEEEEECCCCcc---------------------cCCchHHhHhh
Confidence            99999999999999999999999886 577788887777777786432                     12456799999


Q ss_pred             cCceEEeCCCC-HHHHHHHHHHHHH--------------HHHHHHHhcCcEEEeChhHHHHHHHhcc----C---CCCCc
Q 047225          175 IDEVIVFRQLN-KMQLMEIVDIMLK--------------EIYERLEAKNMELTVTHTFKKKLIEEGY----N---PSYGA  232 (287)
Q Consensus       175 ~~~~i~~~~~~-~~~~~~il~~~l~--------------~~~~~~~~~~~~~~i~~~~~~~l~~~~~----~---~~~~~  232 (287)
                      |...+.+||++ .++..+++...-.              +....+...-..+.+++.+.+++.....    .   ...+.
T Consensus       171 Fliri~vp~l~~~~~e~~lL~~~~~~~~~~~~~~~vis~eel~~lq~~v~~V~v~d~v~eyI~~L~~~lr~~r~~~~~Sp  250 (498)
T PRK13531        171 MLIRLWLDKVQDKANFRSMLTSQQDENDNPVPASLQITDEEYQQWQKEIGKITLPDHVFELIFQLRQQLDALPNAPYVSD  250 (498)
T ss_pred             EEEEEECCCCCchHHHHHHHHcccccccCCCcccCCCCHHHHHHHHHHhcceeCCHHHHHHHHHHHHHHhcCCCCCCcCc
Confidence            96679999997 5666777753210              0011122211257899999999986532    1   12343


Q ss_pred             hhHHHHHHHHHHHHHHHHHHhccCC
Q 047225          233 RPLRRAIGRLLEDNLAEIILTGYIQ  257 (287)
Q Consensus       233 r~l~~~i~~~~~~~~~~~~~~~~~~  257 (287)
                      |.   ++. ++.-+-+.+++.++..
T Consensus       251 R~---~~~-l~~~akA~A~l~GR~~  271 (498)
T PRK13531        251 RR---WKK-AIRLLQASAFFSGRDA  271 (498)
T ss_pred             HH---HHH-HHHHHHHHHHHCCCCC
Confidence            33   333 5555556667766543

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.63  E-value=1.2e-14  Score=132.23  Aligned_cols=190  Identities=14%  Similarity=0.131  Sum_probs=119.1

Q ss_pred             hhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcC----CCCceEEe-cccccccccchhhhhCCCCCCCcccchh
Q 047225            5 RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFG----SKEAMVRI-DMSEYMEKHTVSKFFGSPPGYVGFENGG   79 (287)
Q Consensus         5 ~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~----~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (287)
                      .++..+.. ++..++++|+||+|+||||+|+.+|+.+.-    ...++-.+ +|..........-+.-...+..+.+..+
T Consensus        24 ~L~~a~~~-~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eidaas~~~vddIR  102 (491)
T PRK14964         24 ILRNAFTL-NKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDAASNTSVDDIK  102 (491)
T ss_pred             HHHHHHHc-CCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEecccCCCHHHHH
Confidence            34443333 233346999999999999999999997621    11111110 0111110000000000111122333333


Q ss_pred             hHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHH
Q 047225           80 QLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQM  155 (287)
Q Consensus        80 ~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~  155 (287)
                      .+.+.+..    +.+.+++|||++.++...+++|++.+++.           .+.+.||++++...              
T Consensus       103 ~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEeP-----------p~~v~fIlatte~~--------------  157 (491)
T PRK14964        103 VILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEP-----------APHVKFILATTEVK--------------  157 (491)
T ss_pred             HHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCC-----------CCCeEEEEEeCChH--------------
Confidence            34443332    34579999999999999999999999973           23456777775432              


Q ss_pred             HHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhH
Q 047225          156 ERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPL  235 (287)
Q Consensus       156 ~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l  235 (287)
                                .+.+.+.+|+ ..+.|.+++.+++.+++...+.+.         .+.+++++++.|+..+.   .++|.+
T Consensus       158 ----------Kl~~tI~SRc-~~~~f~~l~~~el~~~L~~ia~~E---------gi~i~~eAL~lIa~~s~---GslR~a  214 (491)
T PRK14964        158 ----------KIPVTIISRC-QRFDLQKIPTDKLVEHLVDIAKKE---------NIEHDEESLKLIAENSS---GSMRNA  214 (491)
T ss_pred             ----------HHHHHHHHhh-eeeecccccHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CCHHHH
Confidence                      2346789999 999999999999999997777642         46799999999998753   455666


Q ss_pred             HHHHHHHH
Q 047225          236 RRAIGRLL  243 (287)
Q Consensus       236 ~~~i~~~~  243 (287)
                      .+.+++++
T Consensus       215 lslLdqli  222 (491)
T PRK14964        215 LFLLEQAA  222 (491)
T ss_pred             HHHHHHHH
Confidence            66666544

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

Probab=99.63  E-value=1.2e-14  Score=134.17  Aligned_cols=178  Identities=23%  Similarity=0.333  Sum_probs=120.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCccc--chhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE--NGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~il~iD   96 (287)
                      .++|+||||||||.+||++|.++   +..+..+...+...            .|+|-.  ..+.+++.+++...+|||||
T Consensus       707 GILLYGPPGTGKTLlAKAVATEc---sL~FlSVKGPELLN------------MYVGqSE~NVR~VFerAR~A~PCVIFFD  771 (953)
T KOG0736|consen  707 GILLYGPPGTGKTLLAKAVATEC---SLNFLSVKGPELLN------------MYVGQSEENVREVFERARSAAPCVIFFD  771 (953)
T ss_pred             eeEEECCCCCchHHHHHHHHhhc---eeeEEeecCHHHHH------------HHhcchHHHHHHHHHHhhccCCeEEEec
Confidence            59999999999999999999998   66676666544331            122211  23578888888888999999


Q ss_pred             CcccccH-------------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHH
Q 047225           97 EIEKAHR-------------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEEL  163 (287)
Q Consensus        97 eid~~~~-------------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~  163 (287)
                      |+|-+.|             .+...|+.-++.  +..  +   +..+++||.+||++.                      
T Consensus       772 ELDSlAP~RG~sGDSGGVMDRVVSQLLAELDg--ls~--~---~s~~VFViGATNRPD----------------------  822 (953)
T KOG0736|consen  772 ELDSLAPNRGRSGDSGGVMDRVVSQLLAELDG--LSD--S---SSQDVFVIGATNRPD----------------------  822 (953)
T ss_pred             cccccCccCCCCCCccccHHHHHHHHHHHhhc--ccC--C---CCCceEEEecCCCcc----------------------
Confidence            9996654             244444444432  111  1   223678899999874                      


Q ss_pred             HhcCChhHH--hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhH-HHHHHHhccCCCCCchhHHHHHH
Q 047225          164 RRRFRPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTF-KKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       164 ~~~~~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~-~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                        .++|+|+  .|||..+++.|.+.++-+.-+.+.+.+          ++.+++++ +..+++. .+++++.-++-..|-
T Consensus       823 --LLDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTr----------kFkLdedVdL~eiAk~-cp~~~TGADlYsLCS  889 (953)
T KOG0736|consen  823 --LLDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTR----------KFKLDEDVDLVEIAKK-CPPNMTGADLYSLCS  889 (953)
T ss_pred             --ccChhhcCCCccceeEEecCCccHHHHHHHHHHHHH----------HccCCCCcCHHHHHhh-CCcCCchhHHHHHHH
Confidence              4567777  899999999999866554433222221          23344443 3445554 567777789999999


Q ss_pred             HHHHHHHHHHHHh
Q 047225          241 RLLEDNLAEIILT  253 (287)
Q Consensus       241 ~~~~~~~~~~~~~  253 (287)
                      +++..++.+.+-.
T Consensus       890 dA~l~AikR~i~~  902 (953)
T KOG0736|consen  890 DAMLAAIKRTIHD  902 (953)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999998777543

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

Probab=99.62  E-value=4.6e-15  Score=131.97  Aligned_cols=169  Identities=26%  Similarity=0.369  Sum_probs=114.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||.|||++|.+-   +.++++...+++.+-     +.|     +|....+.++.+.+.+..+||||||+
T Consensus       339 GVLLvGPPGTGKTlLARAvAGEA---~VPFF~~sGSEFdEm-----~VG-----vGArRVRdLF~aAk~~APcIIFIDEi  405 (752)
T KOG0734|consen  339 GVLLVGPPGTGKTLLARAVAGEA---GVPFFYASGSEFDEM-----FVG-----VGARRVRDLFAAAKARAPCIIFIDEI  405 (752)
T ss_pred             ceEEeCCCCCchhHHHHHhhccc---CCCeEeccccchhhh-----hhc-----ccHHHHHHHHHHHHhcCCeEEEEech
Confidence            49999999999999999999887   789998888887642     222     23334467888888888899999999


Q ss_pred             ccc-----cHHH---HHHHHHhhcC--ceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCC
Q 047225           99 EKA-----HRDV---LNVMLQLLDD--GRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFR  168 (287)
Q Consensus        99 d~~-----~~~~---~~~L~~~l~~--~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (287)
                      |-.     +.+.   -..|.+++-+  |...+        ..++||.++|.+..                +        +
T Consensus       406 DavG~kR~~~~~~y~kqTlNQLLvEmDGF~qN--------eGiIvigATNfpe~----------------L--------D  453 (752)
T KOG0734|consen  406 DAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQN--------EGIIVIGATNFPEA----------------L--------D  453 (752)
T ss_pred             hhhcccCCccHHHHHHHHHHHHHHHhcCcCcC--------CceEEEeccCChhh----------------h--------h
Confidence            943     2222   2234444432  21111        25688889997632                2        3


Q ss_pred             hhHH--hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          169 PEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       169 ~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      ++|.  .|||..|.+|-|+-....+|+..++.+.           ..++++=-.+... -.++++.-++.+.++.+..
T Consensus       454 ~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki-----------~~~~~VD~~iiAR-GT~GFsGAdLaNlVNqAAl  519 (752)
T KOG0734|consen  454 KALTRPGRFDRHVTVPLPDVRGRTEILKLYLSKI-----------PLDEDVDPKIIAR-GTPGFSGADLANLVNQAAL  519 (752)
T ss_pred             HHhcCCCccceeEecCCCCcccHHHHHHHHHhcC-----------CcccCCCHhHhcc-CCCCCchHHHHHHHHHHHH
Confidence            4444  8999999999999999999998888653           2222222222222 3556666788877776544

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.62  E-value=2.2e-14  Score=133.52  Aligned_cols=190  Identities=16%  Similarity=0.215  Sum_probs=118.6

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC----CceEEe-cccccccc-cchhhhh-CCCCCCCccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK----EAMVRI-DMSEYMEK-HTVSKFF-GSPPGYVGFE   76 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~----~~~~~~-~~~~~~~~-~~~~~~~-~~~~~~~~~~   76 (287)
                      +.+++.+.+. +..+.++|+||+|||||++|+.+++.+.-..    .++-.+ .|...... ....+.+ -......|.+
T Consensus        23 ~~L~~~i~~~-r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~~~dvieidaas~~gvd  101 (584)
T PRK14952         23 EPLSSALDAG-RINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPGSIDVVELDAASHGGVD  101 (584)
T ss_pred             HHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCCCceEEEeccccccCHH
Confidence            3455555543 3332479999999999999999999884221    111111 11111100 0000000 0111122333


Q ss_pred             chhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCc
Q 047225           77 NGGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGS  152 (287)
Q Consensus        77 ~~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~  152 (287)
                      ..+.+.+.+..    +.+.|++|||++.++...+++|++.+++.           ...++||++++...           
T Consensus       102 ~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEp-----------p~~~~fIL~tte~~-----------  159 (584)
T PRK14952        102 DTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEP-----------PEHLIFIFATTEPE-----------  159 (584)
T ss_pred             HHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcC-----------CCCeEEEEEeCChH-----------
Confidence            33333333322    45679999999999999999999999972           13556777775432           


Q ss_pred             hHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCc
Q 047225          153 DQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGA  232 (287)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~  232 (287)
                                   .+.+.+.+|+ ..+.|.+++.+++.+++...+.+.         .+.++++++..++..+.   .++
T Consensus       160 -------------kll~TI~SRc-~~~~F~~l~~~~i~~~L~~i~~~e---------gi~i~~~al~~Ia~~s~---Gdl  213 (584)
T PRK14952        160 -------------KVLPTIRSRT-HHYPFRLLPPRTMRALIARICEQE---------GVVVDDAVYPLVIRAGG---GSP  213 (584)
T ss_pred             -------------hhHHHHHHhc-eEEEeeCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CCH
Confidence                         2347899998 999999999999999997776542         35789999999987643   345


Q ss_pred             hhHHHHHHHH
Q 047225          233 RPLRRAIGRL  242 (287)
Q Consensus       233 r~l~~~i~~~  242 (287)
                      |.+...++++
T Consensus       214 R~aln~Ldql  223 (584)
T PRK14952        214 RDTLSVLDQL  223 (584)
T ss_pred             HHHHHHHHHH
Confidence            5555555544

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.62  E-value=1.8e-14  Score=132.84  Aligned_cols=190  Identities=15%  Similarity=0.229  Sum_probs=118.5

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC----CceEEe-cccccccccchhhhhC-CCCCCCcccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK----EAMVRI-DMSEYMEKHTVSKFFG-SPPGYVGFEN   77 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~----~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~   77 (287)
                      +.++..+... +..+.++|+||+|+|||++|+.+++.+....    .++..+ .|..... ....+++. ......|.+.
T Consensus        26 ~~L~~~i~~~-rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~-~~~~dlieidaas~~gvd~  103 (546)
T PRK14957         26 NSLVHALETQ-KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINN-NSFIDLIEIDAASRTGVEE  103 (546)
T ss_pred             HHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhc-CCCCceEEeecccccCHHH
Confidence            3444445443 2233489999999999999999999884211    111110 0000000 00001110 1112223333


Q ss_pred             hhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCch
Q 047225           78 GGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSD  153 (287)
Q Consensus        78 ~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~  153 (287)
                      .+.+.+.+..    +++.|++|||+|+++...++.|++.+++..           ..+.||++|+...            
T Consensus       104 ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp-----------~~v~fIL~Ttd~~------------  160 (546)
T PRK14957        104 TKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPP-----------EYVKFILATTDYH------------  160 (546)
T ss_pred             HHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCC-----------CCceEEEEECChh------------
Confidence            3344443332    456799999999999999999999999731           2445676664321            


Q ss_pred             HHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCch
Q 047225          154 QMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR  233 (287)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r  233 (287)
                                  .+.+.+.+|+ ..+.|.+++.+++.+++...+.+.         .+.++++++..++..+.   .++|
T Consensus       161 ------------kil~tI~SRc-~~~~f~~Ls~~eI~~~L~~il~~e---------gi~~e~~Al~~Ia~~s~---GdlR  215 (546)
T PRK14957        161 ------------KIPVTILSRC-IQLHLKHISQADIKDQLKIILAKE---------NINSDEQSLEYIAYHAK---GSLR  215 (546)
T ss_pred             ------------hhhhhHHHhe-eeEEeCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CCHH
Confidence                        2346799999 999999999999999997777552         36789999999998753   3455


Q ss_pred             hHHHHHHHHH
Q 047225          234 PLRRAIGRLL  243 (287)
Q Consensus       234 ~l~~~i~~~~  243 (287)
                      .+...+++++
T Consensus       216 ~alnlLek~i  225 (546)
T PRK14957        216 DALSLLDQAI  225 (546)
T ss_pred             HHHHHHHHHH
Confidence            5555555433

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

Probab=99.62  E-value=1.9e-14  Score=118.17  Aligned_cols=192  Identities=18%  Similarity=0.248  Sum_probs=123.0

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCC-cEEE
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRP-HSVI   93 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~il   93 (287)
                      .|.+|++|+|+.|||||++++++...+...+..++.+.-.+..+-                   ..+.+.++..+ .-||
T Consensus        50 ~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~~l-------------------~~l~~~l~~~~~kFIl  110 (249)
T PF05673_consen   50 LPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLGDL-------------------PELLDLLRDRPYKFIL  110 (249)
T ss_pred             CCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhccH-------------------HHHHHHHhcCCCCEEE
Confidence            456689999999999999999999999888888888877665543                   35566666544 3599


Q ss_pred             EEcCcccccHH-HHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhh-ccCCchHHHHHHHHHHHhcCChhH
Q 047225           94 LFDEIEKAHRD-VLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARE-SILGSDQMERGVAEELRRRFRPEF  171 (287)
Q Consensus        94 ~iDeid~~~~~-~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l  171 (287)
                      |+||+..-..+ .-..|..+++.+-       .-.+.|+++.+|||.-.-.-... +-.+..+-+-...+..++.+  +|
T Consensus       111 f~DDLsFe~~d~~yk~LKs~LeGgl-------e~~P~NvliyATSNRRHLv~E~~~d~~~~~~~eih~~d~~eEkl--SL  181 (249)
T PF05673_consen  111 FCDDLSFEEGDTEYKALKSVLEGGL-------EARPDNVLIYATSNRRHLVPESFSDREDIQDDEIHPSDTIEEKL--SL  181 (249)
T ss_pred             EecCCCCCCCcHHHHHHHHHhcCcc-------ccCCCcEEEEEecchhhccchhhhhccCCCccccCcchHHHHHH--hH
Confidence            99998744333 3456777777532       22346889999999732111000 00000000011122222333  68


Q ss_pred             HhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHH-H-hccCCCCCchhHHHHHHHHH
Q 047225          172 LNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLI-E-EGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       172 ~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~-~-~~~~~~~~~r~l~~~i~~~~  243 (287)
                      .+||+-.+.|.||+.++..+|+..++.++         .+.++++.+..-+ + ..+..+.+.|..++.++.+.
T Consensus       182 sDRFGL~l~F~~~~q~~YL~IV~~~~~~~---------g~~~~~e~l~~~Al~wa~~rg~RSGRtA~QF~~~l~  246 (249)
T PF05673_consen  182 SDRFGLWLSFYPPDQEEYLAIVRHYAERY---------GLELDEEELRQEALQWALRRGGRSGRTARQFIDDLA  246 (249)
T ss_pred             HHhCCcEEEecCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHh
Confidence            89999999999999999999998888654         3455533222222 1 22334556788888887543

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.62  E-value=5.5e-15  Score=135.46  Aligned_cols=189  Identities=14%  Similarity=0.210  Sum_probs=125.1

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCC--CCceEEecccccccccchhhhhCCCCCCCcccchhh
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGS--KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQ   80 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (287)
                      ...++....+|+...++++|+||+|+|||+|++++++.+...  +..++++++.++....  ...+..       .....
T Consensus       134 ~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~~~~--~~~~~~-------~~~~~  204 (450)
T PRK00149        134 HAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFTNDF--VNALRN-------NTMEE  204 (450)
T ss_pred             HHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHH--HHHHHc-------CcHHH
Confidence            344555555666555679999999999999999999998543  4567788887654321  111100       01134


Q ss_pred             HHHHHHhCCcEEEEEcCcccccH--HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHH
Q 047225           81 LTEAVRHRPHSVILFDEIEKAHR--DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERG  158 (287)
Q Consensus        81 ~~~~~~~~~~~il~iDeid~~~~--~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~  158 (287)
                      +.+.+...  .+|+|||++.+..  ..+..|+.+++....          .+..+|+++|..+..+.             
T Consensus       205 ~~~~~~~~--dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~----------~~~~iiits~~~p~~l~-------------  259 (450)
T PRK00149        205 FKEKYRSV--DVLLIDDIQFLAGKERTQEEFFHTFNALHE----------AGKQIVLTSDRPPKELP-------------  259 (450)
T ss_pred             HHHHHhcC--CEEEEehhhhhcCCHHHHHHHHHHHHHHHH----------CCCcEEEECCCCHHHHH-------------
Confidence            45555543  4999999997633  355666665553210          01236777776544331             


Q ss_pred             HHHHHHhcCChhHHhccC--ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHH
Q 047225          159 VAEELRRRFRPEFLNRID--EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLR  236 (287)
Q Consensus       159 ~~~~~~~~~~~~l~~r~~--~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~  236 (287)
                             .+.+.+.+||.  ..+.+.||+.+++.+|++..+...         .+.++++++++|+....   .++|.+.
T Consensus       260 -------~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~~---------~~~l~~e~l~~ia~~~~---~~~R~l~  320 (450)
T PRK00149        260 -------GLEERLRSRFEWGLTVDIEPPDLETRIAILKKKAEEE---------GIDLPDEVLEFIAKNIT---SNVRELE  320 (450)
T ss_pred             -------HHHHHHHhHhcCCeeEEecCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHcCcC---CCHHHHH
Confidence                   13578889995  469999999999999997776531         46899999999998742   3567887


Q ss_pred             HHHHHHHH
Q 047225          237 RAIGRLLE  244 (287)
Q Consensus       237 ~~i~~~~~  244 (287)
                      .+++++..
T Consensus       321 ~~l~~l~~  328 (450)
T PRK00149        321 GALNRLIA  328 (450)
T ss_pred             HHHHHHHH
Confidence            78776654

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.62  E-value=2.1e-14  Score=127.05  Aligned_cols=174  Identities=17%  Similarity=0.334  Sum_probs=111.6

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC--CceEEecccccccccc--h------hhhhCCCCCCC
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK--EAMVRIDMSEYMEKHT--V------SKFFGSPPGYV   73 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~--~~~~~~~~~~~~~~~~--~------~~~~~~~~~~~   73 (287)
                      ++++..+..+..  ++++|+||||||||++++++++.+....  ..++.++++++.....  +      ....+.. ...
T Consensus        25 ~~L~~~~~~~~~--~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~  101 (337)
T PRK12402         25 ERLSRAVDSPNL--PHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGKKYLVEDPRFAHFLGTD-KRI  101 (337)
T ss_pred             HHHHHHHhCCCC--ceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcchhhhhcCcchhhhhhhh-hhh
Confidence            444555555432  2699999999999999999999985432  3567788876532210  0      0000000 000


Q ss_pred             cccchhhHHHHHH---h-----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhh
Q 047225           74 GFENGGQLTEAVR---H-----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIA  145 (287)
Q Consensus        74 ~~~~~~~~~~~~~---~-----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~  145 (287)
                      +......+.+.+.   .     .+..+|+|||++.++.+.+..|.++++...           +.+.+|++++...    
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~~----  166 (337)
T PRK12402        102 RSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYS-----------RTCRFIIATRQPS----  166 (337)
T ss_pred             ccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhcc-----------CCCeEEEEeCChh----
Confidence            0000111222111   1     334699999999999999999999988531           1345666665322    


Q ss_pred             hhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          146 RESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       146 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                                          .+.+.+.+|+ ..+.++|++.+++.+++...+.+.         .+.+++++++.++..+
T Consensus       167 --------------------~~~~~L~sr~-~~v~~~~~~~~~~~~~l~~~~~~~---------~~~~~~~al~~l~~~~  216 (337)
T PRK12402        167 --------------------KLIPPIRSRC-LPLFFRAPTDDELVDVLESIAEAE---------GVDYDDDGLELIAYYA  216 (337)
T ss_pred             --------------------hCchhhcCCc-eEEEecCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHc
Confidence                                2245788998 789999999999988887765432         3568999999999875

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.61  E-value=7.8e-15  Score=133.61  Aligned_cols=193  Identities=14%  Similarity=0.220  Sum_probs=129.1

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhc--CCCCceEEecccccccccchhhhhCCCCCCCcccchhh
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYF--GSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQ   80 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (287)
                      ...++..+.+|+.+.++++|+|++|+|||+|++++++.+.  ..+..++++++.++....  ...++..     ......
T Consensus       127 ~~aa~~~a~~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~--~~~l~~~-----~~~~~~  199 (450)
T PRK14087        127 FIAVQTVSKNPGISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKA--VDILQKT-----HKEIEQ  199 (450)
T ss_pred             HHHHHHHHhCcCcccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHH--HHHHHHh-----hhHHHH
Confidence            3344555566666666799999999999999999999764  335677788776654321  1111100     000112


Q ss_pred             HHHHHHhCCcEEEEEcCccccc--HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHH
Q 047225           81 LTEAVRHRPHSVILFDEIEKAH--RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERG  158 (287)
Q Consensus        81 ~~~~~~~~~~~il~iDeid~~~--~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~  158 (287)
                      +...+...  .+|+|||++.+.  ...++.|+.+++.....          +..+|+|++..+..+              
T Consensus       200 ~~~~~~~~--dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~----------~k~iIltsd~~P~~l--------------  253 (450)
T PRK14087        200 FKNEICQN--DVLIIDDVQFLSYKEKTNEIFFTIFNNFIEN----------DKQLFFSSDKSPELL--------------  253 (450)
T ss_pred             HHHHhccC--CEEEEeccccccCCHHHHHHHHHHHHHHHHc----------CCcEEEECCCCHHHH--------------
Confidence            33333333  499999999875  66788888877753211          125788888765432              


Q ss_pred             HHHHHHhcCChhHHhccC--ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHH
Q 047225          159 VAEELRRRFRPEFLNRID--EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLR  236 (287)
Q Consensus       159 ~~~~~~~~~~~~l~~r~~--~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~  236 (287)
                            ..+.+.|.+||.  ..+.+.||+.+++.+++++.+...       +..+.++++++++|+...-   .++|.+.
T Consensus       254 ------~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~~-------gl~~~l~~evl~~Ia~~~~---gd~R~L~  317 (450)
T PRK14087        254 ------NGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEIKNQ-------NIKQEVTEEAINFISNYYS---DDVRKIK  317 (450)
T ss_pred             ------hhccHHHHHHHhCCceeccCCcCHHHHHHHHHHHHHhc-------CCCCCCCHHHHHHHHHccC---CCHHHHH
Confidence                  235678999994  569999999999999998777532       3234799999999998643   4567887


Q ss_pred             HHHHHHHH
Q 047225          237 RAIGRLLE  244 (287)
Q Consensus       237 ~~i~~~~~  244 (287)
                      .+++++..
T Consensus       318 gaL~~l~~  325 (450)
T PRK14087        318 GSVSRLNF  325 (450)
T ss_pred             HHHHHHHH
Confidence            77776654

>PRK04195 replication factor C large subunit; Provisional

Probab=99.61  E-value=9.3e-15  Score=134.94  Aligned_cols=160  Identities=26%  Similarity=0.380  Sum_probs=111.9

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEc
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iD   96 (287)
                      ..+++|+||||||||++++++++.+   +..++.++.++......+...++.....      ..+.    .....+|+||
T Consensus        39 ~~~lLL~GppG~GKTtla~ala~el---~~~~ielnasd~r~~~~i~~~i~~~~~~------~sl~----~~~~kvIiID  105 (482)
T PRK04195         39 KKALLLYGPPGVGKTSLAHALANDY---GWEVIELNASDQRTADVIERVAGEAATS------GSLF----GARRKLILLD  105 (482)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc---CCCEEEEcccccccHHHHHHHHHHhhcc------Cccc----CCCCeEEEEe
Confidence            3479999999999999999999998   6778888887755433232222211100      0111    0245799999


Q ss_pred             CcccccH----HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh-hH
Q 047225           97 EIEKAHR----DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP-EF  171 (287)
Q Consensus        97 eid~~~~----~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~l  171 (287)
                      |+|.+..    ..+..|+++++..             +..+|+++|....                        +.+ .+
T Consensus       106 EaD~L~~~~d~~~~~aL~~~l~~~-------------~~~iIli~n~~~~------------------------~~~k~L  148 (482)
T PRK04195        106 EVDGIHGNEDRGGARAILELIKKA-------------KQPIILTANDPYD------------------------PSLREL  148 (482)
T ss_pred             cCcccccccchhHHHHHHHHHHcC-------------CCCEEEeccCccc------------------------cchhhH
Confidence            9998865    5678888888742             2346677775432                        123 56


Q ss_pred             HhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          172 LNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       172 ~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                      .+++ ..+.|++|+..++..++...+...         .+.+++++++.|+..+.      ++++.+++.+
T Consensus       149 rsr~-~~I~f~~~~~~~i~~~L~~i~~~e---------gi~i~~eaL~~Ia~~s~------GDlR~ain~L  203 (482)
T PRK04195        149 RNAC-LMIEFKRLSTRSIVPVLKRICRKE---------GIECDDEALKEIAERSG------GDLRSAINDL  203 (482)
T ss_pred             hccc-eEEEecCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC------CCHHHHHHHH
Confidence            6777 889999999999999997776532         45789999999998753      5777777744

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.61  E-value=3e-14  Score=124.97  Aligned_cols=151  Identities=23%  Similarity=0.292  Sum_probs=108.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh----CCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH----RPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~il~   94 (287)
                      .++|+||||+|||++++++++.+   +.++..+++++ .....+.               ..+......    ..+.+++
T Consensus        45 ~lll~G~~G~GKT~la~~l~~~~---~~~~~~i~~~~-~~~~~i~---------------~~l~~~~~~~~~~~~~~vli  105 (316)
T PHA02544         45 MLLHSPSPGTGKTTVAKALCNEV---GAEVLFVNGSD-CRIDFVR---------------NRLTRFASTVSLTGGGKVII  105 (316)
T ss_pred             EEEeeCcCCCCHHHHHHHHHHHh---CccceEeccCc-ccHHHHH---------------HHHHHHHHhhcccCCCeEEE
Confidence            46669999999999999999987   45667777765 2111110               111111111    2457999


Q ss_pred             EcCcccc-cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHh
Q 047225           95 FDEIEKA-HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLN  173 (287)
Q Consensus        95 iDeid~~-~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  173 (287)
                      |||+|.+ ..+.++.|..+++...           .++.+|+++|...                        .+.+++.+
T Consensus       106 iDe~d~l~~~~~~~~L~~~le~~~-----------~~~~~Ilt~n~~~------------------------~l~~~l~s  150 (316)
T PHA02544        106 IDEFDRLGLADAQRHLRSFMEAYS-----------KNCSFIITANNKN------------------------GIIEPLRS  150 (316)
T ss_pred             EECcccccCHHHHHHHHHHHHhcC-----------CCceEEEEcCChh------------------------hchHHHHh
Confidence            9999999 7778888988888621           2457888887542                        34578999


Q ss_pred             ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhcc
Q 047225          174 RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGY  226 (287)
Q Consensus       174 r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~  226 (287)
                      || ..+.|++|+.++..+++...+.+....+...  .+.++++++..++...+
T Consensus       151 R~-~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~--~~~i~~~al~~l~~~~~  200 (316)
T PHA02544        151 RC-RVIDFGVPTKEEQIEMMKQMIVRCKGILEAE--GVEVDMKVLAALVKKNF  200 (316)
T ss_pred             hc-eEEEeCCCCHHHHHHHHHHHHHHHHHHHHhc--CCCCCHHHHHHHHHhcC
Confidence            99 7899999999999999888776665444433  45789999999998766

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.61  E-value=8.5e-15  Score=135.40  Aligned_cols=187  Identities=14%  Similarity=0.191  Sum_probs=127.4

Q ss_pred             hhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcC--CCCceEEecccccccccchhhhhCCCCCCCcccchhhHH
Q 047225            5 RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFG--SKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLT   82 (287)
Q Consensus         5 ~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (287)
                      .++..+.++++..++++|+|++|+|||+|++++++.+..  .+..++++++.++..... ..+..        .....+.
T Consensus       302 aa~avae~~~~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~-~al~~--------~~~~~f~  372 (617)
T PRK14086        302 AAVAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFI-NSIRD--------GKGDSFR  372 (617)
T ss_pred             HHHHHHhCccccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHH-HHHHh--------ccHHHHH
Confidence            444545555555556999999999999999999998743  356778888876653211 11100        0012344


Q ss_pred             HHHHhCCcEEEEEcCccccc--HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHH
Q 047225           83 EAVRHRPHSVILFDEIEKAH--RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVA  160 (287)
Q Consensus        83 ~~~~~~~~~il~iDeid~~~--~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~  160 (287)
                      +.+...  .+|+|||++.+.  ...+..|+.+++.....          +..+|+|+|..+..+.               
T Consensus       373 ~~y~~~--DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~----------gk~IIITSd~~P~eL~---------------  425 (617)
T PRK14086        373 RRYREM--DILLVDDIQFLEDKESTQEEFFHTFNTLHNA----------NKQIVLSSDRPPKQLV---------------  425 (617)
T ss_pred             HHhhcC--CEEEEehhccccCCHHHHHHHHHHHHHHHhc----------CCCEEEecCCChHhhh---------------
Confidence            444444  599999999773  34567777777653211          2247778887655431               


Q ss_pred             HHHHhcCChhHHhccC--ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHH
Q 047225          161 EELRRRFRPEFLNRID--EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRA  238 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~--~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~  238 (287)
                           .+.+.|.+||.  ..+.+.+|+.++..+|++.....         ..+.++++++++|+....   .++|.|..+
T Consensus       426 -----~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka~~---------r~l~l~~eVi~yLa~r~~---rnvR~Lega  488 (617)
T PRK14086        426 -----TLEDRLRNRFEWGLITDVQPPELETRIAILRKKAVQ---------EQLNAPPEVLEFIASRIS---RNIRELEGA  488 (617)
T ss_pred             -----hccHHHHhhhhcCceEEcCCCCHHHHHHHHHHHHHh---------cCCCCCHHHHHHHHHhcc---CCHHHHHHH
Confidence                 34678999995  55899999999999999766543         157899999999998732   356888888


Q ss_pred             HHHHHH
Q 047225          239 IGRLLE  244 (287)
Q Consensus       239 i~~~~~  244 (287)
                      ++++..
T Consensus       489 L~rL~a  494 (617)
T PRK14086        489 LIRVTA  494 (617)
T ss_pred             HHHHHH
Confidence            887754

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.61  E-value=1.6e-14  Score=119.05  Aligned_cols=173  Identities=21%  Similarity=0.339  Sum_probs=129.7

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccc-------hhh--hhCCCCCCCcccchhhHHHHHHh
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT-------VSK--FFGSPPGYVGFENGGQLTEAVRH   87 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~-------~~~--~~~~~~~~~~~~~~~~~~~~~~~   87 (287)
                      .+|++++||+|+||.|.+.++.+.+++.+.+-..+....+...+.       +..  .+.-.|+..|+..---+.+.++.
T Consensus        34 ~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yHlEitPSDaG~~DRvViQellKe  113 (351)
T KOG2035|consen   34 FPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYHLEITPSDAGNYDRVVIQELLKE  113 (351)
T ss_pred             CCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccceEEeChhhcCcccHHHHHHHHHH
Confidence            458999999999999999999999998777666666555544321       111  11122334444332222222222


Q ss_pred             ------------CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHH
Q 047225           88 ------------RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQM  155 (287)
Q Consensus        88 ------------~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~  155 (287)
                                  .++.+++|.|+|.+..+.|.+|++-|+...           +++.+|+.+|.....            
T Consensus       114 vAQt~qie~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs-----------~~~RlIl~cns~Sri------------  170 (351)
T KOG2035|consen  114 VAQTQQIETQGQRPFKVVVINEADELTRDAQHALRRTMEKYS-----------SNCRLILVCNSTSRI------------  170 (351)
T ss_pred             HHhhcchhhccccceEEEEEechHhhhHHHHHHHHHHHHHHh-----------cCceEEEEecCcccc------------
Confidence                        456899999999999999999999999632           467899999986543            


Q ss_pred             HHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhH
Q 047225          156 ERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPL  235 (287)
Q Consensus       156 ~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l  235 (287)
                                  -+++.+|+ ..+.+|.|+.+|+..++...+.+.         .+.++.+.+..|++.+.      |.+
T Consensus       171 ------------IepIrSRC-l~iRvpaps~eeI~~vl~~v~~kE---------~l~lp~~~l~rIa~kS~------~nL  222 (351)
T KOG2035|consen  171 ------------IEPIRSRC-LFIRVPAPSDEEITSVLSKVLKKE---------GLQLPKELLKRIAEKSN------RNL  222 (351)
T ss_pred             ------------hhHHhhhe-eEEeCCCCCHHHHHHHHHHHHHHh---------cccCcHHHHHHHHHHhc------ccH
Confidence                        37899999 999999999999999998888764         57888999999999865      788


Q ss_pred             HHHHH
Q 047225          236 RRAIG  240 (287)
Q Consensus       236 ~~~i~  240 (287)
                      |+++-
T Consensus       223 RrAll  227 (351)
T KOG2035|consen  223 RRALL  227 (351)
T ss_pred             HHHHH
Confidence            88876

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.61  E-value=9.4e-15  Score=146.31  Aligned_cols=185  Identities=13%  Similarity=0.166  Sum_probs=118.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccc---hhhh--hC------------------------CC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT---VSKF--FG------------------------SP   69 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~---~~~~--~~------------------------~~   69 (287)
                      .++|+||||||||.+|+++|...   +.+++.++++++.....   +.+.  .|                        ..
T Consensus      1632 GILLiGPPGTGKTlLAKALA~es---~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~~e~~e~~n~~ 1708 (2281)
T CHL00206       1632 GILVIGSIGTGRSYLVKYLATNS---YVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLDTELLTMMNAL 1708 (2281)
T ss_pred             ceEEECCCCCCHHHHHHHHHHhc---CCceEEEEHHHHhhcccccccccccccccccccccccccccccchhhhhhcchh
Confidence            59999999999999999999998   78999999887664210   0000  00                        00


Q ss_pred             CCCCcccc----hhhHHHHHHhCCcEEEEEcCcccccHH-----HHHHHHHhhcCceeecCCCceeeccceEEEEeecCC
Q 047225           70 PGYVGFEN----GGQLTEAVRHRPHSVILFDEIEKAHRD-----VLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIG  140 (287)
Q Consensus        70 ~~~~~~~~----~~~~~~~~~~~~~~il~iDeid~~~~~-----~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~  140 (287)
                      .+.++...    ...+++.++...++||+|||||.+...     .+..|+..|+.....      -...+++||+|||.+
T Consensus      1709 ~~~m~~~e~~~rIr~lFelARk~SPCIIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~~------~s~~~VIVIAATNRP 1782 (2281)
T CHL00206       1709 TMDMMPKIDRFYITLQFELAKAMSPCIIWIPNIHDLNVNESNYLSLGLLVNSLSRDCER------CSTRNILVIASTHIP 1782 (2281)
T ss_pred             hhhhhhhhhHHHHHHHHHHHHHCCCeEEEEEchhhcCCCccceehHHHHHHHhcccccc------CCCCCEEEEEeCCCc
Confidence            00111111    234677777777799999999987653     245666666532110      112356899999986


Q ss_pred             chhhhhhccCCchHHHHHHHHHHHhcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChh--
Q 047225          141 DSVIARESILGSDQMERGVAEELRRRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHT--  216 (287)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~--  216 (287)
                      .                        .++|+|++  |||..|.++.|+..+..+++...+..     .  +  +.+.++  
T Consensus      1783 D------------------------~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~ILl~t-----k--g--~~L~~~~v 1829 (2281)
T CHL00206       1783 Q------------------------KVDPALIAPNKLNTCIKIRRLLIPQQRKHFFTLSYT-----R--G--FHLEKKMF 1829 (2281)
T ss_pred             c------------------------cCCHhHcCCCCCCeEEEeCCCCchhHHHHHHHHHhh-----c--C--CCCCcccc
Confidence            4                        45789996  99999999999988877776533211     0  1  122222  


Q ss_pred             HHHHHHHhccCCCCCchhHHHHHHHHHHHHH
Q 047225          217 FKKKLIEEGYNPSYGARPLRRAIGRLLEDNL  247 (287)
Q Consensus       217 ~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~  247 (287)
                      -++.++..  .++++++++...++.++..+.
T Consensus      1830 dl~~LA~~--T~GfSGADLanLvNEAaliAi 1858 (2281)
T CHL00206       1830 HTNGFGSI--TMGSNARDLVALTNEALSISI 1858 (2281)
T ss_pred             cHHHHHHh--CCCCCHHHHHHHHHHHHHHHH
Confidence            24555554  456677888888877665543

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.61  E-value=1.4e-14  Score=126.38  Aligned_cols=144  Identities=15%  Similarity=0.202  Sum_probs=97.1

Q ss_pred             HhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecC-CCceeecc-ceEEEEeecCCchhhhhhccCCchHHHHHHHHHH
Q 047225           86 RHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG-KGQTVDLK-NTIIIMTSNIGDSVIARESILGSDQMERGVAEEL  163 (287)
Q Consensus        86 ~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~-~g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~  163 (287)
                      ...++++||+||++++++.+++.|++.|+++..... .|.....+ .+++|+++|+...                     
T Consensus       125 ~~A~~GiL~lDEInrl~~~~q~~Lle~mee~~v~v~r~G~~~~~p~rfiviAt~NP~e~---------------------  183 (334)
T PRK13407        125 ARANRGYLYIDEVNLLEDHIVDLLLDVAQSGENVVEREGLSIRHPARFVLVGSGNPEEG---------------------  183 (334)
T ss_pred             EEcCCCeEEecChHhCCHHHHHHHHHHHHcCCeEEEECCeEEecCCCEEEEecCCcccC---------------------
Confidence            334557999999999999999999999999875433 46555554 6788888887432                     


Q ss_pred             HhcCChhHHhccCceEEeCCCCH-HHHHHHHHHHHHH--------------------HHHHHHhcCcEEEeChhHHHHHH
Q 047225          164 RRRFRPEFLNRIDEVIVFRQLNK-MQLMEIVDIMLKE--------------------IYERLEAKNMELTVTHTFKKKLI  222 (287)
Q Consensus       164 ~~~~~~~l~~r~~~~i~~~~~~~-~~~~~il~~~l~~--------------------~~~~~~~~~~~~~i~~~~~~~l~  222 (287)
                        .+++++++||...+.+++++. ++..+++......                    ....++..-..+.++++++++++
T Consensus       184 --~l~~aLldRF~~~v~v~~~~~~~e~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~a~~~~~~V~v~~~~~~yi~  261 (334)
T PRK13407        184 --ELRPQLLDRFGLSVEVRSPRDVETRVEVIRRRDAYDADHDAFMAKWGAEDMQLRGRILGARARLPQLKTPNTVLHDCA  261 (334)
T ss_pred             --CCCHHHHhhcceEEEcCCCCcHHHHHHHHHHhhcccccchhhhccccccccCCHHHHHHHHHhcCCcccCHHHHHHHH
Confidence              467899999988899988886 7767777653211                    01111221224789999999998


Q ss_pred             HhccCCC-CCchhHHHHHHHHHHHHHHHHHHhccC
Q 047225          223 EEGYNPS-YGARPLRRAIGRLLEDNLAEIILTGYI  256 (287)
Q Consensus       223 ~~~~~~~-~~~r~l~~~i~~~~~~~~~~~~~~~~~  256 (287)
                      +...... .|   .+..+- ++..+-+.+++.++.
T Consensus       262 ~l~~~~~~~s---~Ra~i~-l~~aA~a~A~l~Gr~  292 (334)
T PRK13407        262 ALCIALGSDG---LRGELT-LLRAARALAAFEGAE  292 (334)
T ss_pred             HHHHHHCCCC---chHHHH-HHHHHHHHHHHcCCC
Confidence            8743322 23   333333 555555666665543

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.61  E-value=1.4e-14  Score=134.17  Aligned_cols=168  Identities=26%  Similarity=0.356  Sum_probs=106.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||++++++|...   +.+++.++++++....     .|.     +......+++.+.....+||||||+
T Consensus        90 giLL~GppGtGKT~la~alA~~~---~~~~~~i~~~~~~~~~-----~g~-----~~~~l~~~f~~a~~~~p~Il~iDEi  156 (495)
T TIGR01241        90 GVLLVGPPGTGKTLLAKAVAGEA---GVPFFSISGSDFVEMF-----VGV-----GASRVRDLFEQAKKNAPCIIFIDEI  156 (495)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHc---CCCeeeccHHHHHHHH-----hcc-----cHHHHHHHHHHHHhcCCCEEEEech
Confidence            59999999999999999999988   6788888877654321     110     1111234555555555689999999


Q ss_pred             ccccH--------------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           99 EKAHR--------------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        99 d~~~~--------------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      |.+..              ..++.|+..++.-  .       ...+++||++||.+.                       
T Consensus       157 d~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~--~-------~~~~v~vI~aTn~~~-----------------------  204 (495)
T TIGR01241       157 DAVGRQRGAGLGGGNDEREQTLNQLLVEMDGF--G-------TNTGVIVIAATNRPD-----------------------  204 (495)
T ss_pred             hhhhhccccCcCCccHHHHHHHHHHHhhhccc--c-------CCCCeEEEEecCChh-----------------------
Confidence            97532              1223333333321  0       112467889998753                       


Q ss_pred             hcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          165 RRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       165 ~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                       .+++++++  ||+..+.+++|+.++..+|++.++...       .  +. .+..+..++..  ..+++..+++.+++++
T Consensus       205 -~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~-------~--~~-~~~~l~~la~~--t~G~sgadl~~l~~eA  271 (495)
T TIGR01241       205 -VLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNK-------K--LA-PDVDLKAVARR--TPGFSGADLANLLNEA  271 (495)
T ss_pred             -hcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcC-------C--CC-cchhHHHHHHh--CCCCCHHHHHHHHHHH
Confidence             34677775  999999999999999999998776432       1  11 12223344443  2234556666666654


Q ss_pred             HH
Q 047225          243 LE  244 (287)
Q Consensus       243 ~~  244 (287)
                      ..
T Consensus       272 ~~  273 (495)
T TIGR01241       272 AL  273 (495)
T ss_pred             HH
Confidence            33

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.

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=99.61  E-value=2.6e-15  Score=136.77  Aligned_cols=198  Identities=22%  Similarity=0.310  Sum_probs=153.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCC-cccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYV-GFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      ++++.|.|||||-.+++++++... ...+++.+||..+.+......+||..+|.. |... .-....+...+.+.+|+||
T Consensus       338 pvll~GEtGtGKe~laraiH~~s~-~~gpfvAvNCaAip~~liesELFGy~~GafTga~~-kG~~g~~~~A~gGtlFlde  415 (606)
T COG3284         338 PVLLQGETGTGKEVLARAIHQNSE-AAGPFVAVNCAAIPEALIESELFGYVAGAFTGARR-KGYKGKLEQADGGTLFLDE  415 (606)
T ss_pred             CeEecCCcchhHHHHHHHHHhccc-ccCCeEEEEeccchHHhhhHHHhccCccccccchh-ccccccceecCCCccHHHH
Confidence            699999999999999999999987 788999999999998877788998766642 2221 2233445555678999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC-
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID-  176 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~-  176 (287)
                      |..++-..|..|++++++|.+.--.|.. -.-++.||.+|+.+-.              ..+.   +..|+.+|..|+. 
T Consensus       416 Igd~p~~~Qs~LLrVl~e~~v~p~g~~~-~~vdirvi~ath~dl~--------------~lv~---~g~fredLyyrL~~  477 (606)
T COG3284         416 IGDMPLALQSRLLRVLQEGVVTPLGGTR-IKVDIRVIAATHRDLA--------------QLVE---QGRFREDLYYRLNA  477 (606)
T ss_pred             hhhchHHHHHHHHHHHhhCceeccCCcc-eeEEEEEEeccCcCHH--------------HHHH---cCCchHHHHHHhcC
Confidence            9999999999999999999877545655 4558899999976532              2222   3589999999996 


Q ss_pred             ceEEeCCCC-HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          177 EVIVFRQLN-KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       177 ~~i~~~~~~-~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      ..|.+||+. +.+...++.+++.+...      ..+.++++++..+..+.|+.  +.|++..+++.+..
T Consensus       478 ~~i~lP~lr~R~d~~~~l~~~~~~~~~------~~~~l~~~~~~~l~~~~WPG--Nirel~~v~~~~~~  538 (606)
T COG3284         478 FVITLPPLRERSDRIPLLDRILKREND------WRLQLDDDALARLLAYRWPG--NIRELDNVIERLAA  538 (606)
T ss_pred             eeeccCchhcccccHHHHHHHHHHccC------CCccCCHHHHHHHHhCCCCC--cHHHHHHHHHHHHH
Confidence            449999998 55666666666654332      25789999999999999976  55999999986544

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.60  E-value=2.3e-14  Score=127.69  Aligned_cols=189  Identities=15%  Similarity=0.188  Sum_probs=114.6

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC----CceEEe-cccccccccchhhhhC-CCCCCCcccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK----EAMVRI-DMSEYMEKHTVSKFFG-SPPGYVGFEN   77 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~----~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~   77 (287)
                      +.++..+... +..+.++|+||+|+|||++|+.+++.+....    .++..+ .|.+..... ..+++. ......+...
T Consensus        26 ~~l~~~~~~~-~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~-~~d~~~~~~~~~~~v~~  103 (363)
T PRK14961         26 TAISNGLSLG-RIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGL-CLDLIEIDAASRTKVEE  103 (363)
T ss_pred             HHHHHHHHcC-CCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCC-CCceEEecccccCCHHH
Confidence            3444544443 2333579999999999999999999984211    111000 111111000 000000 0001111112


Q ss_pred             hhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCch
Q 047225           78 GGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSD  153 (287)
Q Consensus        78 ~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~  153 (287)
                      ...+.+.+..    +.+.+++|||+|.++...++.|++.+++..           +.+.+|++++...            
T Consensus       104 ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~-----------~~~~fIl~t~~~~------------  160 (363)
T PRK14961        104 MREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPP-----------QHIKFILATTDVE------------  160 (363)
T ss_pred             HHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCC-----------CCeEEEEEcCChH------------
Confidence            2233333222    345799999999999999999999999731           2446777665321            


Q ss_pred             HHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCch
Q 047225          154 QMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR  233 (287)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r  233 (287)
                                  .+.+.+.+|+ ..+.|+|++.+++.+++...+...         ++.+++++++.++..+-   .++|
T Consensus       161 ------------~l~~tI~SRc-~~~~~~~l~~~el~~~L~~~~~~~---------g~~i~~~al~~ia~~s~---G~~R  215 (363)
T PRK14961        161 ------------KIPKTILSRC-LQFKLKIISEEKIFNFLKYILIKE---------SIDTDEYALKLIAYHAH---GSMR  215 (363)
T ss_pred             ------------hhhHHHHhhc-eEEeCCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CCHH
Confidence                        2457889999 899999999999999997776542         35789999999988653   3455


Q ss_pred             hHHHHHHHH
Q 047225          234 PLRRAIGRL  242 (287)
Q Consensus       234 ~l~~~i~~~  242 (287)
                      .+.+.++++
T Consensus       216 ~al~~l~~~  224 (363)
T PRK14961        216 DALNLLEHA  224 (363)
T ss_pred             HHHHHHHHH
Confidence            555555443

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.60  E-value=2.3e-14  Score=138.61  Aligned_cols=173  Identities=26%  Similarity=0.381  Sum_probs=120.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCccc--chhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE--NGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~il~iD   96 (287)
                      .++|+||||||||++|+++|..+   +.+++.+++++....            +.|..  ....++..+.....+|+|||
T Consensus       489 giLL~GppGtGKT~lakalA~e~---~~~fi~v~~~~l~~~------------~vGese~~i~~~f~~A~~~~p~iifiD  553 (733)
T TIGR01243       489 GVLLFGPPGTGKTLLAKAVATES---GANFIAVRGPEILSK------------WVGESEKAIREIFRKARQAAPAIIFFD  553 (733)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhc---CCCEEEEehHHHhhc------------ccCcHHHHHHHHHHHHHhcCCEEEEEE
Confidence            59999999999999999999998   677888877654322            11111  12456666666677999999


Q ss_pred             CcccccH------------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           97 EIEKAHR------------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        97 eid~~~~------------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      |+|.+.+            .+.+.|+..++.-         ....+++||+|||.+.                       
T Consensus       554 Eid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~---------~~~~~v~vI~aTn~~~-----------------------  601 (733)
T TIGR01243       554 EIDAIAPARGARFDTSVTDRIVNQLLTEMDGI---------QELSNVVVIAATNRPD-----------------------  601 (733)
T ss_pred             ChhhhhccCCCCCCccHHHHHHHHHHHHhhcc---------cCCCCEEEEEeCCChh-----------------------
Confidence            9996522            3445555555521         0123678999999763                       


Q ss_pred             hcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          165 RRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       165 ~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                       .+++++++  ||+..+.+++|+.++..+|++..+.+.         .+. ++.-++.++..  ..+++..++..++..+
T Consensus       602 -~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~---------~~~-~~~~l~~la~~--t~g~sgadi~~~~~~A  668 (733)
T TIGR01243       602 -ILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSM---------PLA-EDVDLEELAEM--TEGYTGADIEAVCREA  668 (733)
T ss_pred             -hCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCC---------CCC-ccCCHHHHHHH--cCCCCHHHHHHHHHHH
Confidence             35678885  999999999999999999996554321         111 12235666664  3356778999999988


Q ss_pred             HHHHHHHHH
Q 047225          243 LEDNLAEII  251 (287)
Q Consensus       243 ~~~~~~~~~  251 (287)
                      ...++.+..
T Consensus       669 ~~~a~~~~~  677 (733)
T TIGR01243       669 AMAALRESI  677 (733)
T ss_pred             HHHHHHHHh
Confidence            888876553

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.60  E-value=3.7e-14  Score=133.85  Aligned_cols=175  Identities=21%  Similarity=0.250  Sum_probs=114.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC-------CCCceEEecccccccc-cch-hhhhCCCCC--CCcccc-------hhh
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG-------SKEAMVRIDMSEYMEK-HTV-SKFFGSPPG--YVGFEN-------GGQ   80 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~-------~~~~~~~~~~~~~~~~-~~~-~~~~~~~~~--~~~~~~-------~~~   80 (287)
                      +++|+||||||||++++.+++....       ...+++.++|...... ..+ ..+++....  +.+...       ...
T Consensus       177 ~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~  256 (615)
T TIGR02903       177 HIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREVTNPLLGSVHDPIYQGARRDLAETGVPEP  256 (615)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHHhHHhcCCccHHHHHHHHHHHHHcCCCch
Confidence            6999999999999999999887632       2457888888765311 111 122322100  000000       000


Q ss_pred             HHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCcee-----------------eccceEEEEeecCCchh
Q 047225           81 LTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTV-----------------DLKNTIIIMTSNIGDSV  143 (287)
Q Consensus        81 ~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i-----------------~~~~~~iI~t~n~~~~~  143 (287)
                      ....+.....++|||||++.+++..+..|+++++++.+....+...                 ...++++|++++.... 
T Consensus       257 ~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~-  335 (615)
T TIGR02903       257 KTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPE-  335 (615)
T ss_pred             hcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCcccchhhhhhcccCccceEEEEEecccccc-
Confidence            1112223345799999999999999999999999876543222100                 1124566665544322 


Q ss_pred             hhhhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHH
Q 047225          144 IARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIE  223 (287)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~  223 (287)
                                            .++++|.+|| ..+.|+|++.+++.+|+...+.+.         .+.+++++++.|..
T Consensus       336 ----------------------~l~~aLrSR~-~~i~~~pls~edi~~Il~~~a~~~---------~v~ls~eal~~L~~  383 (615)
T TIGR02903       336 ----------------------EINPALRSRC-AEVFFEPLTPEDIALIVLNAAEKI---------NVHLAAGVEELIAR  383 (615)
T ss_pred             ----------------------ccCHHHHhce-eEEEeCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHH
Confidence                                  3467899999 678999999999999998876532         34588999999999


Q ss_pred             hcc
Q 047225          224 EGY  226 (287)
Q Consensus       224 ~~~  226 (287)
                      ++|
T Consensus       384 ys~  386 (615)
T TIGR02903       384 YTI  386 (615)
T ss_pred             CCC
Confidence            887

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.

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

Probab=99.60  E-value=1.1e-13  Score=119.93  Aligned_cols=189  Identities=14%  Similarity=0.184  Sum_probs=114.9

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHH-----hC
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVR-----HR   88 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~   88 (287)
                      ..|+ .++|+||||||||.+++++++.+   +..++.++.++.....     .|    ... ...+.++..+.     ..
T Consensus       146 k~Pl-gllL~GPPGcGKTllAraiA~el---g~~~i~vsa~eL~sk~-----vG----EsE-k~IR~~F~~A~~~a~~~~  211 (413)
T PLN00020        146 KVPL-ILGIWGGKGQGKSFQCELVFKKM---GIEPIVMSAGELESEN-----AG----EPG-KLIRQRYREAADIIKKKG  211 (413)
T ss_pred             CCCe-EEEeeCCCCCCHHHHHHHHHHHc---CCCeEEEEHHHhhcCc-----CC----cHH-HHHHHHHHHHHHHhhccC
Confidence            3455 59999999999999999999999   6778888887655331     11    100 00123443333     23


Q ss_pred             CcEEEEEcCcccccH-----------HH-HHHHHHhhcCceeecCCCce---eeccceEEEEeecCCchhhhhhccCCch
Q 047225           89 PHSVILFDEIEKAHR-----------DV-LNVMLQLLDDGRVTDGKGQT---VDLKNTIIIMTSNIGDSVIARESILGSD  153 (287)
Q Consensus        89 ~~~il~iDeid~~~~-----------~~-~~~L~~~l~~~~~~~~~g~~---i~~~~~~iI~t~n~~~~~~~~~~~~~~~  153 (287)
                      ..+||||||+|..-+           .. ...|+.+++.-...--.|.+   -..+.+.||+|+|.+.            
T Consensus       212 aPcVLFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd------------  279 (413)
T PLN00020        212 KMSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFS------------  279 (413)
T ss_pred             CCeEEEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcc------------
Confidence            469999999995422           12 24566776642110001110   1124578899999874            


Q ss_pred             HHHHHHHHHHHhcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCC--
Q 047225          154 QMERGVAEELRRRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS--  229 (287)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~--  229 (287)
                                  .+.|+|++  ||+..+  ..|+.++..+|++.++.+           ..++..-+..|+... +..  
T Consensus       280 ------------~LDpALlRpGRfDk~i--~lPd~e~R~eIL~~~~r~-----------~~l~~~dv~~Lv~~f-~gq~~  333 (413)
T PLN00020        280 ------------TLYAPLIRDGRMEKFY--WAPTREDRIGVVHGIFRD-----------DGVSREDVVKLVDTF-PGQPL  333 (413)
T ss_pred             ------------cCCHhHcCCCCCCcee--CCCCHHHHHHHHHHHhcc-----------CCCCHHHHHHHHHcC-CCCCc
Confidence                        45789998  998765  479999999999876643           234455555565531 110  


Q ss_pred             --CC-------chhHHHHHHHHHHHHHHHHHHhc
Q 047225          230 --YG-------ARPLRRAIGRLLEDNLAEIILTG  254 (287)
Q Consensus       230 --~~-------~r~l~~~i~~~~~~~~~~~~~~~  254 (287)
                        +|       -+.+++||.+.=...+.+.+.+.
T Consensus       334 Df~GAlrar~yd~~v~~~i~~~g~~~~~~~l~~~  367 (413)
T PLN00020        334 DFFGALRARVYDDEVRKWIAEVGVENLGKKLVNS  367 (413)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHhcC
Confidence              00       14566666666555555555553

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.60  E-value=2.5e-14  Score=127.69  Aligned_cols=175  Identities=25%  Similarity=0.322  Sum_probs=112.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||++++++++.+   ..+++.+.+++....     .+|..     ......++........++|||||+
T Consensus       158 gvLL~GppGtGKT~lakaia~~l---~~~~~~v~~~~l~~~-----~~g~~-----~~~i~~~f~~a~~~~p~il~iDEi  224 (364)
T TIGR01242       158 GVLLYGPPGTGKTLLAKAVAHET---NATFIRVVGSELVRK-----YIGEG-----ARLVREIFELAKEKAPSIIFIDEI  224 (364)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC---CCCEEecchHHHHHH-----hhhHH-----HHHHHHHHHHHHhcCCcEEEhhhh
Confidence            59999999999999999999988   455666655433211     11110     001123444555555589999999


Q ss_pred             ccc-----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKA-----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~-----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |.+           ++..+..+.+++..-....      ...++.||+|||...                        .+
T Consensus       225 D~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~------~~~~v~vI~ttn~~~------------------------~l  274 (364)
T TIGR01242       225 DAIAAKRTDSGTSGDREVQRTLMQLLAELDGFD------PRGNVKVIAATNRPD------------------------IL  274 (364)
T ss_pred             hhhccccccCCCCccHHHHHHHHHHHHHhhCCC------CCCCEEEEEecCChh------------------------hC
Confidence            976           3455666666664311000      113567899998752                        34


Q ss_pred             ChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          168 RPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       168 ~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ++++++  ||+..|.+++|+.++..+|+..++...       .....+   -...++..+  .+++.++++..+..+...
T Consensus       275 d~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~-------~l~~~~---~~~~la~~t--~g~sg~dl~~l~~~A~~~  342 (364)
T TIGR01242       275 DPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKM-------KLAEDV---DLEAIAKMT--EGASGADLKAICTEAGMF  342 (364)
T ss_pred             ChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcC-------CCCccC---CHHHHHHHc--CCCCHHHHHHHHHHHHHH
Confidence            567764  898999999999999999996654321       111112   245555543  456778999988877776


Q ss_pred             HHH
Q 047225          246 NLA  248 (287)
Q Consensus       246 ~~~  248 (287)
                      ++.
T Consensus       343 a~~  345 (364)
T TIGR01242       343 AIR  345 (364)
T ss_pred             HHH
Confidence            654

Many proteins may score above the trusted cutoff because an internal

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

Probab=99.60  E-value=1.7e-14  Score=130.06  Aligned_cols=173  Identities=23%  Similarity=0.331  Sum_probs=109.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||++|+++|+.+   ..+++.+..++....     ..|..     ......++........+|+||||+
T Consensus       219 gVLL~GPPGTGKT~LAraIA~el---~~~fi~V~~seL~~k-----~~Ge~-----~~~vr~lF~~A~~~~P~ILfIDEI  285 (438)
T PTZ00361        219 GVILYGPPGTGKTLLAKAVANET---SATFLRVVGSELIQK-----YLGDG-----PKLVRELFRVAEENAPSIVFIDEI  285 (438)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh---CCCEEEEecchhhhh-----hcchH-----HHHHHHHHHHHHhCCCcEEeHHHH
Confidence            59999999999999999999988   556666665543321     11110     011234555555566689999999


Q ss_pred             cccc-----------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKAH-----------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~~-----------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |.+.           .+++..+..++..-.-..      ...++.||++||...                        .+
T Consensus       286 D~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~------~~~~V~VI~ATNr~d------------------------~L  335 (438)
T PTZ00361        286 DAIGTKRYDATSGGEKEIQRTMLELLNQLDGFD------SRGDVKVIMATNRIE------------------------SL  335 (438)
T ss_pred             HHHhccCCCCCCcccHHHHHHHHHHHHHHhhhc------ccCCeEEEEecCChH------------------------Hh
Confidence            9642           234555555554311000      113567899998642                        23


Q ss_pred             ChhHH--hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChh-HHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          168 RPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHT-FKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       168 ~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~-~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      +++++  .||+..|.|++|+.++..+|+..++.+.           .+.++ -++.++..  ..+++..+++.++..+..
T Consensus       336 DpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~-----------~l~~dvdl~~la~~--t~g~sgAdI~~i~~eA~~  402 (438)
T PTZ00361        336 DPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKM-----------TLAEDVDLEEFIMA--KDELSGADIKAICTEAGL  402 (438)
T ss_pred             hHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcC-----------CCCcCcCHHHHHHh--cCCCCHHHHHHHHHHHHH
Confidence            56776  4999999999999999999997665432           12222 23444443  234566788888777666


Q ss_pred             HHH
Q 047225          245 DNL  247 (287)
Q Consensus       245 ~~~  247 (287)
                      .++
T Consensus       403 ~Al  405 (438)
T PTZ00361        403 LAL  405 (438)
T ss_pred             HHH
Confidence            554

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.60  E-value=3.5e-14  Score=130.20  Aligned_cols=189  Identities=15%  Similarity=0.230  Sum_probs=118.9

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC--------ceEEe-ccccccccc--chhhhhCCCCCC
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE--------AMVRI-DMSEYMEKH--TVSKFFGSPPGY   72 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~--------~~~~~-~~~~~~~~~--~~~~~~~~~~~~   72 (287)
                      +.++..+... +..+.++|+||+|||||++|+.+|+.+.-...        ++..+ +|..+.+..  .+..+  .....
T Consensus        31 ~~L~~ai~~~-ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~h~Dv~ei--daas~  107 (507)
T PRK06645         31 KVLSYTILND-RLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHNHPDIIEI--DAASK  107 (507)
T ss_pred             HHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCCCCcEEEe--eccCC
Confidence            3444444333 33346999999999999999999999832110        11100 111111100  00000  11112


Q ss_pred             CcccchhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhc
Q 047225           73 VGFENGGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARES  148 (287)
Q Consensus        73 ~~~~~~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~  148 (287)
                      .+......+.+.+..    +.+.|++|||++.++...++.|++.+++.           .+.++||++++...       
T Consensus       108 ~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEep-----------p~~~vfI~aTte~~-------  169 (507)
T PRK06645        108 TSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEP-----------PPHIIFIFATTEVQ-------  169 (507)
T ss_pred             CCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhc-----------CCCEEEEEEeCChH-------
Confidence            222223334443332    34579999999999999999999999962           23556777775422       


Q ss_pred             cCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCC
Q 047225          149 ILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNP  228 (287)
Q Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~  228 (287)
                                       .+.+.+.+|+ ..+.|.+++.+++.+++...+.+.         .+.+++++++.|+..+.  
T Consensus       170 -----------------kI~~tI~SRc-~~~ef~~ls~~el~~~L~~i~~~e---------gi~ie~eAL~~Ia~~s~--  220 (507)
T PRK06645        170 -----------------KIPATIISRC-QRYDLRRLSFEEIFKLLEYITKQE---------NLKTDIEALRIIAYKSE--  220 (507)
T ss_pred             -----------------HhhHHHHhcc-eEEEccCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC--
Confidence                             2356889999 899999999999999998887642         46789999999998643  


Q ss_pred             CCCchhHHHHHHHHH
Q 047225          229 SYGARPLRRAIGRLL  243 (287)
Q Consensus       229 ~~~~r~l~~~i~~~~  243 (287)
                       .++|.+.+.+++++
T Consensus       221 -GslR~al~~Ldkai  234 (507)
T PRK06645        221 -GSARDAVSILDQAA  234 (507)
T ss_pred             -CCHHHHHHHHHHHH
Confidence             34556555555443

>TIGR00368 Mg chelatase-related protein

Probab=99.60  E-value=4.2e-14  Score=129.71  Aligned_cols=169  Identities=20%  Similarity=0.239  Sum_probs=107.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccc--------hhhhhCCC------CCCCcccchhhHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT--------VSKFFGSP------PGYVGFENGGQLTE   83 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~------~~~~~~~~~~~~~~   83 (287)
                      .+++|.||||||||++++.++..+....... .+..........        ...-|-.+      ....|.. ...-..
T Consensus       212 ~~vlliG~pGsGKTtlar~l~~llp~~~~~~-~le~~~i~s~~g~~~~~~~~~~~Pf~~p~~s~s~~~~~ggg-~~~~pG  289 (499)
T TIGR00368       212 HNLLLFGPPGSGKTMLASRLQGILPPLTNEE-AIETARIWSLVGKLIDRKQIKQRPFRSPHHSASKPALVGGG-PIPLPG  289 (499)
T ss_pred             CEEEEEecCCCCHHHHHHHHhcccCCCCCcE-EEeccccccchhhhccccccccCCccccccccchhhhhCCc-cccchh
Confidence            4799999999999999999998774432221 122221111000        00000000      0000100 001233


Q ss_pred             HHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCC-Cceeec-cceEEEEeecCCchhhhhhccCCchHHHHHHHH
Q 047225           84 AVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDL-KNTIIIMTSNIGDSVIARESILGSDQMERGVAE  161 (287)
Q Consensus        84 ~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~-~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~  161 (287)
                      .+...++++|||||++.+++.+++.|++.|+++.+.... |..+.+ .++.+|+++|+.+++........+...+.++..
T Consensus       290 ~i~lA~~GvLfLDEi~e~~~~~~~~L~~~LE~~~v~i~r~g~~~~~pa~frlIaa~Npcpcg~~~~~~~~c~c~~~~~~~  369 (499)
T TIGR00368       290 EISLAHNGVLFLDELPEFKRSVLDALREPIEDGSISISRASAKIFYPARFQLVAAMNPCPCGHYGGKNTHCRCSPQQISR  369 (499)
T ss_pred             hhhccCCCeEecCChhhCCHHHHHHHHHHHHcCcEEEEecCcceeccCCeEEEEecCCcccCcCCCCcccccCCHHHHHH
Confidence            455667789999999999999999999999999876443 433444 589999999997655432211224445666666


Q ss_pred             HHHhcCChhHHhccCceEEeCCCCHHHH
Q 047225          162 ELRRRFRPEFLNRIDEVIVFRQLNKMQL  189 (287)
Q Consensus       162 ~~~~~~~~~l~~r~~~~i~~~~~~~~~~  189 (287)
                      ++. +++.+|++|||..+.+++++.+++
T Consensus       370 y~~-~is~pllDR~dl~~~~~~~~~~~l  396 (499)
T TIGR00368       370 YWN-KLSGPFLDRIDLSVEVPLLPPEKL  396 (499)
T ss_pred             Hhh-hccHhHHhhCCEEEEEcCCCHHHH
Confidence            654 688999999999999999987655

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

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

Probab=99.60  E-value=1.6e-14  Score=117.79  Aligned_cols=137  Identities=31%  Similarity=0.498  Sum_probs=102.4

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILF   95 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~i   95 (287)
                      |. .++++||||||||.+++++|+..   ...++.+..+++...     .+|..+.-     .+.++...++...+|+||
T Consensus       189 pr-gvllygppg~gktml~kava~~t---~a~firvvgsefvqk-----ylgegprm-----vrdvfrlakenapsiifi  254 (408)
T KOG0727|consen  189 PR-GVLLYGPPGTGKTMLAKAVANHT---TAAFIRVVGSEFVQK-----YLGEGPRM-----VRDVFRLAKENAPSIIFI  254 (408)
T ss_pred             Cc-ceEEeCCCCCcHHHHHHHHhhcc---chheeeeccHHHHHH-----HhccCcHH-----HHHHHHHHhccCCcEEEe
Confidence            44 49999999999999999999987   677888888877643     34432221     256777778877899999


Q ss_pred             cCccc-----------ccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           96 DEIEK-----------AHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        96 Deid~-----------~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      ||+|.           ++.++|..|.+++..-.-...      ..|+.+|+++|...                       
T Consensus       255 deidaiatkrfdaqtgadrevqril~ellnqmdgfdq------~~nvkvimatnrad-----------------------  305 (408)
T KOG0727|consen  255 DEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQ------TTNVKVIMATNRAD-----------------------  305 (408)
T ss_pred             ehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCc------ccceEEEEecCccc-----------------------
Confidence            99993           466899999998875321110      13678999999854                       


Q ss_pred             hcCChhHH--hccCceEEeCCCCHHHHHHHHHHH
Q 047225          165 RRFRPEFL--NRIDEVIVFRQLNKMQLMEIVDIM  196 (287)
Q Consensus       165 ~~~~~~l~--~r~~~~i~~~~~~~~~~~~il~~~  196 (287)
                       .+.|+|+  .|+|..|.||-+++.+.+-++...
T Consensus       306 -tldpallrpgrldrkiefplpdrrqkrlvf~ti  338 (408)
T KOG0727|consen  306 -TLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTI  338 (408)
T ss_pred             -ccCHhhcCCccccccccCCCCchhhhhhhHHhh
Confidence             3467777  799999999999988876666444

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.60  E-value=1.9e-14  Score=125.85  Aligned_cols=142  Identities=13%  Similarity=0.152  Sum_probs=95.5

Q ss_pred             hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecC-CCceeecc-ceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           87 HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG-KGQTVDLK-NTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        87 ~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~-~g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      ..+.++||+||++++++..|..|++.|+++..... .|.....+ .+++|.|.|+..                       
T Consensus       142 ~A~~GiL~lDEInrL~~~~Q~~LLeam~e~~~~ier~G~s~~~p~rfiviaT~np~e-----------------------  198 (350)
T CHL00081        142 KANRGILYVDEVNLLDDHLVDILLDSAASGWNTVEREGISIRHPARFVLVGSGNPEE-----------------------  198 (350)
T ss_pred             ecCCCEEEecChHhCCHHHHHHHHHHHHhCCeEEeeCCeeeecCCCEEEEeccCccc-----------------------
Confidence            44568999999999999999999999998765543 36555554 677778788742                       


Q ss_pred             hcCChhHHhccCceEEeCCCC-HHHHHHHHHHHHHH--------------------HHHHHHhcCcEEEeChhHHHHHHH
Q 047225          165 RRFRPEFLNRIDEVIVFRQLN-KMQLMEIVDIMLKE--------------------IYERLEAKNMELTVTHTFKKKLIE  223 (287)
Q Consensus       165 ~~~~~~l~~r~~~~i~~~~~~-~~~~~~il~~~l~~--------------------~~~~~~~~~~~~~i~~~~~~~l~~  223 (287)
                      +.|+++|++||...+.+.+++ .++..+|+......                    ....++..-..+.+++++++++++
T Consensus       199 g~l~~~LldRf~l~i~l~~~~~~~~e~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~ar~~~~~V~v~~~~~~yi~~  278 (350)
T CHL00081        199 GELRPQLLDRFGMHAEIRTVKDPELRVKIVEQRTSFDKNPQEFREKYEESQEELRSKIVAAQNLLPKVEIDYDLRVKISQ  278 (350)
T ss_pred             CCCCHHHHHHhCceeecCCCCChHHHHHHHHhhhccccChhhhhhhhccccccCHHHHHHHHHhcCCCccCHHHHHHHHH
Confidence            257899999999899999998 57777888664321                    001111112257899999999988


Q ss_pred             hccCCC-CCchhHHHHHHHHHHHHHHHHHHhcc
Q 047225          224 EGYNPS-YGARPLRRAIGRLLEDNLAEIILTGY  255 (287)
Q Consensus       224 ~~~~~~-~~~r~l~~~i~~~~~~~~~~~~~~~~  255 (287)
                      ...... .|.|.-..    ++..+.+.+.+.+.
T Consensus       279 l~~~~~~~s~Ra~i~----l~raArA~Aal~GR  307 (350)
T CHL00081        279 ICSELDVDGLRGDIV----TNRAAKALAAFEGR  307 (350)
T ss_pred             HHHHHCCCCChHHHH----HHHHHHHHHHHcCC
Confidence            643322 23333332    44445555555544

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=99.60  E-value=5e-15  Score=119.25  Aligned_cols=174  Identities=21%  Similarity=0.319  Sum_probs=120.6

Q ss_pred             chhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC--CceEEecccccccccchhhhhCCCCCCCcccchh
Q 047225            2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK--EAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGG   79 (287)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (287)
                      +++++.....+.+-|  |++|.|||||||||.+.+||+.+.++.  .-+...|.|+...-..+..-+            .
T Consensus        35 tv~rl~via~~gnmP--~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~I------------K  100 (333)
T KOG0991|consen   35 TVERLSVIAKEGNMP--NLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKI------------K  100 (333)
T ss_pred             HHHHHHHHHHcCCCC--ceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHH------------H
Confidence            366677777777766  799999999999999999999996533  233344444432211111100            1


Q ss_pred             hHH-HHHHh--CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHH
Q 047225           80 QLT-EAVRH--RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQME  156 (287)
Q Consensus        80 ~~~-~~~~~--~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~  156 (287)
                      .+. ..+..  +.+.|+++||+|-+....|.+|++.|+-..           +.+.|.++||...+.+            
T Consensus       101 ~FAQ~kv~lp~grhKIiILDEADSMT~gAQQAlRRtMEiyS-----------~ttRFalaCN~s~KIi------------  157 (333)
T KOG0991|consen  101 MFAQKKVTLPPGRHKIIILDEADSMTAGAQQALRRTMEIYS-----------NTTRFALACNQSEKII------------  157 (333)
T ss_pred             HHHHhhccCCCCceeEEEeeccchhhhHHHHHHHHHHHHHc-----------ccchhhhhhcchhhhh------------
Confidence            111 11112  556899999999999999999999999532           3457999999876544            


Q ss_pred             HHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHH
Q 047225          157 RGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLR  236 (287)
Q Consensus       157 ~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~  236 (287)
                                  +++.+|| ..+.|..++..++..-+......         .++..+++.++.+.-.+.      .+.|
T Consensus       158 ------------EPIQSRC-AiLRysklsd~qiL~Rl~~v~k~---------Ekv~yt~dgLeaiifta~------GDMR  209 (333)
T KOG0991|consen  158 ------------EPIQSRC-AILRYSKLSDQQILKRLLEVAKA---------EKVNYTDDGLEAIIFTAQ------GDMR  209 (333)
T ss_pred             ------------hhHHhhh-HhhhhcccCHHHHHHHHHHHHHH---------hCCCCCcchHHHhhhhcc------chHH
Confidence                        6788999 88999999887765555443332         157889999998876654      5777


Q ss_pred             HHHH
Q 047225          237 RAIG  240 (287)
Q Consensus       237 ~~i~  240 (287)
                      ++++
T Consensus       210 QalN  213 (333)
T KOG0991|consen  210 QALN  213 (333)
T ss_pred             HHHH
Confidence            8777

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.60  E-value=2.3e-14  Score=133.88  Aligned_cols=190  Identities=16%  Similarity=0.207  Sum_probs=118.9

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc-----cccchhhhhC-CCCCCCcccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM-----EKHTVSKFFG-SPPGYVGFEN   77 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~-----~~~~~~~~~~-~~~~~~~~~~   77 (287)
                      +.++..+....-+ +.++|+||+|+|||++++.+++.+.-... .....|....     ......+++. ......+.+.
T Consensus        26 ~~L~~ai~~~rl~-Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~-~~~~pCg~C~sCr~i~~g~~~DvlEidaAs~~gVd~  103 (709)
T PRK08691         26 KALQNALDEGRLH-HAYLLTGTRGVGKTTIARILAKSLNCENA-QHGEPCGVCQSCTQIDAGRYVDLLEIDAASNTGIDN  103 (709)
T ss_pred             HHHHHHHHcCCCC-eEEEEECCCCCcHHHHHHHHHHHhcccCC-CCCCCCcccHHHHHHhccCccceEEEeccccCCHHH
Confidence            3445555543323 35899999999999999999998843211 1011111100     0000000000 0011122222


Q ss_pred             hhhHHHHHH----hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCch
Q 047225           78 GGQLTEAVR----HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSD  153 (287)
Q Consensus        78 ~~~~~~~~~----~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~  153 (287)
                      .+.+.+.+.    .+.+.|+||||+|+++...++.|++.+++..           ..+.||++++...            
T Consensus       104 IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp-----------~~v~fILaTtd~~------------  160 (709)
T PRK08691        104 IREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPP-----------EHVKFILATTDPH------------  160 (709)
T ss_pred             HHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCC-----------CCcEEEEEeCCcc------------
Confidence            223333221    1445799999999999999999999999631           2456777776432            


Q ss_pred             HHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCch
Q 047225          154 QMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR  233 (287)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r  233 (287)
                                  .+.+.+++|| ..+.|++++.+++.+++...+...         .+.++++++..|+..+.   .++|
T Consensus       161 ------------kL~~TIrSRC-~~f~f~~Ls~eeI~~~L~~Il~kE---------gi~id~eAL~~Ia~~A~---GslR  215 (709)
T PRK08691        161 ------------KVPVTVLSRC-LQFVLRNMTAQQVADHLAHVLDSE---------KIAYEPPALQLLGRAAA---GSMR  215 (709)
T ss_pred             ------------ccchHHHHHH-hhhhcCCCCHHHHHHHHHHHHHHc---------CCCcCHHHHHHHHHHhC---CCHH
Confidence                        2356788999 899999999999999998776542         46789999999998753   4556


Q ss_pred             hHHHHHHHHH
Q 047225          234 PLRRAIGRLL  243 (287)
Q Consensus       234 ~l~~~i~~~~  243 (287)
                      .+...+++++
T Consensus       216 dAlnLLDqai  225 (709)
T PRK08691        216 DALSLLDQAI  225 (709)
T ss_pred             HHHHHHHHHH
Confidence            6655555443

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=99.59  E-value=3.5e-14  Score=136.93  Aligned_cols=189  Identities=17%  Similarity=0.209  Sum_probs=118.2

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC----CceEEe-cccccccc----cchhhhhCCCCCCCc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK----EAMVRI-DMSEYMEK----HTVSKFFGSPPGYVG   74 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~----~~~~~~-~~~~~~~~----~~~~~~~~~~~~~~~   74 (287)
                      +.++..+... +..+.++|+||+|||||++++.|++.+.-..    .++-.+ +|..+...    ..+..+  ......+
T Consensus        25 ~~L~~~i~~~-ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~dv~ei--daas~~~  101 (824)
T PRK07764         25 EPLSTALDSG-RINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLDVTEI--DAASHGG  101 (824)
T ss_pred             HHHHHHHHhC-CCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCcEEEe--cccccCC
Confidence            3444444443 3333489999999999999999999983211    111111 01111000    000001  0011112


Q ss_pred             ccchhhHHHHHH----hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccC
Q 047225           75 FENGGQLTEAVR----HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESIL  150 (287)
Q Consensus        75 ~~~~~~~~~~~~----~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~  150 (287)
                      .+..+.+.+.+.    ...+.|+||||+|+++...++.|+++|++.           ...++||++++...+        
T Consensus       102 Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEp-----------P~~~~fIl~tt~~~k--------  162 (824)
T PRK07764        102 VDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEP-----------PEHLKFIFATTEPDK--------  162 (824)
T ss_pred             HHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCC-----------CCCeEEEEEeCChhh--------
Confidence            222233332222    245689999999999999999999999973           135577777754322        


Q ss_pred             CchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCC
Q 047225          151 GSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSY  230 (287)
Q Consensus       151 ~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~  230 (287)
                                      +.+.+.+|+ ..+.|.+++.+++.+++...+.+.         .+.++++++.+++....   .
T Consensus       163 ----------------Ll~TIrSRc-~~v~F~~l~~~~l~~~L~~il~~E---------Gv~id~eal~lLa~~sg---G  213 (824)
T PRK07764        163 ----------------VIGTIRSRT-HHYPFRLVPPEVMRGYLERICAQE---------GVPVEPGVLPLVIRAGG---G  213 (824)
T ss_pred             ----------------hhHHHHhhe-eEEEeeCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---C
Confidence                            346789999 999999999999999997776542         46789999999888653   3


Q ss_pred             CchhHHHHHHHHH
Q 047225          231 GARPLRRAIGRLL  243 (287)
Q Consensus       231 ~~r~l~~~i~~~~  243 (287)
                      ++|.+...+++++
T Consensus       214 dlR~Al~eLEKLi  226 (824)
T PRK07764        214 SVRDSLSVLDQLL  226 (824)
T ss_pred             CHHHHHHHHHHHH
Confidence            4566666666554

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.59  E-value=2.7e-14  Score=129.75  Aligned_cols=176  Identities=16%  Similarity=0.246  Sum_probs=119.5

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      .+.++++|+||+|+|||+|++++++.+...+..+++++...+....  ...+..       .....+...+...  .+|+
T Consensus       139 ~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~~~--~~~l~~-------~~~~~f~~~~~~~--dvLi  207 (445)
T PRK12422        139 FPFNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEHL--VSAIRS-------GEMQRFRQFYRNV--DALF  207 (445)
T ss_pred             CCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHHHH--HHHHhc-------chHHHHHHHcccC--CEEE
Confidence            4456799999999999999999999886556777788776544221  111110       0112233333333  5999


Q ss_pred             EcCccccc--HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHH
Q 047225           95 FDEIEKAH--RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFL  172 (287)
Q Consensus        95 iDeid~~~--~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  172 (287)
                      |||++.+.  ...+..|+.+++....          .+..+|+|++..+..+.                    .+.+.+.
T Consensus       208 IDDiq~l~~k~~~qeelf~l~N~l~~----------~~k~IIlts~~~p~~l~--------------------~l~~rL~  257 (445)
T PRK12422        208 IEDIEVFSGKGATQEEFFHTFNSLHT----------EGKLIVISSTCAPQDLK--------------------AMEERLI  257 (445)
T ss_pred             EcchhhhcCChhhHHHHHHHHHHHHH----------CCCcEEEecCCCHHHHh--------------------hhHHHHH
Confidence            99999874  3456677776653210          11257788876544331                    2457889


Q ss_pred             hccC--ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          173 NRID--EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       173 ~r~~--~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                      +||.  ..+.+.||+.+++..|++..+...         .+.++++++++++... .  .++|.+..++++++
T Consensus       258 SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~~---------~~~l~~evl~~la~~~-~--~dir~L~g~l~~l~  318 (445)
T PRK12422        258 SRFEWGIAIPLHPLTKEGLRSFLERKAEAL---------SIRIEETALDFLIEAL-S--SNVKSLLHALTLLA  318 (445)
T ss_pred             hhhcCCeEEecCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHhc-C--CCHHHHHHHHHHHH
Confidence            9994  679999999999999997766541         4689999999999863 2  36688888888774

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

Probab=99.59  E-value=6.7e-15  Score=129.62  Aligned_cols=145  Identities=31%  Similarity=0.327  Sum_probs=102.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-----C--cccchhhHHHHHHhCCcE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-----V--GFENGGQLTEAVRHRPHS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~--~~~~~~~~~~~~~~~~~~   91 (287)
                      +++|.||||||||++++.+|+.+   +.+++.++|......   .+++|...-.     .  -....+.++....    .
T Consensus        45 ~vll~G~PG~gKT~la~~lA~~l---~~~~~~i~~t~~l~p---~d~~G~~~~~~~~~~~~~~~~~~gpl~~~~~----~  114 (329)
T COG0714          45 HVLLEGPPGVGKTLLARALARAL---GLPFVRIQCTPDLLP---SDLLGTYAYAALLLEPGEFRFVPGPLFAAVR----V  114 (329)
T ss_pred             CEEEECCCCccHHHHHHHHHHHh---CCCeEEEecCCCCCH---HHhcCchhHhhhhccCCeEEEecCCcccccc----e
Confidence            69999999999999999999999   689999999765544   3333322110     0  0001123333222    5


Q ss_pred             EEEEcCcccccHHHHHHHHHhhcCceeecCCCce-eecc-ceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225           92 VILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQT-VDLK-NTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus        92 il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~-i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      ++++|||++.++.+++.|+.+|+++.++... .. +.++ .+++|+|+|+.....                   .+.+++
T Consensus       115 ill~DEInra~p~~q~aLl~~l~e~~vtv~~-~~~~~~~~~f~viaT~Np~e~~g-------------------~~~l~e  174 (329)
T COG0714         115 ILLLDEINRAPPEVQNALLEALEERQVTVPG-LTTIRLPPPFIVIATQNPGEYEG-------------------TYPLPE  174 (329)
T ss_pred             EEEEeccccCCHHHHHHHHHHHhCcEEEECC-cCCcCCCCCCEEEEccCccccCC-------------------CcCCCH
Confidence            9999999999999999999999998888754 22 5555 577888889754332                   224688


Q ss_pred             hHHhccCceEEeCCCC-HHHHHHHH
Q 047225          170 EFLNRIDEVIVFRQLN-KMQLMEIV  193 (287)
Q Consensus       170 ~l~~r~~~~i~~~~~~-~~~~~~il  193 (287)
                      ++++||...+.+++|. ..+...+.
T Consensus       175 A~ldRf~~~~~v~yp~~~~e~~~i~  199 (329)
T COG0714         175 ALLDRFLLRIYVDYPDSEEEERIIL  199 (329)
T ss_pred             HHHhhEEEEEecCCCCchHHHHHHH
Confidence            9999998889999994 44433333

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=99.59  E-value=4e-15  Score=131.70  Aligned_cols=163  Identities=19%  Similarity=0.300  Sum_probs=114.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCC-CceEEec------cc-----------cccc---ccchhhhhCCCCCCCccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSK-EAMVRID------MS-----------EYME---KHTVSKFFGSPPGYVGFE   76 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~-~~~~~~~------~~-----------~~~~---~~~~~~~~~~~~~~~~~~   76 (287)
                      .|++|+||||||||.+++.+...+++-. ..++.++      ..           .+..   ..+...++|..       
T Consensus       199 HnLl~~GpPGtGKTmla~Rl~~lLPpls~~E~lE~s~I~s~~g~~~~~~~~~~~rPFr~PHHsaS~~aLvGGG-------  271 (490)
T COG0606         199 HNLLLVGPPGTGKTMLASRLPGLLPPLSIPEALEVSAIHSLAGDLHEGCPLKIHRPFRAPHHSASLAALVGGG-------  271 (490)
T ss_pred             CcEEEecCCCCchHHhhhhhcccCCCCChHHHHHHHHHhhhcccccccCccceeCCccCCCccchHHHHhCCC-------
Confidence            5799999999999999999988874321 1111111      00           0000   01112233221       


Q ss_pred             chhhHHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCC-Cceeecc-ceEEEEeecCCchhhhhhccCCchH
Q 047225           77 NGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDLK-NTIIIMTSNIGDSVIARESILGSDQ  154 (287)
Q Consensus        77 ~~~~~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~  154 (287)
                       ...-...++..+++|||+||+-.....+++.|++.+|+|+..++. +..+.++ ++++|+++|+++++..+....-...
T Consensus       272 -~~p~PGeIsLAH~GVLFLDElpef~~~iLe~LR~PLE~g~i~IsRa~~~v~ypa~Fqlv~AmNpcpcG~~~~~~~~C~c  350 (490)
T COG0606         272 -GVPRPGEISLAHNGVLFLDELPEFKRSILEALREPLENGKIIISRAGSKVTYPARFQLVAAMNPCPCGNLGAPLRRCPC  350 (490)
T ss_pred             -CCCCCCceeeecCCEEEeeccchhhHHHHHHHhCccccCcEEEEEcCCeeEEeeeeEEhhhcCCCCccCCCCCCCCcCC
Confidence             122334556667899999999999999999999999999988875 6667775 8999999999988876664444445


Q ss_pred             HHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHH
Q 047225          155 MERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQL  189 (287)
Q Consensus       155 ~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~  189 (287)
                      .+.+..+++. +++..|++|+|..+.++.++..++
T Consensus       351 ~~~~~~~Y~~-klSgp~lDRiDl~vev~~~~~~e~  384 (490)
T COG0606         351 SPRQIKRYLN-KLSGPFLDRIDLMVEVPRLSAGEL  384 (490)
T ss_pred             CHHHHHHHHH-HhhHHHHhhhhheecccCCCHHHh
Confidence            5666666654 577899999999999999885544

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=99.59  E-value=3.1e-14  Score=133.72  Aligned_cols=191  Identities=19%  Similarity=0.196  Sum_probs=124.4

Q ss_pred             cCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhh--HHHHHH
Q 047225            9 GIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQ--LTEAVR   86 (287)
Q Consensus         9 ~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~   86 (287)
                      .+-+|.  +++++|.|+||||||++++.+++.+.. ..+++.+++...     ...++|...-.........  -...+.
T Consensus        10 ~av~p~--~g~vLl~G~~GtgKs~lar~l~~~~~~-~~pfv~i~~~~t-----~d~L~G~idl~~~~~~g~~~~~~G~L~   81 (589)
T TIGR02031        10 LAVDPS--LGGVAIRARAGTGKTALARALAEILPP-IMPFVELPLGVT-----EDRLIGGIDVEESLAGGQRVTQPGLLD   81 (589)
T ss_pred             hccCCC--cceEEEEcCCCcHHHHHHHHHHHhCCc-CCCeEecCcccc-----hhhcccchhhhhhhhcCcccCCCCCee
Confidence            344554  678999999999999999999998743 345776664211     1233332100000000000  011233


Q ss_pred             hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecC-CCceeecc-ceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           87 HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG-KGQTVDLK-NTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        87 ~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~-~g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      ..+.++||+||++++++.+++.|+++|+++.++.. .|.....+ ++++|+|+|+...                     +
T Consensus        82 ~A~~GvL~lDEi~rl~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~---------------------~  140 (589)
T TIGR02031        82 EAPRGVLYVDMANLLDDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEG---------------------G  140 (589)
T ss_pred             eCCCCcEeccchhhCCHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccc---------------------c
Confidence            34557999999999999999999999999986654 36555554 7899999998631                     1


Q ss_pred             hcCChhHHhccCceEEeCCCC-HHHHHHHHHHHHHHH--------------HHHHHhcCcEEEeChhHHHHHHHhccCC
Q 047225          165 RRFRPEFLNRIDEVIVFRQLN-KMQLMEIVDIMLKEI--------------YERLEAKNMELTVTHTFKKKLIEEGYNP  228 (287)
Q Consensus       165 ~~~~~~l~~r~~~~i~~~~~~-~~~~~~il~~~l~~~--------------~~~~~~~~~~~~i~~~~~~~l~~~~~~~  228 (287)
                      ..|+++|++||+..+.+.++. .++..+|+...+..+              ....+..-..+.++++++++++......
T Consensus       141 g~L~~~LldRf~l~v~~~~~~~~~er~eil~~~~~~~~~~~~~~~~~~~~~i~~ar~~~~~V~i~~~~~~~l~~~~~~~  219 (589)
T TIGR02031       141 GGLPDHLLDRLALHVSLEDVASQDLRVEIVRRERCNEVFRMNDELELLRGQIEAARELLPQVTISAEQVKELVLTAASL  219 (589)
T ss_pred             CCCCHHHHHhccCeeecCCCCCHHHHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhcCCccCCHHHHHHHHHHHHHc
Confidence            367899999998877776554 555677776654221              1122222235789999999999875543

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.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.58  E-value=2.5e-14  Score=130.14  Aligned_cols=187  Identities=17%  Similarity=0.217  Sum_probs=119.6

Q ss_pred             hhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcC--CCCceEEecccccccccchhhhhCCCCCCCcccchhhHH
Q 047225            5 RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFG--SKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLT   82 (287)
Q Consensus         5 ~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (287)
                      .++..+.+|++ .++++|+||+|+|||+|++++++.+..  .+..++++++.++....  ...+..       .....+.
T Consensus       119 ~~~~~~~~~~~-~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~~~~--~~~~~~-------~~~~~f~  188 (440)
T PRK14088        119 AALEVAKNPGR-YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDL--VDSMKE-------GKLNEFR  188 (440)
T ss_pred             HHHHHHhCcCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHH--HHHHhc-------ccHHHHH
Confidence            44444455655 346999999999999999999998743  24567788876654321  011100       0112344


Q ss_pred             HHHHhCCcEEEEEcCccccc--HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHH
Q 047225           83 EAVRHRPHSVILFDEIEKAH--RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVA  160 (287)
Q Consensus        83 ~~~~~~~~~il~iDeid~~~--~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~  160 (287)
                      +.+.. ...+|+|||++.+.  ...+..|+.+++....          .+..+|++++..+..+.               
T Consensus       189 ~~~~~-~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~----------~~k~iIitsd~~p~~l~---------------  242 (440)
T PRK14088        189 EKYRK-KVDVLLIDDVQFLIGKTGVQTELFHTFNELHD----------SGKQIVICSDREPQKLS---------------  242 (440)
T ss_pred             HHHHh-cCCEEEEechhhhcCcHHHHHHHHHHHHHHHH----------cCCeEEEECCCCHHHHH---------------
Confidence            43332 23599999999663  3345556555543110          01246777765443321               


Q ss_pred             HHHHhcCChhHHhccC--ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHH
Q 047225          161 EELRRRFRPEFLNRID--EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRA  238 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~--~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~  238 (287)
                           .+.+.+.+||.  ..+.+.||+.+++..|++..+...         .+.++++++++|+....   .++|.+..+
T Consensus       243 -----~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~~~~---------~~~l~~ev~~~Ia~~~~---~~~R~L~g~  305 (440)
T PRK14088        243 -----EFQDRLVSRFQMGLVAKLEPPDEETRKKIARKMLEIE---------HGELPEEVLNFVAENVD---DNLRRLRGA  305 (440)
T ss_pred             -----HHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHHHHhc---------CCCCCHHHHHHHHhccc---cCHHHHHHH
Confidence                 23467888883  468999999999999997665421         46799999999998742   367889888


Q ss_pred             HHHHHH
Q 047225          239 IGRLLE  244 (287)
Q Consensus       239 i~~~~~  244 (287)
                      +.++..
T Consensus       306 l~~l~~  311 (440)
T PRK14088        306 IIKLLV  311 (440)
T ss_pred             HHHHHH
Confidence            887754

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.58  E-value=4.7e-14  Score=128.95  Aligned_cols=137  Identities=26%  Similarity=0.383  Sum_probs=87.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCC-----CceEEecccccccccchhhhhCCCCCCCcccc--hhhHHHHHHh----
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSK-----EAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN--GGQLTEAVRH----   87 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~----   87 (287)
                      .++|+||||||||++++++++.+....     .....+++..       ..++..   +.|..+  ...+++.+..    
T Consensus       218 GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~-------~eLl~k---yvGete~~ir~iF~~Ar~~a~~  287 (512)
T TIGR03689       218 GVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKG-------PELLNK---YVGETERQIRLIFQRAREKASD  287 (512)
T ss_pred             ceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccc-------hhhccc---ccchHHHHHHHHHHHHHHHhhc
Confidence            599999999999999999999984321     1122222211       001111   111111  1233443332    


Q ss_pred             CCcEEEEEcCcccccH------------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHH
Q 047225           88 RPHSVILFDEIEKAHR------------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQM  155 (287)
Q Consensus        88 ~~~~il~iDeid~~~~------------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~  155 (287)
                      +...|+||||+|.+-.            .+.+.|+..++.-         ...++.++|+|||...              
T Consensus       288 g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl---------~~~~~ViVI~ATN~~d--------------  344 (512)
T TIGR03689       288 GRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGV---------ESLDNVIVIGASNRED--------------  344 (512)
T ss_pred             CCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhccc---------ccCCceEEEeccCChh--------------
Confidence            3458999999996521            2334555555431         0123678999999753              


Q ss_pred             HHHHHHHHHhcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHH
Q 047225          156 ERGVAEELRRRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLK  198 (287)
Q Consensus       156 ~~~~~~~~~~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~  198 (287)
                                .+++++++  ||+..|.|++|+.++..+|++.++.
T Consensus       345 ----------~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~  379 (512)
T TIGR03689       345 ----------MIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLT  379 (512)
T ss_pred             ----------hCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhh
Confidence                      45789987  9999999999999999999988874

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.

>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=99.58  E-value=2.6e-14  Score=108.85  Aligned_cols=118  Identities=32%  Similarity=0.451  Sum_probs=83.2

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCC-cEEEEEcCc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRP-HSVILFDEI   98 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~il~iDei   98 (287)
                      ++|+||||||||++++.+++.+   +.+++.++++.........          .......++..+.... .++++|||+
T Consensus         1 ill~G~~G~GKT~l~~~la~~l---~~~~~~i~~~~~~~~~~~~----------~~~~i~~~~~~~~~~~~~~vl~iDe~   67 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL---GFPFIEIDGSELISSYAGD----------SEQKIRDFFKKAKKSAKPCVLFIDEI   67 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT---TSEEEEEETTHHHTSSTTH----------HHHHHHHHHHHHHHTSTSEEEEEETG
T ss_pred             CEEECcCCCCeeHHHHHHHhhc---ccccccccccccccccccc----------cccccccccccccccccceeeeeccc
Confidence            6899999999999999999999   6888999998766321000          0001123444444444 699999999


Q ss_pred             ccccHHH-----------HHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKAHRDV-----------LNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~~~~~-----------~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |.+....           ++.|...+++..-.        ..++++|+++|...                        .+
T Consensus        68 d~l~~~~~~~~~~~~~~~~~~L~~~l~~~~~~--------~~~~~vI~ttn~~~------------------------~i  115 (132)
T PF00004_consen   68 DKLFPKSQPSSSSFEQRLLNQLLSLLDNPSSK--------NSRVIVIATTNSPD------------------------KI  115 (132)
T ss_dssp             GGTSHHCSTSSSHHHHHHHHHHHHHHHTTTTT--------SSSEEEEEEESSGG------------------------GS
T ss_pred             hhcccccccccccccccccceeeecccccccc--------cccceeEEeeCChh------------------------hC
Confidence            9876654           77888888763211        13578999998732                        45


Q ss_pred             ChhHH-hccCceEEeC
Q 047225          168 RPEFL-NRIDEVIVFR  182 (287)
Q Consensus       168 ~~~l~-~r~~~~i~~~  182 (287)
                      .+++. +||+..+.+|
T Consensus       116 ~~~l~~~rf~~~i~~~  131 (132)
T PF00004_consen  116 DPALLRSRFDRRIEFP  131 (132)
T ss_dssp             CHHHHSTTSEEEEEE-
T ss_pred             CHhHHhCCCcEEEEcC
Confidence            78999 9998888876

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 ....

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.58  E-value=5e-14  Score=131.63  Aligned_cols=187  Identities=16%  Similarity=0.174  Sum_probs=116.0

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC---------ceEEe-cccccccccchhhhhC-CCCCC
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE---------AMVRI-DMSEYMEKHTVSKFFG-SPPGY   72 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~---------~~~~~-~~~~~~~~~~~~~~~~-~~~~~   72 (287)
                      +.+++.+....-+ +.++|+||+|+|||++++.+++.+.-.+.         ++-.+ +|..+... .-.+++. .....
T Consensus        26 ~~L~~~l~~~rl~-ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C~~i~~g-~h~D~~eldaas~  103 (618)
T PRK14951         26 QALTNALTQQRLH-HAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQACRDIDSG-RFVDYTELDAASN  103 (618)
T ss_pred             HHHHHHHHcCCCC-eEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHHHHHHcC-CCCceeecCcccc
Confidence            4455555543333 34799999999999999999999842110         11000 11111100 0001110 11111


Q ss_pred             CcccchhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhc
Q 047225           73 VGFENGGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARES  148 (287)
Q Consensus        73 ~~~~~~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~  148 (287)
                      .+.+..+.+.+.+..    +++.|++|||+|.++...++.|++.+++..           ..+.||++|+...       
T Consensus       104 ~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP-----------~~~~fIL~Ttd~~-------  165 (618)
T PRK14951        104 RGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPP-----------EYLKFVLATTDPQ-------  165 (618)
T ss_pred             cCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCC-----------CCeEEEEEECCch-------
Confidence            222222333333332    346799999999999999999999999731           2456777765432       


Q ss_pred             cCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCC
Q 047225          149 ILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNP  228 (287)
Q Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~  228 (287)
                                       .+.+.+++|+ ..+.|.+++.+++.+++...+.+.         ++.++++++.+|+..+.  
T Consensus       166 -----------------kil~TIlSRc-~~~~f~~Ls~eei~~~L~~i~~~e---------gi~ie~~AL~~La~~s~--  216 (618)
T PRK14951        166 -----------------KVPVTVLSRC-LQFNLRPMAPETVLEHLTQVLAAE---------NVPAEPQALRLLARAAR--  216 (618)
T ss_pred             -----------------hhhHHHHHhc-eeeecCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC--
Confidence                             2246799999 999999999999999997776542         46789999999998653  


Q ss_pred             CCCchhHHHHHH
Q 047225          229 SYGARPLRRAIG  240 (287)
Q Consensus       229 ~~~~r~l~~~i~  240 (287)
                       .++|.+...++
T Consensus       217 -GslR~al~lLd  227 (618)
T PRK14951        217 -GSMRDALSLTD  227 (618)
T ss_pred             -CCHHHHHHHHH
Confidence             34455544444

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

Probab=99.57  E-value=7.1e-14  Score=129.79  Aligned_cols=177  Identities=27%  Similarity=0.366  Sum_probs=123.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||++|+++|..+   +.+++.++.+++....     +|...     .....++..+.....+|+||||+
T Consensus       278 giLl~GpPGtGKT~lAkava~~~---~~~fi~v~~~~l~sk~-----vGese-----k~ir~~F~~A~~~~p~iiFiDEi  344 (494)
T COG0464         278 GVLLYGPPGTGKTLLAKAVALES---RSRFISVKGSELLSKW-----VGESE-----KNIRELFEKARKLAPSIIFIDEI  344 (494)
T ss_pred             eeEEECCCCCCHHHHHHHHHhhC---CCeEEEeeCHHHhccc-----cchHH-----HHHHHHHHHHHcCCCcEEEEEch
Confidence            59999999999999999999987   7888888887665431     11100     01235566666556689999999


Q ss_pred             cccc-----------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKAH-----------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~~-----------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |.+-           ..+...|+..++.-.-         ..++++|.+||.+.                        .+
T Consensus       345 Ds~~~~r~~~~~~~~~r~~~~lL~~~d~~e~---------~~~v~vi~aTN~p~------------------------~l  391 (494)
T COG0464         345 DSLASGRGPSEDGSGRRVVGQLLTELDGIEK---------AEGVLVIAATNRPD------------------------DL  391 (494)
T ss_pred             hhhhccCCCCCchHHHHHHHHHHHHhcCCCc---------cCceEEEecCCCcc------------------------cc
Confidence            9652           2456666666653110         12467899999864                        35


Q ss_pred             ChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          168 RPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       168 ~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ++++++  ||+..+.+++|+.++..+|++..+.....        ....+-..+.++..  ..+++..++...+.++.+.
T Consensus       392 d~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~--------~~~~~~~~~~l~~~--t~~~sgadi~~i~~ea~~~  461 (494)
T COG0464         392 DPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKP--------PLAEDVDLEELAEI--TEGYSGADIAALVREAALE  461 (494)
T ss_pred             CHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCC--------cchhhhhHHHHHHH--hcCCCHHHHHHHHHHHHHH
Confidence            688888  99999999999999999999888764211        11233444444442  2335668999999999888


Q ss_pred             HHHHHH
Q 047225          246 NLAEII  251 (287)
Q Consensus       246 ~~~~~~  251 (287)
                      ++.+..
T Consensus       462 ~~~~~~  467 (494)
T COG0464         462 ALREAR  467 (494)
T ss_pred             HHHHhc
Confidence            876653

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.57  E-value=7.1e-14  Score=128.64  Aligned_cols=186  Identities=19%  Similarity=0.245  Sum_probs=114.0

Q ss_pred             hhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC---ceEEe-ccccccccc--chhhhhCCCCCCCcccch
Q 047225            5 RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE---AMVRI-DMSEYMEKH--TVSKFFGSPPGYVGFENG   78 (287)
Q Consensus         5 ~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~---~~~~~-~~~~~~~~~--~~~~~~~~~~~~~~~~~~   78 (287)
                      .++..+....-| +.++|+||||||||++++++++.+.-.+.   .+..+ .|.......  .+..+-  .....+....
T Consensus        25 ~L~~~i~~~~l~-ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~el~--~~~~~~vd~i  101 (504)
T PRK14963         25 VLLAALRQGRLG-HAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVLEID--AASNNSVEDV  101 (504)
T ss_pred             HHHHHHHcCCCC-eEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceEEec--ccccCCHHHH
Confidence            344444443322 34699999999999999999999842111   11000 011000000  000000  0111122222


Q ss_pred             hhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchH
Q 047225           79 GQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQ  154 (287)
Q Consensus        79 ~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~  154 (287)
                      +.+.+.+..    +.+.+++|||+|.++...++.|++.+++..           ..+++|++++...             
T Consensus       102 R~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~-----------~~t~~Il~t~~~~-------------  157 (504)
T PRK14963        102 RDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPP-----------EHVIFILATTEPE-------------  157 (504)
T ss_pred             HHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCC-----------CCEEEEEEcCChh-------------
Confidence            333333332    345799999999999999999999998731           2446777775432             


Q ss_pred             HHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchh
Q 047225          155 MERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARP  234 (287)
Q Consensus       155 ~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~  234 (287)
                                 .+.+.+.+|+ ..+.|.|++.+++.+++...+.+.         .+.++++++++++..+-   .++|.
T Consensus       158 -----------kl~~~I~SRc-~~~~f~~ls~~el~~~L~~i~~~e---------gi~i~~~Al~~ia~~s~---GdlR~  213 (504)
T PRK14963        158 -----------KMPPTILSRT-QHFRFRRLTEEEIAGKLRRLLEAE---------GREAEPEALQLVARLAD---GAMRD  213 (504)
T ss_pred             -----------hCChHHhcce-EEEEecCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CCHHH
Confidence                       3457888999 899999999999999997777542         45789999999998753   23344


Q ss_pred             HHHHHHH
Q 047225          235 LRRAIGR  241 (287)
Q Consensus       235 l~~~i~~  241 (287)
                      +...+++
T Consensus       214 aln~Lek  220 (504)
T PRK14963        214 AESLLER  220 (504)
T ss_pred             HHHHHHH
Confidence            4444443

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.57  E-value=4.3e-14  Score=133.31  Aligned_cols=186  Identities=18%  Similarity=0.235  Sum_probs=119.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcC-------CCCceEEecccccccccch-----hhhhCCCCCCCcccch---hhHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFG-------SKEAMVRIDMSEYMEKHTV-----SKFFGSPPGYVGFENG---GQLT   82 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~-------~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~---~~~~   82 (287)
                      +.++++|+||||||.+++.+.+.+..       ....++++||........+     ..+++..+. .|....   ..++
T Consensus       782 nvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIYqvI~qqL~g~~P~-~GlsS~evLerLF  860 (1164)
T PTZ00112        782 QILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAYQVLYKQLFNKKPP-NALNSFKILDRLF  860 (1164)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHHHHHHHHHcCCCCC-ccccHHHHHHHHH
Confidence            34679999999999999999887721       1256789999765544322     123333222 222211   1223


Q ss_pred             HHHHh--CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHH
Q 047225           83 EAVRH--RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVA  160 (287)
Q Consensus        83 ~~~~~--~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~  160 (287)
                      ..+..  ....||+|||+|.+....+..|+.+++.....   +     ..+.+|+++|.-...                 
T Consensus       861 ~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s---~-----SKLiLIGISNdlDLp-----------------  915 (1164)
T PTZ00112        861 NQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKI---N-----SKLVLIAISNTMDLP-----------------  915 (1164)
T ss_pred             hhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhcc---C-----CeEEEEEecCchhcc-----------------
Confidence            33211  22359999999999877778888888753211   1     245688888753211                 


Q ss_pred             HHHHhcCChhHHhccCce-EEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHH
Q 047225          161 EELRRRFRPEFLNRIDEV-IVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~~~-i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                          ..+.+.+.+|+... +.|+|++.+++.+|+...+...         ...++++++++++.......   .++|+++
T Consensus       916 ----erLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A---------~gVLdDdAIELIArkVAq~S---GDARKAL  979 (1164)
T PTZ00112        916 ----ERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENC---------KEIIDHTAIQLCARKVANVS---GDIRKAL  979 (1164)
T ss_pred             ----hhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhC---------CCCCCHHHHHHHHHhhhhcC---CHHHHHH
Confidence                13456788888643 9999999999999998777542         23589999999998654333   4666666


Q ss_pred             HHHHHHH
Q 047225          240 GRLLEDN  246 (287)
Q Consensus       240 ~~~~~~~  246 (287)
                      + ++..+
T Consensus       980 D-ILRrA  985 (1164)
T PTZ00112        980 Q-ICRKA  985 (1164)
T ss_pred             H-HHHHH
Confidence            5 44433

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=99.57  E-value=7.7e-14  Score=130.29  Aligned_cols=189  Identities=15%  Similarity=0.240  Sum_probs=118.4

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC----CceEEe-cccccccccchhhhhC-CCCCCCcccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK----EAMVRI-DMSEYMEKHTVSKFFG-SPPGYVGFEN   77 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~----~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~   77 (287)
                      +.++..+... +..+.++|+||+|||||++|+.+++.+.-..    .++-.+ +|..+..... .+.+. ...+..+.+.
T Consensus        26 ~~L~~~i~~~-~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~-~dv~eidaas~~~vd~  103 (559)
T PRK05563         26 KTLKNAIKQG-KISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSL-MDVIEIDAASNNGVDE  103 (559)
T ss_pred             HHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCC-CCeEEeeccccCCHHH
Confidence            3444554443 3334589999999999999999999884221    111111 1111110000 00000 0011122222


Q ss_pred             hhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCch
Q 047225           78 GGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSD  153 (287)
Q Consensus        78 ~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~  153 (287)
                      .+.+.+.+..    +++.|++|||++.+....++.|++.+++.           ...++||++++...            
T Consensus       104 ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEep-----------p~~~ifIlatt~~~------------  160 (559)
T PRK05563        104 IRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEP-----------PAHVIFILATTEPH------------  160 (559)
T ss_pred             HHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCC-----------CCCeEEEEEeCChh------------
Confidence            3344444332    34679999999999999999999999873           23556777765432            


Q ss_pred             HHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCch
Q 047225          154 QMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR  233 (287)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r  233 (287)
                                  .+.+.+.+|+ ..+.|++++..++..++...+.+.         ++.++++++..++..+.   .++|
T Consensus       161 ------------ki~~tI~SRc-~~~~f~~~~~~ei~~~L~~i~~~e---------gi~i~~~al~~ia~~s~---G~~R  215 (559)
T PRK05563        161 ------------KIPATILSRC-QRFDFKRISVEDIVERLKYILDKE---------GIEYEDEALRLIARAAE---GGMR  215 (559)
T ss_pred             ------------hCcHHHHhHh-eEEecCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CCHH
Confidence                        3467899999 889999999999999997776542         46789999999988643   3556


Q ss_pred             hHHHHHHHH
Q 047225          234 PLRRAIGRL  242 (287)
Q Consensus       234 ~l~~~i~~~  242 (287)
                      ++...+++.
T Consensus       216 ~al~~Ldq~  224 (559)
T PRK05563        216 DALSILDQA  224 (559)
T ss_pred             HHHHHHHHH
Confidence            655555543

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

Probab=99.57  E-value=8.2e-14  Score=134.57  Aligned_cols=181  Identities=17%  Similarity=0.219  Sum_probs=117.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC-------CCceEEecccccccccchhhhhCCCCCCCccc--chhhHHHHHHhCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS-------KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE--NGGQLTEAVRHRP   89 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~   89 (287)
                      +++|+||||||||++++.++..+...       +..++.++++.......          +.|-.  ....+++.+....
T Consensus       205 n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~----------~~g~~e~~l~~i~~~~~~~~  274 (731)
T TIGR02639       205 NPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTK----------YRGDFEERLKAVVSEIEKEP  274 (731)
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhcc----------ccchHHHHHHHHHHHHhccC
Confidence            69999999999999999999987332       34455666544332110          11100  1123444444445


Q ss_pred             cEEEEEcCccccc---------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHH
Q 047225           90 HSVILFDEIEKAH---------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVA  160 (287)
Q Consensus        90 ~~il~iDeid~~~---------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~  160 (287)
                      ..||||||+|.+.         .+..+.|++.++.|             .+.+|.+||+..                 ++
T Consensus       275 ~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g-------------~i~~IgaTt~~e-----------------~~  324 (731)
T TIGR02639       275 NAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSG-------------KLRCIGSTTYEE-----------------YK  324 (731)
T ss_pred             CeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCC-------------CeEEEEecCHHH-----------------HH
Confidence            6799999999663         45677888888765             345888887521                 11


Q ss_pred             HHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          161 EELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      .++  ..+++|.+|| ..|.+++|+.++..+|++.....+...     ..+.++++++..++..+..+ .+.|.+....-
T Consensus       325 ~~~--~~d~al~rRf-~~i~v~~p~~~~~~~il~~~~~~~e~~-----~~v~i~~~al~~~~~ls~ry-i~~r~~P~kai  395 (731)
T TIGR02639       325 NHF--EKDRALSRRF-QKIDVGEPSIEETVKILKGLKEKYEEF-----HHVKYSDEALEAAVELSARY-INDRFLPDKAI  395 (731)
T ss_pred             HHh--hhhHHHHHhC-ceEEeCCCCHHHHHHHHHHHHHHHHhc-----cCcccCHHHHHHHHHhhhcc-cccccCCHHHH
Confidence            111  1258999999 689999999999999998877664322     24789999999999875433 22244333323


Q ss_pred             HHHHHHHH
Q 047225          241 RLLEDNLA  248 (287)
Q Consensus       241 ~~~~~~~~  248 (287)
                      +++..+-+
T Consensus       396 ~lld~a~a  403 (731)
T TIGR02639       396 DVIDEAGA  403 (731)
T ss_pred             HHHHHhhh
Confidence            34544443

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

Probab=99.57  E-value=1.5e-14  Score=120.44  Aligned_cols=192  Identities=19%  Similarity=0.274  Sum_probs=131.9

Q ss_pred             CCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCC
Q 047225           10 IRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRP   89 (287)
Q Consensus        10 ~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (287)
                      .+...+|+..++|+||||||||.||+++|...   +..++.+.-++....     ..|....     ....++++.++..
T Consensus       159 FtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA---nSTFFSvSSSDLvSK-----WmGESEk-----LVknLFemARe~k  225 (439)
T KOG0739|consen  159 FTGKRKPWRGILLYGPPGTGKSYLAKAVATEA---NSTFFSVSSSDLVSK-----WMGESEK-----LVKNLFEMARENK  225 (439)
T ss_pred             hcCCCCcceeEEEeCCCCCcHHHHHHHHHhhc---CCceEEeehHHHHHH-----HhccHHH-----HHHHHHHHHHhcC
Confidence            34456777789999999999999999999987   577777777765532     2221100     1246788888888


Q ss_pred             cEEEEEcCcccc-----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHH
Q 047225           90 HSVILFDEIEKA-----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERG  158 (287)
Q Consensus        90 ~~il~iDeid~~-----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~  158 (287)
                      .+|+||||||-+           ...+-..|+--|+ |.-       .+-..+.|..++|.+-                 
T Consensus       226 PSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMq-GVG-------~d~~gvLVLgATNiPw-----------------  280 (439)
T KOG0739|consen  226 PSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQ-GVG-------NDNDGVLVLGATNIPW-----------------  280 (439)
T ss_pred             CcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhh-ccc-------cCCCceEEEecCCCch-----------------
Confidence            899999999954           1223333433343 211       1123457788888863                 


Q ss_pred             HHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHH
Q 047225          159 VAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRA  238 (287)
Q Consensus       159 ~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~  238 (287)
                             .++.++.+||...|++|-|........++..+..         ..-.+++.-...++..+.  +++..++.-+
T Consensus       281 -------~LDsAIRRRFekRIYIPLPe~~AR~~MF~lhlG~---------tp~~LT~~d~~eL~~kTe--GySGsDisiv  342 (439)
T KOG0739|consen  281 -------VLDSAIRRRFEKRIYIPLPEAHARARMFKLHLGD---------TPHVLTEQDFKELARKTE--GYSGSDISIV  342 (439)
T ss_pred             -------hHHHHHHHHhhcceeccCCcHHHhhhhheeccCC---------CccccchhhHHHHHhhcC--CCCcCceEEE
Confidence                   2457888999888999999988877777555432         245788888999988643  4455688888


Q ss_pred             HHHHHHHHHHHHHHhccCC
Q 047225          239 IGRLLEDNLAEIILTGYIQ  257 (287)
Q Consensus       239 i~~~~~~~~~~~~~~~~~~  257 (287)
                      +.++++..+.+...-..++
T Consensus       343 VrDalmePvRkvqsAthFk  361 (439)
T KOG0739|consen  343 VRDALMEPVRKVQSATHFK  361 (439)
T ss_pred             ehhhhhhhHHHhhhhhhhh
Confidence            8888888887765444443

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.56  E-value=1.2e-13  Score=121.26  Aligned_cols=161  Identities=23%  Similarity=0.373  Sum_probs=108.1

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC--ceEEecccccccccchhhhhCCCCCCCcccchhh
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE--AMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQ   80 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (287)
                      ++.++..+...+.|  +++|+||+|||||++++.+++.+.....  .++.+++++........               ..
T Consensus        26 ~~~l~~~i~~~~~~--~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~~~---------------~~   88 (319)
T PRK00440         26 VERLKSYVKEKNMP--HLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERGIDVIR---------------NK   88 (319)
T ss_pred             HHHHHHHHhCCCCC--eEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccchHHHH---------------HH
Confidence            34555555554433  6999999999999999999999854432  23334333211110000               11


Q ss_pred             HHHHHHh-----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHH
Q 047225           81 LTEAVRH-----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQM  155 (287)
Q Consensus        81 ~~~~~~~-----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~  155 (287)
                      +......     .+..+++|||++.+..+.++.|+++++...           +.+.+|+++|...              
T Consensus        89 i~~~~~~~~~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~-----------~~~~lIl~~~~~~--------------  143 (319)
T PRK00440         89 IKEFARTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYS-----------QNTRFILSCNYSS--------------  143 (319)
T ss_pred             HHHHHhcCCCCCCCceEEEEeCcccCCHHHHHHHHHHHhcCC-----------CCCeEEEEeCCcc--------------
Confidence            1122211     234699999999999999999999988631           2346777776532              


Q ss_pred             HHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          156 ERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       156 ~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                                .+.+++.+|+ ..+.|+|++.+++..++...+.+.         .+.++++++++++..+
T Consensus       144 ----------~l~~~l~sr~-~~~~~~~l~~~ei~~~l~~~~~~~---------~~~i~~~al~~l~~~~  193 (319)
T PRK00440        144 ----------KIIDPIQSRC-AVFRFSPLKKEAVAERLRYIAENE---------GIEITDDALEAIYYVS  193 (319)
T ss_pred             ----------ccchhHHHHh-heeeeCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHc
Confidence                      2346788898 789999999999999987766532         4578999999999874

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=99.56  E-value=2e-13  Score=125.44  Aligned_cols=190  Identities=14%  Similarity=0.229  Sum_probs=115.8

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC----ceEEe-cccccccccchhhhhCCCCCCCcccch
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE----AMVRI-DMSEYMEKHTVSKFFGSPPGYVGFENG   78 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~----~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (287)
                      +.++..+.... -.+.++|+||+|+|||++|+.+++.+.....    ++..+ +|..........-+.+......+.+..
T Consensus        24 ~~L~~~I~~gr-l~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~eldaas~~gId~I  102 (535)
T PRK08451         24 KTLSLALDNNR-LAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDIIEMDAASNRGIDDI  102 (535)
T ss_pred             HHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEEEeccccccCHHHH
Confidence            34444444432 2234799999999999999999999843211    11111 111110000000000011111111111


Q ss_pred             hhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchH
Q 047225           79 GQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQ  154 (287)
Q Consensus        79 ~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~  154 (287)
                      ..+.+....    +++.|++|||++.++.+.+++|++.+++.           .+.+.||++++...             
T Consensus       103 Relie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEp-----------p~~t~FIL~ttd~~-------------  158 (535)
T PRK08451        103 RELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEP-----------PSYVKFILATTDPL-------------  158 (535)
T ss_pred             HHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhc-----------CCceEEEEEECChh-------------
Confidence            222222111    34679999999999999999999999973           13456777775431             


Q ss_pred             HHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchh
Q 047225          155 MERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARP  234 (287)
Q Consensus       155 ~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~  234 (287)
                                 .+.+.+.+|+ ..+.|.|++.+++...+...+.+.         ++.++++++..++..+.   .++|.
T Consensus       159 -----------kL~~tI~SRc-~~~~F~~Ls~~ei~~~L~~Il~~E---------Gi~i~~~Al~~Ia~~s~---GdlR~  214 (535)
T PRK08451        159 -----------KLPATILSRT-QHFRFKQIPQNSIISHLKTILEKE---------GVSYEPEALEILARSGN---GSLRD  214 (535)
T ss_pred             -----------hCchHHHhhc-eeEEcCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CcHHH
Confidence                       3457899998 899999999999999997776542         35789999999988753   34455


Q ss_pred             HHHHHHHH
Q 047225          235 LRRAIGRL  242 (287)
Q Consensus       235 l~~~i~~~  242 (287)
                      +...++++
T Consensus       215 alnlLdqa  222 (535)
T PRK08451        215 TLTLLDQA  222 (535)
T ss_pred             HHHHHHHH
Confidence            55555443

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.55  E-value=2.2e-13  Score=132.75  Aligned_cols=184  Identities=15%  Similarity=0.207  Sum_probs=114.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCC-------CceEEecccccccccchhhhhCCCCCCCccc--chhhHHHHHH-h
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSK-------EAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE--NGGQLTEAVR-H   87 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~-~   87 (287)
                      ++++|+||||||||++++.++..+....       ..++.++++.....          ..+.|-.  ....+++.+. .
T Consensus       209 ~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag----------~~~~ge~e~~lk~ii~e~~~~  278 (852)
T TIGR03345       209 NNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAG----------ASVKGEFENRLKSVIDEVKAS  278 (852)
T ss_pred             CceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcc----------cccchHHHHHHHHHHHHHHhc
Confidence            3689999999999999999999884322       23444444432211          0111111  1123444443 3


Q ss_pred             CCcEEEEEcCcccccH--------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHH
Q 047225           88 RPHSVILFDEIEKAHR--------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGV  159 (287)
Q Consensus        88 ~~~~il~iDeid~~~~--------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~  159 (287)
                      ....||||||++.+..        +.-+.|.+.++.|             ...+|.+|++..                 +
T Consensus       279 ~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G-------------~l~~IgaTT~~e-----------------~  328 (852)
T TIGR03345       279 PQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALARG-------------ELRTIAATTWAE-----------------Y  328 (852)
T ss_pred             CCCeEEEEeChHHhccCCCccccccHHHHhhHHhhCC-------------CeEEEEecCHHH-----------------H
Confidence            4457999999997742        3334678888765             345888887631                 1


Q ss_pred             HHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHH
Q 047225          160 AEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       160 ~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                      +.+.  ..+++|.+|| ..|.+++|+.++..+|+......+...     ..+.++++++..++..+..+ .+.|.+....
T Consensus       329 ~~~~--~~d~AL~rRf-~~i~v~eps~~~~~~iL~~~~~~~e~~-----~~v~i~d~al~~~~~ls~ry-i~~r~LPDKA  399 (852)
T TIGR03345       329 KKYF--EKDPALTRRF-QVVKVEEPDEETAIRMLRGLAPVLEKH-----HGVLILDEAVVAAVELSHRY-IPGRQLPDKA  399 (852)
T ss_pred             hhhh--hccHHHHHhC-eEEEeCCCCHHHHHHHHHHHHHhhhhc-----CCCeeCHHHHHHHHHHcccc-cccccCccHH
Confidence            1111  2368999999 799999999999999986555443322     25789999999999876443 3334443333


Q ss_pred             HHHHHHHHHHH
Q 047225          240 GRLLEDNLAEI  250 (287)
Q Consensus       240 ~~~~~~~~~~~  250 (287)
                      -+++..+-+..
T Consensus       400 Idlldea~a~~  410 (852)
T TIGR03345       400 VSLLDTACARV  410 (852)
T ss_pred             HHHHHHHHHHH
Confidence            33555443333

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.

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

Probab=99.55  E-value=2.3e-13  Score=116.01  Aligned_cols=116  Identities=23%  Similarity=0.361  Sum_probs=91.1

Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChh
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      +||||||++.++-+...+|.+.++..-.+            ++|++||.+-..+.+.+...=+            -++.+
T Consensus       293 GVLFIDEvHmLDIE~FsFlnrAlEse~aP------------Iii~AtNRG~~kiRGTd~~sPh------------GIP~D  348 (450)
T COG1224         293 GVLFIDEVHMLDIECFSFLNRALESELAP------------IIILATNRGMTKIRGTDIESPH------------GIPLD  348 (450)
T ss_pred             ceEEEechhhhhHHHHHHHHHHhhcccCc------------EEEEEcCCceeeecccCCcCCC------------CCCHh
Confidence            89999999999999999999999974322            6999999987766554321111            36789


Q ss_pred             HHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHH
Q 047225          171 FLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDN  246 (287)
Q Consensus       171 l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~  246 (287)
                      |++|+ .+|...|++.+++++|++......         .+.+++++++++++....     ..||.+++ ++.++
T Consensus       349 lLDRl-lII~t~py~~~EireIi~iRa~ee---------~i~l~~~Ale~L~~ig~e-----tSLRYa~q-LL~pa  408 (450)
T COG1224         349 LLDRL-LIISTRPYSREEIREIIRIRAKEE---------DIELSDDALEYLTDIGEE-----TSLRYAVQ-LLTPA  408 (450)
T ss_pred             hhhhe-eEEecCCCCHHHHHHHHHHhhhhh---------ccccCHHHHHHHHhhchh-----hhHHHHHH-hccHH
Confidence            99999 999999999999999997666542         689999999999987532     46777776 44443

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=99.55  E-value=6.5e-14  Score=116.85  Aligned_cols=191  Identities=24%  Similarity=0.365  Sum_probs=125.4

Q ss_pred             CCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC--CceEEecccc--cccccchhhhhCCCCCCCcccchhhHHHHHHh
Q 047225           12 DPNRPISSFLFTGPTGVGKTELANALAFEYFGSK--EAMVRIDMSE--YMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH   87 (287)
Q Consensus        12 ~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~--~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (287)
                      +|.+|+ .+.|.|++||||+..++.||+.++..+  .+++..-...  +.....+..        ...+..+++.+-++.
T Consensus       106 ~p~KPL-vLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~~~ie~--------Yk~eL~~~v~~~v~~  176 (344)
T KOG2170|consen  106 NPRKPL-VLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHASKIED--------YKEELKNRVRGTVQA  176 (344)
T ss_pred             CCCCCe-EEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCChHHHHH--------HHHHHHHHHHHHHHh
Confidence            478998 799999999999999999999985543  2222111111  111111100        001113567788888


Q ss_pred             CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhh----ccCC-------chHHH
Q 047225           88 RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARE----SILG-------SDQME  156 (287)
Q Consensus        88 ~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~----~~~~-------~~~~~  156 (287)
                      +++++++|||+|++++++++.|..+++.....    .-+++.+.++|+.+|.++..+.+-    -..|       ..+++
T Consensus       177 C~rslFIFDE~DKmp~gLld~lkpfLdyyp~v----~gv~frkaIFIfLSN~gg~eI~~~aL~~~~~g~~re~~~l~~~E  252 (344)
T KOG2170|consen  177 CQRSLFIFDEVDKLPPGLLDVLKPFLDYYPQV----SGVDFRKAIFIFLSNAGGSEIARIALENARNGKPREQLRLKSFE  252 (344)
T ss_pred             cCCceEEechhhhcCHhHHHHHhhhhcccccc----ccccccceEEEEEcCCcchHHHHHHHHHHHcCCCcccchhhhhh
Confidence            99999999999999999999999999963222    235677899999999988666532    1122       33333


Q ss_pred             HHHHHHHHh-----cCChhHH--hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHh
Q 047225          157 RGVAEELRR-----RFRPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEE  224 (287)
Q Consensus       157 ~~~~~~~~~-----~~~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~  224 (287)
                      ..+......     .....++  .++|+.|+|.|+++.++...++-.+.+       +  .+..+++.++.+++.
T Consensus       253 ~~L~~~~~n~~~~Gl~~S~li~~~lid~fIPFLPLek~hV~~C~r~el~~-------r--g~~~d~~~~erva~~  318 (344)
T KOG2170|consen  253 PALMQSAFNEKAGGLVHSRLISNNLIDHFIPFLPLEKRHVRSCIRAELRK-------R--GLAPDQDFVERVANS  318 (344)
T ss_pred             HHHHHhhhccccccccccccchhhHHhhccCcCcccHHHHHHHHHHHHHh-------c--ccccchHHHHHHHHh
Confidence            333221110     0111111  445777999999999999999655543       2  367888999998865

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=99.55  E-value=1.1e-13  Score=119.43  Aligned_cols=111  Identities=22%  Similarity=0.350  Sum_probs=76.2

Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChh
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      +||||||++.++.+-...|.++++..--+            ++|++||.+...+.+.+...-+            .+|.+
T Consensus       280 GVLFIDEvHmLDiEcFsfLnralEs~~sP------------iiIlATNRg~~~irGt~~~sph------------GiP~D  335 (398)
T PF06068_consen  280 GVLFIDEVHMLDIECFSFLNRALESELSP------------IIILATNRGITKIRGTDIISPH------------GIPLD  335 (398)
T ss_dssp             -EEEEESGGGSBHHHHHHHHHHHTSTT--------------EEEEEES-SEEE-BTTS-EEET------------T--HH
T ss_pred             ceEEecchhhccHHHHHHHHHHhcCCCCc------------EEEEecCceeeeccCccCcCCC------------CCCcc
Confidence            89999999999999999999999974322            6999999987765443221111            36789


Q ss_pred             HHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          171 FLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       171 l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      |++|+ .+|...|++.+++++|+...++..         .+.+++++++.+...+..     ..||.+++
T Consensus       336 lLDRl-lII~t~py~~~ei~~Il~iR~~~E---------~v~i~~~al~~L~~ig~~-----~SLRYAiq  390 (398)
T PF06068_consen  336 LLDRL-LIIRTKPYSEEEIKQILKIRAKEE---------DVEISEDALDLLTKIGVE-----TSLRYAIQ  390 (398)
T ss_dssp             HHTTE-EEEEE----HHHHHHHHHHHHHHC---------T--B-HHHHHHHHHHHHH-----S-HHHHHH
T ss_pred             hHhhc-EEEECCCCCHHHHHHHHHhhhhhh---------cCcCCHHHHHHHHHHhhh-----ccHHHHHH
Confidence            99999 999999999999999997776542         689999999999987542     35666666

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.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.55  E-value=6.4e-14  Score=122.53  Aligned_cols=143  Identities=16%  Similarity=0.181  Sum_probs=94.4

Q ss_pred             HhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecC-CCceeecc-ceEEEEeecCCchhhhhhccCCchHHHHHHHHHH
Q 047225           86 RHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG-KGQTVDLK-NTIIIMTSNIGDSVIARESILGSDQMERGVAEEL  163 (287)
Q Consensus        86 ~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~-~g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~  163 (287)
                      ....++++|+||++++++..|..|+++|+++..... .|.....+ .+++|.++|+..                      
T Consensus       128 ~~A~~GvL~lDEi~~L~~~~Q~~Ll~~l~~g~~~v~r~G~~~~~~~r~iviat~np~e----------------------  185 (337)
T TIGR02030       128 ARANRGILYIDEVNLLEDHLVDVLLDVAASGWNVVEREGISIRHPARFVLVGSGNPEE----------------------  185 (337)
T ss_pred             eeccCCEEEecChHhCCHHHHHHHHHHHHhCCeEEEECCEEEEcCCCEEEEecccccc----------------------
Confidence            334557999999999999999999999998864332 35555554 677777877642                      


Q ss_pred             HhcCChhHHhccCceEEeCCCCH-HHHHHHHHHHHHH--------------------HHHHHHhcCcEEEeChhHHHHHH
Q 047225          164 RRRFRPEFLNRIDEVIVFRQLNK-MQLMEIVDIMLKE--------------------IYERLEAKNMELTVTHTFKKKLI  222 (287)
Q Consensus       164 ~~~~~~~l~~r~~~~i~~~~~~~-~~~~~il~~~l~~--------------------~~~~~~~~~~~~~i~~~~~~~l~  222 (287)
                       +.|+++|++||...+.+++++. ++..+|+......                    ....++..-..+.++++++++++
T Consensus       186 -g~l~~~LldRf~l~i~l~~p~~~eer~eIL~~~~~~~~~~~~~~~~~~~e~~~~~~~I~~a~~~~~~V~v~d~~~~~i~  264 (337)
T TIGR02030       186 -GELRPQLLDRFGLHAEIRTVRDVELRVEIVERRTEYDADPHAFCEKWQTEQEALQAKIVNAQNLLPQVTIPYDVLVKVA  264 (337)
T ss_pred             -CCCCHHHHhhcceEEECCCCCCHHHHHHHHHhhhhcccCchhhhhhhhhhhhcCHHHHHHHHHHhccCcCCHHHHHHHH
Confidence             2578999999998899999986 6767777653211                    00111111124789999999998


Q ss_pred             HhccCCCC-CchhHHHHHHHHHHHHHHHHHHhcc
Q 047225          223 EEGYNPSY-GARPLRRAIGRLLEDNLAEIILTGY  255 (287)
Q Consensus       223 ~~~~~~~~-~~r~l~~~i~~~~~~~~~~~~~~~~  255 (287)
                      +....... |.|..    ..++..+.+.+.++++
T Consensus       265 ~l~~~~~~~s~Ra~----i~l~raArA~Aal~GR  294 (337)
T TIGR02030       265 ELCAELDVDGLRGE----LTLNRAAKALAAFEGR  294 (337)
T ss_pred             HHHHHHCCCCCcHH----HHHHHHHHHHHHHcCC
Confidence            76433222 33332    2255555566666654

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.

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.55  E-value=1.2e-13  Score=128.44  Aligned_cols=162  Identities=19%  Similarity=0.299  Sum_probs=104.3

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCC----CceEEe-ccccccccc--chhhhhCCCCCCCcccchhhHHHHHH----
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSK----EAMVRI-DMSEYMEKH--TVSKFFGSPPGYVGFENGGQLTEAVR----   86 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~----~~~~~~-~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~----   86 (287)
                      +.++|+||+|||||++|+.+++.+.-..    .++-.+ .|.......  .+..+.+  ....+.+..+.+.+.+.    
T Consensus        39 ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpDv~eId~--a~~~~Id~iR~L~~~~~~~p~  116 (624)
T PRK14959         39 PAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVDVVEIDG--ASNRGIDDAKRLKEAIGYAPM  116 (624)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCceEEEec--ccccCHHHHHHHHHHHHhhhh
Confidence            4699999999999999999999984221    111110 000000000  0000100  11122222233333333    


Q ss_pred             hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           87 HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        87 ~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                      .+.+.|+||||+|.++...++.|++.+++..           ..++||++++...                        .
T Consensus       117 ~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~-----------~~~ifILaTt~~~------------------------k  161 (624)
T PRK14959        117 EGRYKVFIIDEAHMLTREAFNALLKTLEEPP-----------ARVTFVLATTEPH------------------------K  161 (624)
T ss_pred             cCCceEEEEEChHhCCHHHHHHHHHHhhccC-----------CCEEEEEecCChh------------------------h
Confidence            2456799999999999999999999999731           2456777776432                        2


Q ss_pred             CChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhcc
Q 047225          167 FRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGY  226 (287)
Q Consensus       167 ~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~  226 (287)
                      +.+.+.+|+ ..+.|++++.+++.+++...+.+.         .+.+++++++.|+..+.
T Consensus       162 ll~TI~SRc-q~i~F~pLs~~eL~~~L~~il~~e---------gi~id~eal~lIA~~s~  211 (624)
T PRK14959        162 FPVTIVSRC-QHFTFTRLSEAGLEAHLTKVLGRE---------GVDYDPAAVRLIARRAA  211 (624)
T ss_pred             hhHHHHhhh-hccccCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC
Confidence            345788999 889999999999999997765432         35689999999998753

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=99.55  E-value=1.2e-13  Score=130.19  Aligned_cols=190  Identities=17%  Similarity=0.287  Sum_probs=119.8

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc--cchhhhhCCCCCCCcccchhh
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK--HTVSKFFGSPPGYVGFENGGQ   80 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~   80 (287)
                      ++.++..+... +..+.++|+||+|+|||++|+.+|+.+...........|......  ....-+.+...+..+....+.
T Consensus        27 v~~L~~aI~~~-rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dvieidaasn~~vd~IRe  105 (725)
T PRK07133         27 VQTLKNIIKSN-KISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDIIEMDAASNNGVDEIRE  105 (725)
T ss_pred             HHHHHHHHHcC-CCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEEEEeccccCCHHHHHH
Confidence            34455555543 333458999999999999999999998432211000111111000  000000011112223333344


Q ss_pred             HHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHH
Q 047225           81 LTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQME  156 (287)
Q Consensus        81 ~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~  156 (287)
                      +.+.+..    +++.|++|||++.+....+++|++.+++.           .+.+++|++++...               
T Consensus       106 Lie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEP-----------P~~tifILaTte~~---------------  159 (725)
T PRK07133        106 LIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEP-----------PKHVIFILATTEVH---------------  159 (725)
T ss_pred             HHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcC-----------CCceEEEEEcCChh---------------
Confidence            5555443    44579999999999999999999999973           12456777765322               


Q ss_pred             HHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHH
Q 047225          157 RGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLR  236 (287)
Q Consensus       157 ~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~  236 (287)
                               .+.+.+.+|| ..+.|.|++.+++.+++...+.+.         ++.++++++..++..+.   .++|.+.
T Consensus       160 ---------KLl~TI~SRc-q~ieF~~L~~eeI~~~L~~il~ke---------gI~id~eAl~~LA~lS~---GslR~Al  217 (725)
T PRK07133        160 ---------KIPLTILSRV-QRFNFRRISEDEIVSRLEFILEKE---------NISYEKNALKLIAKLSS---GSLRDAL  217 (725)
T ss_pred             ---------hhhHHHHhhc-eeEEccCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CCHHHHH
Confidence                     3457899999 899999999999999997766542         36788899999888653   3445555


Q ss_pred             HHHHH
Q 047225          237 RAIGR  241 (287)
Q Consensus       237 ~~i~~  241 (287)
                      ..+++
T Consensus       218 slLek  222 (725)
T PRK07133        218 SIAEQ  222 (725)
T ss_pred             HHHHH
Confidence            55554

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.54  E-value=1.2e-13  Score=128.24  Aligned_cols=189  Identities=15%  Similarity=0.197  Sum_probs=116.6

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc-----ccchhhhhC-CCCCCCcccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME-----KHTVSKFFG-SPPGYVGFEN   77 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~-----~~~~~~~~~-~~~~~~~~~~   77 (287)
                      +.++..+.... ..+.++|+||+|+|||++|+.+++.+.-... ...-.|.....     .....+++. ......+.+.
T Consensus        26 ~~L~~~i~~~~-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~-~~~~pcg~C~~C~~i~~~~~~d~~ei~~~~~~~vd~  103 (527)
T PRK14969         26 RALTNALEQQR-LHHAYLFTGTRGVGKTTLARILAKSLNCETG-VTATPCGVCSACLEIDSGRFVDLIEVDAASNTQVDA  103 (527)
T ss_pred             HHHHHHHHcCC-CCEEEEEECCCCCCHHHHHHHHHHHhcCCCC-CCCCCCCCCHHHHHHhcCCCCceeEeeccccCCHHH
Confidence            34444444432 2234799999999999999999999843211 00011211100     000001110 0011122222


Q ss_pred             hhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCch
Q 047225           78 GGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSD  153 (287)
Q Consensus        78 ~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~  153 (287)
                      .+.+.+.+..    +++.|++|||+|+++...++.|++.+++..           ..+.||++|+...            
T Consensus       104 ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp-----------~~~~fIL~t~d~~------------  160 (527)
T PRK14969        104 MRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPP-----------EHVKFILATTDPQ------------  160 (527)
T ss_pred             HHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCC-----------CCEEEEEEeCChh------------
Confidence            3334443332    345799999999999999999999999731           2456777665432            


Q ss_pred             HHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCch
Q 047225          154 QMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR  233 (287)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r  233 (287)
                                  .+.+.+.+|| ..+.|.+++.+++.+.+...+.+.         .+.++++++..++..+.   .++|
T Consensus       161 ------------kil~tI~SRc-~~~~f~~l~~~~i~~~L~~il~~e---------gi~~~~~al~~la~~s~---Gslr  215 (527)
T PRK14969        161 ------------KIPVTVLSRC-LQFNLKQMPPPLIVSHLQHILEQE---------NIPFDATALQLLARAAA---GSMR  215 (527)
T ss_pred             ------------hCchhHHHHH-HHHhcCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CCHH
Confidence                        2345789999 999999999999999997776542         35789999999988753   3445


Q ss_pred             hHHHHHHHH
Q 047225          234 PLRRAIGRL  242 (287)
Q Consensus       234 ~l~~~i~~~  242 (287)
                      .+.+.++++
T Consensus       216 ~al~lldqa  224 (527)
T PRK14969        216 DALSLLDQA  224 (527)
T ss_pred             HHHHHHHHH
Confidence            555555443

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.54  E-value=1.6e-13  Score=128.68  Aligned_cols=189  Identities=19%  Similarity=0.255  Sum_probs=118.6

Q ss_pred             hhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC----ceEEe-cccccccccchhhhhCCCCCCCcccchh
Q 047225            5 RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE----AMVRI-DMSEYMEKHTVSKFFGSPPGYVGFENGG   79 (287)
Q Consensus         5 ~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~----~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (287)
                      .++..+... +..+.++|+||+|+|||++++.+++.+.-...    ++-.+ .|..+.......-+.-...+..+.+..+
T Consensus        27 ~L~~~i~~~-~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d~~eid~~s~~~v~~ir  105 (576)
T PRK14965         27 TLQNAIDTG-RVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVDVFEIDGASNTGVDDIR  105 (576)
T ss_pred             HHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCCeeeeeccCccCHHHHH
Confidence            344444432 33345899999999999999999999843211    11111 0111110000000000111112223333


Q ss_pred             hHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHH
Q 047225           80 QLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQM  155 (287)
Q Consensus        80 ~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~  155 (287)
                      .+.+.+..    .++.|++|||+|.++...+++|++.+++.           .++++||++|+...              
T Consensus       106 ~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEep-----------p~~~~fIl~t~~~~--------------  160 (576)
T PRK14965        106 ELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEP-----------PPHVKFIFATTEPH--------------  160 (576)
T ss_pred             HHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcC-----------CCCeEEEEEeCChh--------------
Confidence            44444433    34579999999999999999999999973           23557787776432              


Q ss_pred             HHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhH
Q 047225          156 ERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPL  235 (287)
Q Consensus       156 ~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l  235 (287)
                                .+.+.+.+|+ ..+.|.+++.+++...+...+.+.         .+.++++++..++..+.   .++|.+
T Consensus       161 ----------kl~~tI~SRc-~~~~f~~l~~~~i~~~L~~i~~~e---------gi~i~~~al~~la~~a~---G~lr~a  217 (576)
T PRK14965        161 ----------KVPITILSRC-QRFDFRRIPLQKIVDRLRYIADQE---------GISISDAALALVARKGD---GSMRDS  217 (576)
T ss_pred             ----------hhhHHHHHhh-hhhhcCCCCHHHHHHHHHHHHHHh---------CCCCCHHHHHHHHHHcC---CCHHHH
Confidence                      3456899999 899999999999999987776542         46789999999988754   344555


Q ss_pred             HHHHHHH
Q 047225          236 RRAIGRL  242 (287)
Q Consensus       236 ~~~i~~~  242 (287)
                      ...++++
T Consensus       218 l~~Ldql  224 (576)
T PRK14965        218 LSTLDQV  224 (576)
T ss_pred             HHHHHHH
Confidence            5555443

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

Probab=99.54  E-value=8.9e-14  Score=113.33  Aligned_cols=140  Identities=32%  Similarity=0.457  Sum_probs=101.9

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      .|. .++|+||||||||.+++++|+..   .-.++.++.++..     +..+|..     ..-.+.++-+.++...+|+|
T Consensus       180 QPK-GvlLygppgtGktLlaraVahht---~c~firvsgselv-----qk~igeg-----srmvrelfvmarehapsiif  245 (404)
T KOG0728|consen  180 QPK-GVLLYGPPGTGKTLLARAVAHHT---DCTFIRVSGSELV-----QKYIGEG-----SRMVRELFVMAREHAPSIIF  245 (404)
T ss_pred             CCc-ceEEecCCCCchhHHHHHHHhhc---ceEEEEechHHHH-----HHHhhhh-----HHHHHHHHHHHHhcCCceEe
Confidence            344 49999999999999999999876   5667777766544     3444421     11124566677777779999


Q ss_pred             EcCcccc-----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHH
Q 047225           95 FDEIEKA-----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEEL  163 (287)
Q Consensus        95 iDeid~~-----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~  163 (287)
                      +||+|-.           +.++|...+.+++.-.-...      ..+.-+|+++|.-.                      
T Consensus       246 mdeidsigs~r~e~~~ggdsevqrtmlellnqldgfea------tknikvimatnrid----------------------  297 (404)
T KOG0728|consen  246 MDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEA------TKNIKVIMATNRID----------------------  297 (404)
T ss_pred             eecccccccccccCCCCccHHHHHHHHHHHHhcccccc------ccceEEEEeccccc----------------------
Confidence            9999943           66889888888875321111      13678999999742                      


Q ss_pred             HhcCChhHH--hccCceEEeCCCCHHHHHHHHHHHHH
Q 047225          164 RRRFRPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLK  198 (287)
Q Consensus       164 ~~~~~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~  198 (287)
                        .++|+|+  .|+|..|.||||+.+...+|++..-.
T Consensus       298 --ild~allrpgridrkiefp~p~e~ar~~ilkihsr  332 (404)
T KOG0728|consen  298 --ILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSR  332 (404)
T ss_pred             --cccHhhcCCCcccccccCCCCCHHHHHHHHHHhhh
Confidence              3456777  79999999999999999999965543

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.53  E-value=1.7e-13  Score=125.69  Aligned_cols=189  Identities=20%  Similarity=0.277  Sum_probs=117.3

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC----CceEE-ecccccccccchhhhh-CCCCCCCcccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK----EAMVR-IDMSEYMEKHTVSKFF-GSPPGYVGFEN   77 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~----~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~~   77 (287)
                      +.++..+.. ++..+.++|+||+|+|||++|+.+|+.+....    .++-. .+|..+.... ..+++ .......|.+.
T Consensus        26 ~~L~~~i~~-~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~-~~d~~eidaas~~gvd~  103 (486)
T PRK14953         26 RILKNAVKL-QRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGS-FPDLIEIDAASNRGIDD  103 (486)
T ss_pred             HHHHHHHHc-CCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCC-CCcEEEEeCccCCCHHH
Confidence            344444444 23334578999999999999999999984211    11111 1121111100 00000 01111122222


Q ss_pred             hhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCch
Q 047225           78 GGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSD  153 (287)
Q Consensus        78 ~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~  153 (287)
                      .+.+.+.+..    +.+.|++|||+|.++...++.|++.+++.           .+.+++|++++...            
T Consensus       104 ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEep-----------p~~~v~Il~tt~~~------------  160 (486)
T PRK14953        104 IRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEP-----------PPRTIFILCTTEYD------------  160 (486)
T ss_pred             HHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcC-----------CCCeEEEEEECCHH------------
Confidence            3344444443    34579999999999999999999999873           13456776665321            


Q ss_pred             HHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCch
Q 047225          154 QMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR  233 (287)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r  233 (287)
                                  .+.+.+.+|+ ..+.|+|++.+++..++...+...         .+.+++++++.++..+.   .++|
T Consensus       161 ------------kl~~tI~SRc-~~i~f~~ls~~el~~~L~~i~k~e---------gi~id~~al~~La~~s~---G~lr  215 (486)
T PRK14953        161 ------------KIPPTILSRC-QRFIFSKPTKEQIKEYLKRICNEE---------KIEYEEKALDLLAQASE---GGMR  215 (486)
T ss_pred             ------------HHHHHHHHhc-eEEEcCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CCHH
Confidence                        2346788999 789999999999999997776542         35789999999987643   3455


Q ss_pred             hHHHHHHHH
Q 047225          234 PLRRAIGRL  242 (287)
Q Consensus       234 ~l~~~i~~~  242 (287)
                      .+.+.++++
T Consensus       216 ~al~~Ldkl  224 (486)
T PRK14953        216 DAASLLDQA  224 (486)
T ss_pred             HHHHHHHHH
Confidence            555555544

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

Probab=99.53  E-value=2.1e-13  Score=130.62  Aligned_cols=188  Identities=18%  Similarity=0.239  Sum_probs=117.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccc--hhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN--GGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~il~iD   96 (287)
                      +++|+||||||||++++.++..+.....+....++.-+...  ...++. ...+.|-.+  ...+++.+......+||||
T Consensus       209 n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~--~~~lla-G~~~~Ge~e~rl~~l~~~l~~~~~~ILfID  285 (758)
T PRK11034        209 NPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLD--IGSLLA-GTKYRGDFEKRFKALLKQLEQDTNSILFID  285 (758)
T ss_pred             CeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEecc--HHHHhc-ccchhhhHHHHHHHHHHHHHhcCCCEEEec
Confidence            68999999999999999999887443334333333332211  111110 011122111  1234555555566799999


Q ss_pred             Ccccc---------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           97 EIEKA---------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        97 eid~~---------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |++.+         ..+..+.|.+++..|             +..+|.+|++...                 ...+  ..
T Consensus       286 EIh~L~g~g~~~~g~~d~~nlLkp~L~~g-------------~i~vIgATt~~E~-----------------~~~~--~~  333 (758)
T PRK11034        286 EIHTIIGAGAASGGQVDAANLIKPLLSSG-------------KIRVIGSTTYQEF-----------------SNIF--EK  333 (758)
T ss_pred             cHHHHhccCCCCCcHHHHHHHHHHHHhCC-------------CeEEEecCChHHH-----------------HHHh--hc
Confidence            99965         234556677777764             4468888886421                 1111  23


Q ss_pred             ChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHH
Q 047225          168 RPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNL  247 (287)
Q Consensus       168 ~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~  247 (287)
                      +++|.+|| ..|.+++|+.++...|++....++...     ..+.++++++..++..+..+ .+.|.+....-+++..+-
T Consensus       334 D~AL~rRF-q~I~v~ePs~~~~~~IL~~~~~~ye~~-----h~v~i~~~al~~a~~ls~ry-i~~r~lPdKaidlldea~  406 (758)
T PRK11034        334 DRALARRF-QKIDITEPSIEETVQIINGLKPKYEAH-----HDVRYTAKAVRAAVELAVKY-INDRHLPDKAIDVIDEAG  406 (758)
T ss_pred             cHHHHhhC-cEEEeCCCCHHHHHHHHHHHHHHhhhc-----cCCCcCHHHHHHHHHHhhcc-ccCccChHHHHHHHHHHH
Confidence            68999999 689999999999999998776655442     25789999999888764332 333544444444555444


Q ss_pred             H
Q 047225          248 A  248 (287)
Q Consensus       248 ~  248 (287)
                      +
T Consensus       407 a  407 (758)
T PRK11034        407 A  407 (758)
T ss_pred             H
Confidence            3

>PRK06620 hypothetical protein; Validated

Probab=99.53  E-value=2.7e-13  Score=111.80  Aligned_cols=145  Identities=14%  Similarity=0.184  Sum_probs=91.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      ++++|+||||||||++++++++..   +.  ..+.....                        ..+....  ..+++|||
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~---~~--~~~~~~~~------------------------~~~~~~~--~d~lliDd   93 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS---NA--YIIKDIFF------------------------NEEILEK--YNAFIIED   93 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc---CC--EEcchhhh------------------------chhHHhc--CCEEEEec
Confidence            369999999999999999988765   21  11111000                        0011222  25999999


Q ss_pred             cccccHH-HHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC
Q 047225           98 IEKAHRD-VLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID  176 (287)
Q Consensus        98 id~~~~~-~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~  176 (287)
                      ++..... ....+..+.+.|             . .++++++..+..+                     .+ ++|.+|+.
T Consensus        94 i~~~~~~~lf~l~N~~~e~g-------------~-~ilits~~~p~~l---------------------~l-~~L~SRl~  137 (214)
T PRK06620         94 IENWQEPALLHIFNIINEKQ-------------K-YLLLTSSDKSRNF---------------------TL-PDLSSRIK  137 (214)
T ss_pred             cccchHHHHHHHHHHHHhcC-------------C-EEEEEcCCCcccc---------------------ch-HHHHHHHh
Confidence            9976432 222222233432             1 3555554433322                     23 78999994


Q ss_pred             --ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHH
Q 047225          177 --EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGR  241 (287)
Q Consensus       177 --~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~  241 (287)
                        ..+.+.||+.+++..++++....       .  .+.++++++++|+....   .++|.+..++++
T Consensus       138 ~gl~~~l~~pd~~~~~~~l~k~~~~-------~--~l~l~~ev~~~L~~~~~---~d~r~l~~~l~~  192 (214)
T PRK06620        138 SVLSILLNSPDDELIKILIFKHFSI-------S--SVTISRQIIDFLLVNLP---REYSKIIEILEN  192 (214)
T ss_pred             CCceEeeCCCCHHHHHHHHHHHHHH-------c--CCCCCHHHHHHHHHHcc---CCHHHHHHHHHH
Confidence              26999999999998888766543       1  46899999999999752   345677777765

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=99.53  E-value=2.6e-13  Score=125.58  Aligned_cols=188  Identities=15%  Similarity=0.206  Sum_probs=116.2

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc-----ccchhhhhC-CCCCCCcccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME-----KHTVSKFFG-SPPGYVGFEN   77 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~-----~~~~~~~~~-~~~~~~~~~~   77 (287)
                      +.++..+... +..+.++|+||+|+|||++|+.+|+.+.-.+..-. -.|..-..     ...-.+++. ...+..+...
T Consensus        26 ~~L~~aI~~~-rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~-~~Cg~C~sCr~i~~~~h~DiieIdaas~igVd~  103 (605)
T PRK05896         26 KILVNAILNN-KLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDG-DCCNSCSVCESINTNQSVDIVELDAASNNGVDE  103 (605)
T ss_pred             HHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCC-CCCcccHHHHHHHcCCCCceEEeccccccCHHH
Confidence            3444444332 22235999999999999999999999842211100 01111000     000000000 1111122222


Q ss_pred             hhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCch
Q 047225           78 GGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSD  153 (287)
Q Consensus        78 ~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~  153 (287)
                      .+.+.+.+..    +++.|++|||+|.++...+++|++.+++..           +.+++|++++...            
T Consensus       104 IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp-----------~~tvfIL~Tt~~~------------  160 (605)
T PRK05896        104 IRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPP-----------KHVVFIFATTEFQ------------  160 (605)
T ss_pred             HHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCC-----------CcEEEEEECCChH------------
Confidence            2334333333    345799999999999999999999999731           2456777765421            


Q ss_pred             HHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCch
Q 047225          154 QMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGAR  233 (287)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r  233 (287)
                                  .+.+.+.+|+ ..+.|++++.+++..++...+.+.         ++.++++++..++..+.   .++|
T Consensus       161 ------------KLl~TI~SRc-q~ieF~~Ls~~eL~~~L~~il~ke---------gi~Is~eal~~La~lS~---GdlR  215 (605)
T PRK05896        161 ------------KIPLTIISRC-QRYNFKKLNNSELQELLKSIAKKE---------KIKIEDNAIDKIADLAD---GSLR  215 (605)
T ss_pred             ------------hhhHHHHhhh-hhcccCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CcHH
Confidence                        3457899999 899999999999999997776542         45789999999988753   3445


Q ss_pred             hHHHHHHH
Q 047225          234 PLRRAIGR  241 (287)
Q Consensus       234 ~l~~~i~~  241 (287)
                      .+.+.+++
T Consensus       216 ~AlnlLek  223 (605)
T PRK05896        216 DGLSILDQ  223 (605)
T ss_pred             HHHHHHHH
Confidence            55555554

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.53  E-value=2.7e-13  Score=128.74  Aligned_cols=199  Identities=18%  Similarity=0.201  Sum_probs=120.8

Q ss_pred             ccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcC--------------------------------CCCceEEecccc
Q 047225            8 VGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFG--------------------------------SKEAMVRIDMSE   55 (287)
Q Consensus         8 ~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~--------------------------------~~~~~~~~~~~~   55 (287)
                      ..+-+|.  .++++|.|++|||||++++.|++.+..                                ...+++.+.++.
T Consensus        18 ~~av~~~--~g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~~~~~~~~~~~~~~~~~~~pfv~~p~~~   95 (633)
T TIGR02442        18 LNAVDPR--IGGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPEEWCEECRRKYRPSEQRPVPFVNLPLGA   95 (633)
T ss_pred             HHhhCCC--CCeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCccccChhhhhcccccccCCCCeeeCCCCC
Confidence            3444442  246999999999999999999998831                                012222222221


Q ss_pred             cccccchhhhhCCCCCC----CcccchhhHHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecC-CCceeec-c
Q 047225           56 YMEKHTVSKFFGSPPGY----VGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG-KGQTVDL-K  129 (287)
Q Consensus        56 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~-~g~~i~~-~  129 (287)
                      .     ...++|...-.    .|..  ..-...+...+.++|||||++++++.+++.|++++++|.+... .|..... .
T Consensus        96 t-----~~~l~G~~d~~~~l~~g~~--~~~~G~L~~A~~GiL~lDEi~~l~~~~q~~Ll~~le~g~~~v~r~g~~~~~~~  168 (633)
T TIGR02442        96 T-----EDRVVGSLDIERALREGEK--AFQPGLLAEAHRGILYIDEVNLLDDHLVDVLLDAAAMGVNRVEREGLSVSHPA  168 (633)
T ss_pred             c-----HHHcCCcccHHHHhhcCCe--eecCcceeecCCCeEEeChhhhCCHHHHHHHHHHHhcCCEEEEECCceeeecC
Confidence            1     12233321000    0000  0001233344668999999999999999999999999875433 3544444 4


Q ss_pred             ceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCC-HHHHHHHHHHHHH----------
Q 047225          130 NTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLN-KMQLMEIVDIMLK----------  198 (287)
Q Consensus       130 ~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~-~~~~~~il~~~l~----------  198 (287)
                      ++++|+|+|+...                       .|+++|++||+..+.++++. .++..+++...+.          
T Consensus       169 ~~~lIat~np~eg-----------------------~l~~~L~dR~~l~i~v~~~~~~~~~~~il~~~~~~~~~~~~~~~  225 (633)
T TIGR02442       169 RFVLIGTMNPEEG-----------------------DLRPQLLDRFGLCVDVAAPRDPEERVEIIRRRLAFDADPEAFAA  225 (633)
T ss_pred             CeEEEEecCCCCC-----------------------CCCHHHHhhcceEEEccCCCchHHHHHHHHHHHhhccCcHHHHH
Confidence            7899999997432                       46789999998888888876 4555666654322          


Q ss_pred             ----------HHHHHHHhcCcEEEeChhHHHHHHHhccCCCC-CchhHHHH
Q 047225          199 ----------EIYERLEAKNMELTVTHTFKKKLIEEGYNPSY-GARPLRRA  238 (287)
Q Consensus       199 ----------~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~-~~r~l~~~  238 (287)
                                +........-..+.++++++++++......+. |.|....+
T Consensus       226 ~~~~~~~~l~~~i~~ar~~~~~V~is~~~~~~l~~~~~~~~i~s~Ra~i~~  276 (633)
T TIGR02442       226 RWAAEQEELRNRIARARSLLPSVRISDSLIRFISELCIEFGVDGHRADIVM  276 (633)
T ss_pred             HhhhhHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHH
Confidence                      00011111122468899999999887554433 34444333

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.

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

Probab=99.53  E-value=2.9e-13  Score=119.84  Aligned_cols=193  Identities=21%  Similarity=0.199  Sum_probs=122.6

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHhcCCC--CceEEecccccccccchh----hhhCCCCCCCcccc---hhhHHHH
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEYFGSK--EAMVRIDMSEYMEKHTVS----KFFGSPPGYVGFEN---GGQLTEA   84 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~--~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~---~~~~~~~   84 (287)
                      +.|. |++++||||||||.+++.+.+.+....  ...+++||..+.....+.    .-++. ....|...   -..+.+.
T Consensus        40 ~~p~-n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~~-~p~~g~~~~~~~~~l~~~  117 (366)
T COG1474          40 ERPS-NIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLGK-VPLTGDSSLEILKRLYDN  117 (366)
T ss_pred             CCCc-cEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHcCC-CCCCCCchHHHHHHHHHH
Confidence            4555 599999999999999999999994332  227999999888765432    22222 22223222   2233344


Q ss_pred             HHh-CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHH
Q 047225           85 VRH-RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEEL  163 (287)
Q Consensus        85 ~~~-~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~  163 (287)
                      +.. +..-|+++||+|.+.....+.|..++......        ...+.+|+.+|...                     +
T Consensus       118 ~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~--------~~~v~vi~i~n~~~---------------------~  168 (366)
T COG1474         118 LSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGEN--------KVKVSIIAVSNDDK---------------------F  168 (366)
T ss_pred             HHhcCCeEEEEEcchhhhccccchHHHHHHhhcccc--------ceeEEEEEEeccHH---------------------H
Confidence            444 44569999999988666446666666543222        12446777776421                     1


Q ss_pred             HhcCChhHHhccCce-EEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          164 RRRFRPEFLNRIDEV-IVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       164 ~~~~~~~l~~r~~~~-i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                      ...+.+.+.+++... |.|||++.+++.+|+....+..   +    ..-.+++++++.++........++|-.-..+..+
T Consensus       169 ~~~ld~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~---~----~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A  241 (366)
T COG1474         169 LDYLDPRVKSSLGPSEIVFPPYTAEELYDILRERVEEG---F----SAGVIDDDVLKLIAALVAAESGDARKAIDILRRA  241 (366)
T ss_pred             HHHhhhhhhhccCcceeeeCCCCHHHHHHHHHHHHHhh---c----cCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHH
Confidence            234567777777544 9999999999999997666532   1    1347899999999976544443444433334433


Q ss_pred             HH
Q 047225          243 LE  244 (287)
Q Consensus       243 ~~  244 (287)
                      ..
T Consensus       242 ~e  243 (366)
T COG1474         242 GE  243 (366)
T ss_pred             HH
Confidence            33

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.52  E-value=3.7e-13  Score=119.95  Aligned_cols=186  Identities=16%  Similarity=0.258  Sum_probs=112.5

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccccc--------chhhhhCCCCCCCcc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKH--------TVSKFFGSPPGYVGF   75 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~   75 (287)
                      +.++..+.+. +..+.++|+||||+|||++++.+++.+......- .-.|.......        .+..+-+  ....+.
T Consensus        24 ~~l~~~~~~~-~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~-~~~c~~c~~c~~~~~~~~~~~~~~~~--~~~~~~   99 (355)
T TIGR02397        24 QTLKNAIKNG-RIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPD-GEPCNECESCKEINSGSSLDVIEIDA--ASNNGV   99 (355)
T ss_pred             HHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCC-CCCCCCCHHHHHHhcCCCCCEEEeec--cccCCH
Confidence            4444444443 3334689999999999999999999984321100 00111100000        0000000  000111


Q ss_pred             cchhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCC
Q 047225           76 ENGGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILG  151 (287)
Q Consensus        76 ~~~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~  151 (287)
                      .....+.+.+..    +++.+++|||+|.++...++.|++.+++.           .+++++|++++...          
T Consensus       100 ~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~-----------~~~~~lIl~~~~~~----------  158 (355)
T TIGR02397       100 DDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEP-----------PEHVVFILATTEPH----------  158 (355)
T ss_pred             HHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCC-----------ccceeEEEEeCCHH----------
Confidence            111234443333    33469999999999999999999999862           12456777765421          


Q ss_pred             chHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCC
Q 047225          152 SDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYG  231 (287)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~  231 (287)
                                    .+.+.+.+|+ ..+.|+|++.+++.+++...+.+.         .+.++++++..++....   .+
T Consensus       159 --------------~l~~~l~sr~-~~~~~~~~~~~~l~~~l~~~~~~~---------g~~i~~~a~~~l~~~~~---g~  211 (355)
T TIGR02397       159 --------------KIPATILSRC-QRFDFKRIPLEDIVERLKKILDKE---------GIKIEDEALELIARAAD---GS  211 (355)
T ss_pred             --------------HHHHHHHhhe-eEEEcCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CC
Confidence                          1236788999 889999999999999997776542         35788999999988642   23


Q ss_pred             chhHHHHHHH
Q 047225          232 ARPLRRAIGR  241 (287)
Q Consensus       232 ~r~l~~~i~~  241 (287)
                      .|.+.+.+++
T Consensus       212 ~~~a~~~lek  221 (355)
T TIGR02397       212 LRDALSLLDQ  221 (355)
T ss_pred             hHHHHHHHHH
Confidence            4555555544

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.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=99.52  E-value=2.3e-13  Score=127.34  Aligned_cols=189  Identities=15%  Similarity=0.150  Sum_probs=119.4

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC-----ceEEecccccccccch-----hhhh-CCCCCC
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE-----AMVRIDMSEYMEKHTV-----SKFF-GSPPGY   72 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~-----~~~~~~~~~~~~~~~~-----~~~~-~~~~~~   72 (287)
                      +.+++.+... +..+.++|+||+|+|||++|+.+++.+.-...     +.+. .|........+     .+++ -...+.
T Consensus        34 ~~L~~~~~~g-ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~-~cg~c~~C~~i~~g~h~Dv~e~~a~s~  111 (598)
T PRK09111         34 RTLTNAFETG-RIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTID-LCGVGEHCQAIMEGRHVDVLEMDAASH  111 (598)
T ss_pred             HHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccc-cCcccHHHHHHhcCCCCceEEeccccc
Confidence            3344444433 33336999999999999999999998832211     0000 11110000000     0000 011223


Q ss_pred             CcccchhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhc
Q 047225           73 VGFENGGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARES  148 (287)
Q Consensus        73 ~~~~~~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~  148 (287)
                      .+.+..+.+.+.+..    .++.|++|||+|.++...++.|++.+++.           .+.+.||++++...       
T Consensus       112 ~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEeP-----------p~~~~fIl~tte~~-------  173 (598)
T PRK09111        112 TGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEP-----------PPHVKFIFATTEIR-------  173 (598)
T ss_pred             CCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhC-----------CCCeEEEEEeCChh-------
Confidence            333344445444443    34679999999999999999999999973           23556777775432       


Q ss_pred             cCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCC
Q 047225          149 ILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNP  228 (287)
Q Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~  228 (287)
                                       .+.+.+.+|| ..+.|.+++.+++..++...+.+.         .+.+++++++.|+..+.  
T Consensus       174 -----------------kll~tI~SRc-q~~~f~~l~~~el~~~L~~i~~ke---------gi~i~~eAl~lIa~~a~--  224 (598)
T PRK09111        174 -----------------KVPVTVLSRC-QRFDLRRIEADVLAAHLSRIAAKE---------GVEVEDEALALIARAAE--  224 (598)
T ss_pred             -----------------hhhHHHHhhe-eEEEecCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC--
Confidence                             2346789999 899999999999999997777542         46789999999998753  


Q ss_pred             CCCchhHHHHHHHH
Q 047225          229 SYGARPLRRAIGRL  242 (287)
Q Consensus       229 ~~~~r~l~~~i~~~  242 (287)
                       .++|.+...++++
T Consensus       225 -Gdlr~al~~Ldkl  237 (598)
T PRK09111        225 -GSVRDGLSLLDQA  237 (598)
T ss_pred             -CCHHHHHHHHHHH
Confidence             3445555555543

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.52  E-value=6.1e-13  Score=118.99  Aligned_cols=193  Identities=18%  Similarity=0.158  Sum_probs=111.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC--C----CceEEecccccccccch-----hhhh--CCCCCCCcccch---hhHH
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS--K----EAMVRIDMSEYMEKHTV-----SKFF--GSPPGYVGFENG---GQLT   82 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~--~----~~~~~~~~~~~~~~~~~-----~~~~--~~~~~~~~~~~~---~~~~   82 (287)
                      +++++||||||||++++.+++.+...  .    ..+++++|.........     ..+.  +......+....   ..+.
T Consensus        42 ~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~  121 (365)
T TIGR02928        42 NVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLY  121 (365)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHH
Confidence            69999999999999999999876321  1    46788898765543211     1222  221111221111   2233


Q ss_pred             HHHHh-CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHH
Q 047225           83 EAVRH-RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAE  161 (287)
Q Consensus        83 ~~~~~-~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~  161 (287)
                      +.+.. ....+|+|||+|.+.......|..++.......     ....++.+|+++|....                   
T Consensus       122 ~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~-----~~~~~v~lI~i~n~~~~-------------------  177 (365)
T TIGR02928       122 KELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGD-----LDNAKVGVIGISNDLKF-------------------  177 (365)
T ss_pred             HHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccC-----CCCCeEEEEEEECCcch-------------------
Confidence            44433 345689999999984222233444433211000     11134567777775421                   


Q ss_pred             HHHhcCChhHHhccC-ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          162 ELRRRFRPEFLNRID-EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       162 ~~~~~~~~~l~~r~~-~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                        ...+.+.+.+||. ..+.|+|++.+++.+|+...+...   +    ....+++++++.++.........+|....++.
T Consensus       178 --~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~---~----~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~  248 (365)
T TIGR02928       178 --RENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKA---F----YDGVLDDGVIPLCAALAAQEHGDARKAIDLLR  248 (365)
T ss_pred             --HhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhh---c----cCCCCChhHHHHHHHHHHHhcCCHHHHHHHHH
Confidence              1134567778885 569999999999999998776421   1    12347888888887654333334444444444


Q ss_pred             HHHH
Q 047225          241 RLLE  244 (287)
Q Consensus       241 ~~~~  244 (287)
                      .+..
T Consensus       249 ~a~~  252 (365)
T TIGR02928       249 VAGE  252 (365)
T ss_pred             HHHH
Confidence            4443

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.

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

Probab=99.52  E-value=9.6e-14  Score=126.17  Aligned_cols=182  Identities=18%  Similarity=0.264  Sum_probs=128.9

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCC----CceEEe-cccccccccchhhhhCCCCCCCcccchhhHHHHHHh--
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSK----EAMVRI-DMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH--   87 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~----~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--   87 (287)
                      +-.+..+|.||.|||||++||.+|+.+.-..    .++..+ .|........+..+--+..+..|.++.+.+.+.+.-  
T Consensus        36 ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P  115 (515)
T COG2812          36 RIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINEGSLIDVIEIDAASNTGVDDIREIIEKVNYAP  115 (515)
T ss_pred             cchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhhcCCcccchhhhhhhccChHHHHHHHHHhccCC
Confidence            3344599999999999999999999983221    222211 111111111111111123444555555666665544  


Q ss_pred             --CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHh
Q 047225           88 --RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRR  165 (287)
Q Consensus        88 --~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (287)
                        +.+.|++|||++.++....++|++-+|+.           ++++.||++|....                        
T Consensus       116 ~~~ryKVyiIDEvHMLS~~afNALLKTLEEP-----------P~hV~FIlATTe~~------------------------  160 (515)
T COG2812         116 SEGRYKVYIIDEVHMLSKQAFNALLKTLEEP-----------PSHVKFILATTEPQ------------------------  160 (515)
T ss_pred             ccccceEEEEecHHhhhHHHHHHHhcccccC-----------ccCeEEEEecCCcC------------------------
Confidence              34689999999999999999999999983           34677888776542                        


Q ss_pred             cCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          166 RFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       166 ~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      .+++..+||| +.+.|..++.+++...+...+.+.         .+.++++++..++..+.   .++|+....++.++.
T Consensus       161 Kip~TIlSRc-q~f~fkri~~~~I~~~L~~i~~~E---------~I~~e~~aL~~ia~~a~---Gs~RDalslLDq~i~  226 (515)
T COG2812         161 KIPNTILSRC-QRFDFKRLDLEEIAKHLAAILDKE---------GINIEEDALSLIARAAE---GSLRDALSLLDQAIA  226 (515)
T ss_pred             cCchhhhhcc-ccccccCCCHHHHHHHHHHHHHhc---------CCccCHHHHHHHHHHcC---CChhhHHHHHHHHHH
Confidence            4678999999 999999999999999988877653         68999999999998753   567887777776554

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.51  E-value=4.8e-13  Score=119.74  Aligned_cols=178  Identities=17%  Similarity=0.251  Sum_probs=113.8

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC-------ceEEecccccccccchhhhhCCCCCCCcc
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE-------AMVRIDMSEYMEKHTVSKFFGSPPGYVGF   75 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   75 (287)
                      ++.++..+....-| ++++|+||||+|||++++.+++.+.....       .+..+.....              ...+.
T Consensus        26 ~~~l~~~i~~~~~~-~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~--------------~~~~~   90 (367)
T PRK14970         26 TNTLLNAIENNHLA-QALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAA--------------SNNSV   90 (367)
T ss_pred             HHHHHHHHHcCCCC-eEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccc--------------cCCCH
Confidence            34455555543333 47999999999999999999998843211       1111111000              00011


Q ss_pred             cchhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCC
Q 047225           76 ENGGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILG  151 (287)
Q Consensus        76 ~~~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~  151 (287)
                      .....+.+.+..    +++.+++|||++.+....++.|++.+++.           ...+++|++++...          
T Consensus        91 ~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~-----------~~~~~~Il~~~~~~----------  149 (367)
T PRK14970         91 DDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEP-----------PAHAIFILATTEKH----------  149 (367)
T ss_pred             HHHHHHHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCC-----------CCceEEEEEeCCcc----------
Confidence            111222222222    34579999999999999999999988762           12446777765432          


Q ss_pred             chHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCC
Q 047225          152 SDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYG  231 (287)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~  231 (287)
                                    .+.+++.+|+ ..+.|++++.+++..++...+.+.         .+.+++++++.++..+.   .+
T Consensus       150 --------------kl~~~l~sr~-~~v~~~~~~~~~l~~~l~~~~~~~---------g~~i~~~al~~l~~~~~---gd  202 (367)
T PRK14970        150 --------------KIIPTILSRC-QIFDFKRITIKDIKEHLAGIAVKE---------GIKFEDDALHIIAQKAD---GA  202 (367)
T ss_pred             --------------cCCHHHHhcc-eeEecCCccHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHhCC---CC
Confidence                          3457889999 789999999999999997766542         45789999999998642   34


Q ss_pred             chhHHHHHHHHH
Q 047225          232 ARPLRRAIGRLL  243 (287)
Q Consensus       232 ~r~l~~~i~~~~  243 (287)
                      +|.+...+++++
T Consensus       203 lr~~~~~lekl~  214 (367)
T PRK14970        203 LRDALSIFDRVV  214 (367)
T ss_pred             HHHHHHHHHHHH
Confidence            555555555443

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

Probab=99.51  E-value=3.3e-13  Score=119.38  Aligned_cols=190  Identities=15%  Similarity=0.214  Sum_probs=128.7

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCC--CCceEEecccccccccchhhhhCCCCCCCcccchhh
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGS--KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQ   80 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (287)
                      ...++.....|+++.++++|+||+|+|||+|++++++.....  +..+++++...+.... +..+..        .....
T Consensus        99 ~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~-v~a~~~--------~~~~~  169 (408)
T COG0593          99 YAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDF-VKALRD--------NEMEK  169 (408)
T ss_pred             HHHHHHHHhccCCcCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHH-HHHHHh--------hhHHH
Confidence            445566667777778899999999999999999999988433  3456666665544221 111000        11234


Q ss_pred             HHHHHHhCCcEEEEEcCccccc--HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHH
Q 047225           81 LTEAVRHRPHSVILFDEIEKAH--RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERG  158 (287)
Q Consensus        81 ~~~~~~~~~~~il~iDeid~~~--~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~  158 (287)
                      +.+.+ ..  .+++|||++.+.  ...+..++.+++.-.          ..+-.+++|+...+..+.             
T Consensus       170 Fk~~y-~~--dlllIDDiq~l~gk~~~qeefFh~FN~l~----------~~~kqIvltsdr~P~~l~-------------  223 (408)
T COG0593         170 FKEKY-SL--DLLLIDDIQFLAGKERTQEEFFHTFNALL----------ENGKQIVLTSDRPPKELN-------------  223 (408)
T ss_pred             HHHhh-cc--CeeeechHhHhcCChhHHHHHHHHHHHHH----------hcCCEEEEEcCCCchhhc-------------
Confidence            44455 33  499999999753  356777777666411          011268888887776552             


Q ss_pred             HHHHHHhcCChhHHhccC--ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHH
Q 047225          159 VAEELRRRFRPEFLNRID--EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLR  236 (287)
Q Consensus       159 ~~~~~~~~~~~~l~~r~~--~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~  236 (287)
                             .+.+.|.+||.  ..+.+.||+.+....|+......         ..+.+++++..+++..-.   -++|++.
T Consensus       224 -------~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~~---------~~~~i~~ev~~~la~~~~---~nvReLe  284 (408)
T COG0593         224 -------GLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAED---------RGIEIPDEVLEFLAKRLD---RNVRELE  284 (408)
T ss_pred             -------cccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHHHh---------cCCCCCHHHHHHHHHHhh---ccHHHHH
Confidence                   24588999996  44999999999999999763322         257999999999998732   2568888


Q ss_pred             HHHHHHHHHH
Q 047225          237 RAIGRLLEDN  246 (287)
Q Consensus       237 ~~i~~~~~~~  246 (287)
                      .+++++...+
T Consensus       285 gaL~~l~~~a  294 (408)
T COG0593         285 GALNRLDAFA  294 (408)
T ss_pred             HHHHHHHHHH
Confidence            8887665533

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

Probab=99.51  E-value=8.4e-13  Score=117.98  Aligned_cols=149  Identities=25%  Similarity=0.427  Sum_probs=97.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhh-CCCCCCCcccch-hhH---HHHHHh--CCcE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFF-GSPPGYVGFENG-GQL---TEAVRH--RPHS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~-~~~---~~~~~~--~~~~   91 (287)
                      +++|+||||||||++|+.++..+... .....+++.++....+..+++ |..+...|+... +.+   ...+..  ....
T Consensus       196 ~iil~GppGtGKT~lA~~la~~l~~~-~~~~~v~~VtFHpsySYeDFI~G~rP~~vgy~~~~G~f~~~~~~A~~~p~~~~  274 (459)
T PRK11331        196 NIILQGPPGVGKTFVARRLAYLLTGE-KAPQRVNMVQFHQSYSYEDFIQGYRPNGVGFRRKDGIFYNFCQQAKEQPEKKY  274 (459)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhcCC-cccceeeEEeecccccHHHHhcccCCCCCCeEecCchHHHHHHHHHhcccCCc
Confidence            69999999999999999999988542 233344555555555556665 344555555432 222   222332  2347


Q ss_pred             EEEEcCcccccHH-HHHHHHHhhcCce------ee--cC--CCceeec-cceEEEEeecCCchhhhhhccCCchHHHHHH
Q 047225           92 VILFDEIEKAHRD-VLNVMLQLLDDGR------VT--DG--KGQTVDL-KNTIIIMTSNIGDSVIARESILGSDQMERGV  159 (287)
Q Consensus        92 il~iDeid~~~~~-~~~~L~~~l~~~~------~~--~~--~g~~i~~-~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~  159 (287)
                      ++||||+|+.+.+ +...++.+++.+.      +.  ..  ++..+.. +++.||+|+|.....+               
T Consensus       275 vliIDEINRani~kiFGel~~lLE~~~rg~~~~v~l~y~e~d~e~f~iP~Nl~IIgTMNt~Drs~---------------  339 (459)
T PRK11331        275 VFIIDEINRANLSKVFGEVMMLMEHDKRGENWSVPLTYSENDEERFYVPENVYIIGLMNTADRSL---------------  339 (459)
T ss_pred             EEEEehhhccCHHHhhhhhhhhccccccccccceeeeccccccccccCCCCeEEEEecCccccch---------------
Confidence            9999999999965 5778889998542      11  11  1223333 5899999999976543               


Q ss_pred             HHHHHhcCChhHHhccCceEEeCC-CCHHHH
Q 047225          160 AEELRRRFRPEFLNRIDEVIVFRQ-LNKMQL  189 (287)
Q Consensus       160 ~~~~~~~~~~~l~~r~~~~i~~~~-~~~~~~  189 (287)
                           ..++.+|.+|| ..|.+.| ++...+
T Consensus       340 -----~~lD~AlrRRF-~fi~i~p~~~~~~~  364 (459)
T PRK11331        340 -----AVVDYALRRRF-SFIDIEPGFDTPQF  364 (459)
T ss_pred             -----hhccHHHHhhh-heEEecCCCChHHH
Confidence                 13678999999 7777776 454333

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=99.51  E-value=1.7e-14  Score=137.68  Aligned_cols=159  Identities=19%  Similarity=0.219  Sum_probs=104.8

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCC----CCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGS----KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVI   93 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il   93 (287)
                      .|+||+|+||||||.+++.+++.....    +.+...++|......      .....+..     ..-..++.....+++
T Consensus       493 ihVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~vgLTa~~~~------~d~~tG~~-----~le~GaLvlAdgGtL  561 (915)
T PTZ00111        493 INVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSVGLTASIKF------NESDNGRA-----MIQPGAVVLANGGVC  561 (915)
T ss_pred             ceEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCccccccchhhh------cccccCcc-----cccCCcEEEcCCCeE
Confidence            489999999999999999999865321    133344444332110      00000000     001123444556899


Q ss_pred             EEcCcccccHHHHHHHHHhhcCceeecCC-Cceeec-cceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhH
Q 047225           94 LFDEIEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDL-KNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEF  171 (287)
Q Consensus        94 ~iDeid~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~-~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  171 (287)
                      ||||++++++..+..|+++|+++.+.+.. |....+ .++.||+++||....+..     ...+.+      .-.|+++|
T Consensus       562 ~IDEidkms~~~Q~aLlEaMEqqtIsI~KaGi~~tL~ar~rVIAAaNP~~gryd~-----~~s~~e------ni~Lp~~L  630 (915)
T PTZ00111        562 CIDELDKCHNESRLSLYEVMEQQTVTIAKAGIVATLKAETAILASCNPINSRYNK-----NKAVIE------NINISPSL  630 (915)
T ss_pred             EecchhhCCHHHHHHHHHHHhCCEEEEecCCcceecCCCeEEEEEcCCcccccCc-----ccCccc------ccCCChHH
Confidence            99999999999999999999999887654 655555 489999999996433211     111111      12588999


Q ss_pred             HhccCce-EEeCCCCHHHHHHHHHHHHH
Q 047225          172 LNRIDEV-IVFRQLNKMQLMEIVDIMLK  198 (287)
Q Consensus       172 ~~r~~~~-i~~~~~~~~~~~~il~~~l~  198 (287)
                      ++|||.+ +.+++++.+.-..|..+.+.
T Consensus       631 LSRFDLIf~l~D~~d~~~D~~lA~hI~~  658 (915)
T PTZ00111        631 FTRFDLIYLVLDHIDQDTDQLISLSIAK  658 (915)
T ss_pred             hhhhcEEEEecCCCChHHHHHHHHHHHH
Confidence            9999866 77888888777777776664

>PRK09862 putative ATP-dependent protease; Provisional

Probab=99.50  E-value=2.5e-13  Score=124.19  Aligned_cols=159  Identities=14%  Similarity=0.204  Sum_probs=107.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc---------------------cchhhhhCCCCCCCccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK---------------------HTVSKFFGSPPGYVGFE   76 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~---------------------~~~~~~~~~~~~~~~~~   76 (287)
                      .+++|+||+|+|||++++.++..+........ +.++.....                     .+...++|..       
T Consensus       211 ~~llliG~~GsGKTtLak~L~gllpp~~g~e~-le~~~i~s~~g~~~~~~~~~~rPfr~ph~~~s~~~l~GGg-------  282 (506)
T PRK09862        211 HNLLLIGPPGTGKTMLASRINGLLPDLSNEEA-LESAAILSLVNAESVQKQWRQRPFRSPHHSASLTAMVGGG-------  282 (506)
T ss_pred             cEEEEECCCCCcHHHHHHHHhccCCCCCCcEE-EecchhhhhhccccccCCcCCCCccCCCccchHHHHhCCC-------
Confidence            47999999999999999999988754322211 111111100                     0111122210       


Q ss_pred             chhhHHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCC-Cceeec-cceEEEEeecCCchhhhhhccCCchH
Q 047225           77 NGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDL-KNTIIIMTSNIGDSVIARESILGSDQ  154 (287)
Q Consensus        77 ~~~~~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~-~~~~iI~t~n~~~~~~~~~~~~~~~~  154 (287)
                       ...-...+...+++++|+||++.+++.++..|++.|+++.+.... |..+.+ .++++|+|+|+.+.+......  ...
T Consensus       283 -~~~~pG~l~~A~gGvLfLDEi~e~~~~~~~~L~~~LE~g~v~I~r~g~~~~~pa~f~lIAa~NP~pcG~~~~~~--c~c  359 (506)
T PRK09862        283 -AIPGPGEISLAHNGVLFLDELPEFERRTLDALREPIESGQIHLSRTRAKITYPARFQLVAAMNPSPTGHYQGNH--NRC  359 (506)
T ss_pred             -ceehhhHhhhccCCEEecCCchhCCHHHHHHHHHHHHcCcEEEecCCcceeccCCEEEEEeecCccceecCCCC--CCc
Confidence             012234666677789999999999999999999999999987553 444444 589999999997654422111  333


Q ss_pred             HHHHHHHHHHhcCChhHHhccCceEEeCCCCHHH
Q 047225          155 MERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQ  188 (287)
Q Consensus       155 ~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~  188 (287)
                      .+..+..|+. .++.++++|||..+.+++++.++
T Consensus       360 ~~~~~~~Y~~-~ls~plLDRfdL~v~v~~~~~~~  392 (506)
T PRK09862        360 TPEQTLRYLN-RLSGPFLDRFDLSLEIPLPPPGI  392 (506)
T ss_pred             CHHHHHHHHh-hCCHhHHhhccEEEEeCCCCHHH
Confidence            5556666644 68899999999999999986543

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.50  E-value=5.1e-13  Score=120.41  Aligned_cols=187  Identities=16%  Similarity=0.186  Sum_probs=113.8

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC----c---eEEeccccccccc--------chhhhhCC
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE----A---MVRIDMSEYMEKH--------TVSKFFGS   68 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~----~---~~~~~~~~~~~~~--------~~~~~~~~   68 (287)
                      +.+++.+.+.. ..+.++|+||+|+|||++|+.+|+.+.-...    .   -..-.|.......        .+..+-+ 
T Consensus        26 ~~L~~~~~~~~-~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~~~~~~n~~~~~~-  103 (397)
T PRK14955         26 RTIQNSLRMGR-VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFDAGTSLNISEFDA-  103 (397)
T ss_pred             HHHHHHHHhCC-cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHhcCCCCCeEeecc-
Confidence            34444444432 2334999999999999999999999843210    0   0001121110000        0000000 


Q ss_pred             CCCCCcccchhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhh
Q 047225           69 PPGYVGFENGGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVI  144 (287)
Q Consensus        69 ~~~~~~~~~~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~  144 (287)
                       ....+.+....+.+.+..    +++.+++|||+++++...++.|++.+++.           .+.+++|++++...   
T Consensus       104 -~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep-----------~~~t~~Il~t~~~~---  168 (397)
T PRK14955        104 -ASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEP-----------PPHAIFIFATTELH---  168 (397)
T ss_pred             -cccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcC-----------CCCeEEEEEeCChH---
Confidence             011112222233333422    34579999999999999999999999863           12446666664321   


Q ss_pred             hhhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHh
Q 047225          145 ARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEE  224 (287)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~  224 (287)
                                           .+.+.+.+|+ ..+.|.|++.+++.+++...+...         .+.+++++++.++..
T Consensus       169 ---------------------kl~~tl~sR~-~~v~f~~l~~~ei~~~l~~~~~~~---------g~~i~~~al~~l~~~  217 (397)
T PRK14955        169 ---------------------KIPATIASRC-QRFNFKRIPLEEIQQQLQGICEAE---------GISVDADALQLIGRK  217 (397)
T ss_pred             ---------------------HhHHHHHHHH-HHhhcCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHH
Confidence                                 2346788999 899999999999999997766532         467999999999987


Q ss_pred             ccCCCCCchhHHHHHHH
Q 047225          225 GYNPSYGARPLRRAIGR  241 (287)
Q Consensus       225 ~~~~~~~~r~l~~~i~~  241 (287)
                      +-   .+.|.+.+.+++
T Consensus       218 s~---g~lr~a~~~L~k  231 (397)
T PRK14955        218 AQ---GSMRDAQSILDQ  231 (397)
T ss_pred             cC---CCHHHHHHHHHH
Confidence            53   234555454443

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=99.50  E-value=8e-13  Score=120.53  Aligned_cols=187  Identities=16%  Similarity=0.233  Sum_probs=115.3

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC-----ceEE-eccccccccc--chhhhhCCCCCCCcc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE-----AMVR-IDMSEYMEKH--TVSKFFGSPPGYVGF   75 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~-----~~~~-~~~~~~~~~~--~~~~~~~~~~~~~~~   75 (287)
                      +.++..+... +..+.++|+||+|+|||++|+.+++.+.....     ++.. .+|.......  ....+.|  ....|.
T Consensus        27 ~~L~~~i~~~-~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d~~~i~g--~~~~gi  103 (451)
T PRK06305         27 AVLKNALRFN-RAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLDVLEIDG--ASHRGI  103 (451)
T ss_pred             HHHHHHHHcC-CCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCceEEeec--cccCCH
Confidence            3344444432 23345999999999999999999999843211     1110 1111111000  0001111  111222


Q ss_pred             cchhhHHHHHH----hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCC
Q 047225           76 ENGGQLTEAVR----HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILG  151 (287)
Q Consensus        76 ~~~~~~~~~~~----~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~  151 (287)
                      +....+.+.+.    ..++.|++|||+|++....++.|++.+++..           +.+.+|++++...          
T Consensus       104 d~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~-----------~~~~~Il~t~~~~----------  162 (451)
T PRK06305        104 EDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPP-----------QHVKFFLATTEIH----------  162 (451)
T ss_pred             HHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCC-----------CCceEEEEeCChH----------
Confidence            22223333222    2456899999999999999999999999731           2446777775321          


Q ss_pred             chHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCC
Q 047225          152 SDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYG  231 (287)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~  231 (287)
                                    .+.+.+.+|+ ..+.|++++.+++.+++...+.+.         .+.+++++++.++..+.   .+
T Consensus       163 --------------kl~~tI~sRc-~~v~f~~l~~~el~~~L~~~~~~e---------g~~i~~~al~~L~~~s~---gd  215 (451)
T PRK06305        163 --------------KIPGTILSRC-QKMHLKRIPEETIIDKLALIAKQE---------GIETSREALLPIARAAQ---GS  215 (451)
T ss_pred             --------------hcchHHHHhc-eEEeCCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CC
Confidence                          3457899999 899999999999999887665432         45789999999998753   23


Q ss_pred             chhHHHHHHH
Q 047225          232 ARPLRRAIGR  241 (287)
Q Consensus       232 ~r~l~~~i~~  241 (287)
                      .|.+...+++
T Consensus       216 lr~a~~~Lek  225 (451)
T PRK06305        216 LRDAESLYDY  225 (451)
T ss_pred             HHHHHHHHHH
Confidence            3444444443

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

Probab=99.49  E-value=6.1e-13  Score=122.11  Aligned_cols=199  Identities=22%  Similarity=0.326  Sum_probs=129.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||.+|.+++...   +..++.+...+..     ...+|....     ..+.++..++....+|+||||+
T Consensus       703 giLLyGppGcGKT~la~a~a~~~---~~~fisvKGPElL-----~KyIGaSEq-----~vR~lF~rA~~a~PCiLFFDEf  769 (952)
T KOG0735|consen  703 GILLYGPPGCGKTLLASAIASNS---NLRFISVKGPELL-----SKYIGASEQ-----NVRDLFERAQSAKPCILFFDEF  769 (952)
T ss_pred             ceEEECCCCCcHHHHHHHHHhhC---CeeEEEecCHHHH-----HHHhcccHH-----HHHHHHHHhhccCCeEEEeccc
Confidence            59999999999999999999987   6677777665443     233332111     1256777777777899999999


Q ss_pred             ccc-----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKA-----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~-----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |-+           ...+.+.|++-|+.-+     |    +..+.++++|.++.                        .+
T Consensus       770 dSiAPkRGhDsTGVTDRVVNQlLTelDG~E-----g----l~GV~i~aaTsRpd------------------------li  816 (952)
T KOG0735|consen  770 DSIAPKRGHDSTGVTDRVVNQLLTELDGAE-----G----LDGVYILAATSRPD------------------------LI  816 (952)
T ss_pred             cccCcccCCCCCCchHHHHHHHHHhhcccc-----c----cceEEEEEecCCcc------------------------cc
Confidence            954           3368888888887421     1    22445555555542                        35


Q ss_pred             ChhHH--hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          168 RPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       168 ~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      +|+|+  .|+|..+..++|+..+..+|++..-+..       .   --++.-++.++..+  .+++.-++...+..+-..
T Consensus       817 DpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~-------~---~~~~vdl~~~a~~T--~g~tgADlq~ll~~A~l~  884 (952)
T KOG0735|consen  817 DPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSL-------L---KDTDVDLECLAQKT--DGFTGADLQSLLYNAQLA  884 (952)
T ss_pred             CHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhcc-------C---CccccchHHHhhhc--CCCchhhHHHHHHHHHHH
Confidence            67777  7999999999999999999985543321       1   11233456666653  244557888888888777


Q ss_pred             HHHHHHHhccCCCCCEEEEEEcCCccEEEEE
Q 047225          246 NLAEIILTGYIQVGDSVTMDCDSGGNVIMYR  276 (287)
Q Consensus       246 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  276 (287)
                      ++-+++.... ..+-.-.++.....++....
T Consensus       885 avh~~l~~~~-~~~~~p~~~~~~~~si~~~~  914 (952)
T KOG0735|consen  885 AVHEILKRED-EEGVVPSIDDASLESIFSDS  914 (952)
T ss_pred             HHHHHHHhcC-ccccCCccchhhhhhhhhcc
Confidence            7755544433 33333334444444444433

>PRK09087 hypothetical protein; Validated

Probab=99.49  E-value=3.8e-13  Score=111.87  Aligned_cols=156  Identities=19%  Similarity=0.234  Sum_probs=101.2

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILF   95 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~i   95 (287)
                      +.+.++|+||+|+|||+|++++++..   .  ..+++...+.                     ..+...+..   ++|+|
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~---~--~~~i~~~~~~---------------------~~~~~~~~~---~~l~i   93 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKS---D--ALLIHPNEIG---------------------SDAANAAAE---GPVLI   93 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhc---C--CEEecHHHcc---------------------hHHHHhhhc---CeEEE
Confidence            33359999999999999999998764   2  2233332211                     122222222   48999


Q ss_pred             cCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhcc
Q 047225           96 DEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRI  175 (287)
Q Consensus        96 Deid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~  175 (287)
                      ||++... ..+..|+.+++.-..          .+..+|++++..+..+.                    .+.++|.+|+
T Consensus        94 DDi~~~~-~~~~~lf~l~n~~~~----------~g~~ilits~~~p~~~~--------------------~~~~dL~SRl  142 (226)
T PRK09087         94 EDIDAGG-FDETGLFHLINSVRQ----------AGTSLLMTSRLWPSSWN--------------------VKLPDLKSRL  142 (226)
T ss_pred             ECCCCCC-CCHHHHHHHHHHHHh----------CCCeEEEECCCChHHhc--------------------cccccHHHHH
Confidence            9999764 234556666553110          12247777766544331                    2257899999


Q ss_pred             C--ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          176 D--EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       176 ~--~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                      .  ..+.+.||+.+++.+++++.+...         .+.++++++++|+....   .+.+.+..+++++-
T Consensus       143 ~~gl~~~l~~pd~e~~~~iL~~~~~~~---------~~~l~~ev~~~La~~~~---r~~~~l~~~l~~L~  200 (226)
T PRK09087        143 KAATVVEIGEPDDALLSQVIFKLFADR---------QLYVDPHVVYYLVSRME---RSLFAAQTIVDRLD  200 (226)
T ss_pred             hCCceeecCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHhh---hhHHHHHHHHHHHH
Confidence            5  669999999999999998777541         46899999999999753   23455555555443

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=99.49  E-value=9e-13  Score=122.81  Aligned_cols=189  Identities=16%  Similarity=0.219  Sum_probs=116.3

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC----ceEEe-ccccccccc--chhhhhCCCCCCCcc
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE----AMVRI-DMSEYMEKH--TVSKFFGSPPGYVGF   75 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~----~~~~~-~~~~~~~~~--~~~~~~~~~~~~~~~   75 (287)
                      ++.++..+.+. +..+.++|+||+|+|||++|+++++.+.....    ++..+ +|-......  .+..+-|  ....+.
T Consensus        25 v~~L~~~i~~~-~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~dv~~idg--as~~~v  101 (563)
T PRK06647         25 VETLKHSIESN-KIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLDVIEIDG--ASNTSV  101 (563)
T ss_pred             HHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCCCeEEecC--cccCCH
Confidence            34455555443 33335999999999999999999999843211    11111 111111000  0000101  001111


Q ss_pred             cchhhHHHHHH----hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCC
Q 047225           76 ENGGQLTEAVR----HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILG  151 (287)
Q Consensus        76 ~~~~~~~~~~~----~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~  151 (287)
                      .....+.+.+.    .+++.+++|||++.++...++.|++.+++.           .+.++||++++...          
T Consensus       102 ddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEep-----------p~~~vfI~~tte~~----------  160 (563)
T PRK06647        102 QDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEP-----------PPYIVFIFATTEVH----------  160 (563)
T ss_pred             HHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccC-----------CCCEEEEEecCChH----------
Confidence            11122222222    245679999999999999999999999963           23556777764321          


Q ss_pred             chHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCC
Q 047225          152 SDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYG  231 (287)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~  231 (287)
                                    .+.+.+.+|+ ..+.|.+++.+++.+++...+...         .+.++++++.+|+..+.   .+
T Consensus       161 --------------kL~~tI~SRc-~~~~f~~l~~~el~~~L~~i~~~e---------gi~id~eAl~lLa~~s~---Gd  213 (563)
T PRK06647        161 --------------KLPATIKSRC-QHFNFRLLSLEKIYNMLKKVCLED---------QIKYEDEALKWIAYKST---GS  213 (563)
T ss_pred             --------------HhHHHHHHhc-eEEEecCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CC
Confidence                          2457899999 889999999999988886655431         46789999999998643   34


Q ss_pred             chhHHHHHHHH
Q 047225          232 ARPLRRAIGRL  242 (287)
Q Consensus       232 ~r~l~~~i~~~  242 (287)
                      +|.+...++++
T Consensus       214 lR~alslLdkl  224 (563)
T PRK06647        214 VRDAYTLFDQV  224 (563)
T ss_pred             HHHHHHHHHHH
Confidence            56666655543

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

Probab=99.49  E-value=2.8e-12  Score=103.95  Aligned_cols=193  Identities=21%  Similarity=0.253  Sum_probs=126.6

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCc-EE
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPH-SV   92 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~i   92 (287)
                      +.|.+|++|+|..|||||++++++.+.+...+..++.++-.+..+-                   ..+.+.++..+. -|
T Consensus        82 G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~dl~~L-------------------p~l~~~Lr~~~~kFI  142 (287)
T COG2607          82 GLPANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKEDLATL-------------------PDLVELLRARPEKFI  142 (287)
T ss_pred             CCcccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEcHHHHhhH-------------------HHHHHHHhcCCceEE
Confidence            4566799999999999999999999999888888888888776543                   356666666554 49


Q ss_pred             EEEcCcccccH-HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhh-ccCCchHHHHHHHHHHHhcCChh
Q 047225           93 ILFDEIEKAHR-DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARE-SILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        93 l~iDeid~~~~-~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      ||+||+..-+- +.-..|..+++.+-       .-.+.|++|.+|+|.-.-.-... +-.++. -+..-.+..++.+  +
T Consensus       143 lFcDDLSFe~gd~~yK~LKs~LeG~v-------e~rP~NVl~YATSNRRHLl~e~~~dn~~~~-~eih~~eaveEKl--S  212 (287)
T COG2607         143 LFCDDLSFEEGDDAYKALKSALEGGV-------EGRPANVLFYATSNRRHLLPEDMKDNEGST-GEIHPSEAVEEKL--S  212 (287)
T ss_pred             EEecCCCCCCCchHHHHHHHHhcCCc-------ccCCCeEEEEEecCCcccccHhhhhCCCcc-cccChhHHHHHhh--c
Confidence            99999875433 45556777777432       22345888999999743211000 111111 0001112222333  5


Q ss_pred             HHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHh--ccCCCCCchhHHHHHHHHHH
Q 047225          171 FLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEE--GYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       171 l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~--~~~~~~~~r~l~~~i~~~~~  244 (287)
                      |-+||+-.+.|+|++.++..+++..+...+         .++++++.++.=+-.  .-..+-+.|...+.++.+..
T Consensus       213 lSDRFGLwL~F~~~~Q~~YL~~V~~~a~~~---------~l~~~~e~l~~eAl~WAt~rg~RSGR~A~QF~~~~~g  279 (287)
T COG2607         213 LSDRFGLWLSFYPCDQDEYLKIVDHYAKHF---------GLDISDEELHAEALQWATTRGGRSGRVAWQFIRDLAG  279 (287)
T ss_pred             hhhhcceeecccCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHHHHhcCCCccHhHHHHHHHHHh
Confidence            679999999999999999999998887543         455555555444322  22344566888888875543

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.49  E-value=2e-12  Score=116.94  Aligned_cols=184  Identities=19%  Similarity=0.213  Sum_probs=110.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC--CCceEEecccccccccch-----hhhhCCCCCCCcccch---hhHHHHHHh-
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS--KEAMVRIDMSEYMEKHTV-----SKFFGSPPGYVGFENG---GQLTEAVRH-   87 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~--~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~---~~~~~~~~~-   87 (287)
                      +++++||||||||++++.+++.+...  ...+++++|.........     ..+.+......+....   ..+.+.+.. 
T Consensus        57 ~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~  136 (394)
T PRK00411         57 NVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDER  136 (394)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhc
Confidence            69999999999999999999987433  467888998765543211     1122212222222211   123334433 


Q ss_pred             CCcEEEEEcCccccc----HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHH
Q 047225           88 RPHSVILFDEIEKAH----RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEEL  163 (287)
Q Consensus        88 ~~~~il~iDeid~~~----~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~  163 (287)
                      +...+|+|||+|.+.    .+.+..|.+.++..     .+     .++.+|+++|.....                    
T Consensus       137 ~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~-----~~-----~~v~vI~i~~~~~~~--------------------  186 (394)
T PRK00411        137 DRVLIVALDDINYLFEKEGNDVLYSLLRAHEEY-----PG-----ARIGVIGISSDLTFL--------------------  186 (394)
T ss_pred             CCEEEEEECCHhHhhccCCchHHHHHHHhhhcc-----CC-----CeEEEEEEECCcchh--------------------
Confidence            334689999999875    34555555554431     01     145677777753211                    


Q ss_pred             HhcCChhHHhccC-ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          164 RRRFRPEFLNRID-EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       164 ~~~~~~~l~~r~~-~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                       ..+.+.+.+|+. ..+.|+|++.+++.+++...+...   +    ....+++++++.++..+.....++|..-+.+.
T Consensus       187 -~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~---~----~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~  256 (394)
T PRK00411        187 -YILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEG---F----YPGVVDDEVLDLIADLTAREHGDARVAIDLLR  256 (394)
T ss_pred             -hhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhh---c----ccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHH
Confidence             124566777774 459999999999999997776321   1    12357899999998765332233333333343

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

Probab=99.49  E-value=6.7e-13  Score=124.38  Aligned_cols=138  Identities=30%  Similarity=0.420  Sum_probs=100.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||.||+++|.+-   +.|++.++.+++.+-     +.|     .|....+.++...+...++++|+||+
T Consensus       346 GvLL~GPPGTGKTLLAKAiAGEA---gVPF~svSGSEFvE~-----~~g-----~~asrvr~lf~~ar~~aP~iifidei  412 (774)
T KOG0731|consen  346 GVLLVGPPGTGKTLLAKAIAGEA---GVPFFSVSGSEFVEM-----FVG-----VGASRVRDLFPLARKNAPSIIFIDEI  412 (774)
T ss_pred             ceEEECCCCCcHHHHHHHHhccc---CCceeeechHHHHHH-----hcc-----cchHHHHHHHHHhhccCCeEEEeccc
Confidence            49999999999999999999988   899999999988753     111     12222357788888877799999999


Q ss_pred             cccc------------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           99 EKAH------------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        99 d~~~------------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                      |...            .+-...|.+++-+-     +|-... .+++|+++||...                        .
T Consensus       413 da~~~~r~G~~~~~~~~e~e~tlnQll~em-----Dgf~~~-~~vi~~a~tnr~d------------------------~  462 (774)
T KOG0731|consen  413 DAVGRKRGGKGTGGGQDEREQTLNQLLVEM-----DGFETS-KGVIVLAATNRPD------------------------I  462 (774)
T ss_pred             ccccccccccccCCCChHHHHHHHHHHHHh-----cCCcCC-CcEEEEeccCCcc------------------------c
Confidence            9432            22334455554431     111111 3568889999863                        3


Q ss_pred             CChhHH--hccCceEEeCCCCHHHHHHHHHHHHHH
Q 047225          167 FRPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKE  199 (287)
Q Consensus       167 ~~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~  199 (287)
                      +.++|+  .|||..|.++.|+.....+|++.++..
T Consensus       463 ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~  497 (774)
T KOG0731|consen  463 LDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRK  497 (774)
T ss_pred             cCHHhcCCCccccceeccCCchhhhHHHHHHHhhc
Confidence            456666  899999999999999999999777653

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=99.49  E-value=6.9e-13  Score=116.08  Aligned_cols=156  Identities=19%  Similarity=0.248  Sum_probs=101.9

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCCCCceE---Eecccccccc--------c-----------chhhhhCCCCCC-
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMV---RIDMSEYMEK--------H-----------TVSKFFGSPPGY-   72 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~---~~~~~~~~~~--------~-----------~~~~~~~~~~~~-   72 (287)
                      ..+.+++.|+.||||||++|+|+..|...  ..+   .++|......        .           ....+...+.+. 
T Consensus        37 ~iggvLI~G~kGtaKSt~~Rala~LLp~~--~~V~gc~f~cdP~~P~~~c~~c~~k~~e~~~~~~~~r~v~~v~lPl~at  114 (423)
T COG1239          37 QIGGALIAGEKGTAKSTLARALADLLPEI--EVVIGCPFNCDPDDPEEMCDECRAKGDELEWLPREKRKVPFVALPLGAT  114 (423)
T ss_pred             ccceeEEecCCCccHHHHHHHHHHhCCcc--ceecCCCCCCCCCChhhhhHHHHhhccccccccccceecceecCCCccc
Confidence            35679999999999999999999999432  221   1122111110        0           000011111111 


Q ss_pred             ----Ccccchh-------h--HHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCcee-ecCCCceeecc-ceEEEEee
Q 047225           73 ----VGFENGG-------Q--LTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRV-TDGKGQTVDLK-NTIIIMTS  137 (287)
Q Consensus        73 ----~~~~~~~-------~--~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~-~~~~g~~i~~~-~~~iI~t~  137 (287)
                          +|.-...       .  -...+...+++|++|||++.++..+++.|+..++.|.. ...+|..+.++ ++++|+|+
T Consensus       115 eDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL~d~lvd~LLd~aaeG~n~vereGisi~hpa~fvligTm  194 (423)
T COG1239         115 EDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVNLLDDHLVDALLDVAAEGVNDVEREGISIRHPARFLLIGTM  194 (423)
T ss_pred             hhhhccccCHHHHHhcCccccCCcchhhccCCEEEEeccccccHHHHHHHHHHHHhCCceeeeCceeeccCccEEEEeec
Confidence                1100000       0  01234445679999999999999999999999999843 33468888886 89999999


Q ss_pred             cCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCC-HHHHHHHHHHH
Q 047225          138 NIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLN-KMQLMEIVDIM  196 (287)
Q Consensus       138 n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~-~~~~~~il~~~  196 (287)
                      ||...                       .+.|.|++||+..+.+.++. .++..+|+...
T Consensus       195 NPEeG-----------------------eLrpqLlDRfg~~v~~~~~~~~~~rv~Ii~r~  231 (423)
T COG1239         195 NPEEG-----------------------ELRPQLLDRFGLEVDTHYPLDLEERVEIIRRR  231 (423)
T ss_pred             Ccccc-----------------------ccchhhHhhhcceeeccCCCCHHHHHHHHHHH
Confidence            99633                       56899999999888887766 66666666543

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.47  E-value=2.2e-12  Score=121.03  Aligned_cols=187  Identities=16%  Similarity=0.225  Sum_probs=115.1

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC---c-eE---Eeccccccccc--------chhhhhCC
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE---A-MV---RIDMSEYMEKH--------TVSKFFGS   68 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~---~-~~---~~~~~~~~~~~--------~~~~~~~~   68 (287)
                      ..++..+.+. +-.+.++|+||+|||||++|+.+|+.+.-...   + +.   .-.|.......        .+..+-+ 
T Consensus        26 ~~L~~~i~~~-ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~~~g~~~n~~~~d~-  103 (620)
T PRK14954         26 HTIQNSLRMD-RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDFDAGTSLNISEFDA-  103 (620)
T ss_pred             HHHHHHHHcC-CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHHhccCCCCeEEecc-
Confidence            3455555443 33335999999999999999999999833110   0 00   01121110000        0000100 


Q ss_pred             CCCCCcccchhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhh
Q 047225           69 PPGYVGFENGGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVI  144 (287)
Q Consensus        69 ~~~~~~~~~~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~  144 (287)
                       ....+.+....+.+.+..    +.+.|++|||+|++....++.|++.+++..           +.+++|++++...   
T Consensus       104 -~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp-----------~~tv~IL~t~~~~---  168 (620)
T PRK14954        104 -ASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPP-----------PHAIFIFATTELH---  168 (620)
T ss_pred             -cccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCC-----------CCeEEEEEeCChh---
Confidence             111122222333333322    345799999999999999999999999731           2446666664321   


Q ss_pred             hhhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHh
Q 047225          145 ARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEE  224 (287)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~  224 (287)
                                           .+.+.+.+|+ ..+.|.+++.+++..++...+...         .+.+++++++.++..
T Consensus       169 ---------------------kLl~TI~SRc-~~vef~~l~~~ei~~~L~~i~~~e---------gi~I~~eal~~La~~  217 (620)
T PRK14954        169 ---------------------KIPATIASRC-QRFNFKRIPLDEIQSQLQMICRAE---------GIQIDADALQLIARK  217 (620)
T ss_pred             ---------------------hhhHHHHhhc-eEEecCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHH
Confidence                                 3346789999 999999999999999987666532         457899999999887


Q ss_pred             ccCCCCCchhHHHHHHH
Q 047225          225 GYNPSYGARPLRRAIGR  241 (287)
Q Consensus       225 ~~~~~~~~r~l~~~i~~  241 (287)
                      +-   .++|.+...+++
T Consensus       218 s~---Gdlr~al~eLeK  231 (620)
T PRK14954        218 AQ---GSMRDAQSILDQ  231 (620)
T ss_pred             hC---CCHHHHHHHHHH
Confidence            53   334555554443

>smart00350 MCM minichromosome maintenance proteins

Probab=99.47  E-value=8.8e-13  Score=122.36  Aligned_cols=158  Identities=14%  Similarity=0.132  Sum_probs=101.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEe---cccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRI---DMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILF   95 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~i   95 (287)
                      |++|+|+||||||++++.+++.....  .++..   ++.....     ..+..+  ..|..  ..-...+.....+++++
T Consensus       238 ~vLL~G~pGtGKs~lar~l~~~~~r~--~~~~~~~~~~~~l~~-----~~~~~~--~~g~~--~~~~G~l~~A~~Gil~i  306 (509)
T smart00350      238 NILLLGDPGTAKSQLLKYVEKTAPRA--VYTTGKGSSAVGLTA-----AVTRDP--ETREF--TLEGGALVLADNGVCCI  306 (509)
T ss_pred             eEEEeCCCChhHHHHHHHHHHHcCcc--eEcCCCCCCcCCccc-----cceEcc--CcceE--EecCccEEecCCCEEEE
Confidence            79999999999999999999987321  22211   1111110     000000  00000  00012233345679999


Q ss_pred             cCcccccHHHHHHHHHhhcCceeecCC-Cceeecc-ceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHh
Q 047225           96 DEIEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDLK-NTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLN  173 (287)
Q Consensus        96 Deid~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  173 (287)
                      ||+|++++..+..|+++|+++.++... |....++ ++.+|+|+||....+..     ...+.+      .-.+++++++
T Consensus       307 DEi~~l~~~~q~~L~e~me~~~i~i~k~G~~~~l~~~~~viAa~NP~~g~y~~-----~~~~~~------n~~l~~~lLs  375 (509)
T smart00350      307 DEFDKMDDSDRTAIHEAMEQQTISIAKAGITTTLNARCSVLAAANPIGGRYDP-----KLTPEE------NIDLPAPILS  375 (509)
T ss_pred             echhhCCHHHHHHHHHHHhcCEEEEEeCCEEEEecCCcEEEEEeCCCCcccCC-----CcChhh------ccCCChHHhC
Confidence            999999999999999999998876653 6555554 78999999986432211     000011      1158899999


Q ss_pred             ccCce-EEeCCCCHHHHHHHHHHHHH
Q 047225          174 RIDEV-IVFRQLNKMQLMEIVDIMLK  198 (287)
Q Consensus       174 r~~~~-i~~~~~~~~~~~~il~~~l~  198 (287)
                      |||.. +...+++.+.-.+|+.+.+.
T Consensus       376 RFdLi~~~~d~~~~~~d~~i~~~i~~  401 (509)
T smart00350      376 RFDLLFVVLDEVDEERDRELAKHVVD  401 (509)
T ss_pred             ceeeEEEecCCCChHHHHHHHHHHHH
Confidence            99865 66688998888888877653

>PRK04132 replication factor C small subunit; Provisional

Probab=99.47  E-value=9.6e-13  Score=126.38  Aligned_cols=155  Identities=20%  Similarity=0.282  Sum_probs=116.3

Q ss_pred             EEEec--cCCChHHHHHHHHHHHhcCC--CCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh-----CCc
Q 047225           20 FLFTG--PTGVGKTELANALAFEYFGS--KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH-----RPH   90 (287)
Q Consensus        20 ill~G--p~GtGKT~la~~la~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~   90 (287)
                      -+..|  |++.||||+|+++|+.+++.  +..++.+|.++......+...+.               .+...     .++
T Consensus       567 ~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk---------------~~a~~~~~~~~~~  631 (846)
T PRK04132        567 NFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVK---------------EFARTKPIGGASF  631 (846)
T ss_pred             hhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHH---------------HHHhcCCcCCCCC
Confidence            45668  99999999999999998654  45788999987543322222221               11111     135


Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChh
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      .|++|||+|+++.+.|++|++.++...           .++.||++||...                        .+.++
T Consensus       632 KVvIIDEaD~Lt~~AQnALLk~lEep~-----------~~~~FILi~N~~~------------------------kIi~t  676 (846)
T PRK04132        632 KIIFLDEADALTQDAQQALRRTMEMFS-----------SNVRFILSCNYSS------------------------KIIEP  676 (846)
T ss_pred             EEEEEECcccCCHHHHHHHHHHhhCCC-----------CCeEEEEEeCChh------------------------hCchH
Confidence            799999999999999999999999731           3567999998753                        34578


Q ss_pred             HHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          171 FLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       171 l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      +.||| ..+.|+|++.+++.+.+...+.+.         .+.++++++..++..+.      ++++++++
T Consensus       677 IrSRC-~~i~F~~ls~~~i~~~L~~I~~~E---------gi~i~~e~L~~Ia~~s~------GDlR~AIn  730 (846)
T PRK04132        677 IQSRC-AIFRFRPLRDEDIAKRLRYIAENE---------GLELTEEGLQAILYIAE------GDMRRAIN  730 (846)
T ss_pred             Hhhhc-eEEeCCCCCHHHHHHHHHHHHHhc---------CCCCCHHHHHHHHHHcC------CCHHHHHH
Confidence            99999 999999999999999887766532         35688999999998764      46666665

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.46  E-value=2e-12  Score=121.85  Aligned_cols=176  Identities=16%  Similarity=0.251  Sum_probs=109.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCce-EEecccccccccch-----hhhhC-CCCCCCcccchhhHHHHHHh---
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAM-VRIDMSEYMEKHTV-----SKFFG-SPPGYVGFENGGQLTEAVRH---   87 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~-~~~~~~~~~~~~~~-----~~~~~-~~~~~~~~~~~~~~~~~~~~---   87 (287)
                      +.++|+||+|+|||++|+.+|+.+.-....- ..-.|+.......+     .+++. ......+.+..+.+.+.+..   
T Consensus        39 ~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~  118 (620)
T PRK14948         39 PAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPV  118 (620)
T ss_pred             ceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHHhcCCCccEEEEeccccCCHHHHHHHHHHHhhChh
Confidence            3699999999999999999999984321110 00112210000000     00000 00111222223333333332   


Q ss_pred             -CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           88 -RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        88 -~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                       +++.|++|||+|+++.+.++.|++.+++..           ..++||++++...                        .
T Consensus       119 ~~~~KViIIDEad~Lt~~a~naLLK~LEePp-----------~~tvfIL~t~~~~------------------------~  163 (620)
T PRK14948        119 QARWKVYVIDECHMLSTAAFNALLKTLEEPP-----------PRVVFVLATTDPQ------------------------R  163 (620)
T ss_pred             cCCceEEEEECccccCHHHHHHHHHHHhcCC-----------cCeEEEEEeCChh------------------------h
Confidence             345799999999999999999999999631           2456777765322                        2


Q ss_pred             CChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHH
Q 047225          167 FRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGR  241 (287)
Q Consensus       167 ~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~  241 (287)
                      +.+.+.+|| ..+.|++++.+++...+...+.+.         .+.++++++..++..+.   .+.|.+.+.+++
T Consensus       164 llpTIrSRc-~~~~f~~l~~~ei~~~L~~ia~ke---------gi~is~~al~~La~~s~---G~lr~A~~lLek  225 (620)
T PRK14948        164 VLPTIISRC-QRFDFRRIPLEAMVQHLSEIAEKE---------SIEIEPEALTLVAQRSQ---GGLRDAESLLDQ  225 (620)
T ss_pred             hhHHHHhhe-eEEEecCCCHHHHHHHHHHHHHHh---------CCCCCHHHHHHHHHHcC---CCHHHHHHHHHH
Confidence            346899999 899999999999888876655432         35688899998887653   334555555554

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.46  E-value=1.1e-12  Score=124.76  Aligned_cols=169  Identities=25%  Similarity=0.381  Sum_probs=108.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||++++.++..+   +.+++.++++++...     ..+.     +......++........+|+||||+
T Consensus       187 gill~G~~G~GKt~~~~~~a~~~---~~~f~~is~~~~~~~-----~~g~-----~~~~~~~~f~~a~~~~P~IifIDEi  253 (644)
T PRK10733        187 GVLMVGPPGTGKTLLAKAIAGEA---KVPFFTISGSDFVEM-----FVGV-----GASRVRDMFEQAKKAAPCIIFIDEI  253 (644)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHc---CCCEEEEehHHhHHh-----hhcc-----cHHHHHHHHHHHHhcCCcEEEehhH
Confidence            49999999999999999999988   678888888765432     1111     1111234455555556689999999


Q ss_pred             ccccH-----------H---HHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           99 EKAHR-----------D---VLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        99 d~~~~-----------~---~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      |.+..           .   .++.|+..++.  +.       ....+++|++||.+.                       
T Consensus       254 D~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg--~~-------~~~~vivIaaTN~p~-----------------------  301 (644)
T PRK10733        254 DAVGRQRGAGLGGGHDEREQTLNQMLVEMDG--FE-------GNEGIIVIAATNRPD-----------------------  301 (644)
T ss_pred             hhhhhccCCCCCCCchHHHHHHHHHHHhhhc--cc-------CCCCeeEEEecCChh-----------------------
Confidence            97622           1   33344433432  11       013568889999753                       


Q ss_pred             hcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          165 RRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       165 ~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                       .+++++++  ||+..+.++.|+.++..+|++.++.+..       ...+++   +..++.  ...+++..++.+.++.+
T Consensus       302 -~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~-------l~~~~d---~~~la~--~t~G~sgadl~~l~~eA  368 (644)
T PRK10733        302 -VLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVP-------LAPDID---AAIIAR--GTPGFSGADLANLVNEA  368 (644)
T ss_pred             -hcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCC-------CCCcCC---HHHHHh--hCCCCCHHHHHHHHHHH
Confidence             34677874  9999999999999999999987775421       111121   223333  23455666777777665


Q ss_pred             HHH
Q 047225          243 LED  245 (287)
Q Consensus       243 ~~~  245 (287)
                      ...
T Consensus       369 a~~  371 (644)
T PRK10733        369 ALF  371 (644)
T ss_pred             HHH
Confidence            543

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

Probab=99.45  E-value=1.6e-12  Score=114.51  Aligned_cols=126  Identities=22%  Similarity=0.360  Sum_probs=94.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh-CCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH-RPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~il~iDe   97 (287)
                      ..+|+||||||||+++.++|+.+   +..++-++.++..+..                   .+...+.. .+.+||+|+|
T Consensus       237 GYLLYGPPGTGKSS~IaAmAn~L---~ydIydLeLt~v~~n~-------------------dLr~LL~~t~~kSIivIED  294 (457)
T KOG0743|consen  237 GYLLYGPPGTGKSSFIAAMANYL---NYDIYDLELTEVKLDS-------------------DLRHLLLATPNKSILLIED  294 (457)
T ss_pred             cceeeCCCCCCHHHHHHHHHhhc---CCceEEeeeccccCcH-------------------HHHHHHHhCCCCcEEEEee
Confidence            49999999999999999999999   7788878877666543                   23333333 3457999999


Q ss_pred             cccc------------------cHHHHHHHHHhhcCceeecCCCceeec-cceEEEEeecCCchhhhhhccCCchHHHHH
Q 047225           98 IEKA------------------HRDVLNVMLQLLDDGRVTDGKGQTVDL-KNTIIIMTSNIGDSVIARESILGSDQMERG  158 (287)
Q Consensus        98 id~~------------------~~~~~~~L~~~l~~~~~~~~~g~~i~~-~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~  158 (287)
                      ||..                  ..-.+..|+.+++.        -+-.. ..-+||+|||..                  
T Consensus       295 IDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDG--------lwSscg~ERIivFTTNh~------------------  348 (457)
T KOG0743|consen  295 IDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDG--------LWSSCGDERIIVFTTNHK------------------  348 (457)
T ss_pred             cccccccccccccccccccCCcceeehHHhhhhhcc--------ccccCCCceEEEEecCCh------------------
Confidence            9943                  01234556666652        22222 144799999974                  


Q ss_pred             HHHHHHhcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHH
Q 047225          159 VAEELRRRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLK  198 (287)
Q Consensus       159 ~~~~~~~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~  198 (287)
                            ++++|+|++  |+|..|++..++...++.++..+|.
T Consensus       349 ------EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~  384 (457)
T KOG0743|consen  349 ------EKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLG  384 (457)
T ss_pred             ------hhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcC
Confidence                  367899997  9999999999999999999988874

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.45  E-value=2.2e-12  Score=121.55  Aligned_cols=174  Identities=18%  Similarity=0.298  Sum_probs=109.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCC-----CceEEe-ccccccccc--chhhhhCCCCCCCcccchhhHHHHHHh---
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSK-----EAMVRI-DMSEYMEKH--TVSKFFGSPPGYVGFENGGQLTEAVRH---   87 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~-----~~~~~~-~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~---   87 (287)
                      .++|+||+|+|||++++.+++.+.-..     ..+-.+ +|..+....  .+..+-+  .+..+.+....+.+.+..   
T Consensus        41 ayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~~~ld~--~~~~~vd~Ir~li~~~~~~P~  118 (614)
T PRK14971         41 AYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNIHELDA--ASNNSVDDIRNLIEQVRIPPQ  118 (614)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCceEEecc--cccCCHHHHHHHHHHHhhCcc
Confidence            489999999999999999999883111     111000 011111000  0001100  011111111222222222   


Q ss_pred             -CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           88 -RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        88 -~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                       +++.|++|||++.++...++.|++.+++.           ...++||++++...                        .
T Consensus       119 ~~~~KVvIIdea~~Ls~~a~naLLK~LEep-----------p~~tifIL~tt~~~------------------------k  163 (614)
T PRK14971        119 IGKYKIYIIDEVHMLSQAAFNAFLKTLEEP-----------PSYAIFILATTEKH------------------------K  163 (614)
T ss_pred             cCCcEEEEEECcccCCHHHHHHHHHHHhCC-----------CCCeEEEEEeCCch------------------------h
Confidence             34679999999999999999999999973           12456777775322                        3


Q ss_pred             CChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          167 FRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       167 ~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                      +.+.+.+|+ ..+.|.+++.+++..++...+.+.         .+.+++++++.|+..+.   .++|.+...++++
T Consensus       164 Il~tI~SRc-~iv~f~~ls~~ei~~~L~~ia~~e---------gi~i~~~al~~La~~s~---gdlr~al~~Lekl  226 (614)
T PRK14971        164 ILPTILSRC-QIFDFNRIQVADIVNHLQYVASKE---------GITAEPEALNVIAQKAD---GGMRDALSIFDQV  226 (614)
T ss_pred             chHHHHhhh-heeecCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CCHHHHHHHHHHH
Confidence            457899999 889999999999999997766542         46789999999988753   3445555555443

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.45  E-value=3.2e-12  Score=124.99  Aligned_cols=199  Identities=16%  Similarity=0.223  Sum_probs=123.0

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCC-------CCceEEecccccccccchhhhhCCCCCCCcc
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGS-------KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGF   75 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   75 (287)
                      ++++...+....+  ++++|+||||||||++++.+|..+...       +.+++.++++.....          ..+.|-
T Consensus       188 i~~~~~~L~r~~~--~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag----------~~~~ge  255 (821)
T CHL00095        188 IERVIQILGRRTK--NNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAG----------TKYRGE  255 (821)
T ss_pred             HHHHHHHHccccc--CCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhcc----------CCCccH
Confidence            3444444444333  368999999999999999999987422       245555555433211          111221


Q ss_pred             cc--hhhHHHHHHhCCcEEEEEcCccccc--------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhh
Q 047225           76 EN--GGQLTEAVRHRPHSVILFDEIEKAH--------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIA  145 (287)
Q Consensus        76 ~~--~~~~~~~~~~~~~~il~iDeid~~~--------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~  145 (287)
                      .+  ...+++.+...+..||||||++.+-        .+..+.|.+.+..|             ...+|++|++..    
T Consensus       256 ~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg-------------~l~~IgaTt~~e----  318 (821)
T CHL00095        256 FEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALARG-------------ELQCIGATTLDE----  318 (821)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCC-------------CcEEEEeCCHHH----
Confidence            11  1234444455556799999998542        24567777777765             345787777532    


Q ss_pred             hhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          146 RESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       146 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                                   +..+.+  ..+.|.+|| ..|.+++++.++...|+......+....     .+.++++++..++..+
T Consensus       319 -------------y~~~ie--~D~aL~rRf-~~I~v~ep~~~e~~aILr~l~~~~e~~~-----~v~i~deal~~i~~ls  377 (821)
T CHL00095        319 -------------YRKHIE--KDPALERRF-QPVYVGEPSVEETIEILFGLRSRYEKHH-----NLSISDKALEAAAKLS  377 (821)
T ss_pred             -------------HHHHHh--cCHHHHhcc-eEEecCCCCHHHHHHHHHHHHHHHHHHc-----CCCCCHHHHHHHHHHh
Confidence                         111111  257899999 7899999999999999987766655443     3458999999998875


Q ss_pred             cCCCCCchhHHHHHHHHHHHHHHHHHH
Q 047225          226 YNPSYGARPLRRAIGRLLEDNLAEIIL  252 (287)
Q Consensus       226 ~~~~~~~r~l~~~i~~~~~~~~~~~~~  252 (287)
                      ..+ .+-|.+....-+++..+-+...+
T Consensus       378 ~~y-i~~r~lPdkaidlld~a~a~~~~  403 (821)
T CHL00095        378 DQY-IADRFLPDKAIDLLDEAGSRVRL  403 (821)
T ss_pred             hcc-CccccCchHHHHHHHHHHHHHHh
Confidence            322 22234433333355555554444

>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=99.45  E-value=7.3e-13  Score=113.03  Aligned_cols=198  Identities=18%  Similarity=0.264  Sum_probs=121.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||+|||||.+++..-..+.........++++.......+...+........    +..... ..+...|+||||+
T Consensus        35 pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~s~~Tts~~~q~~ie~~l~k~~----~~~~gP-~~~k~lv~fiDDl  109 (272)
T PF12775_consen   35 PVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINFSAQTTSNQLQKIIESKLEKRR----GRVYGP-PGGKKLVLFIDDL  109 (272)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES-TTHHHHHHHHCCCTTECECT----TEEEEE-ESSSEEEEEEETT
T ss_pred             cEEEECCCCCchhHHHHhhhccCCccccceeEeeccCCCCHHHHHHHHhhcEEcCC----CCCCCC-CCCcEEEEEeccc
Confidence            69999999999999999887776544434556777776665555544432211100    011100 1234569999999


Q ss_pred             ccccHH------HHHHHHHhhcCceeecCC-CceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhH
Q 047225           99 EKAHRD------VLNVMLQLLDDGRVTDGK-GQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEF  171 (287)
Q Consensus        99 d~~~~~------~~~~L~~~l~~~~~~~~~-g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  171 (287)
                      +...++      ..+.|+++++.+.+.+.+ ..+....++.++++++++...                     ..+++.|
T Consensus       110 N~p~~d~ygtq~~iElLRQ~i~~~g~yd~~~~~~~~i~~i~~vaa~~p~~Gr---------------------~~is~R~  168 (272)
T PF12775_consen  110 NMPQPDKYGTQPPIELLRQLIDYGGFYDRKKLEWKSIEDIQFVAAMNPTGGR---------------------NPISPRF  168 (272)
T ss_dssp             T-S---TTS--HHHHHHHHHHHCSEEECTTTTEEEEECSEEEEEEESSTTT-----------------------SHHHHH
T ss_pred             CCCCCCCCCCcCHHHHHHHHHHhcCcccCCCcEEEEEeeeEEEEecCCCCCC---------------------CCCChHH
Confidence            965443      568999999999888764 456677899999999885421                     1356889


Q ss_pred             HhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEE-EeChhHHH-------HHHHh------ccCCCCCchhHHH
Q 047225          172 LNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMEL-TVTHTFKK-------KLIEE------GYNPSYGARPLRR  237 (287)
Q Consensus       172 ~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~-~i~~~~~~-------~l~~~------~~~~~~~~r~l~~  237 (287)
                      +++| ..+.+++|+.+++..|....+........ ....+ .+.+.++.       .+...      ...+-++.|++.+
T Consensus       169 ~r~f-~i~~~~~p~~~sl~~If~~il~~~l~~~~-f~~~v~~~~~~lv~ati~ly~~i~~~~~ptp~k~HY~FnlRDlsr  246 (272)
T PF12775_consen  169 LRHF-NILNIPYPSDESLNTIFSSILQSHLKNGG-FPEDVQKLADKLVQATIELYQKIRQQFLPTPSKPHYTFNLRDLSR  246 (272)
T ss_dssp             HTTE-EEEE----TCCHHHHHHHHHHHHHTCHTT-SSGGGCCCHHHHHHHHHHHHHHHHHHS-TTTTCTTTTSHHHHHHH
T ss_pred             hhhe-EEEEecCCChHHHHHHHHHHHhhhcccCC-CChHHHHHHHHHHHHHHHHHHhhhcccCCCCccceeeccHHHHHH
Confidence            9999 99999999999999999888865422110 00000 11122222       22211      1234678999999


Q ss_pred             HHHHHHH
Q 047225          238 AIGRLLE  244 (287)
Q Consensus       238 ~i~~~~~  244 (287)
                      +++.++.
T Consensus       247 v~qGil~  253 (272)
T PF12775_consen  247 VFQGILL  253 (272)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9987655

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.44  E-value=3.3e-12  Score=103.59  Aligned_cols=157  Identities=20%  Similarity=0.289  Sum_probs=98.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCC----CceE-Eecccccccccch-hhhhCCCCCCCcccchhhHHHHHHh----
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSK----EAMV-RIDMSEYMEKHTV-SKFFGSPPGYVGFENGGQLTEAVRH----   87 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~----~~~~-~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~----   87 (287)
                      +.++|+||+|+|||++++.+++.+....    .++. ..+|......... ...+.......+.+....+.+.+..    
T Consensus        15 ~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~i~~i~~~~~~~~~~   94 (188)
T TIGR00678        15 HAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQVRELVEFLSRTPQE   94 (188)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHHHHHHHHHHccCccc
Confidence            4699999999999999999999984321    1110 0001100000000 0000000011122222223343333    


Q ss_pred             CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           88 RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        88 ~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      +++.+++|||+|+++...++.|+..+++..           ++..+|++++.. .                       .+
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~-----------~~~~~il~~~~~-~-----------------------~l  139 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEEPP-----------PNTLFILITPSP-E-----------------------KL  139 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcCCC-----------CCeEEEEEECCh-H-----------------------hC
Confidence            445799999999999999999999998731           245677776532 1                       34


Q ss_pred             ChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          168 RPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       168 ~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                      .+++.+|+ ..+.|+|++.+++.+++...           +    ++++++++++..+
T Consensus       140 ~~~i~sr~-~~~~~~~~~~~~~~~~l~~~-----------g----i~~~~~~~i~~~~  181 (188)
T TIGR00678       140 LPTIRSRC-QVLPFPPLSEEALLQWLIRQ-----------G----ISEEAAELLLALA  181 (188)
T ss_pred             hHHHHhhc-EEeeCCCCCHHHHHHHHHHc-----------C----CCHHHHHHHHHHc
Confidence            57899999 89999999999998888443           2    5788888888764

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.

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

Probab=99.44  E-value=1.1e-12  Score=112.55  Aligned_cols=179  Identities=19%  Similarity=0.305  Sum_probs=118.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||.+|+++|++.   +..++-+.++...+.     .||.....     ...++-....-.++++||||+
T Consensus       129 GiLL~GPpG~GKTmlAKA~Akea---ga~fInv~~s~lt~K-----WfgE~eKl-----v~AvFslAsKl~P~iIFIDEv  195 (386)
T KOG0737|consen  129 GILLYGPPGTGKTMLAKAIAKEA---GANFINVSVSNLTSK-----WFGEAQKL-----VKAVFSLASKLQPSIIFIDEV  195 (386)
T ss_pred             cceecCCCCchHHHHHHHHHHHc---CCCcceeeccccchh-----hHHHHHHH-----HHHHHhhhhhcCcceeehhhH
Confidence            59999999999999999999998   677888888776653     23221111     123344444445589999999


Q ss_pred             cccc-------HHHHH----HHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKAH-------RDVLN----VMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~~-------~~~~~----~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |-+-       .+...    .+..+++ |-.+. .+.     .++|..+||.+.+                        +
T Consensus       196 ds~L~~R~s~dHEa~a~mK~eFM~~WD-Gl~s~-~~~-----rVlVlgATNRP~D------------------------l  244 (386)
T KOG0737|consen  196 DSFLGQRRSTDHEATAMMKNEFMALWD-GLSSK-DSE-----RVLVLGATNRPFD------------------------L  244 (386)
T ss_pred             HHHHhhcccchHHHHHHHHHHHHHHhc-cccCC-CCc-----eEEEEeCCCCCcc------------------------H
Confidence            9442       22222    2223332 21111 111     2567788998754                        3


Q ss_pred             ChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHH
Q 047225          168 RPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNL  247 (287)
Q Consensus       168 ~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~  247 (287)
                      ..++++|++..+.++-|+.+...+|++-.|....       ...+++   +..++..  ..+++.++++..+..+.....
T Consensus       245 DeAiiRR~p~rf~V~lP~~~qR~kILkviLk~e~-------~e~~vD---~~~iA~~--t~GySGSDLkelC~~Aa~~~i  312 (386)
T KOG0737|consen  245 DEAIIRRLPRRFHVGLPDAEQRRKILKVILKKEK-------LEDDVD---LDEIAQM--TEGYSGSDLKELCRLAALRPI  312 (386)
T ss_pred             HHHHHHhCcceeeeCCCchhhHHHHHHHHhcccc-------cCcccC---HHHHHHh--cCCCcHHHHHHHHHHHhHhHH
Confidence            5789999999999999999999999988886431       111222   3445544  345677999999998888888


Q ss_pred             HHHHHh
Q 047225          248 AEIILT  253 (287)
Q Consensus       248 ~~~~~~  253 (287)
                      .+++-+
T Consensus       313 re~~~~  318 (386)
T KOG0737|consen  313 RELLVS  318 (386)
T ss_pred             HHHHHh
Confidence            665444

>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]

Probab=99.43  E-value=1.7e-13  Score=124.29  Aligned_cols=241  Identities=12%  Similarity=0.143  Sum_probs=147.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhH---HHHHHhCCcEEEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL---TEAVRHRPHSVIL   94 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~il~   94 (287)
                      .|+|++|.||+|||.+.++.+..++.   . ++.....-+....-.....+.       +++.+   ..++...+.+|.+
T Consensus       379 inv~iVGDPgt~KSQfLk~v~~fsPR---~-vYtsGkaSSaAGLTaaVvkD~-------esgdf~iEAGALmLADnGICC  447 (764)
T KOG0480|consen  379 INVCIVGDPGTGKSQFLKAVCAFSPR---S-VYTSGKASSAAGLTAAVVKDE-------ESGDFTIEAGALMLADNGICC  447 (764)
T ss_pred             ceEEEeCCCCccHHHHHHHHhccCCc---c-eEecCcccccccceEEEEecC-------CCCceeeecCcEEEccCceEE
Confidence            47999999999999999999987732   1 122111111110000011111       11121   3455666778999


Q ss_pred             EcCcccccHHHHHHHHHhhcCceeecCC-Cceeecc-ceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHH
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDLK-NTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFL  172 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  172 (287)
                      |||+|+|+...+.+|.+.|++..+++.+ |..-.++ ...|++++||-..-..+.         ..+.+.  =.|+++++
T Consensus       448 IDEFDKMd~~dqvAihEAMEQQtISIaKAGv~aTLnARtSIlAAANPv~GhYdR~---------ktl~eN--i~msApim  516 (764)
T KOG0480|consen  448 IDEFDKMDVKDQVAIHEAMEQQTISIAKAGVVATLNARTSILAAANPVGGHYDRK---------KTLREN--INMSAPIM  516 (764)
T ss_pred             echhcccChHhHHHHHHHHHhheehheecceEEeecchhhhhhhcCCcCCccccc---------cchhhh--cCCCchhh
Confidence            9999999999999999999999988886 6555554 678889999855443331         112111  15889999


Q ss_pred             hccCce-EEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcE-EEeCh-hHHHHHH-HhccCCCCCchhHHHHHHHHHHHHHH
Q 047225          173 NRIDEV-IVFRQLNKMQLMEIVDIMLKEIYERLEAKNME-LTVTH-TFKKKLI-EEGYNPSYGARPLRRAIGRLLEDNLA  248 (287)
Q Consensus       173 ~r~~~~-i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~-~~i~~-~~~~~l~-~~~~~~~~~~r~l~~~i~~~~~~~~~  248 (287)
                      +|||-+ |.+..+++..=..|..+.+.. .......... -.++- .+..||. ...+.|..+...-+..++....    
T Consensus       517 SRFDL~FiLlD~~nE~~D~~ia~hIld~-h~~i~~~~~~~~~~~~e~vrkYi~yAR~~~P~ls~ea~~~lve~Y~~----  591 (764)
T KOG0480|consen  517 SRFDLFFILLDDCNEVVDYAIARHILDL-HRGIDDATERVCVYTLEQVRKYIRYARNFKPKLSKEASEMLVEKYKG----  591 (764)
T ss_pred             hhhcEEEEEecCCchHHHHHHHHHHHHH-hccccccccccccccHHHHHHHHHHHHhcCccccHHHHHHHHHHHHH----
Confidence            999955 888999988888888877764 2222111111 12233 3333332 1245555554333333333222    


Q ss_pred             HHHHhc-cCCCCCEEEEEEcCCccEEEEEecCCcccccc
Q 047225          249 EIILTG-YIQVGDSVTMDCDSGGNVIMYRHRNGSMTVCA  286 (287)
Q Consensus       249 ~~~~~~-~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~  286 (287)
                       ...+. +-....+++|++++.++.+++.++.+.++++.
T Consensus       592 -lR~~~~~~~~~~s~~ITvRqLESlIRLsEA~Ar~~~~d  629 (764)
T KOG0480|consen  592 -LRQRDAQGNNRSSYRITVRQLESLIRLSEARARVECRD  629 (764)
T ss_pred             -HHHhhccccCcccccccHHHHHHHHHHHHHHHhhhhhh
Confidence             11111 11225688999999999999998888877653

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.43  E-value=2.8e-12  Score=114.61  Aligned_cols=139  Identities=16%  Similarity=0.277  Sum_probs=87.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccch-----hh--hhCCCCCCCcccchhhHHHHHHh---
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV-----SK--FFGSPPGYVGFENGGQLTEAVRH---   87 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~-----~~--~~~~~~~~~~~~~~~~~~~~~~~---   87 (287)
                      +.++|+||+|+|||++|+.+|+.+.-....  ...|..-......     .+  ++.......+..+.+.+.+.+..   
T Consensus        37 ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~--~~~Cg~C~~C~~~~~~~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~  114 (394)
T PRK07940         37 HAWLFTGPPGSGRSVAARAFAAALQCTDPD--EPGCGECRACRTVLAGTHPDVRVVAPEGLSIGVDEVRELVTIAARRPS  114 (394)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHhCCCCCC--CCCCCCCHHHHHHhcCCCCCEEEeccccccCCHHHHHHHHHHHHhCcc
Confidence            359999999999999999999987432211  0112111000000     00  01001111222233444444433   


Q ss_pred             -CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           88 -RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        88 -~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                       +++.|++|||+|++++..++.|++.+++..           ++.++|++++...                        .
T Consensus       115 ~~~~kViiIDead~m~~~aanaLLk~LEep~-----------~~~~fIL~a~~~~------------------------~  159 (394)
T PRK07940        115 TGRWRIVVIEDADRLTERAANALLKAVEEPP-----------PRTVWLLCAPSPE------------------------D  159 (394)
T ss_pred             cCCcEEEEEechhhcCHHHHHHHHHHhhcCC-----------CCCeEEEEECChH------------------------H
Confidence             345799999999999999999999999731           2334555554321                        3


Q ss_pred             CChhHHhccCceEEeCCCCHHHHHHHHH
Q 047225          167 FRPEFLNRIDEVIVFRQLNKMQLMEIVD  194 (287)
Q Consensus       167 ~~~~l~~r~~~~i~~~~~~~~~~~~il~  194 (287)
                      +.|.+.||| ..+.|+||+.+++.+++.
T Consensus       160 llpTIrSRc-~~i~f~~~~~~~i~~~L~  186 (394)
T PRK07940        160 VLPTIRSRC-RHVALRTPSVEAVAEVLV  186 (394)
T ss_pred             ChHHHHhhC-eEEECCCCCHHHHHHHHH
Confidence            458899999 899999999999888875

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

Probab=99.42  E-value=2.6e-13  Score=112.86  Aligned_cols=134  Identities=28%  Similarity=0.444  Sum_probs=99.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+|+||||||.||+++|+..   +..|..+-.++..     +..+|..+..     .+.++........+|+|||||
T Consensus       221 GVIlyG~PGTGKTLLAKAVANqT---SATFlRvvGseLi-----QkylGdGpkl-----vRqlF~vA~e~apSIvFiDEI  287 (440)
T KOG0726|consen  221 GVILYGEPGTGKTLLAKAVANQT---SATFLRVVGSELI-----QKYLGDGPKL-----VRELFRVAEEHAPSIVFIDEI  287 (440)
T ss_pred             eeEEeCCCCCchhHHHHHHhccc---chhhhhhhhHHHH-----HHHhccchHH-----HHHHHHHHHhcCCceEEeehh
Confidence            59999999999999999999877   5555555555443     3444433332     367888888888899999999


Q ss_pred             ccc-----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKA-----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~-----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |..           ..++|..++.+++.-.-..+.      .++-+|+++|.-.                        .+
T Consensus       288 dAiGtKRyds~SggerEiQrtmLELLNQldGFdsr------gDvKvimATnrie------------------------~L  337 (440)
T KOG0726|consen  288 DAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDSR------GDVKVIMATNRIE------------------------TL  337 (440)
T ss_pred             hhhccccccCCCccHHHHHHHHHHHHHhccCcccc------CCeEEEEeccccc------------------------cc
Confidence            943           446888888888763322221      3678999999753                        35


Q ss_pred             ChhHH--hccCceEEeCCCCHHHHHHHHHH
Q 047225          168 RPEFL--NRIDEVIVFRQLNKMQLMEIVDI  195 (287)
Q Consensus       168 ~~~l~--~r~~~~i~~~~~~~~~~~~il~~  195 (287)
                      +|+|+  .|+|..|.|+-|+....+.|+..
T Consensus       338 DPaLiRPGrIDrKIef~~pDe~TkkkIf~I  367 (440)
T KOG0726|consen  338 DPALIRPGRIDRKIEFPLPDEKTKKKIFQI  367 (440)
T ss_pred             CHhhcCCCccccccccCCCchhhhceeEEE
Confidence            67777  79999999999999998888843

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.42  E-value=5.1e-12  Score=122.49  Aligned_cols=175  Identities=27%  Similarity=0.337  Sum_probs=114.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||++++++++.+   +.+++.+++.+.....     .|    .. ......+++.......++|||||+
T Consensus       214 giLL~GppGtGKT~laraia~~~---~~~~i~i~~~~i~~~~-----~g----~~-~~~l~~lf~~a~~~~p~il~iDEi  280 (733)
T TIGR01243       214 GVLLYGPPGTGKTLLAKAVANEA---GAYFISINGPEIMSKY-----YG----ES-EERLREIFKEAEENAPSIIFIDEI  280 (733)
T ss_pred             eEEEECCCCCChHHHHHHHHHHh---CCeEEEEecHHHhccc-----cc----HH-HHHHHHHHHHHHhcCCcEEEeehh
Confidence            59999999999999999999998   5677888776543221     00    00 001234555555555589999999


Q ss_pred             cccc-----------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKAH-----------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~~-----------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |.+.           ..+++.|+++++.-.-         ...+++|+++|...                        .+
T Consensus       281 d~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~---------~~~vivI~atn~~~------------------------~l  327 (733)
T TIGR01243       281 DAIAPKREEVTGEVEKRVVAQLLTLMDGLKG---------RGRVIVIGATNRPD------------------------AL  327 (733)
T ss_pred             hhhcccccCCcchHHHHHHHHHHHHhhcccc---------CCCEEEEeecCChh------------------------hc
Confidence            8652           3466778888764210         12456777888653                        23


Q ss_pred             ChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          168 RPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       168 ~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ++++.+  ||+..+.+++|+.++..+|++.....         ..+ -.+..++.++..+  .++...++...+..+...
T Consensus       328 d~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~---------~~l-~~d~~l~~la~~t--~G~~gadl~~l~~~a~~~  395 (733)
T TIGR01243       328 DPALRRPGRFDREIVIRVPDKRARKEILKVHTRN---------MPL-AEDVDLDKLAEVT--HGFVGADLAALAKEAAMA  395 (733)
T ss_pred             CHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcC---------CCC-ccccCHHHHHHhC--CCCCHHHHHHHHHHHHHH
Confidence            566664  89889999999999999999744321         111 1233456666653  345567888888877777


Q ss_pred             HHHHHH
Q 047225          246 NLAEII  251 (287)
Q Consensus       246 ~~~~~~  251 (287)
                      ++.+..
T Consensus       396 al~r~~  401 (733)
T TIGR01243       396 ALRRFI  401 (733)
T ss_pred             HHHHHh
Confidence            665543

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.

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.41  E-value=5.3e-12  Score=119.03  Aligned_cols=189  Identities=16%  Similarity=0.222  Sum_probs=112.8

Q ss_pred             hhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchh-----hhhC-CCCCCCcccch
Q 047225            5 RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVS-----KFFG-SPPGYVGFENG   78 (287)
Q Consensus         5 ~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~-----~~~~-~~~~~~~~~~~   78 (287)
                      .++..+.... ..+.++|+||+|+|||++++.+++.+.-....-..-.|+.......+.     +++. ......+.+..
T Consensus        27 ~L~~~i~~~~-i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~~~~~~d~~~i~~~~~~~vd~i  105 (585)
T PRK14950         27 TLRNAIAEGR-VAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIAEGSAVDVIEMDAASHTSVDDA  105 (585)
T ss_pred             HHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHhcCCCCeEEEEeccccCCHHHH
Confidence            3444444332 223579999999999999999999883211100000111100000000     0000 00011222222


Q ss_pred             hhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchH
Q 047225           79 GQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQ  154 (287)
Q Consensus        79 ~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~  154 (287)
                      +.+.+.+..    ..+.|++|||+|.++.+.++.|++.+++..           +.++||++++...             
T Consensus       106 r~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp-----------~~tv~Il~t~~~~-------------  161 (585)
T PRK14950        106 REIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPP-----------PHAIFILATTEVH-------------  161 (585)
T ss_pred             HHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCC-----------CCeEEEEEeCChh-------------
Confidence            233333222    345799999999999999999999999731           2456776664321             


Q ss_pred             HHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchh
Q 047225          155 MERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARP  234 (287)
Q Consensus       155 ~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~  234 (287)
                                 .+.+.+.+|+ ..+.|.+++..++..++...+.+.         .+.++++++..++..+.   .+.|.
T Consensus       162 -----------kll~tI~SR~-~~i~f~~l~~~el~~~L~~~a~~e---------gl~i~~eal~~La~~s~---Gdlr~  217 (585)
T PRK14950        162 -----------KVPATILSRC-QRFDFHRHSVADMAAHLRKIAAAE---------GINLEPGALEAIARAAT---GSMRD  217 (585)
T ss_pred             -----------hhhHHHHhcc-ceeeCCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CCHHH
Confidence                       2346788999 789999999999999886665432         35689999999988653   34566


Q ss_pred             HHHHHHHH
Q 047225          235 LRRAIGRL  242 (287)
Q Consensus       235 l~~~i~~~  242 (287)
                      +.+.++++
T Consensus       218 al~~LekL  225 (585)
T PRK14950        218 AENLLQQL  225 (585)
T ss_pred             HHHHHHHH
Confidence            66665543

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=99.41  E-value=9.9e-14  Score=106.79  Aligned_cols=130  Identities=22%  Similarity=0.325  Sum_probs=85.4

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHH
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTE   83 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (287)
                      ++++..+........+++|+|++||||+++|+.|+........+++.++|....                        .+
T Consensus         8 ~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~------------------------~~   63 (138)
T PF14532_consen    8 RRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLP------------------------AE   63 (138)
T ss_dssp             HHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTC------------------------HH
T ss_pred             HHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCc------------------------HH
Confidence            344443333222223699999999999999999999876656677777776432                        11


Q ss_pred             HHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHH
Q 047225           84 AVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEEL  163 (287)
Q Consensus        84 ~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~  163 (287)
                      .+.....+++||+|+|.++++.|..|...++...          ..++.+|+++..+......                 
T Consensus        64 ~l~~a~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~----------~~~~RlI~ss~~~l~~l~~-----------------  116 (138)
T PF14532_consen   64 LLEQAKGGTLYLKNIDRLSPEAQRRLLDLLKRQE----------RSNVRLIASSSQDLEELVE-----------------  116 (138)
T ss_dssp             HHHHCTTSEEEEECGCCS-HHHHHHHHHHHHHCT----------TTTSEEEEEECC-CCCHHH-----------------
T ss_pred             HHHHcCCCEEEECChHHCCHHHHHHHHHHHHhcC----------CCCeEEEEEeCCCHHHHhh-----------------
Confidence            2222355799999999999999999999998521          1255788888776543211                 


Q ss_pred             HhcCChhHHhccCce-EEeCCC
Q 047225          164 RRRFRPEFLNRIDEV-IVFRQL  184 (287)
Q Consensus       164 ~~~~~~~l~~r~~~~-i~~~~~  184 (287)
                      +..|.++|..++... |.+||+
T Consensus       117 ~~~~~~~L~~~l~~~~i~lPpL  138 (138)
T PF14532_consen  117 EGRFSPDLYYRLSQLEIHLPPL  138 (138)
T ss_dssp             HSTHHHHHHHHCSTCEEEE---
T ss_pred             ccchhHHHHHHhCCCEEeCCCC
Confidence            246778999999744 888885

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

Probab=99.41  E-value=1.3e-12  Score=107.59  Aligned_cols=170  Identities=26%  Similarity=0.395  Sum_probs=115.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++++||||||||..|+++|+..   +.-++.+-.|+....     ..|.     |..-.+.++++.+...-+++||||+
T Consensus       213 gvllygppgtgktl~aravanrt---dacfirvigselvqk-----yvge-----garmvrelf~martkkaciiffdei  279 (435)
T KOG0729|consen  213 GVLLYGPPGTGKTLCARAVANRT---DACFIRVIGSELVQK-----YVGE-----GARMVRELFEMARTKKACIIFFDEI  279 (435)
T ss_pred             ceEEeCCCCCchhHHHHHHhccc---CceEEeehhHHHHHH-----Hhhh-----hHHHHHHHHHHhcccceEEEEeecc
Confidence            49999999999999999999887   666666666654432     2221     1111256788888888899999999


Q ss_pred             ccc-----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKA-----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~-----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |..           +.++|...++++..-.-..+.      .|+.+.+++|.+.                        .+
T Consensus       280 daiggarfddg~ggdnevqrtmleli~qldgfdpr------gnikvlmatnrpd------------------------tl  329 (435)
T KOG0729|consen  280 DAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPR------GNIKVLMATNRPD------------------------TL  329 (435)
T ss_pred             ccccCccccCCCCCcHHHHHHHHHHHHhccCCCCC------CCeEEEeecCCCC------------------------Cc
Confidence            942           557888888888764333332      2667999999874                        34


Q ss_pred             ChhHH--hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          168 RPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       168 ~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                      .|+|+  .|++..+.|.-|+.+....|++.+-.           ...++.++.-.+... ..++.+.-+++..+..+=
T Consensus       330 dpallrpgrldrkvef~lpdlegrt~i~kihak-----------smsverdir~ellar-lcpnstgaeirsvcteag  395 (435)
T KOG0729|consen  330 DPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAK-----------SMSVERDIRFELLAR-LCPNSTGAEIRSVCTEAG  395 (435)
T ss_pred             CHhhcCCcccccceeccCCcccccceeEEEecc-----------ccccccchhHHHHHh-hCCCCcchHHHHHHHHhh
Confidence            57777  78999999999999988888843322           223444444444433 233333457777766543

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

Probab=99.39  E-value=5e-12  Score=97.46  Aligned_cols=131  Identities=27%  Similarity=0.382  Sum_probs=86.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++++||||||||++++.++..+...+.+++.+++.+..............       ...............++++||+
T Consensus        21 ~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~lilDe~   93 (151)
T cd00009          21 NLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHF-------LVRLLFELAEKAKPGVLFIDEI   93 (151)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHhhhh-------hHhHHHHhhccCCCeEEEEeCh
Confidence            699999999999999999999986666778888887655432221111000       0011122222344579999999


Q ss_pred             ccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCce
Q 047225           99 EKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEV  178 (287)
Q Consensus        99 d~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~  178 (287)
                      +.+++.....+...++......     ....++.+|+++|....                      ..+.+.+.+|++..
T Consensus        94 ~~~~~~~~~~~~~~i~~~~~~~-----~~~~~~~ii~~~~~~~~----------------------~~~~~~~~~r~~~~  146 (151)
T cd00009          94 DSLSRGAQNALLRVLETLNDLR-----IDRENVRVIGATNRPLL----------------------GDLDRALYDRLDIR  146 (151)
T ss_pred             hhhhHHHHHHHHHHHHhcCcee-----ccCCCeEEEEecCcccc----------------------CCcChhHHhhhccE
Confidence            9998888888888877642211     11246678888887542                      13457888999877


Q ss_pred             EEeCC
Q 047225          179 IVFRQ  183 (287)
Q Consensus       179 i~~~~  183 (287)
                      +.++|
T Consensus       147 i~~~~  151 (151)
T cd00009         147 IVIPL  151 (151)
T ss_pred             eecCC
Confidence            77765

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.

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

Probab=99.38  E-value=2.4e-12  Score=105.63  Aligned_cols=136  Identities=25%  Similarity=0.360  Sum_probs=92.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++++||||||||.+|++.|...   +..+...-.     +..++-++|..     ....+..+...++....|+||||+
T Consensus       207 GvLmYGPPGTGKTlmARAcAaqT---~aTFLKLAg-----PQLVQMfIGdG-----AkLVRDAFaLAKEkaP~IIFIDEl  273 (424)
T KOG0652|consen  207 GVLMYGPPGTGKTLMARACAAQT---NATFLKLAG-----PQLVQMFIGDG-----AKLVRDAFALAKEKAPTIIFIDEL  273 (424)
T ss_pred             ceEeeCCCCCcHHHHHHHHHHhc---cchHHHhcc-----hHHHhhhhcch-----HHHHHHHHHHhhccCCeEEEEech
Confidence            49999999999999999999876   222211111     11122233322     222245566666777799999999


Q ss_pred             ccc-----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKA-----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~-----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |..           +.++|...+.+++.-.-.-      +-.++-+|+++|.-.                        .+
T Consensus       274 DAIGtKRfDSek~GDREVQRTMLELLNQLDGFs------s~~~vKviAATNRvD------------------------iL  323 (424)
T KOG0652|consen  274 DAIGTKRFDSEKAGDREVQRTMLELLNQLDGFS------SDDRVKVIAATNRVD------------------------IL  323 (424)
T ss_pred             hhhccccccccccccHHHHHHHHHHHHhhcCCC------CccceEEEeeccccc------------------------cc
Confidence            943           5578888888887521111      112567999999742                        45


Q ss_pred             ChhHH--hccCceEEeCCCCHHHHHHHHHHHH
Q 047225          168 RPEFL--NRIDEVIVFRQLNKMQLMEIVDIML  197 (287)
Q Consensus       168 ~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l  197 (287)
                      .|+|+  .|++..|.||.|+.+....|++.+-
T Consensus       324 DPALlRSGRLDRKIEfP~Pne~aRarIlQIHs  355 (424)
T KOG0652|consen  324 DPALLRSGRLDRKIEFPHPNEEARARILQIHS  355 (424)
T ss_pred             CHHHhhcccccccccCCCCChHHHHHHHHHhh
Confidence            78888  6899999999999999999986553

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

Probab=99.37  E-value=2.9e-12  Score=108.02  Aligned_cols=144  Identities=29%  Similarity=0.395  Sum_probs=93.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC------CCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCC-cE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG------SKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRP-HS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~   91 (287)
                      .++++||||||||+|+++||+.+.-      ....++.+++..     .....|+.....+.... .++.+.++..+ .-
T Consensus       179 liLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinshs-----LFSKWFsESgKlV~kmF-~kI~ELv~d~~~lV  252 (423)
T KOG0744|consen  179 LILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSHS-----LFSKWFSESGKLVAKMF-QKIQELVEDRGNLV  252 (423)
T ss_pred             EEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehhH-----HHHHHHhhhhhHHHHHH-HHHHHHHhCCCcEE
Confidence            4999999999999999999999821      123344444422     22233322111110000 13334444433 34


Q ss_pred             EEEEcCcccccH---------------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHH
Q 047225           92 VILFDEIEKAHR---------------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQME  156 (287)
Q Consensus        92 il~iDeid~~~~---------------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~  156 (287)
                      .++|||++-+..               .+.++|++-++.-         -..+|+.+.+|+|...               
T Consensus       253 fvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrl---------K~~~NvliL~TSNl~~---------------  308 (423)
T KOG0744|consen  253 FVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRL---------KRYPNVLILATSNLTD---------------  308 (423)
T ss_pred             EEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHh---------ccCCCEEEEeccchHH---------------
Confidence            778999994321               3677788877752         1235778888888642               


Q ss_pred             HHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHH
Q 047225          157 RGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIY  201 (287)
Q Consensus       157 ~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~  201 (287)
                               .++-+|.+|-|...++.||+...+.+|++..+.++.
T Consensus       309 ---------siD~AfVDRADi~~yVG~Pt~~ai~~IlkscieEL~  344 (423)
T KOG0744|consen  309 ---------SIDVAFVDRADIVFYVGPPTAEAIYEILKSCIEELI  344 (423)
T ss_pred             ---------HHHHHhhhHhhheeecCCccHHHHHHHHHHHHHHHH
Confidence                     345689999999999999999999999998887654

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.37  E-value=8.7e-12  Score=122.31  Aligned_cols=186  Identities=15%  Similarity=0.179  Sum_probs=115.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCC-------CCceEEecccccccccchhhhhCCCCCCCcccc--hhhHHHHHHh-
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGS-------KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN--GGQLTEAVRH-   87 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~-   87 (287)
                      ++++|+||||||||++++.++..+...       +.+++.++++.....          ..+.|..+  ...+++.+.. 
T Consensus       195 ~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l~a~----------~~~~g~~e~~l~~~l~~~~~~  264 (852)
T TIGR03346       195 NNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGALIAG----------AKYRGEFEERLKAVLNEVTKS  264 (852)
T ss_pred             CceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHHhhc----------chhhhhHHHHHHHHHHHHHhc
Confidence            368899999999999999999987432       344455554332211          01111111  1233333333 


Q ss_pred             CCcEEEEEcCccccc--------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHH
Q 047225           88 RPHSVILFDEIEKAH--------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGV  159 (287)
Q Consensus        88 ~~~~il~iDeid~~~--------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~  159 (287)
                      ....||||||++.+.        .+..+.|...+..|             ...+|++|+....                 
T Consensus       265 ~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g-------------~i~~IgaTt~~e~-----------------  314 (852)
T TIGR03346       265 EGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALARG-------------ELHCIGATTLDEY-----------------  314 (852)
T ss_pred             CCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhcC-------------ceEEEEeCcHHHH-----------------
Confidence            345799999999764        24566677666654             3457888876421                 


Q ss_pred             HHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHH
Q 047225          160 AEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       160 ~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                      +.++  ..+++|.+|| ..|.+++|+.++...|+.....++..+     ..+.+.++++..++..+..+- +.|.+....
T Consensus       315 r~~~--~~d~al~rRf-~~i~v~~p~~~~~~~iL~~~~~~~e~~-----~~v~~~d~~i~~~~~ls~~yi-~~r~lPdkA  385 (852)
T TIGR03346       315 RKYI--EKDAALERRF-QPVFVDEPTVEDTISILRGLKERYEVH-----HGVRITDPAIVAAATLSHRYI-TDRFLPDKA  385 (852)
T ss_pred             HHHh--hcCHHHHhcC-CEEEeCCCCHHHHHHHHHHHHHHhccc-----cCCCCCHHHHHHHHHhccccc-cccCCchHH
Confidence            1111  2478999999 778999999999999887665554322     256789999999887654433 335554444


Q ss_pred             HHHHHHHHHHHHH
Q 047225          240 GRLLEDNLAEIIL  252 (287)
Q Consensus       240 ~~~~~~~~~~~~~  252 (287)
                      -+++..+-+...+
T Consensus       386 idlld~a~a~~~~  398 (852)
T TIGR03346       386 IDLIDEAAARIRM  398 (852)
T ss_pred             HHHHHHHHHHHHh
Confidence            4466655554433

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.

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.37  E-value=2.1e-11  Score=112.54  Aligned_cols=166  Identities=24%  Similarity=0.330  Sum_probs=115.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh-------CCcE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH-------RPHS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~   91 (287)
                      .++|+||||-||||||+.+|+..   +..++.+|.++......+..               .+-.++..       ....
T Consensus       328 ilLL~GppGlGKTTLAHViAkqa---GYsVvEINASDeRt~~~v~~---------------kI~~avq~~s~l~adsrP~  389 (877)
T KOG1969|consen  328 ILLLCGPPGLGKTTLAHVIAKQA---GYSVVEINASDERTAPMVKE---------------KIENAVQNHSVLDADSRPV  389 (877)
T ss_pred             eEEeecCCCCChhHHHHHHHHhc---CceEEEecccccccHHHHHH---------------HHHHHHhhccccccCCCcc
Confidence            69999999999999999999998   89999999988765433322               12222111       2346


Q ss_pred             EEEEcCcccccHHHHHHHHHhhcCce--eecCCC--------ceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHH
Q 047225           92 VILFDEIEKAHRDVLNVMLQLLDDGR--VTDGKG--------QTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAE  161 (287)
Q Consensus        92 il~iDeid~~~~~~~~~L~~~l~~~~--~~~~~g--------~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~  161 (287)
                      +|++||||..++..++.++.++....  .+.+.+        ....+----||+.||--+                    
T Consensus       390 CLViDEIDGa~~~~Vdvilslv~a~~k~~~Gkq~~~~~~rkkkr~~~L~RPIICICNdLY--------------------  449 (877)
T KOG1969|consen  390 CLVIDEIDGAPRAAVDVILSLVKATNKQATGKQAKKDKKRKKKRSKLLTRPIICICNDLY--------------------  449 (877)
T ss_pred             eEEEecccCCcHHHHHHHHHHHHhhcchhhcCcccchhhhhhhccccccCCEEEEecCcc--------------------
Confidence            99999999999999999999887211  111111        111111235777777532                    


Q ss_pred             HHHhcCChhHH--hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHH
Q 047225          162 ELRRRFRPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       162 ~~~~~~~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                            .|+|.  .-+-+++.|+|++...+.+-++..+.+.         .+.++..++..|+..+.      .++|.+|
T Consensus       450 ------aPaLR~Lr~~A~ii~f~~p~~s~Lv~RL~~IC~rE---------~mr~d~~aL~~L~el~~------~DIRsCI  508 (877)
T KOG1969|consen  450 ------APALRPLRPFAEIIAFVPPSQSRLVERLNEICHRE---------NMRADSKALNALCELTQ------NDIRSCI  508 (877)
T ss_pred             ------chhhhhcccceEEEEecCCChhHHHHHHHHHHhhh---------cCCCCHHHHHHHHHHhc------chHHHHH
Confidence                  23433  3344779999999999887776666543         45788899999999865      6899999


Q ss_pred             HHHH
Q 047225          240 GRLL  243 (287)
Q Consensus       240 ~~~~  243 (287)
                      +.+-
T Consensus       509 NtLQ  512 (877)
T KOG1969|consen  509 NTLQ  512 (877)
T ss_pred             HHHH
Confidence            9543

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=99.36  E-value=1.4e-11  Score=107.79  Aligned_cols=146  Identities=17%  Similarity=0.225  Sum_probs=94.4

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccc--------hhhhhCCCC-CCCcccchhhHHHH
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT--------VSKFFGSPP-GYVGFENGGQLTEA   84 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~-~~~~~~~~~~~~~~   84 (287)
                      ++..+.++|+||+|+||+++|+.+|+.+.-.... -.-.|+.-.....        +..+..... ...+.++.+.+.+.
T Consensus        19 ~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~-~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l~~~   97 (328)
T PRK05707         19 GRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQ-GGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELVSF   97 (328)
T ss_pred             CCcceeeeeECCCCCCHHHHHHHHHHHHcCCCCC-CCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHHHH
Confidence            4444469999999999999999999998322100 0001211100000        000000000 11233334445444


Q ss_pred             HHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHH
Q 047225           85 VRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVA  160 (287)
Q Consensus        85 ~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~  160 (287)
                      +..    +++.|++||++|+++....++|++.+|+.           .+++.||++|+...                   
T Consensus        98 ~~~~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEP-----------p~~~~fiL~t~~~~-------------------  147 (328)
T PRK05707         98 VVQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEP-----------SGDTVLLLISHQPS-------------------  147 (328)
T ss_pred             HhhccccCCCeEEEECChhhCCHHHHHHHHHHHhCC-----------CCCeEEEEEECChh-------------------
Confidence            443    44679999999999999999999999983           13556777776543                   


Q ss_pred             HHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHH
Q 047225          161 EELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIM  196 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~  196 (287)
                           .+.|.+.||| ..+.|+|++.++..+++...
T Consensus       148 -----~ll~TI~SRc-~~~~~~~~~~~~~~~~L~~~  177 (328)
T PRK05707        148 -----RLLPTIKSRC-QQQACPLPSNEESLQWLQQA  177 (328)
T ss_pred             -----hCcHHHHhhc-eeeeCCCcCHHHHHHHHHHh
Confidence                 3468999999 88999999999998888654

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

Probab=99.36  E-value=4e-12  Score=112.60  Aligned_cols=184  Identities=23%  Similarity=0.250  Sum_probs=122.6

Q ss_pred             ccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh
Q 047225            8 VGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH   87 (287)
Q Consensus         8 ~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (287)
                      .+++.|-+   .++|+||||+|||.+++++|.+.   ...++.+..+.....     .    .|.. -.-.+.+++..+.
T Consensus       180 ~glr~p~r---glLLfGPpgtGKtmL~~aiAsE~---~atff~iSassLtsK-----~----~Ge~-eK~vralf~vAr~  243 (428)
T KOG0740|consen  180 LGLREPVR---GLLLFGPPGTGKTMLAKAIATES---GATFFNISASSLTSK-----Y----VGES-EKLVRALFKVARS  243 (428)
T ss_pred             hccccccc---hhheecCCCCchHHHHHHHHhhh---cceEeeccHHHhhhh-----c----cChH-HHHHHHHHHHHHh
Confidence            34444433   59999999999999999999998   556666655543322     1    1111 1113567888888


Q ss_pred             CCcEEEEEcCcccc-----------cHHH-HHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHH
Q 047225           88 RPHSVILFDEIEKA-----------HRDV-LNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQM  155 (287)
Q Consensus        88 ~~~~il~iDeid~~-----------~~~~-~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~  155 (287)
                      ..++|+||||+|.+           .+.. ...|.+..  +....      .-.++++|.|||.+..             
T Consensus       244 ~qPsvifidEidslls~Rs~~e~e~srr~ktefLiq~~--~~~s~------~~drvlvigaTN~P~e-------------  302 (428)
T KOG0740|consen  244 LQPSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFD--GKNSA------PDDRVLVIGATNRPWE-------------  302 (428)
T ss_pred             cCCeEEEechhHHHHhhcCCcccccchhhhhHHHhhhc--cccCC------CCCeEEEEecCCCchH-------------
Confidence            88899999999954           1111 11222221  11111      1125678889998643             


Q ss_pred             HHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhH
Q 047225          156 ERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPL  235 (287)
Q Consensus       156 ~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l  235 (287)
                                 ++.++++||...+.+|.|+.+....++...|.+.         ...+.+.-++.+++...  +++..++
T Consensus       303 -----------~Dea~~Rrf~kr~yiplPd~etr~~~~~~ll~~~---------~~~l~~~d~~~l~~~Te--gysgsdi  360 (428)
T KOG0740|consen  303 -----------LDEAARRRFVKRLYIPLPDYETRSLLWKQLLKEQ---------PNGLSDLDISLLAKVTE--GYSGSDI  360 (428)
T ss_pred             -----------HHHHHHHHhhceeeecCCCHHHHHHHHHHHHHhC---------CCCccHHHHHHHHHHhc--CcccccH
Confidence                       2357778998889999999999999998888753         23567777888887643  3455799


Q ss_pred             HHHHHHHHHHHHHHH
Q 047225          236 RRAIGRLLEDNLAEI  250 (287)
Q Consensus       236 ~~~i~~~~~~~~~~~  250 (287)
                      ...+..+.+..+...
T Consensus       361 ~~l~kea~~~p~r~~  375 (428)
T KOG0740|consen  361 TALCKEAAMGPLREL  375 (428)
T ss_pred             HHHHHHhhcCchhhc
Confidence            999998887776544

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.35  E-value=1.2e-11  Score=109.05  Aligned_cols=173  Identities=16%  Similarity=0.253  Sum_probs=103.8

Q ss_pred             hhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC----CceE-Eecccccccccch-----hhh--hCCC---
Q 047225            5 RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK----EAMV-RIDMSEYMEKHTV-----SKF--FGSP---   69 (287)
Q Consensus         5 ~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~----~~~~-~~~~~~~~~~~~~-----~~~--~~~~---   69 (287)
                      .++..+....-| +.++|+||+|+|||++++.+++.+....    .+.. ...|..-.....+     .++  +..+   
T Consensus        34 ~L~~a~~~grl~-ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~i~~~~hPdl~~l~~~~~~  112 (351)
T PRK09112         34 FLAQAYREGKLH-HALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQIAQGAHPNLLHITRPFDE  112 (351)
T ss_pred             HHHHHHHcCCCC-eeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHHHHcCCCCCEEEeeccccc
Confidence            344444443323 2599999999999999999999984421    1111 0111110000000     000  1000   


Q ss_pred             -----CCCCcccchhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCC
Q 047225           70 -----PGYVGFENGGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIG  140 (287)
Q Consensus        70 -----~~~~~~~~~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~  140 (287)
                           ....+.++.+.+.+.+..    +.+.|++|||+|.++...++.|++.+++..           .+..+|+.++.+
T Consensus       113 ~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp-----------~~~~fiLit~~~  181 (351)
T PRK09112        113 KTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPP-----------ARALFILISHSS  181 (351)
T ss_pred             ccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCC-----------CCceEEEEECCh
Confidence                 011122233334444443    456799999999999999999999999731           234555555433


Q ss_pred             chhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHH
Q 047225          141 DSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKK  220 (287)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~  220 (287)
                      .                        .+.+.+.+|| ..+.|+|++.+++.+++....           ....++++++..
T Consensus       182 ~------------------------~llptIrSRc-~~i~l~pl~~~~~~~~L~~~~-----------~~~~~~~~~~~~  225 (351)
T PRK09112        182 G------------------------RLLPTIRSRC-QPISLKPLDDDELKKALSHLG-----------SSQGSDGEITEA  225 (351)
T ss_pred             h------------------------hccHHHHhhc-cEEEecCCCHHHHHHHHHHhh-----------cccCCCHHHHHH
Confidence            2                        2358899999 899999999999999986521           111266777777


Q ss_pred             HHHhc
Q 047225          221 LIEEG  225 (287)
Q Consensus       221 l~~~~  225 (287)
                      ++..+
T Consensus       226 i~~~s  230 (351)
T PRK09112        226 LLQRS  230 (351)
T ss_pred             HHHHc
Confidence            77654

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

Probab=99.35  E-value=5.1e-11  Score=102.06  Aligned_cols=189  Identities=17%  Similarity=0.142  Sum_probs=108.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEE-ecccccccc---cchhhhhCCCCCCCcccc---hhhHH----HHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVR-IDMSEYMEK---HTVSKFFGSPPGYVGFEN---GGQLT----EAVRH   87 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~-~~~~~~~~~---~~~~~~~~~~~~~~~~~~---~~~~~----~~~~~   87 (287)
                      .++|+||+|+|||++++.++..+......... +++ .....   ..+...+|....  +...   ...+.    .....
T Consensus        45 ~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~~-~~~~~~~l~~i~~~lG~~~~--~~~~~~~~~~l~~~l~~~~~~  121 (269)
T TIGR03015        45 FILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNT-RVDAEDLLRMVAADFGLETE--GRDKAALLRELEDFLIEQFAA  121 (269)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeCC-CCCHHHHHHHHHHHcCCCCC--CCCHHHHHHHHHHHHHHHHhC
Confidence            58999999999999999999987432211111 111 11111   122233333211  1111   11222    22234


Q ss_pred             CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           88 RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        88 ~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      +...+++|||++.+++...+.|..+.+...   .++     ..+.+++++.+...                  +.+...-
T Consensus       122 ~~~~vliiDe~~~l~~~~~~~l~~l~~~~~---~~~-----~~~~vvl~g~~~~~------------------~~l~~~~  175 (269)
T TIGR03015       122 GKRALLVVDEAQNLTPELLEELRMLSNFQT---DNA-----KLLQIFLVGQPEFR------------------ETLQSPQ  175 (269)
T ss_pred             CCCeEEEEECcccCCHHHHHHHHHHhCccc---CCC-----CeEEEEEcCCHHHH------------------HHHcCch
Confidence            556799999999999888887776654310   001     12345666654311                  1111111


Q ss_pred             ChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          168 RPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       168 ~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      ...+.+|+...+.++|++.+++.+++...+....     ......+++++++.|...+-   ..+|.+...+..++.
T Consensus       176 ~~~l~~r~~~~~~l~~l~~~e~~~~l~~~l~~~g-----~~~~~~~~~~~~~~i~~~s~---G~p~~i~~l~~~~~~  244 (269)
T TIGR03015       176 LQQLRQRIIASCHLGPLDREETREYIEHRLERAG-----NRDAPVFSEGAFDAIHRFSR---GIPRLINILCDRLLL  244 (269)
T ss_pred             hHHHHhheeeeeeCCCCCHHHHHHHHHHHHHHcC-----CCCCCCcCHHHHHHHHHHcC---CcccHHHHHHHHHHH
Confidence            2357788877899999999999999977765321     01124689999999998753   223455555554444

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.34  E-value=9.1e-12  Score=121.83  Aligned_cols=159  Identities=13%  Similarity=0.186  Sum_probs=101.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCC-------CCceEEecccccccccchhhhhCCCCCCCcccc--hhhHHHHH-Hh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGS-------KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN--GGQLTEAV-RH   87 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~-~~   87 (287)
                      ++++|+||||||||++++.++..+...       +.+++.++++......          .+.|-.+  ...+++.+ ..
T Consensus       200 ~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~ag~----------~~~g~~e~~lk~~~~~~~~~  269 (857)
T PRK10865        200 NNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGA----------KYRGEFEERLKGVLNDLAKQ  269 (857)
T ss_pred             CceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhhcc----------chhhhhHHHHHHHHHHHHHc
Confidence            369999999999999999999998431       3455555554432111          1111110  12233333 23


Q ss_pred             CCcEEEEEcCcccccH--------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHH
Q 047225           88 RPHSVILFDEIEKAHR--------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGV  159 (287)
Q Consensus        88 ~~~~il~iDeid~~~~--------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~  159 (287)
                      ....||||||++.+..        +..+.|.+.+..|             ...+|++|++....                
T Consensus       270 ~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~g-------------~l~~IgaTt~~e~r----------------  320 (857)
T PRK10865        270 EGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG-------------ELHCVGATTLDEYR----------------  320 (857)
T ss_pred             CCCeEEEEecHHHhccCCCCccchhHHHHhcchhhcC-------------CCeEEEcCCCHHHH----------------
Confidence            4457999999997742        4677788887765             44688888875321                


Q ss_pred             HHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHh
Q 047225          160 AEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEE  224 (287)
Q Consensus       160 ~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~  224 (287)
                       .+.  ..+++|.+|| ..|.++.|+.++...|++....++..     ...+.++++++...+..
T Consensus       321 -~~~--~~d~al~rRf-~~i~v~eP~~~~~~~iL~~l~~~~e~-----~~~v~~~d~a~~~a~~l  376 (857)
T PRK10865        321 -QYI--EKDAALERRF-QKVFVAEPSVEDTIAILRGLKERYEL-----HHHVQITDPAIVAAATL  376 (857)
T ss_pred             -HHh--hhcHHHHhhC-CEEEeCCCCHHHHHHHHHHHhhhhcc-----CCCCCcCHHHHHHHHHH
Confidence             110  2368999999 57889999999999988655443321     12466777777766443

>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A

Probab=99.32  E-value=1.2e-10  Score=96.74  Aligned_cols=173  Identities=23%  Similarity=0.295  Sum_probs=101.4

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCcc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIE   99 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid   99 (287)
                      -.+.||+|||||.+++.+++.+   +..++.++|++..+...+.+               -+...+..+  .+++|||+|
T Consensus        35 ~~~~GpagtGKtetik~La~~l---G~~~~vfnc~~~~~~~~l~r---------------il~G~~~~G--aW~cfdefn   94 (231)
T PF12774_consen   35 GALSGPAGTGKTETIKDLARAL---GRFVVVFNCSEQMDYQSLSR---------------ILKGLAQSG--AWLCFDEFN   94 (231)
T ss_dssp             EEEESSTTSSHHHHHHHHHHCT---T--EEEEETTSSS-HHHHHH---------------HHHHHHHHT---EEEEETCC
T ss_pred             CCCcCCCCCCchhHHHHHHHHh---CCeEEEecccccccHHHHHH---------------HHHHHhhcC--chhhhhhhh
Confidence            5689999999999999999999   88999999998776544332               334455554  599999999


Q ss_pred             cccHHHHHHHHHhhc-------Cc--eeecCCCceeecc-ceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225          100 KAHRDVLNVMLQLLD-------DG--RVTDGKGQTVDLK-NTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus       100 ~~~~~~~~~L~~~l~-------~~--~~~~~~g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      +++.+++..+.+.+.       .+  .+.. .|..+... ++-+++|+|++....                    ..+|+
T Consensus        95 rl~~~vLS~i~~~i~~i~~al~~~~~~~~~-~g~~i~l~~~~~iFiT~np~y~gr--------------------~~LP~  153 (231)
T PF12774_consen   95 RLSEEVLSVISQQIQSIQDALRAKQKSFTL-EGQEIKLNPNCGIFITMNPGYAGR--------------------SELPE  153 (231)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHHHCTSSEEEE-TTCEEE--TT-EEEEEE-B-CCCC----------------------S-H
T ss_pred             hhhHHHHHHHHHHHHHHHHhhccccccccc-CCCEEEEccceeEEEeeccccCCc--------------------ccCCH
Confidence            999988777654433       22  2333 46666664 677888999875332                    24566


Q ss_pred             hHHhccCceEEeCCCCHHHHHHHHHHHH-----HHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHH
Q 047225          170 EFLNRIDEVIVFRQLNKMQLMEIVDIML-----KEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGR  241 (287)
Q Consensus       170 ~l~~r~~~~i~~~~~~~~~~~~il~~~l-----~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~  241 (287)
                      .|...| ..+.+..||...+.++.-...     +....++.       .--+.+..+.+...++.+|.|.++.++..
T Consensus       154 nLk~lF-Rpvam~~PD~~~I~ei~L~s~GF~~a~~La~kl~-------~l~~l~~~~lS~q~hydfgLRalk~vl~~  222 (231)
T PF12774_consen  154 NLKALF-RPVAMMVPDLSLIAEILLLSQGFKDAKSLAKKLV-------SLFQLCKEQLSKQDHYDFGLRALKSVLRM  222 (231)
T ss_dssp             HHCTTE-EEEE--S--HHHHHHHHHHCCCTSSHHHHHHHHH-------HHHHHHHHCS-SSTT---SHHHHHHHHHH
T ss_pred             hHHHHh-heeEEeCCCHHHHHHHHHHHcCchhHHHHHHHHH-------HHHHHHHHhhccCccccccHHHHHHHHHH
Confidence            666777 779999999888888763111     11111111       00122233333345678899998887763

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

Probab=99.32  E-value=3.5e-11  Score=113.75  Aligned_cols=189  Identities=15%  Similarity=0.192  Sum_probs=133.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCC-------CceEEecccccccccchhhhhCCCCCCCcccc--hhhHHHHHHhC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSK-------EAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN--GGQLTEAVRHR   88 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~   88 (287)
                      +|-+|+|+||+|||.++..||..+....       ..++..|++....-          ..|.|--+  ...+.+.+...
T Consensus       192 NNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~LvAG----------akyRGeFEeRlk~vl~ev~~~  261 (786)
T COG0542         192 NNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAG----------AKYRGEFEERLKAVLKEVEKS  261 (786)
T ss_pred             CCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHhcc----------ccccCcHHHHHHHHHHHHhcC
Confidence            3578999999999999999999984433       34445555443321          22222221  23456667766


Q ss_pred             CcEEEEEcCcccc---------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHH
Q 047225           89 PHSVILFDEIEKA---------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGV  159 (287)
Q Consensus        89 ~~~il~iDeid~~---------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~  159 (287)
                      +.-|+||||++.+         ..+.-+.|.+.+..|.+.             +|.+|..                 +++
T Consensus       262 ~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGeL~-------------~IGATT~-----------------~EY  311 (786)
T COG0542         262 KNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGELR-------------CIGATTL-----------------DEY  311 (786)
T ss_pred             CCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCCeE-------------EEEeccH-----------------HHH
Confidence            6789999999943         256788899999987544             6666654                 234


Q ss_pred             HHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHH
Q 047225          160 AEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       160 ~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                      +.+.++  +++|-+|| +.|.+..|+.++...|++-.-.++..+.     .+.++++++...+..+..+ .+.|.+....
T Consensus       312 Rk~iEK--D~AL~RRF-Q~V~V~EPs~e~ti~ILrGlk~~yE~hH-----~V~i~D~Al~aAv~LS~RY-I~dR~LPDKA  382 (786)
T COG0542         312 RKYIEK--DAALERRF-QKVLVDEPSVEDTIAILRGLKERYEAHH-----GVRITDEALVAAVTLSDRY-IPDRFLPDKA  382 (786)
T ss_pred             HHHhhh--chHHHhcC-ceeeCCCCCHHHHHHHHHHHHHHHHHcc-----CceecHHHHHHHHHHHHhh-cccCCCCchH
Confidence            444444  68999999 9999999999999999977766655443     5899999999998875433 3347777666


Q ss_pred             HHHHHHHHHHHHHhcc
Q 047225          240 GRLLEDNLAEIILTGY  255 (287)
Q Consensus       240 ~~~~~~~~~~~~~~~~  255 (287)
                      -+++..+-++..++..
T Consensus       383 IDLiDeA~a~~~l~~~  398 (786)
T COG0542         383 IDLLDEAGARVRLEID  398 (786)
T ss_pred             HHHHHHHHHHHHhccc
Confidence            6688877777766544

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

Probab=99.31  E-value=3.4e-11  Score=110.99  Aligned_cols=136  Identities=29%  Similarity=0.414  Sum_probs=95.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||.+|+++|...   +.+++.++.+++.+.     +.|     +|....+.++...+....+|+||||+
T Consensus       185 GvlLvGpPGTGKTLLAkAvAgEA---~VPFf~iSGS~FVem-----fVG-----vGAsRVRdLF~qAkk~aP~IIFIDEi  251 (596)
T COG0465         185 GVLLVGPPGTGKTLLAKAVAGEA---GVPFFSISGSDFVEM-----FVG-----VGASRVRDLFEQAKKNAPCIIFIDEI  251 (596)
T ss_pred             ceeEecCCCCCcHHHHHHHhccc---CCCceeccchhhhhh-----hcC-----CCcHHHHHHHHHhhccCCCeEEEehh
Confidence            49999999999999999999887   788888888877643     222     23333456666666655599999999


Q ss_pred             ccccH-----------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKAHR-----------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~~~-----------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |..-.           +....|.+++.+..-...+      ..+++|.+||.+.                        .+
T Consensus       252 DAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~------~gviviaaTNRpd------------------------Vl  301 (596)
T COG0465         252 DAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGN------EGVIVIAATNRPD------------------------VL  301 (596)
T ss_pred             hhcccccCCCCCCCchHHHHHHHHHHhhhccCCCC------CceEEEecCCCcc------------------------cc
Confidence            95422           2333455555432211111      2457778888763                        34


Q ss_pred             ChhHH--hccCceEEeCCCCHHHHHHHHHHHH
Q 047225          168 RPEFL--NRIDEVIVFRQLNKMQLMEIVDIML  197 (287)
Q Consensus       168 ~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l  197 (287)
                      +++|+  .|||..|.++.|+.....+|++-++
T Consensus       302 D~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~  333 (596)
T COG0465         302 DPALLRPGRFDRQILVELPDIKGREQILKVHA  333 (596)
T ss_pred             hHhhcCCCCcceeeecCCcchhhHHHHHHHHh
Confidence            56776  8999999999999999999997444

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

Probab=99.31  E-value=8.9e-12  Score=104.57  Aligned_cols=135  Identities=26%  Similarity=0.422  Sum_probs=94.2

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccccc--chhhhhCCCCCCCcccchhhHHHHHHhCCcEE
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKH--TVSKFFGSPPGYVGFENGGQLTEAVRHRPHSV   92 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   92 (287)
                      .|. .++||||||+|||.++++++..+   +..++.+..++..+..  ...+++            +..+..++....++
T Consensus       165 ~Pk-g~ll~GppGtGKTlla~~Vaa~m---g~nfl~v~ss~lv~kyiGEsaRlI------------Remf~yA~~~~pci  228 (388)
T KOG0651|consen  165 PPK-GLLLYGPPGTGKTLLARAVAATM---GVNFLKVVSSALVDKYIGESARLI------------RDMFRYAREVIPCI  228 (388)
T ss_pred             CCc-eeEEeCCCCCchhHHHHHHHHhc---CCceEEeeHhhhhhhhcccHHHHH------------HHHHHHHhhhCceE
Confidence            344 59999999999999999999999   6667766666655431  112222            34444555555599


Q ss_pred             EEEcCccc-----------ccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHH
Q 047225           93 ILFDEIEK-----------AHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAE  161 (287)
Q Consensus        93 l~iDeid~-----------~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~  161 (287)
                      +|+||+|.           .+..++..|..+++.-.-...      +..+-+|+|+|.+..                   
T Consensus       229 ifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~------l~rVk~ImatNrpdt-------------------  283 (388)
T KOG0651|consen  229 IFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDT------LHRVKTIMATNRPDT-------------------  283 (388)
T ss_pred             EeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchh------cccccEEEecCCccc-------------------
Confidence            99999993           255688888888874222221      235679999998753                   


Q ss_pred             HHHhcCChhHH--hccCceEEeCCCCHHHHHHHHHH
Q 047225          162 ELRRRFRPEFL--NRIDEVIVFRQLNKMQLMEIVDI  195 (287)
Q Consensus       162 ~~~~~~~~~l~--~r~~~~i~~~~~~~~~~~~il~~  195 (287)
                           +.|+|+  .|++..++.|-|+......|++.
T Consensus       284 -----LdpaLlRpGRldrk~~iPlpne~~r~~I~Ki  314 (388)
T KOG0651|consen  284 -----LDPALLRPGRLDRKVEIPLPNEQARLGILKI  314 (388)
T ss_pred             -----cchhhcCCccccceeccCCcchhhceeeEee
Confidence                 456777  78888899998888777776643

>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]

Probab=99.30  E-value=5e-13  Score=122.14  Aligned_cols=185  Identities=16%  Similarity=0.197  Sum_probs=113.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhh-H--HHHHHhCCcEEEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQ-L--TEAVRHRPHSVIL   94 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~--~~~~~~~~~~il~   94 (287)
                      .|++|+|.||||||.+.+.+++.....  .+..-..+..         .|...+.+.-.+.++ +  ..++...++++++
T Consensus       463 INILL~GDPGtsKSqlLqyv~~l~pRg--~yTSGkGsSa---------vGLTayVtrd~dtkqlVLesGALVLSD~GiCC  531 (804)
T KOG0478|consen  463 INILLVGDPGTSKSQLLQYCHRLLPRG--VYTSGKGSSA---------VGLTAYVTKDPDTRQLVLESGALVLSDNGICC  531 (804)
T ss_pred             ceEEEecCCCcCHHHHHHHHHHhCCcc--eeecCCccch---------hcceeeEEecCccceeeeecCcEEEcCCceEE
Confidence            479999999999999999999987321  1100000000         000000000000011 1  1244445668999


Q ss_pred             EcCcccccHHHHHHHHHhhcCceeecCC-Cceeecc-ceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHH
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDLK-NTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFL  172 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  172 (287)
                      |||||||.....+.|.+.|+...+++++ |..-.++ .+-|++++||-....+..        ...+++.   .++|.|+
T Consensus       532 IDEFDKM~dStrSvLhEvMEQQTvSIAKAGII~sLNAR~SVLAaANP~~skynp~--------k~i~eNI---~LpptLL  600 (804)
T KOG0478|consen  532 IDEFDKMSDSTRSVLHEVMEQQTLSIAKAGIIASLNARCSVLAAANPIRSKYNPN--------KSIIENI---NLPPTLL  600 (804)
T ss_pred             chhhhhhhHHHHHHHHHHHHHhhhhHhhcceeeeccccceeeeeeccccccCCCC--------Cchhhcc---CCChhhh
Confidence            9999999999999999999999999887 7666665 788999999865544332        1122221   5889999


Q ss_pred             hccCce-EEeCCCCHHHHHHHHHHHHH-------------------HHHHHHHhcCcEEEeChhHHHHHHHh
Q 047225          173 NRIDEV-IVFRQLNKMQLMEIVDIMLK-------------------EIYERLEAKNMELTVTHTFKKKLIEE  224 (287)
Q Consensus       173 ~r~~~~-i~~~~~~~~~~~~il~~~l~-------------------~~~~~~~~~~~~~~i~~~~~~~l~~~  224 (287)
                      +|||-+ +.+.+++...-+.+..+...                   +.....+.......+.+++.+.+...
T Consensus       601 SRFDLIylllD~~DE~~Dr~La~HivsLy~e~~~~~~~~~~d~~~lr~yi~yArk~i~p~l~~ea~~~l~~a  672 (804)
T KOG0478|consen  601 SRFDLIFLLLDKPDERSDRRLADHIVALYPETGEKQGSEAIDMNLLRDYIRYARKNIHPALSPEASQALIQA  672 (804)
T ss_pred             hhhcEEEEEecCcchhHHHHHHHHHHHhcccccccchhHHHhHHHHHHHHHHHhccCCccccHHHHHHHHHH
Confidence            999866 77788886633444333221                   11222233344567777777777653

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=99.29  E-value=2.9e-11  Score=112.91  Aligned_cols=193  Identities=12%  Similarity=0.085  Sum_probs=125.6

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchh--hHHHHHHhCCcEEEE
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGG--QLTEAVRHRPHSVIL   94 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~il~   94 (287)
                      ++.++|.|++|||||++++.++..+.. ..+++....+.     +...++|...-........  .-...+...+++|||
T Consensus        25 ~gGv~i~g~~G~~ks~~~r~l~~llp~-~~p~r~~p~~~-----t~~~L~Gg~Dl~~~l~~g~~~~~pGlla~Ah~GvL~   98 (584)
T PRK13406         25 LGGVVLRARAGPVRDRWLAALRALLPA-GTPLRRLPPGI-----ADDRLLGGLDLAATLRAGRPVAQRGLLAEADGGVLV   98 (584)
T ss_pred             cceEEEEcCCCcHHHHHHHHHHHhcCC-CCCcccCCCCC-----cHHHccCCchHHhHhhcCCcCCCCCceeeccCCEEE
Confidence            346999999999999999999998843 23444333322     2234444320000000001  112355566778999


Q ss_pred             EcCcccccHHHHHHHHHhhcCceeecC-CCceeecc-ceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHH
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDGRVTDG-KGQTVDLK-NTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFL  172 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~~~~~~-~g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  172 (287)
                      +||++++++.+++.|++.|++|.++.. +|..+.++ ++++|++.|+...                     .+.++++++
T Consensus        99 lDe~n~~~~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~~---------------------~~~L~~~lL  157 (584)
T PRK13406         99 LAMAERLEPGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAEE---------------------DERAPAALA  157 (584)
T ss_pred             ecCcccCCHHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChhc---------------------ccCCCHHhH
Confidence            999999999999999999999998886 48888886 6777776333211                     146889999


Q ss_pred             hccCceEEeCCCCHHHHHHH--HHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCC-CchhHHHHHH
Q 047225          173 NRIDEVIVFRQLNKMQLMEI--VDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSY-GARPLRRAIG  240 (287)
Q Consensus       173 ~r~~~~i~~~~~~~~~~~~i--l~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~-~~r~l~~~i~  240 (287)
                      +||+..+.+.+++..+..+.  ....+......+.    .+.++++++++++......+. |.|..-.++.
T Consensus       158 DRf~l~v~v~~~~~~~~~~~~~~~~~I~~AR~rl~----~v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llr  224 (584)
T PRK13406        158 DRLAFHLDLDGLALRDAREIPIDADDIAAARARLP----AVGPPPEAIAALCAAAAALGIASLRAPLLALR  224 (584)
T ss_pred             hheEEEEEcCCCChHHhcccCCCHHHHHHHHHHHc----cCCCCHHHHHHHHHHHHHhCCCCcCHHHHHHH
Confidence            99999999999997765431  1112223333331    468899999998876444443 5455544444

>smart00763 AAA_PrkA PrkA AAA domain

Probab=99.28  E-value=1.4e-10  Score=101.31  Aligned_cols=112  Identities=16%  Similarity=0.141  Sum_probs=78.2

Q ss_pred             CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCC-ceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           88 RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKG-QTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        88 ~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g-~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                      ..++++-|+|+.+++.+.+..|+.+++++.+....+ ..+. -+.+||+++|+..-                 .......
T Consensus       235 aNrGi~~f~Ei~K~~~~~l~~LL~~~qE~~v~~~~~~~~~~-~d~liia~sNe~e~-----------------~~~~~~k  296 (361)
T smart00763      235 ANRGILEFVEMFKADIKFLHPLLTATQEGNIKGTGGFAMIP-IDGLIIAHSNESEW-----------------QRFKSNK  296 (361)
T ss_pred             ccCceEEEeehhcCCHHHHHHHhhhhhcceEecCCcccccc-cceEEEEeCCHHHH-----------------hhhhccc
Confidence            445899999999999999999999999999887543 2333 34588899997531                 1111123


Q ss_pred             CChhHHhccCceEEeCCCC-HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHh
Q 047225          167 FRPEFLNRIDEVIVFRQLN-KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEE  224 (287)
Q Consensus       167 ~~~~l~~r~~~~i~~~~~~-~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~  224 (287)
                      ...+|++|| ..+.+|++. ..+..+|.++.+..-.      .....+.+.+++.++..
T Consensus       297 ~~eaf~dR~-~~i~vpY~l~~~~E~~Iy~k~~~~s~------~~~~~~aP~~le~aa~~  348 (361)
T smart00763      297 KNEALLDRI-IKVKVPYCLRVSEEAQIYEKLLRNSD------LTEAHIAPHTLEMAALF  348 (361)
T ss_pred             cchhhhhce-EEEeCCCcCCHHHHHHHHHHHhccCc------CcccccCchHHHHHHHH
Confidence            368999999 688888776 6677788866664310      11356777777777654

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

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

Probab=99.28  E-value=3.9e-11  Score=105.54  Aligned_cols=126  Identities=28%  Similarity=0.413  Sum_probs=87.1

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCC---------------------CceEEecccccccccchhhhhCCCCCCCcccch
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSK---------------------EAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENG   78 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~---------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (287)
                      ++|+||||+|||++|.++|+.+....                     ..++.++.++.....            ...+..
T Consensus        27 lL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~~~------------i~~~~v   94 (325)
T COG0470          27 LLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRKID------------IIVEQV   94 (325)
T ss_pred             eeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCCCc------------chHHHH
Confidence            99999999999999999999995433                     344444444333211            011111


Q ss_pred             hhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchH
Q 047225           79 GQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQ  154 (287)
Q Consensus        79 ~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~  154 (287)
                      +.+.+....    +++.+++|||+|.++.+.+++|++.++..           ..+..||++||...             
T Consensus        95 r~~~~~~~~~~~~~~~kviiidead~mt~~A~nallk~lEep-----------~~~~~~il~~n~~~-------------  150 (325)
T COG0470          95 RELAEFLSESPLEGGYKVVIIDEADKLTEDAANALLKTLEEP-----------PKNTRFILITNDPS-------------  150 (325)
T ss_pred             HHHHHHhccCCCCCCceEEEeCcHHHHhHHHHHHHHHHhccC-----------CCCeEEEEEcCChh-------------
Confidence            223332222    35689999999999999999999999974           24668999998543             


Q ss_pred             HHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHH
Q 047225          155 MERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIV  193 (287)
Q Consensus       155 ~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il  193 (287)
                                 .+.+.+.+|| ..+.|+|++........
T Consensus       151 -----------~il~tI~SRc-~~i~f~~~~~~~~i~~~  177 (325)
T COG0470         151 -----------KILPTIRSRC-QRIRFKPPSRLEAIAWL  177 (325)
T ss_pred             -----------hccchhhhcc-eeeecCCchHHHHHHHh
Confidence                       2346899999 99999996655444433

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=99.27  E-value=8.3e-11  Score=102.43  Aligned_cols=155  Identities=19%  Similarity=0.369  Sum_probs=96.6

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC---------------ceEEecccccccccch----hh
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE---------------AMVRIDMSEYMEKHTV----SK   64 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~---------------~~~~~~~~~~~~~~~~----~~   64 (287)
                      +.++..+... +-.+.++|+||+|+||+++|.++++.+.....               .+..+......+....    ..
T Consensus        14 ~~L~~~i~~~-rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~g~~~~~~~~~   92 (314)
T PRK07399         14 ELLTAAIKQN-RIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQGKLITASEAE   92 (314)
T ss_pred             HHHHHHHHhC-CCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccccccccchhhhh
Confidence            3444444443 22246999999999999999999999844320               0011110000000000    00


Q ss_pred             hhC---CCCCCCcccchhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEee
Q 047225           65 FFG---SPPGYVGFENGGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTS  137 (287)
Q Consensus        65 ~~~---~~~~~~~~~~~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~  137 (287)
                      ..|   ...+..+.+..+.+.+.+..    +++.|++||++|+++....++|++.+++.            +++.||+.+
T Consensus        93 ~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEP------------p~~~fILi~  160 (314)
T PRK07399         93 EAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEP------------GNGTLILIA  160 (314)
T ss_pred             hccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCC------------CCCeEEEEE
Confidence            000   00011122223344444443    45689999999999999999999999983            244677766


Q ss_pred             cCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHH
Q 047225          138 NIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIM  196 (287)
Q Consensus       138 n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~  196 (287)
                      +...                        .+.|.+.||+ ..+.|+|++.+++.+++...
T Consensus       161 ~~~~------------------------~Ll~TI~SRc-q~i~f~~l~~~~~~~~L~~~  194 (314)
T PRK07399        161 PSPE------------------------SLLPTIVSRC-QIIPFYRLSDEQLEQVLKRL  194 (314)
T ss_pred             CChH------------------------hCcHHHHhhc-eEEecCCCCHHHHHHHHHHh
Confidence            5432                        3458899999 99999999999999998654

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=99.27  E-value=1.3e-12  Score=122.06  Aligned_cols=161  Identities=16%  Similarity=0.167  Sum_probs=103.2

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhH--HHHHHhCCcEEEEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL--TEAVRHRPHSVILF   95 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~il~i   95 (287)
                      -|+||+|.||||||.+.+.+++..+..  -++....+.-.. .+ ......+.  .|    .+.  ..++.....+|++|
T Consensus       320 InILLvGDPgtaKSqlLk~v~~~aPr~--vytsgkgss~~G-LT-Aav~rd~~--tg----e~~LeaGALVlAD~Gv~cI  389 (682)
T COG1241         320 IHILLVGDPGTAKSQLLKYVAKLAPRG--VYTSGKGSSAAG-LT-AAVVRDKV--TG----EWVLEAGALVLADGGVCCI  389 (682)
T ss_pred             eeEEEcCCCchhHHHHHHHHHhhCCce--EEEccccccccC-ce-eEEEEccC--CC----eEEEeCCEEEEecCCEEEE
Confidence            479999999999999999999887321  111111111000 00 00000000  01    011  22344456689999


Q ss_pred             cCcccccHHHHHHHHHhhcCceeecCC-Cceeec-cceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHh
Q 047225           96 DEIEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDL-KNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLN  173 (287)
Q Consensus        96 Deid~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~-~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  173 (287)
                      ||+|+|+.....+|...|+++.++.++ |..-.+ ..+-+++++||....+..     ...+.+.+      .|+++|++
T Consensus       390 DEfdKm~~~dr~aihEaMEQQtIsIaKAGI~atLnARcsvLAAaNP~~Gryd~-----~~~~~enI------~l~~~lLS  458 (682)
T COG1241         390 DEFDKMNEEDRVAIHEAMEQQTISIAKAGITATLNARCSVLAAANPKFGRYDP-----KKTVAENI------NLPAPLLS  458 (682)
T ss_pred             EeccCCChHHHHHHHHHHHhcEeeecccceeeecchhhhhhhhhCCCCCcCCC-----CCCHHHhc------CCChhHHh
Confidence            999999999999999999999999887 644444 478999999997653322     22222222      68899999


Q ss_pred             ccCce-EEeCCCCHHHHHHHHHHHHHH
Q 047225          174 RIDEV-IVFRQLNKMQLMEIVDIMLKE  199 (287)
Q Consensus       174 r~~~~-i~~~~~~~~~~~~il~~~l~~  199 (287)
                      |||.+ +....++.+.-..+..+.+..
T Consensus       459 RFDLifvl~D~~d~~~D~~ia~hil~~  485 (682)
T COG1241         459 RFDLIFVLKDDPDEEKDEEIAEHILDK  485 (682)
T ss_pred             hCCeeEEecCCCCccchHHHHHHHHHH
Confidence            99976 556667766556666666544

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

Probab=99.24  E-value=6.6e-11  Score=93.43  Aligned_cols=131  Identities=25%  Similarity=0.342  Sum_probs=75.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceE-Eecccccc--cccchh--hhhCCCCC--CCcccchhhHHHHHHh----
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMV-RIDMSEYM--EKHTVS--KFFGSPPG--YVGFENGGQLTEAVRH----   87 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~-~~~~~~~~--~~~~~~--~~~~~~~~--~~~~~~~~~~~~~~~~----   87 (287)
                      .++|+||+|+||+++|..+++.+......-. .-.|....  ....-.  ..+.....  ..+.+....+.+.+..    
T Consensus        21 a~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~i~i~~ir~i~~~~~~~~~~  100 (162)
T PF13177_consen   21 ALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKKSIKIDQIREIIEFLSLSPSE  100 (162)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSSSBSHHHHHHHHHHCTSS-TT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccchhhHHHHHHHHHHHHHHHhc
Confidence            5899999999999999999999844322110 00010000  000000  00111100  1122222233333222    


Q ss_pred             CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           88 RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        88 ~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      +++.|++|||+|++..+.+++|++.||+.           ..++.+|++++...                        .+
T Consensus       101 ~~~KviiI~~ad~l~~~a~NaLLK~LEep-----------p~~~~fiL~t~~~~------------------------~i  145 (162)
T PF13177_consen  101 GKYKVIIIDEADKLTEEAQNALLKTLEEP-----------PENTYFILITNNPS------------------------KI  145 (162)
T ss_dssp             SSSEEEEEETGGGS-HHHHHHHHHHHHST-----------TTTEEEEEEES-GG------------------------GS
T ss_pred             CCceEEEeehHhhhhHHHHHHHHHHhcCC-----------CCCEEEEEEECChH------------------------HC
Confidence            35689999999999999999999999984           23667887776543                        45


Q ss_pred             ChhHHhccCceEEeCCCC
Q 047225          168 RPEFLNRIDEVIVFRQLN  185 (287)
Q Consensus       168 ~~~l~~r~~~~i~~~~~~  185 (287)
                      .+.+.||+ ..+.|+|+|
T Consensus       146 l~TI~SRc-~~i~~~~ls  162 (162)
T PF13177_consen  146 LPTIRSRC-QVIRFRPLS  162 (162)
T ss_dssp             -HHHHTTS-EEEEE----
T ss_pred             hHHHHhhc-eEEecCCCC
Confidence            68999999 999999875

...

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=99.23  E-value=4.6e-11  Score=117.80  Aligned_cols=151  Identities=29%  Similarity=0.401  Sum_probs=119.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCC-CCCC----cccchhhHHHHHHhCCcEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSP-PGYV----GFENGGQLTEAVRHRPHSVI   93 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~----~~~~~~~~~~~~~~~~~~il   93 (287)
                      +++|-|.||+|||+++.+||+..   +.+++.+|.++..+   +.++||+. |+..    .+.. .++..+++.++  ++
T Consensus      1545 pilLEGsPGVGKTSlItaLAr~t---G~kliRINLSeQTd---L~DLfGsd~Pve~~Gef~w~d-apfL~amr~G~--WV 1615 (4600)
T COG5271        1545 PILLEGSPGVGKTSLITALARKT---GKKLIRINLSEQTD---LCDLFGSDLPVEEGGEFRWMD-APFLHAMRDGG--WV 1615 (4600)
T ss_pred             ceeecCCCCccHHHHHHHHHHHh---cCceEEeeccccch---HHHHhCCCCCcccCceeEecc-cHHHHHhhcCC--EE
Confidence            49999999999999999999998   78999999998775   47788864 2222    2333 46777888776  99


Q ss_pred             EEcCcccccHHHHHHHHHhhcCc-eeecCC-Cceeec-cceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChh
Q 047225           94 LFDEIEKAHRDVLNVMLQLLDDG-RVTDGK-GQTVDL-KNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        94 ~iDeid~~~~~~~~~L~~~l~~~-~~~~~~-g~~i~~-~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      ++||++.++..+++.|..-++.+ +.++++ +...+. +++.|+++-||...+.                  -++.++..
T Consensus      1616 lLDEiNLaSQSVlEGLNacLDhR~eayIPEld~~f~~HpnfrVFAaqNPq~qgg------------------GRKgLPkS 1677 (4600)
T COG5271        1616 LLDEINLASQSVLEGLNACLDHRREAYIPELDKTFDVHPNFRVFAAQNPQDQGG------------------GRKGLPKS 1677 (4600)
T ss_pred             EeehhhhhHHHHHHHHHHHHhhccccccccccceeeccCCeeeeeecCchhcCC------------------CcccCCHH
Confidence            99999999999999999999865 455554 444444 7899999999865443                  13468899


Q ss_pred             HHhccCceEEeCCCCHHHHHHHHHHHH
Q 047225          171 FLNRIDEVIVFRQLNKMQLMEIVDIML  197 (287)
Q Consensus       171 l~~r~~~~i~~~~~~~~~~~~il~~~l  197 (287)
                      |++|| ..|.+..++.+++..|+.+..
T Consensus      1678 F~nRF-svV~~d~lt~dDi~~Ia~~~y 1703 (4600)
T COG5271        1678 FLNRF-SVVKMDGLTTDDITHIANKMY 1703 (4600)
T ss_pred             Hhhhh-heEEecccccchHHHHHHhhC
Confidence            99999 899999999999988886554

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=99.22  E-value=3.8e-10  Score=94.31  Aligned_cols=111  Identities=23%  Similarity=0.345  Sum_probs=85.9

Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhh-ccCCchHHHHHHHHHHHhcCCh
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARE-SILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      +++||||++.++-+-...|.+.++..-            ..++||++|.+-..+.+. +..+-+            .+++
T Consensus       298 GVLFIDEVhMLDiEcFTyL~kalES~i------------aPivifAsNrG~~~irGt~d~~sPh------------Gip~  353 (456)
T KOG1942|consen  298 GVLFIDEVHMLDIECFTYLHKALESPI------------APIVIFASNRGMCTIRGTEDILSPH------------GIPP  353 (456)
T ss_pred             cceEeeehhhhhhHHHHHHHHHhcCCC------------CceEEEecCCcceeecCCcCCCCCC------------CCCH
Confidence            899999999999999999999998632            236999999987665442 111111            3678


Q ss_pred             hHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       170 ~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      +|++|+ .+|...+++.+++++|++...+..         .+.+++++++.++...-     -+.+|.+++
T Consensus       354 dllDRl-~Iirt~~y~~~e~r~Ii~~Ra~~E---------~l~~~e~a~~~l~~~gt-----~tsLRy~vq  409 (456)
T KOG1942|consen  354 DLLDRL-LIIRTLPYDEEEIRQIIKIRAQVE---------GLQVEEEALDLLAEIGT-----STSLRYAVQ  409 (456)
T ss_pred             HHhhhe-eEEeeccCCHHHHHHHHHHHHhhh---------cceecHHHHHHHHhhcc-----chhHHHHHH
Confidence            999999 999999999999999996654432         57999999999988642     256777776

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

Probab=99.22  E-value=5.5e-10  Score=103.11  Aligned_cols=178  Identities=20%  Similarity=0.240  Sum_probs=115.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCC-CceEEeccccccccc--chhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSK-EAMVRIDMSEYMEKH--TVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~-~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      ++++|.||+|+|||.|++++.+.+..+. .++..++|+......  ..+..+           ...+.+.+...| +|++
T Consensus       432 ~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~e~iQk~l-----------~~vfse~~~~~P-SiIv  499 (952)
T KOG0735|consen  432 GNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSLEKIQKFL-----------NNVFSEALWYAP-SIIV  499 (952)
T ss_pred             ccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhHHHHHHHH-----------HHHHHHHHhhCC-cEEE
Confidence            4799999999999999999999985332 344577888766442  122222           234555666666 8999


Q ss_pred             EcCcccccH---------H-----HHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHH
Q 047225           95 FDEIEKAHR---------D-----VLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVA  160 (287)
Q Consensus        95 iDeid~~~~---------~-----~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~  160 (287)
                      +|++|-+-.         +     ....|.+++..   +...+.     ...+|++++.-.                   
T Consensus       500 LDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~---y~~~~~-----~ia~Iat~qe~q-------------------  552 (952)
T KOG0735|consen  500 LDDLDCLASASSNENGQDGVVSERLAAFLNQVIKI---YLKRNR-----KIAVIATGQELQ-------------------  552 (952)
T ss_pred             EcchhhhhccCcccCCcchHHHHHHHHHHHHHHHH---HHccCc-----EEEEEEechhhh-------------------
Confidence            999995421         1     12223333332   111111     236777776421                   


Q ss_pred             HHHHhcCChhHH--hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHH
Q 047225          161 EELRRRFRPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRA  238 (287)
Q Consensus       161 ~~~~~~~~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~  238 (287)
                           .+++-|.  .+|+..+.+++|+..+..+|+...+.+..         ..+..+.++.++..  ..++.+.++...
T Consensus       553 -----tl~~~L~s~~~Fq~~~~L~ap~~~~R~~IL~~~~s~~~---------~~~~~~dLd~ls~~--TEGy~~~DL~if  616 (952)
T KOG0735|consen  553 -----TLNPLLVSPLLFQIVIALPAPAVTRRKEILTTIFSKNL---------SDITMDDLDFLSVK--TEGYLATDLVIF  616 (952)
T ss_pred             -----hcChhhcCccceEEEEecCCcchhHHHHHHHHHHHhhh---------hhhhhHHHHHHHHh--cCCccchhHHHH
Confidence                 1222222  37878899999999999999998887532         34455666776654  456788999999


Q ss_pred             HHHHHHHHHHHH
Q 047225          239 IGRLLEDNLAEI  250 (287)
Q Consensus       239 i~~~~~~~~~~~  250 (287)
                      +++++..+..+.
T Consensus       617 VeRai~~a~ler  628 (952)
T KOG0735|consen  617 VERAIHEAFLER  628 (952)
T ss_pred             HHHHHHHHHHHH
Confidence            999999777433

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=99.21  E-value=2.3e-10  Score=100.66  Aligned_cols=154  Identities=19%  Similarity=0.254  Sum_probs=93.7

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccch-----hhh--hCCCCCCCccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV-----SKF--FGSPPGYVGFE   76 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~-----~~~--~~~~~~~~~~~   76 (287)
                      +.++..+.. ++..+.++|+||+|+||+++|+.+++.+.-....- ...|..-.....+     .++  +.......+.+
T Consensus        16 ~~L~~~~~~-~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~-~~~cg~C~~c~~~~~~~hpD~~~i~~~~~~i~id   93 (329)
T PRK08058         16 KMLQNSIAK-NRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNG-VEPCGTCTNCKRIDSGNHPDVHLVAPDGQSIKKD   93 (329)
T ss_pred             HHHHHHHHc-CCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCC-CCCCCcCHHHHHHhcCCCCCEEEeccccccCCHH
Confidence            344444443 33333579999999999999999999984321000 0011110000000     000  00000111222


Q ss_pred             chhhHHHHHH----hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCc
Q 047225           77 NGGQLTEAVR----HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGS  152 (287)
Q Consensus        77 ~~~~~~~~~~----~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~  152 (287)
                      +...+.+.+.    .+++.|++|||+|+++...+++|++.+|+.           .+++.+|++++...           
T Consensus        94 ~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEP-----------p~~~~~Il~t~~~~-----------  151 (329)
T PRK08058         94 QIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEP-----------SGGTTAILLTENKH-----------  151 (329)
T ss_pred             HHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCC-----------CCCceEEEEeCChH-----------
Confidence            2233333333    244679999999999999999999999983           23556777775432           


Q ss_pred             hHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHH
Q 047225          153 DQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDI  195 (287)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~  195 (287)
                                   .+.+.+.||+ ..+.|+|++.+++.+++..
T Consensus       152 -------------~ll~TIrSRc-~~i~~~~~~~~~~~~~L~~  180 (329)
T PRK08058        152 -------------QILPTILSRC-QVVEFRPLPPESLIQRLQE  180 (329)
T ss_pred             -------------hCcHHHHhhc-eeeeCCCCCHHHHHHHHHH
Confidence                         3457899999 9999999999998887753

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=99.20  E-value=1.3e-10  Score=101.74  Aligned_cols=72  Identities=17%  Similarity=0.194  Sum_probs=59.5

Q ss_pred             CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           88 RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        88 ~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      +++.|++||++|+++....++|++.+|+.           .++++||++|+...                        .+
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEP-----------p~~t~fiL~t~~~~------------------------~L  175 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEP-----------PPGTVFLLVSARID------------------------RL  175 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCC-----------CcCcEEEEEECChh------------------------hC
Confidence            44679999999999999999999999973           23566777765532                        45


Q ss_pred             ChhHHhccCceEEeCCCCHHHHHHHHHH
Q 047225          168 RPEFLNRIDEVIVFRQLNKMQLMEIVDI  195 (287)
Q Consensus       168 ~~~l~~r~~~~i~~~~~~~~~~~~il~~  195 (287)
                      .|.+.||| ..+.|+|++.+++.+++..
T Consensus       176 LpTI~SRc-q~i~~~~~~~~~~~~~L~~  202 (342)
T PRK06964        176 LPTILSRC-RQFPMTVPAPEAAAAWLAA  202 (342)
T ss_pred             cHHHHhcC-EEEEecCCCHHHHHHHHHH
Confidence            68899999 9999999999999988854

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

Probab=99.20  E-value=1.2e-10  Score=112.51  Aligned_cols=181  Identities=25%  Similarity=0.339  Sum_probs=120.2

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      +|. -++|+||||||||..|+++|..+..... -+.+.+..-.+.  +...+|..     -.+...+++..+.....|+|
T Consensus       298 pPr-gvL~~GppGTGkTl~araLa~~~s~~~~-kisffmrkgaD~--lskwvgEa-----ERqlrllFeeA~k~qPSIIf  368 (1080)
T KOG0732|consen  298 PPR-GVLFHGPPGTGKTLMARALAAACSRGNR-KISFFMRKGADC--LSKWVGEA-----ERQLRLLFEEAQKTQPSIIF  368 (1080)
T ss_pred             CCc-ceeecCCCCCchhHHHHhhhhhhccccc-ccchhhhcCchh--hccccCcH-----HHHHHHHHHHHhccCceEEe
Confidence            344 4999999999999999999999843222 222222221111  11111110     01124577788888889999


Q ss_pred             EcCcccccH-----------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHH
Q 047225           95 FDEIEKAHR-----------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEEL  163 (287)
Q Consensus        95 iDeid~~~~-----------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~  163 (287)
                      +||||.+.|           .+...|+.+|+.-.   +.      +.+++|.++|.+..                     
T Consensus       369 fdeIdGlapvrSskqEqih~SIvSTLLaLmdGld---sR------gqVvvigATnRpda---------------------  418 (1080)
T KOG0732|consen  369 FDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLD---SR------GQVVVIGATNRPDA---------------------  418 (1080)
T ss_pred             ccccccccccccchHHHhhhhHHHHHHHhccCCC---CC------CceEEEcccCCccc---------------------
Confidence            999996533           46667788887411   01      25678999998753                     


Q ss_pred             HhcCChhHH--hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHH
Q 047225          164 RRRFRPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGR  241 (287)
Q Consensus       164 ~~~~~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~  241 (287)
                         +.|+|.  .||+..++|+-|+.+...+|+...-.         .-...+....+.+++...-  +++..+++..+..
T Consensus       419 ---~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ihtr---------kw~~~i~~~l~~~la~~t~--gy~gaDlkaLCTe  484 (1080)
T KOG0732|consen  419 ---IDPALRRPGRFDREFYFPLPDVDARAKILDIHTR---------KWEPPISRELLLWLAEETS--GYGGADLKALCTE  484 (1080)
T ss_pred             ---cchhhcCCcccceeEeeeCCchHHHHHHHHHhcc---------CCCCCCCHHHHHHHHHhcc--ccchHHHHHHHHH
Confidence               356774  78999999999999999999843321         1235788899999988643  4455678888887


Q ss_pred             HHHHHHH
Q 047225          242 LLEDNLA  248 (287)
Q Consensus       242 ~~~~~~~  248 (287)
                      +...++-
T Consensus       485 Aal~~~~  491 (1080)
T KOG0732|consen  485 AALIALR  491 (1080)
T ss_pred             Hhhhhhc
Confidence            7776653

>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]

Probab=99.20  E-value=4.4e-11  Score=100.92  Aligned_cols=158  Identities=20%  Similarity=0.253  Sum_probs=105.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC-C--CceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHH-------hC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS-K--EAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVR-------HR   88 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~-~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~   88 (287)
                      |++|+||||||||+...+.+..++.. +  ......+.++......+..             ....+...+       ..
T Consensus        64 h~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lelnaSd~rgid~vr~-------------qi~~fast~~~~~fst~~  130 (360)
T KOG0990|consen   64 HLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELNASDDRGIDPVRQ-------------QIHLFASTQQPTTYSTHA  130 (360)
T ss_pred             cccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhhccCccCCcchHH-------------HHHHHHhhccceeccccC
Confidence            79999999999999999999998652 1  1112223332222111111             112222222       23


Q ss_pred             CcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCC
Q 047225           89 PHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFR  168 (287)
Q Consensus        89 ~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (287)
                      .+..+++||+|.+..+.|++|++.++...           .++.|++.+|+...                        +.
T Consensus       131 ~fKlvILDEADaMT~~AQnALRRviek~t-----------~n~rF~ii~n~~~k------------------------i~  175 (360)
T KOG0990|consen  131 AFKLVILDEADAMTRDAQNALRRVIEKYT-----------ANTRFATISNPPQK------------------------IH  175 (360)
T ss_pred             ceeEEEecchhHhhHHHHHHHHHHHHHhc-----------cceEEEEeccChhh------------------------cC
Confidence            66899999999999999999999777532           25577788887654                        35


Q ss_pred             hhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          169 PEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       169 ~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      |++.+|| ..+.|.|++.......+.+.++..         ....+++....++....      .+++++++
T Consensus       176 pa~qsRc-trfrf~pl~~~~~~~r~shi~e~e---------~~~~~~~~~~a~~r~s~------gDmr~a~n  231 (360)
T KOG0990|consen  176 PAQQSRC-TRFRFAPLTMAQQTERQSHIRESE---------QKETNPEGYSALGRLSV------GDMRVALN  231 (360)
T ss_pred             chhhccc-ccCCCCCCChhhhhhHHHHHHhcc---------hhhcCHHHHHHHHHHhH------HHHHHHHH
Confidence            8999999 999999999988888887776542         23455565555555432      56666666

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=99.19  E-value=2.3e-10  Score=99.59  Aligned_cols=142  Identities=15%  Similarity=0.233  Sum_probs=93.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc-----cc---hhhhhCCCCCCCcccchhhHHHHHHh--
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK-----HT---VSKFFGSPPGYVGFENGGQLTEAVRH--   87 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~-----~~---~~~~~~~~~~~~~~~~~~~~~~~~~~--   87 (287)
                      +.++|.||+|+||+++|+.+|+.+.-....- .-.|+.-...     ..   +..+........+.++.+.+.+.+..  
T Consensus        25 HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~-~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~I~id~iR~l~~~~~~~~  103 (325)
T PRK06871         25 HALLFKADSGLGTEQLIRALAQWLMCQTPQG-DQPCGQCHSCHLFQAGNHPDFHILEPIDNKDIGVDQVREINEKVSQHA  103 (325)
T ss_pred             eeEEeECCCCCCHHHHHHHHHHHHcCCCCCC-CCCCCCCHHHHHHhcCCCCCEEEEccccCCCCCHHHHHHHHHHHhhcc
Confidence            3589999999999999999999883211100 0012111000     00   00000001112334444444444443  


Q ss_pred             --CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHh
Q 047225           88 --RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRR  165 (287)
Q Consensus        88 --~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (287)
                        +++.|++||++|+++....++|++.+|+.           .+++.||++|+...                        
T Consensus       104 ~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEP-----------p~~~~fiL~t~~~~------------------------  148 (325)
T PRK06871        104 QQGGNKVVYIQGAERLTEAAANALLKTLEEP-----------RPNTYFLLQADLSA------------------------  148 (325)
T ss_pred             ccCCceEEEEechhhhCHHHHHHHHHHhcCC-----------CCCeEEEEEECChH------------------------
Confidence              44589999999999999999999999983           24567777776543                        


Q ss_pred             cCChhHHhccCceEEeCCCCHHHHHHHHHHH
Q 047225          166 RFRPEFLNRIDEVIVFRQLNKMQLMEIVDIM  196 (287)
Q Consensus       166 ~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~  196 (287)
                      .+.|.+.||| ..+.|+|++.+++.+.+...
T Consensus       149 ~llpTI~SRC-~~~~~~~~~~~~~~~~L~~~  178 (325)
T PRK06871        149 ALLPTIYSRC-QTWLIHPPEEQQALDWLQAQ  178 (325)
T ss_pred             hCchHHHhhc-eEEeCCCCCHHHHHHHHHHH
Confidence            3458899999 99999999999999888654

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=99.19  E-value=4.4e-10  Score=106.11  Aligned_cols=132  Identities=16%  Similarity=0.231  Sum_probs=83.8

Q ss_pred             HHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCc------ee---ec-cceEEEEeecCCchhhhhhccCCchH
Q 047225           85 VRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQ------TV---DL-KNTIIIMTSNIGDSVIARESILGSDQ  154 (287)
Q Consensus        85 ~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~------~i---~~-~~~~iI~t~n~~~~~~~~~~~~~~~~  154 (287)
                      +.....++|||||++.+++..|..|+++++++.+....+.      .+   .. -++.+|+++|+..             
T Consensus       213 L~~AngGtL~Ldei~~L~~~~q~~Ll~~L~~~~i~~~g~~e~~~~~~~~~~~ip~dvrvIa~~~~~~-------------  279 (608)
T TIGR00764       213 IHRAHKGVLYIDEIKTMPLEVQQYLLTALQDKKFPITGQSENSSGAMVRTEPVPCDFILVASGNLDD-------------  279 (608)
T ss_pred             eEECCCCEEEEEChHhCCHHHHHHHHHHHHhCcEEecCccccccccccCCCCCccceEEEEECCHHH-------------
Confidence            3344558999999999999999999999999887764321      11   11 2778999998631             


Q ss_pred             HHHHHHHHHHhcCChhHHhccC---ceEEeCC---CCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccC-
Q 047225          155 MERGVAEELRRRFRPEFLNRID---EVIVFRQ---LNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYN-  227 (287)
Q Consensus       155 ~~~~~~~~~~~~~~~~l~~r~~---~~i~~~~---~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~-  227 (287)
                               ...+.++|.+||+   ..+.|++   .+.+...++++.....    +...|....+++++++.+.+.... 
T Consensus       280 ---------l~~l~~~l~~rf~~y~v~v~~~~~~~~~~e~~~~~~~~i~~~----~~r~G~l~~~s~~Av~~Li~~~~R~  346 (608)
T TIGR00764       280 ---------LEGMHPALRSRIRGYGYEVYMKDTMPDTPENRDKLVQFVAQE----VKKDGRIPHFTRDAVEEIVREAQRR  346 (608)
T ss_pred             ---------HhhcCHHHHHHhcCCeEEEEeeccCCCCHHHHHHHHHHHHHH----HHHhCCCCcCCHHHHHHHHHHHHHH
Confidence                     1246899999997   4555543   3455555554433322    222233357899999999754211 


Q ss_pred             ------CCCCchhHHHHHHHH
Q 047225          228 ------PSYGARPLRRAIGRL  242 (287)
Q Consensus       228 ------~~~~~r~l~~~i~~~  242 (287)
                            -....|++.+.+..+
T Consensus       347 ag~r~~lsl~~R~L~~llR~A  367 (608)
T TIGR00764       347 AGRKDHLTLRLRELGGLVRAA  367 (608)
T ss_pred             HhcccccCCCHHHHHHHHHHH
Confidence                  122345666655544

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.19  E-value=1.5e-10  Score=102.84  Aligned_cols=154  Identities=14%  Similarity=0.248  Sum_probs=92.5

Q ss_pred             hhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC---c-e----EEe-cccccccccch-----hhhh--CC-
Q 047225            6 ARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE---A-M----VRI-DMSEYMEKHTV-----SKFF--GS-   68 (287)
Q Consensus         6 ~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~---~-~----~~~-~~~~~~~~~~~-----~~~~--~~-   68 (287)
                      ++..+.+..-| +.++|+||+|+||+++|..+|+.+.-...   . .    ... .|........+     .++.  .. 
T Consensus        31 L~~~~~~~rl~-HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c~~i~~~~HPDl~~i~~~  109 (365)
T PRK07471         31 LLDAYRSGRLH-HAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVARRIAAGAHGGLLTLERS  109 (365)
T ss_pred             HHHHHHcCCCC-ceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHHHHHHccCCCCeEEEecc
Confidence            44444443323 24999999999999999999999842211   0 0    000 01100000000     0000  00 


Q ss_pred             --CC-----CCCcccchhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEee
Q 047225           69 --PP-----GYVGFENGGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTS  137 (287)
Q Consensus        69 --~~-----~~~~~~~~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~  137 (287)
                        ..     ...+.++.+.+.+.+..    +.+.|++|||+|.++...++.|++.+++..           ++.+||++|
T Consensus       110 ~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp-----------~~~~~IL~t  178 (365)
T PRK07471        110 WNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPP-----------ARSLFLLVS  178 (365)
T ss_pred             cccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCC-----------CCeEEEEEE
Confidence              00     11112222333333332    445799999999999999999999999731           244567666


Q ss_pred             cCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHH
Q 047225          138 NIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIM  196 (287)
Q Consensus       138 n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~  196 (287)
                      +...                        .+.+.+.+|+ ..+.|+|++.+++.+++...
T Consensus       179 ~~~~------------------------~llpti~SRc-~~i~l~~l~~~~i~~~L~~~  212 (365)
T PRK07471        179 HAPA------------------------RLLPTIRSRC-RKLRLRPLAPEDVIDALAAA  212 (365)
T ss_pred             CCch------------------------hchHHhhccc-eEEECCCCCHHHHHHHHHHh
Confidence            5542                        2346788999 99999999999999998764

>TIGR00602 rad24 checkpoint protein rad24

Probab=99.18  E-value=7e-10  Score=104.29  Aligned_cols=66  Identities=18%  Similarity=0.242  Sum_probs=46.7

Q ss_pred             CChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEe-ChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          167 FRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTV-THTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       167 ~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i-~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                      +.+++++  |+ ..|.|+|++...+.+.+...+......+.   ....+ ++++++.|+..+.      +++|.+|+.+
T Consensus       256 L~~eLls~~rv-~~I~FnPia~t~l~K~L~rIl~~E~~~~~---~~~~~p~~~~l~~I~~~s~------GDiRsAIn~L  324 (637)
T TIGR00602       256 MNKEILEEPRV-SNISFNPIAPTIMKKFLNRIVTIEAKKNG---EKIKVPKKTSVELLCQGCS------GDIRSAINSL  324 (637)
T ss_pred             cCHhHhcccce-eEEEeCCCCHHHHHHHHHHHHHhhhhccc---cccccCCHHHHHHHHHhCC------ChHHHHHHHH
Confidence            4478887  55 67999999999999999888876433221   12223 5788888887543      6888888844

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

>PRK12377 putative replication protein; Provisional

Probab=99.18  E-value=3.6e-11  Score=100.90  Aligned_cols=106  Identities=19%  Similarity=0.426  Sum_probs=72.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      .+++|+||||||||+|+.++++.+...+..+++++..+.....  ...+..     + .....+...+...+  +|+|||
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~~~l--~~~~~~-----~-~~~~~~l~~l~~~d--LLiIDD  171 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSRL--HESYDN-----G-QSGEKFLQELCKVD--LLVLDE  171 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHHHH--HHHHhc-----c-chHHHHHHHhcCCC--EEEEcC
Confidence            3699999999999999999999997666777777776554321  111110     0 01123445555544  999999


Q ss_pred             cc--cccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchh
Q 047225           98 IE--KAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSV  143 (287)
Q Consensus        98 id--~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~  143 (287)
                      +.  ..+...+..|..+++.+...          ...+|+|||.....
T Consensus       172 lg~~~~s~~~~~~l~~ii~~R~~~----------~~ptiitSNl~~~~  209 (248)
T PRK12377        172 IGIQRETKNEQVVLNQIIDRRTAS----------MRSVGMLTNLNHEA  209 (248)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHhc----------CCCEEEEcCCCHHH
Confidence            94  56777888999999975322          12489999987543

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=99.18  E-value=1.9e-10  Score=99.98  Aligned_cols=141  Identities=17%  Similarity=0.238  Sum_probs=89.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCC-ceEEecccccccccchhh--hhCCCCC--------CCcccchhhHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKE-AMVRIDMSEYMEKHTVSK--FFGSPPG--------YVGFENGGQLTEAVRH   87 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~-~~~~~~~~~~~~~~~~~~--~~~~~~~--------~~~~~~~~~~~~~~~~   87 (287)
                      .++|+||+|+||+++|..+|+.+.-... ..-...+-......+=.+  .+...+.        ..+.+..+.+.+.+..
T Consensus        28 A~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~~~~I~idqIR~l~~~~~~  107 (319)
T PRK08769         28 GLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLRTEIVIEQVREISQKLAL  107 (319)
T ss_pred             eEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccccccccccHHHHHHHHHHHhh
Confidence            4999999999999999999998843221 100000000000000000  0000011        1122223334443333


Q ss_pred             ----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHH
Q 047225           88 ----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEEL  163 (287)
Q Consensus        88 ----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~  163 (287)
                          +++.|++||++|+++....++|++.+|+.           .+++.||++++...                      
T Consensus       108 ~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEP-----------p~~~~fiL~~~~~~----------------------  154 (319)
T PRK08769        108 TPQYGIAQVVIVDPADAINRAACNALLKTLEEP-----------SPGRYLWLISAQPA----------------------  154 (319)
T ss_pred             CcccCCcEEEEeccHhhhCHHHHHHHHHHhhCC-----------CCCCeEEEEECChh----------------------
Confidence                34579999999999999999999999983           23567777776543                      


Q ss_pred             HhcCChhHHhccCceEEeCCCCHHHHHHHHHH
Q 047225          164 RRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDI  195 (287)
Q Consensus       164 ~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~  195 (287)
                        .+.|.+.||| ..+.|++|+.++..+++..
T Consensus       155 --~lLpTIrSRC-q~i~~~~~~~~~~~~~L~~  183 (319)
T PRK08769        155 --RLPATIRSRC-QRLEFKLPPAHEALAWLLA  183 (319)
T ss_pred             --hCchHHHhhh-eEeeCCCcCHHHHHHHHHH
Confidence              3458899999 9999999999998888854

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=99.17  E-value=7.4e-10  Score=97.28  Aligned_cols=142  Identities=12%  Similarity=0.116  Sum_probs=92.7

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccccc--------chhhhhCCCC-CCCcccchhhHHHHHHh
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKH--------TVSKFFGSPP-GYVGFENGGQLTEAVRH   87 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~-~~~~~~~~~~~~~~~~~   87 (287)
                      .+.++|.||+|+||+++|..+|+.+.-.... -...|+.-....        .+..+..... ...+.++.+.+.+.+..
T Consensus        24 ~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~-~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~  102 (334)
T PRK07993         24 HHALLIQALPGMGDDALIYALSRWLMCQQPQ-GHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLGVDAVREVTEKLYE  102 (334)
T ss_pred             ceEEeeECCCCCCHHHHHHHHHHHHcCCCCC-CCCCCCCCHHHHHHHcCCCCCEEEEecccccccCCHHHHHHHHHHHhh
Confidence            3459999999999999999999998321100 000222110000        0000111100 12333344445544443


Q ss_pred             ----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHH
Q 047225           88 ----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEEL  163 (287)
Q Consensus        88 ----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~  163 (287)
                          +++.|++||++|+|+....++|++.+|+.           .++++||+.|+...                      
T Consensus       103 ~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEP-----------p~~t~fiL~t~~~~----------------------  149 (334)
T PRK07993        103 HARLGGAKVVWLPDAALLTDAAANALLKTLEEP-----------PENTWFFLACREPA----------------------  149 (334)
T ss_pred             ccccCCceEEEEcchHhhCHHHHHHHHHHhcCC-----------CCCeEEEEEECChh----------------------
Confidence                45689999999999999999999999983           23567777776543                      


Q ss_pred             HhcCChhHHhccCceEEeCCCCHHHHHHHHHH
Q 047225          164 RRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDI  195 (287)
Q Consensus       164 ~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~  195 (287)
                        .+.|.+.||| ..+.|+|++.+++.+++..
T Consensus       150 --~lLpTIrSRC-q~~~~~~~~~~~~~~~L~~  178 (334)
T PRK07993        150 --RLLATLRSRC-RLHYLAPPPEQYALTWLSR  178 (334)
T ss_pred             --hChHHHHhcc-ccccCCCCCHHHHHHHHHH
Confidence              3458899999 7899999999999988854

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=99.17  E-value=1.5e-11  Score=108.17  Aligned_cols=161  Identities=14%  Similarity=0.166  Sum_probs=86.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      .|++|+|.||||||.+.+.+++..+    .-++.+....... .+.......+...++.   .-.+++.....+|++|||
T Consensus        58 ihiLlvGdpg~gKS~ll~~~~~~~p----r~v~~~g~~~s~~-gLta~~~~d~~~~~~~---leaGalvlad~GiccIDe  129 (331)
T PF00493_consen   58 IHILLVGDPGTGKSQLLKYVAKLAP----RSVYTSGKGSSAA-GLTASVSRDPVTGEWV---LEAGALVLADGGICCIDE  129 (331)
T ss_dssp             --EEEECSCHHCHHHHHHCCCCT-S----SEEEEECCGSTCC-CCCEEECCCGGTSSEC---EEE-HHHHCTTSEEEECT
T ss_pred             cceeeccchhhhHHHHHHHHHhhCC----ceEEECCCCcccC-CccceeccccccceeE---EeCCchhcccCceeeecc
Confidence            4799999999999999998865542    1222222111110 0000000000000011   112345555668999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCC-Cceeecc-ceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhcc
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDLK-NTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRI  175 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~  175 (287)
                      +|+++.+....|.+.|+.+.++..+ |....++ ++.|++++||....+...     ..+.+.      -.++++|++||
T Consensus       130 ~dk~~~~~~~~l~eaMEqq~isi~kagi~~~l~ar~svlaa~NP~~g~~~~~-----~~~~~n------i~l~~~LLSRF  198 (331)
T PF00493_consen  130 FDKMKEDDRDALHEAMEQQTISIAKAGIVTTLNARCSVLAAANPKFGRYDPN-----KSLSEN------INLPPPLLSRF  198 (331)
T ss_dssp             TTT--CHHHHHHHHHHHCSCEEECTSSSEEEEE---EEEEEE--TT--S-TT-----S-CGCC------T-S-CCCHCC-
T ss_pred             cccccchHHHHHHHHHHcCeeccchhhhcccccchhhhHHHHhhhhhhcchh-----hhhHHh------cccchhhHhhc
Confidence            9999999999999999999999886 6555554 889999999975433111     111111      14778999999


Q ss_pred             CceEE-eCCCCHHHHHHHHHHHH
Q 047225          176 DEVIV-FRQLNKMQLMEIVDIML  197 (287)
Q Consensus       176 ~~~i~-~~~~~~~~~~~il~~~l  197 (287)
                      |.++. ..+++.+.-..+..+.+
T Consensus       199 DLif~l~D~~d~~~D~~la~~il  221 (331)
T PF00493_consen  199 DLIFLLRDKPDEEEDERLAEHIL  221 (331)
T ss_dssp             SEEECC--TTT-HHHHHHHHHHH
T ss_pred             CEEEEeccccccccccccceEEE
Confidence            97754 57777655555555444

; 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.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=99.16  E-value=4.1e-10  Score=98.61  Aligned_cols=129  Identities=18%  Similarity=0.323  Sum_probs=86.7

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCC-----CceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh----C
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSK-----EAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH----R   88 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~   88 (287)
                      +.++|+||+|+|||++|+.+++.+....     ..+..+...           -|   ...+.+....+.+.+..    +
T Consensus        27 ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~-----------~~---~~i~v~~ir~~~~~~~~~p~~~   92 (313)
T PRK05564         27 HAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPI-----------NK---KSIGVDDIRNIIEEVNKKPYEG   92 (313)
T ss_pred             ceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccc-----------cC---CCCCHHHHHHHHHHHhcCcccC
Confidence            3589999999999999999999873211     111112110           00   01111112222232222    3


Q ss_pred             CcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCC
Q 047225           89 PHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFR  168 (287)
Q Consensus        89 ~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (287)
                      ++.|++||++|+++...+++|++.+++.           ++++.+|++++...                        .+.
T Consensus        93 ~~kv~iI~~ad~m~~~a~naLLK~LEep-----------p~~t~~il~~~~~~------------------------~ll  137 (313)
T PRK05564         93 DKKVIIIYNSEKMTEQAQNAFLKTIEEP-----------PKGVFIILLCENLE------------------------QIL  137 (313)
T ss_pred             CceEEEEechhhcCHHHHHHHHHHhcCC-----------CCCeEEEEEeCChH------------------------hCc
Confidence            4579999999999999999999999973           23556776664322                        345


Q ss_pred             hhHHhccCceEEeCCCCHHHHHHHHHHH
Q 047225          169 PEFLNRIDEVIVFRQLNKMQLMEIVDIM  196 (287)
Q Consensus       169 ~~l~~r~~~~i~~~~~~~~~~~~il~~~  196 (287)
                      +.+.+|+ ..+.|++++.+++..++...
T Consensus       138 ~TI~SRc-~~~~~~~~~~~~~~~~l~~~  164 (313)
T PRK05564        138 DTIKSRC-QIYKLNRLSKEEIEKFISYK  164 (313)
T ss_pred             HHHHhhc-eeeeCCCcCHHHHHHHHHHH
Confidence            7899999 89999999999998888654

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

Probab=99.15  E-value=5.4e-10  Score=102.52  Aligned_cols=173  Identities=23%  Similarity=0.303  Sum_probs=120.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCC-cEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRP-HSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~il~iDe   97 (287)
                      .++++||||||||.+++++++..   +..++.+++.+...+     .    +|.... ..+..++...... ..++||||
T Consensus       220 g~Ll~gppg~Gkt~l~~aVa~e~---~a~~~~i~~peli~k-----~----~gEte~-~LR~~f~~a~k~~~psii~IdE  286 (693)
T KOG0730|consen  220 GLLLYGPPGTGKTFLVRAVANEY---GAFLFLINGPELISK-----F----PGETES-NLRKAFAEALKFQVPSIIFIDE  286 (693)
T ss_pred             CccccCCCCCChHHHHHHHHHHh---CceeEecccHHHHHh-----c----ccchHH-HHHHHHHHHhccCCCeeEeHHh
Confidence            59999999999999999999998   677788888765432     1    111111 1134454444444 78999999


Q ss_pred             ccccc----------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           98 IEKAH----------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        98 id~~~----------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      +|.+-          ..+...|+++++.-.         ..++.+++.++|.+.                        .+
T Consensus       287 ld~l~p~r~~~~~~e~Rv~sqlltL~dg~~---------~~~~vivl~atnrp~------------------------sl  333 (693)
T KOG0730|consen  287 LDALCPKREGADDVESRVVSQLLTLLDGLK---------PDAKVIVLAATNRPD------------------------SL  333 (693)
T ss_pred             HhhhCCcccccchHHHHHHHHHHHHHhhCc---------CcCcEEEEEecCCcc------------------------cc
Confidence            99654          356778888888522         123567888888764                        34


Q ss_pred             ChhHHh-ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHH
Q 047225          168 RPEFLN-RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDN  246 (287)
Q Consensus       168 ~~~l~~-r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~  246 (287)
                      .+++.+ |||..+.+.-|+..+..+|++.....+       +  .. ++..+..++..+.  ++...++...+..+..++
T Consensus       334 d~alRRgRfd~ev~IgiP~~~~RldIl~~l~k~~-------~--~~-~~~~l~~iA~~th--GyvGaDL~~l~~ea~~~~  401 (693)
T KOG0730|consen  334 DPALRRGRFDREVEIGIPGSDGRLDILRVLTKKM-------N--LL-SDVDLEDIAVSTH--GYVGADLAALCREASLQA  401 (693)
T ss_pred             ChhhhcCCCcceeeecCCCchhHHHHHHHHHHhc-------C--Cc-chhhHHHHHHHcc--chhHHHHHHHHHHHHHHH
Confidence            577774 999999999999999999997776542       2  22 5677777776543  233468888877776666


Q ss_pred             HHH
Q 047225          247 LAE  249 (287)
Q Consensus       247 ~~~  249 (287)
                      ..+
T Consensus       402 ~r~  404 (693)
T KOG0730|consen  402 TRR  404 (693)
T ss_pred             hhh
Confidence            555

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.14  E-value=7.6e-10  Score=92.77  Aligned_cols=118  Identities=20%  Similarity=0.294  Sum_probs=89.9

Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChh
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      +|+||||++.++-+-...|.+.+++.-.+            ++|+++|.+...+.+.+...-+            .+|-+
T Consensus       290 GVLFIDEvHMLDIEcFsFlNrAlE~d~~P------------iiimaTNrgit~iRGTn~~Sph------------GiP~D  345 (454)
T KOG2680|consen  290 GVLFIDEVHMLDIECFSFLNRALENDMAP------------IIIMATNRGITRIRGTNYRSPH------------GIPID  345 (454)
T ss_pred             ceEEEeeehhhhhHHHHHHHHHhhhccCc------------EEEEEcCCceEEeecCCCCCCC------------CCcHH
Confidence            89999999999999999999999974322            5889999886655443221111            36778


Q ss_pred             HHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHH
Q 047225          171 FLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNL  247 (287)
Q Consensus       171 l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~  247 (287)
                      |++|. .+|...|++.+++++|+...+.+.         ++.+++++++.+......     ..||.+++-+-...+
T Consensus       346 ~lDR~-lII~t~py~~~d~~~IL~iRc~EE---------dv~m~~~A~d~Lt~i~~~-----tsLRYai~Lit~a~~  407 (454)
T KOG2680|consen  346 LLDRM-LIISTQPYTEEDIKKILRIRCQEE---------DVEMNPDALDLLTKIGEA-----TSLRYAIHLITAASL  407 (454)
T ss_pred             Hhhhh-heeecccCcHHHHHHHHHhhhhhh---------ccccCHHHHHHHHHhhhh-----hhHHHHHHHHHHHHH
Confidence            99999 999999999999999998887653         688999999999887542     356677664433333

>PRK08116 hypothetical protein; Validated

Probab=99.14  E-value=1.6e-10  Score=98.57  Aligned_cols=108  Identities=18%  Similarity=0.347  Sum_probs=71.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+|++|||||+|+.++++.+...+.++++++..++...  +...+...    +......+.+.+...+  +|+|||+
T Consensus       116 gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ll~~--i~~~~~~~----~~~~~~~~~~~l~~~d--lLviDDl  187 (268)
T PRK08116        116 GLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNR--IKSTYKSS----GKEDENEIIRSLVNAD--LLILDDL  187 (268)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHH--HHHHHhcc----ccccHHHHHHHhcCCC--EEEEecc
Confidence            49999999999999999999998655677777777654432  11111110    0011123455555554  9999999


Q ss_pred             --ccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhh
Q 047225           99 --EKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVI  144 (287)
Q Consensus        99 --d~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~  144 (287)
                        +......+..|+.+++.+.-.          ...+|+|||..+..+
T Consensus       188 g~e~~t~~~~~~l~~iin~r~~~----------~~~~IiTsN~~~~eL  225 (268)
T PRK08116        188 GAERDTEWAREKVYNIIDSRYRK----------GLPTIVTTNLSLEEL  225 (268)
T ss_pred             cCCCCCHHHHHHHHHHHHHHHHC----------CCCEEEECCCCHHHH
Confidence              566777788899998864211          235999999876543

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=99.14  E-value=5.3e-10  Score=97.12  Aligned_cols=140  Identities=11%  Similarity=0.163  Sum_probs=92.1

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc-----cchhhh--hCCC--CCCCcccchhhHHHHHHh-
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK-----HTVSKF--FGSP--PGYVGFENGGQLTEAVRH-   87 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~-----~~~~~~--~~~~--~~~~~~~~~~~~~~~~~~-   87 (287)
                      +.++|.||.|+||+++|+.+|+.+.-....  ...|+.-...     ..-.++  +...  ....+.++.+.+.+.+.. 
T Consensus        26 hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~--~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~vdqiR~l~~~~~~~  103 (319)
T PRK06090         26 GALLLQSDEGLGVESLVELFSRALLCQNYQ--SEACGFCHSCELMQSGNHPDLHVIKPEKEGKSITVEQIRQCNRLAQES  103 (319)
T ss_pred             eeEeeECCCCCCHHHHHHHHHHHHcCCCCC--CCCCCCCHHHHHHHcCCCCCEEEEecCcCCCcCCHHHHHHHHHHHhhC
Confidence            469999999999999999999988322211  0112211100     000011  1000  111233333444444433 


Q ss_pred             ---CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           88 ---RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        88 ---~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                         +++.|++||++|+++....++|++.+|+.           .+++.||+.|+...                       
T Consensus       104 ~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEP-----------p~~t~fiL~t~~~~-----------------------  149 (319)
T PRK06090        104 SQLNGYRLFVIEPADAMNESASNALLKTLEEP-----------APNCLFLLVTHNQK-----------------------  149 (319)
T ss_pred             cccCCceEEEecchhhhCHHHHHHHHHHhcCC-----------CCCeEEEEEECChh-----------------------
Confidence               34689999999999999999999999983           24567787776543                       


Q ss_pred             hcCChhHHhccCceEEeCCCCHHHHHHHHHH
Q 047225          165 RRFRPEFLNRIDEVIVFRQLNKMQLMEIVDI  195 (287)
Q Consensus       165 ~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~  195 (287)
                       .+.|.+.||| ..+.|+||+.+++.+++..
T Consensus       150 -~lLpTI~SRC-q~~~~~~~~~~~~~~~L~~  178 (319)
T PRK06090        150 -RLLPTIVSRC-QQWVVTPPSTAQAMQWLKG  178 (319)
T ss_pred             -hChHHHHhcc-eeEeCCCCCHHHHHHHHHH
Confidence             3458899999 9999999999999888854

>PF13173 AAA_14: AAA domain

Probab=99.14  E-value=4.1e-10  Score=85.44  Aligned_cols=124  Identities=23%  Similarity=0.348  Sum_probs=82.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|.||.|||||++++.+++.+. ....++++++.+.........-+           ...+.+... .+..++||||+
T Consensus         4 ~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~~~~~~~~~~~~~~~-----------~~~~~~~~~-~~~~~i~iDEi   70 (128)
T PF13173_consen    4 IIILTGPRGVGKTTLLKQLAKDLL-PPENILYINFDDPRDRRLADPDL-----------LEYFLELIK-PGKKYIFIDEI   70 (128)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhc-ccccceeeccCCHHHHHHhhhhh-----------HHHHHHhhc-cCCcEEEEehh
Confidence            599999999999999999999885 45678888887765421100000           012222211 24479999999


Q ss_pred             ccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCce
Q 047225           99 EKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEV  178 (287)
Q Consensus        99 d~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~  178 (287)
                      ++++ ++...+..+.+.+            ++..+|+|++.....                    .......+..|. ..
T Consensus        71 q~~~-~~~~~lk~l~d~~------------~~~~ii~tgS~~~~l--------------------~~~~~~~l~gr~-~~  116 (128)
T PF13173_consen   71 QYLP-DWEDALKFLVDNG------------PNIKIILTGSSSSLL--------------------SKDIAESLAGRV-IE  116 (128)
T ss_pred             hhhc-cHHHHHHHHHHhc------------cCceEEEEccchHHH--------------------hhcccccCCCeE-EE
Confidence            9997 7888888888864            234566666542211                    112235667887 78


Q ss_pred             EEeCCCCHHHH
Q 047225          179 IVFRQLNKMQL  189 (287)
Q Consensus       179 i~~~~~~~~~~  189 (287)
                      +.+.|++..|.
T Consensus       117 ~~l~Plsf~E~  127 (128)
T PF13173_consen  117 IELYPLSFREF  127 (128)
T ss_pred             EEECCCCHHHh
Confidence            99999998774

>PRK06835 DNA replication protein DnaC; Validated

Probab=99.12  E-value=6.2e-11  Score=103.58  Aligned_cols=108  Identities=18%  Similarity=0.298  Sum_probs=72.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      .+++|+||+|||||+|+.++++.+...+..+++++..++........ +.      .........+.+...+  +|+|||
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~-~~------~~~~~~~~~~~l~~~D--LLIIDD  254 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIR-FN------NDKELEEVYDLLINCD--LLIIDD  254 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHH-hc------cchhHHHHHHHhccCC--EEEEec
Confidence            46999999999999999999999977777888888776544311110 00      0000111234455554  999999


Q ss_pred             ccc--ccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhh
Q 047225           98 IEK--AHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVI  144 (287)
Q Consensus        98 id~--~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~  144 (287)
                      +..  .++..+..|+.+++.+...          +..+|+|||.++..+
T Consensus       255 lG~e~~t~~~~~~Lf~iin~R~~~----------~k~tIiTSNl~~~el  293 (329)
T PRK06835        255 LGTEKITEFSKSELFNLINKRLLR----------QKKMIISTNLSLEEL  293 (329)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHHC----------CCCEEEECCCCHHHH
Confidence            964  4667778899998864321          124899999876543

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=99.10  E-value=7e-10  Score=92.92  Aligned_cols=199  Identities=18%  Similarity=0.278  Sum_probs=133.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh---cCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEY---FGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      +++|.||+|.|||.+++.+.+.-   ..-+.+++.+||...........+||+..|. +|...  .-...+++...+.+|
T Consensus       210 p~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghvkgaftga~~--~r~gllrsadggmlf  287 (531)
T COG4650         210 PILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKGAFTGARE--SREGLLRSADGGMLF  287 (531)
T ss_pred             CeEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhhccccccchh--hhhhhhccCCCceEe
Confidence            69999999999999999988753   2235789999999988777788899887664 33332  334567777888999


Q ss_pred             EcCcccccHHHHHHHHHhhcCcee-ecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHh
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDGRV-TDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLN  173 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~~~-~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  173 (287)
                      +||+..+..+-|..|++.+++.++ +.+.++.+. +++.+|..+-.              ++.+.   .-+..|..+|..
T Consensus       288 ldeigelgadeqamllkaieekrf~pfgsdr~v~-sdfqliagtvr--------------dlrq~---vaeg~fredl~a  349 (531)
T COG4650         288 LDEIGELGADEQAMLLKAIEEKRFYPFGSDRQVS-SDFQLIAGTVR--------------DLRQL---VAEGKFREDLYA  349 (531)
T ss_pred             hHhhhhcCccHHHHHHHHHHhhccCCCCCccccc-cchHHhhhhHH--------------HHHHH---HhccchHHHHHH
Confidence            999999999999999999987654 343333331 35555554422              22222   234678899999


Q ss_pred             ccC-ceEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHh------ccCCCCCchhHHHHHHHH
Q 047225          174 RID-EVIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEE------GYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       174 r~~-~~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~------~~~~~~~~r~l~~~i~~~  242 (287)
                      |+. +++.+|-+.  .+++..=+...|.+...   ..|..+.+.-++...-..-      .|..  +-|++...+.++
T Consensus       350 rinlwtf~lpgl~qr~ediepnldyelerha~---~~g~~vrfntearra~l~fa~spqa~w~g--nfrelsasvtrm  422 (531)
T COG4650         350 RINLWTFTLPGLRQRQEDIEPNLDYELERHAS---LTGDSVRFNTEARRAWLAFATSPQATWRG--NFRELSASVTRM  422 (531)
T ss_pred             hhheeeeeccccccCccccCCCccHHHHHHHH---hhCceeeeehHHHHHHHHhccCcchhhcc--cHHHHhHHHHHH
Confidence            994 346666555  45555555556655433   2355677777776554432      3433  336776666654

>PRK08181 transposase; Validated

Probab=99.09  E-value=2.1e-10  Score=97.41  Aligned_cols=104  Identities=16%  Similarity=0.249  Sum_probs=69.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||+|+.+++..+...+..+++++..+..........        . .....+...+...  .+|+|||+
T Consensus       108 nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~a~~--------~-~~~~~~l~~l~~~--dLLIIDDl  176 (269)
T PRK08181        108 NLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVARR--------E-LQLESAIAKLDKF--DLLILDDL  176 (269)
T ss_pred             eEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHHHHh--------C-CcHHHHHHHHhcC--CEEEEecc
Confidence            69999999999999999999988666677777777655443211100        0 0012334444444  49999999


Q ss_pred             cccc--HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhh
Q 047225           99 EKAH--RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVI  144 (287)
Q Consensus        99 d~~~--~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~  144 (287)
                      ...+  ...+..|+++++.+...           ..+|+|||.+...+
T Consensus       177 g~~~~~~~~~~~Lf~lin~R~~~-----------~s~IiTSN~~~~~w  213 (269)
T PRK08181        177 AYVTKDQAETSVLFELISARYER-----------RSILITANQPFGEW  213 (269)
T ss_pred             ccccCCHHHHHHHHHHHHHHHhC-----------CCEEEEcCCCHHHH
Confidence            8653  45567899999864221           24899999886554

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=99.08  E-value=8.4e-10  Score=84.18  Aligned_cols=92  Identities=26%  Similarity=0.267  Sum_probs=57.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhh---hh-CCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSK---FF-GSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~---~~-~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      +++|+||||||||++++.++..+......++.++++..........   .. .......+......+...+......+++
T Consensus         4 ~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vii   83 (148)
T smart00382        4 VILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPDVLI   83 (148)
T ss_pred             EEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcCCCEEE
Confidence            6999999999999999999999955444577888776544322110   01 0111111122223444555554457999


Q ss_pred             EcCcccccHHHHHHHH
Q 047225           95 FDEIEKAHRDVLNVML  110 (287)
Q Consensus        95 iDeid~~~~~~~~~L~  110 (287)
                      +||++.+.........
T Consensus        84 iDei~~~~~~~~~~~~   99 (148)
T smart00382       84 LDEITSLLDAEQEALL   99 (148)
T ss_pred             EECCcccCCHHHHHHH
Confidence            9999988776555443

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.

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=99.08  E-value=1e-10  Score=93.63  Aligned_cols=104  Identities=21%  Similarity=0.323  Sum_probs=69.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||+|||||++|.++++.+...+....+++..+..+.....  ..       ......+.+.+...+  +|+|||+
T Consensus        49 ~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~--~~-------~~~~~~~~~~l~~~d--lLilDDl  117 (178)
T PF01695_consen   49 NLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQS--RS-------DGSYEELLKRLKRVD--LLILDDL  117 (178)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCC--HC-------CTTHCHHHHHHHTSS--CEEEETC
T ss_pred             EEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceecccccc--cc-------ccchhhhcCcccccc--Eeccccc
Confidence            699999999999999999999887777888888877665432111  10       111234556666665  9999999


Q ss_pred             ccc--cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhh
Q 047225           99 EKA--HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVI  144 (287)
Q Consensus        99 d~~--~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~  144 (287)
                      ...  +....+.|+++++.+..           +...|+|||.....+
T Consensus       118 G~~~~~~~~~~~l~~ii~~R~~-----------~~~tIiTSN~~~~~l  154 (178)
T PF01695_consen  118 GYEPLSEWEAELLFEIIDERYE-----------RKPTIITSNLSPSEL  154 (178)
T ss_dssp             TSS---HHHHHCTHHHHHHHHH-----------T-EEEEEESS-HHHH
T ss_pred             ceeeecccccccchhhhhHhhc-----------ccCeEeeCCCchhhH
Confidence            854  44566778888886531           124788999986544

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=99.08  E-value=2.3e-09  Score=106.37  Aligned_cols=151  Identities=30%  Similarity=0.372  Sum_probs=117.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCC----CCCCcccchhhHHHHHHhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSP----PGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      ++++-||+.+|||+++..+|+..   +.+++.+|--+..+-   ++.+|..    .|...+.+ +.+.++++.+-  +++
T Consensus       890 P~LiQGpTSSGKTSMI~yla~~t---ghkfVRINNHEHTdl---qeYiGTyvTdd~G~lsFkE-GvLVeAlR~Gy--WIV  960 (4600)
T COG5271         890 PLLIQGPTSSGKTSMILYLARET---GHKFVRINNHEHTDL---QEYIGTYVTDDDGSLSFKE-GVLVEALRRGY--WIV  960 (4600)
T ss_pred             cEEEecCCCCCcchHHHHHHHHh---CccEEEecCcccchH---HHHhhceeecCCCceeeeh-hHHHHHHhcCc--EEE
Confidence            69999999999999999999998   788999988765543   4455543    33333444 57888888876  999


Q ss_pred             EcCcccccHHHHHHHHHhhcC-ceeecCCCce--eeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhH
Q 047225           95 FDEIEKAHRDVLNVMLQLLDD-GRVTDGKGQT--VDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEF  171 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~-~~~~~~~g~~--i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  171 (287)
                      +||++.++.+++++|.+++++ +.+.+++...  ++.+++++++|-||+....                  -++.++.+|
T Consensus       961 LDELNLApTDVLEaLNRLLDDNRelfIPETqevV~PHp~F~lFATQNppg~Yg------------------GRK~LSrAF 1022 (4600)
T COG5271         961 LDELNLAPTDVLEALNRLLDDNRELFIPETQEVVVPHPNFRLFATQNPPGGYG------------------GRKGLSRAF 1022 (4600)
T ss_pred             eeccccCcHHHHHHHHHhhccccceecCCcceeeccCCCeeEEeecCCCcccc------------------chHHHHHHH
Confidence            999999999999999999986 5677776433  3346888888888764321                  134677899


Q ss_pred             HhccCceEEeCCCCHHHHHHHHHHHH
Q 047225          172 LNRIDEVIVFRQLNKMQLMEIVDIML  197 (287)
Q Consensus       172 ~~r~~~~i~~~~~~~~~~~~il~~~l  197 (287)
                      ..|| -.+.|.....+++..|++..+
T Consensus      1023 RNRF-lE~hFddipedEle~ILh~rc 1047 (4600)
T COG5271        1023 RNRF-LEMHFDDIPEDELEEILHGRC 1047 (4600)
T ss_pred             Hhhh-HhhhcccCcHHHHHHHHhccC
Confidence            9999 889999999999999996544

>PF10431 ClpB_D2-small: C-terminal, D2-small domain, of ClpB protein ; InterPro: IPR019489 Most Clp ATPases form complexes with peptidase subunits and are involved in protein degradation, though some, such as ClpB, do not associate with peptidases and are involved in protein disaggregation []

Probab=99.06  E-value=1.8e-09  Score=75.01  Aligned_cols=81  Identities=46%  Similarity=0.745  Sum_probs=74.9

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHHHHHHHhccCCCCCEEE
Q 047225          184 LNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVT  263 (287)
Q Consensus       184 ~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~  263 (287)
                      ++.+++.+|+...+.+...++...+..+.++++++++|+..++.+.+|+|++++++++.+.+.+++.++.+++.++++++
T Consensus         1 L~~~~l~~I~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GAR~l~r~i~~~i~~~la~~il~~~~~~g~~v~   80 (81)
T PF10431_consen    1 LSEEDLEKIADLQLKKLNERLKEKGIELEFDDAVVDYLAEKGYDPEYGARPLRRIIEREIEPPLADAILSGKIKEGDTVR   80 (81)
T ss_dssp             --HHHHHHHHHSHHHHHHHHHHHTTEEEEE-HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHHHHHHHSCSCTTCEEE
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHCCCeEEecHHHHHHHHHhCcccCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcCEee
Confidence            46789999999999999999999999999999999999999999999999999999999999999999999999999887


Q ss_pred             E
Q 047225          264 M  264 (287)
Q Consensus       264 i  264 (287)
                      |
T Consensus        81 v   81 (81)
T PF10431_consen   81 V   81 (81)
T ss_dssp             E
T ss_pred             C
Confidence            5

This entry represents the C-terminal domain of Clp ATPases, often referred to as the D2-small domain, which forms a mixed alpha-beta structure. Compared with the adjacent AAA D1-small domain (IPR003959 from INTERPRO) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighbouring subunit, thereby providing enough binding energy to stabilise the functional assembly [].; PDB: 3HWS_A 3HTE_F 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 3PXI_A 1R6B_X ....

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=99.05  E-value=2.9e-09  Score=100.42  Aligned_cols=115  Identities=13%  Similarity=0.206  Sum_probs=74.7

Q ss_pred             hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCC------cee---ec-cceEEEEeecCCchhhhhhccCCchHHH
Q 047225           87 HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKG------QTV---DL-KNTIIIMTSNIGDSVIARESILGSDQME  156 (287)
Q Consensus        87 ~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g------~~i---~~-~~~~iI~t~n~~~~~~~~~~~~~~~~~~  156 (287)
                      ....++|||||++.+++..|..|+++++++.+....+      ..+   .. -++.+|+++|+...              
T Consensus       224 kAnGGtL~LDei~~L~~~~q~~Llr~L~~~~i~i~g~~e~~~~~~~~~~~ip~dvrvI~a~~~~ll--------------  289 (637)
T PRK13765        224 KAHKGVLFIDEINTLDLESQQSLLTAMQEKKFPITGQSERSSGAMVRTEPVPCDFIMVAAGNLDAL--------------  289 (637)
T ss_pred             ECCCcEEEEeChHhCCHHHHHHHHHHHHhCCEEecccccccccccCCCcceeeeeEEEEecCcCHH--------------
Confidence            4455899999999999999999999999988765322      111   11 26789999997421              


Q ss_pred             HHHHHHHHhcCChhHHhccC---ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHh
Q 047225          157 RGVAEELRRRFRPEFLNRID---EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEE  224 (287)
Q Consensus       157 ~~~~~~~~~~~~~~l~~r~~---~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~  224 (287)
                              ..+.|+|.+||.   ..+.|..-.. +..+....++....+.....+....++.+++..+..+
T Consensus       290 --------~~~dpdL~~rfk~~~v~v~f~~~~~-d~~e~~~~~~~~iaqe~~~~G~l~~f~~eAVa~LI~~  351 (637)
T PRK13765        290 --------ENMHPALRSRIKGYGYEVYMRDTME-DTPENRRKLVRFVAQEVKRDGKIPHFDRDAVEEIIRE  351 (637)
T ss_pred             --------HhhhHHHHHHhccCeEEEEcccccC-CCHHHHHHHHHHHHHHhhhccCCCCCCHHHHHHHHHH
Confidence                    123678888885   3455543332 3334444444444444443322457899999988865

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=99.04  E-value=2.4e-09  Score=94.79  Aligned_cols=191  Identities=21%  Similarity=0.241  Sum_probs=117.3

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCC--CceEEecccccccccchh-hhhCCC-CCCCcccc----hhhHHHHHHh-C
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSK--EAMVRIDMSEYMEKHTVS-KFFGSP-PGYVGFEN----GGQLTEAVRH-R   88 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~--~~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~----~~~~~~~~~~-~   88 (287)
                      +.+++.|-||||||.+..-+...+....  ...++++|........+. .+++.. ....+...    ...+...... .
T Consensus       176 gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k  255 (529)
T KOG2227|consen  176 GSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIFSSLLQDLVSPGTGMQHLEKFEKHTKQSK  255 (529)
T ss_pred             cceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHhccc
Confidence            3799999999999998887777663333  345889998766553322 122111 00011111    1122222222 2


Q ss_pred             CcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCC
Q 047225           89 PHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFR  168 (287)
Q Consensus        89 ~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (287)
                      ..-++++||+|.+...-+..|..+++...++.        +.+++|..+|.-.                     +..+|-
T Consensus       256 ~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~--------sr~iLiGiANslD---------------------lTdR~L  306 (529)
T KOG2227|consen  256 FMLLLVLDEMDHLITRSQTVLYTLFEWPKLPN--------SRIILIGIANSLD---------------------LTDRFL  306 (529)
T ss_pred             ceEEEEechhhHHhhcccceeeeehhcccCCc--------ceeeeeeehhhhh---------------------HHHHHh
Confidence            34699999999999888888999998765444        3556777777532                     122344


Q ss_pred             hhHHhcc---CceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          169 PEFLNRI---DEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       169 ~~l~~r~---~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      +.|..+.   +..+.|+|++.+++.+|++..+....        ...+-..+++.++.......+++|.+-..+.++++.
T Consensus       307 prL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~--------t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R~aiEI  378 (529)
T KOG2227|consen  307 PRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEES--------TSIFLNAAIELCARKVAAPSGDLRKALDVCRRAIEI  378 (529)
T ss_pred             hhhhhccCCCCceeeecCCCHHHHHHHHHHHHhccc--------ccccchHHHHHHHHHhccCchhHHHHHHHHHHHHHH
Confidence            5555543   36699999999999999977765432        344555788888877555544444444444444443

>PF05729 NACHT: NACHT domain

Probab=99.04  E-value=4.2e-09  Score=83.10  Aligned_cols=144  Identities=13%  Similarity=0.198  Sum_probs=85.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCC------CceEEeccccccccc---chhhhhCCCCCCCcccchhhHHHHHHhCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSK------EAMVRIDMSEYMEKH---TVSKFFGSPPGYVGFENGGQLTEAVRHRP   89 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~------~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (287)
                      .++++|+||+|||++++.++..+....      ...+.+.+.......   .+...+..............+...+...+
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   81 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKNK   81 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcCC
Confidence            589999999999999999998874332      123355555554432   22333321111111111112334555566


Q ss_pred             cEEEEEcCcccccHHH--------HHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHH
Q 047225           90 HSVILFDEIEKAHRDV--------LNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAE  161 (287)
Q Consensus        90 ~~il~iDeid~~~~~~--------~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~  161 (287)
                      ..+++||.+|.+....        .+.|..++...          .++++.+++|+.+....                  
T Consensus        82 ~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~----------~~~~~~liit~r~~~~~------------------  133 (166)
T PF05729_consen   82 RVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQA----------LPPGVKLIITSRPRAFP------------------  133 (166)
T ss_pred             ceEEEEechHhcccchhhhHHHHHHHHHHHHhhhc----------cCCCCeEEEEEcCChHH------------------
Confidence            7899999999886632        23455566531          12356788888764321                  


Q ss_pred             HHHhcCChhHHhccC--ceEEeCCCCHHHHHHHHHHHHH
Q 047225          162 ELRRRFRPEFLNRID--EVIVFRQLNKMQLMEIVDIMLK  198 (287)
Q Consensus       162 ~~~~~~~~~l~~r~~--~~i~~~~~~~~~~~~il~~~l~  198 (287)
                              .+...+.  ..+.+.|++.+++.++++.++.
T Consensus       134 --------~~~~~~~~~~~~~l~~~~~~~~~~~~~~~f~  164 (166)
T PF05729_consen  134 --------DLRRRLKQAQILELEPFSEEDIKQYLRKYFS  164 (166)
T ss_pred             --------HHHHhcCCCcEEEECCCCHHHHHHHHHHHhh
Confidence                    1222221  5699999999999999977764

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=99.04  E-value=1.3e-09  Score=95.38  Aligned_cols=142  Identities=16%  Similarity=0.254  Sum_probs=88.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCC-----CceEEe-cccccccc--cchhhhhCC----CCC----CCcccchhhH
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSK-----EAMVRI-DMSEYMEK--HTVSKFFGS----PPG----YVGFENGGQL   81 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~-----~~~~~~-~~~~~~~~--~~~~~~~~~----~~~----~~~~~~~~~~   81 (287)
                      +.++|+||+|+|||++|+.+|+.+.-..     .++-.+ +|..+...  ..+..+...    ..+    ..+.+..+.+
T Consensus        22 hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~id~iR~l  101 (325)
T PRK08699         22 NAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIKIDAVREI  101 (325)
T ss_pred             eEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcCHHHHHHH
Confidence            3599999999999999999999983111     111110 00000000  000000000    001    1233334455


Q ss_pred             HHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHH
Q 047225           82 TEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMER  157 (287)
Q Consensus        82 ~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~  157 (287)
                      .+.+..    +++.|+++|+++.+++..++.|++.+++..           .+..+|++|+...                
T Consensus       102 ~~~~~~~p~~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~-----------~~~~~Ilvth~~~----------------  154 (325)
T PRK08699        102 IDNVYLTSVRGGLRVILIHPAESMNLQAANSLLKVLEEPP-----------PQVVFLLVSHAAD----------------  154 (325)
T ss_pred             HHHHhhCcccCCceEEEEechhhCCHHHHHHHHHHHHhCc-----------CCCEEEEEeCChH----------------
Confidence            555554    446799999999999999999999999742           1334666554432                


Q ss_pred             HHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHH
Q 047225          158 GVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDI  195 (287)
Q Consensus       158 ~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~  195 (287)
                              .+.+.+.+|| ..+.|+|++.++..+.+..
T Consensus       155 --------~ll~ti~SRc-~~~~~~~~~~~~~~~~L~~  183 (325)
T PRK08699        155 --------KVLPTIKSRC-RKMVLPAPSHEEALAYLRE  183 (325)
T ss_pred             --------hChHHHHHHh-hhhcCCCCCHHHHHHHHHh
Confidence                    2357788999 9999999999999888854

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

Probab=99.03  E-value=1e-08  Score=95.65  Aligned_cols=170  Identities=17%  Similarity=0.259  Sum_probs=115.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      ..++|.|+||||||++++.+|..+   +.+++.++|.+..+...-...          +....++...+.+...|+|+-+
T Consensus       432 ~~vLLhG~~g~GK~t~V~~vas~l---g~h~~evdc~el~~~s~~~~e----------tkl~~~f~~a~~~~pavifl~~  498 (953)
T KOG0736|consen  432 PSVLLHGPPGSGKTTVVRAVASEL---GLHLLEVDCYELVAESASHTE----------TKLQAIFSRARRCSPAVLFLRN  498 (953)
T ss_pred             eEEEEeCCCCCChHHHHHHHHHHh---CCceEeccHHHHhhcccchhH----------HHHHHHHHHHhhcCceEEEEec
Confidence            469999999999999999999999   899999999887755311100          0012345566666778999998


Q ss_pred             cccc--------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225           98 IEKA--------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus        98 id~~--------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      +|-+        +..++..+..++....+.      .+.+..+||++++.-                        +.+++
T Consensus       499 ~dvl~id~dgged~rl~~~i~~~ls~e~~~------~~~~~~ivv~t~~s~------------------------~~lp~  548 (953)
T KOG0736|consen  499 LDVLGIDQDGGEDARLLKVIRHLLSNEDFK------FSCPPVIVVATTSSI------------------------EDLPA  548 (953)
T ss_pred             cceeeecCCCchhHHHHHHHHHHHhccccc------CCCCceEEEEecccc------------------------ccCCH
Confidence            8843        445666677766632211      223466788888753                        25788


Q ss_pred             hHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       170 ~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                      .+.+.|.+.|.++.++.++..+|++-++...           .++.++...-+.. ...+++.+++...+...
T Consensus       549 ~i~~~f~~ei~~~~lse~qRl~iLq~y~~~~-----------~~n~~v~~k~~a~-~t~gfs~~~L~~l~~~~  609 (953)
T KOG0736|consen  549 DIQSLFLHEIEVPALSEEQRLEILQWYLNHL-----------PLNQDVNLKQLAR-KTSGFSFGDLEALVAHS  609 (953)
T ss_pred             HHHHhhhhhccCCCCCHHHHHHHHHHHHhcc-----------ccchHHHHHHHHH-hcCCCCHHHHHHHhcCc
Confidence            9999999999999999999999998777542           2443433332221 23445556666666555

>PRK06526 transposase; Provisional

Probab=99.02  E-value=3.3e-10  Score=95.72  Aligned_cols=104  Identities=19%  Similarity=0.273  Sum_probs=66.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||+++.+++..+...+..+..+++.+..........    .   + . .......+.  ...+|+|||+
T Consensus       100 nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~~l~~~l~~~~~----~---~-~-~~~~l~~l~--~~dlLIIDD~  168 (254)
T PRK06526        100 NVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQWVARLAAAHH----A---G-R-LQAELVKLG--RYPLLIVDEV  168 (254)
T ss_pred             eEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHHHHHHHHHHHHh----c---C-c-HHHHHHHhc--cCCEEEEccc
Confidence            69999999999999999999988655566655555544332111100    0   0 0 012222222  3469999999


Q ss_pred             cccc--HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhh
Q 047225           99 EKAH--RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVI  144 (287)
Q Consensus        99 d~~~--~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~  144 (287)
                      +..+  +.....|+++++.+..           +..+|+|||.+...+
T Consensus       169 g~~~~~~~~~~~L~~li~~r~~-----------~~s~IitSn~~~~~w  205 (254)
T PRK06526        169 GYIPFEPEAANLFFQLVSSRYE-----------RASLIVTSNKPFGRW  205 (254)
T ss_pred             ccCCCCHHHHHHHHHHHHHHHh-----------cCCEEEEcCCCHHHH
Confidence            9764  6677788888875321           124888999886554

>PRK07952 DNA replication protein DnaC; Validated

Probab=99.00  E-value=8.8e-10  Score=92.36  Aligned_cols=106  Identities=22%  Similarity=0.302  Sum_probs=68.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+|+||||||+++.+++..+...+..+.+++..+.....  ...+..    .. .....+.+.+...  .+|+|||+
T Consensus       101 ~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l~~~l--~~~~~~----~~-~~~~~~l~~l~~~--dlLvIDDi  171 (244)
T PRK07952        101 SFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSAM--KDTFSN----SE-TSEEQLLNDLSNV--DLLVIDEI  171 (244)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHHHHHH--HHHHhh----cc-ccHHHHHHHhccC--CEEEEeCC
Confidence            699999999999999999999996666777777765544321  111110    00 0112455555544  49999999


Q ss_pred             ccccH--HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchh
Q 047225           99 EKAHR--DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSV  143 (287)
Q Consensus        99 d~~~~--~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~  143 (287)
                      +....  -....|..+++.+...          +..+|+|||.....
T Consensus       172 g~~~~s~~~~~~l~~Ii~~Ry~~----------~~~tiitSNl~~~~  208 (244)
T PRK07952        172 GVQTESRYEKVIINQIVDRRSSS----------KRPTGMLTNSNMEE  208 (244)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHhC----------CCCEEEeCCCCHHH
Confidence            86532  3445778888864211          23589999987544

>KOG0481 consensus DNA replication licensing factor, MCM5 component [Replication, recombination and repair]

Probab=98.99  E-value=2.8e-10  Score=101.34  Aligned_cols=249  Identities=14%  Similarity=0.173  Sum_probs=142.3

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchh-hhhCCCCCCCcccchhhHHHHHHhCCcEEEEEc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVS-KFFGSPPGYVGFENGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iD   96 (287)
                      -|++|.|.|||.||.+.+-+-+..     |+...+-+.-+....+. ....++.+..-+.+.+    ++...+.+|++||
T Consensus       365 INVLLLGDPgtAKSQlLKFvEkvs-----PIaVYTSGKGSSAAGLTASV~RD~~tReFylEGG----AMVLADgGVvCID  435 (729)
T KOG0481|consen  365 INVLLLGDPGTAKSQLLKFVEKVS-----PIAVYTSGKGSSAAGLTASVIRDPSTREFYLEGG----AMVLADGGVVCID  435 (729)
T ss_pred             eeEEEecCCchhHHHHHHHHHhcC-----ceEEEecCCCcccccceeeEEecCCcceEEEecc----eEEEecCCEEEee
Confidence            479999999999999999885543     22222222111110000 1111111111111111    2233456799999


Q ss_pred             CcccccHHHHHHHHHhhcCceeecCC-Cceeec-cceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhc
Q 047225           97 EIEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDL-KNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNR  174 (287)
Q Consensus        97 eid~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~-~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r  174 (287)
                      |+|+|..+-.-++.+.|+...+.+.+ |...-+ +.+.|.+++|+.....        .+....-++-   -|.+.+++|
T Consensus       436 EFDKMre~DRVAIHEAMEQQTISIAKAGITT~LNSRtSVLAAANpvfGRy--------Dd~Kt~~dNI---Df~~TILSR  504 (729)
T KOG0481|consen  436 EFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRTSVLAAANPVFGRY--------DDTKTGEDNI---DFMPTILSR  504 (729)
T ss_pred             hhhccCchhhhHHHHHHHhhhHHHhhhcceeeecchhhhhhhcCCccccc--------cccCCccccc---chhhhHhhh
Confidence            99999999999999999998888776 655555 4778889999864432        2222111110   366889999


Q ss_pred             cCceEEeCCCCHHHH-HHHHHHHHHHHHHHHH--hcC---cEEEeChhHHHHHHHh---ccCCCCCchhHHHHHHHHHHH
Q 047225          175 IDEVIVFRQLNKMQL-MEIVDIMLKEIYERLE--AKN---MELTVTHTFKKKLIEE---GYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       175 ~~~~i~~~~~~~~~~-~~il~~~l~~~~~~~~--~~~---~~~~i~~~~~~~l~~~---~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ||.++-+..--.++. ..|.++.++-......  ...   ..-.++.+-+.....+   ...|.++....++.-.+.+..
T Consensus       505 FDmIFIVKD~h~~~~D~~lAkHVI~vH~~~~n~~~~~~~~~~~ei~~~~~KryI~YcR~kc~PrLs~~AaekL~~~yV~~  584 (729)
T KOG0481|consen  505 FDMIFIVKDEHDEERDITLAKHVINVHVSKANAQTDSQEENEGEIPIEKLKRYIQYCRLKCGPRLSAEAAEKLSSRYVTM  584 (729)
T ss_pred             ccEEEEEeccCcchhhhHHHHHhhhhhccccccccCccccCCCcccHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHhHH
Confidence            998876665543333 3344444432111000  000   1123455555544443   344666666666666655543


Q ss_pred             HHHHHHHhccCCCCCEEEEEEcCCccEEEEEecCCcccccc
Q 047225          246 NLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRNGSMTVCA  286 (287)
Q Consensus       246 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~  286 (287)
                      ...-....++.....++.|+++..+-+.+..+.-++|++++
T Consensus       585 R~~~~q~e~~s~~rssIPITVRQLEAIiRI~ESLAKm~Ls~  625 (729)
T KOG0481|consen  585 RKGVRQHEQDSDKRSSIPITVRQLEAIIRIAESLAKMELSP  625 (729)
T ss_pred             HHHHHHhhhcccccCCCceeHHHHHHHHHHHHHHHhhcCCc
Confidence            33222334445556788999988888777777777777664

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=98.99  E-value=1.7e-09  Score=82.20  Aligned_cols=109  Identities=19%  Similarity=0.327  Sum_probs=72.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC-----CCceEEeccccccccc----chhhhhCCCCCC--CcccchhhHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS-----KEAMVRIDMSEYMEKH----TVSKFFGSPPGY--VGFENGGQLTEAVRH   87 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~-----~~~~~~~~~~~~~~~~----~~~~~~~~~~~~--~~~~~~~~~~~~~~~   87 (287)
                      .++++||+|+|||++++.++..+...     ..+++.+++.......    .+...++.....  ........+.+.+..
T Consensus         6 ~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~~   85 (131)
T PF13401_consen    6 ILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDALDR   85 (131)
T ss_dssp             -EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHHH
T ss_pred             ccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHHh
Confidence            69999999999999999999987421     4566777776555322    223333333222  111112345667777


Q ss_pred             CCcEEEEEcCcccc-cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCC
Q 047225           88 RPHSVILFDEIEKA-HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIG  140 (287)
Q Consensus        88 ~~~~il~iDeid~~-~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~  140 (287)
                      ....+|+|||+|.+ +....+.|..+++.             .++.+|+++.+.
T Consensus        86 ~~~~~lviDe~~~l~~~~~l~~l~~l~~~-------------~~~~vvl~G~~~  126 (131)
T PF13401_consen   86 RRVVLLVIDEADHLFSDEFLEFLRSLLNE-------------SNIKVVLVGTPE  126 (131)
T ss_dssp             CTEEEEEEETTHHHHTHHHHHHHHHHTCS-------------CBEEEEEEESST
T ss_pred             cCCeEEEEeChHhcCCHHHHHHHHHHHhC-------------CCCeEEEEEChh
Confidence            77679999999999 98899999888883             245677777663

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=98.98  E-value=8.4e-09  Score=95.40  Aligned_cols=195  Identities=19%  Similarity=0.188  Sum_probs=126.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc-------CCCCceEEecccccccccchhh-hhCCCCC-CCcccchh-hHHH-HH--
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF-------GSKEAMVRIDMSEYMEKHTVSK-FFGSPPG-YVGFENGG-QLTE-AV--   85 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~-------~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~-~~~~~~~~-~~~~-~~--   85 (287)
                      .+++.|-||||||.++..+-..+.       -+...++.+|.........+.. ++..-.+ ..++..+- .+.. +.  
T Consensus       424 ~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~~~  503 (767)
T KOG1514|consen  424 CMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEKIWEALSGERVTWDAALEALNFRFTVP  503 (767)
T ss_pred             eEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHHHHHhcccCcccHHHHHHHHHHhhccC
Confidence            699999999999999999888774       2346667777766655433221 1111111 11111111 1111 11  


Q ss_pred             -HhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           86 -RHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        86 -~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                       ......||+|||+|.+-..-|+.|..++++.....        +..+||+.+|.-.-                    .+
T Consensus       504 k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~--------sKLvvi~IaNTmdl--------------------PE  555 (767)
T KOG1514|consen  504 KPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKN--------SKLVVIAIANTMDL--------------------PE  555 (767)
T ss_pred             CCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCC--------CceEEEEecccccC--------------------HH
Confidence             11334799999999999899999999999854443        35566666664211                    12


Q ss_pred             hcCChhHHhccCce-EEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          165 RRFRPEFLNRIDEV-IVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       165 ~~~~~~l~~r~~~~-i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                      +.|....-+|++.. +.|.|++..++.+|+...|...          -.+..++++.++..-..-.+++|....++.++.
T Consensus       556 r~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~----------~~f~~~aielvarkVAavSGDaRraldic~RA~  625 (767)
T KOG1514|consen  556 RLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGL----------DAFENKAIELVARKVAAVSGDARRALDICRRAA  625 (767)
T ss_pred             HHhccchhhhccceeeecCCCCHHHHHHHHHHhhcch----------hhcchhHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            23444566888755 9999999999999997776542          246788888888765555666777777777777


Q ss_pred             HHHHHHHH
Q 047225          244 EDNLAEII  251 (287)
Q Consensus       244 ~~~~~~~~  251 (287)
                      ..+-.+..
T Consensus       626 Eia~~~~~  633 (767)
T KOG1514|consen  626 EIAEERNV  633 (767)
T ss_pred             HHhhhhcc
Confidence            76665444

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.95  E-value=4.4e-08  Score=90.60  Aligned_cols=75  Identities=20%  Similarity=0.191  Sum_probs=51.1

Q ss_pred             hcCChhHHhccC-ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          165 RRFRPEFLNRID-EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       165 ~~~~~~l~~r~~-~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                      ..|+++++.... ..|.|.|....-+++.+...+.......... ....-..++++.|+..+.      +|+|.+|..+-
T Consensus       193 ~L~~~~il~~~~i~~I~FNpIa~T~mkKaL~rI~~~E~~~~~~~-~~~p~~~~~l~~I~~~s~------GDIRsAIn~LQ  265 (519)
T PF03215_consen  193 RLFPKEILNHPGITRIKFNPIAPTFMKKALKRILKKEARSSSGK-NKVPDKQSVLDSIAESSN------GDIRSAINNLQ  265 (519)
T ss_pred             hccCHHHHhCCCceEEEecCCCHHHHHHHHHHHHHHHhhhhcCC-ccCCChHHHHHHHHHhcC------chHHHHHHHHH
Confidence            367888887654 5599999999999999998887654433211 112223456888887653      68999988554


Q ss_pred             HHH
Q 047225          244 EDN  246 (287)
Q Consensus       244 ~~~  246 (287)
                      .-+
T Consensus       266 f~~  268 (519)
T PF03215_consen  266 FWC  268 (519)
T ss_pred             HHh
Confidence            433

>PRK06921 hypothetical protein; Provisional

Probab=98.93  E-value=4.1e-09  Score=89.82  Aligned_cols=104  Identities=19%  Similarity=0.228  Sum_probs=65.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCC-CCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGS-KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iD   96 (287)
                      .+++|+||+|+|||+|+.++++.+... +...++++..+.....  ...+         .........+...  .+|+||
T Consensus       118 ~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l--~~~~---------~~~~~~~~~~~~~--dlLiID  184 (266)
T PRK06921        118 NSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDL--KDDF---------DLLEAKLNRMKKV--EVLFID  184 (266)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHH--HHHH---------HHHHHHHHHhcCC--CEEEEe
Confidence            369999999999999999999998655 5666777664433211  1101         0001223334344  499999


Q ss_pred             Cccc-------ccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhh
Q 047225           97 EIEK-------AHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVI  144 (287)
Q Consensus        97 eid~-------~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~  144 (287)
                      |++.       .+.-.+..|+.+++.+...          +..+|+|||..+..+
T Consensus       185 Dl~~~~~g~e~~t~~~~~~lf~iin~R~~~----------~k~tIitsn~~~~el  229 (266)
T PRK06921        185 DLFKPVNGKPRATEWQIEQMYSVLNYRYLN----------HKPILISSELTIDEL  229 (266)
T ss_pred             ccccccCCCccCCHHHHHHHHHHHHHHHHC----------CCCEEEECCCCHHHH
Confidence            9943       3444566788888764221          124788999876544

>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]

Probab=98.93  E-value=1.1e-10  Score=105.88  Aligned_cols=241  Identities=14%  Similarity=0.145  Sum_probs=129.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccch-hhhhCCCCCCCcccchhhH--HHHHHhCCcEEEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV-SKFFGSPPGYVGFENGGQL--TEAVRHRPHSVIL   94 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~il~   94 (287)
                      .|++|+|.||||||...+.+++....   .++  ..+.-...-.+ ......+.+.      .|.  ..++-....+|++
T Consensus       483 invLL~GDPGTaKSQFLKY~eK~s~R---AV~--tTGqGASavGLTa~v~KdPvtr------EWTLEaGALVLADkGvCl  551 (854)
T KOG0477|consen  483 INVLLLGDPGTAKSQFLKYAEKTSPR---AVF--TTGQGASAVGLTAYVRKDPVTR------EWTLEAGALVLADKGVCL  551 (854)
T ss_pred             eeEEEecCCCccHHHHHHHHHhcCcc---eeE--eccCCccccceeEEEeeCCccc------eeeeccCeEEEccCceEE
Confidence            47999999999999999999887521   111  11110000000 0000011000      111  1234445668999


Q ss_pred             EcCcccccHHHHHHHHHhhcCceeecCC-Cceeec-cceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHH
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDL-KNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFL  172 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~-~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  172 (287)
                      |||+|+|...-...+.+.|++..+.+++ |....+ ..|.+|+++||-......     ...+.+-+      .+..+++
T Consensus       552 IDEFDKMndqDRtSIHEAMEQQSISISKAGIVtsLqArctvIAAanPigGRY~~-----s~tFaqNV------~ltePIl  620 (854)
T KOG0477|consen  552 IDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARCTVIAAANPIGGRYNP-----SLTFAQNV------DLTEPIL  620 (854)
T ss_pred             eehhhhhcccccchHHHHHHhcchhhhhhhHHHHHHhhhhhheecCCCCCccCC-----ccchhhcc------ccccchh
Confidence            9999999999889999999999888876 654444 478999999994433211     11111211      4567899


Q ss_pred             hccCceEEe-CCCCHHHHHHHHHHHHHHHHHHHHhcC--cEE----------EeChhHHHHHHHhccCCCCCchhHHHHH
Q 047225          173 NRIDEVIVF-RQLNKMQLMEIVDIMLKEIYERLEAKN--MEL----------TVTHTFKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       173 ~r~~~~i~~-~~~~~~~~~~il~~~l~~~~~~~~~~~--~~~----------~i~~~~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                      +|||....+ ...+..+-.++.+..+......-....  -.+          .++.+++.....++-.      -++-.+
T Consensus       621 SRFDiLcVvkD~vd~~~De~lA~fVV~Sh~r~hp~~~~~~~~~e~~~~~~v~~ipq~lLrkyI~yar~------~v~PkL  694 (854)
T KOG0477|consen  621 SRFDILCVVKDTVDPVQDEKLAKFVVGSHVRHHPSNKEEDGLEEPQMPARVEPIPQELLRKYIIYARE------KVRPKL  694 (854)
T ss_pred             hhcceeeeeecccCchhHHHHHHHHHHhHhhcCCcccccCcccccccccccccChHHHHHHHHHHHHH------hccccc
Confidence            999876444 344443333344333332211111110  001          1333333332222110      011111


Q ss_pred             HHHHHHHHHHH--HHhccCCCCCEEEEEEcCCccEEEEEecCCcccccc
Q 047225          240 GRLLEDNLAEI--ILTGYIQVGDSVTMDCDSGGNVIMYRHRNGSMTVCA  286 (287)
Q Consensus       240 ~~~~~~~~~~~--~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~  286 (287)
                      ...=+...+..  .+..+....+++.|+++.-++++..+++-++|+++.
T Consensus       695 ~q~d~~K~s~vya~lRkES~~tGs~piTvRHieS~ir~seAhArm~Lr~  743 (854)
T KOG0477|consen  695 NQMDMDKISSVYADLRKESMATGSLPITVRHIESMIRMSEAHARMHLRE  743 (854)
T ss_pred             ccccHHHHHHHHHHHHhhccccCCchhhHHHHHHHHHHHHHHHHHHHHh
Confidence            11111112222  234666668889999998888888888878877764

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=98.90  E-value=1.2e-07  Score=83.34  Aligned_cols=133  Identities=15%  Similarity=0.222  Sum_probs=78.1

Q ss_pred             cEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH----h
Q 047225           90 HSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR----R  165 (287)
Q Consensus        90 ~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~----~  165 (287)
                      +-|++|||+|+++++....++..+..         ..+.+++.+|++.++.             .+...+.....    .
T Consensus       173 ~iViiIDdLDR~~~~~i~~~l~~ik~---------~~~~~~i~~Il~~D~~-------------~l~~ai~~~~~~~~~~  230 (325)
T PF07693_consen  173 RIVIIIDDLDRCSPEEIVELLEAIKL---------LLDFPNIIFILAFDPE-------------ILEKAIEKNYGEGFDE  230 (325)
T ss_pred             eEEEEEcchhcCCcHHHHHHHHHHHH---------hcCCCCeEEEEEecHH-------------HHHHHHHhhcCccccc
Confidence            46999999999999866666665553         1123678899988752             11222222111    1


Q ss_pred             cCChhHHhcc-CceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEe----------ChhHHHHHHHhccCCCCCchh
Q 047225          166 RFRPEFLNRI-DEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTV----------THTFKKKLIEEGYNPSYGARP  234 (287)
Q Consensus       166 ~~~~~l~~r~-~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i----------~~~~~~~l~~~~~~~~~~~r~  234 (287)
                      ....++++++ +..+.+|+++..++...+...+...............+          ....+..+....-....++|.
T Consensus       231 ~~~~~yLeKiiq~~~~lP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~npR~  310 (325)
T PF07693_consen  231 IDGREYLEKIIQVPFSLPPPSPSDLERYLNELLESLESETNESDDIETLSNSASNENLRIDEILNDIIDSIDFSIGNPRD  310 (325)
T ss_pred             ccHHHHHHhhcCeEEEeCCCCHHHHHHHHHHHHHHhhhccccccchhhhhhcchhhhhhHHHHHHHHHHhhhhcCCCHHH
Confidence            2335677776 34499999999999888877766554433221110011          123333333322234568899


Q ss_pred             HHHHHHHHHH
Q 047225          235 LRRAIGRLLE  244 (287)
Q Consensus       235 l~~~i~~~~~  244 (287)
                      +++.++....
T Consensus       311 ikr~iN~~~~  320 (325)
T PF07693_consen  311 IKRFINSLSL  320 (325)
T ss_pred             HHHHHHHHHH
Confidence            9999986543

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 [].

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.88  E-value=3.5e-09  Score=89.54  Aligned_cols=105  Identities=23%  Similarity=0.392  Sum_probs=70.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||+|+.++++.+...+..+..++..+.....  ...+..     + .....+...+...+  +|+|||+
T Consensus       107 nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~~L--k~~~~~-----~-~~~~~l~~~l~~~d--lLIiDDl  176 (254)
T COG1484         107 NLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKL--KAAFDE-----G-RLEEKLLRELKKVD--LLIIDDI  176 (254)
T ss_pred             cEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHH--HHHHhc-----C-chHHHHHHHhhcCC--EEEEecc
Confidence            699999999999999999999997556788888887765432  111110     0 01134555565555  9999999


Q ss_pred             cccc--HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhh
Q 047225           99 EKAH--RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVI  144 (287)
Q Consensus        99 d~~~--~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~  144 (287)
                      -..+  ....+.+++++..+....          .. |+|+|.+...+
T Consensus       177 G~~~~~~~~~~~~~q~I~~r~~~~----------~~-~~tsN~~~~~~  213 (254)
T COG1484         177 GYEPFSQEEADLLFQLISRRYESR----------SL-IITSNLSFGEW  213 (254)
T ss_pred             cCccCCHHHHHHHHHHHHHHHhhc----------cc-eeecCCChHHH
Confidence            9754  445566777776543222          13 99999875443

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=98.84  E-value=2.5e-08  Score=83.13  Aligned_cols=185  Identities=23%  Similarity=0.341  Sum_probs=92.0

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccc-------------hhhhhCCC
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT-------------VSKFFGSP   69 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~   69 (287)
                      +++++..+...  +..+++++||.|+|||++++.+...+...+...++++.........             +...++..
T Consensus         8 l~~l~~~l~~~--~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   85 (234)
T PF01637_consen    8 LEKLKELLESG--PSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNESSLRSFIEETSLADELSEALGIS   85 (234)
T ss_dssp             HHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHHHHHHHHHHHHHHCHCHHHHHHH
T ss_pred             HHHHHHHHHhh--cCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhhHHHHHHHHHHHHHHHHHHHhhh
Confidence            34444444432  1236999999999999999999998844333333333322111110             00111110


Q ss_pred             -CC-----------CCcccchhhHHHHHHhCC-cEEEEEcCccccc------HHHHHHHHHhhcCceeecCCCceeeccc
Q 047225           70 -PG-----------YVGFENGGQLTEAVRHRP-HSVILFDEIEKAH------RDVLNVMLQLLDDGRVTDGKGQTVDLKN  130 (287)
Q Consensus        70 -~~-----------~~~~~~~~~~~~~~~~~~-~~il~iDeid~~~------~~~~~~L~~~l~~~~~~~~~g~~i~~~~  130 (287)
                       +.           .........+.+.+.... ..+|+|||++.+.      ......|..+++....         ..+
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~  156 (234)
T PF01637_consen   86 IPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLS---------QQN  156 (234)
T ss_dssp             CCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH-------------TT
T ss_pred             cccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccc---------cCC
Confidence             00           011122234455555432 3799999999988      5667777777765111         123


Q ss_pred             eEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcE
Q 047225          131 TIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNME  210 (287)
Q Consensus       131 ~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~  210 (287)
                      ..+|+++....-                ... +... ..++..|+.. +.++|++.++..+++.....+.        ..
T Consensus       157 ~~~v~~~S~~~~----------------~~~-~~~~-~~~~~~~~~~-~~l~~l~~~e~~~~~~~~~~~~--------~~  209 (234)
T PF01637_consen  157 VSIVITGSSDSL----------------MEE-FLDD-KSPLFGRFSH-IELKPLSKEEAREFLKELFKEL--------IK  209 (234)
T ss_dssp             EEEEEEESSHHH----------------HHH-TT-T-TSTTTT---E-EEE----HHHHHHHHHHHHHCC----------
T ss_pred             ceEEEECCchHH----------------HHH-hhcc-cCccccccce-EEEeeCCHHHHHHHHHHHHHHh--------hc
Confidence            334444432110                000 0011 2457788855 9999999999999997765432        01


Q ss_pred             EEeChhHHHHHHHhc
Q 047225          211 LTVTHTFKKKLIEEG  225 (287)
Q Consensus       211 ~~i~~~~~~~l~~~~  225 (287)
                      +..+++.++.+....
T Consensus       210 ~~~~~~~~~~i~~~~  224 (234)
T PF01637_consen  210 LPFSDEDIEEIYSLT  224 (234)
T ss_dssp             ----HHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHh
Confidence            245888888887764

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

>PRK09183 transposase/IS protein; Provisional

Probab=98.84  E-value=1.5e-08  Score=86.07  Aligned_cols=105  Identities=21%  Similarity=0.259  Sum_probs=64.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||+++.+++......+..+.++++.+..........-    +.     ...+.... .....+++|||+
T Consensus       104 ~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l~~~l~~a~~~----~~-----~~~~~~~~-~~~~dlLiiDdl  173 (259)
T PRK09183        104 NIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQ----GR-----YKTTLQRG-VMAPRLLIIDEI  173 (259)
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHHHHHHHHHHHC----Cc-----HHHHHHHH-hcCCCEEEEccc
Confidence            699999999999999999988765555666666655443221100000    00     01122111 123359999999


Q ss_pred             ccc--cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhh
Q 047225           99 EKA--HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVI  144 (287)
Q Consensus        99 d~~--~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~  144 (287)
                      ...  +....+.|+++++.+...           ..+|+|||.+...+
T Consensus       174 g~~~~~~~~~~~lf~li~~r~~~-----------~s~iiTsn~~~~~w  210 (259)
T PRK09183        174 GYLPFSQEEANLFFQVIAKRYEK-----------GSMILTSNLPFGQW  210 (259)
T ss_pred             ccCCCChHHHHHHHHHHHHHHhc-----------CcEEEecCCCHHHH
Confidence            964  445666788888753211           13788999986654

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=98.84  E-value=7.1e-08  Score=82.41  Aligned_cols=129  Identities=18%  Similarity=0.242  Sum_probs=81.8

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc--cchhhhhCCCCC-CCcccchhhHHHHHHh----CCc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK--HTVSKFFGSPPG-YVGFENGGQLTEAVRH----RPH   90 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~-~~~~~~~~~~~~~~~~----~~~   90 (287)
                      +.++|+||.|+||+++|..+|..+.-...+   -.|..+...  ..+..+.....+ ..+.++.+.+.+.+..    +++
T Consensus        20 HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~---~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~p~e~~~   96 (290)
T PRK05917         20 SAIILHGQDLSNLSARAYELASLILKETSP---EAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIKKQIWIHPYESPY   96 (290)
T ss_pred             eeEeeECCCCCcHHHHHHHHHHHHhCCCCc---cHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHHHHHhhCccCCCc
Confidence            459999999999999999999988432111   011100000  000001111111 1233333445454443    445


Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChh
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      .|++||++|++..+.+++|++.+|+.           +++++||+.|+...                        .+.|.
T Consensus        97 kv~ii~~ad~mt~~AaNaLLK~LEEP-----------p~~~~fiL~~~~~~------------------------~ll~T  141 (290)
T PRK05917         97 KIYIIHEADRMTLDAISAFLKVLEDP-----------PQHGVIILTSAKPQ------------------------RLPPT  141 (290)
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhcC-----------CCCeEEEEEeCChh------------------------hCcHH
Confidence            79999999999999999999999983           23556776665432                        45688


Q ss_pred             HHhccCceEEeCCCC
Q 047225          171 FLNRIDEVIVFRQLN  185 (287)
Q Consensus       171 l~~r~~~~i~~~~~~  185 (287)
                      +.||| ..+.|+|+.
T Consensus       142 I~SRc-q~~~~~~~~  155 (290)
T PRK05917        142 IRSRS-LSIHIPMEE  155 (290)
T ss_pred             HHhcc-eEEEccchh
Confidence            99999 999999875

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

Probab=98.82  E-value=1.2e-08  Score=91.60  Aligned_cols=179  Identities=22%  Similarity=0.324  Sum_probs=103.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc------cchhhhhCCCCCCCcccchhhHHHHHHhCCcEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK------HTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSV   92 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   92 (287)
                      .++|+||||||||.+||.+...+.....+++  |..+..+.      ..+..+|.+..        ..-...=......|
T Consensus       258 GiLLyGPPGTGKTLiARqIGkMLNArePKIV--NGPeIL~KYVGeSE~NvR~LFaDAE--------eE~r~~g~~SgLHI  327 (744)
T KOG0741|consen  258 GILLYGPPGTGKTLIARQIGKMLNAREPKIV--NGPEILNKYVGESEENVRKLFADAE--------EEQRRLGANSGLHI  327 (744)
T ss_pred             eEEEECCCCCChhHHHHHHHHHhcCCCCccc--CcHHHHHHhhcccHHHHHHHHHhHH--------HHHHhhCccCCceE
Confidence            4999999999999999999999965444433  32222211      12222221100        00000000122359


Q ss_pred             EEEcCccc-------------ccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHH
Q 047225           93 ILFDEIEK-------------AHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGV  159 (287)
Q Consensus        93 l~iDeid~-------------~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~  159 (287)
                      ++|||+|-             ....+.+.|+.-|+. ..        .+.|+.+|.-||...-                 
T Consensus       328 IIFDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDG-Ve--------qLNNILVIGMTNR~Dl-----------------  381 (744)
T KOG0741|consen  328 IIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDG-VE--------QLNNILVIGMTNRKDL-----------------  381 (744)
T ss_pred             EEehhhHHHHHhcCCCCCCCCccHHHHHHHHHhccc-HH--------hhhcEEEEeccCchhh-----------------
Confidence            99999994             344577788877763 11        1357788888887421                 


Q ss_pred             HHHHHhcCChhHH--hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHH
Q 047225          160 AEELRRRFRPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRR  237 (287)
Q Consensus       160 ~~~~~~~~~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~  237 (287)
                             ++++|+  .|+--.+.+.-|++....+|++.+-.++...-   .+.-+++   ++.|+..  ..+++.-++.-
T Consensus       382 -------IDEALLRPGRlEVqmEIsLPDE~gRlQIl~IHT~rMre~~---~l~~dVd---l~elA~l--TKNfSGAEleg  446 (744)
T KOG0741|consen  382 -------IDEALLRPGRLEVQMEISLPDEKGRLQILKIHTKRMRENN---KLSADVD---LKELAAL--TKNFSGAELEG  446 (744)
T ss_pred             -------HHHHhcCCCceEEEEEEeCCCccCceEEEEhhhhhhhhcC---CCCCCcC---HHHHHHH--hcCCchhHHHH
Confidence                   233444  78866699999999999999876655443221   1122333   3344443  33455567777


Q ss_pred             HHHHHHHHHHH
Q 047225          238 AIGRLLEDNLA  248 (287)
Q Consensus       238 ~i~~~~~~~~~  248 (287)
                      .+..+...++-
T Consensus       447 lVksA~S~A~n  457 (744)
T KOG0741|consen  447 LVKSAQSFAMN  457 (744)
T ss_pred             HHHHHHHHHHH
Confidence            77665555543

>KOG0482 consensus DNA replication licensing factor, MCM7 component [Replication, recombination and repair]

Probab=98.81  E-value=1.1e-08  Score=91.37  Aligned_cols=210  Identities=14%  Similarity=0.170  Sum_probs=119.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHH--HHHHhCCcEEEEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLT--EAVRHRPHSVILF   95 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~il~i   95 (287)
                      -|+||.|.||+.||.|.+.+.+..+..  .+.+-..|.-.. .+ .....++..  |    +...  .++-....+|.+|
T Consensus       376 INicLmGDPGVAKSQLLkyi~rlapRg--vYTTGrGSSGVG-LT-AAVmkDpvT--g----EM~LEGGALVLAD~GICCI  445 (721)
T KOG0482|consen  376 INICLMGDPGVAKSQLLKYISRLAPRG--VYTTGRGSSGVG-LT-AAVMKDPVT--G----EMVLEGGALVLADGGICCI  445 (721)
T ss_pred             eeEEecCCCchhHHHHHHHHHhcCccc--ceecCCCCCccc-cc-hhhhcCCCC--C----eeEeccceEEEccCceEee
Confidence            479999999999999999998765321  111111110000 00 000000000  0    0011  1333345689999


Q ss_pred             cCcccccHHHHHHHHHhhcCceeecCC-Cceeecc-ceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHh
Q 047225           96 DEIEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDLK-NTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLN  173 (287)
Q Consensus        96 Deid~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  173 (287)
                      ||+|+++..-..++.++|+...+++++ |....++ .+.|++++||-....+..     .+..+-      =.++++|++
T Consensus       446 DEfDKM~e~DRtAIHEVMEQQTISIaKAGI~TtLNAR~sILaAANPayGRYnpr-----rs~e~N------I~LPaALLS  514 (721)
T KOG0482|consen  446 DEFDKMDESDRTAIHEVMEQQTISIAKAGINTTLNARTSILAAANPAYGRYNPR-----RSPEQN------INLPAALLS  514 (721)
T ss_pred             hhhhhhhhhhhHHHHHHHHhhhhhhhhhccccchhhhHHhhhhcCccccccCcc-----cChhHh------cCCcHHHHH
Confidence            999999999999999999999888876 7666664 678888999864433211     111111      158899999


Q ss_pred             ccCce-EEeCCCCHHHHHHHHHH---------------------HHHHHHHHHHhcCcEEEeChhHHHHHHHh-------
Q 047225          174 RIDEV-IVFRQLNKMQLMEIVDI---------------------MLKEIYERLEAKNMELTVTHTFKKKLIEE-------  224 (287)
Q Consensus       174 r~~~~-i~~~~~~~~~~~~il~~---------------------~l~~~~~~~~~~~~~~~i~~~~~~~l~~~-------  224 (287)
                      |||.. +....|+.+.-..+.++                     .+.++....+.  ..+.++++..+++...       
T Consensus       515 RFDll~Li~D~pdrd~D~~LA~HiTyVH~H~~qp~~~fepl~~~~mR~yI~~ak~--~~P~vp~~l~dyi~~AYv~~Rre  592 (721)
T KOG0482|consen  515 RFDLLWLIQDRPDRDNDLRLAQHITYVHQHEEQPPLDFEPLDPNLMRRYISLAKR--KNPVVPEALADYITGAYVELRRE  592 (721)
T ss_pred             hhhhhhhhccCCcccchHHHHHHhHhhhccCCCCCccCCCCCHHHHHHHHHHHhh--cCCCCCHHHHHHHHHHHHHHHHH
Confidence            99755 44455554433333321                     22333333332  2467888888888642       


Q ss_pred             ccCC----CCCchhHHHHHHHHHHHHHHHHHH
Q 047225          225 GYNP----SYGARPLRRAIGRLLEDNLAEIIL  252 (287)
Q Consensus       225 ~~~~----~~~~r~l~~~i~~~~~~~~~~~~~  252 (287)
                      +|.+    ..++|.+-.++.  +..++++..+
T Consensus       593 a~~~~~~t~ttpRtLL~IlR--ls~AlarLRl  622 (721)
T KOG0482|consen  593 ARSSKDFTYTTPRTLLGILR--LSTALARLRL  622 (721)
T ss_pred             hhccCCCcccCHHHHHHHHH--HHHHHHHhhh
Confidence            2322    456666665555  3344444433

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.76  E-value=4.2e-08  Score=85.19  Aligned_cols=105  Identities=21%  Similarity=0.264  Sum_probs=66.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||+|||||+|+.++++.+...+.....+.+.++....  ...++.       .......+.+...+  +|+|||+
T Consensus       158 gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~~l--k~~~~~-------~~~~~~l~~l~~~d--lLiIDDi  226 (306)
T PRK08939        158 GLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIREL--KNSISD-------GSVKEKIDAVKEAP--VLMLDDI  226 (306)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHHHH--HHHHhc-------CcHHHHHHHhcCCC--EEEEecC
Confidence            699999999999999999999997666777777766544321  111111       01124445555555  9999999


Q ss_pred             ccc--cHHHHH-HHHHhhcCceeecCCCceeeccceEEEEeecCCchhh
Q 047225           99 EKA--HRDVLN-VMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVI  144 (287)
Q Consensus        99 d~~--~~~~~~-~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~  144 (287)
                      ...  ++-..+ .|..+++.+..          .+...|+|||.....+
T Consensus       227 G~e~~s~~~~~~ll~~Il~~R~~----------~~~~ti~TSNl~~~el  265 (306)
T PRK08939        227 GAEQMSSWVRDEVLGVILQYRMQ----------EELPTFFTSNFDFDEL  265 (306)
T ss_pred             CCccccHHHHHHHHHHHHHHHHH----------CCCeEEEECCCCHHHH
Confidence            854  333333 34445554311          1236999999875543

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=98.76  E-value=4.4e-07  Score=74.90  Aligned_cols=197  Identities=20%  Similarity=0.141  Sum_probs=123.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhh---hhCCCCCCC----cccchhhHHHHHHhCCc-
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSK---FFGSPPGYV----GFENGGQLTEAVRHRPH-   90 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~----~~~~~~~~~~~~~~~~~-   90 (287)
                      .+.++|+.|+|||.++|++...+..+....++++.....+......   -+...+...    .....+.+......+.+ 
T Consensus        53 ~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~al~~~g~r~  132 (269)
T COG3267          53 ILAVTGEVGSGKTVLRRALLASLNEDQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAALVKKGKRP  132 (269)
T ss_pred             eEEEEecCCCchhHHHHHHHHhcCCCceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHHHHHhCCCC
Confidence            6899999999999999977777754434444555544444322211   122211111    11112345556666666 


Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChh
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      -++++||++.+..+..+.|+.+.+--.-.      .  ....++..+.|.-...                  ++..--.+
T Consensus       133 v~l~vdEah~L~~~~le~Lrll~nl~~~~------~--~~l~ivL~Gqp~L~~~------------------lr~~~l~e  186 (269)
T COG3267         133 VVLMVDEAHDLNDSALEALRLLTNLEEDS------S--KLLSIVLIGQPKLRPR------------------LRLPVLRE  186 (269)
T ss_pred             eEEeehhHhhhChhHHHHHHHHHhhcccc------c--CceeeeecCCcccchh------------------hchHHHHh
Confidence            79999999999999999998887731100      0  0134555555432211                  11111146


Q ss_pred             HHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHHHHH
Q 047225          171 FLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEI  250 (287)
Q Consensus       171 l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~~~~  250 (287)
                      +-.|++..|.++|++.++....++..++..      .....-++++++..+....       +.+.+.++..+..++...
T Consensus       187 ~~~R~~ir~~l~P~~~~~t~~yl~~~Le~a------~~~~~l~~~~a~~~i~~~s-------qg~P~lin~~~~~Al~~a  253 (269)
T COG3267         187 LEQRIDIRIELPPLTEAETGLYLRHRLEGA------GLPEPLFSDDALLLIHEAS-------QGIPRLINNLATLALDAA  253 (269)
T ss_pred             hhheEEEEEecCCcChHHHHHHHHHHHhcc------CCCcccCChhHHHHHHHHh-------ccchHHHHHHHHHHHHHH
Confidence            778996669999999999999998888764      1223568899999998764       346677887777777666


Q ss_pred             HHhc
Q 047225          251 ILTG  254 (287)
Q Consensus       251 ~~~~  254 (287)
                      +.-+
T Consensus       254 ~~a~  257 (269)
T COG3267         254 YSAG  257 (269)
T ss_pred             HHcC
Confidence            5543

>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]

Probab=98.75  E-value=3.2e-08  Score=89.71  Aligned_cols=158  Identities=16%  Similarity=0.133  Sum_probs=100.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCccc---chhhHHHHHHhCCcEEEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE---NGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~il~   94 (287)
                      .|++++|.|.+.||.|.|.+.+.-+.   .+.  +.+.-+  +    -.|..+..+.-.   +-+.-..++-...++|+|
T Consensus       335 INiLlvGDPSvAKSQLLRyVLntApl---AI~--TTGRGS--S----GVGLTAAVTtD~eTGERRLEAGAMVLADRGVVC  403 (818)
T KOG0479|consen  335 INILLVGDPSVAKSQLLRYVLNTAPL---AIA--TTGRGS--S----GVGLTAAVTTDQETGERRLEAGAMVLADRGVVC  403 (818)
T ss_pred             eeEEEecCchHHHHHHHHHHHhcccc---ccc--ccCCCC--C----CccceeEEeeccccchhhhhcCceEEccCceEE
Confidence            37999999999999999999876521   110  000000  0    000000000000   001123355556778999


Q ss_pred             EcCcccccHHHHHHHHHhhcCceeecCC-Cceeecc-ceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHH
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDLK-NTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFL  172 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  172 (287)
                      |||||+|+.--.-++.++|+++.+++++ |..-.++ .|.|++++||-...        |.......++.   .++..|+
T Consensus       404 IDEFDKMsDiDRvAIHEVMEQqtVTIaKAGIHasLNARCSVlAAANPvyG~--------Yd~~k~P~eNI---gLpDSLL  472 (818)
T KOG0479|consen  404 IDEFDKMSDIDRVAIHEVMEQQTVTIAKAGIHASLNARCSVLAAANPVYGQ--------YDQSKTPMENI---GLPDSLL  472 (818)
T ss_pred             ehhcccccchhHHHHHHHHhcceEEeEeccchhhhccceeeeeecCccccc--------cCCCCChhhcc---CCcHHHH
Confidence            9999999998889999999999999987 7766665 79999999996543        22222222221   5778999


Q ss_pred             hccCce-EEeCCCCHHHHHHHHHHHH
Q 047225          173 NRIDEV-IVFRQLNKMQLMEIVDIML  197 (287)
Q Consensus       173 ~r~~~~-i~~~~~~~~~~~~il~~~l  197 (287)
                      +|||.. |.+...+.+--..|..+.|
T Consensus       473 SRFDLlFv~lD~~d~~~D~~iSeHVL  498 (818)
T KOG0479|consen  473 SRFDLLFVVLDDIDADIDRMISEHVL  498 (818)
T ss_pred             hhhcEEEEEeccccchHHHHHHHHHH
Confidence            999866 6666666555455554444

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.74  E-value=2.5e-07  Score=83.67  Aligned_cols=190  Identities=15%  Similarity=0.193  Sum_probs=96.2

Q ss_pred             CCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc-cccccc---cchhhhhCCCCCCCc-ccchhhHHHHH-
Q 047225           12 DPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM-SEYMEK---HTVSKFFGSPPGYVG-FENGGQLTEAV-   85 (287)
Q Consensus        12 ~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~-~~~~~~---~~~~~~~~~~~~~~~-~~~~~~~~~~~-   85 (287)
                      .|+-+...++|+||+||||||+++.|++.+   +..++.+.- ......   .......+.  .+.. ...-..+.... 
T Consensus       105 ~~~l~~~iLLltGPsGcGKSTtvkvLskel---g~~~~Ew~Npi~~~~~~~~h~~t~~~~~--~~~s~L~~fesFler~~  179 (634)
T KOG1970|consen  105 TPKLGSRILLLTGPSGCGKSTTVKVLSKEL---GYQLIEWSNPINLKEPENLHNETSFLMF--PYQSQLAVFESFLLRAT  179 (634)
T ss_pred             ccCCCceEEEEeCCCCCCchhHHHHHHHhh---CceeeeecCCccccccccccccchhccc--chhhHHHHHHHHHHHHH
Confidence            455555579999999999999999999999   444443321 100000   000000000  0000 00000011111 


Q ss_pred             -----Hh------CCcEEEEEcCcccccHH-----HHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhcc
Q 047225           86 -----RH------RPHSVILFDEIEKAHRD-----VLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESI  149 (287)
Q Consensus        86 -----~~------~~~~il~iDeid~~~~~-----~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~  149 (287)
                           ..      +...+|++||+......     .++.|..+...|.++.            |++.|+.........  
T Consensus       180 kyg~l~~~g~~~~~~~~liLveDLPn~~~~d~~~~f~evL~~y~s~g~~Pl------------If~iTd~~~~g~nnq--  245 (634)
T KOG1970|consen  180 KYGSLQMSGDDLRTDKKLILVEDLPNQFYRDDSETFREVLRLYVSIGRCPL------------IFIITDSLSNGNNNQ--  245 (634)
T ss_pred             hhchhhhcccccccCceEEEeeccchhhhhhhHHHHHHHHHHHHhcCCCcE------------EEEEeccccCCCcch--
Confidence                 00      11248999999855332     3444554455444332            333333322111111  


Q ss_pred             CCchHHHHHHHHHHHhcCChhHH--hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccC
Q 047225          150 LGSDQMERGVAEELRRRFRPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYN  227 (287)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~  227 (287)
                        +.            .|+.++.  -|+ ..|.|.|....-+++.+...+........  +.++.. ...++.++..+- 
T Consensus       246 --~r------------lf~~d~q~~~ri-~~IsFNPIa~T~MKK~L~ric~~e~~~~s--~~k~~~-~~~v~~i~~~s~-  306 (634)
T KOG1970|consen  246 --DR------------LFPKDIQEEPRI-SNISFNPIAPTIMKKFLKRICRIEANKKS--GIKVPD-TAEVELICQGSG-  306 (634)
T ss_pred             --hh------------hchhhhhhccCc-ceEeecCCcHHHHHHHHHHHHHHhccccc--CCcCch-hHHHHHHHHhcC-
Confidence              11            2333333  344 66999999999999999888876544432  112222 334444544432 


Q ss_pred             CCCCchhHHHHHHHHHH
Q 047225          228 PSYGARPLRRAIGRLLE  244 (287)
Q Consensus       228 ~~~~~r~l~~~i~~~~~  244 (287)
                           +++|.+|+.+-.
T Consensus       307 -----GDIRsAInsLQl  318 (634)
T KOG1970|consen  307 -----GDIRSAINSLQL  318 (634)
T ss_pred             -----ccHHHHHhHhhh
Confidence                 689999985443

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=98.74  E-value=3.5e-07  Score=77.95  Aligned_cols=200  Identities=16%  Similarity=0.188  Sum_probs=111.4

Q ss_pred             hhhhhccCCCCCCCc-EEEEEeccCCChHHHHHHHHHHHhcCC------CCceEEeccccccccc----chhhhhCCCCC
Q 047225            3 LERARVGIRDPNRPI-SSFLFTGPTGVGKTELANALAFEYFGS------KEAMVRIDMSEYMEKH----TVSKFFGSPPG   71 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~-~~ill~Gp~GtGKT~la~~la~~l~~~------~~~~~~~~~~~~~~~~----~~~~~~~~~~~   71 (287)
                      ++++...+..|.+.. ++++|+|++|.|||++++.........      ..+++.+.+....+..    .+...+|.+..
T Consensus        46 L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~  125 (302)
T PF05621_consen   46 LDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPYR  125 (302)
T ss_pred             HHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcccC
Confidence            444555556665444 469999999999999999998876321      2356666654433332    22334444422


Q ss_pred             CCc--ccchhhHHHHHHhCCcEEEEEcCcccc-------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCch
Q 047225           72 YVG--FENGGQLTEAVRHRPHSVILFDEIEKA-------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDS  142 (287)
Q Consensus        72 ~~~--~~~~~~~~~~~~~~~~~il~iDeid~~-------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~  142 (287)
                      ...  ......+...++..+-.+|+|||++.+       ...+.+.|..+-++-.+             .+|+.+...+.
T Consensus       126 ~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~i-------------piV~vGt~~A~  192 (302)
T PF05621_consen  126 PRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQI-------------PIVGVGTREAY  192 (302)
T ss_pred             CCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCC-------------CeEEeccHHHH
Confidence            211  111233456777777789999999975       22345555555444222             24444433222


Q ss_pred             hhhhhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHH-HHHHHHHHHHHHHHHHHHh-cCcEEEeChhHHHH
Q 047225          143 VIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKM-QLMEIVDIMLKEIYERLEA-KNMELTVTHTFKKK  220 (287)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~-~~~~il~~~l~~~~~~~~~-~~~~~~i~~~~~~~  220 (287)
                      ..              +      .-++++.+|| ..+.+|+-..+ +...++..+    ...+.- +...+ -+.+...+
T Consensus       193 ~a--------------l------~~D~QLa~RF-~~~~Lp~W~~d~ef~~LL~s~----e~~LPLr~~S~l-~~~~la~~  246 (302)
T PF05621_consen  193 RA--------------L------RTDPQLASRF-EPFELPRWELDEEFRRLLASF----ERALPLRKPSNL-ASPELARR  246 (302)
T ss_pred             HH--------------h------ccCHHHHhcc-CCccCCCCCCCcHHHHHHHHH----HHhCCCCCCCCC-CCHHHHHH
Confidence            11              1      2258899999 88888888844 444444333    222221 11112 24566677


Q ss_pred             HHHhccCCCCCchhHHHHHHHHHH
Q 047225          221 LIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       221 l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      |.+.+.   +....+.+.++.+..
T Consensus       247 i~~~s~---G~iG~l~~ll~~aA~  267 (302)
T PF05621_consen  247 IHERSE---GLIGELSRLLNAAAI  267 (302)
T ss_pred             HHHHcC---CchHHHHHHHHHHHH
Confidence            776643   334577777765555

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=98.74  E-value=3.3e-07  Score=79.20  Aligned_cols=140  Identities=13%  Similarity=0.190  Sum_probs=90.7

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcC--------CCCc--eEEecccccccccchhhhhCCCCCCC
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFG--------SKEA--MVRIDMSEYMEKHTVSKFFGSPPGYV   73 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~--------~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~   73 (287)
                      +.++..++. ++-.+.++|+|+.|.||+++++.+++.+.-        ...+  +..++..            |   ...
T Consensus         6 ~~l~~~i~~-~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~------------g---~~i   69 (299)
T PRK07132          6 KFLDNSATQ-NKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIF------------D---KDL   69 (299)
T ss_pred             HHHHHHHHh-CCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccC------------C---CcC
Confidence            334444433 233345889999999999999999998721        1111  1112100            0   001


Q ss_pred             cccchhhHHHHHH-----hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhc
Q 047225           74 GFENGGQLTEAVR-----HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARES  148 (287)
Q Consensus        74 ~~~~~~~~~~~~~-----~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~  148 (287)
                      +.++...+.+.+.     .+++.|++||+++++....+++|++.+++.           ++++.+|+.++.. .      
T Consensus        70 ~vd~Ir~l~~~~~~~~~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEP-----------p~~t~~il~~~~~-~------  131 (299)
T PRK07132         70 SKSEFLSAINKLYFSSFVQSQKKILIIKNIEKTSNSLLNALLKTIEEP-----------PKDTYFLLTTKNI-N------  131 (299)
T ss_pred             CHHHHHHHHHHhccCCcccCCceEEEEecccccCHHHHHHHHHHhhCC-----------CCCeEEEEEeCCh-H------
Confidence            1111122222221     136689999999999999999999999983           2356777766532 1      


Q ss_pred             cCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHH
Q 047225          149 ILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDI  195 (287)
Q Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~  195 (287)
                                       .+.+.+.+|+ ..+.|.|++.+++.+++..
T Consensus       132 -----------------kll~TI~SRc-~~~~f~~l~~~~l~~~l~~  160 (299)
T PRK07132        132 -----------------KVLPTIVSRC-QVFNVKEPDQQKILAKLLS  160 (299)
T ss_pred             -----------------hChHHHHhCe-EEEECCCCCHHHHHHHHHH
Confidence                             3457889999 9999999999999887754

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=98.73  E-value=4.2e-07  Score=80.92  Aligned_cols=142  Identities=18%  Similarity=0.259  Sum_probs=82.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHH-hcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFE-YFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~-l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      |+++.||+|||||+++.+++.. ....+   ..++         ...++..        ......+.+  +...+|+|||
T Consensus       211 Nli~lGp~GTGKThla~~l~~~~a~~sG---~f~T---------~a~Lf~~--------L~~~~lg~v--~~~DlLI~DE  268 (449)
T TIGR02688       211 NLIELGPKGTGKSYIYNNLSPYVILISG---GTIT---------VAKLFYN--------ISTRQIGLV--GRWDVVAFDE  268 (449)
T ss_pred             cEEEECCCCCCHHHHHHHHhHHHHHHcC---CcCc---------HHHHHHH--------HHHHHHhhh--ccCCEEEEEc
Confidence            7999999999999999998876 21111   1111         1111110        001112222  2346999999


Q ss_pred             cccc----cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhh-hccCCchHHHHHHHHHHHhcCChhHH
Q 047225           98 IEKA----HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIAR-ESILGSDQMERGVAEELRRRFRPEFL  172 (287)
Q Consensus        98 id~~----~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~  172 (287)
                      +..+    +.+.+..|...|+.|.+.-+.  .....++-+++.+|.....-.. ...--+..+|+...       ..+|+
T Consensus       269 vgylp~~~~~~~v~imK~yMesg~fsRG~--~~~~a~as~vfvGNi~~~v~~~~~~~~Lf~~lP~~~~-------DsAfl  339 (449)
T TIGR02688       269 VATLKFAKPKELIGILKNYMESGSFTRGD--ETKSSDASFVFLGNVPLTSEHMVKNSDLFSPLPEFMR-------DSAFL  339 (449)
T ss_pred             CCCCcCCchHHHHHHHHHHHHhCceeccc--eeeeeeeEEEEEcccCCcchhhcCcccccccCChhhh-------hhHHH
Confidence            9974    335778899999999887643  2233566777777765321100 00000333444433       36899


Q ss_pred             hccCce---EEeCCCCHHHHHH
Q 047225          173 NRIDEV---IVFRQLNKMQLME  191 (287)
Q Consensus       173 ~r~~~~---i~~~~~~~~~~~~  191 (287)
                      +||+..   ..+|-++.+...+
T Consensus       340 DRiH~yiPGWeipk~~~e~~t~  361 (449)
T TIGR02688       340 DRIHGYLPGWEIPKIRKEMFSN  361 (449)
T ss_pred             HhhhccCCCCcCccCCHHHccc
Confidence            999644   6778887665433

Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=98.73  E-value=9e-08  Score=82.02  Aligned_cols=150  Identities=16%  Similarity=0.273  Sum_probs=89.2

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC----CceEEe-cccccccccchhh--hhCCCCCCCccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK----EAMVRI-DMSEYMEKHTVSK--FFGSPPGYVGFE   76 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~----~~~~~~-~~~~~~~~~~~~~--~~~~~~~~~~~~   76 (287)
                      +.++..+... +-.+.++|+||  +||+++|+.+|+.+.-.+    .++-.. +|..... ..-.+  .+.......+.+
T Consensus        12 ~~L~~~~~~~-rl~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~-~~HPD~~~i~p~~~~I~id   87 (290)
T PRK07276         12 QRFQTILEQD-RLNHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQ-GEFSDVTVIEPQGQVIKTD   87 (290)
T ss_pred             HHHHHHHHcC-CcceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhc-CCCCCeeeecCCCCcCCHH
Confidence            3444444443 33346899996  689999999999883221    111100 0110000 00000  010111112233


Q ss_pred             chhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCc
Q 047225           77 NGGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGS  152 (287)
Q Consensus        77 ~~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~  152 (287)
                      +.+.+...+..    +++.|++||++|++.....++|++.+|+.           .+++++|++|+...           
T Consensus        88 qIR~l~~~~~~~p~~~~~kV~II~~ad~m~~~AaNaLLKtLEEP-----------p~~t~~iL~t~~~~-----------  145 (290)
T PRK07276         88 TIRELVKNFSQSGYEGKQQVFIIKDADKMHVNAANSLLKVIEEP-----------QSEIYIFLLTNDEN-----------  145 (290)
T ss_pred             HHHHHHHHHhhCcccCCcEEEEeehhhhcCHHHHHHHHHHhcCC-----------CCCeEEEEEECChh-----------
Confidence            33444444443    44689999999999999999999999983           23567777775432           


Q ss_pred             hHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHH
Q 047225          153 DQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVD  194 (287)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~  194 (287)
                                   .+.|.+.||| ..+.|++ +.+++.+++.
T Consensus       146 -------------~lLpTI~SRc-q~i~f~~-~~~~~~~~L~  172 (290)
T PRK07276        146 -------------KVLPTIKSRT-QIFHFPK-NEAYLIQLLE  172 (290)
T ss_pred             -------------hCchHHHHcc-eeeeCCC-cHHHHHHHHH
Confidence                         3458899999 9999977 6777666663

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=98.70  E-value=2.7e-07  Score=77.27  Aligned_cols=128  Identities=15%  Similarity=0.122  Sum_probs=81.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccch-----hhh--hCCCCCCCcccchhhHHHHHHh----
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV-----SKF--FGSPPGYVGFENGGQLTEAVRH----   87 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~-----~~~--~~~~~~~~~~~~~~~~~~~~~~----   87 (287)
                      .++|+||.|+||..+|..+|+.+.-....   -.|+.-......     .++  +.......+.++.+.+.+.+..    
T Consensus         9 A~Lf~G~~G~G~~~lA~~~A~~llC~~~~---~~Cg~C~sC~~i~~~~HPDl~~i~p~~~~I~id~ir~l~~~l~~~s~e   85 (261)
T PRK05818          9 PLLLIERKGSFLKPFLYEYLTSIVCTKAN---GFCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPSVE   85 (261)
T ss_pred             ceeeeCCCCCcHHHHHHHHHHHHcCCCCC---CCCCCCHHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHHccCchh
Confidence            59999999999999999999987322111   012211110000     000  0011112333334444443332    


Q ss_pred             -CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           88 -RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        88 -~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                       +++.|++|+++|++.....++|++.+|+.           ++++++|+.|+...                        .
T Consensus        86 ~~~~KV~II~~ae~m~~~AaNaLLK~LEEP-----------p~~t~fiLit~~~~------------------------~  130 (261)
T PRK05818         86 SNGKKIYIIYGIEKLNKQSANSLLKLIEEP-----------PKNTYGIFTTRNEN------------------------N  130 (261)
T ss_pred             cCCCEEEEeccHhhhCHHHHHHHHHhhcCC-----------CCCeEEEEEECChH------------------------h
Confidence             34689999999999999999999999983           34667777776542                        3


Q ss_pred             CChhHHhccCceEEeCCCC
Q 047225          167 FRPEFLNRIDEVIVFRQLN  185 (287)
Q Consensus       167 ~~~~l~~r~~~~i~~~~~~  185 (287)
                      +.|.+.||+ +.+.|+++.
T Consensus       131 lLpTI~SRC-q~~~~~~~~  148 (261)
T PRK05818        131 ILNTILSRC-VQYVVLSKE  148 (261)
T ss_pred             CchHhhhhe-eeeecCChh
Confidence            458899999 888898883

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=98.70  E-value=2e-07  Score=85.83  Aligned_cols=90  Identities=21%  Similarity=0.267  Sum_probs=65.9

Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceeecCCCc-eeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQ-TVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~-~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      +++=|=|+-+.+.+.+..|+.+.++|.+...+|- .+. -+.+||+.||..                 +.+.-......+
T Consensus       257 Gl~EFvEm~K~~~~~L~~LLtatQE~~i~~~~~~~~i~-~D~vIiaHsNE~-----------------E~~~F~~nk~nE  318 (644)
T PRK15455        257 GLLEFVEMFKAPIKVLHPLLTATQEGNYNGTEGIGAIP-FDGIILAHSNES-----------------EWQTFRNNKNNE  318 (644)
T ss_pred             CcEeeHHHhcCcHHHHHHhcCCCccCcccCCCCcceec-cceeEEecCCHH-----------------HHHHHhcCccch
Confidence            6666668888899999999999999988765553 343 356888888863                 333333456678


Q ss_pred             hHHhccCceEEeCCCC-HHHHHHHHHHHHHH
Q 047225          170 EFLNRIDEVIVFRQLN-KMQLMEIVDIMLKE  199 (287)
Q Consensus       170 ~l~~r~~~~i~~~~~~-~~~~~~il~~~l~~  199 (287)
                      +|++|+ ..|.+|..- ..+..+|.++.+..
T Consensus       319 A~~DRi-~~V~VPY~lr~~eE~kIYeKll~~  348 (644)
T PRK15455        319 AFLDRI-YIVKVPYCLRVSEEIKIYEKLLRN  348 (644)
T ss_pred             hhhceE-EEEeCCccCChhHHHHHHHHHhcC
Confidence            999999 999999887 45667788766643

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=98.62  E-value=1.3e-07  Score=69.32  Aligned_cols=93  Identities=18%  Similarity=0.391  Sum_probs=55.6

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCC-----CceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSK-----EAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      |+|+||||+|||++++.|+..+....     ..++..+.                        ...+..-..  +..+++
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~~~~vy~~~~------------------------~~~~w~gY~--~q~vvi   54 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPTKDSVYTRNP------------------------GDKFWDGYQ--GQPVVI   54 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccCCCCcEEeCCC------------------------ccchhhccC--CCcEEE
Confidence            57999999999999999998873210     11111111                        012222222  225999


Q ss_pred             EcCcccccHH----HHHHHHHhhcCceeecCC----CceeeccceEEEEeec
Q 047225           95 FDEIEKAHRD----VLNVMLQLLDDGRVTDGK----GQTVDLKNTIIIMTSN  138 (287)
Q Consensus        95 iDeid~~~~~----~~~~L~~~l~~~~~~~~~----g~~i~~~~~~iI~t~n  138 (287)
                      +||+......    ....+.+++....+...-    .....+.-.+||+|||
T Consensus        55 ~DD~~~~~~~~~~~~~~~l~~l~s~~~~~~~~a~~~~K~~~~~s~~vi~tsN  106 (107)
T PF00910_consen   55 IDDFGQDNDGYNYSDESELIRLISSNPFQPNMADLEDKGTPFNSKLVIITSN  106 (107)
T ss_pred             EeecCccccccchHHHHHHHHHHhcCCcccccccHhhCCCccCCCEEEEcCC
Confidence            9999987754    667788888865544321    1112233457788877

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=98.59  E-value=3e-07  Score=79.40  Aligned_cols=155  Identities=17%  Similarity=0.272  Sum_probs=80.7

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHH--hcCCCCceEEecccccccc----cchhhhhCCCCCCC-cc
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFE--YFGSKEAMVRIDMSEYMEK----HTVSKFFGSPPGYV-GF   75 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~--l~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~-~~   75 (287)
                      +++....+.........+.++|++|+|||++|+.+++.  .......++.++++.....    ..+...++...... ..
T Consensus         5 ~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~   84 (287)
T PF00931_consen    5 IEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSISDP   84 (287)
T ss_dssp             HHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STSSCC
T ss_pred             HHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccccccc
Confidence            34444444443344568999999999999999999988  4333333444555443322    12233333332111 11


Q ss_pred             cc----hhhHHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCC
Q 047225           76 EN----GGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILG  151 (287)
Q Consensus        76 ~~----~~~~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~  151 (287)
                      ..    ...+.+.+... +.+++||+++...  ..+.+...+...           ..++.+|+||....-         
T Consensus        85 ~~~~~~~~~l~~~L~~~-~~LlVlDdv~~~~--~~~~l~~~~~~~-----------~~~~kilvTTR~~~v---------  141 (287)
T PF00931_consen   85 KDIEELQDQLRELLKDK-RCLLVLDDVWDEE--DLEELREPLPSF-----------SSGSKILVTTRDRSV---------  141 (287)
T ss_dssp             SSHHHHHHHHHHHHCCT-SEEEEEEEE-SHH--HH-------HCH-----------HSS-EEEEEESCGGG---------
T ss_pred             cccccccccchhhhccc-cceeeeeeecccc--cccccccccccc-----------ccccccccccccccc---------
Confidence            11    22344455555 6899999998655  333333333221           024568888854210         


Q ss_pred             chHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHH
Q 047225          152 SDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIML  197 (287)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l  197 (287)
                                       ......-...+.+.+++.++..+++....
T Consensus       142 -----------------~~~~~~~~~~~~l~~L~~~ea~~L~~~~~  170 (287)
T PF00931_consen  142 -----------------AGSLGGTDKVIELEPLSEEEALELFKKRA  170 (287)
T ss_dssp             -----------------GTTHHSCEEEEECSS--HHHHHHHHHHHH
T ss_pred             -----------------ccccccccccccccccccccccccccccc
Confidence                             01112213679999999999999887664

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

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

Probab=98.53  E-value=1.5e-06  Score=78.43  Aligned_cols=136  Identities=27%  Similarity=0.414  Sum_probs=79.0

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc-ccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEE
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS-EYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVI   93 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il   93 (287)
                      .|+-.++|.||||+|||+||..+|...   ..|++.+--. +..--+.....-         . ...+++-.-..+.+++
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~S---~FPFvKiiSpe~miG~sEsaKc~---------~-i~k~F~DAYkS~lsii  602 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALSS---DFPFVKIISPEDMIGLSESAKCA---------H-IKKIFEDAYKSPLSII  602 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhhc---CCCeEEEeChHHccCccHHHHHH---------H-HHHHHHHhhcCcceEE
Confidence            445579999999999999999999877   6777755321 111100000000         0 0123332333466899


Q ss_pred             EEcCcccc----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHH
Q 047225           94 LFDEIEKA----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEEL  163 (287)
Q Consensus        94 ~iDeid~~----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~  163 (287)
                      ++|+++++          +.-++.+|+-++....   +.|      +-++|++|.....-+.+                 
T Consensus       603 vvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~p---pkg------~kLli~~TTS~~~vL~~-----------------  656 (744)
T KOG0741|consen  603 VVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQP---PKG------RKLLIFGTTSRREVLQE-----------------  656 (744)
T ss_pred             EEcchhhhhcccccCchhhHHHHHHHHHHhccCC---CCC------ceEEEEecccHHHHHHH-----------------
Confidence            99999965          2245556666666421   122      22455554432211111                 


Q ss_pred             HhcCChhHHhccCceEEeCCCCH-HHHHHHHH
Q 047225          164 RRRFRPEFLNRIDEVIVFRQLNK-MQLMEIVD  194 (287)
Q Consensus       164 ~~~~~~~l~~r~~~~i~~~~~~~-~~~~~il~  194 (287)
                           =.+++.|+..+.+|.++. +++.+++.
T Consensus       657 -----m~i~~~F~~~i~Vpnl~~~~~~~~vl~  683 (744)
T KOG0741|consen  657 -----MGILDCFSSTIHVPNLTTGEQLLEVLE  683 (744)
T ss_pred             -----cCHHHhhhheeecCccCchHHHHHHHH
Confidence                 256788888899999996 77777773

>PRK04296 thymidine kinase; Provisional

Probab=98.47  E-value=1.5e-06  Score=70.55  Aligned_cols=96  Identities=14%  Similarity=0.166  Sum_probs=54.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc--cccccccchhhhhCCCCCCCcccchhhHHHHHH--hCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM--SEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVR--HRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~il~   94 (287)
                      ..+++||+|+|||+++..++..+...+...+.+..  ........+...+|.............+...+.  .....+|+
T Consensus         4 i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~dvvi   83 (190)
T PRK04296          4 LEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKPAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEEEGEKIDCVL   83 (190)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEeccccccccCCcEecCCCCcccceEeCChHHHHHHHHhhCCCCCEEE
Confidence            57899999999999998888887555666665633  111111112222221111011112223333332  34557999


Q ss_pred             EcCcccccHHHHHHHHHhhc
Q 047225           95 FDEIEKAHRDVLNVMLQLLD  114 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~  114 (287)
                      |||++.++.+.+..|.+.+.
T Consensus        84 IDEaq~l~~~~v~~l~~~l~  103 (190)
T PRK04296         84 IDEAQFLDKEQVVQLAEVLD  103 (190)
T ss_pred             EEccccCCHHHHHHHHHHHH
Confidence            99999998774444555543

>KOG1808 consensus AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.46  E-value=2.6e-07  Score=94.41  Aligned_cols=147  Identities=28%  Similarity=0.403  Sum_probs=101.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhC----CCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFG----SPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      +++|.||+|+|||++++.+|...   +..++.++--+..+-   ++.+|    ...+...+.+ +.+..++..+.  +++
T Consensus       442 pillqG~tssGKtsii~~la~~~---g~~~vrinnhehtd~---qeyig~y~~~~~g~l~fre-g~LV~Alr~G~--~~v  512 (1856)
T KOG1808|consen  442 PILLQGPTSSGKTSIIKELARAT---GKNIVRINNHEHTDL---QEYIGTYVADDNGDLVFRE-GVLVQALRNGD--WIV  512 (1856)
T ss_pred             CeEEecCcCcCchhHHHHHHHHh---ccCceehhccccchH---HHHHHhhhcCCCCCeeeeh-hHHHHHHHhCC--EEE
Confidence            59999999999999999999998   666777766544433   33444    3344444444 56777777775  999


Q ss_pred             EcCcccccHHHHHHHHHhhcC-ceeecCCCceeec--cceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhH
Q 047225           95 FDEIEKAHRDVLNVMLQLLDD-GRVTDGKGQTVDL--KNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEF  171 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~-~~~~~~~g~~i~~--~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  171 (287)
                      +||++.++.+++++|.+++++ +++.++++..+-.  +++++++|=|++.....                  ++.+..+|
T Consensus       513 lD~lnla~~dvL~aLnrllddnRel~ipe~~rlv~~h~~f~lfatqn~~~~y~g------------------rk~lsRa~  574 (1856)
T KOG1808|consen  513 LDELNLAPHDVLEALNRLLDDNRELFIPETQRLVKAHPEFMLFATQNPPGTYGG------------------RKILSRAL  574 (1856)
T ss_pred             eccccccchHHHHHHHhhhhhhccccccccceeeccCcchhhhhhccCccccch------------------hhhhhhcc
Confidence            999999999999999999998 8888887644333  46677777777532211                  12344567


Q ss_pred             HhccCceEEeCCCCHHHHHHHH
Q 047225          172 LNRIDEVIVFRQLNKMQLMEIV  193 (287)
Q Consensus       172 ~~r~~~~i~~~~~~~~~~~~il  193 (287)
                      ++|| ..+.|....++++..++
T Consensus       575 ~~rf-~e~~f~~~~e~e~~~i~  595 (1856)
T KOG1808|consen  575 RNRF-IELHFDDIGEEELEEIL  595 (1856)
T ss_pred             cccc-hhhhhhhcCchhhhhhh
Confidence            7777 55555555555555554

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=98.45  E-value=4.1e-07  Score=67.49  Aligned_cols=76  Identities=21%  Similarity=0.361  Sum_probs=47.3

Q ss_pred             CCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC--CceEEeccc--ccccccchhhhhCCCCCCCcccchhhHHHHHH
Q 047225           11 RDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK--EAMVRIDMS--EYMEKHTVSKFFGSPPGYVGFENGGQLTEAVR   86 (287)
Q Consensus        11 ~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~--~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (287)
                      .+|++|+ ++.|.||||||||.+++.||+.++..+  .+++..-.+  .+.....+..        .......++.+.+.
T Consensus        48 ~~p~KpL-VlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~~hFP~~~~v~~--------Yk~~L~~~I~~~v~  118 (127)
T PF06309_consen   48 PNPRKPL-VLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIATHHFPHNSNVDE--------YKEQLKSWIRGNVS  118 (127)
T ss_pred             CCCCCCE-EEEeecCCCCcHHHHHHHHHHHHHhcccCCCceeeecccccCCCchHHHH--------HHHHHHHHHHHHHH
Confidence            4689998 899999999999999999999986543  333322221  1111111100        00011356777888


Q ss_pred             hCCcEEEEE
Q 047225           87 HRPHSVILF   95 (287)
Q Consensus        87 ~~~~~il~i   95 (287)
                      .+++++++|
T Consensus       119 ~C~rslFIF  127 (127)
T PF06309_consen  119 RCPRSLFIF  127 (127)
T ss_pred             hCCcCeeeC
Confidence            888877664

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=98.43  E-value=1e-06  Score=78.15  Aligned_cols=113  Identities=18%  Similarity=0.266  Sum_probs=61.3

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc--cchhhhhCCCCCCCcccchhhHHHHHHhCCcE
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK--HTVSKFFGSPPGYVGFENGGQLTEAVRHRPHS   91 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (287)
                      ..|. .++|+||+|+|||.|.-...+.+.....  ..+..-.+...  ..+...-+.      .+....+.+.+.... .
T Consensus        60 ~~~~-GlYl~G~vG~GKT~Lmd~f~~~lp~~~k--~R~HFh~Fm~~vh~~l~~~~~~------~~~l~~va~~l~~~~-~  129 (362)
T PF03969_consen   60 PPPK-GLYLWGPVGRGKTMLMDLFYDSLPIKRK--RRVHFHEFMLDVHSRLHQLRGQ------DDPLPQVADELAKES-R  129 (362)
T ss_pred             CCCc-eEEEECCCCCchhHHHHHHHHhCCcccc--ccccccHHHHHHHHHHHHHhCC------CccHHHHHHHHHhcC-C
Confidence            3455 5999999999999999999999854221  11111111111  111111111      111123343333332 4


Q ss_pred             EEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhh
Q 047225           92 VILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIAR  146 (287)
Q Consensus        92 il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~  146 (287)
                      +|||||+.--+..---.|.++++.-  .        ..++++|+|||..+..+..
T Consensus       130 lLcfDEF~V~DiaDAmil~rLf~~l--~--------~~gvvlVaTSN~~P~~Ly~  174 (362)
T PF03969_consen  130 LLCFDEFQVTDIADAMILKRLFEAL--F--------KRGVVLVATSNRPPEDLYK  174 (362)
T ss_pred             EEEEeeeeccchhHHHHHHHHHHHH--H--------HCCCEEEecCCCChHHHcC
Confidence            9999999866554333333333310  0        0245799999998877643

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

>PHA00729 NTP-binding motif containing protein

Probab=98.38  E-value=2.7e-06  Score=70.05  Aligned_cols=23  Identities=35%  Similarity=0.377  Sum_probs=22.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +++|+|+||||||++|.+|++.+
T Consensus        19 nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729         19 SAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            79999999999999999999987

>PHA02774 E1; Provisional

Probab=98.36  E-value=3.1e-06  Score=78.10  Aligned_cols=98  Identities=17%  Similarity=0.229  Sum_probs=59.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +.++|+||||||||+++.+|.+.+.+  ..+..+|..  .                     +.-.+.+...  .++++||
T Consensus       435 nciv~~GPP~TGKS~fa~sL~~~L~G--~vi~fvN~~--s---------------------~FwLqpl~d~--ki~vlDD  487 (613)
T PHA02774        435 NCLVIYGPPDTGKSMFCMSLIKFLKG--KVISFVNSK--S---------------------HFWLQPLADA--KIALLDD  487 (613)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCC--CEEEEEECc--c---------------------ccccchhccC--CEEEEec
Confidence            47999999999999999999999842  233334431  0                     0112222233  3999999


Q ss_pred             ccccc-HHHHHHHHHhhcCceeecCC--CceeeccceEEEEeecCCch
Q 047225           98 IEKAH-RDVLNVMLQLLDDGRVTDGK--GQTVDLKNTIIIMTSNIGDS  142 (287)
Q Consensus        98 id~~~-~~~~~~L~~~l~~~~~~~~~--g~~i~~~~~~iI~t~n~~~~  142 (287)
                      +...- .-....|+.+++...+....  ...+...-..+|+|||....
T Consensus       488 ~t~~~w~y~d~~Lrn~LdG~~v~lD~Khk~~~q~k~pPlIITSN~d~~  535 (613)
T PHA02774        488 ATHPCWDYIDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVK  535 (613)
T ss_pred             CcchHHHHHHHHHHHHcCCCcceeeecccCcccccCCCEEEecCCCcc
Confidence            94332 22334688888865444321  22232334469999997644

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=98.32  E-value=2.3e-06  Score=66.97  Aligned_cols=38  Identities=39%  Similarity=0.533  Sum_probs=31.5

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      ++++||||+|||+++..++......+.+++++++....
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~   39 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEI   39 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcch
Confidence            78999999999999999999886666777777775443

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.

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=98.30  E-value=5.6e-06  Score=74.73  Aligned_cols=120  Identities=21%  Similarity=0.295  Sum_probs=77.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEec-ccccccccchhhhhCCCCCCCcccchhhHHHHHHhC--CcEEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRID-MSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHR--PHSVILF   95 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~il~i   95 (287)
                      .+++.||.+|||||+++.+.+.+...   .++++ |....+.....+               .+.......  ....+|+
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~~---~iy~~~~d~~~~~~~l~d---------------~~~~~~~~~~~~~~yifL  100 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLEE---IIYINFDDLRLDRIELLD---------------LLRAYIELKEREKSYIFL  100 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCcc---eEEEEecchhcchhhHHH---------------HHHHHHHhhccCCceEEE
Confidence            69999999999999999988887443   44444 333332221111               111111111  3369999


Q ss_pred             cCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhcc
Q 047225           96 DEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRI  175 (287)
Q Consensus        96 Deid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~  175 (287)
                      ||++.++ ++...+..+.+.+.. .           ++|.+++..-..                     ....+.|..|.
T Consensus       101 DEIq~v~-~W~~~lk~l~d~~~~-~-----------v~itgsss~ll~---------------------~~~~~~L~GR~  146 (398)
T COG1373         101 DEIQNVP-DWERALKYLYDRGNL-D-----------VLITGSSSSLLS---------------------KEISESLAGRG  146 (398)
T ss_pred             ecccCch-hHHHHHHHHHccccc-e-----------EEEECCchhhhc---------------------cchhhhcCCCc
Confidence            9999876 688999999987643 1           355544432111                     12345677886


Q ss_pred             CceEEeCCCCHHHHHH
Q 047225          176 DEVIVFRQLNKMQLME  191 (287)
Q Consensus       176 ~~~i~~~~~~~~~~~~  191 (287)
                       ..+.+.|+|..|...
T Consensus       147 -~~~~l~PlSF~Efl~  161 (398)
T COG1373         147 -KDLELYPLSFREFLK  161 (398)
T ss_pred             -eeEEECCCCHHHHHh
Confidence             889999999888865

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=98.29  E-value=1.6e-05  Score=69.27  Aligned_cols=108  Identities=18%  Similarity=0.173  Sum_probs=68.6

Q ss_pred             EEEEcCcccccHHHHHHHHHhhcCceeecCC-CceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChh
Q 047225           92 VILFDEIEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        92 il~iDeid~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      ++=+-|+-+.+.+.+..|+.+.++|.+...+ ...+ .-+.+||+.+|+...                 +........++
T Consensus       236 i~ef~E~~K~~~~~L~~LL~~tqEg~ik~~~~~~~i-~~D~liiAhsNe~E~-----------------~~f~~~~~~eA  297 (358)
T PF08298_consen  236 IMEFVEMLKAPIEFLHPLLTATQEGNIKVDEDFGMI-PFDELIIAHSNEEEY-----------------NKFKNNKNNEA  297 (358)
T ss_pred             hHHHHHHhcCcHHHHHHHhcchhcCceecCCccccc-ccceeEEecCCHHHH-----------------HHHhccccchh
Confidence            3333344466777888888888888777632 2222 235688888996422                 11111233579


Q ss_pred             HHhccCceEEeCCCC-HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHh
Q 047225          171 FLNRIDEVIVFRQLN-KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEE  224 (287)
Q Consensus       171 l~~r~~~~i~~~~~~-~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~  224 (287)
                      |.+|+ ..|.+|++- ..+..+|.++.+.+.  .+    .+..+.+.+++.++..
T Consensus       298 f~DRi-~~I~VPY~L~~s~E~kIY~k~~~~s--~l----~~~h~aP~~L~~aA~f  345 (358)
T PF08298_consen  298 FKDRI-EVIKVPYCLRVSEEVKIYEKLIGKS--DL----RDAHIAPHTLEMAARF  345 (358)
T ss_pred             hhhhe-EEEeccccCCHHHHHHHHHHHhhhc--cc----cccccCchHHHHHHHH
Confidence            99999 999999866 667788887777431  11    1346777777777654

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PHA01747 putative ATP-dependent protease

Probab=98.22  E-value=2.2e-05  Score=68.34  Aligned_cols=149  Identities=17%  Similarity=0.225  Sum_probs=84.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCC-CCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPP-GYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      |++=.||.|||||++-+.+....     +..+ ..+    ..+++.+|.... +..|         .+  +.+.+|+|||
T Consensus       192 NliELgPRGTGKS~~f~eis~fs-----p~~i-SGG----~~TvA~LFyN~~t~~~G---------LV--g~~D~VaFDE  250 (425)
T PHA01747        192 HIIELSNRGTGKTTTFVILQELF-----NFRY-YTE----PPTYANLVYDAKTNALG---------LV--FLSNGLIFDE  250 (425)
T ss_pred             eEEEecCCCCChhhHHHHhhhcC-----Ccee-eCC----CCchHHheEecCCCcee---------EE--eeccEEEEEc
Confidence            69999999999999999986533     1111 111    122233332111 1111         00  1236999999


Q ss_pred             ccccc----HHHHHHHHHhhcCceeecCCCceee----ccceEEEEeecCCchhhhhhccCCchH-HHHHHHH-HHHhcC
Q 047225           98 IEKAH----RDVLNVMLQLLDDGRVTDGKGQTVD----LKNTIIIMTSNIGDSVIARESILGSDQ-MERGVAE-ELRRRF  167 (287)
Q Consensus        98 id~~~----~~~~~~L~~~l~~~~~~~~~g~~i~----~~~~~iI~t~n~~~~~~~~~~~~~~~~-~~~~~~~-~~~~~~  167 (287)
                      +....    .+....+...|+.|.+.-+.+...+    ...+-+|+.+|.....+..   .+..+ +.+-+.. .+....
T Consensus       251 Va~i~f~~~kdiv~IMKdYMesG~FsRG~~~~ss~~sI~a~asiVf~GNin~~~l~~---~~~~~~l~~~Lp~~~~~r~~  327 (425)
T PHA01747        251 IQTWKDSNMRAINSTLSTGMENCVWTRGAGTESDAATIVRCIPIIFAGNPDSSTLDT---YQTPNYIKNYLVSYELFQSL  327 (425)
T ss_pred             cccccCCCHHHHHHHHHHHhhcceeecCCCCcccchhhccceeEEEecCCCCccccc---cccchhHHHhcchhhhhccc
Confidence            99753    5788899999999988876542222    1367888888887432211   11111 2222211 011112


Q ss_pred             ChhHHhccCce-EEeCCCCHHHHHH
Q 047225          168 RPEFLNRIDEV-IVFRQLNKMQLME  191 (287)
Q Consensus       168 ~~~l~~r~~~~-i~~~~~~~~~~~~  191 (287)
                      .++|++||... +.+|.++.+++..
T Consensus       328 ~sA~LDRIhi~g~~~pkIs~d~~~s  352 (425)
T PHA01747        328 TKAILDRIAIIIVNEKKITYDDIIS  352 (425)
T ss_pred             chHHhhhhhhcccccCcCCHHHhcc
Confidence            68999999522 5566667666544

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=98.20  E-value=0.00022  Score=58.99  Aligned_cols=140  Identities=16%  Similarity=0.175  Sum_probs=91.4

Q ss_pred             cEEEEEeccCC-ChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhh--CCCCCCCcccchhhHHHHHHh----CC
Q 047225           17 ISSFLFTGPTG-VGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFF--GSPPGYVGFENGGQLTEAVRH----RP   89 (287)
Q Consensus        17 ~~~ill~Gp~G-tGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~----~~   89 (287)
                      .+..+|.|..+ +||..++..++..+...+     +......+...+..--  +......+.++.+.+.+.+..    ++
T Consensus        15 shAYLfeG~n~~~~~~~~~~f~~~~l~~~~-----i~~~~HPD~~~I~pe~~~~~~~~~I~IdqIReL~~~l~~~p~~g~   89 (263)
T PRK06581         15 YNSWLIEAENIEQALKDLEKFIYIKLFKNS-----IPLENNPDYHFIARETSATSNAKNISIEQIRKLQDFLSKTSAISG   89 (263)
T ss_pred             hheeeEeCCChhhHHHHHHHHHHHHHhccC-----cccCCCCCEEEEeccccccccCCcccHHHHHHHHHHHhhCcccCC
Confidence            34699999998 999999999988873321     1111111111100000  000112333444555555543    45


Q ss_pred             cEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225           90 HSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus        90 ~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      +.|++|+++|++.....++|++.+|+.           +++..+|+.++...                        .+.|
T Consensus        90 ~KViII~~ae~mt~~AANALLKtLEEP-----------P~~t~fILit~~~~------------------------~LLp  134 (263)
T PRK06581         90 YKVAIIYSAELMNLNAANSCLKILEDA-----------PKNSYIFLITSRAA------------------------SIIS  134 (263)
T ss_pred             cEEEEEechHHhCHHHHHHHHHhhcCC-----------CCCeEEEEEeCChh------------------------hCch
Confidence            679999999999999999999999984           23556776554432                        3468


Q ss_pred             hHHhccCceEEeCCCCHHHHHHHHHHHH
Q 047225          170 EFLNRIDEVIVFRQLNKMQLMEIVDIML  197 (287)
Q Consensus       170 ~l~~r~~~~i~~~~~~~~~~~~il~~~l  197 (287)
                      .+.||| ..+.++.++.....+++...+
T Consensus       135 TIrSRC-q~i~~~~p~~~~~~e~~~~~~  161 (263)
T PRK06581        135 TIRSRC-FKINVRSSILHAYNELYSQFI  161 (263)
T ss_pred             hHhhce-EEEeCCCCCHHHHHHHHHHhc
Confidence            899999 999999999988888775443

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.20  E-value=6.2e-05  Score=58.08  Aligned_cols=30  Identities=30%  Similarity=0.349  Sum_probs=25.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCce
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAM   48 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~   48 (287)
                      .++++|+||+||||++..+++.+...+...
T Consensus         7 ki~ITG~PGvGKtTl~~ki~e~L~~~g~kv   36 (179)
T COG1618           7 KIFITGRPGVGKTTLVLKIAEKLREKGYKV   36 (179)
T ss_pred             EEEEeCCCCccHHHHHHHHHHHHHhcCcee
Confidence            599999999999999999999986554444

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=98.18  E-value=9.1e-06  Score=66.14  Aligned_cols=114  Identities=21%  Similarity=0.318  Sum_probs=63.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc--c---cchhhhhCCCCC--CCcccchhhH---HHHHHhC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME--K---HTVSKFFGSPPG--YVGFENGGQL---TEAVRHR   88 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~--~---~~~~~~~~~~~~--~~~~~~~~~~---~~~~~~~   88 (287)
                      .++|+||+|+||||++-.||..+...+..+..+++..+.-  .   ....+.++-+..  ....+....+   .+.....
T Consensus         3 vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~~   82 (196)
T PF00448_consen    3 VIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFRKK   82 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHhhc
Confidence            7999999999999998888888754455565555554432  1   223344442211  1111111222   2333444


Q ss_pred             CcEEEEEcCcccccH--HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCch
Q 047225           89 PHSVILFDEIEKAHR--DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDS  142 (287)
Q Consensus        89 ~~~il~iDeid~~~~--~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~  142 (287)
                      ...+++||-..+.+.  +....|..+++.-          ......++++++.+..
T Consensus        83 ~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~----------~~~~~~LVlsa~~~~~  128 (196)
T PF00448_consen   83 GYDLVLIDTAGRSPRDEELLEELKKLLEAL----------NPDEVHLVLSATMGQE  128 (196)
T ss_dssp             TSSEEEEEE-SSSSTHHHHHHHHHHHHHHH----------SSSEEEEEEEGGGGGH
T ss_pred             CCCEEEEecCCcchhhHHHHHHHHHHhhhc----------CCccceEEEecccChH
Confidence            557999999887654  4555666655531          1124567777776644

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=98.17  E-value=8.7e-06  Score=66.33  Aligned_cols=102  Identities=21%  Similarity=0.283  Sum_probs=57.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc----------cchhhhhCCCCCCCcccchhhHHHHHHhC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK----------HTVSKFFGSPPGYVGFENGGQLTEAVRHR   88 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (287)
                      ..++.||||||||++++.+...+...+..++....+.-...          .++..++........... ..      ..
T Consensus        20 ~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~~~~~a~Ti~~~l~~~~~~~~~~~-~~------~~   92 (196)
T PF13604_consen   20 VSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKAAKELREKTGIEAQTIHSFLYRIPNGDDEGR-PE------LP   92 (196)
T ss_dssp             EEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHHTS-EEEHHHHTTEECCEECCSS-CC-------T
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHHHHHHHHhhCcchhhHHHHHhcCCccccccc-cc------CC
Confidence            58889999999999999998888555555554444321111          112222211111000000 00      12


Q ss_pred             CcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCC
Q 047225           89 PHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIG  140 (287)
Q Consensus        89 ~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~  140 (287)
                      ...+++|||+..++......|+..+..             .+..+|+..++.
T Consensus        93 ~~~vliVDEasmv~~~~~~~ll~~~~~-------------~~~klilvGD~~  131 (196)
T PF13604_consen   93 KKDVLIVDEASMVDSRQLARLLRLAKK-------------SGAKLILVGDPN  131 (196)
T ss_dssp             STSEEEESSGGG-BHHHHHHHHHHS-T--------------T-EEEEEE-TT
T ss_pred             cccEEEEecccccCHHHHHHHHHHHHh-------------cCCEEEEECCcc
Confidence            335999999999999999999988875             133577766653

>cd01131 PilT Pilus retraction ATPase PilT

Probab=98.15  E-value=1.3e-05  Score=65.51  Aligned_cols=95  Identities=23%  Similarity=0.369  Sum_probs=52.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCC-CCceEEecc-cccccccchhhhhCC-CCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGS-KEAMVRIDM-SEYMEKHTVSKFFGS-PPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~-~~~~~~~~~-~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      +.++++||+|+||||+++++...+... ...++.+.. .++..... ...+.. ..+.........+...+...+ .+++
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~~~E~~~~~~-~~~i~q~~vg~~~~~~~~~i~~aLr~~p-d~ii   79 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIEDPIEFVHESK-RSLINQREVGLDTLSFENALKAALRQDP-DVIL   79 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcCCccccccCc-cceeeecccCCCccCHHHHHHHHhcCCc-CEEE
Confidence            369999999999999999998887532 233343322 22211110 001100 011111112233445555544 7999


Q ss_pred             EcCcccccHHHHHHHHHhhcCc
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~  116 (287)
                      +||+.  +++....+++....|
T Consensus        80 ~gEir--d~e~~~~~l~~a~~G   99 (198)
T cd01131          80 VGEMR--DLETIRLALTAAETG   99 (198)
T ss_pred             EcCCC--CHHHHHHHHHHHHcC
Confidence            99995  555666666666654

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=98.15  E-value=1.5e-06  Score=69.85  Aligned_cols=53  Identities=28%  Similarity=0.400  Sum_probs=31.1

Q ss_pred             hhhhhccC--CCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225            3 LERARVGI--RDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus         3 ~~~~~~~~--~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      ++++...+  ...+.+ .+++++|++|+|||++++.+...+.....-++.+++...
T Consensus         9 ~~~l~~~l~~~~~~~~-~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~~~~~   63 (185)
T PF13191_consen    9 IERLRDLLDAAQSGSP-RNLLLTGESGSGKTSLLRALLDRLAERGGYVISINCDDS   63 (185)
T ss_dssp             HHHHHHTTGGTSS------EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEEEETT
T ss_pred             HHHHHHHHHHHHcCCC-cEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEEEecc
Confidence            34444444  233333 379999999999999999998888443323667776655

>COG1485 Predicted ATPase [General function prediction only]

Probab=98.13  E-value=1.7e-05  Score=68.63  Aligned_cols=112  Identities=17%  Similarity=0.191  Sum_probs=62.2

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC-ceEEecccccccccchhhhhCCCCCCCcccchhhHH-HHHHhCCcE
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEYFGSKE-AMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLT-EAVRHRPHS   91 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~   91 (287)
                      ..+. .++|+|+-|.|||.|.-...+.++.... .....+...... ..+..+-|..      +....+. +...+..  
T Consensus        63 ~~~~-GlYl~GgVGrGKT~LMD~Fy~~lp~~~k~R~HFh~FM~~vH-~~l~~l~g~~------dpl~~iA~~~~~~~~--  132 (367)
T COG1485          63 GPVR-GLYLWGGVGRGKTMLMDLFYESLPGERKRRLHFHRFMARVH-QRLHTLQGQT------DPLPPIADELAAETR--  132 (367)
T ss_pred             CCCc-eEEEECCCCccHHHHHHHHHhhCCccccccccHHHHHHHHH-HHHHHHcCCC------CccHHHHHHHHhcCC--
Confidence            3344 5999999999999999999999965431 111111111110 1122222322      1112333 3344444  


Q ss_pred             EEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhh
Q 047225           92 VILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIA  145 (287)
Q Consensus        92 il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~  145 (287)
                      +|||||+.--+..---.|.++++.-          =..++.+++|||..+..+.
T Consensus       133 vLCfDEF~VtDI~DAMiL~rL~~~L----------f~~GV~lvaTSN~~P~~LY  176 (367)
T COG1485         133 VLCFDEFEVTDIADAMILGRLLEAL----------FARGVVLVATSNTAPDNLY  176 (367)
T ss_pred             EEEeeeeeecChHHHHHHHHHHHHH----------HHCCcEEEEeCCCChHHhc
Confidence            9999999976665333333333320          0024578899999887663

>KOG1968 consensus Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]

Probab=98.09  E-value=1.3e-05  Score=77.99  Aligned_cols=169  Identities=18%  Similarity=0.211  Sum_probs=109.4

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCC--CC-cccchhhHHHHHHhCCcEEEEEc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPG--YV-GFENGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~-~~~~~~~~~~~~~~~~~~il~iD   96 (287)
                      ++++||||+|||+.+...+..+   +..++.+|.++......+...++...+  .+ ++....... .-....+.+|++|
T Consensus       360 ~l~~G~pGigKT~~~h~~~k~~---g~~v~E~Nas~~RSk~~l~~~~~~~~~s~si~~~~~~~~~~-~~~~~~~~vil~d  435 (871)
T KOG1968|consen  360 LLLSGPPGIGKTTAAHKAAKEL---GFKVVEKNASDVRSKKELLNKLGNATSSHSIKGSKKKKGNR-QSLNSDHFLILMD  435 (871)
T ss_pred             HHhcCCCCCCchhhHhhhhhhc---ccceeecCccccccccHHHhhhhccccccchhhhhcccccc-cccccceeEEEEe
Confidence            6899999999999999999999   778888888876654444444432211  01 111000000 0111344699999


Q ss_pred             CcccccH---HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHh
Q 047225           97 EIEKAHR---DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLN  173 (287)
Q Consensus        97 eid~~~~---~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  173 (287)
                      |+|.+..   +.+..+..++..             ...-+|++||--.-                        -....++
T Consensus       436 evD~~~~~dRg~v~~l~~l~~k-------------s~~Piv~~cndr~~------------------------p~sr~~~  478 (871)
T KOG1968|consen  436 EVDGMFGEDRGGVSKLSSLCKK-------------SSRPLVCTCNDRNL------------------------PKSRALS  478 (871)
T ss_pred             ccccccchhhhhHHHHHHHHHh-------------ccCCeEEEecCCCC------------------------ccccchh
Confidence            9998865   566667777763             12247777775311                        1122344


Q ss_pred             ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          174 RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       174 r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      +-...+.|+-|+...+..-+...+...         .+.|+++.++.+....+      .++|+.+..+-.
T Consensus       479 ~~~~~l~f~kP~~~~i~~ri~si~~se---------~~ki~~~~l~~~s~~~~------~DiR~~i~~lq~  534 (871)
T KOG1968|consen  479 RACSDLRFSKPSSELIRSRIMSICKSE---------GIKISDDVLEEISKLSG------GDIRQIIMQLQF  534 (871)
T ss_pred             hhcceeeecCCcHHHHHhhhhhhhccc---------ceecCcHHHHHHHHhcc------cCHHHHHHHHhh
Confidence            444779999999998888776665432         46799999999998765      577777765444

>PRK10536 hypothetical protein; Provisional

Probab=98.09  E-value=1.9e-05  Score=66.15  Aligned_cols=36  Identities=22%  Similarity=0.493  Sum_probs=28.2

Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCC
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIG  140 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~  140 (287)
                      ++|++||++.+++.....+++-+..              ++.+|+++++.
T Consensus       178 ~~vIvDEaqn~~~~~~k~~ltR~g~--------------~sk~v~~GD~~  213 (262)
T PRK10536        178 AVVILDEAQNVTAAQMKMFLTRLGE--------------NVTVIVNGDIT  213 (262)
T ss_pred             CEEEEechhcCCHHHHHHHHhhcCC--------------CCEEEEeCChh
Confidence            7999999999999888777766653              44677777664

>PRK14974 cell division protein FtsY; Provisional

Probab=98.05  E-value=4.8e-05  Score=66.88  Aligned_cols=99  Identities=17%  Similarity=0.298  Sum_probs=59.6

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc-----cchhhhhCCC--CCCCcccchhhHHH---H
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK-----HTVSKFFGSP--PGYVGFENGGQLTE---A   84 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~--~~~~~~~~~~~~~~---~   84 (287)
                      +|. .++|+||+|+||||++..++..+...+..+..+++..+...     ......+|-+  ....+......+.+   .
T Consensus       139 ~~~-vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~  217 (336)
T PRK14974        139 KPV-VIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIEH  217 (336)
T ss_pred             CCe-EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHHHH
Confidence            344 79999999999999999999888655566666666544321     1112222221  11122221122222   2


Q ss_pred             HHhCCcEEEEEcCccccc--HHHHHHHHHhhc
Q 047225           85 VRHRPHSVILFDEIEKAH--RDVLNVMLQLLD  114 (287)
Q Consensus        85 ~~~~~~~il~iDeid~~~--~~~~~~L~~~l~  114 (287)
                      .......+++||...+++  ......|..+..
T Consensus       218 ~~~~~~DvVLIDTaGr~~~~~~lm~eL~~i~~  249 (336)
T PRK14974        218 AKARGIDVVLIDTAGRMHTDANLMDELKKIVR  249 (336)
T ss_pred             HHhCCCCEEEEECCCccCCcHHHHHHHHHHHH
Confidence            233455799999999884  566677766654

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=98.04  E-value=3.1e-05  Score=61.36  Aligned_cols=25  Identities=40%  Similarity=0.565  Sum_probs=21.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      +++|+|+||+||||+++.+.+.+..
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l~~   25 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEELKK   25 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHHH
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhhc
Confidence            5899999999999999999998843

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=98.03  E-value=6.2e-06  Score=61.54  Aligned_cols=23  Identities=39%  Similarity=0.674  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+++.|+||+||||+++.|++.+
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            37899999999999999999998

...

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=98.03  E-value=2.3e-05  Score=69.47  Aligned_cols=97  Identities=24%  Similarity=0.344  Sum_probs=53.9

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHhcCC-CCceEEec-ccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEYFGS-KEAMVRID-MSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l~~~-~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      .+.++++||+|+||||+.+++...+... ...++++. ..++..........-...+....+....+...++..+ .+++
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~~~~~~~~~i~q~evg~~~~~~~~~l~~~lr~~p-d~i~  200 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEYVHRNKRSLINQREVGLDTLSFANALRAALREDP-DVIL  200 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhhhccCccceEEccccCCCCcCHHHHHHHhhccCC-CEEE
Confidence            3579999999999999999999877432 33444432 2222211100000001111111122233445555544 8999


Q ss_pred             EcCcccccHHHHHHHHHhhcCc
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~  116 (287)
                      +||+.  +++......+....|
T Consensus       201 vgEir--d~~~~~~~l~aa~tG  220 (343)
T TIGR01420       201 IGEMR--DLETVELALTAAETG  220 (343)
T ss_pred             EeCCC--CHHHHHHHHHHHHcC
Confidence            99997  666656656666655

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.02  E-value=3.2e-05  Score=69.24  Aligned_cols=113  Identities=27%  Similarity=0.311  Sum_probs=62.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC----CCCceEEecccccccc--c---chhhhhCCCCCCCcccchhhHHHHHH-hC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG----SKEAMVRIDMSEYMEK--H---TVSKFFGSPPGYVGFENGGQLTEAVR-HR   88 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~----~~~~~~~~~~~~~~~~--~---~~~~~~~~~~~~~~~~~~~~~~~~~~-~~   88 (287)
                      .++|+||+|+||||++..+|..+..    .+..+..+++..+...  .   .....++-+.. .... ...+...+. ..
T Consensus       176 vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~-~~~~-~~~l~~~L~~~~  253 (388)
T PRK12723        176 VFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVK-AIES-FKDLKEEITQSK  253 (388)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceE-eeCc-HHHHHHHHHHhC
Confidence            7999999999999999999987732    2344555555444321  1   11222222211 1111 123333222 24


Q ss_pred             CcEEEEEcCcccccHHH--HHHHHHhhcCceeecCCCceeeccceEEEEeecCCch
Q 047225           89 PHSVILFDEIEKAHRDV--LNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDS  142 (287)
Q Consensus        89 ~~~il~iDeid~~~~~~--~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~  142 (287)
                      ...+++||.+.+.+.+.  +..+..+++....         .....+++.++.+..
T Consensus       254 ~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~---------~~e~~LVlsat~~~~  300 (388)
T PRK12723        254 DFDLVLVDTIGKSPKDFMKLAEMKELLNACGR---------DAEFHLAVSSTTKTS  300 (388)
T ss_pred             CCCEEEEcCCCCCccCHHHHHHHHHHHHhcCC---------CCeEEEEEcCCCCHH
Confidence            55799999999887543  3455566553110         013467777766543

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.02  E-value=7.5e-05  Score=67.80  Aligned_cols=97  Identities=28%  Similarity=0.359  Sum_probs=64.7

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEe-cccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEE
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRI-DMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVI   93 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il   93 (287)
                      +|.+-++++||+|+||||+..++...+......++++ |.-+|.-+.-.+-   ..+...|.+....+...++..| +|+
T Consensus       256 ~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDPVE~~~~gI~Q~---qVN~k~gltfa~~LRa~LRqDP-DvI  331 (500)
T COG2804         256 RPQGLILVTGPTGSGKTTTLYAALSELNTPERNIITIEDPVEYQLPGINQV---QVNPKIGLTFARALRAILRQDP-DVI  331 (500)
T ss_pred             CCCeEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEEeeCCeeeecCCccee---ecccccCCCHHHHHHHHhccCC-CeE
Confidence            4456799999999999999999999886555555544 3444432211110   1233456666666777777766 899


Q ss_pred             EEcCcccccHHHHHHHHHhhcCce
Q 047225           94 LFDEIEKAHRDVLNVMLQLLDDGR  117 (287)
Q Consensus        94 ~iDeid~~~~~~~~~L~~~l~~~~  117 (287)
                      ++.||-  +.+......+...+|.
T Consensus       332 mVGEIR--D~ETAeiavqAalTGH  353 (500)
T COG2804         332 MVGEIR--DLETAEIAVQAALTGH  353 (500)
T ss_pred             EEeccC--CHHHHHHHHHHHhcCC
Confidence            999998  5555566666666664

>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=98.02  E-value=2.9e-05  Score=66.13  Aligned_cols=150  Identities=19%  Similarity=0.288  Sum_probs=88.8

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHH----HHHhCCc
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTE----AVRHRPH   90 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~   90 (287)
                      .|.+|.+|+|.+|+||+++++..+...   +..++.+..+.-..   ..++            ...+..    +--.+..
T Consensus        29 ~~~Gh~LLvG~~GsGr~sl~rLaa~i~---~~~~~~i~~~~~y~---~~~f------------~~dLk~~~~~ag~~~~~   90 (268)
T PF12780_consen   29 QPRGHALLVGVGGSGRQSLARLAAFIC---GYEVFQIEITKGYS---IKDF------------KEDLKKALQKAGIKGKP   90 (268)
T ss_dssp             STTEEEEEECTTTSCHHHHHHHHHHHT---TEEEE-TTTSTTTH---HHHH------------HHHHHHHHHHHHCS-S-
T ss_pred             CCCCCeEEecCCCccHHHHHHHHHHHh---ccceEEEEeeCCcC---HHHH------------HHHHHHHHHHHhccCCC
Confidence            345799999999999999999887766   56666665533111   1111            012222    2223445


Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceeecC-------------------CCc------eee------ccceEEEEeecC
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVTDG-------------------KGQ------TVD------LKNTIIIMTSNI  139 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~~~-------------------~g~------~i~------~~~~~iI~t~n~  139 (287)
                      .+++++|-+-.+...++.+..++..|+++.=                   .|.      ...      -.+.-||++.+|
T Consensus        91 ~vfll~d~qi~~~~fLe~in~LL~sGeip~LF~~eE~~~i~~~l~~~~~~~~~~~~~~~~~~~F~~rvr~nLHivl~~sp  170 (268)
T PF12780_consen   91 TVFLLTDSQIVDESFLEDINSLLSSGEIPNLFTKEELDNIISSLREEAKAEGISDSRESLYEFFIERVRKNLHIVLCMSP  170 (268)
T ss_dssp             EEEEEECCCSSSCHHHHHHHHHHHCSS-TTTS-TCHHHHHHHHHHHHHHHCT--SSHHHHHHHHHHHHCCCEEEEEEEST
T ss_pred             eEEEecCcccchHhHHHHHHHHHhCCCCCCCccHHHHHHHHHHhHHHHHHcCCCCchHHHHHHHHHHHHhheeEEEEECC
Confidence            7889999887666666666666666653310                   010      000      135566777766


Q ss_pred             CchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHH
Q 047225          140 GDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEI  200 (287)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~  200 (287)
                      ....+.           .....      -|+|++++ .+..+.+-+.+.+..+....+...
T Consensus       171 ~~~~~r-----------~~~~~------fPaL~~~c-tIdW~~~W~~eaL~~Va~~~l~~~  213 (268)
T PF12780_consen  171 VGPNFR-----------DRCRS------FPALVNCC-TIDWFDPWPEEALLSVANKFLSDI  213 (268)
T ss_dssp             TTTCCC-----------HHHHH------HCCHHHHS-EEEEEES--HHHHHHHHHHHCCHH
T ss_pred             CCchHH-----------HHHHh------Ccchhccc-EEEeCCcCCHHHHHHHHHHHHHhh
Confidence            544321           11111      27888888 889999999999999998887653

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]

Probab=97.99  E-value=4.8e-06  Score=83.05  Aligned_cols=155  Identities=17%  Similarity=0.198  Sum_probs=94.2

Q ss_pred             EEEEeccCCChHHHHH-HHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccc-hhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELA-NALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN-GGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la-~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~il~iD   96 (287)
                      .++++||||+|||.+. -+|-..+   ...++++|.+.-.........+.....|...+- .....+-..  ...|+|+|
T Consensus      1496 ~~i~cGppGSgK~mlM~~sLrs~~---~~ev~~~Nfs~~t~T~s~ls~Ler~t~yy~~tg~~~l~PK~~v--K~lVLFcD 1570 (3164)
T COG5245        1496 SYIYCGPPGSGKEMLMCPSLRSEL---ITEVKYFNFSTCTMTPSKLSVLERETEYYPNTGVVRLYPKPVV--KDLVLFCD 1570 (3164)
T ss_pred             eEEEECCCCCccchhcchhhhhhh---heeeeEEeeccccCCHHHHHHHHhhceeeccCCeEEEccCcch--hheEEEee
Confidence            5999999999999854 3443333   456677777654433222222222211111000 000111000  12599999


Q ss_pred             Cccc------ccHHHHHHHHHhhcCceeecC-CCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225           97 EIEK------AHRDVLNVMLQLLDDGRVTDG-KGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus        97 eid~------~~~~~~~~L~~~l~~~~~~~~-~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      ||+.      .++.++-.|+++++...+.-+ ...++...+.+++.+|||+.+..                   +-.++.
T Consensus      1571 eInLp~~~~y~~~~vI~FlR~l~e~QGfw~s~~~~wvTI~~i~l~Gacnp~td~g-------------------Rv~~~e 1631 (3164)
T COG5245        1571 EINLPYGFEYYPPTVIVFLRPLVERQGFWSSIAVSWVTICGIILYGACNPGTDEG-------------------RVKYYE 1631 (3164)
T ss_pred             ccCCccccccCCCceEEeeHHHHHhcccccchhhhHhhhcceEEEccCCCCCCcc-------------------cCccHH
Confidence            9992      355677788899987554433 35566667889999999986653                   113556


Q ss_pred             hHHhccCceEEeCCCCHHHHHHHHHHHHH
Q 047225          170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLK  198 (287)
Q Consensus       170 ~l~~r~~~~i~~~~~~~~~~~~il~~~l~  198 (287)
                      .|+++- ..+.+..|+-..+.+|+...+.
T Consensus      1632 Rf~r~~-v~vf~~ype~~SL~~Iyea~l~ 1659 (3164)
T COG5245        1632 RFIRKP-VFVFCCYPELASLRNIYEAVLM 1659 (3164)
T ss_pred             HHhcCc-eEEEecCcchhhHHHHHHHHHH
Confidence            666666 7788889998888888876554

>PHA02624 large T antigen; Provisional

Probab=97.97  E-value=3.5e-05  Score=71.62  Aligned_cols=126  Identities=20%  Similarity=0.239  Sum_probs=73.8

Q ss_pred             hhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHH
Q 047225            6 ARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAV   85 (287)
Q Consensus         6 ~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (287)
                      ++..+.+..+. +.++|+||||||||+++++|.+.+.+   ..+.+++....    +.               -++ +-+
T Consensus       421 lk~~l~giPKk-~~il~~GPpnTGKTtf~~sLl~~L~G---~vlsVNsPt~k----s~---------------FwL-~pl  476 (647)
T PHA02624        421 LKLIVENVPKR-RYWLFKGPVNSGKTTLAAALLDLCGG---KSLNVNCPPDK----LN---------------FEL-GCA  476 (647)
T ss_pred             HHHHHhcCCCC-eEEEEECCCCCCHHHHHHHHHHHcCC---eEEEeeCCcch----hH---------------HHh-hhh
Confidence            44445553333 36999999999999999999999943   33334432211    00               011 111


Q ss_pred             HhCCcEEEEEcCcccc-------cH----HHHHHHHHhhcCc-eeecCC----CceeeccceEEEEeecCCchhhhhhcc
Q 047225           86 RHRPHSVILFDEIEKA-------HR----DVLNVMLQLLDDG-RVTDGK----GQTVDLKNTIIIMTSNIGDSVIARESI  149 (287)
Q Consensus        86 ~~~~~~il~iDeid~~-------~~----~~~~~L~~~l~~~-~~~~~~----g~~i~~~~~~iI~t~n~~~~~~~~~~~  149 (287)
                      .  ...+++|||+...       ++    +-...|+..++.. .+....    ...+.+|  -.|+|||..         
T Consensus       477 ~--D~~~~l~dD~t~~~~~~~~Lp~G~~~dNl~~lRn~LDG~V~v~ld~KH~n~~q~~~P--PlliT~Ney---------  543 (647)
T PHA02624        477 I--DQFMVVFEDVKGQPADNKDLPSGQGMNNLDNLRDYLDGSVPVNLEKKHLNKRSQIFP--PGIVTMNEY---------  543 (647)
T ss_pred             h--hceEEEeeeccccccccccCCcccccchhhHHHhhcCCCCccccchhccCchhccCC--CeEEeecCc---------
Confidence            1  1248999999632       22    2346788888754 333211    1112222  478899963         


Q ss_pred             CCchHHHHHHHHHHHhcCChhHHhccCceEEeCCC
Q 047225          150 LGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQL  184 (287)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~  184 (287)
                                      .++..+.-||-..+.|.+=
T Consensus       544 ----------------~iP~T~~~Rf~~~~~F~~k  562 (647)
T PHA02624        544 ----------------LIPQTVKARFAKVLDFKPK  562 (647)
T ss_pred             ----------------ccchhHHHHHHHhcccccc
Confidence                            5677788888666777653

>PF13337 Lon_2: Putative ATP-dependent Lon protease

Probab=97.97  E-value=6.5e-05  Score=67.56  Aligned_cols=141  Identities=20%  Similarity=0.290  Sum_probs=82.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      |++=.||.|||||++=+.+....       ..++.+..    +.+.+|......        -...+  +.+++|+|||+
T Consensus       210 NliELgPrGTGKS~vy~eiSp~~-------~liSGG~~----T~A~LFyn~~~~--------~~GlV--~~~D~VafDEv  268 (457)
T PF13337_consen  210 NLIELGPRGTGKSYVYKEISPYG-------ILISGGQV----TVAKLFYNMSTG--------QIGLV--GRWDVVAFDEV  268 (457)
T ss_pred             ceEEEcCCCCCceeehhhcCccc-------EEEECCCc----chHHheeeccCC--------cceee--eeccEEEEEec
Confidence            69999999999999876664332       22222221    223333211110        00011  12369999999


Q ss_pred             cccc---HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhcc--CCchHHHHHHHHHHHhcCChhHHh
Q 047225           99 EKAH---RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESI--LGSDQMERGVAEELRRRFRPEFLN  173 (287)
Q Consensus        99 d~~~---~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~  173 (287)
                      ....   ++.+..|...|+.|.+..+..  -...++-+++.+|.... +.....  --+..+++...       ..+|++
T Consensus       269 ~~i~f~d~d~i~imK~YMesG~fsRG~~--~i~a~as~vf~GNi~~~-v~~~~~~~~lf~~lP~~~~-------DsAflD  338 (457)
T PF13337_consen  269 AGIKFKDKDEIQIMKDYMESGSFSRGKE--EINADASMVFVGNINQS-VENMLKTSHLFEPLPEEMR-------DSAFLD  338 (457)
T ss_pred             cCcccCChHHHHHHHHHHhccceeeccc--ccccceeEEEEcCcCCc-chhccccchhhhhcCHHHH-------HHHHHh
Confidence            9663   677799999999998886542  22246678888887622 111100  11333344333       469999


Q ss_pred             ccCceE---EeCCCCHHHHH
Q 047225          174 RIDEVI---VFRQLNKMQLM  190 (287)
Q Consensus       174 r~~~~i---~~~~~~~~~~~  190 (287)
                      ||...+   .+|.++.+...
T Consensus       339 RiH~~iPGWeiPk~~~e~~t  358 (457)
T PF13337_consen  339 RIHGYIPGWEIPKIRPEMFT  358 (457)
T ss_pred             HhheeccCccccccCHHHcc
Confidence            997664   57888766433

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=97.95  E-value=3.7e-05  Score=61.89  Aligned_cols=36  Identities=25%  Similarity=0.405  Sum_probs=29.0

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      +++.||||||||+++..++......+.+..+++..+
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~   37 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEE   37 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCC
Confidence            789999999999999988777655566777777644

A related protein is found in archaea.

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.92  E-value=4.4e-05  Score=64.76  Aligned_cols=100  Identities=25%  Similarity=0.382  Sum_probs=62.0

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhc-CCCCceEEe-cccccccccchhhhhC-CCCCCCcccchhhHHHHHHhCCcEE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYF-GSKEAMVRI-DMSEYMEKHTVSKFFG-SPPGYVGFENGGQLTEAVRHRPHSV   92 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~-~~~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i   92 (287)
                      |.+-++++||+|+||||+..++-..+. ....+++++ |.-+|...+.- .++. ...|.........+..++++.| +|
T Consensus       124 ~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlTIEDPIE~vh~skk-slI~QREvG~dT~sF~~aLraALReDP-DV  201 (353)
T COG2805         124 PRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILTIEDPIEYVHESKK-SLINQREVGRDTLSFANALRAALREDP-DV  201 (353)
T ss_pred             CCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEecCchHhhhcchH-hhhhHHHhcccHHHHHHHHHHHhhcCC-CE
Confidence            345699999999999988777777762 223455554 44555433211 1111 1111111112345666777766 89


Q ss_pred             EEEcCcccccHHHHHHHHHhhcCceee
Q 047225           93 ILFDEIEKAHRDVLNVMLQLLDDGRVT  119 (287)
Q Consensus        93 l~iDeid~~~~~~~~~L~~~l~~~~~~  119 (287)
                      +++-|+-  +.+.+..-++..++|.+.
T Consensus       202 IlvGEmR--D~ETi~~ALtAAETGHLV  226 (353)
T COG2805         202 ILVGEMR--DLETIRLALTAAETGHLV  226 (353)
T ss_pred             EEEeccc--cHHHHHHHHHHHhcCCEE
Confidence            9999987  677888888999987543

>PRK13695 putative NTPase; Provisional

Probab=97.91  E-value=0.0002  Score=57.08  Aligned_cols=24  Identities=42%  Similarity=0.454  Sum_probs=21.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .++|+|++|+||||+++.++..+.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l~   25 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELLK   25 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            488999999999999999988764

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.91  E-value=8.7e-05  Score=65.99  Aligned_cols=95  Identities=22%  Similarity=0.313  Sum_probs=58.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc--cccch---hhhhCCCCCCCcccchhhHHHHHHh----CC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM--EKHTV---SKFFGSPPGYVGFENGGQLTEAVRH----RP   89 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~--~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~----~~   89 (287)
                      .++|+||+|+||||++..||..+...+..+..+++..+.  ....+   ....+-+ -.... ....+.+.+..    ..
T Consensus       243 vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgip-v~v~~-d~~~L~~aL~~lk~~~~  320 (436)
T PRK11889        243 TIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFE-VIAVR-DEAAMTRALTYFKEEAR  320 (436)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCc-EEecC-CHHHHHHHHHHHHhccC
Confidence            699999999999999999999886656666667766554  11111   1122211 11111 12334444432    23


Q ss_pred             cEEEEEcCccccc--HHHHHHHHHhhcC
Q 047225           90 HSVILFDEIEKAH--RDVLNVMLQLLDD  115 (287)
Q Consensus        90 ~~il~iDeid~~~--~~~~~~L~~~l~~  115 (287)
                      ..++|||-..+.+  ...+..|..+++.
T Consensus       321 ~DvVLIDTaGRs~kd~~lm~EL~~~lk~  348 (436)
T PRK11889        321 VDYILIDTAGKNYRASETVEEMIETMGQ  348 (436)
T ss_pred             CCEEEEeCccccCcCHHHHHHHHHHHhh
Confidence            5799999998765  4456667777653

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=97.90  E-value=6.9e-05  Score=63.94  Aligned_cols=93  Identities=23%  Similarity=0.315  Sum_probs=55.7

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEec-ccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRID-MSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iD   96 (287)
                      +.++|.||+|+||||+.+++...+......++++. ..++.-.......+   ....+.+....+...++..+ ++++++
T Consensus        81 GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~~~~~q~~v---~~~~~~~~~~~l~~~lR~~P-D~i~vg  156 (264)
T cd01129          81 GIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQIPGINQVQV---NEKAGLTFARGLRAILRQDP-DIIMVG  156 (264)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecCCCceEEEe---CCcCCcCHHHHHHHHhccCC-CEEEec
Confidence            46999999999999999999888754444555553 22322111000000   11123333345556666555 899999


Q ss_pred             CcccccHHHHHHHHHhhcCc
Q 047225           97 EIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        97 eid~~~~~~~~~L~~~l~~~  116 (287)
                      |+..  ++....+.+....|
T Consensus       157 EiR~--~e~a~~~~~aa~tG  174 (264)
T cd01129         157 EIRD--AETAEIAVQAALTG  174 (264)
T ss_pred             cCCC--HHHHHHHHHHHHcC
Confidence            9984  44455566666665

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=97.87  E-value=0.00014  Score=67.25  Aligned_cols=94  Identities=22%  Similarity=0.352  Sum_probs=57.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEec-ccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRID-MSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iD   96 (287)
                      +.++++||+|+||||+..++...+......++++. ..++.-.. +.+.  ......|.+....+...++..| +++++.
T Consensus       243 GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTiEDpvE~~~~~-~~q~--~v~~~~g~~f~~~lr~~LR~dP-DvI~vG  318 (486)
T TIGR02533       243 GIILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPVEYQIEG-IGQI--QVNPKIGLTFAAGLRAILRQDP-DIIMVG  318 (486)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEcCCeeeecCC-CceE--EEccccCccHHHHHHHHHhcCC-CEEEEe
Confidence            46999999999999999988777754445555543 33332111 1000  0111223444456667777666 899999


Q ss_pred             CcccccHHHHHHHHHhhcCce
Q 047225           97 EIEKAHRDVLNVMLQLLDDGR  117 (287)
Q Consensus        97 eid~~~~~~~~~L~~~l~~~~  117 (287)
                      |+.  +.+......+...+|.
T Consensus       319 EiR--d~eta~~a~~aa~tGH  337 (486)
T TIGR02533       319 EIR--DLETAQIAIQASLTGH  337 (486)
T ss_pred             CCC--CHHHHHHHHHHHHhCC
Confidence            998  4455555666666664

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>PLN02674 adenylate kinase

Probab=97.87  E-value=0.00013  Score=61.28  Aligned_cols=35  Identities=20%  Similarity=0.476  Sum_probs=27.7

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      ..++|.||||+||+|.++.|++.+   +  +..+++++..
T Consensus        32 ~~i~l~G~PGsGKgT~a~~La~~~---~--~~his~Gdll   66 (244)
T PLN02674         32 KRLILIGPPGSGKGTQSPIIKDEY---C--LCHLATGDML   66 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHc---C--CcEEchhHHH
Confidence            369999999999999999999987   2  4455555544

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.85  E-value=0.00016  Score=65.89  Aligned_cols=113  Identities=24%  Similarity=0.375  Sum_probs=65.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc--CCCCceEEecccccccc-----cchhhhhCCCCCCCcccchhhHHHHHHh-CCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF--GSKEAMVRIDMSEYMEK-----HTVSKFFGSPPGYVGFENGGQLTEAVRH-RPH   90 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~--~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~   90 (287)
                      .++|+||+|+||||++..||..+.  ..+..+..+++..+...     .......+-+. ..... ...+...+.. ...
T Consensus       223 ~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~-~~~~~-~~~l~~~l~~~~~~  300 (424)
T PRK05703        223 VVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPV-EVVYD-PKELAKALEQLRDC  300 (424)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCce-EccCC-HHhHHHHHHHhCCC
Confidence            699999999999999999988774  33566777777665321     11112222111 11111 1234444433 345


Q ss_pred             EEEEEcCcccc--cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCch
Q 047225           91 SVILFDEIEKA--HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDS  142 (287)
Q Consensus        91 ~il~iDeid~~--~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~  142 (287)
                      .+|+||..-..  +......|..+++....         .....++++++....
T Consensus       301 DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~---------~~~~~LVl~a~~~~~  345 (424)
T PRK05703        301 DVILIDTAGRSQRDKRLIEELKALIEFSGE---------PIDVYLVLSATTKYE  345 (424)
T ss_pred             CEEEEeCCCCCCCCHHHHHHHHHHHhccCC---------CCeEEEEEECCCCHH
Confidence            79999987654  44556677777762100         013467777776543

>PRK07261 topology modulation protein; Provisional

Probab=97.85  E-value=0.00029  Score=56.08  Aligned_cols=23  Identities=35%  Similarity=0.567  Sum_probs=21.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|+||+||||+++.|+..+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999887

>KOG2383 consensus Predicted ATPase [General function prediction only]

Probab=97.85  E-value=7.6e-05  Score=65.60  Aligned_cols=121  Identities=18%  Similarity=0.306  Sum_probs=63.6

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc-----cchhhhhCC-CCCCC-c--ccchhhHHH
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK-----HTVSKFFGS-PPGYV-G--FENGGQLTE   83 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~-----~~~~~~~~~-~~~~~-~--~~~~~~~~~   83 (287)
                      |+.|. .++|+|..|||||+|.-.....+.+. ...-.+...++.-.     ..+...-|. .+++. +  ++....+.+
T Consensus       111 ~~~Pk-GlYlYG~VGcGKTmLMDlFy~~~~~i-~rkqRvHFh~fM~~VH~r~H~~k~~~~~~~~~~a~~~~~Dpl~~vA~  188 (467)
T KOG2383|consen  111 PGPPK-GLYLYGSVGCGKTMLMDLFYDALPPI-WRKQRVHFHGFMLSVHKRMHELKQEQGAEKPGYAKSWEIDPLPVVAD  188 (467)
T ss_pred             CCCCc-eEEEecccCcchhHHHHHHhhcCCch-hhhhhhhHHHHHHHHHHHHHHHHHhccccCccccccccCCccHHHHH
Confidence            44466 49999999999999999998776331 11111111111110     011111111 11111 1  122334554


Q ss_pred             HHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhh
Q 047225           84 AVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIAR  146 (287)
Q Consensus        84 ~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~  146 (287)
                      .+.+.. .+|+|||+.-.+-...-.|.++++.- +  .       ..+++++|+|..+..+..
T Consensus       189 eIa~ea-~lLCFDEfQVTDVADAmiL~rLf~~L-f--~-------~GvVlvATSNR~P~dLYk  240 (467)
T KOG2383|consen  189 EIAEEA-ILLCFDEFQVTDVADAMILKRLFEHL-F--K-------NGVVLVATSNRAPEDLYK  240 (467)
T ss_pred             HHhhhc-eeeeechhhhhhHHHHHHHHHHHHHH-H--h-------CCeEEEEeCCCChHHHhh
Confidence            444433 59999999865554444444444420 0  0       134788899998877644

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=97.84  E-value=7.1e-05  Score=66.98  Aligned_cols=94  Identities=26%  Similarity=0.390  Sum_probs=55.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc-----ccchhhhhCCCCCCCccc-----chhhHHHHHHhC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME-----KHTVSKFFGSPPGYVGFE-----NGGQLTEAVRHR   88 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~   88 (287)
                      ++++.||.|||||++.++|.+.+...+..+...-.+....     -.++...|+-+.......     ......+.++..
T Consensus        24 ~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~a~tg~AA~~i~~G~T~hs~f~i~~~~~~~~~~~~~~~~~~~~~l~~~  103 (364)
T PF05970_consen   24 NFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVTAPTGIAAFNIPGGRTIHSFFGIPINNNEKSQCKISKNSRLRERLRKA  103 (364)
T ss_pred             EEEEEcCCCCChhHHHHHHHHHhccccceEEEecchHHHHHhccCCcchHHhcCccccccccccccccccchhhhhhhhh
Confidence            6999999999999999999998854333333222222111     122333444332211111     112233444444


Q ss_pred             CcEEEEEcCcccccHHHHHHHHHhhc
Q 047225           89 PHSVILFDEIEKAHRDVLNVMLQLLD  114 (287)
Q Consensus        89 ~~~il~iDeid~~~~~~~~~L~~~l~  114 (287)
                        .+|++||+..++......+-+.+.
T Consensus       104 --~~lIiDEism~~~~~l~~i~~~lr  127 (364)
T PF05970_consen  104 --DVLIIDEISMVSADMLDAIDRRLR  127 (364)
T ss_pred             --eeeecccccchhHHHHHHHHHhhh
Confidence              499999999999998887765554

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=97.84  E-value=2.4e-05  Score=60.81  Aligned_cols=90  Identities=19%  Similarity=0.274  Sum_probs=55.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccc---------hhhHHHHHHhCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN---------GGQLTEAVRHRP   89 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~   89 (287)
                      .++|+|.+|+||||+|++|.+.+...+.+.+.++........      ...   .++..         ...+...+...+
T Consensus         4 vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LDgD~lR~~l------~~d---l~fs~~dR~e~~rr~~~~A~ll~~~G   74 (156)
T PF01583_consen    4 VIWLTGLSGSGKTTLARALERRLFARGIKVYLLDGDNLRHGL------NAD---LGFSKEDREENIRRIAEVAKLLADQG   74 (156)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEHHHHCTTT------TTT-----SSHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEecCcchhhcc------CCC---CCCCHHHHHHHHHHHHHHHHHHHhCC
Confidence            699999999999999999999998778888888876554321      111   11111         123344444444


Q ss_pred             cEEEEEcCcccccHHHHHHHHHhhcCceee
Q 047225           90 HSVILFDEIEKAHRDVLNVMLQLLDDGRVT  119 (287)
Q Consensus        90 ~~il~iDeid~~~~~~~~~L~~~l~~~~~~  119 (287)
                       .++++. +--...+..+..++.+..+.+.
T Consensus        75 -~ivIva-~isp~~~~R~~~R~~~~~~~f~  102 (156)
T PF01583_consen   75 -IIVIVA-FISPYREDREWARELIPNERFI  102 (156)
T ss_dssp             -SEEEEE-----SHHHHHHHHHHHHTTEEE
T ss_pred             -CeEEEe-eccCchHHHHHHHHhCCcCceE
Confidence             355555 3334567778888888865444

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=97.84  E-value=9.9e-05  Score=60.34  Aligned_cols=92  Identities=26%  Similarity=0.300  Sum_probs=54.3

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCC-----CCceEEecccccccccchh-hhhCCCCCCCc--------ccchhhHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGS-----KEAMVRIDMSEYMEKHTVS-KFFGSPPGYVG--------FENGGQLTE   83 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~-----~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~--------~~~~~~~~~   83 (287)
                      .|.++.|||||||||+.+-+|..+...     ......+|-+.     .+. -+.|.+.-..|        --...-+..
T Consensus       138 lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers-----EIag~~~gvpq~~~g~R~dVld~cpk~~gmmm  212 (308)
T COG3854         138 LNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS-----EIAGCLNGVPQHGRGRRMDVLDPCPKAEGMMM  212 (308)
T ss_pred             eeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc-----hhhccccCCchhhhhhhhhhcccchHHHHHHH
Confidence            369999999999999999999987321     22333333321     111 11111110001        001223556


Q ss_pred             HHHhCCcEEEEEcCcccccHHHHHHHHHhhcCc
Q 047225           84 AVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        84 ~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~  116 (287)
                      ++++....|+++||+....  -..++++.++.|
T Consensus       213 aIrsm~PEViIvDEIGt~~--d~~A~~ta~~~G  243 (308)
T COG3854         213 AIRSMSPEVIIVDEIGTEE--DALAILTALHAG  243 (308)
T ss_pred             HHHhcCCcEEEEeccccHH--HHHHHHHHHhcC
Confidence            7777777899999998653  334567777764

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.82  E-value=1.4e-05  Score=60.62  Aligned_cols=40  Identities=33%  Similarity=0.513  Sum_probs=31.4

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK   59 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~   59 (287)
                      +-.++++++|-|||||||++..||...     .+-+++++++...
T Consensus         5 r~~PNILvtGTPG~GKstl~~~lae~~-----~~~~i~isd~vkE   44 (176)
T KOG3347|consen    5 RERPNILVTGTPGTGKSTLAERLAEKT-----GLEYIEISDLVKE   44 (176)
T ss_pred             hcCCCEEEeCCCCCCchhHHHHHHHHh-----CCceEehhhHHhh
Confidence            334479999999999999999999876     3446677776654

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.81  E-value=0.00098  Score=55.64  Aligned_cols=137  Identities=22%  Similarity=0.332  Sum_probs=74.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhh-hCCCCCC-Ccccc--------hhhHHHHHH--
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKF-FGSPPGY-VGFEN--------GGQLTEAVR--   86 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~-~~~~~--------~~~~~~~~~--   86 (287)
                      .+++.|++|||||+++..|...+......++.+ +.....  ..... +...... ...++        ...+.+...  
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~-t~~~n~--~~~~~i~p~~i~~~~~~e~le~~l~~~k~~I~k~~~k~   91 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLI-TPEYNN--EYYKYIWPDHIFKVFDKEELEYILIRQKEKIEKYIKKS   91 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhcccCCEEEEE-ecCCch--hhhhhcchhhccccccHHHHHHHHHHHHHHHHHHhhhh
Confidence            599999999999999999988774433333333 222111  11111 1110000 00000        011112222  


Q ss_pred             --h--CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           87 --H--RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        87 --~--~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                        .  .++.++++||+..- .--...+..++..|+..          ++.+|+++...-                     
T Consensus        92 ~~~k~~~~~LiIlDD~~~~-~~k~~~l~~~~~~gRH~----------~is~i~l~Q~~~---------------------  139 (241)
T PF04665_consen   92 PQKKNNPRFLIILDDLGDK-KLKSKILRQFFNNGRHY----------NISIIFLSQSYF---------------------  139 (241)
T ss_pred             cccCCCCCeEEEEeCCCCc-hhhhHHHHHHHhccccc----------ceEEEEEeeecc---------------------
Confidence              0  23579999998642 11233477777766543          346777776531                     


Q ss_pred             HHhcCChhHHhccCceEEeCCCCHHHHHHHHH
Q 047225          163 LRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVD  194 (287)
Q Consensus       163 ~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~  194 (287)
                         .+++.+..-++..+.++ .+..++..++.
T Consensus       140 ---~lp~~iR~n~~y~i~~~-~s~~dl~~i~~  167 (241)
T PF04665_consen  140 ---HLPPNIRSNIDYFIIFN-NSKRDLENIYR  167 (241)
T ss_pred             ---cCCHHHhhcceEEEEec-CcHHHHHHHHH
Confidence               45677767776666664 68888777764

This is thought to be an ATPase involved in viral DNA packaging [].

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=97.81  E-value=0.00033  Score=61.34  Aligned_cols=52  Identities=21%  Similarity=0.254  Sum_probs=37.8

Q ss_pred             hhhhhccCCCCCCCcE-EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225            3 LERARVGIRDPNRPIS-SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~-~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      ++++...+.+.....+ +++|+|-+|||||.+++.+-+..   +.+.+.++|-+.-
T Consensus        15 i~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~---n~~~vw~n~~ecf   67 (438)
T KOG2543|consen   15 IRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL---NLENVWLNCVECF   67 (438)
T ss_pred             HHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc---CCcceeeehHHhc
Confidence            4555555555444232 47999999999999999999988   6677777775433

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=97.81  E-value=0.00024  Score=56.46  Aligned_cols=80  Identities=21%  Similarity=0.289  Sum_probs=46.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhh----hCCCCCCCcccchhhHHHHHHh--CCcEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKF----FGSPPGYVGFENGGQLTEAVRH--RPHSV   92 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~--~~~~i   92 (287)
                      .+++.|+||+|||++|..++..+   +.+.+++......+.....+.    ...+.++...+....+.+.+..  ....+
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~---~~~~~~iat~~~~~~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~~~~~~   79 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS---GLQVLYIATAQPFDDEMAARIAHHRQRRPAHWQTVEEPLDLAELLRADAAPGRC   79 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc---CCCcEeCcCCCCChHHHHHHHHHHHhcCCCCCeEecccccHHHHHHhhcCCCCE
Confidence            58999999999999999999886   345556655443332111111    1112233223332345555444  22358


Q ss_pred             EEEcCcccc
Q 047225           93 ILFDEIEKA  101 (287)
Q Consensus        93 l~iDeid~~  101 (287)
                      ++||-+...
T Consensus        80 VlID~Lt~~   88 (170)
T PRK05800         80 VLVDCLTTW   88 (170)
T ss_pred             EEehhHHHH
Confidence            999987744

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.80  E-value=0.00014  Score=66.16  Aligned_cols=97  Identities=19%  Similarity=0.244  Sum_probs=55.2

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc--c---chhhhhCCCCCC--CcccchhhHHHHHHh
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK--H---TVSKFFGSPPGY--VGFENGGQLTEAVRH   87 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~--~---~~~~~~~~~~~~--~~~~~~~~~~~~~~~   87 (287)
                      +|. .++|+|++|+||||++..||..+...+..+..+++..+...  .   .+....+.+...  ...+....+.+.+..
T Consensus        94 ~p~-vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~  172 (437)
T PRK00771         94 KPQ-TIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEK  172 (437)
T ss_pred             CCe-EEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHH
Confidence            344 79999999999999999999988665667777777665431  1   111222211100  001111112233322


Q ss_pred             -CCcEEEEEcCccccc--HHHHHHHHHh
Q 047225           88 -RPHSVILFDEIEKAH--RDVLNVMLQL  112 (287)
Q Consensus        88 -~~~~il~iDeid~~~--~~~~~~L~~~  112 (287)
                       ....+|+||...+.+  ....+.|..+
T Consensus       173 ~~~~DvVIIDTAGr~~~d~~lm~El~~l  200 (437)
T PRK00771        173 FKKADVIIVDTAGRHALEEDLIEEMKEI  200 (437)
T ss_pred             hhcCCEEEEECCCcccchHHHHHHHHHH
Confidence             223699999997654  3444444444

>PF14516 AAA_35: AAA-like domain

Probab=97.80  E-value=0.00063  Score=60.08  Aligned_cols=49  Identities=22%  Similarity=0.188  Sum_probs=39.1

Q ss_pred             hhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225            6 ARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus         6 ~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      |-..+..|+.   .+.+.||..+|||++...+.+.+...+...+++++....
T Consensus        23 ~~~~i~~~G~---~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~   71 (331)
T PF14516_consen   23 CYQEIVQPGS---YIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLG   71 (331)
T ss_pred             HHHHHhcCCC---EEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCC
Confidence            3444555543   699999999999999999998887678889999998653

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=97.79  E-value=6.4e-05  Score=62.02  Aligned_cols=20  Identities=35%  Similarity=0.547  Sum_probs=18.7

Q ss_pred             EEEEeccCCChHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALA   38 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la   38 (287)
                      .++|+|+||+|||++|+.++
T Consensus        14 ~~liyG~~G~GKtt~a~~~~   33 (220)
T TIGR01618        14 MYLIYGKPGTGKTSTIKYLP   33 (220)
T ss_pred             EEEEECCCCCCHHHHHHhcC
Confidence            69999999999999999885

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.79  E-value=0.00016  Score=65.37  Aligned_cols=96  Identities=17%  Similarity=0.301  Sum_probs=57.1

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhh--hCCCCC---CCcccchhh------HHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKF--FGSPPG---YVGFENGGQ------LTEAVR   86 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~---~~~~~~~~~------~~~~~~   86 (287)
                      ..++|+|++|+||||++..||..+...+..+..+++..+... ....+  ++...+   +.......+      ..+.+.
T Consensus       101 ~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~a-A~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~  179 (429)
T TIGR01425       101 NVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAG-AFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKFK  179 (429)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchh-HHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHHH
Confidence            479999999999999999999988655667777777665531 11111  111111   111111111      122333


Q ss_pred             hCCcEEEEEcCcccccH--HHHHHHHHhhc
Q 047225           87 HRPHSVILFDEIEKAHR--DVLNVMLQLLD  114 (287)
Q Consensus        87 ~~~~~il~iDeid~~~~--~~~~~L~~~l~  114 (287)
                      ...+.+|++|=..+.+.  .....|..+.+
T Consensus       180 ~~~~DvViIDTaGr~~~d~~lm~El~~i~~  209 (429)
T TIGR01425       180 KENFDIIIVDTSGRHKQEDSLFEEMLQVAE  209 (429)
T ss_pred             hCCCCEEEEECCCCCcchHHHHHHHHHHhh
Confidence            34568999999987755  45555655543

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=97.79  E-value=0.00014  Score=59.31  Aligned_cols=36  Identities=22%  Similarity=0.427  Sum_probs=22.5

Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCC
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIG  140 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~  140 (287)
                      +++++||+..+++.....+++-+.+              ++.+|+++++.
T Consensus       121 ~~iIvDEaQN~t~~~~k~ilTR~g~--------------~skii~~GD~~  156 (205)
T PF02562_consen  121 AFIIVDEAQNLTPEELKMILTRIGE--------------GSKIIITGDPS  156 (205)
T ss_dssp             EEEEE-SGGG--HHHHHHHHTTB-T--------------T-EEEEEE---
T ss_pred             eEEEEecccCCCHHHHHHHHcccCC--------------CcEEEEecCce
Confidence            8999999999999987777665553              45688877764

; GO: 0005524 ATP binding; PDB: 3B85_A.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.79  E-value=0.00016  Score=62.36  Aligned_cols=150  Identities=17%  Similarity=0.237  Sum_probs=77.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEe--cccccccccchhhhhC--------CCCCCCccc-chhhHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRI--DMSEYMEKHTVSKFFG--------SPPGYVGFE-NGGQLTEAVRH   87 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~--------~~~~~~~~~-~~~~~~~~~~~   87 (287)
                      .++++||.|+|||.+...........+..++.+  |..-..+...+..+..        .......++ .-..+...+++
T Consensus        51 sviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al~~I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~  130 (408)
T KOG2228|consen   51 SVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIALKGITRQLALELNRIVKSFGSFTENLSKLLEALKK  130 (408)
T ss_pred             ceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHHHHHHHHHHHHHhhhheeecccchhHHHHHHHHhc
Confidence            699999999999987655444422223444444  4332222211111100        000000111 12345555555


Q ss_pred             CCc-----EEEEEcCccc-ccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHH
Q 047225           88 RPH-----SVILFDEIEK-AHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAE  161 (287)
Q Consensus        88 ~~~-----~il~iDeid~-~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~  161 (287)
                      +..     -++++||+|. ++..-|-.|..+++--.       .-..|-+++-+||....-              +.+..
T Consensus       131 ~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisq-------s~r~Piciig~Ttrld~l--------------E~LEK  189 (408)
T KOG2228|consen  131 GDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQ-------SARAPICIIGVTTRLDIL--------------ELLEK  189 (408)
T ss_pred             CCCCCCceEEEEeehhhccccchhhHHHHHHHHHHh-------hcCCCeEEEEeeccccHH--------------HHHHH
Confidence            321     3667789995 45666777777776311       011234566667765322              12222


Q ss_pred             HHHhcCChhHHhccCce--EEeCCCCHHHHHHHHHHHH
Q 047225          162 ELRRRFRPEFLNRIDEV--IVFRQLNKMQLMEIVDIML  197 (287)
Q Consensus       162 ~~~~~~~~~l~~r~~~~--i~~~~~~~~~~~~il~~~l  197 (287)
                              ...+||.+.  +.+|+++.++..++++..+
T Consensus       190 --------RVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  190 --------RVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             --------HHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence                    445677654  4445566888888887776

>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]

Probab=97.78  E-value=0.00035  Score=56.11  Aligned_cols=45  Identities=18%  Similarity=0.127  Sum_probs=34.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchh
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVS   63 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~   63 (287)
                      .+-+.||.|.||||+.|.||..+.++...+..-.++...++..+.
T Consensus        30 i~GlLG~NGAGKTT~LRmiatlL~P~~G~v~idg~d~~~~p~~vr   74 (245)
T COG4555          30 ITGLLGENGAGKTTLLRMIATLLIPDSGKVTIDGVDTVRDPSFVR   74 (245)
T ss_pred             EEEEEcCCCCCchhHHHHHHHhccCCCceEEEeecccccChHHHh
Confidence            688999999999999999999998776666555555544444333

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=97.77  E-value=0.00011  Score=71.40  Aligned_cols=138  Identities=17%  Similarity=0.240  Sum_probs=82.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCC-------CceEEecccccccccchhhhhCCCCCCCcccchhhHHHHH---H-
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSK-------EAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAV---R-   86 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~-   86 (287)
                      +|-+|+|.||+|||.++..+++.+....       ..++.+++......          ..+.|..+ ..+...+   . 
T Consensus       209 ~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~~l~~g~l~aG----------a~~rge~E-~rlk~l~k~v~~  277 (898)
T KOG1051|consen  209 NNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLIALDFGSLVAG----------AKRRGEFE-ERLKELLKEVES  277 (898)
T ss_pred             CCceEEecCCCCchhHHHHHHHHhhcCCCCccccccceEEEEhhhcccC----------cccchHHH-HHHHHHHHHHhc
Confidence            4688999999999999999999883322       33344444331111          11111111 2233333   2 


Q ss_pred             hCCcEEEEEcCcccc--------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHH
Q 047225           87 HRPHSVILFDEIEKA--------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERG  158 (287)
Q Consensus        87 ~~~~~il~iDeid~~--------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~  158 (287)
                      .++.-|||+||++-+        --+..+.|...+..|.             ..+|.|+..                 +.
T Consensus       278 ~~~gvILfigelh~lvg~g~~~~~~d~~nlLkp~L~rg~-------------l~~IGatT~-----------------e~  327 (898)
T KOG1051|consen  278 GGGGVILFLGELHWLVGSGSNYGAIDAANLLKPLLARGG-------------LWCIGATTL-----------------ET  327 (898)
T ss_pred             CCCcEEEEecceeeeecCCCcchHHHHHHhhHHHHhcCC-------------eEEEecccH-----------------HH
Confidence            456679999999943        2256667777777654             246665542                 12


Q ss_pred             HHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHH
Q 047225          159 VAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKE  199 (287)
Q Consensus       159 ~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~  199 (287)
                      +....++  .|+|-.|| ..+.++-|+.++...|+...-.+
T Consensus       328 Y~k~iek--dPalErrw-~l~~v~~pS~~~~~~iL~~l~~~  365 (898)
T KOG1051|consen  328 YRKCIEK--DPALERRW-QLVLVPIPSVENLSLILPGLSER  365 (898)
T ss_pred             HHHHHhh--CcchhhCc-ceeEeccCcccchhhhhhhhhhh
Confidence            2222221  47888888 88899999988877777555443

>PRK08118 topology modulation protein; Reviewed

Probab=97.77  E-value=2.5e-05  Score=61.92  Aligned_cols=31  Identities=26%  Similarity=0.457  Sum_probs=25.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      .++++||||+||||+|+.|++.+   +.+++.+|
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l---~~~~~~lD   33 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKL---NIPVHHLD   33 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh---CCCceecc
Confidence            48999999999999999999998   44444433

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.76  E-value=0.00033  Score=62.19  Aligned_cols=111  Identities=24%  Similarity=0.380  Sum_probs=62.3

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhc--CCCCceEEecccccc--cc---cchhhhhCCCCCCCcccchhhHHHHHHh-CC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYF--GSKEAMVRIDMSEYM--EK---HTVSKFFGSPPGYVGFENGGQLTEAVRH-RP   89 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~--~~~~~~~~~~~~~~~--~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~   89 (287)
                      .++.|+||+|+||||+.-.||..+.  .....+..++...|.  ..   ..+.++.+-+...  ......+.+++.. ..
T Consensus       204 ~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~v--v~~~~el~~ai~~l~~  281 (407)
T COG1419         204 RVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEV--VYSPKELAEAIEALRD  281 (407)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEE--ecCHHHHHHHHHHhhc
Confidence            4799999999999987777777664  223333334443333  22   2233444332111  1112344433333 23


Q ss_pred             cEEEEEcCcccccH--HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCC
Q 047225           90 HSVILFDEIEKAHR--DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIG  140 (287)
Q Consensus        90 ~~il~iDeid~~~~--~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~  140 (287)
                      ..+|++|=+.+-+.  .....|..+++.. ..+         +..++++++..
T Consensus       282 ~d~ILVDTaGrs~~D~~~i~el~~~~~~~-~~i---------~~~Lvlsat~K  324 (407)
T COG1419         282 CDVILVDTAGRSQYDKEKIEELKELIDVS-HSI---------EVYLVLSATTK  324 (407)
T ss_pred             CCEEEEeCCCCCccCHHHHHHHHHHHhcc-ccc---------eEEEEEecCcc
Confidence            35999999987644  5666788888753 111         34566666655

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.76  E-value=7.5e-05  Score=58.97  Aligned_cols=94  Identities=14%  Similarity=0.135  Sum_probs=52.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC----Ccccchh-hHHHHHHhCCcEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY----VGFENGG-QLTEAVRHRPHSVI   93 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~-~~~~~~~~~~~~il   93 (287)
                      .+.|.||+|+||||+.+.++....+....+ .++........ .........++    .+..... .+..++...+ .++
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v-~~~g~~~~~~~-~~~~~~~~i~~~~qLS~G~~qrl~laral~~~p-~il  104 (163)
T cd03216          28 VHALLGENGAGKSTLMKILSGLYKPDSGEI-LVDGKEVSFAS-PRDARRAGIAMVYQLSVGERQMVEIARALARNA-RLL  104 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCeEE-EECCEECCcCC-HHHHHhcCeEEEEecCHHHHHHHHHHHHHhcCC-CEE
Confidence            689999999999999999998875544433 33322211100 00000001111    1111111 1233444443 799


Q ss_pred             EEcCcc-cccHHHHHHHHHhhcC
Q 047225           94 LFDEIE-KAHRDVLNVMLQLLDD  115 (287)
Q Consensus        94 ~iDeid-~~~~~~~~~L~~~l~~  115 (287)
                      ++||-. .+++.....+.+++.+
T Consensus       105 llDEP~~~LD~~~~~~l~~~l~~  127 (163)
T cd03216         105 ILDEPTAALTPAEVERLFKVIRR  127 (163)
T ss_pred             EEECCCcCCCHHHHHHHHHHHHH
Confidence            999976 6787777777776653

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.76  E-value=0.00023  Score=60.73  Aligned_cols=95  Identities=21%  Similarity=0.278  Sum_probs=51.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc---cccchhhhhCC-CCCCC--------cccchhhHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM---EKHTVSKFFGS-PPGYV--------GFENGGQLTEAV   85 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~---~~~~~~~~~~~-~~~~~--------~~~~~~~~~~~~   85 (287)
                      .+++++||+|+||||+.+.++..+......+ .++..+..   +...+...+.. +....        +......+...+
T Consensus       112 ~~~~i~g~~g~GKttl~~~l~~~~~~~~G~i-~~~g~~v~~~d~~~ei~~~~~~~~q~~~~~r~~v~~~~~k~~~~~~~i  190 (270)
T TIGR02858       112 LNTLIISPPQCGKTTLLRDLARILSTGISQL-GLRGKKVGIVDERSEIAGCVNGVPQHDVGIRTDVLDGCPKAEGMMMLI  190 (270)
T ss_pred             eEEEEEcCCCCCHHHHHHHHhCccCCCCceE-EECCEEeecchhHHHHHHHhcccccccccccccccccchHHHHHHHHH
Confidence            3799999999999999999999885433222 12211111   01111111111 10111        111123355566


Q ss_pred             HhCCcEEEEEcCcccccHHHHHHHHHhhcC
Q 047225           86 RHRPHSVILFDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        86 ~~~~~~il~iDeid~~~~~~~~~L~~~l~~  115 (287)
                      ......++++||+..  .+....+.+.++.
T Consensus       191 ~~~~P~villDE~~~--~e~~~~l~~~~~~  218 (270)
T TIGR02858       191 RSMSPDVIVVDEIGR--EEDVEALLEALHA  218 (270)
T ss_pred             HhCCCCEEEEeCCCc--HHHHHHHHHHHhC
Confidence            655668999999753  3444445555543

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.

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=97.75  E-value=0.00056  Score=54.15  Aligned_cols=96  Identities=23%  Similarity=0.307  Sum_probs=53.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEE--------ecccccccccchhhhhC--CCCCCCcccchh-hHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVR--------IDMSEYMEKHTVSKFFG--SPPGYVGFENGG-QLTEAVRH   87 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~--------~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~-~~~~~~~~   87 (287)
                      .+.+.||.|+||||+++.++..+......+..        +.-.......++.+.+.  ......+..... .+..++..
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~~~~~~LS~G~~~rv~laral~~  108 (166)
T cd03223          29 RLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFLPQRPYLPLGTLREQLIYPWDDVLSGGEQQRLAFARLLLH  108 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEECCCCccccccHHHHhhccCCCCCCHHHHHHHHHHHHHHc
Confidence            68999999999999999999987544332221        11000000111211111  111111111111 12333433


Q ss_pred             CCcEEEEEcCcc-cccHHHHHHHHHhhcC
Q 047225           88 RPHSVILFDEIE-KAHRDVLNVMLQLLDD  115 (287)
Q Consensus        88 ~~~~il~iDeid-~~~~~~~~~L~~~l~~  115 (287)
                      .+ .++++||-. .+++.....+.+++.+
T Consensus       109 ~p-~~lllDEPt~~LD~~~~~~l~~~l~~  136 (166)
T cd03223         109 KP-KFVFLDEATSALDEESEDRLYQLLKE  136 (166)
T ss_pred             CC-CEEEEECCccccCHHHHHHHHHHHHH
Confidence            33 799999977 6788888888888875

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PLN03210 Resistant to P

Probab=97.75  E-value=0.00059  Score=70.07  Aligned_cols=26  Identities=31%  Similarity=0.380  Sum_probs=23.1

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHhc
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      ...+.++|++|+||||+|+++++.+.
T Consensus       207 ~~vvgI~G~gGiGKTTLA~~l~~~l~  232 (1153)
T PLN03210        207 VRMVGIWGSSGIGKTTIARALFSRLS  232 (1153)
T ss_pred             eEEEEEEcCCCCchHHHHHHHHHHHh
Confidence            34799999999999999999988873

syringae 6; Provisional

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=97.74  E-value=9.8e-05  Score=57.85  Aligned_cols=94  Identities=20%  Similarity=0.315  Sum_probs=57.9

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccc---------hhhHHHHH
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN---------GGQLTEAV   85 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~   85 (287)
                      +|. .++|+|.+|+||||+|.+|.+.+...+...+..|.........  .       ..|+..         ...+.+.+
T Consensus        22 ~~~-viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LDGDnvR~gL~--~-------dLgFs~edR~eniRRvaevAkll   91 (197)
T COG0529          22 KGA-VIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNVRHGLN--R-------DLGFSREDRIENIRRVAEVAKLL   91 (197)
T ss_pred             CCe-EEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEecChhHhhccc--C-------CCCCChHHHHHHHHHHHHHHHHH
Confidence            444 7999999999999999999999988888888887765443211  0       112221         11234444


Q ss_pred             HhCCcEEEEEcCcccccHHHHHHHHHhhcCceeec
Q 047225           86 RHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTD  120 (287)
Q Consensus        86 ~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~  120 (287)
                      ...+  +++|=-+=-...+..+..++++..+.+..
T Consensus        92 ~daG--~iviva~ISP~r~~R~~aR~~~~~~~FiE  124 (197)
T COG0529          92 ADAG--LIVIVAFISPYREDRQMARELLGEGEFIE  124 (197)
T ss_pred             HHCC--eEEEEEeeCccHHHHHHHHHHhCcCceEE
Confidence            4443  44443333333455566677777765554

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=97.71  E-value=0.00023  Score=55.74  Aligned_cols=95  Identities=22%  Similarity=0.282  Sum_probs=52.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc--cchhhhhCCCCCCCcccchh-hHHHHHHhCCcEEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK--HTVSKFFGSPPGYVGFENGG-QLTEAVRHRPHSVILF   95 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~il~i   95 (287)
                      .+.|.||+|+|||++.+.++..+......+ +++.......  ......++......+..... .+..++... ..++++
T Consensus        27 ~~~i~G~nGsGKStll~~l~g~~~~~~G~i-~~~~~~~~~~~~~~~~~~i~~~~qlS~G~~~r~~l~~~l~~~-~~i~il  104 (157)
T cd00267          27 IVALVGPNGSGKSTLLRAIAGLLKPTSGEI-LIDGKDIAKLPLEELRRRIGYVPQLSGGQRQRVALARALLLN-PDLLLL  104 (157)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCccEE-EECCEEcccCCHHHHHhceEEEeeCCHHHHHHHHHHHHHhcC-CCEEEE
Confidence            689999999999999999998875433333 3333222110  00000010000011111111 123333333 379999


Q ss_pred             cCcc-cccHHHHHHHHHhhcC
Q 047225           96 DEIE-KAHRDVLNVMLQLLDD  115 (287)
Q Consensus        96 Deid-~~~~~~~~~L~~~l~~  115 (287)
                      ||.. .++......+.+++..
T Consensus       105 DEp~~~lD~~~~~~l~~~l~~  125 (157)
T cd00267         105 DEPTSGLDPASRERLLELLRE  125 (157)
T ss_pred             eCCCcCCCHHHHHHHHHHHHH
Confidence            9988 6777777777777663

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.70  E-value=0.00031  Score=62.53  Aligned_cols=84  Identities=29%  Similarity=0.445  Sum_probs=46.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCC-C-CceEEeccccccc--c---cchhhhhCCCCCCCcccchhhHHHHHH-hCC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGS-K-EAMVRIDMSEYME--K---HTVSKFFGSPPGYVGFENGGQLTEAVR-HRP   89 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~-~-~~~~~~~~~~~~~--~---~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~   89 (287)
                      .+++|+||+|+||||++..|+..+... + ..+..+++..+..  .   ......++-+...  ......+...+. ...
T Consensus       138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~--~~~~~~l~~~l~~l~~  215 (374)
T PRK14722        138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHA--VKDGGDLQLALAELRN  215 (374)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEe--cCCcccHHHHHHHhcC
Confidence            379999999999999999999876322 2 3455555554421  1   1112233322111  111122333222 234


Q ss_pred             cEEEEEcCcccccH
Q 047225           90 HSVILFDEIEKAHR  103 (287)
Q Consensus        90 ~~il~iDeid~~~~  103 (287)
                      ..+++||.....+.
T Consensus       216 ~DlVLIDTaG~~~~  229 (374)
T PRK14722        216 KHMVLIDTIGMSQR  229 (374)
T ss_pred             CCEEEEcCCCCCcc
Confidence            46999999987653

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=97.69  E-value=0.00035  Score=65.36  Aligned_cols=39  Identities=18%  Similarity=0.314  Sum_probs=30.4

Q ss_pred             cEEEEEcCcc-cccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecC
Q 047225           90 HSVILFDEIE-KAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNI  139 (287)
Q Consensus        90 ~~il~iDeid-~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~  139 (287)
                      +.++|+||.- .++++....+.+++++.           ++++.+|-.+..
T Consensus       534 P~~v~LDEATsALDe~~e~~l~q~l~~~-----------lp~~tvISV~Hr  573 (604)
T COG4178         534 PKWVFLDEATSALDEETEDRLYQLLKEE-----------LPDATVISVGHR  573 (604)
T ss_pred             CCEEEEecchhccChHHHHHHHHHHHhh-----------CCCCEEEEeccc
Confidence            3899999987 67999999999999862           345667776654

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.68  E-value=0.00025  Score=58.81  Aligned_cols=26  Identities=27%  Similarity=0.287  Sum_probs=23.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.+.||+||||||+.+.+|....+.
T Consensus        31 fvsilGpSGcGKSTLLriiAGL~~p~   56 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGLEKPT   56 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            58999999999999999999987443

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=97.68  E-value=0.00021  Score=56.86  Aligned_cols=39  Identities=28%  Similarity=0.376  Sum_probs=32.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      .+++.|+||+|||+++..++..+...+..+..+++..+.
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~~~   40 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYR   40 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Confidence            478999999999999999999886556677778876553

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=97.68  E-value=0.00049  Score=65.09  Aligned_cols=95  Identities=20%  Similarity=0.221  Sum_probs=59.3

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEe-cccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEE
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRI-DMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILF   95 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~i   95 (287)
                      .+.++++||+|+||||+..++.+.+......++++ |..++.-..-.+..+   ....|.+....+...++..| .++++
T Consensus       316 ~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~tiEdpvE~~~~~~~q~~v---~~~~g~~~~~~l~~~LR~dP-DvI~v  391 (564)
T TIGR02538       316 QGMVLVTGPTGSGKTVSLYTALNILNTEEVNISTAEDPVEINLPGINQVNV---NPKIGLTFAAALRSFLRQDP-DIIMV  391 (564)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEEecCCceecCCCceEEEe---ccccCCCHHHHHHHHhccCC-CEEEe
Confidence            35799999999999999988877775444455544 333333211101000   11223444445666777666 89999


Q ss_pred             cCcccccHHHHHHHHHhhcCce
Q 047225           96 DEIEKAHRDVLNVMLQLLDDGR  117 (287)
Q Consensus        96 Deid~~~~~~~~~L~~~l~~~~  117 (287)
                      .|+.  +.+......+...+|.
T Consensus       392 GEiR--d~eta~~a~~aa~tGH  411 (564)
T TIGR02538       392 GEIR--DLETAEIAIKAAQTGH  411 (564)
T ss_pred             CCCC--CHHHHHHHHHHHHcCC
Confidence            9998  6666666677777664

This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.67  E-value=6e-05  Score=59.86  Aligned_cols=28  Identities=21%  Similarity=0.379  Sum_probs=24.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMV   49 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~   49 (287)
                      .++|+|+||||||++++.|++.+   +.+++
T Consensus         6 ~i~l~G~~GsGKstla~~La~~l---~~~~~   33 (175)
T PRK00131          6 NIVLIGFMGAGKSTIGRLLAKRL---GYDFI   33 (175)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh---CCCEE
Confidence            69999999999999999999998   44444

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=97.66  E-value=0.00019  Score=63.97  Aligned_cols=96  Identities=19%  Similarity=0.225  Sum_probs=51.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh--cCCCCceEEecccccccccchhhhhCCCC--CCC--cccchhhHHHHHH-----h
Q 047225           19 SFLFTGPTGVGKTELANALAFEY--FGSKEAMVRIDMSEYMEKHTVSKFFGSPP--GYV--GFENGGQLTEAVR-----H   87 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~-----~   87 (287)
                      .+++.|.||||||.++-.++..+  ...+.....+....... ..+...+....  ...  .......+...+.     .
T Consensus         3 v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~-~~l~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   81 (352)
T PF09848_consen    3 VILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLR-NKLREQLAKKYNPKLKKSDFRKPTSFINNYSESDKEK   81 (352)
T ss_pred             EEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHH-HHHHHHHhhhcccchhhhhhhhhHHHHhhcccccccC
Confidence            68999999999999999999988  33333333333222111 11122221111  000  0011112222222     2


Q ss_pred             CCcEEEEEcCcccccHH--------HHHHHHHhhcC
Q 047225           88 RPHSVILFDEIEKAHRD--------VLNVMLQLLDD  115 (287)
Q Consensus        88 ~~~~il~iDeid~~~~~--------~~~~L~~~l~~  115 (287)
                      ....+|++||++++...        ..+.|..++..
T Consensus        82 ~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~  117 (352)
T PF09848_consen   82 NKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKR  117 (352)
T ss_pred             CcCCEEEEehhHhhhhccccccccccHHHHHHHHhc
Confidence            34679999999998772        23556666665

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>TIGR02653 Lon_rel_chp conserved hypothetical protein

Probab=97.65  E-value=0.00032  Score=65.81  Aligned_cols=139  Identities=18%  Similarity=0.323  Sum_probs=79.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhC----CCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFG----SPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      |++=.||.|||||++=+.+.-..       ..++.++.+    ...+|-    ...|.+|              .+++++
T Consensus       218 Nl~ELgPrgTGKS~~y~eiSp~~-------~liSGG~~T----~A~LFyn~~~~~~GlVg--------------~~D~Va  272 (675)
T TIGR02653       218 NLCELGPRGTGKSHVYKECSPNS-------ILMSGGQTT----VANLFYNMSTRQIGLVG--------------MWDVVA  272 (675)
T ss_pred             ceEEECCCCCCcceeeeccCCce-------EEEECCccc----hhHeeEEcCCCceeEEe--------------eccEEE
Confidence            68999999999999877554221       222222221    122221    1111121              346999


Q ss_pred             EcCcccc---cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCch--hhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225           95 FDEIEKA---HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDS--VIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus        95 iDeid~~---~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      |||+...   +++.+..+...|+.|.+..+. ..+ ..++-+++-.|....  ...+ ..--+..+++...      -..
T Consensus       273 FDEva~i~f~d~d~v~imK~YM~sG~FsRG~-~~~-~a~as~vfvGNi~~~v~~~~k-~~~lf~~lP~~~~------~Ds  343 (675)
T TIGR02653       273 FDEVAGIEFKDKDGVQIMKDYMASGSFARGK-ESI-EGKASIVFVGNINQSVETLVK-TSHLFAPFPEAMR------IDT  343 (675)
T ss_pred             EeeccccccCCHHHHHHHHHHhhcCcccccc-ccc-ccceeEEEEcccCCchHHHhh-cccccccCChhhc------ccc
Confidence            9999854   667888999999999887644 222 256677777776522  1101 0000222333321      146


Q ss_pred             hHHhccCce---EEeCCCCHHHHHH
Q 047225          170 EFLNRIDEV---IVFRQLNKMQLME  191 (287)
Q Consensus       170 ~l~~r~~~~---i~~~~~~~~~~~~  191 (287)
                      +|++||+..   ..+|-++.+.+.+
T Consensus       344 AflDRiH~yiPGWeiPk~~~e~~t~  368 (675)
T TIGR02653       344 AFFDRFHYYIPGWEIPKMRPEYFTN  368 (675)
T ss_pred             hHHHHhhccCcCCcCccCCHHHccc
Confidence            899999644   6788887764433

This model describes a protein family of unknown function, about 690 residues in length, in which some members show C-terminal sequence similarity to Pfam model pfam05362, which is the Lon protease C-terminal proteolytic domain, from MEROPS family S16. However, the annotated catalytic sites of E. coli Lon protease are not conserved in members of this family. Members have a motif GP[RK][GS]TGKS, similar to the ATP-binding P-loop motif GxxGxGK[ST].

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=97.65  E-value=7.5e-05  Score=64.01  Aligned_cols=92  Identities=29%  Similarity=0.376  Sum_probs=52.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEec-ccccccccch-hhhhCCCCCCCcccchhhHHHHHHhCCcEEEEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRID-MSEYMEKHTV-SKFFGSPPGYVGFENGGQLTEAVRHRPHSVILF   95 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~i   95 (287)
                      +++++.||+|+||||+.+++...+......++++. ..++.-.... ..+...   ....+....+...++..| +++++
T Consensus       128 ~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~~l~~~~~~~~~~~---~~~~~~~~~l~~~LR~~p-D~iii  203 (270)
T PF00437_consen  128 GNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPELRLPGPNQIQIQTR---RDEISYEDLLKSALRQDP-DVIII  203 (270)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S--SCSSEEEEEEE---TTTBSHHHHHHHHTTS---SEEEE
T ss_pred             eEEEEECCCccccchHHHHHhhhccccccceEEeccccceeecccceEEEEee---cCcccHHHHHHHHhcCCC-Ccccc
Confidence            47999999999999999999998866535555543 2332211100 000000   011222233445555554 79999


Q ss_pred             cCcccccHHHHHHHHHhhcCc
Q 047225           96 DEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        96 Deid~~~~~~~~~L~~~l~~~  116 (287)
                      +|+...  +.... .+.++.|
T Consensus       204 gEiR~~--e~~~~-~~a~~tG  221 (270)
T PF00437_consen  204 GEIRDP--EAAEA-IQAANTG  221 (270)
T ss_dssp             SCE-SC--HHHHH-HHHHHTT
T ss_pred             cccCCH--hHHHH-HHhhccC
Confidence            999954  55555 7777765

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>PRK10867 signal recognition particle protein; Provisional

Probab=97.64  E-value=0.00038  Score=63.32  Aligned_cols=97  Identities=19%  Similarity=0.289  Sum_probs=56.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCC-CCceEEeccccccccc--ch---hhhhCCC--CCCCcccchhhH---HHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGS-KEAMVRIDMSEYMEKH--TV---SKFFGSP--PGYVGFENGGQL---TEAVR   86 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~-~~~~~~~~~~~~~~~~--~~---~~~~~~~--~~~~~~~~~~~~---~~~~~   86 (287)
                      ..++++|++|+||||++..||..+... +..+..+++..+....  .+   ....+-+  ....+.+.....   .+...
T Consensus       101 ~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~~~~~~dp~~i~~~a~~~a~  180 (433)
T PRK10867        101 TVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAALEEAK  180 (433)
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCeEEecCCCCCHHHHHHHHHHHHH
Confidence            379999999999999999999887555 5677777777655321  11   1111111  000111111112   22334


Q ss_pred             hCCcEEEEEcCccccc--HHHHHHHHHhhc
Q 047225           87 HRPHSVILFDEIEKAH--RDVLNVMLQLLD  114 (287)
Q Consensus        87 ~~~~~il~iDeid~~~--~~~~~~L~~~l~  114 (287)
                      ...+.++++|=.-+.+  ......|..+.+
T Consensus       181 ~~~~DvVIIDTaGrl~~d~~lm~eL~~i~~  210 (433)
T PRK10867        181 ENGYDVVIVDTAGRLHIDEELMDELKAIKA  210 (433)
T ss_pred             hcCCCEEEEeCCCCcccCHHHHHHHHHHHH
Confidence            4556799999998774  445555544443

>PRK10436 hypothetical protein; Provisional

Probab=97.63  E-value=0.00028  Score=64.77  Aligned_cols=96  Identities=22%  Similarity=0.273  Sum_probs=57.4

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEe-cccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRI-DMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      |.+.++++||+|+||||+..++...+......++++ |..++.-..-.+.-+   ....|.+....+...++..| ++++
T Consensus       217 ~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~TiEDPvE~~l~gi~Q~~v---~~~~g~~f~~~lr~~LR~dP-DvI~  292 (462)
T PRK10436        217 PQGLILVTGPTGSGKTVTLYSALQTLNTAQINICSVEDPVEIPLAGINQTQI---HPKAGLTFQRVLRALLRQDP-DVIM  292 (462)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEEecCCccccCCCcceEee---CCccCcCHHHHHHHHhcCCC-CEEE
Confidence            345799999999999999888777774444455444 233332211001001   11123334445666676666 8999


Q ss_pred             EcCcccccHHHHHHHHHhhcCce
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDGR  117 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~~  117 (287)
                      +.|+-  +.+......+...+|.
T Consensus       293 vGEIR--D~eta~~al~AA~TGH  313 (462)
T PRK10436        293 VGEIR--DGETAEIAIKAAQTGH  313 (462)
T ss_pred             ECCCC--CHHHHHHHHHHHHcCC
Confidence            99998  4555555566666654

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=97.63  E-value=0.00031  Score=56.42  Aligned_cols=113  Identities=12%  Similarity=0.160  Sum_probs=62.3

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc--cc--cccccchhhh-------hCCCCCCCcccc--------
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM--SE--YMEKHTVSKF-------FGSPPGYVGFEN--------   77 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~--~~--~~~~~~~~~~-------~~~~~~~~~~~~--------   77 (287)
                      .+.+.++|++|.|||++|-.++-+..+.+.++..+..  +.  +.+...+..+       +|..........        
T Consensus        22 ~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~~~  101 (191)
T PRK05986         22 KGLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAAAR  101 (191)
T ss_pred             CCeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHHHH
Confidence            3579999999999999999999887666655544433  22  1111112111       011001110000        


Q ss_pred             --hhhHHHHHHhCCcEEEEEcCcccccH-H--HHHHHHHhhcCceeecCCCceeeccceEEEEeecCC
Q 047225           78 --GGQLTEAVRHRPHSVILFDEIEKAHR-D--VLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIG  140 (287)
Q Consensus        78 --~~~~~~~~~~~~~~il~iDeid~~~~-~--~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~  140 (287)
                        -....+.+..+.+++|++||+..+-. +  ..+.+..+++.+.           ++.-+|+|....
T Consensus       102 ~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp-----------~~~evVlTGR~~  158 (191)
T PRK05986        102 EGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARP-----------GMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCC-----------CCCEEEEECCCC
Confidence              01123455567789999999985422 1  2234555665432           234588888644

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.62  E-value=0.00036  Score=54.54  Aligned_cols=111  Identities=18%  Similarity=0.218  Sum_probs=60.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc--c--ccccccchhhh-------hCCCCCCCcccc----------
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM--S--EYMEKHTVSKF-------FGSPPGYVGFEN----------   77 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~--~--~~~~~~~~~~~-------~~~~~~~~~~~~----------   77 (287)
                      -+.+++++|.|||++|-.++-+..+.+.....+..  +  .+.+...+..+       +|..........          
T Consensus         4 ~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~~~gE~~~l~~l~~v~~~~~g~~~~~~~~~~~~~~~~a~~~   83 (159)
T cd00561           4 LIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGGWKYGELKALERLPNIEIHRMGRGFFWTTENDEEDIAAAAEG   83 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCCccCHHHHHHhCCCcEEEECCCCCccCCCChHHHHHHHHHH
Confidence            47888899999999999998887665655544322  2  11111111111       010000000000          


Q ss_pred             hhhHHHHHHhCCcEEEEEcCcccc-cHH--HHHHHHHhhcCceeecCCCceeeccceEEEEeecCC
Q 047225           78 GGQLTEAVRHRPHSVILFDEIEKA-HRD--VLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIG  140 (287)
Q Consensus        78 ~~~~~~~~~~~~~~il~iDeid~~-~~~--~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~  140 (287)
                      -....+.+....+++|++||+..+ +.+  ..+.+.++++.+.           ++.-+|+|+...
T Consensus        84 ~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp-----------~~~evIlTGr~~  138 (159)
T cd00561          84 WAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKP-----------EDLELVLTGRNA  138 (159)
T ss_pred             HHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCC-----------CCCEEEEECCCC
Confidence            011234555577889999999965 222  2345677777542           233588888643

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.61  E-value=0.00051  Score=61.44  Aligned_cols=84  Identities=17%  Similarity=0.215  Sum_probs=52.1

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccccc-chhhhhCCCCCC---CcccchhhHHHHHHhCCcEEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKH-TVSKFFGSPPGY---VGFENGGQLTEAVRHRPHSVI   93 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~il   93 (287)
                      ..+++.|+||+|||+++..++..+...+.+.++++..+..... .....++.....   ........+.+.+......++
T Consensus        83 slvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs~~qi~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~~~~~lV  162 (372)
T cd01121          83 SVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEESPEQIKLRADRLGISTENLYLLAETNLEDILASIEELKPDLV  162 (372)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcCHHHHHHHHHHcCCCcccEEEEccCcHHHHHHHHHhcCCcEE
Confidence            3699999999999999999998875555677777765432211 001122211110   111223456666666667899


Q ss_pred             EEcCcccc
Q 047225           94 LFDEIEKA  101 (287)
Q Consensus        94 ~iDeid~~  101 (287)
                      +||++..+
T Consensus       163 VIDSIq~l  170 (372)
T cd01121         163 IIDSIQTV  170 (372)
T ss_pred             EEcchHHh
Confidence            99999755

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.

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases

Probab=97.60  E-value=0.00013  Score=60.96  Aligned_cols=87  Identities=20%  Similarity=0.234  Sum_probs=44.6

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCcc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIE   99 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid   99 (287)
                      +++.|+||+|||++++.+....  .......-.+..+....      .......+..................++|||+.
T Consensus         1 ~vv~G~pGsGKSt~i~~~~~~~--~~~~~~~~~~~~~~~~~------~~~~~~~~~~v~s~~~~~~~~~~~~~liiDE~~   72 (234)
T PF01443_consen    1 IVVHGVPGSGKSTLIKKLLKDR--LVVTVISPTIELYTEWL------PDPPSKSVRTVDSFLKALVKPKSYDTLIIDEAQ   72 (234)
T ss_pred             CEEEcCCCCCHHHHHHHHHHhc--cccccccccceeccccc------cccCCccccEEeEhhhcccccCcCCEEEEeccc
Confidence            4689999999999999998873  00000000011111110      000111111111111111111235699999999


Q ss_pred             cccHHHHHHHHHhhc
Q 047225          100 KAHRDVLNVMLQLLD  114 (287)
Q Consensus       100 ~~~~~~~~~L~~~l~  114 (287)
                      .+++..+..+.....
T Consensus        73 ~~~~g~l~~l~~~~~   87 (234)
T PF01443_consen   73 LLPPGYLLLLLSLSP   87 (234)
T ss_pred             cCChHHHHHHHhhcc
Confidence            999988777655544

Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=97.59  E-value=0.00022  Score=58.02  Aligned_cols=94  Identities=17%  Similarity=0.368  Sum_probs=61.8

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      ..++|.|+-|+|||+..+.|....+...       .....                    .......+....  ++.+||
T Consensus        53 ~~lvl~G~QG~GKStf~~~L~~~~~~d~-------~~~~~--------------------~kd~~~~l~~~~--iveldE  103 (198)
T PF05272_consen   53 TVLVLVGKQGIGKSTFFRKLGPEYFSDS-------INDFD--------------------DKDFLEQLQGKW--IVELDE  103 (198)
T ss_pred             eeeeEecCCcccHHHHHHHHhHHhccCc-------cccCC--------------------CcHHHHHHHHhH--heeHHH
Confidence            3699999999999999999965542211       00000                    012333343333  899999


Q ss_pred             cccccHHHHHHHHHhhcCceee--cCCC-ceeecc-ceEEEEeecCC
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVT--DGKG-QTVDLK-NTIIIMTSNIG  140 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~--~~~g-~~i~~~-~~~iI~t~n~~  140 (287)
                      ++.+....++.|..++......  .+.+ .....+ .++||+|+|..
T Consensus       104 l~~~~k~~~~~lK~~iT~~~~~~R~pY~~~~~~~~R~~~figTtN~~  150 (198)
T PF05272_consen  104 LDGLSKKDVEALKSFITRRTDTYRPPYGRDPEEFPRRAVFIGTTNDD  150 (198)
T ss_pred             HhhcchhhHHHHHHHhcccceeeecCCcCcceeeceeEEEEeccCCc
Confidence            9999988889999998865433  2223 233344 57889999974

>PRK03846 adenylylsulfate kinase; Provisional

Probab=97.57  E-value=0.00024  Score=57.99  Aligned_cols=44  Identities=23%  Similarity=0.298  Sum_probs=33.1

Q ss_pred             CCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           12 DPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        12 ~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      .+.+|. .+.|+|++|+||||+++.|+..+...+...+.++....
T Consensus        20 ~~~~~~-~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld~d~~   63 (198)
T PRK03846         20 HGHKGV-VLWFTGLSGSGKSTVAGALEEALHELGVSTYLLDGDNV   63 (198)
T ss_pred             cCCCCE-EEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEEcCEeH
Confidence            344555 69999999999999999999988655555566655443

>PRK03839 putative kinase; Provisional

Probab=97.57  E-value=8.1e-05  Score=59.71  Aligned_cols=23  Identities=39%  Similarity=0.533  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+|+||+||||+++.|++.+
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999998

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.57  E-value=0.00013  Score=48.75  Aligned_cols=22  Identities=36%  Similarity=0.537  Sum_probs=20.8

Q ss_pred             EEEeccCCChHHHHHHHHHHHh
Q 047225           20 FLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +++.|++|+|||++++.+++.+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999999987

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=97.57  E-value=0.00017  Score=60.90  Aligned_cols=26  Identities=27%  Similarity=0.291  Sum_probs=23.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .++|+||+|+|||++++.+++.+...
T Consensus        18 r~~I~G~~G~GKTTLlr~I~n~l~~~   43 (249)
T cd01128          18 RGLIVAPPKAGKTTLLQSIANAITKN   43 (249)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccccc
Confidence            59999999999999999999988543

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>PRK13947 shikimate kinase; Provisional

Probab=97.56  E-value=8.9e-05  Score=58.88  Aligned_cols=29  Identities=21%  Similarity=0.364  Sum_probs=25.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVR   50 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~   50 (287)
                      +++|+|+||||||++++.||+.+   +.+++.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l---g~~~id   31 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL---SFGFID   31 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh---CCCEEE
Confidence            59999999999999999999998   555543

>PRK00625 shikimate kinase; Provisional

Probab=97.56  E-value=8.9e-05  Score=59.06  Aligned_cols=30  Identities=27%  Similarity=0.304  Sum_probs=25.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEe
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRI   51 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~   51 (287)
                      +++|+|.||+||||+++.|++.+   +.+++..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l---~~~~id~   31 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL---SLPFFDT   31 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh---CCCEEEh
Confidence            59999999999999999999998   4444433

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=97.56  E-value=0.00041  Score=61.90  Aligned_cols=96  Identities=20%  Similarity=0.266  Sum_probs=55.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcC--CCCceEEec-ccccccccchhhhhCCCCCCCcc---cchhhHHHHHHhCCcE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFG--SKEAMVRID-MSEYMEKHTVSKFFGSPPGYVGF---ENGGQLTEAVRHRPHS   91 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~--~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~   91 (287)
                      +.++++||+|+||||+.+++...+..  ....++++. ..++.-... ...........+.   .....+..+++..| +
T Consensus       150 GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~~~~~-~~~~~~~q~evg~~~~~~~~~l~~aLR~~P-D  227 (372)
T TIGR02525       150 GLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYILGSP-DDLLPPAQSQIGRDVDSFANGIRLALRRAP-K  227 (372)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhccCCC-ceeecccccccCCCccCHHHHHHHhhccCC-C
Confidence            46999999999999999999888742  233455442 233321110 0000000111111   11234455666655 8


Q ss_pred             EEEEcCcccccHHHHHHHHHhhcCce
Q 047225           92 VILFDEIEKAHRDVLNVMLQLLDDGR  117 (287)
Q Consensus        92 il~iDeid~~~~~~~~~L~~~l~~~~  117 (287)
                      ++++.|+-  +.+.....++..+.|.
T Consensus       228 ~I~vGEiR--d~et~~~al~aa~TGH  251 (372)
T TIGR02525       228 IIGVGEIR--DLETFQAAVLAGQSGH  251 (372)
T ss_pred             EEeeCCCC--CHHHHHHHHHHHhcCC
Confidence            99999998  5566666677888763

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=97.54  E-value=0.0003  Score=66.59  Aligned_cols=27  Identities=22%  Similarity=0.378  Sum_probs=23.0

Q ss_pred             CcEEEEEcCcccccHHHHHHHHHhhcC
Q 047225           89 PHSVILFDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        89 ~~~il~iDeid~~~~~~~~~L~~~l~~  115 (287)
                      +..+|+|||+..++......|++.+..
T Consensus       259 ~~dvlIiDEaSMvd~~l~~~ll~al~~  285 (586)
T TIGR01447       259 PLDVLVVDEASMVDLPLMAKLLKALPP  285 (586)
T ss_pred             cccEEEEcccccCCHHHHHHHHHhcCC
Confidence            457999999999999998888887764

This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.54  E-value=7.5e-05  Score=57.30  Aligned_cols=22  Identities=41%  Similarity=0.705  Sum_probs=21.0

Q ss_pred             EEEeccCCChHHHHHHHHHHHh
Q 047225           20 FLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ++++||||+||||+++.++..+
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHC
Confidence            7899999999999999999887

...

>PRK06696 uridine kinase; Validated

Probab=97.53  E-value=0.00012  Score=60.88  Aligned_cols=46  Identities=26%  Similarity=0.415  Sum_probs=36.1

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK   59 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~   59 (287)
                      +++|. .|.+.|++|+||||+|+.|++.+...+.+.+.+.+.++...
T Consensus        19 ~~~~~-iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf~~~   64 (223)
T PRK06696         19 LTRPL-RVAIDGITASGKTTFADELAEEIKKRGRPVIRASIDDFHNP   64 (223)
T ss_pred             CCCce-EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeccccccCC
Confidence            34555 69999999999999999999999655556677777776643

>PF00519 PPV_E1_C: Papillomavirus helicase; InterPro: IPR001177 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species

Probab=97.53  E-value=0.00021  Score=62.90  Aligned_cols=128  Identities=17%  Similarity=0.213  Sum_probs=70.0

Q ss_pred             hhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHH
Q 047225            6 ARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAV   85 (287)
Q Consensus         6 ~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (287)
                      +|.-++.-.+.. .++|+|||.||||..+..|.+.+.   ..++.+--+. +                     +.-..-+
T Consensus       252 lk~~Lkg~PKKn-Clvi~GPPdTGKS~F~~SLi~Fl~---GkViSf~Ns~-S---------------------hFWLqPL  305 (432)
T PF00519_consen  252 LKQFLKGIPKKN-CLVIYGPPDTGKSMFCMSLIKFLK---GKVISFVNSK-S---------------------HFWLQPL  305 (432)
T ss_dssp             HHHHHHTBTTSS-EEEEESSCCCSHHHHHHHHHHHHT---SEEE-GGGTT-S---------------------CGGGGGG
T ss_pred             HHHHHhCCCccc-EEEEECCCCCchhHHHHHHHHHhC---CEEEEecCCC-C---------------------cccccch
Confidence            344444422333 599999999999999999999883   3333221110 0                     1111222


Q ss_pred             HhCCcEEEEEcCcccccHHHHHH-HHHhhcCceeecC--CCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           86 RHRPHSVILFDEIEKAHRDVLNV-MLQLLDDGRVTDG--KGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        86 ~~~~~~il~iDeid~~~~~~~~~-L~~~l~~~~~~~~--~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      .++.  +.+|||+-..-=+..+. |+.+++...+...  ....+...-..+++|||.....-.                 
T Consensus       306 ~d~K--i~llDDAT~~cW~Y~D~ylRNaLDGN~vsiD~KHkap~Qik~PPLlITsN~dv~~~~-----------------  366 (432)
T PF00519_consen  306 ADAK--IALLDDATYPCWDYIDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVKKDD-----------------  366 (432)
T ss_dssp             CT-S--SEEEEEE-HHHHHHHHHHTHHHHCTSEEEEEESSSEEEEEE---EEEEESS-TTTSC-----------------
T ss_pred             hcCc--EEEEcCCcccHHHHHHHHHHhccCCCeeeeeccCCCceEeecCceEEecCCCCCcch-----------------
Confidence            2223  89999998766666654 6777876554432  233333333468899998654321                 


Q ss_pred             HHhcCChhHHhccCceEEeCC
Q 047225          163 LRRRFRPEFLNRIDEVIVFRQ  183 (287)
Q Consensus       163 ~~~~~~~~l~~r~~~~i~~~~  183 (287)
                         .+ .-|.+|+ ..+.|+.
T Consensus       367 ---~~-~YLhSRi-~~f~F~n  382 (432)
T PF00519_consen  367 ---RW-KYLHSRI-TCFEFPN  382 (432)
T ss_dssp             ---CC-HHHCTTE-EEEE--S
T ss_pred             ---hh-hhhhheE-EEEEcCC
Confidence               12 3467898 7777753

The helicase E1 protein is an ATP-dependent DNA helicase required for initiation of viral DNA replication []. It forms a complex with the viral E2 protein, which is a site-specific DNA-binding transcriptional activator. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins []. The E1 protein is a 70 kDa polypeptide with a central DNA-binding domain and a C-terminal ATPase/helicase domain. It binds specific 18 bp DNA sequences at the origin of replication, melts the DNA duplex and functions as a 3' to 5' helicase []. In addition to E2 it also interacts with DNA polymerase alpha and replication protein A to effect DNA replication. The DNA-binding domain forms a five-stranded antiparallel beta sheet bordered by four loosely packed alpha helices on one side and two tightly packed helices on the other []. Two structural modules within this domain, an extended loop and a helix, contain conserved residues and are critical for DNA binding. In solution E1 is a monomer, but binds DNA as a dimer. Recruitment of more E1 subunits to the complex leads to melting of the origin and ultimately to the formation of an E1 hexamer with helicase activity []. The entry represents the C-terminal region of E1, containing both the DNA-binding and ATPase/helical domains.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1TUE_K 1R9W_A 2V9P_B 2GXA_I 1KSX_J 1KSY_A 1F08_B.

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=97.53  E-value=0.00032  Score=68.20  Aligned_cols=90  Identities=17%  Similarity=0.149  Sum_probs=52.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCC--CceEEeccccccc----------ccchhhhhCCCCCCCcccchhhHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSK--EAMVRIDMSEYME----------KHTVSKFFGSPPGYVGFENGGQLTEAVR   86 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~--~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (287)
                      .+++.|+||||||++++.+.+.+...+  ..+...-.+.-..          ..++..+++.....       .......
T Consensus       340 ~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~g~~a~Tih~lL~~~~~~-------~~~~~~~  412 (720)
T TIGR01448       340 VVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTGLTASTIHRLLGYGPDT-------FRHNHLE  412 (720)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhcCCccccHHHHhhccCCc-------cchhhhh
Confidence            699999999999999999988774433  3333222221110          01222222211110       0000001


Q ss_pred             -hCCcEEEEEcCcccccHHHHHHHHHhhcC
Q 047225           87 -HRPHSVILFDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        87 -~~~~~il~iDeid~~~~~~~~~L~~~l~~  115 (287)
                       .....+|++||+..++......|++.+..
T Consensus       413 ~~~~~~llIvDEaSMvd~~~~~~Ll~~~~~  442 (720)
T TIGR01448       413 DPIDCDLLIVDESSMMDTWLALSLLAALPD  442 (720)
T ss_pred             ccccCCEEEEeccccCCHHHHHHHHHhCCC
Confidence             12346999999999999998888887654

This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=97.53  E-value=0.00021  Score=57.76  Aligned_cols=93  Identities=30%  Similarity=0.428  Sum_probs=49.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc-ccccccc-chhhhhCCCC---CCCcccchhhHHHHHHhCCcEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM-SEYMEKH-TVSKFFGSPP---GYVGFENGGQLTEAVRHRPHSVI   93 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~il   93 (287)
                      +++|.||+|+||||+.+++...+... ...+.+.. .+..... ....+.....   .....+....+...++..+ .++
T Consensus        27 ~i~I~G~tGSGKTTll~aL~~~i~~~-~~~i~ied~~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~lR~~p-d~i  104 (186)
T cd01130          27 NILISGGTGSGKTTLLNALLAFIPPD-ERIITIEDTAELQLPHPNWVRLVTRPGNVEGSGEVTMADLLRSALRMRP-DRI  104 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhcCCC-CCEEEECCccccCCCCCCEEEEEEecCCCCCCCccCHHHHHHHHhccCC-CEE
Confidence            69999999999999999999887543 33444322 1211100 0000100000   0111112222333444444 899


Q ss_pred             EEcCcccccHHHHHHHHHhhcCc
Q 047225           94 LFDEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        94 ~iDeid~~~~~~~~~L~~~l~~~  116 (287)
                      +++|+-.  ++... +++.+..|
T Consensus       105 ~igEir~--~ea~~-~~~a~~tG  124 (186)
T cd01130         105 IVGEVRG--GEALD-LLQAMNTG  124 (186)
T ss_pred             EEEccCc--HHHHH-HHHHHhcC
Confidence            9999985  34444 45556654

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.52  E-value=0.00024  Score=58.41  Aligned_cols=37  Identities=30%  Similarity=0.356  Sum_probs=31.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      .+.++||||+|||+++..++......+...+++++..
T Consensus        14 i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~   50 (209)
T TIGR02237        14 ITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG   50 (209)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence            6999999999999999999887755567888888865

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>TIGR00959 ffh signal recognition particle protein

Probab=97.51  E-value=0.00077  Score=61.29  Aligned_cols=97  Identities=16%  Similarity=0.271  Sum_probs=55.6

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhc-CCCCceEEecccccccc--c---chhhhhCCCCCCCc--ccch---hhHHH
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYF-GSKEAMVRIDMSEYMEK--H---TVSKFFGSPPGYVG--FENG---GQLTE   83 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~-~~~~~~~~~~~~~~~~~--~---~~~~~~~~~~~~~~--~~~~---~~~~~   83 (287)
                      +|. .++++|++|+||||++..+|..+. ..+..+..++|..+...  .   ......+.+.-..+  ....   ....+
T Consensus        98 ~p~-vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~al~  176 (428)
T TIGR00959        98 PPT-VILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALE  176 (428)
T ss_pred             CCE-EEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHHHH
Confidence            344 799999999999999999998874 34667777888765532  1   11111221111111  1111   11222


Q ss_pred             HHHhCCcEEEEEcCccccc--HHHHHHHHHh
Q 047225           84 AVRHRPHSVILFDEIEKAH--RDVLNVMLQL  112 (287)
Q Consensus        84 ~~~~~~~~il~iDeid~~~--~~~~~~L~~~  112 (287)
                      .+....+.++++|-..+.+  ......|..+
T Consensus       177 ~~~~~~~DvVIIDTaGr~~~d~~l~~eL~~i  207 (428)
T TIGR00959       177 YAKENGFDVVIVDTAGRLQIDEELMEELAAI  207 (428)
T ss_pred             HHHhcCCCEEEEeCCCccccCHHHHHHHHHH
Confidence            3334556799999988764  4444444443

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>TIGR01613 primase_Cterm phage/plasmid primase, P4 family, C-terminal domain

Probab=97.50  E-value=0.0026  Score=55.57  Aligned_cols=123  Identities=19%  Similarity=0.218  Sum_probs=68.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      .-++|+|+.|+|||++.+.|...++....   ....+...     .. +..          .. +......+..++++||
T Consensus        77 ~~~~l~G~g~nGKStl~~~l~~l~G~~~~---~~~~~~~~-----~~-~~~----------~~-f~~a~l~gk~l~~~~E  136 (304)
T TIGR01613        77 KLFFLYGNGGNGKSTFQNLLSNLLGDYAT---TAVASLKM-----NE-FQE----------HR-FGLARLEGKRAVIGDE  136 (304)
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHhChhhc---cCCcchhh-----hh-ccC----------CC-chhhhhcCCEEEEecC
Confidence            35999999999999999999877733221   11111000     00 000          01 1111122335899999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCC--Cceeec-cceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhc
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGK--GQTVDL-KNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNR  174 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~--g~~i~~-~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r  174 (287)
                      ++.-.....+.|..+.....+....  ...+.+ +.+.+|+++|..+..-                     ..+.++.+|
T Consensus       137 ~~~~~~~~~~~lK~lt~gd~i~~~~k~k~~~~~~~~~~~i~~tN~~P~~~---------------------~~~~a~~RR  195 (304)
T TIGR01613       137 VQKGYRDDESTFKSLTGGDTITARFKNKDPFEFTPKFTLVQSTNHLPRIR---------------------GFDGGIKRR  195 (304)
T ss_pred             CCCCccccHHhhhhhhcCCeEEeecccCCcEEEEEeeEEEEEcCCCCccC---------------------CCChhheee
Confidence            9854433445666666544444331  233333 3678888998754321                     124678889


Q ss_pred             cCceEEeC
Q 047225          175 IDEVIVFR  182 (287)
Q Consensus       175 ~~~~i~~~  182 (287)
                      + .+|+|+
T Consensus       196 ~-~vi~f~  202 (304)
T TIGR01613       196 L-RIIPFT  202 (304)
T ss_pred             E-EEEecc
Confidence            8 777764

This model represents a clade within a larger family of proteins from viruses of bacteria and animals. Members of this family are found in phage and plasmids of bacteria and archaea only. The model describes a domain of about 300 residues, found generally toward the protein C-terminus.

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=97.49  E-value=0.0016  Score=51.90  Aligned_cols=95  Identities=16%  Similarity=0.209  Sum_probs=51.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc--cchhh---hhCCCCCC----------Ccccchh-hHH
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK--HTVSK---FFGSPPGY----------VGFENGG-QLT   82 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~--~~~~~---~~~~~~~~----------~~~~~~~-~~~   82 (287)
                      .+.|.||.|+||||+.+.|+..+.+....+. ++..+....  .....   .....+..          .+..... .+.
T Consensus        30 ~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~-~~g~~~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~lLS~G~~qrv~la  108 (173)
T cd03246          30 SLAIIGPSGSGKSTLARLILGLLRPTSGRVR-LDGADISQWDPNELGDHVGYLPQDDELFSGSIAENILSGGQRQRLGLA  108 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccCCCCCeEE-ECCEEcccCCHHHHHhheEEECCCCccccCcHHHHCcCHHHHHHHHHH
Confidence            5899999999999999999998755444332 222111100  00000   00111110          0001011 122


Q ss_pred             HHHHhCCcEEEEEcCcc-cccHHHHHHHHHhhcC
Q 047225           83 EAVRHRPHSVILFDEIE-KAHRDVLNVMLQLLDD  115 (287)
Q Consensus        83 ~~~~~~~~~il~iDeid-~~~~~~~~~L~~~l~~  115 (287)
                      .++.. +..++++||-. .+++.....+.+++..
T Consensus       109 ~al~~-~p~~lllDEPt~~LD~~~~~~l~~~l~~  141 (173)
T cd03246         109 RALYG-NPRILVLDEPNSHLDVEGERALNQAIAA  141 (173)
T ss_pred             HHHhc-CCCEEEEECCccccCHHHHHHHHHHHHH
Confidence            33333 33799999976 6788877777777753

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>PF13479 AAA_24: AAA domain

Probab=97.49  E-value=0.00027  Score=58.41  Aligned_cols=83  Identities=22%  Similarity=0.230  Sum_probs=43.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHH--HhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAV--RHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~il~iD   96 (287)
                      .++++|+||+|||+++..+-        ..+.+++..-........ -+.......+..-....+.+  ...++.+|+||
T Consensus         5 ~~lIyG~~G~GKTt~a~~~~--------k~l~id~E~g~~~~~~~~-~~~~i~i~s~~~~~~~~~~l~~~~~~y~tiVID   75 (213)
T PF13479_consen    5 KILIYGPPGSGKTTLAASLP--------KPLFIDTENGSDSLKFLD-DGDVIPITSWEDFLEALDELEEDEADYDTIVID   75 (213)
T ss_pred             EEEEECCCCCCHHHHHHhCC--------CeEEEEeCCCccchhhhc-CCCeeCcCCHHHHHHHHHHHHhccCCCCEEEEE
Confidence            59999999999999998882        233444432211100000 00000001111111222222  22567899999


Q ss_pred             CcccccHHHHHHHH
Q 047225           97 EIEKAHRDVLNVML  110 (287)
Q Consensus        97 eid~~~~~~~~~L~  110 (287)
                      .++.+.......+.
T Consensus        76 sis~~~~~~~~~~~   89 (213)
T PF13479_consen   76 SISWLEDMCLEYIC   89 (213)
T ss_pred             CHHHHHHHHHHHHh
Confidence            99988665544444

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.49  E-value=0.00096  Score=53.85  Aligned_cols=23  Identities=30%  Similarity=0.426  Sum_probs=21.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||+|+|||++++.|.+..
T Consensus         6 ~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          6 LFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            69999999999999999998875

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.49  E-value=9.3e-05  Score=55.50  Aligned_cols=22  Identities=36%  Similarity=0.454  Sum_probs=20.8

Q ss_pred             EEEeccCCChHHHHHHHHHHHh
Q 047225           20 FLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l   41 (287)
                      |+|.|+|||||||+++.|++.+
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999996

...

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=97.49  E-value=0.00011  Score=57.10  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +++|+|+||+|||++++.|++.+
T Consensus         1 ~i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHh
Confidence            38999999999999999999988

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.49  E-value=0.00086  Score=61.66  Aligned_cols=86  Identities=24%  Similarity=0.326  Sum_probs=49.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCC-C-CceEEecccccccc-----cchhhhhCCCCCCCcccchhhHHHHHHhCCc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGS-K-EAMVRIDMSEYMEK-----HTVSKFFGSPPGYVGFENGGQLTEAVRHRPH   90 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~-~-~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (287)
                      ..++|+||+|+||||++..|+..+... + ..+..+++..+.-.     ......+|.+. ...................
T Consensus       257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv-~~~~~~~Dl~~aL~~L~d~  335 (484)
T PRK06995        257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPV-HAVKDAADLRLALSELRNK  335 (484)
T ss_pred             cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCe-eccCCchhHHHHHHhccCC
Confidence            379999999999999999999877322 2 24555555544211     11223333211 1111222223333444455


Q ss_pred             EEEEEcCcccccHH
Q 047225           91 SVILFDEIEKAHRD  104 (287)
Q Consensus        91 ~il~iDeid~~~~~  104 (287)
                      .+++||...+.+.+
T Consensus       336 d~VLIDTaGr~~~d  349 (484)
T PRK06995        336 HIVLIDTIGMSQRD  349 (484)
T ss_pred             CeEEeCCCCcChhh
Confidence            69999998876654

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=97.48  E-value=0.00028  Score=54.86  Aligned_cols=34  Identities=29%  Similarity=0.437  Sum_probs=27.2

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      ++++|+||+|||++++.|+..+...+...+.++.
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~~   35 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVLDG   35 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcC
Confidence            7899999999999999999998544445555553

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK14532 adenylate kinase; Provisional

Probab=97.48  E-value=0.00013  Score=59.04  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ++++.||||+||||+++.|++.+
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999987

>PRK00889 adenylylsulfate kinase; Provisional

Probab=97.48  E-value=0.00039  Score=55.48  Aligned_cols=37  Identities=32%  Similarity=0.384  Sum_probs=30.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      .++|.|+||+||||+++.|+..+...+..+..++...
T Consensus         6 ~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~id~D~   42 (175)
T PRK00889          6 TVWFTGLSGAGKTTIARALAEKLREAGYPVEVLDGDA   42 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcc
Confidence            6999999999999999999999865555566666543

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=97.47  E-value=0.00065  Score=60.48  Aligned_cols=97  Identities=20%  Similarity=0.235  Sum_probs=55.7

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHhcC---CCCceEEe-cccccccccchh---hhhCC-CCCCCcccchhhHHHHHHhC
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEYFG---SKEAMVRI-DMSEYMEKHTVS---KFFGS-PPGYVGFENGGQLTEAVRHR   88 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l~~---~~~~~~~~-~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~~~~~~~   88 (287)
                      .+.++++||+|+||||+++++...+..   .+..++++ +..++.-.. ..   ..+.. ..+.........+...++..
T Consensus       134 ~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE~~~~~-~~~~~~~v~Q~~v~~~~~~~~~~l~~aLR~~  212 (358)
T TIGR02524       134 EGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIEFVYDE-IETISASVCQSEIPRHLNNFAAGVRNALRRK  212 (358)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCceEeccc-cccccceeeeeeccccccCHHHHHHHHhccC
Confidence            357999999999999999999988732   22334433 222222110 00   00000 00001112223455666665


Q ss_pred             CcEEEEEcCcccccHHHHHHHHHhhcCce
Q 047225           89 PHSVILFDEIEKAHRDVLNVMLQLLDDGR  117 (287)
Q Consensus        89 ~~~il~iDeid~~~~~~~~~L~~~l~~~~  117 (287)
                      | .++++.|+.  +.+.....++....|.
T Consensus       213 P-d~i~vGEiR--d~et~~~al~aa~tGh  238 (358)
T TIGR02524       213 P-HAILVGEAR--DAETISAALEAALTGH  238 (358)
T ss_pred             C-CEEeeeeeC--CHHHHHHHHHHHHcCC
Confidence            5 799999977  6677777777777763

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=97.47  E-value=0.00063  Score=51.15  Aligned_cols=24  Identities=38%  Similarity=0.479  Sum_probs=20.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      ++++.||+|+|||+++-.++....
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~   25 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELL   25 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHH
Confidence            589999999999998888777764

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.47  E-value=0.00053  Score=61.68  Aligned_cols=114  Identities=19%  Similarity=0.296  Sum_probs=63.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh-cCCCCceEEeccccccccc--ch---hhhhCCCCCCCcccchhhHHHHHHhCCcEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEY-FGSKEAMVRIDMSEYMEKH--TV---SKFFGSPPGYVGFENGGQLTEAVRHRPHSV   92 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l-~~~~~~~~~~~~~~~~~~~--~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   92 (287)
                      .++|+||+|+||||++..||..+ ...+..+..+++..+....  .+   ....+-+  .........+.+.+......+
T Consensus       225 vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp--~~~~~~~~~l~~~l~~~~~D~  302 (432)
T PRK12724        225 VVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMP--FYPVKDIKKFKETLARDGSEL  302 (432)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCC--eeehHHHHHHHHHHHhCCCCE
Confidence            69999999999999999999765 3334556666665544321  11   1111111  111111234455555556679


Q ss_pred             EEEcCcccc--cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCc
Q 047225           93 ILFDEIEKA--HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGD  141 (287)
Q Consensus        93 l~iDeid~~--~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~  141 (287)
                      ++||=..+.  +......|..++..-...       ......+++.++.+.
T Consensus       303 VLIDTaGr~~rd~~~l~eL~~~~~~~~~~-------~~~e~~LVLsAt~~~  346 (432)
T PRK12724        303 ILIDTAGYSHRNLEQLERMQSFYSCFGEK-------DSVENLLVLSSTSSY  346 (432)
T ss_pred             EEEeCCCCCccCHHHHHHHHHHHHhhcCC-------CCCeEEEEEeCCCCH
Confidence            999966554  345666666666431000       012346777776654

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.46  E-value=0.0003  Score=60.63  Aligned_cols=38  Identities=32%  Similarity=0.481  Sum_probs=29.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC--CCceEEeccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS--KEAMVRIDMSEY   56 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~--~~~~~~~~~~~~   56 (287)
                      .++|+||+|+||||++..|+..+...  +..+..+++..+
T Consensus       196 vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~  235 (282)
T TIGR03499       196 VIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTY  235 (282)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCcc
Confidence            79999999999999999999887433  256666666554

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.45  E-value=0.00055  Score=54.75  Aligned_cols=87  Identities=18%  Similarity=0.112  Sum_probs=49.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchh-hHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGG-QLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~il~iDe   97 (287)
                      .+.|.||.|+||||+.+.++..+.+....+. ++.....   ...    ......+..... .+..++...+ .++++||
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~-~~g~~i~---~~~----q~~~LSgGq~qrv~laral~~~p-~lllLDE   97 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQLIPNGDNDE-WDGITPV---YKP----QYIDLSGGELQRVAIAAALLRNA-TFYLFDE   97 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCCCCcEEE-ECCEEEE---EEc----ccCCCCHHHHHHHHHHHHHhcCC-CEEEEEC
Confidence            6999999999999999999988755444432 2211100   000    000011111111 2333444434 7999999


Q ss_pred             cc-cccHHHHHHHHHhhc
Q 047225           98 IE-KAHRDVLNVMLQLLD  114 (287)
Q Consensus        98 id-~~~~~~~~~L~~~l~  114 (287)
                      -. .+++.....+.+++.
T Consensus        98 Pts~LD~~~~~~l~~~l~  115 (177)
T cd03222          98 PSAYLDIEQRLNAARAIR  115 (177)
T ss_pred             CcccCCHHHHHHHHHHHH
Confidence            76 677777666666554

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.44  E-value=0.00023  Score=56.89  Aligned_cols=34  Identities=29%  Similarity=0.323  Sum_probs=27.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      .++|.|++|+||||+++.+++.+.......+.++
T Consensus         9 ~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~~   42 (176)
T PRK05541          9 VIWITGLAGSGKTTIAKALYERLKLKYSNVIYLD   42 (176)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            6999999999999999999999854334444443

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=97.44  E-value=0.00056  Score=66.77  Aligned_cols=91  Identities=12%  Similarity=0.074  Sum_probs=52.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHH----HhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAV----RHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~il~   94 (287)
                      .++|.|+||||||++++.+...+...+..+..+-.+.... ..+....|..    ..+....+....    ...+..+|+
T Consensus       370 ~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa-~~L~~~~g~~----a~Ti~~~~~~~~~~~~~~~~~~llI  444 (744)
T TIGR02768       370 IAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAA-EGLQAESGIE----SRTLASLEYAWANGRDLLSDKDVLV  444 (744)
T ss_pred             EEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHH-HHHHhccCCc----eeeHHHHHhhhccCcccCCCCcEEE
Confidence            5899999999999999999887754444444333322111 1111111111    111111111110    112457999


Q ss_pred             EcCcccccHHHHHHHHHhhc
Q 047225           95 FDEIEKAHRDVLNVMLQLLD  114 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~  114 (287)
                      +||+..++......|+....
T Consensus       445 vDEasMv~~~~~~~Ll~~~~  464 (744)
T TIGR02768       445 IDEAGMVGSRQMARVLKEAE  464 (744)
T ss_pred             EECcccCCHHHHHHHHHHHH
Confidence            99999999988887777554

This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=97.44  E-value=0.00097  Score=55.73  Aligned_cols=37  Identities=19%  Similarity=0.344  Sum_probs=27.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      .+++.||+|||||+++..++......+....+++..+
T Consensus        26 ~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~   62 (230)
T PRK08533         26 LILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQL   62 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCC
Confidence            6999999999999997555554434456667776544

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=97.43  E-value=0.00013  Score=58.20  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus         4 ~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           4 IIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            69999999999999999999987

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.43  E-value=0.00015  Score=58.28  Aligned_cols=22  Identities=18%  Similarity=0.356  Sum_probs=21.1

Q ss_pred             EEEeccCCChHHHHHHHHHHHh
Q 047225           20 FLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ++++||||+||||+++.|++.+
T Consensus         2 i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999999988

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.43  E-value=0.00065  Score=56.90  Aligned_cols=38  Identities=18%  Similarity=0.327  Sum_probs=30.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      .++++|+||+|||+++..++......+.+..+++..+.
T Consensus        27 ~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~   64 (234)
T PRK06067         27 LILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENT   64 (234)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCC
Confidence            69999999999999999997665445677777777543

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.43  E-value=0.00053  Score=60.07  Aligned_cols=39  Identities=26%  Similarity=0.353  Sum_probs=31.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      ..++|+||+|+||||++..||..+...+..+..+++..+
T Consensus       115 ~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~  153 (318)
T PRK10416        115 FVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTF  153 (318)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCcc
Confidence            479999999999999999999998666666666666543

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.43  E-value=0.0022  Score=51.30  Aligned_cols=95  Identities=18%  Similarity=0.262  Sum_probs=52.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc-cchhhhh---CCCC------------C-CCcccchh-h
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK-HTVSKFF---GSPP------------G-YVGFENGG-Q   80 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~-~~~~~~~---~~~~------------~-~~~~~~~~-~   80 (287)
                      .+.+.||+|+||||+++.|+.........+ .++....... ......+   ...+            . ..+..... .
T Consensus        30 ~~~i~G~nGsGKStLl~~l~G~~~~~~G~i-~~~g~~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~LS~G~~qrv~  108 (178)
T cd03247          30 KIALLGRSGSGKSTLLQLLTGDLKPQQGEI-TLDGVPVSDLEKALSSLISVLNQRPYLFDTTLRNNLGRRFSGGERQRLA  108 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCCCCCCEE-EECCEEHHHHHHHHHhhEEEEccCCeeecccHHHhhcccCCHHHHHHHH
Confidence            689999999999999999999875544433 2332211100 0000000   0000            0 00111111 1


Q ss_pred             HHHHHHhCCcEEEEEcCcc-cccHHHHHHHHHhhcC
Q 047225           81 LTEAVRHRPHSVILFDEIE-KAHRDVLNVMLQLLDD  115 (287)
Q Consensus        81 ~~~~~~~~~~~il~iDeid-~~~~~~~~~L~~~l~~  115 (287)
                      +..++...+ .++++||-. .+++.....+.+++.+
T Consensus       109 laral~~~p-~~lllDEP~~~LD~~~~~~l~~~l~~  143 (178)
T cd03247         109 LARILLQDA-PIVLLDEPTVGLDPITERQLLSLIFE  143 (178)
T ss_pred             HHHHHhcCC-CEEEEECCcccCCHHHHHHHHHHHHH
Confidence            233333333 799999976 6788888888777764

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria

Probab=97.42  E-value=0.0079  Score=54.29  Aligned_cols=144  Identities=21%  Similarity=0.215  Sum_probs=80.2

Q ss_pred             EEEEEcCcccc---cH-----HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           91 SVILFDEIEKA---HR-----DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        91 ~il~iDeid~~---~~-----~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      -+|+|||++.+   +.     ...+.|++++++-.    .|   .+++..+++++.|.--.-.+.....|..+.+-+...
T Consensus       241 LlI~lDE~e~l~kl~~~~~R~~~ye~lr~lidd~~----~G---~~~gL~~~~~gTPef~eD~rrGv~sY~AL~~RL~~~  313 (416)
T PF10923_consen  241 LLILLDELENLYKLRNDQAREKNYEALRQLIDDID----QG---RAPGLYFVFAGTPEFFEDGRRGVYSYEALAQRLAEE  313 (416)
T ss_pred             eEEEEechHHHHhcCChHHHHHHHHHHHHHHHHHh----cC---CCCceEEEEeeCHHHhhCccccccccHHHHHHHhcc
Confidence            59999999954   22     24566777776410    11   134667888876632211011111244444433322


Q ss_pred             HHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCC--chhHHHHHH
Q 047225          163 LRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYG--ARPLRRAIG  240 (287)
Q Consensus       163 ~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~--~r~l~~~i~  240 (287)
                      ...  .+.+.+.....|.++|++.+++..++.+...-+....   +....++++.+..++......-.+  ....|..+.
T Consensus       314 ~~~--~~~~~n~~~pvIrL~~l~~eel~~l~~klr~i~a~~~---~~~~~v~d~~l~~~~~~~~~r~G~~~~~tPR~~ik  388 (416)
T PF10923_consen  314 FFA--DDGFDNLRAPVIRLQPLTPEELLELLEKLRDIYAEAY---GYESRVDDEELKAFAQHVAGRLGGDVFVTPREFIK  388 (416)
T ss_pred             ccc--cccccCccCceecCCCCCHHHHHHHHHHHHHHHHhhC---CCCCCCCHHHHHHHHHHHHhccCcccccCHHHHHH
Confidence            100  2334444457799999999999988877665544443   334689999999998765443111  123355555


Q ss_pred             HHHHHHH
Q 047225          241 RLLEDNL  247 (287)
Q Consensus       241 ~~~~~~~  247 (287)
                      +.+ ..|
T Consensus       389 ~fv-~~L  394 (416)
T PF10923_consen  389 DFV-DVL  394 (416)
T ss_pred             HHH-HHH
Confidence            554 344

Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=97.42  E-value=0.0023  Score=51.99  Aligned_cols=29  Identities=34%  Similarity=0.343  Sum_probs=24.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEA   47 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~   47 (287)
                      .|.+.||+|+||||+|+.|+..+...+..
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~~~~~   29 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNKRGIP   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTTCTTT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCccCcC
Confidence            37899999999999999999999654444

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>PRK13949 shikimate kinase; Provisional

Probab=97.42  E-value=0.00016  Score=57.45  Aligned_cols=23  Identities=43%  Similarity=0.596  Sum_probs=22.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+|+||+|||++++.|++.+
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            59999999999999999999998

>PRK06217 hypothetical protein; Validated

Probab=97.41  E-value=0.00018  Score=57.87  Aligned_cols=23  Identities=39%  Similarity=0.508  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .|+|.|++|+||||+++.|++.+
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            59999999999999999999998

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=97.41  E-value=0.0021  Score=51.06  Aligned_cols=95  Identities=20%  Similarity=0.317  Sum_probs=52.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc--cchhhhhC---CCCCC----------Ccccch-hhHH
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK--HTVSKFFG---SPPGY----------VGFENG-GQLT   82 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~---~~~~~----------~~~~~~-~~~~   82 (287)
                      .+.+.||+|+||||+.+.++..+......+. ++.......  ......++   ..+..          .+.... -.+.
T Consensus        30 ~~~l~G~nGsGKstLl~~i~G~~~~~~G~i~-~~g~~~~~~~~~~~~~~i~~~~~~~~~~~~t~~e~lLS~G~~~rl~la  108 (171)
T cd03228          30 KVAIVGPSGSGKSTLLKLLLRLYDPTSGEIL-IDGVDLRDLDLESLRKNIAYVPQDPFLFSGTIRENILSGGQRQRIAIA  108 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCCEEE-ECCEEhhhcCHHHHHhhEEEEcCCchhccchHHHHhhCHHHHHHHHHH
Confidence            6999999999999999999998755444432 332211100  00000000   00000          000000 0123


Q ss_pred             HHHHhCCcEEEEEcCcc-cccHHHHHHHHHhhcC
Q 047225           83 EAVRHRPHSVILFDEIE-KAHRDVLNVMLQLLDD  115 (287)
Q Consensus        83 ~~~~~~~~~il~iDeid-~~~~~~~~~L~~~l~~  115 (287)
                      .++...+ .++++||-. .+++.....+.+++.+
T Consensus       109 ~al~~~p-~llllDEP~~gLD~~~~~~l~~~l~~  141 (171)
T cd03228         109 RALLRDP-PILILDEATSALDPETEALILEALRA  141 (171)
T ss_pred             HHHhcCC-CEEEEECCCcCCCHHHHHHHHHHHHH
Confidence            3333333 799999966 6788888778777764

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=97.41  E-value=0.00053  Score=65.14  Aligned_cols=26  Identities=15%  Similarity=0.266  Sum_probs=22.7

Q ss_pred             cEEEEEcCcccccHHHHHHHHHhhcC
Q 047225           90 HSVILFDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        90 ~~il~iDeid~~~~~~~~~L~~~l~~  115 (287)
                      ..++++||+..++-.....|++.+..
T Consensus       266 ~dvlIvDEaSMvd~~lm~~ll~al~~  291 (615)
T PRK10875        266 LDVLVVDEASMVDLPMMARLIDALPP  291 (615)
T ss_pred             CCeEEEChHhcccHHHHHHHHHhccc
Confidence            36999999999999999988888764

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.40  E-value=0.00098  Score=61.21  Aligned_cols=83  Identities=16%  Similarity=0.247  Sum_probs=51.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccccc-chhhhhCCCCC---CCcccchhhHHHHHHhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKH-TVSKFFGSPPG---YVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      .+++.|+||+|||+++..++......+.+.++++..+..... .....++....   .........+.+.+......+++
T Consensus        82 ~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees~~qi~~ra~rlg~~~~~l~~~~e~~l~~i~~~i~~~~~~lVV  161 (446)
T PRK11823         82 VVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEESASQIKLRAERLGLPSDNLYLLAETNLEAILATIEEEKPDLVV  161 (446)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccccHHHHHHHHHHcCCChhcEEEeCCCCHHHHHHHHHhhCCCEEE
Confidence            689999999999999999998875445677777765433211 00111221100   00111234556666666668999


Q ss_pred             EcCcccc
Q 047225           95 FDEIEKA  101 (287)
Q Consensus        95 iDeid~~  101 (287)
                      ||++..+
T Consensus       162 IDSIq~l  168 (446)
T PRK11823        162 IDSIQTM  168 (446)
T ss_pred             Eechhhh
Confidence            9999854

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.40  E-value=0.0023  Score=64.11  Aligned_cols=23  Identities=39%  Similarity=0.455  Sum_probs=20.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+++.||+|.||||++....+..
T Consensus        34 ~~~v~apaG~GKTtl~~~~~~~~   56 (903)
T PRK04841         34 LVLVTSPAGYGKTTLISQWAAGK   56 (903)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            59999999999999999988654

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.39  E-value=0.00018  Score=55.51  Aligned_cols=28  Identities=32%  Similarity=0.391  Sum_probs=23.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMV   49 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~   49 (287)
                      .+.+.|||||||||+++.||+.+   +.+++
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~---gl~~v   29 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHL---GLKLV   29 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHh---CCcee
Confidence            37799999999999999999999   44443

>PRK14530 adenylate kinase; Provisional

Probab=97.38  E-value=0.0002  Score=59.20  Aligned_cols=23  Identities=35%  Similarity=0.567  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||||+||||+++.|++.+
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            59999999999999999999998

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=97.38  E-value=0.00035  Score=61.68  Aligned_cols=94  Identities=24%  Similarity=0.382  Sum_probs=51.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEec-ccccccc--cchhhhhCC-CCCCCcccchhhHHHHHHhCCcEEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRID-MSEYMEK--HTVSKFFGS-PPGYVGFENGGQLTEAVRHRPHSVI   93 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~-~~~~~~~--~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~il   93 (287)
                      .++++.||+|+||||++++|...+... ..++++. ..++.-.  ..+...+.. ..+..+.+....+...++..+ ..+
T Consensus       163 ~nilI~G~tGSGKTTll~aLl~~i~~~-~rivtiEd~~El~l~~~~~v~l~~~~~~~~~~~~t~~~ll~~~LR~~p-D~I  240 (344)
T PRK13851        163 LTMLLCGPTGSGKTTMSKTLISAIPPQ-ERLITIEDTLELVIPHENHVRLLYSKNGAGLGAVTAEHLLQASLRMRP-DRI  240 (344)
T ss_pred             CeEEEECCCCccHHHHHHHHHcccCCC-CCEEEECCCccccCCCCCEEEEEeeccccCcCccCHHHHHHHHhcCCC-CeE
Confidence            479999999999999999999988543 3444443 2222211  000000000 011111222233445566555 899


Q ss_pred             EEcCcccccHHHHHHHHHhhcCc
Q 047225           94 LFDEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        94 ~iDeid~~~~~~~~~L~~~l~~~  116 (287)
                      ++.|+-.  .+... +++.+..|
T Consensus       241 ivGEiR~--~ea~~-~l~a~~tG  260 (344)
T PRK13851        241 LLGEMRD--DAAWA-YLSEVVSG  260 (344)
T ss_pred             EEEeeCc--HHHHH-HHHHHHhC
Confidence            9999985  34554 44555543

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.37  E-value=0.00044  Score=53.35  Aligned_cols=86  Identities=17%  Similarity=0.227  Sum_probs=51.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccc-hhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN-GGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~il~iDe   97 (287)
                      .+.+.||+|+||||+.+.++..+......+ .++...  ...-+.+       ..+... .-.+..++...+ .++++||
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~~~~~G~i-~~~~~~--~i~~~~~-------lS~G~~~rv~laral~~~p-~illlDE   96 (144)
T cd03221          28 RIGLVGRNGAGKSTLLKLIAGELEPDEGIV-TWGSTV--KIGYFEQ-------LSGGEKMRLALAKLLLENP-NLLLLDE   96 (144)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCCceEE-EECCeE--EEEEEcc-------CCHHHHHHHHHHHHHhcCC-CEEEEeC
Confidence            689999999999999999998875443332 222110  0000000       111111 112333444434 6999999


Q ss_pred             cc-cccHHHHHHHHHhhcC
Q 047225           98 IE-KAHRDVLNVMLQLLDD  115 (287)
Q Consensus        98 id-~~~~~~~~~L~~~l~~  115 (287)
                      -. .+++.....+.+++.+
T Consensus        97 P~~~LD~~~~~~l~~~l~~  115 (144)
T cd03221          97 PTNHLDLESIEALEEALKE  115 (144)
T ss_pred             CccCCCHHHHHHHHHHHHH
Confidence            76 6788888888887764

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.35  E-value=0.00034  Score=57.54  Aligned_cols=39  Identities=31%  Similarity=0.449  Sum_probs=29.1

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      ++. .+.+.|++||||||+++.|+..+.  ...+..++...+
T Consensus         5 ~~~-iI~I~G~sGsGKTTl~~~l~~~l~--~~~~~~i~~D~~   43 (209)
T PRK05480          5 KPI-IIGIAGGSGSGKTTVASTIYEELG--DESIAVIPQDSY   43 (209)
T ss_pred             CCE-EEEEECCCCCCHHHHHHHHHHHhC--CCceEEEeCCcc
Confidence            344 799999999999999999999883  234444555444

>PF13245 AAA_19: Part of AAA domain

Probab=97.34  E-value=0.00027  Score=48.14  Aligned_cols=23  Identities=43%  Similarity=0.637  Sum_probs=16.6

Q ss_pred             EEEEeccCCChHHH-HHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTE-LANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~-la~~la~~l   41 (287)
                      .+++.||||||||+ +++.++..+
T Consensus        12 ~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen   12 LFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHH
Confidence            47779999999995 455555444

>TIGR00767 rho transcription termination factor Rho

Probab=97.34  E-value=0.00067  Score=60.59  Aligned_cols=26  Identities=27%  Similarity=0.257  Sum_probs=23.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .++++||+|+|||++++.+++.+...
T Consensus       170 ~~~IvG~~g~GKTtL~~~i~~~I~~n  195 (415)
T TIGR00767       170 RGLIVAPPKAGKTVLLQKIAQAITRN  195 (415)
T ss_pred             EEEEECCCCCChhHHHHHHHHhhccc
Confidence            58999999999999999999987443

Members of this family differ in the specificity of RNA binding.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.34  E-value=0.001  Score=59.02  Aligned_cols=95  Identities=19%  Similarity=0.224  Sum_probs=57.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc-----cchhhhhCCCCCCCcccchhhHHHHHHh----C
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK-----HTVSKFFGSPPGYVGFENGGQLTEAVRH----R   88 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~   88 (287)
                      ..++|+||+|+||||++..|+..+...+..+..+++..+...     .......+-+ -+... ....+.+++..    .
T Consensus       207 ~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvp-v~~~~-dp~dL~~al~~l~~~~  284 (407)
T PRK12726        207 RIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVE-LIVAT-SPAELEEAVQYMTYVN  284 (407)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCC-EEecC-CHHHHHHHHHHHHhcC
Confidence            479999999999999999999877555566667777665431     1112222211 11111 22344444332    2


Q ss_pred             CcEEEEEcCccccc--HHHHHHHHHhhc
Q 047225           89 PHSVILFDEIEKAH--RDVLNVMLQLLD  114 (287)
Q Consensus        89 ~~~il~iDeid~~~--~~~~~~L~~~l~  114 (287)
                      ...+|+||=..+.+  .+....|..+.+
T Consensus       285 ~~D~VLIDTAGr~~~d~~~l~EL~~l~~  312 (407)
T PRK12726        285 CVDHILIDTVGRNYLAEESVSEISAYTD  312 (407)
T ss_pred             CCCEEEEECCCCCccCHHHHHHHHHHhh
Confidence            45799999998754  455666666554

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=97.33  E-value=0.0011  Score=58.07  Aligned_cols=94  Identities=23%  Similarity=0.425  Sum_probs=50.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEec-cccccccc-chhhhhCCC--CCCCcccchhhHHHHHHhCCcEEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRID-MSEYMEKH-TVSKFFGSP--PGYVGFENGGQLTEAVRHRPHSVI   93 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~-~~~~~~~~-~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~il   93 (287)
                      .++++.||+|+||||+++++...+... ..++.+. ..++.-.. ....++-..  .+....+....+...++..+ .++
T Consensus       145 ~~ili~G~tGsGKTTll~al~~~~~~~-~~iv~ied~~El~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~Lr~~p-d~i  222 (308)
T TIGR02788       145 KNIIISGGTGSGKTTFLKSLVDEIPKD-ERIITIEDTREIFLPHPNYVHLFYSKGGQGLAKVTPKDLLQSCLRMRP-DRI  222 (308)
T ss_pred             CEEEEECCCCCCHHHHHHHHHccCCcc-ccEEEEcCccccCCCCCCEEEEEecCCCCCcCccCHHHHHHHHhcCCC-CeE
Confidence            379999999999999999999887543 3344443 22211110 000111010  11111222223444555444 799


Q ss_pred             EEcCcccccHHHHHHHHHhhcCc
Q 047225           94 LFDEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        94 ~iDeid~~~~~~~~~L~~~l~~~  116 (287)
                      ++||+-.  .+... +++.+..|
T Consensus       223 i~gE~r~--~e~~~-~l~a~~~g  242 (308)
T TIGR02788       223 ILGELRG--DEAFD-FIRAVNTG  242 (308)
T ss_pred             EEeccCC--HHHHH-HHHHHhcC
Confidence            9999995  44444 45555443

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=97.33  E-value=0.00022  Score=55.27  Aligned_cols=22  Identities=32%  Similarity=0.513  Sum_probs=20.7

Q ss_pred             EEEeccCCChHHHHHHHHHHHh
Q 047225           20 FLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ++|+|+||+||||+++.|++.+
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhc
Confidence            7899999999999999999986

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK06762 hypothetical protein; Provisional

Probab=97.32  E-value=0.00024  Score=56.18  Aligned_cols=32  Identities=22%  Similarity=0.323  Sum_probs=25.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      .++|+|+||+||||+|+.|++.+.   ..++.++.
T Consensus         4 li~i~G~~GsGKST~A~~L~~~l~---~~~~~i~~   35 (166)
T PRK06762          4 LIIIRGNSGSGKTTIAKQLQERLG---RGTLLVSQ   35 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC---CCeEEecH
Confidence            589999999999999999999982   23445544

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.32  E-value=0.0019  Score=59.76  Aligned_cols=87  Identities=20%  Similarity=0.287  Sum_probs=47.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCC--CCceEEecccccccccc-hhhhhCCCCCC--CcccchhhHHHHHHh-CCcE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGS--KEAMVRIDMSEYMEKHT-VSKFFGSPPGY--VGFENGGQLTEAVRH-RPHS   91 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~--~~~~~~~~~~~~~~~~~-~~~~~~~~~~~--~~~~~~~~~~~~~~~-~~~~   91 (287)
                      ..+.|+||+|+||||++..|+..+...  +..+..+++..+..... -...++...+.  ........+...+.. ..+.
T Consensus       351 ~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~~~D  430 (559)
T PRK12727        351 GVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLRDYK  430 (559)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhccCC
Confidence            479999999999999999998876322  23455555544332100 00111111110  011112234444433 3457


Q ss_pred             EEEEcCcccccHH
Q 047225           92 VILFDEIEKAHRD  104 (287)
Q Consensus        92 il~iDeid~~~~~  104 (287)
                      +|+||..-..+.+
T Consensus       431 LVLIDTaG~s~~D  443 (559)
T PRK12727        431 LVLIDTAGMGQRD  443 (559)
T ss_pred             EEEecCCCcchhh
Confidence            9999999876543

>PRK06547 hypothetical protein; Provisional

Probab=97.32  E-value=0.00029  Score=56.06  Aligned_cols=27  Identities=44%  Similarity=0.549  Sum_probs=23.2

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..+. .+++.|++|+|||++++.|++.+
T Consensus        13 ~~~~-~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         13 GGMI-TVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             CCCE-EEEEECCCCCCHHHHHHHHHHHh
Confidence            3344 68899999999999999999986

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=97.32  E-value=0.0014  Score=52.20  Aligned_cols=28  Identities=25%  Similarity=0.298  Sum_probs=23.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKE   46 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~   46 (287)
                      .+.++||+|+||||+.+.|+..+.+...
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~~~~~G   55 (173)
T cd03230          28 IYGLLGPNGAGKTTLIKIILGLLKPDSG   55 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCe
Confidence            6899999999999999999987744333

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=97.31  E-value=0.0004  Score=57.60  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=17.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++.||||||||+++..+...+
T Consensus        19 ~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen   19 ITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             -EEEE-STTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCChHHHHHHHHHHh
Confidence            48999999999998776666666

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=97.31  E-value=0.00046  Score=58.97  Aligned_cols=35  Identities=23%  Similarity=0.170  Sum_probs=25.2

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      ++|+|-||+|||++++.|...+.........++..
T Consensus         4 iil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~   38 (270)
T PF08433_consen    4 IILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDD   38 (270)
T ss_dssp             EEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-TH
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEccc
Confidence            89999999999999999999986655666666643

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK14531 adenylate kinase; Provisional

Probab=97.30  E-value=0.00029  Score=56.69  Aligned_cols=23  Identities=39%  Similarity=0.595  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++||||+||||+++.|++.+
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            59999999999999999999988

>TIGR02012 tigrfam_recA protein RecA

Probab=97.30  E-value=0.0011  Score=57.87  Aligned_cols=82  Identities=22%  Similarity=0.220  Sum_probs=49.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhC--------CCCCCCcccchhhHHHHHHhCCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFG--------SPPGYVGFENGGQLTEAVRHRPH   90 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~   90 (287)
                      .+.++||||||||+++-.++......+...++++.....+.. ....+|        ..+. .+-.....+...++....
T Consensus        57 iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~-~a~~lGvd~~~l~v~~p~-~~eq~l~~~~~li~~~~~  134 (321)
T TIGR02012        57 IIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPV-YARKLGVDIDNLLVSQPD-TGEQALEIAETLVRSGAV  134 (321)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHH-HHHHcCCCHHHeEEecCC-CHHHHHHHHHHHhhccCC
Confidence            689999999999999988777765567788888876544321 111111        1111 110011112233444556


Q ss_pred             EEEEEcCccccc
Q 047225           91 SVILFDEIEKAH  102 (287)
Q Consensus        91 ~il~iDeid~~~  102 (287)
                      .+++||-+..+.
T Consensus       135 ~lIVIDSv~al~  146 (321)
T TIGR02012       135 DIIVVDSVAALV  146 (321)
T ss_pred             cEEEEcchhhhc
Confidence            799999988553

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.30  E-value=0.00022  Score=57.07  Aligned_cols=23  Identities=43%  Similarity=0.693  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.||||+||||+|+.|++.+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999996

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=97.29  E-value=0.00022  Score=56.12  Aligned_cols=28  Identities=25%  Similarity=0.445  Sum_probs=24.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMV   49 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~   49 (287)
                      +++|+|++|+||||+.+.||+.+   +.+++
T Consensus         4 ~IvLiG~mGaGKSTIGr~LAk~L---~~~F~   31 (172)
T COG0703           4 NIVLIGFMGAGKSTIGRALAKAL---NLPFI   31 (172)
T ss_pred             cEEEEcCCCCCHhHHHHHHHHHc---CCCcc
Confidence            69999999999999999999999   55554

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=97.28  E-value=0.00025  Score=57.47  Aligned_cols=22  Identities=45%  Similarity=0.718  Sum_probs=21.1

Q ss_pred             EEEeccCCChHHHHHHHHHHHh
Q 047225           20 FLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ++++||||+||||+++.|++.+
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7999999999999999999987

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=97.28  E-value=0.00029  Score=54.24  Aligned_cols=22  Identities=36%  Similarity=0.614  Sum_probs=21.1

Q ss_pred             EEEeccCCChHHHHHHHHHHHh
Q 047225           20 FLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +++.|+||||||++++.|++.+
T Consensus         2 I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999988

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]

Probab=97.28  E-value=0.0029  Score=61.83  Aligned_cols=115  Identities=24%  Similarity=0.381  Sum_probs=59.0

Q ss_pred             EEEEeccCCChHHHHH-HHHHHHhcCCCCceEEecccccccc---cchhhhhCCCCC-CCcc----------------cc
Q 047225           19 SFLFTGPTGVGKTELA-NALAFEYFGSKEAMVRIDMSEYMEK---HTVSKFFGSPPG-YVGF----------------EN   77 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la-~~la~~l~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~-~~~~----------------~~   77 (287)
                      .++|.||+|+||||-. +.+.+........+..-..-.....   ..+.+.++...| .+||                .-
T Consensus        67 vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAeel~~~~G~~VGY~iRfe~~~s~~Trik~mT  146 (845)
T COG1643          67 VVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEELGEKLGETVGYSIRFESKVSPRTRIKVMT  146 (845)
T ss_pred             EEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHHhCCCcCceeeEEEEeeccCCCCceeEEec
Confidence            7999999999999855 4444444322222222222221111   223344444322 1221                11


Q ss_pred             hhhHHHHHHh----CCcEEEEEcCccc--ccHHHH-HHHHHhhcCceeecCCCceeeccce-EEEEeecCCchhh
Q 047225           78 GGQLTEAVRH----RPHSVILFDEIEK--AHRDVL-NVMLQLLDDGRVTDGKGQTVDLKNT-IIIMTSNIGDSVI  144 (287)
Q Consensus        78 ~~~~~~~~~~----~~~~il~iDeid~--~~~~~~-~~L~~~l~~~~~~~~~g~~i~~~~~-~iI~t~n~~~~~~  144 (287)
                      .+.+...+..    ..+++++|||++.  ++.++. ..|.+++...+           ++. ++|++++.....+
T Consensus       147 dGiLlrei~~D~~Ls~ys~vIiDEaHERSl~tDilLgllk~~~~~rr-----------~DLKiIimSATld~~rf  210 (845)
T COG1643         147 DGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLLKDLLARRR-----------DDLKLIIMSATLDAERF  210 (845)
T ss_pred             cHHHHHHHhhCcccccCCEEEEcchhhhhHHHHHHHHHHHHHHhhcC-----------CCceEEEEecccCHHHH
Confidence            3445555553    4568999999995  344443 34444455432           112 5667777765544

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=97.28  E-value=0.0021  Score=51.35  Aligned_cols=20  Identities=35%  Similarity=0.464  Sum_probs=18.6

Q ss_pred             EEEEeccCCChHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALA   38 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la   38 (287)
                      .+.|.||.|+|||||.+.+.
T Consensus        23 ~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          23 LVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            58999999999999999985

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.28  E-value=0.0004  Score=58.00  Aligned_cols=45  Identities=27%  Similarity=0.368  Sum_probs=32.8

Q ss_pred             CCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEE-ecccccc
Q 047225           12 DPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVR-IDMSEYM   57 (287)
Q Consensus        12 ~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~-~~~~~~~   57 (287)
                      .++++. .+.|.||+|+||||+++.|+..+...+..... +.+.++.
T Consensus        29 ~~~~~~-iigi~G~~GsGKTTl~~~L~~~l~~~~g~~~v~i~~D~~~   74 (229)
T PRK09270         29 EPQRRT-IVGIAGPPGAGKSTLAEFLEALLQQDGELPAIQVPMDGFH   74 (229)
T ss_pred             cCCCCE-EEEEECCCCCCHHHHHHHHHHHhhhccCCceEEEeccccc
Confidence            445555 69999999999999999999998655444333 4444443

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=97.27  E-value=0.00024  Score=55.97  Aligned_cols=22  Identities=41%  Similarity=0.721  Sum_probs=20.5

Q ss_pred             EEEeccCCChHHHHHHHHHHHh
Q 047225           20 FLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ++++||+|+||||+++.|++.+
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999988

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=97.27  E-value=0.002  Score=51.59  Aligned_cols=95  Identities=23%  Similarity=0.258  Sum_probs=52.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc--cc----------hhhhhC------CCCCC-Ccccchh
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK--HT----------VSKFFG------SPPGY-VGFENGG   79 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~--~~----------~~~~~~------~~~~~-~~~~~~~   79 (287)
                      .+.|.||+|+||||+.+.++..+.+....+ .++.......  ..          ....++      ..... .+.....
T Consensus        27 ~~~l~G~nGsGKStLl~~i~G~~~~~~G~v-~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G~~qr  105 (180)
T cd03214          27 IVGILGPNGAGKSTLLKTLAGLLKPSSGEI-LLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSGGERQR  105 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCcEE-EECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHHHHHH
Confidence            689999999999999999998875544443 3332221110  00          011111      11111 1111111


Q ss_pred             -hHHHHHHhCCcEEEEEcCcc-cccHHHHHHHHHhhcC
Q 047225           80 -QLTEAVRHRPHSVILFDEIE-KAHRDVLNVMLQLLDD  115 (287)
Q Consensus        80 -~~~~~~~~~~~~il~iDeid-~~~~~~~~~L~~~l~~  115 (287)
                       .+..++.. +..++++||-. .+++.....+.+++..
T Consensus       106 l~laral~~-~p~llllDEP~~~LD~~~~~~~~~~l~~  142 (180)
T cd03214         106 VLLARALAQ-EPPILLLDEPTSHLDIAHQIELLELLRR  142 (180)
T ss_pred             HHHHHHHhc-CCCEEEEeCCccCCCHHHHHHHHHHHHH
Confidence             12233333 33799999976 6788877777777764

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=97.27  E-value=0.00031  Score=56.35  Aligned_cols=39  Identities=28%  Similarity=0.391  Sum_probs=31.3

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME   58 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~   58 (287)
                      +.+.|++|+||||+++.|+..+...+.....++..++..
T Consensus         2 i~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~Ddf~~   40 (179)
T cd02028           2 VGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDYYV   40 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEehhhccc
Confidence            689999999999999999999854445666677666653

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.27  E-value=0.0012  Score=52.97  Aligned_cols=29  Identities=31%  Similarity=0.174  Sum_probs=24.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEA   47 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~   47 (287)
                      .+.|.||+|+||||+.+.|+..+.+....
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~   56 (182)
T cd03215          28 IVGIAGLVGNGQTELAEALFGLRPPASGE   56 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            68999999999999999999987554443

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=97.27  E-value=0.00057  Score=60.21  Aligned_cols=94  Identities=21%  Similarity=0.376  Sum_probs=53.3

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEec-cccccc-c-cchhhhhCCC--CCCCcccchhhHHHHHHhCCcEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRID-MSEYME-K-HTVSKFFGSP--PGYVGFENGGQLTEAVRHRPHSV   92 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~-~~~~~~-~-~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~i   92 (287)
                      .+++++|++|+||||+.++|...+.. ...++++. ..++.- . .....++...  .+....+....+...++..| +.
T Consensus       161 ~nili~G~tgSGKTTll~aL~~~ip~-~~ri~tiEd~~El~l~~~~n~~~~~~~~~~~~~~~~~~~~ll~~~LR~~P-D~  238 (332)
T PRK13900        161 KNIIISGGTSTGKTTFTNAALREIPA-IERLITVEDAREIVLSNHPNRVHLLASKGGQGRAKVTTQDLIEACLRLRP-DR  238 (332)
T ss_pred             CcEEEECCCCCCHHHHHHHHHhhCCC-CCeEEEecCCCccccccCCCEEEEEecCCCCCcCcCcHHHHHHHHhccCC-Ce
Confidence            37999999999999999999988854 34455542 222221 0 0001111111  11112222233445555555 89


Q ss_pred             EEEcCcccccHHHHHHHHHhhcCc
Q 047225           93 ILFDEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        93 l~iDeid~~~~~~~~~L~~~l~~~  116 (287)
                      +++.|+-..  +... +++.+..|
T Consensus       239 IivGEiR~~--ea~~-~l~a~~tG  259 (332)
T PRK13900        239 IIVGELRGA--EAFS-FLRAINTG  259 (332)
T ss_pred             EEEEecCCH--HHHH-HHHHHHcC
Confidence            999999953  4444 46667765

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=97.26  E-value=0.0011  Score=59.34  Aligned_cols=50  Identities=22%  Similarity=0.427  Sum_probs=35.6

Q ss_pred             chhhhhccCCCCCCCcEEEEEeccCCChHHHHH--HHHHHHhcCCCCceEEeccccccc
Q 047225            2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELA--NALAFEYFGSKEAMVRIDMSEYME   58 (287)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la--~~la~~l~~~~~~~~~~~~~~~~~   58 (287)
                      .+++++.-+.....+  .+++.||.|+||+.++  +.|..     .....++||.....
T Consensus         4 ~~~~L~~wL~e~~~T--FIvV~GPrGSGK~elV~d~~L~~-----r~~vL~IDC~~i~~   55 (431)
T PF10443_consen    4 AIEQLKSWLNENPNT--FIVVQGPRGSGKRELVMDHVLKD-----RKNVLVIDCDQIVK   55 (431)
T ss_pred             HHHHHHHHHhcCCCe--EEEEECCCCCCccHHHHHHHHhC-----CCCEEEEEChHhhh
Confidence            356666666665444  4999999999999999  44433     34488999987655

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.26  E-value=0.00055  Score=60.93  Aligned_cols=25  Identities=28%  Similarity=0.251  Sum_probs=22.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      ..+++||+|+|||++++.+++.+..
T Consensus       171 R~lIvgppGvGKTTLaK~Ian~I~~  195 (416)
T PRK09376        171 RGLIVAPPKAGKTVLLQNIANSITT  195 (416)
T ss_pred             eEEEeCCCCCChhHHHHHHHHHHHh
Confidence            4889999999999999999998843

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=97.25  E-value=0.0034  Score=57.19  Aligned_cols=39  Identities=28%  Similarity=0.405  Sum_probs=26.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      ..+-++||+|+|||||+|.+.....+. .=.+.+|..++.
T Consensus       363 ~~lgIIGPSgSGKSTLaR~lvG~w~p~-~G~VRLDga~l~  401 (580)
T COG4618         363 EALGIIGPSGSGKSTLARLLVGIWPPT-SGSVRLDGADLR  401 (580)
T ss_pred             ceEEEECCCCccHHHHHHHHHcccccC-CCcEEecchhhh
Confidence            358899999999999999998776332 222344444433

>PTZ00088 adenylate kinase 1; Provisional

Probab=97.25  E-value=0.00033  Score=58.42  Aligned_cols=23  Identities=30%  Similarity=0.481  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||||+||||+++.|++.+
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            49999999999999999999988

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=97.25  E-value=0.0007  Score=58.82  Aligned_cols=91  Identities=29%  Similarity=0.375  Sum_probs=51.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC--CCceEEecc-cccccc-cchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS--KEAMVRIDM-SEYMEK-HTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~--~~~~~~~~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      +++++||+|+||||++++|...+...  ...++++.. .++.-. .....+. ...+ .+ .....+...++..+ ..++
T Consensus       134 ~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~~~~v~~~-~~~~-~~-~~~~~l~~aLR~~p-D~ii  209 (299)
T TIGR02782       134 NILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAAPNVVQLR-TSDD-AI-SMTRLLKATLRLRP-DRII  209 (299)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCCCCEEEEE-ecCC-CC-CHHHHHHHHhcCCC-CEEE
Confidence            79999999999999999999887432  344444432 222110 0000110 0001 11 22233445555554 8999


Q ss_pred             EcCcccccHHHHHHHHHhhcCc
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~  116 (287)
                      +.|+-.  ++... +++.+..|
T Consensus       210 vGEiR~--~ea~~-~l~a~~tG  228 (299)
T TIGR02782       210 VGEVRG--GEALD-LLKAWNTG  228 (299)
T ss_pred             EeccCC--HHHHH-HHHHHHcC
Confidence            999985  34443 46677665

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.24  E-value=0.00037  Score=56.07  Aligned_cols=23  Identities=22%  Similarity=0.420  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+++.||||+||||+++.|++.+
T Consensus         5 ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            59999999999999999999887

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=97.23  E-value=0.0015  Score=56.52  Aligned_cols=100  Identities=21%  Similarity=0.372  Sum_probs=65.4

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccccc--ch---hhhhCCC--CCCCcccchhhHHHHH
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKH--TV---SKFFGSP--PGYVGFENGGQLTEAV   85 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~--~~---~~~~~~~--~~~~~~~~~~~~~~~~   85 (287)
                      .++|. +++|+|-.|+||||.+-.||+.+...+..++..-+..+...-  .+   ....|-.  .+..|.+...-+++++
T Consensus       136 ~~~p~-Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpAaVafDAi  214 (340)
T COG0552         136 EKKPF-VILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPAAVAFDAI  214 (340)
T ss_pred             CCCcE-EEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcHHHHHHHH
Confidence            34565 899999999999999999999998777887777776665421  11   1111211  1113555554555544


Q ss_pred             H---hCCcEEEEEcCcccccH--HHHHHHHHhh
Q 047225           86 R---HRPHSVILFDEIEKAHR--DVLNVMLQLL  113 (287)
Q Consensus        86 ~---~~~~~il~iDeid~~~~--~~~~~L~~~l  113 (287)
                      +   ....++|++|=+.+++.  .+.+.|.++.
T Consensus       215 ~~Akar~~DvvliDTAGRLhnk~nLM~EL~KI~  247 (340)
T COG0552         215 QAAKARGIDVVLIDTAGRLHNKKNLMDELKKIV  247 (340)
T ss_pred             HHHHHcCCCEEEEeCcccccCchhHHHHHHHHH
Confidence            4   46678999999999865  3555554443

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.23  E-value=0.00058  Score=60.49  Aligned_cols=25  Identities=28%  Similarity=0.276  Sum_probs=22.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      ..+++||+|||||++++.+++.+..
T Consensus       135 R~LIvG~pGtGKTTLl~~la~~i~~  159 (380)
T PRK12608        135 RGLIVAPPRAGKTVLLQQIAAAVAA  159 (380)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHh
Confidence            5899999999999999999998844

>KOG3595 consensus Dyneins, heavy chain [Cytoskeleton]

Probab=97.23  E-value=0.0024  Score=66.57  Aligned_cols=153  Identities=18%  Similarity=0.242  Sum_probs=98.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCC-CCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSP-PGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      .++++||+|+|||.++..............  ++.+.+.........+-.. ..+.+..      -.-.....-++|+||
T Consensus       129 ~~~~~g~~g~gk~~~~~~~~~~~~~~~~~~--~~fs~~ts~~~~q~~~~~~~~k~~~~~------~~~~~~~~~~~f~dd  200 (1395)
T KOG3595|consen  129 PVLLVGPTGTGKTVLVLSELRSLQDREVYL--LNFSSVTSSELLQEIIESKLDKRRSGN------YGPPLGKKLVLFVDD  200 (1395)
T ss_pred             eEEEEcCCCCCeeeehHHHHHhcccchheE--EeeeeeccHHHHHHHHHHHHHHhcccC------CCCCCCceeEEEEec
Confidence            589999999999988877776653322222  4444444332222211100 0000000      000011235999999


Q ss_pred             cccc------cHHHHHHHHHhhcCceeecCC-CceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChh
Q 047225           98 IEKA------HRDVLNVMLQLLDDGRVTDGK-GQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        98 id~~------~~~~~~~L~~~l~~~~~~~~~-g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      ++..      .......+++.++.+.+.... +.++...++.++.+++++..+.                    ..+++.
T Consensus       201 inmp~~~~yg~q~~~~~lrq~~e~~g~~~~~~~~~~~i~~i~~~~a~~~~~~gr--------------------~~i~~r  260 (1395)
T KOG3595|consen  201 INMPALDKYGDQPPIELLRQMLEHGGFYDRKKSEWVEIENVQLVGAMNPPGGGR--------------------NDITER  260 (1395)
T ss_pred             cCCchhhhcCCccHHHHHHHHHHhceeecccccceeEEeeeEEEeecCCCCCcc--------------------CcccHH
Confidence            9954      335778899999988777654 5777778999999999743321                    246788


Q ss_pred             HHhccCceEEeCCCCHHHHHHHHHHHHHHH
Q 047225          171 FLNRIDEVIVFRQLNKMQLMEIVDIMLKEI  200 (287)
Q Consensus       171 l~~r~~~~i~~~~~~~~~~~~il~~~l~~~  200 (287)
                      |.++| ..+.+..++.+.+..|...++...
T Consensus       261 ~~r~f-~~~~~~~~~~~sl~~if~~~~~~~  289 (1395)
T KOG3595|consen  261 FLRHF-LIVSLNYPSQESLTQIFNTILTGH  289 (1395)
T ss_pred             HHHHe-eeEeeCCCChhhHHHHHHHHHhcc
Confidence            88889 999999999999999998777543

>PRK13946 shikimate kinase; Provisional

Probab=97.22  E-value=0.00041  Score=55.88  Aligned_cols=29  Identities=21%  Similarity=0.354  Sum_probs=25.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVR   50 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~   50 (287)
                      +++|+|.+|+|||++++.|++.+   +.+++-
T Consensus        12 ~I~l~G~~GsGKsti~~~LA~~L---g~~~id   40 (184)
T PRK13946         12 TVVLVGLMGAGKSTVGRRLATML---GLPFLD   40 (184)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHc---CCCeEC
Confidence            69999999999999999999998   555443

>PRK13948 shikimate kinase; Provisional

Probab=97.22  E-value=0.00045  Score=55.47  Aligned_cols=31  Identities=19%  Similarity=0.258  Sum_probs=26.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      +++|+|.+|+||||+++.|++.+   +.+++-.|
T Consensus        12 ~I~LiG~~GsGKSTvg~~La~~l---g~~~iD~D   42 (182)
T PRK13948         12 WVALAGFMGTGKSRIGWELSRAL---MLHFIDTD   42 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc---CCCEEECC
Confidence            79999999999999999999998   55555333

>PTZ00202 tuzin; Provisional

Probab=97.21  E-value=0.0019  Score=58.28  Aligned_cols=33  Identities=27%  Similarity=0.368  Sum_probs=27.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .+.|+|++|||||++++.+...+   +...+..|..
T Consensus       288 ivvLtG~~G~GKTTLlR~~~~~l---~~~qL~vNpr  320 (550)
T PTZ00202        288 IVVFTGFRGCGKSSLCRSAVRKE---GMPAVFVDVR  320 (550)
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC---CceEEEECCC
Confidence            68999999999999999999877   3445566665

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=97.21  E-value=0.0011  Score=52.61  Aligned_cols=77  Identities=25%  Similarity=0.386  Sum_probs=45.6

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccc---hhhhhC-CCCCCCcccchhhHHHHHHhC-CcEEEE
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT---VSKFFG-SPPGYVGFENGGQLTEAVRHR-PHSVIL   94 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~~~~~~~~-~~~il~   94 (287)
                      +++.|++|+|||++|..++...   +.+.+++....-.+...   +..... .+......+....+.+.+... ..++++
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~---~~~~~y~at~~~~d~em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~~~~~~VL   78 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAEL---GGPVTYIATAEAFDDEMAERIARHRKRRPAHWRTIETPRDLVSALKELDPGDVVL   78 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhc---CCCeEEEEccCcCCHHHHHHHHHHHHhCCCCceEeecHHHHHHHHHhcCCCCEEE
Confidence            6899999999999999998763   45666665544333211   111111 122233333334566666543 346899


Q ss_pred             EcCcc
Q 047225           95 FDEIE   99 (287)
Q Consensus        95 iDeid   99 (287)
                      ||-+.
T Consensus        79 IDclt   83 (169)
T cd00544          79 IDCLT   83 (169)
T ss_pred             EEcHh
Confidence            99876

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=97.21  E-value=0.00074  Score=59.07  Aligned_cols=90  Identities=24%  Similarity=0.389  Sum_probs=51.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc--CCCCceEEec-cccccccc-chhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF--GSKEAMVRID-MSEYMEKH-TVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~--~~~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      +++++|++|+||||++++|...+.  ..+..++++. ..++.... ....+..    ..+.+....+...++..| ..++
T Consensus       146 nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivtiEd~~El~~~~~n~v~l~~----~~~~~~~~lv~~aLR~~P-D~Ii  220 (323)
T PRK13833        146 NIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTAEIQCAAENAVALHT----SDTVDMARLLKSTMRLRP-DRII  220 (323)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEecCCcccccCCCCEEEecc----CCCcCHHHHHHHHhCCCC-CEEE
Confidence            699999999999999999998873  2234444443 22222110 0001100    011222233445555555 8999


Q ss_pred             EcCcccccHHHHHHHHHhhcCc
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~  116 (287)
                      +.|+-..  +... +++.+..|
T Consensus       221 vGEiRg~--ea~~-~l~a~~tG  239 (323)
T PRK13833        221 VGEVRDG--AALT-LLKAWNTG  239 (323)
T ss_pred             EeecCCH--HHHH-HHHHHcCC
Confidence            9999853  4444 56666654

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=97.21  E-value=0.0015  Score=65.16  Aligned_cols=92  Identities=13%  Similarity=0.063  Sum_probs=51.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHH----HhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAV----RHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~il~   94 (287)
                      .+++.|++|||||++.+.+.......+..++.+-.+....     ..+....+....+....+..+-    ...+..+|+
T Consensus       364 v~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTGkAA-----~~L~e~tGi~a~TI~sll~~~~~~~~~l~~~~vlI  438 (988)
T PRK13889        364 LGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIAA-----ENLEGGSGIASRTIASLEHGWGQGRDLLTSRDVLV  438 (988)
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcHHHH-----HHHhhccCcchhhHHHHHhhhcccccccccCcEEE
Confidence            5789999999999999988776644344444333222111     1111111111111111111100    012346999


Q ss_pred             EcCcccccHHHHHHHHHhhcC
Q 047225           95 FDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~  115 (287)
                      |||+-.++......|++....
T Consensus       439 VDEASMv~~~~m~~LL~~a~~  459 (988)
T PRK13889        439 IDEAGMVGTRQLERVLSHAAD  459 (988)
T ss_pred             EECcccCCHHHHHHHHHhhhh
Confidence            999999999988888776643

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=97.20  E-value=0.00077  Score=59.02  Aligned_cols=90  Identities=27%  Similarity=0.405  Sum_probs=51.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc--CCCCceEEec-cccccccc-chhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF--GSKEAMVRID-MSEYMEKH-TVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~--~~~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      +++++|++|+||||++++|...+.  .....++++. ..++.... ....+..    ....+....+...++..| +.++
T Consensus       150 ~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~El~~~~~~~v~~~~----~~~~~~~~ll~~aLR~~P-D~Ii  224 (319)
T PRK13894        150 NILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTGEIQCAAENYVQYHT----SIDVNMTALLKTTLRMRP-DRIL  224 (319)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCCccccCCCCEEEEec----CCCCCHHHHHHHHhcCCC-CEEE
Confidence            799999999999999999998752  2234444443 22322110 0001100    011222234445555555 8999


Q ss_pred             EcCcccccHHHHHHHHHhhcCc
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~  116 (287)
                      +.|+-..  +... +++.+..|
T Consensus       225 vGEiR~~--Ea~~-~l~A~~tG  243 (319)
T PRK13894        225 VGEVRGP--EALD-LLMAWNTG  243 (319)
T ss_pred             EeccCCH--HHHH-HHHHHHcC
Confidence            9999954  4443 56777765

>PRK14528 adenylate kinase; Provisional

Probab=97.20  E-value=0.00043  Score=55.90  Aligned_cols=23  Identities=35%  Similarity=0.616  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ++++.||||+||||+++.|++.+
T Consensus         3 ~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          3 NIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999887

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=97.20  E-value=0.00044  Score=55.11  Aligned_cols=23  Identities=30%  Similarity=0.671  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +++|+|++|+|||++++.|++.+
T Consensus         6 ~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          6 NIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             EEEEECCCCcCHHHHHHHHHHHc
Confidence            69999999999999999999987

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=97.20  E-value=0.00032  Score=54.84  Aligned_cols=22  Identities=41%  Similarity=0.593  Sum_probs=20.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|.|||||||+++.|+ .+
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~-~l   23 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR-EL   23 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH-Hh
Confidence            48999999999999999999 55

>PRK07667 uridine kinase; Provisional

Probab=97.20  E-value=0.00056  Score=55.57  Aligned_cols=39  Identities=15%  Similarity=0.187  Sum_probs=32.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      .|.+.|++|+||||+++.|++.+...+.+...++..++.
T Consensus        19 iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd~~   57 (193)
T PRK07667         19 ILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDDYI   57 (193)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCccc
Confidence            699999999999999999999986555666666666654

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.19  E-value=0.0022  Score=54.73  Aligned_cols=95  Identities=21%  Similarity=0.318  Sum_probs=55.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc--ccchhh---hhCCCCCCCcccchhhHHHHH---Hh-C
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME--KHTVSK---FFGSPPGYVGFENGGQLTEAV---RH-R   88 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~--~~~~~~---~~~~~~~~~~~~~~~~~~~~~---~~-~   88 (287)
                      ..++|+||+|+|||++++.++..+.........+++..+.-  ...+..   ..+-+ -..... ...+.+.+   .. .
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~-~~~~~~-~~~l~~~l~~l~~~~  153 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFE-VIAVRD-EAAMTRALTYFKEEA  153 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCce-EEecCC-HHHHHHHHHHHHhcC
Confidence            37999999999999999999988754445555566544321  111111   11100 001111 12333333   22 3


Q ss_pred             CcEEEEEcCccccc--HHHHHHHHHhhc
Q 047225           89 PHSVILFDEIEKAH--RDVLNVMLQLLD  114 (287)
Q Consensus        89 ~~~il~iDeid~~~--~~~~~~L~~~l~  114 (287)
                      +..+++||..-+.+  ...+..|.++++
T Consensus       154 ~~D~ViIDt~Gr~~~~~~~l~el~~~~~  181 (270)
T PRK06731        154 RVDYILIDTAGKNYRASETVEEMIETMG  181 (270)
T ss_pred             CCCEEEEECCCCCcCCHHHHHHHHHHHh
Confidence            56799999998874  456666776665

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=97.19  E-value=0.0011  Score=54.10  Aligned_cols=20  Identities=35%  Similarity=0.534  Sum_probs=19.1

Q ss_pred             EEEEeccCCChHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALA   38 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la   38 (287)
                      .++|+||.|+||||+.+.++
T Consensus        30 ~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          30 VLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             EEEEECCCCCChHHHHHHHH
Confidence            59999999999999999998

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=97.19  E-value=0.0065  Score=54.41  Aligned_cols=118  Identities=19%  Similarity=0.329  Sum_probs=70.1

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc--cc---hhh-----hhCCCCCCCcccchhhHHH
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK--HT---VSK-----FFGSPPGYVGFENGGQLTE   83 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~--~~---~~~-----~~~~~~~~~~~~~~~~~~~   83 (287)
                      .+|. .++++|--|+||||++-.||..+...+.....+.|..|...  ..   +..     +|+...+.....-...-.+
T Consensus        98 ~~P~-vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~  176 (451)
T COG0541          98 KPPT-VILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALE  176 (451)
T ss_pred             CCCe-EEEEEeccCCChHhHHHHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHH
Confidence            3454 79999999999999999999999776777777777766543  11   111     2222111111111122334


Q ss_pred             HHHhCCcEEEEEcCcccccH--HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCch
Q 047225           84 AVRHRPHSVILFDEIEKAHR--DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDS  142 (287)
Q Consensus        84 ~~~~~~~~il~iDeid~~~~--~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~  142 (287)
                      ..+...+.++++|-+.+++-  +..+.+..+-+.          +.+..+++|+-+-.+..
T Consensus       177 ~ak~~~~DvvIvDTAGRl~ide~Lm~El~~Ik~~----------~~P~E~llVvDam~GQd  227 (451)
T COG0541         177 KAKEEGYDVVIVDTAGRLHIDEELMDELKEIKEV----------INPDETLLVVDAMIGQD  227 (451)
T ss_pred             HHHHcCCCEEEEeCCCcccccHHHHHHHHHHHhh----------cCCCeEEEEEecccchH
Confidence            55556678999999987644  455555544432          22334556665555433

>PRK02496 adk adenylate kinase; Provisional

Probab=97.19  E-value=0.00042  Score=55.78  Aligned_cols=23  Identities=39%  Similarity=0.602  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++||||+||||+++.|++.+
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>PRK08233 hypothetical protein; Provisional

Probab=97.18  E-value=0.00053  Score=54.84  Aligned_cols=24  Identities=25%  Similarity=0.314  Sum_probs=22.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+.+.|+||+||||+++.|+..+.
T Consensus         5 iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          5 IITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCC
Confidence            689999999999999999999883

>COG4240 Predicted kinase [General function prediction only]

Probab=97.18  E-value=0.027  Score=46.31  Aligned_cols=196  Identities=15%  Similarity=0.206  Sum_probs=94.5

Q ss_pred             CCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC-CceEEeccccccccc----chhhhh-----C-CCCCCCcccchhh
Q 047225           12 DPNRPISSFLFTGPTGVGKTELANALAFEYFGSK-EAMVRIDMSEYMEKH----TVSKFF-----G-SPPGYVGFENGGQ   80 (287)
Q Consensus        12 ~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~-~~~~~~~~~~~~~~~----~~~~~~-----~-~~~~~~~~~~~~~   80 (287)
                      ..++|+ .+.++||-|||||+++..|...+...+ ....+.+..++.-..    .+.+-+     + ..+|.-..+....
T Consensus        46 e~grPl-i~gisGpQGSGKStls~~i~~~L~~kg~ert~~lSLDDlYlthadrl~La~q~npllq~RGlpGTHD~tlgln  124 (300)
T COG4240          46 ERGRPL-IVGISGPQGSGKSTLSALIVRLLAAKGLERTATLSLDDLYLTHADRLRLARQVNPLLQTRGLPGTHDPTLGLN  124 (300)
T ss_pred             hcCCce-EEEeecCCCCchhhHHHHHHHHHHHhcccceEEeehhhhhcchHHHHHHHHhcCchhcccCCCCCCchHHHHH
Confidence            345687 699999999999999999988886555 366666665543221    111110     0 1122211222223


Q ss_pred             HHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEe-----ecCCchhhhhh--ccCC--
Q 047225           81 LTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMT-----SNIGDSVIARE--SILG--  151 (287)
Q Consensus        81 ~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t-----~n~~~~~~~~~--~~~~--  151 (287)
                      +.+.+..+... +.+=-+||....         -.| -..+.+.++..+--++|+-     .+|-.......  +.+.  
T Consensus       125 VLnai~~g~~~-V~lPrfDKS~f~---------gag-DR~p~~q~ik~~vdivIlEGWfvGfrPidp~ll~~p~n~l~~~  193 (300)
T COG4240         125 VLNAIARGGPT-VPLPRFDKSAFA---------GAG-DRAPQTQWIKFEVDIVILEGWFVGFRPIDPELLAAPVNALEAA  193 (300)
T ss_pred             HHHHHhcCCCC-cccccccchhcc---------CCC-CCCCcccceecceeEEEEeeeeeecccCCHHHhCCCCccchhh
Confidence            34444444322 333333332110         000 0111233444443344442     12211111000  0000  


Q ss_pred             -chHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhcc
Q 047225          152 -SDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGY  226 (287)
Q Consensus       152 -~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~  226 (287)
                       .....--++..+  ..=.+|+.|++..|.+.+++......+=...-.++..++.+     ..+++.+....++.+
T Consensus       194 ed~a~~~dvN~kL--a~Y~pL~~rIdsLillta~din~vy~WRlQqEhkliAr~~k-----gmsdeqv~efvn~ym  262 (300)
T COG4240         194 EDGAWRADVNDKL--APYRPLFDRIDSLILLTAPDINTVYAWRLQQEHKLIARLAK-----GMSDEQVSEFVNAYM  262 (300)
T ss_pred             ccccHHHHHHhhh--hhhHHHHHHhhheeEecccchHHHHHHHHHHHHHHHHHHhc-----cCcHHHHHHHHHHHH
Confidence             000011111111  12256889999999999999887777655444444444433     357788887777654

>PLN02200 adenylate kinase family protein

Probab=97.18  E-value=0.00054  Score=57.37  Aligned_cols=34  Identities=12%  Similarity=0.270  Sum_probs=27.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      .++++|+||+||||+++.|++.+   +  +..+++++..
T Consensus        45 ii~I~G~PGSGKsT~a~~La~~~---g--~~his~gdll   78 (234)
T PLN02200         45 ITFVLGGPGSGKGTQCEKIVETF---G--FKHLSAGDLL   78 (234)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh---C--CeEEEccHHH
Confidence            68999999999999999999987   3  3355555544

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.17  E-value=0.00041  Score=58.73  Aligned_cols=34  Identities=24%  Similarity=0.403  Sum_probs=27.2

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      ++|+|+||+||||+|+.|++.+...+..++.++.
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i~~   35 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIILGT   35 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEcc
Confidence            7899999999999999999988544455555543

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=97.17  E-value=0.00053  Score=55.84  Aligned_cols=36  Identities=25%  Similarity=0.339  Sum_probs=27.3

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      +.+.||+|+||||+++.|+..+.  +.....+.+..+.
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l~--~~~~~v~~~D~~~   37 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQLG--NPKVVIISQDSYY   37 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC--CCCeEEEEecccc
Confidence            67999999999999999999872  3344555555544

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.16  E-value=0.004  Score=56.39  Aligned_cols=24  Identities=42%  Similarity=0.619  Sum_probs=21.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..+.|+||+|+||||++..|+..+
T Consensus       192 ~vi~lvGpnG~GKTTtlakLA~~~  215 (420)
T PRK14721        192 GVYALIGPTGVGKTTTTAKLAARA  215 (420)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            379999999999999999998764

>PRK14733 coaE dephospho-CoA kinase; Provisional

Probab=97.16  E-value=0.0043  Score=50.73  Aligned_cols=27  Identities=19%  Similarity=0.154  Sum_probs=23.3

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..|. .+.|+|+.||||||+++.+++.+
T Consensus         4 ~~~~-~IglTG~iGsGKStv~~~l~~~l   30 (204)
T PRK14733          4 INTY-PIGITGGIASGKSTATRILKEKL   30 (204)
T ss_pred             CceE-EEEEECCCCCCHHHHHHHHHHHc
Confidence            3454 59999999999999999999876

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=97.16  E-value=0.00054  Score=54.39  Aligned_cols=28  Identities=32%  Similarity=0.463  Sum_probs=24.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMV   49 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~   49 (287)
                      +++|+|++|+|||++++.|++.+   +.+++
T Consensus         4 ~i~~~G~~GsGKst~~~~la~~l---g~~~~   31 (171)
T PRK03731          4 PLFLVGARGCGKTTVGMALAQAL---GYRFV   31 (171)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh---CCCEE
Confidence            58899999999999999999998   45554

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.15  E-value=0.0015  Score=55.00  Aligned_cols=96  Identities=21%  Similarity=0.237  Sum_probs=52.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc--cc-----ccc-ccchhhhhCCC-------C-CCCcccchhh-H
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM--SE-----YME-KHTVSKFFGSP-------P-GYVGFENGGQ-L   81 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~--~~-----~~~-~~~~~~~~~~~-------~-~~~~~~~~~~-~   81 (287)
                      .+-|+|++||||||+++.+.....+....++.-..  ..     ..+ -..+....|..       + ...|....+- +
T Consensus        41 ~~glVGESG~GKSTlgr~i~~L~~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQrQRi~I  120 (268)
T COG4608          41 TLGLVGESGCGKSTLGRLILGLEEPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQRQRIGI  120 (268)
T ss_pred             EEEEEecCCCCHHHHHHHHHcCcCCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhhhhHHH
Confidence            58899999999999999999988655544432211  11     111 01111222211       1 1112222222 3


Q ss_pred             HHHHHhCCcEEEEEcCcc-cccHHHHHHHHHhhcC
Q 047225           82 TEAVRHRPHSVILFDEIE-KAHRDVLNVMLQLLDD  115 (287)
Q Consensus        82 ~~~~~~~~~~il~iDeid-~~~~~~~~~L~~~l~~  115 (287)
                      ..++...| .+++.||.- .++..++..++.++.+
T Consensus       121 ARALal~P-~liV~DEpvSaLDvSiqaqIlnLL~d  154 (268)
T COG4608         121 ARALALNP-KLIVADEPVSALDVSVQAQILNLLKD  154 (268)
T ss_pred             HHHHhhCC-cEEEecCchhhcchhHHHHHHHHHHH
Confidence            34444444 799999977 4466666666665543

>PRK13764 ATPase; Provisional

Probab=97.15  E-value=0.00089  Score=63.17  Aligned_cols=33  Identities=30%  Similarity=0.442  Sum_probs=26.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEe
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRI   51 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~   51 (287)
                      +++++||||+||||++++++..+...+..+.++
T Consensus       259 ~ILIsG~TGSGKTTll~AL~~~i~~~~riV~Ti  291 (602)
T PRK13764        259 GILIAGAPGAGKSTFAQALAEFYADMGKIVKTM  291 (602)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhCCCEEEEE
Confidence            699999999999999999999986544444344

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=97.15  E-value=0.0017  Score=52.26  Aligned_cols=37  Identities=27%  Similarity=0.324  Sum_probs=29.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      .+++.|++|+|||++++.|+..+...+...+.++...
T Consensus        20 ~i~i~G~~GsGKstla~~l~~~l~~~~~~~~~l~~d~   56 (184)
T TIGR00455        20 VIWLTGLSGSGKSTIANALEKKLESKGYRVYVLDGDN   56 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECChH
Confidence            6999999999999999999999854444455555443

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.15  E-value=0.00048  Score=56.59  Aligned_cols=30  Identities=27%  Similarity=0.649  Sum_probs=24.7

Q ss_pred             CCCCCCCcEEEEEeccCCChHHHHHHHHHHH
Q 047225           10 IRDPNRPISSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        10 ~~~~~~~~~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      ...|+++. .++|+||+|+||||+++.|.+.
T Consensus         7 ~~~~~~~~-~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738          7 FNKPAKPL-LVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             cCCCCCCe-EEEEECcCCCCHHHHHHHHHhc
Confidence            34566665 6999999999999999999765

>TIGR00750 lao LAO/AO transport system ATPase

Probab=97.13  E-value=0.002  Score=56.16  Aligned_cols=37  Identities=27%  Similarity=0.327  Sum_probs=29.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      ..+.|.|++|+||||++..++..+...+..+..+++.
T Consensus        35 ~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i~~D   71 (300)
T TIGR00750        35 HRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIAVD   71 (300)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecC
Confidence            3699999999999999999999886555666555544

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.13  E-value=0.0012  Score=62.43  Aligned_cols=29  Identities=31%  Similarity=0.455  Sum_probs=24.3

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      |.-++.|+||+|+||||++..|-+.+.+.
T Consensus       493 pGe~vALVGPSGsGKSTiasLL~rfY~Pt  521 (716)
T KOG0058|consen  493 PGEVVALVGPSGSGKSTIASLLLRFYDPT  521 (716)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhcCCC
Confidence            33479999999999999999998887554

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.13  E-value=0.00035  Score=56.20  Aligned_cols=24  Identities=42%  Similarity=0.520  Sum_probs=22.3

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcC
Q 047225           20 FLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      ++|+|+||+||||+|+.|++.+..
T Consensus         4 iIlTGyPgsGKTtfakeLak~L~~   27 (261)
T COG4088           4 IILTGYPGSGKTTFAKELAKELRQ   27 (261)
T ss_pred             EEEecCCCCCchHHHHHHHHHHHH
Confidence            899999999999999999999944

>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase

Probab=97.12  E-value=0.0042  Score=54.96  Aligned_cols=94  Identities=30%  Similarity=0.446  Sum_probs=54.2

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEec-cccccccc-chhhhhCCC---CCCCcccchhhHHHHHHhCCcEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRID-MSEYMEKH-TVSKFFGSP---PGYVGFENGGQLTEAVRHRPHSV   92 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~-~~~~~~~~-~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~i   92 (287)
                      .++++.|++|+|||++.+++...+... ..++.+. ..++.... ....+....   .+..+.+....+...++..| ..
T Consensus       179 ~~ili~G~tGsGKTTll~al~~~i~~~-~riv~iEd~~El~~~~~~~~~l~~r~~~~~g~~~~t~~~ll~~aLR~~P-D~  256 (340)
T TIGR03819       179 LAFLISGGTGSGKTTLLSALLALVAPD-ERIVLVEDAAELRPDHPHVVRLEARPANVEGAGAVTLTDLVRQALRMRP-DR  256 (340)
T ss_pred             CeEEEECCCCCCHHHHHHHHHccCCCC-CcEEEECCcceecCCCCCeeeEEeccccccCcCccCHHHHHHHHhccCC-Ce
Confidence            379999999999999999999887554 3344443 33332111 111111111   01112222334555666655 79


Q ss_pred             EEEcCcccccHHHHHHHHHhhcCc
Q 047225           93 ILFDEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        93 l~iDeid~~~~~~~~~L~~~l~~~  116 (287)
                      +++.|+-.  ++... +++.+..|
T Consensus       257 IivGEiRg--~Ea~~-~l~a~~tG  277 (340)
T TIGR03819       257 IVVGEVRG--AEVVD-LLAALNTG  277 (340)
T ss_pred             EEEeCcCc--HHHHH-HHHHHHcC
Confidence            99999994  45544 46777765

Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.

>PRK14700 recombination factor protein RarA; Provisional

Probab=97.12  E-value=0.0014  Score=56.08  Aligned_cols=67  Identities=13%  Similarity=0.284  Sum_probs=53.4

Q ss_pred             CChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          167 FRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       167 ~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      +.++|+||+ ..+.+.|++.+++..++++.+... ..+.  ...+.++++++++|+..+.      ++.|++++ .++
T Consensus        23 vn~ALlSR~-~v~~l~~L~~~di~~il~ral~~~-~~~~--~~~~~i~~~al~~ia~~a~------GDaR~aLN-~LE   89 (300)
T PRK14700         23 LNDALVSRL-FILRLKRLSLVATQKLIEKALSQD-EVLA--KHKFKIDDGLYNAMHNYNE------GDCRKILN-LLE   89 (300)
T ss_pred             ecHhhhhhh-heeeecCCCHHHHHHHHHHHHHhh-hccC--CcCCCcCHHHHHHHHHhcC------CHHHHHHH-HHH
Confidence            568999999 999999999999999999988752 1121  2247899999999999865      57888877 444

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=97.11  E-value=0.0015  Score=53.10  Aligned_cols=29  Identities=38%  Similarity=0.509  Sum_probs=24.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh--cCCCCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEY--FGSKEA   47 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l--~~~~~~   47 (287)
                      .+.|.||+|+||||+.+.|+..+  ......
T Consensus        37 ~~~l~G~nGsGKStLl~~i~Gl~~~~~~~G~   67 (194)
T cd03213          37 LTAIMGPSGAGKSTLLNALAGRRTGLGVSGE   67 (194)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCCceE
Confidence            69999999999999999999887  544333

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=97.11  E-value=0.00095  Score=57.52  Aligned_cols=44  Identities=18%  Similarity=0.234  Sum_probs=31.2

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHhc--CCCCceEEecccccc
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEYF--GSKEAMVRIDMSEYM   57 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l~--~~~~~~~~~~~~~~~   57 (287)
                      ++.|. .+.+.||+|+||||+++.|...+.  +....+..+.+..+.
T Consensus        59 ~~~p~-IIGIaG~~GSGKSTlar~L~~ll~~~~~~g~V~vi~~D~f~  104 (290)
T TIGR00554        59 AKIPY-IISIAGSVAVGKSTTARILQALLSRWPEHRKVELITTDGFL  104 (290)
T ss_pred             CCCCE-EEEEECCCCCCHHHHHHHHHHHHhhcCCCCceEEEeccccc
Confidence            45565 699999999999999999988874  223344445554444

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>TIGR00235 udk uridine kinase

Probab=97.09  E-value=0.0007  Score=55.60  Aligned_cols=24  Identities=25%  Similarity=0.228  Sum_probs=22.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+.|.||+|+||||+++.|+..+.
T Consensus         8 vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         8 IIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            689999999999999999999874

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=97.09  E-value=0.00055  Score=57.48  Aligned_cols=37  Identities=22%  Similarity=0.347  Sum_probs=27.1

Q ss_pred             EeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc
Q 047225           22 FTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME   58 (287)
Q Consensus        22 l~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~   58 (287)
                      ++||+|+||||+++.+.+.+...+.+...+|+..-.+
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~vNLDPa~~   37 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIVNLDPAVE   37 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT-S-EEEEE--TT-S
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhccCCceEEEcchHhc
Confidence            4799999999999999999977777888888765443

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]

Probab=97.09  E-value=0.011  Score=52.43  Aligned_cols=32  Identities=34%  Similarity=0.733  Sum_probs=24.7

Q ss_pred             CCCCCCCcEEEEEeccCCChHH-HHHHHHHHHh
Q 047225           10 IRDPNRPISSFLFTGPTGVGKT-ELANALAFEY   41 (287)
Q Consensus        10 ~~~~~~~~~~ill~Gp~GtGKT-~la~~la~~l   41 (287)
                      ..++..|...++|+|++||||| +|+++++-..
T Consensus       172 ~~d~~~P~~r~vL~Ge~GtGKSiaL~qa~h~a~  204 (461)
T KOG3928|consen  172 LVDPMHPVKRFVLDGEPGTGKSIALAQAVHYAA  204 (461)
T ss_pred             hccccCcceEEEEeCCCCCchhhHHHHHHHHHh
Confidence            3455677778999999999999 5666666655

>PTZ00293 thymidine kinase; Provisional

Probab=97.08  E-value=0.0042  Score=50.80  Aligned_cols=93  Identities=18%  Similarity=0.151  Sum_probs=48.3

Q ss_pred             EEEEeccCCChHHH-HHHHHHHHhcCCCCceEEeccc---ccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTE-LANALAFEYFGSKEAMVRIDMS---EYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~-la~~la~~l~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      .-+++||-++|||+ |.+.+.+.... +.+...+...   .+.....+....|.............+.+.+  .+..+|+
T Consensus         6 i~vi~GpMfSGKTteLLr~i~~y~~a-g~kv~~~kp~~DtR~~~~~~I~Sh~g~~~~a~~v~~~~e~~~~~--~~~dvI~   82 (211)
T PTZ00293          6 ISVIIGPMFSGKTTELMRLVKRFTYS-EKKCVVIKYSKDTRYSDEQNISSHDKQMLKAIKVSKLKEVLETA--KNYDVIA   82 (211)
T ss_pred             EEEEECCCCChHHHHHHHHHHHHHHc-CCceEEEEecccccCCCCCcEEecCCCcceeEEcCCHHHHHHhc--cCCCEEE
Confidence            36789999999998 99988776533 3344433322   2201111111111111111111222333333  3446999


Q ss_pred             EcCcccccHHHHHHHHHhhcC
Q 047225           95 FDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~  115 (287)
                      |||+..++ ++......+.+.
T Consensus        83 IDEaQFf~-~i~~~~~~l~~~  102 (211)
T PTZ00293         83 IDEGQFFP-DLVEFSEAAANL  102 (211)
T ss_pred             EEchHhhH-hHHHHHHHHHHC
Confidence            99999985 455555555443

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=97.08  E-value=0.00069  Score=56.21  Aligned_cols=38  Identities=18%  Similarity=0.225  Sum_probs=28.4

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcC--CCCceEEecccccc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFG--SKEAMVRIDMSEYM   57 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~--~~~~~~~~~~~~~~   57 (287)
                      +.|.||+|+||||+++.|+..+..  .+..+..+.+..+.
T Consensus         2 igI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~D~f~   41 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITTDGFL   41 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEecCccc
Confidence            578999999999999999998843  23445555555543

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK04040 adenylate kinase; Provisional

Probab=97.08  E-value=0.00068  Score=54.82  Aligned_cols=24  Identities=33%  Similarity=0.365  Sum_probs=22.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .++++|+|||||||+++.+++.+.
T Consensus         4 ~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          4 VVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHhc
Confidence            699999999999999999999983

>TIGR01351 adk adenylate kinases

Probab=97.08  E-value=0.00056  Score=56.35  Aligned_cols=22  Identities=36%  Similarity=0.671  Sum_probs=20.9

Q ss_pred             EEEeccCCChHHHHHHHHHHHh
Q 047225           20 FLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ++++||||+||||+++.|++.+
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999999887

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>PRK13826 Dtr system oriT relaxase; Provisional

Probab=97.07  E-value=0.0019  Score=64.90  Aligned_cols=92  Identities=13%  Similarity=0.079  Sum_probs=54.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHH----HHhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEA----VRHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~il~   94 (287)
                      ..++.|++|||||++.+.+.......+..++-.-.+.-.. ..+....|.    .+.+....+...    -......+|+
T Consensus       399 ~~~v~G~AGTGKTt~l~~~~~~~e~~G~~V~g~ApTgkAA-~~L~e~~Gi----~a~TIas~ll~~~~~~~~l~~~~vlV  473 (1102)
T PRK13826        399 IAAVVGRAGAGKTTMMKAAREAWEAAGYRVVGGALAGKAA-EGLEKEAGI----QSRTLSSWELRWNQGRDQLDNKTVFV  473 (1102)
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcHHHH-HHHHHhhCC----CeeeHHHHHhhhccCccCCCCCcEEE
Confidence            6899999999999999999887755455554433321111 111111111    111111111111    0112346999


Q ss_pred             EcCcccccHHHHHHHHHhhcC
Q 047225           95 FDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~  115 (287)
                      |||+..++......|++.++.
T Consensus       474 IDEAsMv~~~~m~~Ll~~~~~  494 (1102)
T PRK13826        474 LDEAGMVASRQMALFVEAVTR  494 (1102)
T ss_pred             EECcccCCHHHHHHHHHHHHh
Confidence            999999999999988888763

>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3

Probab=97.06  E-value=0.0037  Score=49.67  Aligned_cols=25  Identities=44%  Similarity=0.565  Sum_probs=21.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      +++|.+|+|+|||.++-.++..+..
T Consensus        27 ~~ll~~~tGsGKT~~~~~~~~~l~~   51 (184)
T PF04851_consen   27 RVLLNAPTGSGKTIIALALILELAR   51 (184)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCcChhhhhhhhcccc
Confidence            6999999999999999877666644

1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.05  E-value=0.0093  Score=47.25  Aligned_cols=33  Identities=24%  Similarity=0.296  Sum_probs=26.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEe
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRI   51 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~   51 (287)
                      -+.+++++|.|||++|-.++-+....+.++..+
T Consensus         7 li~v~~g~GkGKtt~a~g~a~ra~~~g~~v~iv   39 (173)
T TIGR00708         7 IIIVHTGNGKGKTTAAFGMALRALGHGKKVGVI   39 (173)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHHCCCeEEEE
Confidence            588999999999999999998886666666433

Alternate name: corrinoid adenosyltransferase.

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=97.05  E-value=0.0032  Score=50.39  Aligned_cols=29  Identities=24%  Similarity=0.275  Sum_probs=24.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEA   47 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~   47 (287)
                      .+.|.||.|+||||+++.|+..+......
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~   56 (178)
T cd03229          28 IVALLGPSGSGKSTLLRCIAGLEEPDSGS   56 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCceE
Confidence            68899999999999999999877544333

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK00279 adk adenylate kinase; Reviewed

Probab=97.05  E-value=0.00075  Score=55.79  Aligned_cols=23  Identities=35%  Similarity=0.645  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++||||+||||+++.|++.+
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999988

>PRK09354 recA recombinase A; Provisional

Probab=97.04  E-value=0.0047  Score=54.50  Aligned_cols=82  Identities=23%  Similarity=0.214  Sum_probs=50.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhC--------CCCCCCcccchhhHHHHHHhCCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFG--------SPPGYVGFENGGQLTEAVRHRPH   90 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~   90 (287)
                      .+.++||+|||||+++-.++......+...++++.....+.. ....+|        ..+. .+-.....+...+++...
T Consensus        62 IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~-~a~~lGvdld~lli~qp~-~~Eq~l~i~~~li~s~~~  139 (349)
T PRK09354         62 IVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPV-YAKKLGVDIDNLLVSQPD-TGEQALEIADTLVRSGAV  139 (349)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHH-HHHHcCCCHHHeEEecCC-CHHHHHHHHHHHhhcCCC
Confidence            688999999999999988877765667788888886544331 111111        1111 110111122234455566


Q ss_pred             EEEEEcCccccc
Q 047225           91 SVILFDEIEKAH  102 (287)
Q Consensus        91 ~il~iDeid~~~  102 (287)
                      .+|+||-+-.+.
T Consensus       140 ~lIVIDSvaaL~  151 (349)
T PRK09354        140 DLIVVDSVAALV  151 (349)
T ss_pred             CEEEEeChhhhc
Confidence            899999887554

>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.04  E-value=0.0022  Score=53.77  Aligned_cols=94  Identities=24%  Similarity=0.448  Sum_probs=55.5

Q ss_pred             EEEEEeccCCChHHHHH-HHHHHHhcCCCCceEEe-cccccccccchhhhhCCCCCCCcccch---hhHHHHHHhCCcEE
Q 047225           18 SSFLFTGPTGVGKTELA-NALAFEYFGSKEAMVRI-DMSEYMEKHTVSKFFGSPPGYVGFENG---GQLTEAVRHRPHSV   92 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la-~~la~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~i   92 (287)
                      +-++++|++|+||||.. ..+..+-..+..+++++ |.-+|.....-.-..   ...+|.+-.   ..+...++..| ++
T Consensus       128 GLviiVGaTGSGKSTtmAaMi~yRN~~s~gHIiTIEDPIEfih~h~~CIvT---QREvGvDTesw~~AlkNtlRQap-Dv  203 (375)
T COG5008         128 GLVIIVGATGSGKSTTMAAMIGYRNKNSTGHIITIEDPIEFIHKHKRCIVT---QREVGVDTESWEVALKNTLRQAP-DV  203 (375)
T ss_pred             ceEEEECCCCCCchhhHHHHhcccccCCCCceEEecChHHHHhcccceeEE---eeeeccchHHHHHHHHHHHhcCC-Ce
Confidence            46999999999998654 44444434444566655 334443321111000   111232221   23556777766 79


Q ss_pred             EEEcCcccccHHHHHHHHHhhcCce
Q 047225           93 ILFDEIEKAHRDVLNVMLQLLDDGR  117 (287)
Q Consensus        93 l~iDeid~~~~~~~~~L~~~l~~~~  117 (287)
                      ++|-|+-  +.+..+.-..+.++|.
T Consensus       204 I~IGEvR--sretMeyAi~fAeTGH  226 (375)
T COG5008         204 ILIGEVR--SRETMEYAIQFAETGH  226 (375)
T ss_pred             EEEeecc--cHhHHHHHHHHHhcCc
Confidence            9999997  6677777788888874

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=97.04  E-value=0.0048  Score=49.24  Aligned_cols=30  Identities=27%  Similarity=0.410  Sum_probs=24.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCce
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAM   48 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~   48 (287)
                      -++++||+|.||||+.+.|.....+....+
T Consensus        30 f~fl~GpSGAGKSTllkLi~~~e~pt~G~i   59 (223)
T COG2884          30 FVFLTGPSGAGKSTLLKLIYGEERPTRGKI   59 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhhcCCCceE
Confidence            489999999999999999999875554433

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=97.03  E-value=0.0019  Score=56.76  Aligned_cols=39  Identities=21%  Similarity=0.376  Sum_probs=29.9

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      +++. .+.|.|+||+||||++..+...+...+..+..+..
T Consensus        54 ~~~~-~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~   92 (332)
T PRK09435         54 GNAL-RIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAV   92 (332)
T ss_pred             CCcE-EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEe
Confidence            4444 69999999999999999999988655555554443

>PRK15453 phosphoribulokinase; Provisional

Probab=97.02  E-value=0.0011  Score=56.38  Aligned_cols=39  Identities=15%  Similarity=0.242  Sum_probs=31.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      .+.+.|+||+||||+++.+++.+...+.....++...|.
T Consensus         7 iI~ItG~SGsGKTTva~~l~~if~~~~~~~~vi~~D~yh   45 (290)
T PRK15453          7 IIAVTGSSGAGTTTVKRAFEKIFRRENINAAVVEGDSFH   45 (290)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEEeccccc
Confidence            699999999999999999999885444455566666555

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.02  E-value=0.00057  Score=53.83  Aligned_cols=21  Identities=43%  Similarity=0.556  Sum_probs=18.2

Q ss_pred             EEEeccCCChHHHHHHHHHHH
Q 047225           20 FLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~   40 (287)
                      |+|+|++|||||||++.|++.
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999999988

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.02  E-value=0.00071  Score=51.23  Aligned_cols=24  Identities=33%  Similarity=0.393  Sum_probs=22.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .++|.|+.|+|||++++.+++.+.
T Consensus        24 ~i~l~G~lGaGKTtl~~~l~~~lg   47 (133)
T TIGR00150        24 VVLLKGDLGAGKTTLVQGLLQGLG   47 (133)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            799999999999999999999984

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=97.02  E-value=0.0006  Score=54.53  Aligned_cols=24  Identities=25%  Similarity=0.389  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+++.||+|+||||+++.|+..+.
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            589999999999999999999874

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.01  E-value=0.0012  Score=56.62  Aligned_cols=96  Identities=18%  Similarity=0.260  Sum_probs=54.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc--cc---hhhhhCCC--CCCCcccchhhHHH---HHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK--HT---VSKFFGSP--PGYVGFENGGQLTE---AVRH   87 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~--~~---~~~~~~~~--~~~~~~~~~~~~~~---~~~~   87 (287)
                      ..++|+||+|+||||++..||..+...+..+..+++..+...  ..   .....+.+  ....+.+......+   ....
T Consensus        73 ~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~~~~~  152 (272)
T TIGR00064        73 NVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQKAKA  152 (272)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            379999999999999999999888665666767776654321  11   11111110  00011111112222   2234


Q ss_pred             CCcEEEEEcCcccccH--HHHHHHHHhh
Q 047225           88 RPHSVILFDEIEKAHR--DVLNVMLQLL  113 (287)
Q Consensus        88 ~~~~il~iDeid~~~~--~~~~~L~~~l  113 (287)
                      ..+.+++||=..+.+.  ..+..|..+.
T Consensus       153 ~~~D~ViIDT~G~~~~d~~~~~el~~~~  180 (272)
T TIGR00064       153 RNIDVVLIDTAGRLQNKVNLMDELKKIK  180 (272)
T ss_pred             CCCCEEEEeCCCCCcchHHHHHHHHHHH
Confidence            5567999998877653  3444455444

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=97.00  E-value=0.0054  Score=56.44  Aligned_cols=86  Identities=15%  Similarity=0.252  Sum_probs=46.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC-----CCceEEecccc-cccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS-----KEAMVRIDMSE-YMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSV   92 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~-----~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   92 (287)
                      .+.++||||||||||.+.|-+.+...     ..++..+..-. ..+      ++.      .....+.+.+..+-...-+
T Consensus        71 IvavvGPpGtGKsTLirSlVrr~tk~ti~~i~GPiTvvsgK~RRiT------flE------cp~Dl~~miDvaKIaDLVl  138 (1077)
T COG5192          71 IVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRGPITVVSGKTRRIT------FLE------CPSDLHQMIDVAKIADLVL  138 (1077)
T ss_pred             EEEeecCCCCChhHHHHHHHHHHHHhhhhccCCceEEeecceeEEE------EEe------ChHHHHHHHhHHHhhheeE
Confidence            46799999999999999998876211     11221111100 000      000      0011134444444445457


Q ss_pred             EEEcCcccccHHHHHHHHHhhcCc
Q 047225           93 ILFDEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        93 l~iDeid~~~~~~~~~L~~~l~~~  116 (287)
                      |+||.--.+..+..+.|.-++..|
T Consensus       139 LlIdgnfGfEMETmEFLnil~~HG  162 (1077)
T COG5192         139 LLIDGNFGFEMETMEFLNILISHG  162 (1077)
T ss_pred             EEeccccCceehHHHHHHHHhhcC
Confidence            777876666666666665555543

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.99  E-value=0.00053  Score=55.31  Aligned_cols=23  Identities=35%  Similarity=0.498  Sum_probs=21.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||+|+||||+++.|+..+
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            58999999999999999998876

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=96.98  E-value=0.0006  Score=60.04  Aligned_cols=28  Identities=32%  Similarity=0.291  Sum_probs=23.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKE   46 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~   46 (287)
                      .+.|.||+||||||+.|+||....+++.
T Consensus        33 f~~lLGPSGcGKTTlLR~IAGfe~p~~G   60 (352)
T COG3842          33 FVTLLGPSGCGKTTLLRMIAGFEQPSSG   60 (352)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4889999999999999999988755443

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.98  E-value=0.00083  Score=54.96  Aligned_cols=23  Identities=35%  Similarity=0.603  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||+|+|||++++.|+..+
T Consensus         7 ~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          7 LIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            69999999999999999999986

>PRK14527 adenylate kinase; Provisional

Probab=96.98  E-value=0.00079  Score=54.53  Aligned_cols=23  Identities=43%  Similarity=0.663  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++||||+||||+++.|++.+
T Consensus         8 ~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          8 VVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999887

>TIGR00416 sms DNA repair protein RadA

Probab=96.97  E-value=0.0024  Score=58.81  Aligned_cols=84  Identities=18%  Similarity=0.258  Sum_probs=51.7

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccch-hhhhCCCCC---CCcccchhhHHHHHHhCCcEEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV-SKFFGSPPG---YVGFENGGQLTEAVRHRPHSVI   93 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~il   93 (287)
                      ..+++.|+||+|||+++..++..+...+.+.++++..+....... ...++....   .........+.+.+......++
T Consensus        95 svilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs~~qi~~ra~rlg~~~~~l~~~~e~~~~~I~~~i~~~~~~~v  174 (454)
T TIGR00416        95 SLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEESLQQIKMRAIRLGLPEPNLYVLSETNWEQICANIEEENPQAC  174 (454)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCCHHHHHHHHHHcCCChHHeEEcCCCCHHHHHHHHHhcCCcEE
Confidence            369999999999999999998877555567777776543221100 111221100   0111223456666766667899


Q ss_pred             EEcCcccc
Q 047225           94 LFDEIEKA  101 (287)
Q Consensus        94 ~iDeid~~  101 (287)
                      +||.+..+
T Consensus       175 VIDSIq~l  182 (454)
T TIGR00416       175 VIDSIQTL  182 (454)
T ss_pred             EEecchhh
Confidence            99998754

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=96.96  E-value=0.0012  Score=42.68  Aligned_cols=26  Identities=38%  Similarity=0.696  Sum_probs=23.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      ..+|+||.|+||||+..++.-.+.+.
T Consensus        25 ~tli~G~nGsGKSTllDAi~~~L~~~   50 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQTVLYGN   50 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHcCC
Confidence            69999999999999999999888654

>PRK05439 pantothenate kinase; Provisional

Probab=96.96  E-value=0.0014  Score=57.05  Aligned_cols=45  Identities=16%  Similarity=0.212  Sum_probs=33.4

Q ss_pred             CCCCCcEEEEEeccCCChHHHHHHHHHHHhcC--CCCceEEecccccc
Q 047225           12 DPNRPISSFLFTGPTGVGKTELANALAFEYFG--SKEAMVRIDMSEYM   57 (287)
Q Consensus        12 ~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~--~~~~~~~~~~~~~~   57 (287)
                      ..++|. .|.+.|+||+||||+++.|+..+..  .+.....+.+.++.
T Consensus        82 ~~~~~~-iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~~DdFy  128 (311)
T PRK05439         82 GQKVPF-IIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVTTDGFL  128 (311)
T ss_pred             CCCCCE-EEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEeccccc
Confidence            445665 6999999999999999999998743  23445566666655

>PLN02165 adenylate isopentenyltransferase

Probab=96.96  E-value=0.0009  Score=58.45  Aligned_cols=23  Identities=35%  Similarity=0.585  Sum_probs=22.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||+|+|||+++..||..+
T Consensus        45 iivIiGPTGSGKStLA~~LA~~l   67 (334)
T PLN02165         45 VVVIMGATGSGKSRLSVDLATRF   67 (334)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHc
Confidence            69999999999999999999998

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=96.94  E-value=0.0041  Score=48.98  Aligned_cols=24  Identities=29%  Similarity=0.553  Sum_probs=21.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      ..+++||.|+|||++.++++-.+.
T Consensus        23 ~~~i~G~NgsGKS~~l~~i~~~~~   46 (162)
T cd03227          23 LTIITGPNGSGKSTILDAIGLALG   46 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            699999999999999999877663

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.

>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]

Probab=96.94  E-value=0.0039  Score=58.31  Aligned_cols=29  Identities=31%  Similarity=0.431  Sum_probs=22.4

Q ss_pred             EEEEeccCCChHHH-HHHHHHHHhcCCCCc
Q 047225           19 SFLFTGPTGVGKTE-LANALAFEYFGSKEA   47 (287)
Q Consensus        19 ~ill~Gp~GtGKT~-la~~la~~l~~~~~~   47 (287)
                      .+++.|++|||||| +.+.|++..+.....
T Consensus        68 vlIviGeTGsGKSTQipQyL~eaG~~~~g~   97 (674)
T KOG0922|consen   68 VLIVIGETGSGKSTQIPQYLAEAGFASSGK   97 (674)
T ss_pred             EEEEEcCCCCCccccHhHHHHhcccccCCc
Confidence            69999999999987 777777776544433

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=96.94  E-value=0.00066  Score=59.43  Aligned_cols=28  Identities=25%  Similarity=0.305  Sum_probs=23.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKE   46 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~   46 (287)
                      .+.|+||+||||||+.+.||.....++.
T Consensus        31 f~vllGPSGcGKSTlLr~IAGLe~~~~G   58 (338)
T COG3839          31 FVVLLGPSGCGKSTLLRMIAGLEEPTSG   58 (338)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            5899999999999999999988754433

>smart00072 GuKc Guanylate kinase homologues

Probab=96.94  E-value=0.02  Score=46.06  Aligned_cols=23  Identities=39%  Similarity=0.681  Sum_probs=21.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||+|+||+++++.|.+..
T Consensus         4 ~ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        4 PIVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            59999999999999999998886

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	287
1qvr_A	854	Crystal Structure Analysis Of Clpb Length = 854		2e-79
4fct_A	308	Crystal Structure Of The C-Terminal Domain Of Clpb		5e-78
4fcv_A	311	Crystal Structure Of The C-Terminal Domain Of Clpb		1e-74
3pxi_A	758	Structure Of Meca108:clpc Length = 758		9e-65
1ksf_X	758	Crystal Structure Of Clpa, An Hsp100 Chaperone And		6e-52
4b4t_K	428	Near-Atomic Resolution Structural Model Of The Yeas		2e-04

>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb Length = 854

Iteration: 1
 Score =  291 bits (746), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 148/274 (54%), Positives = 185/274 (67%), Gaps = 4/274 (1%)
Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RAR G++DPNRPI SFLF GPTGVGKTELA  LA   F ++EAM+RIDM+EYMEKH 
Sbjct: 573 AIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHA 632
Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VS+  G+PPGYVG+E GGQLTEAVR RP+SVILFDEIEKAH DV N++LQ+LDDGR+TD 
Sbjct: 633 VSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDS 692
Query: 122 KGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMER---GVAXXXXXXXXXXXXXXIDEV 178
            G+TVD +NT+II+TSN+G  +I  E +      ER    V               +DE+
Sbjct: 693 HGRTVDFRNTVIILTSNLGSPLIL-EGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEI 751
Query: 179 IVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRA 238
           +VFR L K Q+ +IV+I L  +  RL  K + L +T   K  L E GY+P +GARPLRR 
Sbjct: 752 VVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRV 811
Query: 239 IGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNV 272
           I R LE  LA+ IL G ++ GD V +D    G V
Sbjct: 812 IQRELETPLAQKILAGEVKEGDRVQVDVGPAGLV 845

>pdb|4FCT|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb Length = 308

Iteration: 1
 Score =  287 bits (734), Expect = 5e-78,   Method: Compositional matrix adjust.
 Identities = 147/275 (53%), Positives = 184/275 (66%), Gaps = 4/275 (1%)
Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RAR G++DPNRPI SFLF GPTGVGKTELA  LA   F ++EAM+RIDM+EYMEKH 
Sbjct: 29  AIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHA 88
Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VS+  G+PPGYVG+E GGQLTEAVR RP+SVILFD IEKAH DV N++LQ+LDDGR+TD 
Sbjct: 89  VSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQILDDGRLTDS 148
Query: 122 KGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMER---GVAXXXXXXXXXXXXXXIDEV 178
            G+TVD +NT+II+TSN+G  +I  E +      ER    V               +DE+
Sbjct: 149 HGRTVDFRNTVIILTSNLGSPLIL-EGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEI 207
Query: 179 IVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRA 238
           +VFR L K Q+ +IV+I L  +  RL  K + L +T   K  L E GY+P +GARPLRR 
Sbjct: 208 VVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRV 267
Query: 239 IGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVI 273
           I R LE  LA+ IL G ++ GD V +D    G V 
Sbjct: 268 IQRELETPLAQKILAGEVKEGDRVQVDVGPAGLVF 302

>pdb|4FCV|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb Length = 311

Iteration: 1
 Score =  276 bits (705), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 144/280 (51%), Positives = 179/280 (63%), Gaps = 4/280 (1%)
Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RAR G++DPNRPI SFLF GPTGVGKTELA  LA   F ++EA +RID +EY EKH 
Sbjct: 32  AIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAXIRIDXTEYXEKHA 91
Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VS+  G+PPGYVG+E GGQLTEAVR RP+SVILFD IEKAH DV N++LQ LDDGR+TD 
Sbjct: 92  VSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQXLDDGRLTDS 151
Query: 122 KGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMER---GVAXXXXXXXXXXXXXXIDEV 178
            G+TVD +NT+II TSN+G  +I  E +      ER    V               +DE+
Sbjct: 152 HGRTVDFRNTVIIXTSNLGSPLIL-EGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEI 210
Query: 179 IVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRA 238
           +VFR L K Q+ +IV+I    +  RL  K + L +T   K  L E GY+P +GARPLRR 
Sbjct: 211 VVFRPLTKEQIRQIVEIQXSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRV 270
Query: 239 IGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHR 278
           I R LE  LA+ IL G ++ GD V +D    G V     R
Sbjct: 271 IQRELETPLAQKILAGEVKEGDRVQVDVGPAGLVFAVPAR 310

>pdb|3PXI|A Chain A, Structure Of Meca108:clpc Length = 758

Iteration: 1
 Score =  243 bits (620), Expect = 9e-65,   Method: Compositional matrix adjust.
 Identities = 127/265 (47%), Positives = 174/265 (65%), Gaps = 26/265 (9%)
Query: 9   GIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGS 68
           G++DP RPI SF+F GPTGVGKTELA ALA   FG +E+M+RIDMSEYMEKH+ S     
Sbjct: 513 GLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHSTS----- 567
Query: 69  PPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDL 128
                    GGQLTE VR +P+SV+L D IEKAH DV N++LQ+L+DGR+TD KG+TVD 
Sbjct: 568 ---------GGQLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDF 618
Query: 129 KNTIIIMTSNIGDSVIARESILGSDQMERGVAXXXXXXXXXXXXXXIDEVIVFRQLNKMQ 188
           +NTI+IMTSN+G S   ++ ++G  +++R                 IDE+IVF  L K  
Sbjct: 619 RNTILIMTSNVGAS--EKDKVMG--ELKRAF--------RPEFINRIDEIIVFHSLEKKH 666
Query: 189 LMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLA 248
           L EIV +M  ++ +RL+ +++ + +T   K K+ EEG +  YGARPLRRAI + +ED L+
Sbjct: 667 LTEIVSLMSDQLTKRLKEQDLSIELTDAAKAKVAEEGVDLEYGARPLRRAIQKHVEDRLS 726
Query: 249 EIILTGYIQVGDSVTMDCDSGGNVI 273
           E +L G I  G  + +D + G  V+
Sbjct: 727 EELLRGNIHKGQHIVLDVEDGEFVV 751

>pdb|1KSF|X Chain X, Crystal Structure Of Clpa, An Hsp100 Chaperone And Regulator Of Clpap Protease: Structural Basis Of Differences In Function Of The Two Aaa+ Atpase Domains Length = 758

Iteration: 1
 Score =  200 bits (509), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 112/280 (40%), Positives = 162/280 (57%), Gaps = 22/280 (7%)
Query: 6   ARVGIRDPNRPISSFLFTGPTGVGKTE----LANALAFEYFGSKEAMVRIDMSEYMEKHT 61
           AR G+   ++P+ SFLF GPTGVGKTE    L+ AL  E       ++R DMSEYME+HT
Sbjct: 477 ARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIE-------LLRFDMSEYMERHT 529
Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VS+  G+PPGYVGF+ GG LT+AV   PH+V+L DEIEKAH DV N++LQ++D+G +TD 
Sbjct: 530 VSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDN 589
Query: 122 KGQTVDLKNTIIIMTSNIGDSVIARESI------LGSDQMERGVAXXXXXXXXXXXXXXI 175
            G+  D +N +++MT+N G     R+SI        +D ME                  +
Sbjct: 590 NGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEE-----IKKIFTPEFRNRL 644
Query: 176 DEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPL 235
           D +I F  L+   + ++VD  + E+  +L+ K + L V+   +  L E+GY+ + GARP+
Sbjct: 645 DNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQEARNWLAEKGYDRAMGARPM 704
Query: 236 RRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMY 275
            R I   L+  LA  +L G +  G  VT+  D   N + Y
Sbjct: 705 ARVIQDNLKKPLANELLFGSLVDGGQVTVALDKEKNELTY 744

>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 428

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 42/148 (28%), Positives = 69/148 (46%), Gaps = 34/148 (22%)
Query: 7   RVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFF 66
           ++GI DP R +   L  GP G GKT L  A+A     +K A +R++ SE+     V K+ 
Sbjct: 200 QIGI-DPPRGV---LLYGPPGTGKTMLVKAVA---NSTKAAFIRVNGSEF-----VHKYL 247
Query: 67  GSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEK-----------AHRDVLNVMLQLLDD 115
           G  P  V       +    R    S+I  DE++            + R+V  ++++LL  
Sbjct: 248 GEGPRMV-----RDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQ 302
Query: 116 GRVTDGKGQTVDLKNTIIIMTSNIGDSV 143
               DG  Q+ ++K   +IM +N  D++
Sbjct: 303 ---MDGFDQSTNVK---VIMATNRADTL 324

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	287
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	1e-152
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	1e-146
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	1e-144
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	1e-142
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-11
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	7e-07
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	1e-05
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	6e-05
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	4e-04

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A* Length = 311

 Score =  427 bits (1100), Expect = e-152
 Identities = 153/268 (57%), Positives = 193/268 (72%), Gaps = 2/268 (0%)

Query: 5   RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSK 64
           RAR G++DPNRPI SFLF GPTGVGKTELA  LA   F ++EAM+RIDM+EYMEKH VS+
Sbjct: 35  RARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSR 94

Query: 65  FFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQ 124
             G+PPGYVG+E GGQLTEAVR RP+SVILFD IEKAH DV N++LQ+LDDGR+TD  G+
Sbjct: 95  LIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQMLDDGRLTDSHGR 154

Query: 125 TVDLKNTIIIMTSNIGDSVIARESILGSD--QMERGVAEELRRRFRPEFLNRIDEVIVFR 182
           TVD +NT+IIMTSN+G  +I      G    ++   V + L++ FRPEFLNR+DE++VFR
Sbjct: 155 TVDFRNTVIIMTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFR 214

Query: 183 QLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL 242
            L K Q+ +IV+I +  +  RL  K + L +T   K  L E GY+P +GARPLRR I R 
Sbjct: 215 PLTKEQIRQIVEIQMSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRE 274

Query: 243 LEDNLAEIILTGYIQVGDSVTMDCDSGG 270
           LE  LA+ IL G ++ GD V +D    G
Sbjct: 275 LETPLAQKILAGEVKEGDRVQVDVGPAG 302

>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* Length = 758

 Score =  428 bits (1102), Expect = e-146
 Identities = 115/276 (41%), Positives = 170/276 (61%), Gaps = 4/276 (1%)

Query: 5   RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSK 64
            AR G+   ++P+ SFLF GPTGVGKTE+   L+         ++R DMSEYME+HTVS+
Sbjct: 476 MARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI---ELLRFDMSEYMERHTVSR 532

Query: 65  FFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQ 124
             G+PPGYVGF+ GG LT+AV   PH+V+L DEIEKAH DV N++LQ++D+G +TD  G+
Sbjct: 533 LIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGR 592

Query: 125 TVDLKNTIIIMTSNIGDSVIARESI-LGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQ 183
             D +N +++MT+N G     R+SI L          EE+++ F PEF NR+D +I F  
Sbjct: 593 KADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDH 652

Query: 184 LNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL 243
           L+   + ++VD  + E+  +L+ K + L V+   +  L E+GY+ + GARP+ R I   L
Sbjct: 653 LSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQEARNWLAEKGYDRAMGARPMARVIQDNL 712

Query: 244 EDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHRN 279
           +  LA  +L G +  G  VT+  D   N + Y  ++
Sbjct: 713 KKPLANELLFGSLVDGGQVTVALDKEKNELTYGFQS 748

>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 Length = 854

 Score =  425 bits (1094), Expect = e-144
 Identities = 155/271 (57%), Positives = 195/271 (71%), Gaps = 2/271 (0%)

Query: 5   RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSK 64
           RAR G++DPNRPI SFLF GPTGVGKTELA  LA   F ++EAM+RIDM+EYMEKH VS+
Sbjct: 576 RARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSR 635

Query: 65  FFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQ 124
             G+PPGYVG+E GGQLTEAVR RP+SVILFDEIEKAH DV N++LQ+LDDGR+TD  G+
Sbjct: 636 LIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGR 695

Query: 125 TVDLKNTIIIMTSNIGDSVIARESILGSD--QMERGVAEELRRRFRPEFLNRIDEVIVFR 182
           TVD +NT+II+TSN+G  +I      G    ++   V + L++ FRPEFLNR+DE++VFR
Sbjct: 696 TVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFR 755

Query: 183 QLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL 242
            L K Q+ +IV+I L  +  RL  K + L +T   K  L E GY+P +GARPLRR I R 
Sbjct: 756 PLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRE 815

Query: 243 LEDNLAEIILTGYIQVGDSVTMDCDSGGNVI 273
           LE  LA+ IL G ++ GD V +D    G V 
Sbjct: 816 LETPLAQKILAGEVKEGDRVQVDVGPAGLVF 846

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis} Length = 758

 Score =  416 bits (1072), Expect = e-142
 Identities = 138/269 (51%), Positives = 181/269 (67%), Gaps = 26/269 (9%)

Query: 5   RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSK 64
           RAR G++DP RPI SF+F GPTGVGKTELA ALA   FG +E+M+RIDMSEYMEKH+ S 
Sbjct: 509 RARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHSTS- 567

Query: 65  FFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQ 124
                        GGQLTE VR +P+SV+L D IEKAH DV N++LQ+L+DGR+TD KG+
Sbjct: 568 -------------GGQLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGR 614

Query: 125 TVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQL 184
           TVD +NTI+IMTSN+G               +  V  EL+R FRPEF+NRIDE+IVF  L
Sbjct: 615 TVDFRNTILIMTSNVGA------------SEKDKVMGELKRAFRPEFINRIDEIIVFHSL 662

Query: 185 NKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE 244
            K  L EIV +M  ++ +RL+ +++ + +T   K K+ EEG +  YGARPLRRAI + +E
Sbjct: 663 EKKHLTEIVSLMSDQLTKRLKEQDLSIELTDAAKAKVAEEGVDLEYGARPLRRAIQKHVE 722

Query: 245 DNLAEIILTGYIQVGDSVTMDCDSGGNVI 273
           D L+E +L G I  G  + +D + G  V+
Sbjct: 723 DRLSEELLRGNIHKGQHIVLDVEDGEFVV 751

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 62.9 bits (152), Expect = 3e-11
 Identities = 47/298 (15%), Positives = 91/298 (30%), Gaps = 102/298 (34%)

Query: 15  RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVR----IDMSEYMEKHTVSK-----F 65
           RP  + L  G  G GKT +A  +   Y   +  M      +++       TV +      
Sbjct: 148 RPAKNVLIDGVLGSGKTWVALDVCLSY-KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL 206

Query: 66  FGSPPGYVGFENGGQLTEAVRHRPHSVI-----LFDEIEKAHRDVLNVMLQLLDDGRVTD 120
           +   P +    +    +  ++ R HS+      L     K + + L V    L +  V +
Sbjct: 207 YQIDPNW---TSRSDHSSNIKLRIHSIQAELRRLL--KSKPYENCLLV----LLN--VQN 255

Query: 121 GKG-QTVDLKNTIIIMTSNIG--DSVIA-----------------RES------ILGSD- 153
            K     +L   I++ T      D + A                  E        L    
Sbjct: 256 AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP 315

Query: 154 -----QMERG-------VAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIML---- 197
                ++          +AE +R     + L   D    ++ +N  +L  I++  L    
Sbjct: 316 QDLPREVLTTNPRRLSIIAESIR-----DGLATWDN---WKHVNCDKLTTIIESSLNVLE 367

Query: 198 ----KEIYERL---------------------EAKNMELTVTHTFKKKLIEEGYNPSY 230
               +++++RL                        ++ + V    K  L+E+    S 
Sbjct: 368 PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST 425

>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 = 48.6 bits (116), Expect = 7e-07
 Identities = 49/251 (19%), Positives = 86/251 (34%), Gaps = 75/251 (29%)

Query: 12  DPNRPISSFLFTGPTGVGKTELANALA------FEYFGSKEAMVRIDMSEYMEKHTVSKF 65
               P+ S L  GP   GKT LA  +A      F    S + M+    SE  +   + K 
Sbjct: 59  SDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIG--FSETAKCQAMKKI 116

Query: 66  FGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIE----------KAHRDVLNVMLQLLDD 115
           F                +A + +  S ++ D+IE          +    VL  +L LL  
Sbjct: 117 F---------------DDAYKSQL-SCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKK 160

Query: 116 GRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF-------- 167
                 +G+ +     +II T++  D +          +ME          F        
Sbjct: 161 ---APPQGRKL-----LIIGTTSRKDVL---------QEMEML------NAFSTTIHVPN 197

Query: 168 ---RPEFLNRIDEVIVFRQLNKMQLMEI-----VDIMLKEIYERLE-AKNMELTVT-HTF 217
                + L  ++ +  F+   +  + +      V I +K++   +E +  M+       F
Sbjct: 198 IATGEQLLEALELLGNFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKF 257

Query: 218 KKKLIEEGYNP 228
              L EEG +P
Sbjct: 258 LALLREEGASP 268

>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 = 43.2 bits (102), Expect = 6e-05
 Identities = 40/148 (27%), Positives = 63/148 (42%), Gaps = 35/148 (23%)

Query: 6   ARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKF 65
             +G++    P    L  GP G GKT +A A+A E   +      I+  E M     SK 
Sbjct: 231 KAIGVK----PPRGILLYGPPGTGKTLIARAVANE---TGAFFFLINGPEIM-----SKL 278

Query: 66  FGSPPGYV--GFENGGQLTEAVRHRPHSVILFDEI-------EKAHRDVLN-VMLQLLDD 115
            G     +   FE      EA ++ P ++I  DE+       EK H +V   ++ QLL  
Sbjct: 279 AGESESNLRKAFE------EAEKNAP-AIIFIDELDAIAPKREKTHGEVERRIVSQLLT- 330

Query: 116 GRVTDGKGQTVDLKNTIIIMTSNIGDSV 143
             + DG  Q     + I++  +N  +S+
Sbjct: 331 --LMDGLKQR---AHVIVMAATNRPNSI 353

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score = 40.3 bits (95), Expect = 4e-04
 Identities = 44/152 (28%), Positives = 58/152 (38%), Gaps = 42/152 (27%)

Query: 7   RVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFF 66
           +VGI  P       L  GP G GKT LA A+A E   +    +R+  SE      V KF 
Sbjct: 45  KVGIEPP----KGILLYGPPGTGKTLLAKAVATE---TNATFIRVVGSEL-----VKKFI 92

Query: 67  GSPPGYV--GFENGGQLTEAVRHRPHSVILFDEIE-----------KAHRDVLNVMLQLL 113
           G     V   F+       A    P S+I  DEI+              R+V   ++QLL
Sbjct: 93  GEGASLVKDIFK------LAKEKAP-SIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLL 145

Query: 114 D--DGRVTDGKGQTVDLKNTIIIMTSNIGDSV 143
              DG    G        +  II  +N  D +
Sbjct: 146 AEMDGFDARG--------DVKIIGATNRPDIL 169

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	287
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	100.0
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	100.0
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	100.0
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	100.0
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.9
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.89
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.89
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.88
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.88
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.84
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.83
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.82
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.81
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.81
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.81
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.81
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.8
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.79
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.78
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.78
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.78
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.78
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.77
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.77
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.76
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.74
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.73
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.73
3pvs_A	447	Replication-associated recombination protein A; ma	99.73
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.73
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.72
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.72
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.72
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.71
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.7
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.7
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.7
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.7
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.7
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.69
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.68
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.67
3bos_A	242	Putative DNA replication factor; P-loop containing	99.67
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.66
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.66
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.66
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.66
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.65
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.64
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.64
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.64
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.64
3co5_A	143	Putative two-component system transcriptional RES	99.63
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.63
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.63
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.62
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.62
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.61
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.61
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.6
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.59
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.59
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.58
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	99.57
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.57
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.57
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.57
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.57
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	99.56
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.55
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.55
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.54
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	99.54
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.51
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.51
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.5
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.48
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	99.48
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.47
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.45
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.45
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.42
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	99.42
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.41
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.4
3f8t_A	506	Predicted ATPase involved in replication control,	99.36
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.34
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	99.26
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.25
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.24
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.13
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	99.11
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	98.98
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.95
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.91
2qgz_A	308	Helicase loader, putative primosome component; str	98.79
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.78
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	98.77
2fna_A	357	Conserved hypothetical protein; structural genomic	98.72
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	98.64
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	98.47
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.45
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.33
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.23
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	98.2
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	98.18
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	98.07
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	98.05
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	97.92
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.89
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.83
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	97.81
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	97.81
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.77
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.73
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.69
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.63
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	97.62
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.61
2ewv_A	372	Twitching motility protein PILT; pilus retraction	97.59
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.56
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.55
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.54
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.54
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	97.54
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.54
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.53
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.49
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.48
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	97.47
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.47
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.46
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	97.45
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.45
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.45
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.44
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	97.44
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.43
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.43
1via_A	175	Shikimate kinase; structural genomics, transferase	97.4
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	97.39
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.38
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.37
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.36
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.35
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.35
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.33
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	97.32
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.32
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.31
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.31
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	97.3
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.29
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.29
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.29
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.28
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.27
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.27
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.26
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.26
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.26
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.26
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.25
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.25
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.24
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.24
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.24
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.23
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.22
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.22
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.22
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.21
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.21
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.2
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	97.19
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.19
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.18
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	97.16
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.16
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.16
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	97.15
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	97.15
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	97.15
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.14
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	97.13
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.12
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.11
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	97.1
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.08
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	97.07
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	97.07
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.07
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	97.05
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.05
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	97.05
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.05
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	97.05
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	97.03
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	97.02
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.02
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	97.01
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	97.0
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.0
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.99
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.99
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.98
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.97
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	96.97
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.96
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.96
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.95
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.95
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.95
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.94
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.93
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.91
3io5_A	333	Recombination and repair protein; storage dimer, i	96.91
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.91
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.91
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.9
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.9
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.9
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.88
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.86
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.85
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.84
2xxa_A	433	Signal recognition particle protein; protein trans	96.83
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.82
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.81
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.81
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.8
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.79
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.78
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.77
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.77
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.75
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.75
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.74
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.74
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.73
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.7
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.7
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.68
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.68
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	96.66
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.66
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.65
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	96.65
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.65
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.65
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.64
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.64
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.63
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.6
2og2_A	359	Putative signal recognition particle receptor; nuc	96.6
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.59
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	96.58
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	96.58
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.56
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	96.55
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.55
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.54
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.54
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	96.54
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.53
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.49
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	96.42
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.41
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	96.41
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.4
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	96.4
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.39
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	96.39
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.38
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.37
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.36
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.36
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.35
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.34
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.34
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	96.33
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	96.32
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.31
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	96.3
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.29
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.26
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	96.26
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	96.25
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.23
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.23
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	96.23
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.22
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	96.18
3llu_A	196	RAS-related GTP-binding protein C; structural geno	96.18
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.17
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.17
1g6h_A	257	High-affinity branched-chain amino acid transport	96.17
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.14
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	96.13
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.13
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.12
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.11
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.11
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.1
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.08
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.07
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.07
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	96.07
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	96.05
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.03
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.02
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.02
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.02
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	96.02
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.01
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.01
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	95.98
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.98
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	95.96
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.96
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	95.95
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	95.94
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.94
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.94
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.93
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.92
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.92
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.91
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.91
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	95.9
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.88
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.86
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	95.86
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.85
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.83
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.82
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.81
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.8
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	95.78
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	95.78
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.78
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	95.77
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.77
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.77
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	95.77
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.76
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	95.75
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.75
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.73
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	95.72
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.72
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.72
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.71
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.69
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	95.68
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.66
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	95.63
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	95.62
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	95.61
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	95.61
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.6
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	95.6
1nrj_B	218	SR-beta, signal recognition particle receptor beta	95.59
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.56
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.55
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	95.53
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	95.53
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.52
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	95.52
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	95.5
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	95.5
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	95.48
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.48
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	95.47
1rif_A	282	DAR protein, DNA helicase UVSW; bacteriophage, REC	95.47
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.47
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	95.45
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	95.45
3ice_A	422	Transcription termination factor RHO; transcriptio	95.44
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	95.44
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.43
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	95.43
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	95.42
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	95.42
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	95.41
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	95.4
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	95.4
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.39
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.39
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.39
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	95.38
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	95.38
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	95.34
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	95.33
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	95.32
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	95.32
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	95.31
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.29
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.28
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	95.27
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.27
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	95.27
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	95.26
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	95.26
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.25
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	95.24
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	95.23
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	95.23
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.22
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	95.22
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	95.2
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.2
2fh5_B	214	SR-beta, signal recognition particle receptor beta	95.2
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	95.19
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.18
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.17
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	95.15
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	95.14
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	95.13
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.13
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	95.12
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	95.09
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.06
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	95.05
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	95.05
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.05
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.04
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	95.04
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.04
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	95.03
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	95.02
3h1t_A	590	Type I site-specific restriction-modification syst	95.01
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	95.01
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.0
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	94.99
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	94.98
1yks_A	440	Genome polyprotein [contains: flavivirin protease	94.97
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	94.96
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	94.95
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	94.94
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	94.94
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	94.94
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	94.91
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	94.91
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	94.9
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	94.88
2oca_A	510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	94.87
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	94.87
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	94.86
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	94.85
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.85
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	94.85
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	94.84
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.84
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	94.82
1qzm_A	94	ATP-dependent protease LA; oligomerization domain,	94.81
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	94.8
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	94.79
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	94.77
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	94.76
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	94.74
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	94.74
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	94.74
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	94.74
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	94.74
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	94.72
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	94.71
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	94.7
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	94.69
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	94.69
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	94.68
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	94.68
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	94.68
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	94.67
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.66
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	94.65
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	94.65
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	94.63
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	94.63
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	94.63
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	94.62
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	94.62
2zpa_A	671	Uncharacterized protein YPFI; RNA modification enz	94.6
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	94.57
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	94.57
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	94.56
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	94.55
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	94.49
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	94.48
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	94.48
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.48
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	94.45
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	94.44
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	94.4
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	94.39
2wv9_A	673	Flavivirin protease NS2B regulatory subunit, FLAV	94.39
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	94.36
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	94.36
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	94.33
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	94.32

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=100.00  E-value=1.8e-34  Score=250.87  Aligned_cols=274  Identities=56%  Similarity=0.914  Sum_probs=239.7

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHH
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLT   82 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (287)
                      +.+.+.++..|++|..+++|+||||||||++|+++++.+.....+++.++|+.+........++|...++.++.....+.
T Consensus        33 i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~l~g~~~~~~~~~~~~~~~  112 (311)
T 4fcw_A           33 IRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLT  112 (311)
T ss_dssp             HHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTHHHHHHCCCTTSTTTTTCCHHH
T ss_pred             HHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccccccHHHhcCCCCccccccccchHH
Confidence            45556677888889888999999999999999999999977778899999998887777788899888888887767888


Q ss_pred             HHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhc--cCCchHHHHHHH
Q 047225           83 EAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARES--ILGSDQMERGVA  160 (287)
Q Consensus        83 ~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~--~~~~~~~~~~~~  160 (287)
                      +.+...+++++||||+|++++..++.|+++++++.+....+..+.+.++++|+|+|.+...+....  ...+.++.+.+.
T Consensus       113 ~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~iiI~ttn~~~~~i~~~~~~~~~~~~l~~~~~  192 (311)
T 4fcw_A          113 EAVRRRPYSVILFDAIEKAHPDVFNILLQMLDDGRLTDSHGRTVDFRNTVIIMTSNLGSPLILEGLQKGWPYERIRDEVF  192 (311)
T ss_dssp             HHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEECTTSCEEECTTEEEEEEESTTHHHHHTTTTSCCCSSTHHHHTH
T ss_pred             HHHHhCCCeEEEEeChhhcCHHHHHHHHHHHhcCEEEcCCCCEEECCCcEEEEecccCHHHHHhhhcccccHHHHHHHHH
Confidence            888888889999999999999999999999999998877788899999999999999755443321  111446667777


Q ss_pred             HHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          161 EELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      +.+...|+++|++||+..+.|+||+.+++..|+..++.++...+...+..+.++++++++++.+.|....++|+++++++
T Consensus       193 ~~~~~~~~~~l~~R~~~~~~~~p~~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~gn~R~L~~~i~  272 (311)
T 4fcw_A          193 KVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQMSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQ  272 (311)
T ss_dssp             HHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHTHHHHHHHHTTTCEEEECHHHHHHHHHHSCBTTTBTTTHHHHHH
T ss_pred             HHHHHhCCHHHHhcCCeEEEeCCCCHHHHHHHHHHHHHHHHHHHHhCCcEEEeCHHHHHHHHHhCCCccCCchhHHHHHH
Confidence            66778899999999999999999999999999999999988888765668999999999999999988889999999999


Q ss_pred             HHHHHHHHHHHHhccCCCCCEEEEEEcCCccEEEEE
Q 047225          241 RLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYR  276 (287)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  276 (287)
                      +++..++++.++.+++.+++++.+++++++.++.+.
T Consensus       273 ~~~~~~~~~~i~~~~~~~~~~i~i~~~~~~~~~~~~  308 (311)
T 4fcw_A          273 RELETPLAQKILAGEVKEGDRVQVDVGPAGLVFAVP  308 (311)
T ss_dssp             HHTHHHHHHHHHHTSSCTTCEEEEEECSSSEEEECC
T ss_pred             HHHHHHHHHHHHhCCCCCCCEEEEEEECCeEEEEec
Confidence            999999999999999999999999999988877653

>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=100.00  E-value=5.2e-34  Score=275.73  Aligned_cols=270  Identities=41%  Similarity=0.723  Sum_probs=232.9

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHH
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLT   82 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (287)
                      ++..+.++..|++|.++++|+||||||||++|+++++.+   +.+++.++|+++.+...+..++|.+++++|+...+.+.
T Consensus       474 i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l---~~~~~~i~~s~~~~~~~~~~l~g~~~g~~g~~~~~~l~  550 (758)
T 1r6b_X          474 IKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL---GIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLT  550 (758)
T ss_dssp             HHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH---TCEEEEEEGGGCSSSSCCSSSCCCCSCSHHHHHTTHHH
T ss_pred             HHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh---cCCEEEEechhhcchhhHhhhcCCCCCCcCccccchHH
Confidence            556677888999999899999999999999999999999   67899999999998888899999999999988888888


Q ss_pred             HHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchH--HHHHHH
Q 047225           83 EAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQ--MERGVA  160 (287)
Q Consensus        83 ~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~--~~~~~~  160 (287)
                      +.+...+++||||||++++++++++.|+++++++.+....|..+++.+++||+|+|++...+.. ..+||..  ....+.
T Consensus       551 ~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~tsN~~~~~~~~-~~~g~~~~~~~~~~~  629 (758)
T 1r6b_X          551 DAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETER-KSIGLIHQDNSTDAM  629 (758)
T ss_dssp             HHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECSSCC------------------CH
T ss_pred             HHHHhCCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEecCcchhhhhh-cccCccccchHHHHH
Confidence            9999999999999999999999999999999999999888999999999999999997644322 1222221  123445


Q ss_pred             HHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          161 EELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      ..+++.|+|+|++||+..|.|+|++.+++..|+...+.++...+...+..+.++++++++++...|.+++|+|+++++++
T Consensus       630 ~~~~~~~~~~l~~R~~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~g~R~l~~~i~  709 (758)
T 1r6b_X          630 EEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQEARNWLAEKGYDRAMGARPMARVIQ  709 (758)
T ss_dssp             HHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEEEECHHHHHHHHHHHCBTTTBTTTHHHHHH
T ss_pred             HHHHHhcCHHHHhhCCcceeeCCCCHHHHHHHHHHHHHHHHHHHHHCCcEEEeCHHHHHHHHHhCCCcCCCchHHHHHHH
Confidence            56667899999999999999999999999999999999888888776667899999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhccCCCCCEEEEEEcCCc--cEEEEE
Q 047225          241 RLLEDNLAEIILTGYIQVGDSVTMDCDSGG--NVIMYR  276 (287)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~--~~~~~~  276 (287)
                      +.+..++++.++.+++..++++.+++++++  ..+...
T Consensus       710 ~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  747 (758)
T 1r6b_X          710 DNLKKPLANELLFGSLVDGGQVTVALDKEKNELTYGFQ  747 (758)
T ss_dssp             HHHTHHHHHHHHHSTTTTCEEEEEEEEGGGTEEEEEEE
T ss_pred             HHHHHHHHHHHHcCcCCCCCEEEEEEeCCceeEEEEEc
Confidence            999999999999999999999999998765  455544

>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=100.00  E-value=2.2e-33  Score=274.08  Aligned_cols=273  Identities=56%  Similarity=0.924  Sum_probs=229.2

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHH
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLT   82 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (287)
                      +.+.+.++..|++|.++++|+||||||||++|+++++.+...+.+++.++|+++........++|.++++.|+...+.+.
T Consensus       574 i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~~~~~~~~s~l~g~~~~~~G~~~~g~l~  653 (854)
T 1qvr_A          574 IRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLT  653 (854)
T ss_dssp             HHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGGGC--------------CHH
T ss_pred             HHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechhccchhHHHHHcCCCCCCcCccccchHH
Confidence            56677788889999889999999999999999999999987788999999999998878888999999999998877888


Q ss_pred             HHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccC--CchHHHHHHH
Q 047225           83 EAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESIL--GSDQMERGVA  160 (287)
Q Consensus        83 ~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~--~~~~~~~~~~  160 (287)
                      +.+...++++|||||++++++++++.|+++++++.+....|..+++.+++||+|||.+...+......  .+..+.+.+.
T Consensus       654 ~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~tsn~~~~~~~~~~~~~~~~~~l~~~v~  733 (854)
T 1qvr_A          654 EAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVF  733 (854)
T ss_dssp             HHHHHCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHhCCCeEEEEecccccCHHHHHHHHHHhccCceECCCCCEeccCCeEEEEecCcChHHHhhhcccccchHHHHHHHH
Confidence            99999889999999999999999999999999999998889999999999999999976554321000  1344666666


Q ss_pred             HHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          161 EELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      ...+..|.|+|++||+..+.|+||+.+++..|+..++.++..++...+..+.++++++++|+.+.|.+.+|+|+++++|+
T Consensus       734 ~~~~~~f~~~l~~Rl~~~i~~~pl~~edi~~i~~~~l~~~~~~~~~~~~~~~~~~~a~~~L~~~~~~~~gn~R~L~~~i~  813 (854)
T 1qvr_A          734 KVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQ  813 (854)
T ss_dssp             HHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHHHHHCBTTTBTSTHHHHHH
T ss_pred             HHHHhhCCHHHHHhcCeEEeCCCCCHHHHHHHHHHHHHHHHHHHHhCCceEEECHHHHHHHHHcCCCCCCChHHHHHHHH
Confidence            67788999999999999999999999999999999999988888766667899999999999999988899999999999


Q ss_pred             HHHHHHHHHHHHhccCCCCCEEEEEEcCCccEEEE
Q 047225          241 RLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMY  275 (287)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~  275 (287)
                      +.+..++++.++.+++.+++++.+++++++..+..
T Consensus       814 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~  848 (854)
T 1qvr_A          814 RELETPLAQKILAGEVKEGDRVQVDVGPAGLVFAV  848 (854)
T ss_dssp             HHTHHHHHHHHHHTSSCSSCEEEEECCTTSCEEES
T ss_pred             HHHHHHHHHHHHhCcCCCCCEEEEEEECCEEEEEe
Confidence            99999999999999999999999999877655543

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=100.00  E-value=5.7e-32  Score=261.29  Aligned_cols=249  Identities=56%  Similarity=0.914  Sum_probs=211.9

Q ss_pred             chhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhH
Q 047225            2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL   81 (287)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (287)
                      ++.+.+.++..|++|.++++|+||||||||++|+++++.+.....+++.++|+++.+.....              .+.+
T Consensus       506 ~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~~~~~~--------------~~~l  571 (758)
T 3pxi_A          506 AVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHSTS--------------GGQL  571 (758)
T ss_dssp             HHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCSSCCCC-----------------C
T ss_pred             HHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhcccccccc--------------cchh
Confidence            35667778888999998999999999999999999999998878999999999988653222              2456


Q ss_pred             HHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHH
Q 047225           82 TEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAE  161 (287)
Q Consensus        82 ~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~  161 (287)
                      .+.+...++++|||||++++++++++.|++++++|.+....|..+.+.++++|+|||.+...            ...+..
T Consensus       572 ~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~~~~------------~~~~~~  639 (758)
T 3pxi_A          572 TEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASE------------KDKVMG  639 (758)
T ss_dssp             HHHHHHCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSSTTC------------CHHHHH
T ss_pred             hHHHHhCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCChhh------------HHHHHH
Confidence            67778888899999999999999999999999999998888888999999999999987542            133445


Q ss_pred             HHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHH
Q 047225          162 ELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGR  241 (287)
Q Consensus       162 ~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~  241 (287)
                      .+++.|+|+|++||+..|.|+||+.+++.+|+...+.++..++...+..+.++++++++|+...|...+|+|+++++|++
T Consensus       640 ~~~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~i~~  719 (758)
T 3pxi_A          640 ELKRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLMSDQLTKRLKEQDLSIELTDAAKAKVAEEGVDLEYGARPLRRAIQK  719 (758)
T ss_dssp             HHHHHSCHHHHTTSSEEEECC--CHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHHGGGCCTTTTTTTHHHHHHH
T ss_pred             HHHhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEECHHHHHHHHHhCCCCCCCChHHHHHHHH
Confidence            55667999999999999999999999999999999999988888777789999999999999888889999999999999


Q ss_pred             HHHHHHHHHHHhccCCCCCEEEEEEcCCccEEEEE
Q 047225          242 LLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYR  276 (287)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  276 (287)
                      .+...+++.++.+.+.+++++.+++++++.++...
T Consensus       720 ~v~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~  754 (758)
T 3pxi_A          720 HVEDRLSEELLRGNIHKGQHIVLDVEDGEFVVKTT  754 (758)
T ss_dssp             HTHHHHHHHHHTTCSCSSSEEEEEESSSSEEEEEC
T ss_pred             HHHHHHHHHHHcCCCCCCCEEEEEEECCEEEEEEe
Confidence            99999999999999999999999999887766554

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=99.90  E-value=2.6e-23  Score=184.48  Aligned_cols=219  Identities=21%  Similarity=0.347  Sum_probs=149.3

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHH-------HhCCc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAV-------RHRPH   90 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~   90 (287)
                      .+++|+||||||||++|+++|+.+   +.+++.++|+......    ++       |......+....       ...+.
T Consensus        52 ~~vll~GppGtGKT~la~~ia~~~---~~~~~~~~~~~l~~~~----~~-------g~~~~~~~~~~~~~~~~~~~~~~~  117 (363)
T 3hws_A           52 SNILLIGPTGSGKTLLAETLARLL---DVPFTMADATTLTEAG----YV-------GEDVENIIQKLLQKCDYDVQKAQR  117 (363)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEHHHHTTCH----HH-------HHHHTHHHHHHHHHTTTCHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc---CCCEEEechHHhcccc----cc-------cccHHHHHHHHHHHhhhhHHhcCC
Confidence            469999999999999999999998   6789999998654321    11       111112222222       22245


Q ss_pred             EEEEEcCcccccHH--------------HHHHHHHhhcCceeec--CCCc--------eeeccceEEEEeecCC-chhhh
Q 047225           91 SVILFDEIEKAHRD--------------VLNVMLQLLDDGRVTD--GKGQ--------TVDLKNTIIIMTSNIG-DSVIA  145 (287)
Q Consensus        91 ~il~iDeid~~~~~--------------~~~~L~~~l~~~~~~~--~~g~--------~i~~~~~~iI~t~n~~-~~~~~  145 (287)
                      ++|||||+|++++.              +++.|+++++......  ..|.        .+...+.++|+++|.. .....
T Consensus       118 ~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~~~~~~~~~~~~~~~~i~tsn~~~i~~g~~~~l~~~i  197 (363)
T 3hws_A          118 GIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQVDTSKILFICGGAFAGLDKVI  197 (363)
T ss_dssp             CEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC----------------CCCCCTTSSEEEEEECCTTHHHHH
T ss_pred             cEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCceeeccCccccccCCCceEEEECCCceEEecCCcHHHHHHH
Confidence            79999999998776              9999999999322211  1222        3344567777777752 21111


Q ss_pred             hh-----ccCCchH-------------HHHHH--HHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHH----HHHHHH
Q 047225          146 RE-----SILGSDQ-------------MERGV--AEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDI----MLKEIY  201 (287)
Q Consensus       146 ~~-----~~~~~~~-------------~~~~~--~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~----~l~~~~  201 (287)
                      ..     ..+||..             +...+  .+..+..|.|+|++||+.++.|+||+.+++.+|+..    .+.++.
T Consensus       198 ~~~~~~~~~~gf~~~~~~~~~~~~~~~l~~~v~~~~l~~~~~~~~l~~R~~~~~~~~pl~~~~~~~I~~~~~~~l~~~~~  277 (363)
T 3hws_A          198 SHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQ  277 (363)
T ss_dssp             HHHHCCCC------------CCSCHHHHHHTCCHHHHHHHTCCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHH
T ss_pred             HHhhhccccCCccccccccccchhhHHHHHhCCHHHHHHcCCCHHHhcccCeeeecCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            10     1112111             11100  111233489999999999999999999999999987    777777


Q ss_pred             HHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHHHHH
Q 047225          202 ERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEI  250 (287)
Q Consensus       202 ~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~~~~  250 (287)
                      ..+...+..+.++++++++|+..+|..++|+|++++++++++..++.+.
T Consensus       278 ~~~~~~~~~l~~~~~a~~~L~~~~~~~~~gaR~L~~~ie~~~~~~l~~~  326 (363)
T 3hws_A          278 ALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDL  326 (363)
T ss_dssp             HHHHTTTCEEEECHHHHHHHHHHHHHTTCTTTTHHHHHHHHHHHHHHST
T ss_pred             HHHHhcCceEEECHHHHHHHHHhhcCCccCchHHHHHHHHHHHHHHHhc
Confidence            7776667789999999999999888889999999999999999877644

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=99.89  E-value=1.8e-22  Score=179.97  Aligned_cols=233  Identities=22%  Similarity=0.368  Sum_probs=151.7

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHH-------HhCCc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAV-------RHRPH   90 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~   90 (287)
                      .+++|+||||||||++|+++++.+   +.+++.++|......           ++.|......+...+       ...+.
T Consensus        73 ~~ill~Gp~GtGKT~la~~la~~l---~~~~~~~~~~~~~~~-----------~~~g~~~~~~~~~~~~~~~~~~~~~~~  138 (376)
T 1um8_A           73 SNILLIGPTGSGKTLMAQTLAKHL---DIPIAISDATSLTEA-----------GYVGEDVENILTRLLQASDWNVQKAQK  138 (376)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEGGGCC-------------------CTHHHHHHHHHTTTCHHHHTT
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHh---CCCEEEecchhhhhc-----------CcCCccHHHHHHHHHhhccchhhhcCC
Confidence            369999999999999999999998   678888888765421           112222112222222       22345


Q ss_pred             EEEEEcCcccccHH--------------HHHHHHHhhcCceeecC--CCce--------eeccceEEEEeecCCch--hh
Q 047225           91 SVILFDEIEKAHRD--------------VLNVMLQLLDDGRVTDG--KGQT--------VDLKNTIIIMTSNIGDS--VI  144 (287)
Q Consensus        91 ~il~iDeid~~~~~--------------~~~~L~~~l~~~~~~~~--~g~~--------i~~~~~~iI~t~n~~~~--~~  144 (287)
                      +++||||++++...              +++.|+++++.+.+..+  .+..        +...+.++|+++|...-  .+
T Consensus       139 ~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~l~~~l  218 (376)
T 1um8_A          139 GIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEII  218 (376)
T ss_dssp             SEEEEETGGGC--------------CHHHHHHHHHHHHCCEEC---------------CEECTTCEEEEEECCTTHHHHT
T ss_pred             eEEEEcCHHHHhhhcCCCceecccchHHHHHHHHHHhhccceecccccccccCCcceEEEecCCeEEEecCCHHHHHHHH
Confidence            79999999999887              99999999997654322  1222        33356677777763110  00


Q ss_pred             hhh---ccCCchHH-----------HHHHHHH-HHhcCChhHHhccCceEEeCCCCHHHHHHHHH----HHHHHHHHHHH
Q 047225          145 ARE---SILGSDQM-----------ERGVAEE-LRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVD----IMLKEIYERLE  205 (287)
Q Consensus       145 ~~~---~~~~~~~~-----------~~~~~~~-~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~----~~l~~~~~~~~  205 (287)
                      .+.   ..+||...           ....... .+..|.|+|++||+..+.|+|++.+++..++.    ..+.++...+.
T Consensus       219 ~~R~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~~p~l~~R~~~~i~~~~l~~~~l~~i~~~~~~~~~~~~~~~~~  298 (376)
T 1um8_A          219 KKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFK  298 (376)
T ss_dssp             TTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHH
T ss_pred             HHHhcccccCCCchhhhccchhHHHhhcCHHHHhhcCCChHHhcCCCceeeccCCCHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            000   00111110           0001111 13468899999999999999999999999997    45666666665


Q ss_pred             hcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHHHHHHHhccCCCCCEEEEEEcC
Q 047225          206 AKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDS  268 (287)
Q Consensus       206 ~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  268 (287)
                      ..+..+.++++++++|+..+|....++|.+++++++++..++.+....    ..+.+.|+.++
T Consensus       299 ~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~le~~~~~~~~~~~~~----~~~~~~i~~~~  357 (376)
T 1um8_A          299 MDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIEDFCLDIMFDLPKL----KGSEVRITKDC  357 (376)
T ss_dssp             TTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHHHHHHHHHHHHTGGGG----TTSEEEECHHH
T ss_pred             hcCceEEECHHHHHHHHHHhcccccCcHHHHHHHHHHHHHHHhhccCC----CCCEEEEeHHH
Confidence            556689999999999999999888899999999999999777654322    34566666443

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=99.89  E-value=4e-22  Score=172.62  Aligned_cols=214  Identities=22%  Similarity=0.386  Sum_probs=152.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHH-------h-CCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVR-------H-RPH   90 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~-~~~   90 (287)
                      +++|+||||||||++++++++.+   +.+++.++|+.+...           ++.+......+.+...       . .+.
T Consensus        52 ~vll~G~~GtGKT~la~~la~~l---~~~~~~i~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (310)
T 1ofh_A           52 NILMIGPTGVGKTEIARRLAKLA---NAPFIKVEATKFTEV-----------GYVGKEVDSIIRDLTDSAGGAIDAVEQN  117 (310)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH---TCCEEEEEGGGGSSC-----------CSGGGSTTHHHHHHHHTTTTCHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh---CCCEEEEcchhcccC-----------CccCccHHHHHHHHHHHhhHHHhhccCC
Confidence            69999999999999999999998   668889999876542           1112111111222111       1 124


Q ss_pred             EEEEEcCcccccHHH------------HHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHH
Q 047225           91 SVILFDEIEKAHRDV------------LNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERG  158 (287)
Q Consensus        91 ~il~iDeid~~~~~~------------~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~  158 (287)
                      ++|||||+|++....            ++.|+++++.+.+....+ .....++++|+++|.....               
T Consensus       118 ~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~-~~~~~~~~~i~~~~~~~~~---------------  181 (310)
T 1ofh_A          118 GIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHG-MVKTDHILFIASGAFQVAR---------------  181 (310)
T ss_dssp             CEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTE-EEECTTCEEEEEECCSSSC---------------
T ss_pred             CEEEEEChhhcCccccccccchhHHHHHHHHHHHhcCCeEecccc-cccCCcEEEEEcCCcccCC---------------
Confidence            699999999987654            889999999876655444 3445577888887542111               


Q ss_pred             HHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHH----HHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCC-----C
Q 047225          159 VAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVD----IMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNP-----S  229 (287)
Q Consensus       159 ~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~----~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~-----~  229 (287)
                           ...+.++|.+||+..+.|+||+.+++.+|+.    ..+.++...+...+..+.++++++++++..+|..     .
T Consensus       182 -----~~~l~~~l~~R~~~~i~~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~~~  256 (310)
T 1ofh_A          182 -----PSDLIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTEN  256 (310)
T ss_dssp             -----GGGSCHHHHHTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHHTTCEEEECHHHHHHHHHHHHHHHHHSCC
T ss_pred             -----cccCCHHHHhhCCceEEcCCcCHHHHHHHHHhhHHHHHHHHHHHHHhcCCeeccCHHHHHHHHHHhhhhcccccc
Confidence                 0246799999998789999999999999998    4555555555555667899999999999988753     5


Q ss_pred             CCchhHHHHHHHHHHHHHHHHHHhccCCCCCEEEEEEcCCcc
Q 047225          230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGN  271 (287)
Q Consensus       230 ~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~  271 (287)
                      .++|.+.+.+++++..+.    +......++.+.|+.++...
T Consensus       257 g~~R~l~~~l~~~~~~~~----~~~~~~~~~~~~i~~~~v~~  294 (310)
T 1ofh_A          257 IGARRLHTVMERLMDKIS----FSASDMNGQTVNIDAAYVAD  294 (310)
T ss_dssp             CTTHHHHHHHHHHSHHHH----HHGGGCTTCEEEECHHHHHH
T ss_pred             cCcHHHHHHHHHHHHhhh----cCCccccCCEEEEeeHHHHH
Confidence            788999999998877543    33333446667777665443

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.88  E-value=8.6e-23  Score=176.66  Aligned_cols=203  Identities=20%  Similarity=0.225  Sum_probs=150.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++|+||||||||++|+++++.....+.+++.++|+..........+||...+. .|...  .....+.....++|||||
T Consensus        27 ~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~~~l~~~~lfg~~~g~~tg~~~--~~~g~~~~a~~g~L~LDE  104 (304)
T 1ojl_A           27 TVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNESLLESELFGHEKGAFTGADK--RREGRFVEADGGTLFLDE  104 (304)
T ss_dssp             CEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCCHHHHHHHHTCCCSSCCC---C--CCCCHHHHHTTSEEEEES
T ss_pred             cEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCChHHHHHHhcCccccccCchhh--hhcCHHHhcCCCEEEEec
Confidence            699999999999999999999887667899999999887655556778765442 22211  111122222346999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCc
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDE  177 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~  177 (287)
                      ++.++...+..|+++++++.+....+......++.+|++||......                 .-...|.++|.+||..
T Consensus       105 i~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~riI~atn~~l~~~-----------------v~~g~fr~~L~~Rl~~  167 (304)
T 1ojl_A          105 IGDISPLMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAEE-----------------VSAGRFRQDLYYRLNV  167 (304)
T ss_dssp             CTTCCHHHHHHHHHHHHSSBCCBTTBCCCCBCCCEEEEEESSCHHHH-----------------HHHTSSCHHHHHHHSS
T ss_pred             cccCCHHHHHHHHHHHhcCEeeecCCcccccCCeEEEEecCccHHHH-----------------HHhCCcHHHHHhhcCe
Confidence            99999999999999999886543222222234789999999863221                 1134789999999954


Q ss_pred             -eEEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          178 -VIVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       178 -~i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                       .+.+||++  .+++..++.+++.++.......  ...+++++++.+..+.|+.  ++|++++.+++++.
T Consensus       168 ~~i~lPpL~eR~edi~~l~~~~l~~~~~~~~~~--~~~~s~~a~~~L~~~~wpG--nvReL~~~l~~~~~  233 (304)
T 1ojl_A          168 VAIEMPSLRQRREDIPLLADHFLRRFAERNRKV--VKGFTPQAMDLLIHYDWPG--NIRELENAIERAVV  233 (304)
T ss_dssp             EEEECCCSGGGGGGHHHHHHHHHHHHHHHTTCC--CCCBCHHHHHHHHHCCCSS--HHHHHHHHHHHHHH
T ss_pred             eEEeccCHHHhHhhHHHHHHHHHHHHHHHhccC--ccCCCHHHHHHHHcCCCCC--CHHHHHHHHHHHHH
Confidence             48899999  7899999999998776655321  3579999999999998854  67999999997765

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=99.88  E-value=2.6e-22  Score=170.45  Aligned_cols=202  Identities=16%  Similarity=0.290  Sum_probs=144.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++|+||||||||++|+++++.+.....+++.++|+.+........++|...+. .|...  .....+.....++|||||
T Consensus        31 ~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~~~~~~~~l~g~~~~~~~g~~~--~~~~~l~~a~~~~l~lDE  108 (265)
T 2bjv_A           31 PVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSELFGHEAGAFTGAQK--RHPGRFERADGGTLFLDE  108 (265)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSCHHHHHHHHHCCC-----------CCCCHHHHTTTSEEEEES
T ss_pred             CEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCChhHHHHHhcCCcccccccccc--cccchhhhcCCcEEEEec
Confidence            699999999999999999999886666889999999876544445566654331 12111  011223333457999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC-
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID-  176 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~-  176 (287)
                      ++.++.+.+..|+++++++.+....+......++.+|+++|.+.....                 -+..|.++|.+||. 
T Consensus       109 i~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~~iI~atn~~~~~~~-----------------~~~~~~~~L~~Rl~~  171 (265)
T 2bjv_A          109 LATAPMMVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMV-----------------NEGTFRADLLDALAF  171 (265)
T ss_dssp             GGGSCHHHHHHHHHHHHHCEECCCCC--CEECCCEEEEEESSCHHHHH-----------------HHTSSCHHHHHHHCS
T ss_pred             hHhcCHHHHHHHHHHHHhCCeecCCCcccccCCeEEEEecCcCHHHHH-----------------HcCCccHHHHHhhcC
Confidence            999999999999999998865432232223347889999998643221                 12468899999995 


Q ss_pred             ceEEeCCCCH--HHHHHHHHHHHHHHHHHHHhcCcE--EEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          177 EVIVFRQLNK--MQLMEIVDIMLKEIYERLEAKNME--LTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       177 ~~i~~~~~~~--~~~~~il~~~l~~~~~~~~~~~~~--~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      ..+.+||++.  +++..++.+++.+.....   +..  ..+++++++.+..+.|..  ++|++++.+++++.
T Consensus       172 ~~i~lp~L~~R~~di~~l~~~~l~~~~~~~---~~~~~~~~~~~a~~~L~~~~~~g--n~reL~~~l~~~~~  238 (265)
T 2bjv_A          172 DVVQLPPLRERESDIMLMAEYFAIQMCREI---KLPLFPGFTERARETLLNYRWPG--NIRELKNVVERSVY  238 (265)
T ss_dssp             EEEECCCGGGCHHHHHHHHHHHHHHHHHHT---TCSSCCCBCHHHHHHHHHSCCTT--HHHHHHHHHHHHHH
T ss_pred             cEEeCCChhhhhHHHHHHHHHHHHHHHHHh---CCCcccCcCHHHHHHHHhCCCCC--CHHHHHHHHHHHHH
Confidence            4589999985  788889888887765544   222  368999999999888854  67899999987664

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=99.84  E-value=1.6e-20  Score=167.73  Aligned_cols=203  Identities=19%  Similarity=0.266  Sum_probs=159.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++++|++||||+++++.++........+++.+||+.+.+......+||...|. +|....  -...+.....++|||||
T Consensus       162 ~vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~~~~~~~~~elfg~~~g~~tga~~~--~~g~~~~a~~gtlflde  239 (387)
T 1ny5_A          162 PVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEKGAFTGAVSS--KEGFFELADGGTLFLDE  239 (387)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCBCTTSSTTCCSC--BCCHHHHTTTSEEEEES
T ss_pred             CeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCCHHHHHHHhcCCCCCCCCCcccc--cCCceeeCCCcEEEEcC
Confidence            589999999999999999999887777899999999988776677889876553 332221  12233444557999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCc
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDE  177 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~  177 (287)
                      ++.++++.|..|+++++++.+....+......++.+|++||.+....                 .-++.|.++|..|+..
T Consensus       240 i~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~-----------------~~~g~fr~dl~~rl~~  302 (387)
T 1ny5_A          240 IGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKEL-----------------VKEGKFREDLYYRLGV  302 (387)
T ss_dssp             GGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHH-----------------HHTTSSCHHHHHHHTT
T ss_pred             hhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCCCCHHHH-----------------HHcCCccHHHHHhhcC
Confidence            99999999999999999988765444444446889999999864322                 1245799999999964


Q ss_pred             e-EEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          178 V-IVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       178 ~-i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      . +.+||+.  .+|+..++.+++.++..+....  ...+++++++.+..+.|+.  ++|++++.+++++.
T Consensus       303 ~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~--~~~~~~~a~~~l~~~~wpG--NvreL~~~i~~~~~  368 (387)
T 1ny5_A          303 IEIEIPPLRERKEDIIPLANHFLKKFSRKYAKE--VEGFTKSAQELLLSYPWYG--NVRELKNVIERAVL  368 (387)
T ss_dssp             EEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCC--CCEECHHHHHHHHHSCCTT--HHHHHHHHHHHHHH
T ss_pred             CeecCCcchhccccHHHHHHHHHHHHHHHcCCC--CCCCCHHHHHHHHhCCCCc--HHHHHHHHHHHHHH
Confidence            4 8999998  5899999999998887766432  2479999999999999955  66999999998775

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=99.83  E-value=4.4e-20  Score=163.63  Aligned_cols=202  Identities=19%  Similarity=0.279  Sum_probs=156.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC-CcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY-VGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++++|++||||+.+++.++......+ .++.+||..+.+......+||...|. .|....  -...+.....++|||||
T Consensus       154 ~vli~GesGtGKe~lAr~ih~~s~r~~-~fv~vnc~~~~~~~~~~~lfg~~~g~~tga~~~--~~g~~~~a~~gtlflde  230 (368)
T 3dzd_A          154 PVLITGESGTGKEIVARLIHRYSGRKG-AFVDLNCASIPQELAESELFGHEKGAFTGALTR--KKGKLELADQGTLFLDE  230 (368)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHCCCS-CEEEEESSSSCTTTHHHHHHEECSCSSSSCCCC--EECHHHHTTTSEEEEET
T ss_pred             hheEEeCCCchHHHHHHHHHHhccccC-CcEEEEcccCChHHHHHHhcCccccccCCcccc--cCChHhhcCCCeEEecC
Confidence            599999999999999999998875543 49999999988777778889876553 333221  11223333456999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCc
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDE  177 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~  177 (287)
                      ++.+++..|..|+++++++.+....+......++.+|++||.+...                 ...++.|.++|..|+..
T Consensus       231 i~~l~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~-----------------~v~~g~fr~dL~~rl~~  293 (368)
T 3dzd_A          231 VGELDQRVQAKLLRVLETGSFTRLGGNQKIEVDIRVISATNKNLEE-----------------EIKKGNFREDLYYRLSV  293 (368)
T ss_dssp             GGGSCHHHHHHHHHHHHHSEECCBTCCCBEECCCEEEEEESSCHHH-----------------HHHTTSSCHHHHHHHTS
T ss_pred             hhhCCHHHHHHHHHHHHhCCcccCCCCcceeeeeEEEEecCCCHHH-----------------HHHcCCccHHHHHHhCC
Confidence            9999999999999999998876544443344578999999976432                 12245899999999965


Q ss_pred             e-EEeCCCCH--HHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          178 V-IVFRQLNK--MQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       178 ~-i~~~~~~~--~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      . |.+||+..  +|+..++.+++.++.......  ...+++++++.+..+.|+.  ++|++++.+++++.
T Consensus       294 ~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~--~~~~~~~a~~~L~~~~wpG--NvreL~n~i~~~~~  359 (368)
T 3dzd_A          294 FQIYLPPLRERGKDVILLAEYFLKKFAKEYKKN--CFELSEETKEYLMKQEWKG--NVRELKNLIERAVI  359 (368)
T ss_dssp             EEEECCCGGGSTTHHHHHHHHHHHHHHHHTTCC--CCCBCHHHHHHHHTCCCTT--HHHHHHHHHHHHHH
T ss_pred             eEEeCCChhhchhhHHHHHHHHHHHHHHHcCCC--CCCcCHHHHHHHHhCCCCc--HHHHHHHHHHHHHH
Confidence            4 88999996  899999999998887766432  3579999999999999966  45999999997764

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.82  E-value=1.8e-19  Score=156.01  Aligned_cols=185  Identities=21%  Similarity=0.298  Sum_probs=133.6

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCC----CCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGS----KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHS   91 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (287)
                      +..+++|+||||||||++|+++++.+...    ..+++.+++++....     ++       |... ..+...+.....+
T Consensus        66 ~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~~~-----~~-------g~~~-~~~~~~~~~~~~~  132 (309)
T 3syl_A           66 PTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQ-----YI-------GHTA-PKTKEVLKRAMGG  132 (309)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTCCS-----ST-------TCHH-HHHHHHHHHHTTS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhhhh-----cc-------cccH-HHHHHHHHhcCCC
Confidence            34479999999999999999999988432    337788887654321     11       1111 2233444443557


Q ss_pred             EEEEcCcccc---------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           92 VILFDEIEKA---------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        92 il~iDeid~~---------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      +|||||+|.+         +...++.|+++++.+.           .++++|+++|......                  
T Consensus       133 vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~-----------~~~~~i~~~~~~~~~~------------------  183 (309)
T 3syl_A          133 VLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNR-----------DDLVVILAGYADRMEN------------------  183 (309)
T ss_dssp             EEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCT-----------TTCEEEEEECHHHHHH------------------
T ss_pred             EEEEEChhhhccCCCcccccHHHHHHHHHHHhcCC-----------CCEEEEEeCChHHHHH------------------
Confidence            9999999977         8899999999998642           3557888888642111                  


Q ss_pred             HHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhcc-----CCCCCchhHHH
Q 047225          163 LRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGY-----NPSYGARPLRR  237 (287)
Q Consensus       163 ~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~-----~~~~~~r~l~~  237 (287)
                       -..+.|+|.+||+..+.|+||+.+++.+|+...+.+.         .+.+++++++.++....     ....++|.+++
T Consensus       184 -~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~~~---------~~~~~~~~~~~l~~~~~~~~~~~~~gn~r~l~~  253 (309)
T 3syl_A          184 -FFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQ---------NYQMTPEAETALRAYIGLRRNQPHFANARSIRN  253 (309)
T ss_dssp             -HHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHHHT---------TCEECHHHHHHHHHHHHHHTTSSSCCHHHHHHH
T ss_pred             -HHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHHHHhccCCCCCcHHHHHH
Confidence             0123589999999999999999999999998887652         35799999999987621     22345899999


Q ss_pred             HHHHHHHHHHHHHHH
Q 047225          238 AIGRLLEDNLAEIIL  252 (287)
Q Consensus       238 ~i~~~~~~~~~~~~~  252 (287)
                      .+++++..+..+...
T Consensus       254 ~l~~a~~~~~~r~~~  268 (309)
T 3syl_A          254 ALDRARLRQANRLFT  268 (309)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999877766544

>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=99.81  E-value=6.2e-19  Score=163.75  Aligned_cols=199  Identities=27%  Similarity=0.396  Sum_probs=131.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhC--CcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHR--PHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~il~iD   96 (287)
                      +++|+||||||||+++++++..+   ..++..++|+...+.   ..+++....+.|.... .+...+...  ..+++|||
T Consensus       110 ~vll~Gp~GtGKTtlar~ia~~l---~~~~~~i~~~~~~~~---~~~~g~~~~~ig~~~~-~~~~~~~~a~~~~~vl~lD  182 (543)
T 3m6a_A          110 ILCLAGPPGVGKTSLAKSIAKSL---GRKFVRISLGGVRDE---SEIRGHRRTYVGAMPG-RIIQGMKKAGKLNPVFLLD  182 (543)
T ss_dssp             EEEEESSSSSSHHHHHHHHHHHH---TCEEEEECCCC------------------------CHHHHHHTTCSSSEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc---CCCeEEEEecccchh---hhhhhHHHHHhccCch-HHHHHHHHhhccCCEEEEh
Confidence            79999999999999999999999   667888888775543   2233333334443332 222233222  34699999


Q ss_pred             CcccccHH----HHHHHHHhhcCce---eecC-CCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCC
Q 047225           97 EIEKAHRD----VLNVMLQLLDDGR---VTDG-KGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFR  168 (287)
Q Consensus        97 eid~~~~~----~~~~L~~~l~~~~---~~~~-~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (287)
                      |+|++.++    .++.|+++++.+.   +... .+..+++.+++||+|+|...                        .++
T Consensus       183 Eid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN~~~------------------------~l~  238 (543)
T 3m6a_A          183 EIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATANNLA------------------------TIP  238 (543)
T ss_dssp             ESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECSSTT------------------------TSC
T ss_pred             hhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEeccCccc------------------------cCC
Confidence            99999887    4588899987543   2222 24556667899999999853                        568


Q ss_pred             hhHHhccCceEEeCCCCHHHHHHHHHHHHHHHH-HHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHH
Q 047225          169 PEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIY-ERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNL  247 (287)
Q Consensus       169 ~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~-~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~  247 (287)
                      ++|++|| ..+.|++|+.++..+|+..++.... .........+.++++++..++.. |....|+|.+++.+++++..+.
T Consensus       239 ~aL~~R~-~vi~~~~~~~~e~~~Il~~~l~~~~~~~~~~~~~~i~i~~~~l~~l~~~-~~~~~~vR~L~~~i~~~~~~aa  316 (543)
T 3m6a_A          239 GPLRDRM-EIINIAGYTEIEKLEIVKDHLLPKQIKEHGLKKSNLQLRDQAILDIIRY-YTREAGVRSLERQLAAICRKAA  316 (543)
T ss_dssp             HHHHHHE-EEEECCCCCHHHHHHHHHHTHHHHHHHHTTCCGGGCEECHHHHHHHHHH-HCCCSSSHHHHHHHHHHHHHHH
T ss_pred             HHHHhhc-ceeeeCCCCHHHHHHHHHHHHHHHHHHHcCCCcccccCCHHHHHHHHHh-CChhhchhHHHHHHHHHHHHHH
Confidence            9999999 6899999999999999988774322 11111112578999999998873 4445688999999999888665


Q ss_pred             HHH
Q 047225          248 AEI  250 (287)
Q Consensus       248 ~~~  250 (287)
                      .+.
T Consensus       317 ~~~  319 (543)
T 3m6a_A          317 KAI  319 (543)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            444

>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=99.81  E-value=2.3e-18  Score=154.50  Aligned_cols=149  Identities=19%  Similarity=0.325  Sum_probs=113.3

Q ss_pred             CcEEEEEcCcccccH------------HHHHHHHHhhcCceeecCCCceeeccceEEEEee-----cCCchhhhhhccCC
Q 047225           89 PHSVILFDEIEKAHR------------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTS-----NIGDSVIARESILG  151 (287)
Q Consensus        89 ~~~il~iDeid~~~~------------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~-----n~~~~~~~~~~~~~  151 (287)
                      +++++++||+|++..            .+|.+|+++++......+ -..++..+++||+++     |+.           
T Consensus       250 ~~~il~~DEidki~~~~~~~~~D~s~egvq~aLL~~le~~~~~~~-~~~~d~~~ilfI~~gaf~~~~~~-----------  317 (444)
T 1g41_A          250 QNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTK-HGMVKTDHILFIASGAFQVARPS-----------  317 (444)
T ss_dssp             HHCEEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEET-TEEEECTTCEEEEEECCSSCCGG-----------
T ss_pred             cCCeeeHHHHHHHhhccCCCCCCchHHHHHHHHHHHhcccccccc-cceecCCcEEEEeccccccCChh-----------
Confidence            456999999998743            388899999997655442 245677889999987     332           


Q ss_pred             chHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHH----HHHHHHHHHHHhcCcEEEeChhHHHHHHHhcc-
Q 047225          152 SDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVD----IMLKEIYERLEAKNMELTVTHTFKKKLIEEGY-  226 (287)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~----~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~-  226 (287)
                                    .+-|+|++||+..+.|++++.+++..|+.    ..+.++...+...+..+.++++++.+|+..++ 
T Consensus       318 --------------dlipel~~R~~i~i~l~~lt~~e~~~Il~~~~~~l~~q~~~~~~~~~~~l~~~~~al~~i~~~a~~  383 (444)
T 1g41_A          318 --------------DLIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFR  383 (444)
T ss_dssp             --------------GSCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHH
T ss_pred             --------------hcchHHhcccceeeeCCCCCHHHHHHHHHHHHHhHHHHHHHHhcccCceEEECHHHHHHHHHHHHH
Confidence                          13489999998889999999999999994    34555556666667889999999999998644 


Q ss_pred             ----CCCCCchhHHHHHHHHHHHHHHHHHHhccCCCCCEEEEEEc
Q 047225          227 ----NPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCD  267 (287)
Q Consensus       227 ----~~~~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~i~~~  267 (287)
                          ..+.|+|.+++.+++++.....+...    ..++++.|+.+
T Consensus       384 ~~~~t~~~GaR~L~~~ie~~~~~~~~~~~~----~~~~~~~i~~~  424 (444)
T 1g41_A          384 VNEKTENIGARRLHTVMERLMDKISFSASD----MNGQTVNIDAA  424 (444)
T ss_dssp             HHHHSCCCGGGHHHHHHHHHHHHHHHHGGG----CTTCEEEECHH
T ss_pred             hccCCccCCchHHHHHHHHHHHHHHhhccc----cCCCeEEEeHH
Confidence                47899999999999999976655432    12355665543

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.81  E-value=2.1e-18  Score=151.21  Aligned_cols=170  Identities=18%  Similarity=0.279  Sum_probs=128.1

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh-CCcEEEEE
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH-RPHSVILF   95 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~il~i   95 (287)
                      ..+++|+||||||||++|+.+++.+   +.+++.++|......                   +.+...+.. ...++|||
T Consensus        55 ~~~vll~G~~GtGKT~la~~ia~~~---~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~vl~l  112 (338)
T 3pfi_A           55 LDHILFSGPAGLGKTTLANIISYEM---SANIKTTAAPMIEKS-------------------GDLAAILTNLSEGDILFI  112 (338)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHT---TCCEEEEEGGGCCSH-------------------HHHHHHHHTCCTTCEEEE
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHHh---CCCeEEecchhccch-------------------hHHHHHHHhccCCCEEEE
Confidence            3469999999999999999999998   667888888654321                   233333332 45579999


Q ss_pred             cCcccccHHHHHHHHHhhcCceeecC-------CCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCC
Q 047225           96 DEIEKAHRDVLNVMLQLLDDGRVTDG-------KGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFR  168 (287)
Q Consensus        96 Deid~~~~~~~~~L~~~l~~~~~~~~-------~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (287)
                      ||++.+++..++.|++.++++.+..-       ....+..+.+++|+++|...                        .+.
T Consensus       113 DEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~------------------------~l~  168 (338)
T 3pfi_A          113 DEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAG------------------------MLS  168 (338)
T ss_dssp             ETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEESCGG------------------------GSC
T ss_pred             echhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCCCcc------------------------ccC
Confidence            99999999999999999998764321       12233445688999998742                        467


Q ss_pred             hhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          169 PEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       169 ~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      ++|.+||+..+.+++|+.+++..++...+...         .+.+++++++.++. .|.  .++|.+.+.+++++.
T Consensus       169 ~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~---------~~~~~~~~~~~l~~-~~~--G~~r~l~~~l~~~~~  232 (338)
T 3pfi_A          169 NPLRDRFGMQFRLEFYKDSELALILQKAALKL---------NKTCEEKAALEIAK-RSR--STPRIALRLLKRVRD  232 (338)
T ss_dssp             HHHHTTCSEEEECCCCCHHHHHHHHHHHHHHT---------TCEECHHHHHHHHH-TTT--TCHHHHHHHHHHHHH
T ss_pred             HHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhc---------CCCCCHHHHHHHHH-HHC--cCHHHHHHHHHHHHH
Confidence            89999999999999999999999987666432         35789999999998 453  456888888776543

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.81  E-value=8.2e-19  Score=155.01  Aligned_cols=170  Identities=27%  Similarity=0.330  Sum_probs=121.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||++|+++|..+   +.+++.+++++.....     .|    . +....+.++..++....+||||||+
T Consensus       184 GvLL~GPPGTGKTllAkAiA~e~---~~~f~~v~~s~l~sk~-----vG----e-se~~vr~lF~~Ar~~aP~IIFiDEi  250 (405)
T 4b4t_J          184 GVILYGPPGTGKTLLARAVAHHT---DCKFIRVSGAELVQKY-----IG----E-GSRMVRELFVMAREHAPSIIFMDEI  250 (405)
T ss_dssp             CEEEESCSSSSHHHHHHHHHHHH---TCEEEEEEGGGGSCSS-----TT----H-HHHHHHHHHHHHHHTCSEEEEEESS
T ss_pred             ceEEeCCCCCCHHHHHHHHHHhh---CCCceEEEhHHhhccc-----cc----h-HHHHHHHHHHHHHHhCCceEeeecc
Confidence            49999999999999999999999   7899999988765431     00    0 0011245677777777799999999


Q ss_pred             cccc-----------HH---HHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           99 EKAH-----------RD---VLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        99 d~~~-----------~~---~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      |.+-           ..   +...|+..|+.-.         ...+++||+|||.+.                       
T Consensus       251 Dai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~---------~~~~V~vIaATNrpd-----------------------  298 (405)
T 4b4t_J          251 DSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFE---------TSKNIKIIMATNRLD-----------------------  298 (405)
T ss_dssp             SCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTT---------CCCCEEEEEEESCSS-----------------------
T ss_pred             hhhccCCCCCCCCCcHHHHHHHHHHHHhhhccC---------CCCCeEEEeccCChh-----------------------
Confidence            9542           12   3445555555311         013568999999874                       


Q ss_pred             hcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChh-HHHHHHHhccCCCCCchhHHHHHHH
Q 047225          165 RRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHT-FKKKLIEEGYNPSYGARPLRRAIGR  241 (287)
Q Consensus       165 ~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~-~~~~l~~~~~~~~~~~r~l~~~i~~  241 (287)
                       .++++|++  ||+..|.|++|+.++..+|++.++.+.           .++.+ -++.++..+  .+++..+++..+..
T Consensus       299 -~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~-----------~l~~dvdl~~lA~~t--~G~SGADi~~l~~e  364 (405)
T 4b4t_J          299 -ILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKM-----------NLTRGINLRKVAEKM--NGCSGADVKGVCTE  364 (405)
T ss_dssp             -SSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTS-----------BCCSSCCHHHHHHHC--CSCCHHHHHHHHHH
T ss_pred             -hCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCC-----------CCCccCCHHHHHHHC--CCCCHHHHHHHHHH
Confidence             46899997  999999999999999999997665421           12222 266777653  46788999999998


Q ss_pred             HHHHHH
Q 047225          242 LLEDNL  247 (287)
Q Consensus       242 ~~~~~~  247 (287)
                      +...++
T Consensus       365 A~~~Ai  370 (405)
T 4b4t_J          365 AGMYAL  370 (405)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            877654

>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=99.80  E-value=2.1e-18  Score=150.36  Aligned_cols=183  Identities=19%  Similarity=0.252  Sum_probs=133.6

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEE
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVI   93 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il   93 (287)
                      ..|..+++|+||||||||++|+++++.+   +.+++.+++++.....     .|.    . ......++........++|
T Consensus        48 ~~~~~~vLl~GppGtGKT~la~aia~~~---~~~~~~v~~~~l~~~~-----~g~----~-~~~~~~~f~~a~~~~~~vl  114 (322)
T 3eie_A           48 RKPTSGILLYGPPGTGKSYLAKAVATEA---NSTFFSVSSSDLVSKW-----MGE----S-EKLVKQLFAMARENKPSII  114 (322)
T ss_dssp             CCCCCEEEEECSSSSCHHHHHHHHHHHH---TCEEEEEEHHHHHTTT-----GGG----H-HHHHHHHHHHHHHTSSEEE
T ss_pred             CCCCCeEEEECCCCCcHHHHHHHHHHHH---CCCEEEEchHHHhhcc-----cch----H-HHHHHHHHHHHHhcCCeEE
Confidence            3444479999999999999999999998   7788899887654321     100    0 0011345555666666899


Q ss_pred             EEcCcccccH-----------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           94 LFDEIEKAHR-----------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        94 ~iDeid~~~~-----------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      ||||+|.+..           .++..|+..++.-..        ...+++||+++|.+.                     
T Consensus       115 ~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~--------~~~~v~vi~atn~~~---------------------  165 (322)
T 3eie_A          115 FIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGN--------DSQGVLVLGATNIPW---------------------  165 (322)
T ss_dssp             EEECGGGGSCC------CCTHHHHHHHHHHHGGGGT--------SCCCEEEEEEESCGG---------------------
T ss_pred             EechhhhhhccCCCCcchHHHHHHHHHHHHhccccc--------cCCceEEEEecCChh---------------------
Confidence            9999998743           456777777763210        113568888998753                     


Q ss_pred             HHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          163 LRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       163 ~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                         .+++++.+||+..+.+++|+.++..+|++..+..         ....+++..++.++..+.  +++.++++..++.+
T Consensus       166 ---~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~---------~~~~~~~~~l~~la~~t~--g~sg~di~~l~~~a  231 (322)
T 3eie_A          166 ---QLDSAIRRRFERRIYIPLPDLAARTTMFEINVGD---------TPCVLTKEDYRTLGAMTE--GYSGSDIAVVVKDA  231 (322)
T ss_dssp             ---GSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTT---------CCCCCCHHHHHHHHHTTT--TCCHHHHHHHHHHH
T ss_pred             ---hCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhcc---------CCCCCCHHHHHHHHHHcC--CCCHHHHHHHHHHH
Confidence               3578999999999999999999999999776542         234678899999988643  56779999999999


Q ss_pred             HHHHHHHHHH
Q 047225          243 LEDNLAEIIL  252 (287)
Q Consensus       243 ~~~~~~~~~~  252 (287)
                      ...++.+..-
T Consensus       232 ~~~a~r~~~~  241 (322)
T 3eie_A          232 LMQPIRKIQS  241 (322)
T ss_dssp             TTHHHHHHHH
T ss_pred             HHHHHHHHhh
Confidence            9888876643

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.79  E-value=1.6e-18  Score=153.59  Aligned_cols=168  Identities=23%  Similarity=0.320  Sum_probs=120.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCccc--chhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE--NGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~il~iD   96 (287)
                      .++|+||||||||++|+++|..+   +.+++.+++++.....            .|-.  ..+.++..++....+|||||
T Consensus       218 GvLLyGPPGTGKTlLAkAiA~e~---~~~fi~v~~s~l~sk~------------vGesek~ir~lF~~Ar~~aP~IIfiD  282 (437)
T 4b4t_I          218 GVILYGAPGTGKTLLAKAVANQT---SATFLRIVGSELIQKY------------LGDGPRLCRQIFKVAGENAPSIVFID  282 (437)
T ss_dssp             EEEEESSTTTTHHHHHHHHHHHH---TCEEEEEESGGGCCSS------------SSHHHHHHHHHHHHHHHTCSEEEEEE
T ss_pred             CCceECCCCchHHHHHHHHHHHh---CCCEEEEEHHHhhhcc------------CchHHHHHHHHHHHHHhcCCcEEEEe
Confidence            59999999999999999999999   7889999887765431            1111  12456677777777999999


Q ss_pred             Ccccc-----------cHHHHH---HHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           97 EIEKA-----------HRDVLN---VMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        97 eid~~-----------~~~~~~---~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      |+|.+           +.....   .|+..++.-   .      ...+++||+|||.+.                     
T Consensus       283 EiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~---~------~~~~ViVIaATNrpd---------------------  332 (437)
T 4b4t_I          283 EIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGF---D------DRGDVKVIMATNKIE---------------------  332 (437)
T ss_dssp             EESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHC---C------CSSSEEEEEEESCST---------------------
T ss_pred             hhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCc---C------CCCCEEEEEeCCChh---------------------
Confidence            99954           112333   344444321   0      113568999999864                     


Q ss_pred             HHhcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChh-HHHHHHHhccCCCCCchhHHHHH
Q 047225          163 LRRRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHT-FKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       163 ~~~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~-~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                         .++++|++  ||+..|.|+.|+.++..+|++.++.+.           .++++ -++.++..+  .+++..+++.++
T Consensus       333 ---~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~-----------~l~~dvdl~~LA~~T--~GfSGADI~~l~  396 (437)
T 4b4t_I          333 ---TLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKM-----------NLSEDVNLETLVTTK--DDLSGADIQAMC  396 (437)
T ss_dssp             ---TCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTS-----------CBCSCCCHHHHHHHC--CSCCHHHHHHHH
T ss_pred             ---hcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCC-----------CCCCcCCHHHHHHhC--CCCCHHHHHHHH
Confidence               46789987  999999999999999999997666431           22222 266777653  467889999999


Q ss_pred             HHHHHHHH
Q 047225          240 GRLLEDNL  247 (287)
Q Consensus       240 ~~~~~~~~  247 (287)
                      ..+...++
T Consensus       397 ~eA~~~Ai  404 (437)
T 4b4t_I          397 TEAGLLAL  404 (437)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            98877655

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=99.78  E-value=5.7e-18  Score=149.51  Aligned_cols=178  Identities=19%  Similarity=0.250  Sum_probs=129.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      .+++|+||||||||++|+++++.+   +.+++.+++++....     ..|    .. ......++........+||||||
T Consensus        85 ~~iLL~GppGtGKT~la~ala~~~---~~~~~~v~~~~l~~~-----~~g----~~-~~~~~~~f~~a~~~~~~vl~iDE  151 (355)
T 2qp9_X           85 SGILLYGPPGTGKSYLAKAVATEA---NSTFFSVSSSDLVSK-----WMG----ES-EKLVKQLFAMARENKPSIIFIDQ  151 (355)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHH---TCEEEEEEHHHHHSC-----C-------C-HHHHHHHHHHHHHTSSEEEEEEC
T ss_pred             ceEEEECCCCCcHHHHHHHHHHHh---CCCEEEeeHHHHhhh-----hcc----hH-HHHHHHHHHHHHHcCCeEEEEec
Confidence            369999999999999999999999   678888888754322     111    00 00113445555556668999999


Q ss_pred             cccccH-----------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           98 IEKAHR-----------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        98 id~~~~-----------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                      +|.+..           .+++.|+..++.-..        ...+++||+++|.+.                        .
T Consensus       152 id~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~--------~~~~v~vI~atn~~~------------------------~  199 (355)
T 2qp9_X          152 VDALTGTRGEGESEASRRIKTELLVQMNGVGN--------DSQGVLVLGATNIPW------------------------Q  199 (355)
T ss_dssp             GGGGTC------CTHHHHHHHHHHHHHHHCC-----------CCEEEEEEESCGG------------------------G
T ss_pred             hHhhcccCCCCcchHHHHHHHHHHHHhhcccc--------cCCCeEEEeecCCcc------------------------c
Confidence            998753           356677777763110        113568888998753                        3


Q ss_pred             CChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHH
Q 047225          167 FRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDN  246 (287)
Q Consensus       167 ~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~  246 (287)
                      +++++++||+..+.+++|+.++..+|+...+..         ....+++..++.|+..+  .+++.+++..++++++..+
T Consensus       200 ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~---------~~~~~~~~~l~~la~~t--~G~sg~dl~~l~~~A~~~a  268 (355)
T 2qp9_X          200 LDSAIRRRFERRIYIPLPDLAARTTMFEINVGD---------TPSVLTKEDYRTLGAMT--EGYSGSDIAVVVKDALMQP  268 (355)
T ss_dssp             SCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTT---------SCBCCCHHHHHHHHHHT--TTCCHHHHHHHHHHHHHHH
T ss_pred             CCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhh---------CCCCCCHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHH
Confidence            578999999999999999999999999776542         13456888999998864  3567799999999999988


Q ss_pred             HHHHH
Q 047225          247 LAEII  251 (287)
Q Consensus       247 ~~~~~  251 (287)
                      +.+..
T Consensus       269 ~~~~~  273 (355)
T 2qp9_X          269 IRKIQ  273 (355)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87654

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.78  E-value=2.4e-18  Score=154.15  Aligned_cols=169  Identities=20%  Similarity=0.275  Sum_probs=120.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCccc--chhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE--NGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~il~iD   96 (287)
                      .++|+||||||||++|+++|..+   +.+++.+++++.....            .|..  ..+.++........+|||||
T Consensus       217 GvLLyGPPGTGKTllAkAiA~e~---~~~f~~v~~s~l~~~~------------vGese~~ir~lF~~A~~~aP~IifiD  281 (434)
T 4b4t_M          217 GALMYGPPGTGKTLLARACAAQT---NATFLKLAAPQLVQMY------------IGEGAKLVRDAFALAKEKAPTIIFID  281 (434)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHH---TCEEEEEEGGGGCSSC------------SSHHHHHHHHHHHHHHHHCSEEEEEE
T ss_pred             eeEEECcCCCCHHHHHHHHHHHh---CCCEEEEehhhhhhcc------------cchHHHHHHHHHHHHHhcCCeEEeec
Confidence            59999999999999999999999   7889999987765431            1111  12355666666666999999


Q ss_pred             Ccccc-----------cHHH---HHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           97 EIEKA-----------HRDV---LNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        97 eid~~-----------~~~~---~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      |+|.+           +...   ...|+..++.-.         ...+++||+|||.+.                     
T Consensus       282 EiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~---------~~~~ViVIaaTNrp~---------------------  331 (434)
T 4b4t_M          282 ELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFS---------SDDRVKVLAATNRVD---------------------  331 (434)
T ss_dssp             CTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSC---------SSCSSEEEEECSSCC---------------------
T ss_pred             chhhhhhccCCCCCCCchHHHHHHHHHHHHhhccC---------CCCCEEEEEeCCCch---------------------
Confidence            99953           1223   344555554310         013568999999864                     


Q ss_pred             HHhcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChh-HHHHHHHhccCCCCCchhHHHHH
Q 047225          163 LRRRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHT-FKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       163 ~~~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~-~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                         .++++|++  ||+..|.|++|+.++..+|++.++.+.       .    ++.+ -++.++..  ..+++..+++.++
T Consensus       332 ---~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~-------~----~~~dvdl~~lA~~--t~G~sGADi~~l~  395 (434)
T 4b4t_M          332 ---VLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKM-------T----TDDDINWQELARS--TDEFNGAQLKAVT  395 (434)
T ss_dssp             ---CCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHS-------C----BCSCCCHHHHHHH--CSSCCHHHHHHHH
T ss_pred             ---hcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCC-------C----CCCcCCHHHHHHh--CCCCCHHHHHHHH
Confidence               46789987  999999999999999999998776542       1    2222 25667765  3467889999999


Q ss_pred             HHHHHHHHH
Q 047225          240 GRLLEDNLA  248 (287)
Q Consensus       240 ~~~~~~~~~  248 (287)
                      ..+...++.
T Consensus       396 ~eA~~~a~r  404 (434)
T 4b4t_M          396 VEAGMIALR  404 (434)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            988776653

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.78  E-value=1.5e-17  Score=144.91  Aligned_cols=180  Identities=19%  Similarity=0.245  Sum_probs=130.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      .+++|+||||||||++|+++++.+.  ..+++.+++++....     ..|    .. ......++........++|||||
T Consensus        46 ~~iLL~GppGtGKT~la~ala~~~~--~~~~~~i~~~~l~~~-----~~g----~~-~~~~~~lf~~a~~~~~~vl~iDE  113 (322)
T 1xwi_A           46 RGILLFGPPGTGKSYLAKAVATEAN--NSTFFSISSSDLVSK-----WLG----ES-EKLVKNLFQLARENKPSIIFIDE  113 (322)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHHTT--SCEEEEEECCSSCCS-----SCC----SC-HHHHHHHHHHHHHTSSEEEEEET
T ss_pred             ceEEEECCCCccHHHHHHHHHHHcC--CCcEEEEEhHHHHhh-----hhh----HH-HHHHHHHHHHHHhcCCcEEEeec
Confidence            3699999999999999999999872  457788887654422     111    00 01123455556666678999999


Q ss_pred             ccccc-----------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           98 IEKAH-----------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        98 id~~~-----------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                      +|.+.           ..+++.|+..++.-.        ....+++||+++|.+.                        .
T Consensus       114 id~l~~~~~~~~~~~~~~~~~~ll~~ld~~~--------~~~~~v~vI~atn~~~------------------------~  161 (322)
T 1xwi_A          114 IDSLCGSRSENESEAARRIKTEFLVQMQGVG--------VDNDGILVLGATNIPW------------------------V  161 (322)
T ss_dssp             TTGGGCCSSSCCTTHHHHHHHHHHHHHHCSS--------SCCTTEEEEEEESCTT------------------------T
T ss_pred             HHHhccccccccchHHHHHHHHHHHHHhccc--------ccCCCEEEEEecCCcc------------------------c
Confidence            99872           245566666665321        1123678899998763                        3


Q ss_pred             CChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHH
Q 047225          167 FRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDN  246 (287)
Q Consensus       167 ~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~  246 (287)
                      +++++++||+..+.+++|+.++..+|++..+..         ....+++..++.++..+  .+++.+++...++.+...+
T Consensus       162 ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~---------~~~~l~~~~l~~la~~t--~G~sgadl~~l~~~A~~~a  230 (322)
T 1xwi_A          162 LDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGT---------TQNSLTEADFRELGRKT--DGYSGADISIIVRDALMQP  230 (322)
T ss_dssp             SCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTT---------CCBCCCHHHHHHHHHTC--TTCCHHHHHHHHHHHHTHH
T ss_pred             CCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhc---------CCCCCCHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHH
Confidence            578999999999999999999999999776542         23457888999998864  4667799999999999988


Q ss_pred             HHHHHH
Q 047225          247 LAEIIL  252 (287)
Q Consensus       247 ~~~~~~  252 (287)
                      +.+...
T Consensus       231 ~r~~~~  236 (322)
T 1xwi_A          231 VRKVQS  236 (322)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            876654

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.78  E-value=6.7e-18  Score=151.12  Aligned_cols=168  Identities=24%  Similarity=0.333  Sum_probs=120.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCccc--chhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE--NGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~il~iD   96 (287)
                      .++|+||||||||++|+++|+.+   +.+++.+++++.....            .|..  ..+.++..++....+|+|||
T Consensus       208 GiLL~GPPGtGKT~lakAiA~~~---~~~~~~v~~~~l~~~~------------~Ge~e~~ir~lF~~A~~~aP~IifiD  272 (428)
T 4b4t_K          208 GVLLYGPPGTGKTMLVKAVANST---KAAFIRVNGSEFVHKY------------LGEGPRMVRDVFRLARENAPSIIFID  272 (428)
T ss_dssp             EEEEESCTTTTHHHHHHHHHHHH---TCEEEEEEGGGTCCSS------------CSHHHHHHHHHHHHHHHTCSEEEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh---CCCeEEEecchhhccc------------cchhHHHHHHHHHHHHHcCCCeeech
Confidence            59999999999999999999999   7899999987755321            1111  12456666777777999999


Q ss_pred             Cccccc--------------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           97 EIEKAH--------------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        97 eid~~~--------------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      |+|.+-              ..+...|+..++.-.         ...+++||+|||.+.                     
T Consensus       273 EiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~---------~~~~v~vI~aTN~~~---------------------  322 (428)
T 4b4t_K          273 EVDSIATKRFDAQTGSDREVQRILIELLTQMDGFD---------QSTNVKVIMATNRAD---------------------  322 (428)
T ss_dssp             CTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSC---------SSCSEEEEEEESCSS---------------------
T ss_pred             hhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCC---------CCCCEEEEEecCChh---------------------
Confidence            999431              134555665555210         113568999999864                     


Q ss_pred             HHhcCChhHHh--ccCceEEeC-CCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChh-HHHHHHHhccCCCCCchhHHHH
Q 047225          163 LRRRFRPEFLN--RIDEVIVFR-QLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHT-FKKKLIEEGYNPSYGARPLRRA  238 (287)
Q Consensus       163 ~~~~~~~~l~~--r~~~~i~~~-~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~-~~~~l~~~~~~~~~~~r~l~~~  238 (287)
                         .++|+|++  ||+..|.|| +|+.++...|++.++.+.           .+..+ -++.++..+  .+++..+++..
T Consensus       323 ---~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~-----------~l~~~~dl~~lA~~t--~G~sgadi~~l  386 (428)
T 4b4t_K          323 ---TLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKM-----------SLAPEADLDSLIIRN--DSLSGAVIAAI  386 (428)
T ss_dssp             ---SCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSS-----------CBCTTCCHHHHHHHT--TTCCHHHHHHH
T ss_pred             ---hcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCC-----------CCCcccCHHHHHHHC--CCCCHHHHHHH
Confidence               46899997  999999997 789999999997766431           12222 267777653  46678999999


Q ss_pred             HHHHHHHHH
Q 047225          239 IGRLLEDNL  247 (287)
Q Consensus       239 i~~~~~~~~  247 (287)
                      ++.+...++
T Consensus       387 ~~eA~~~a~  395 (428)
T 4b4t_K          387 MQEAGLRAV  395 (428)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            998877654

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.77  E-value=8.1e-18  Score=150.53  Aligned_cols=168  Identities=24%  Similarity=0.289  Sum_probs=119.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCccc--chhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE--NGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~il~iD   96 (287)
                      .++|+||||||||++|+++|..+   +.+++.+++++.....            .|..  ..+.++...+....+|||||
T Consensus       245 GILLyGPPGTGKTlLAkAiA~e~---~~~fi~vs~s~L~sk~------------vGesek~ir~lF~~Ar~~aP~IIfiD  309 (467)
T 4b4t_H          245 GILLYGPPGTGKTLCARAVANRT---DATFIRVIGSELVQKY------------VGEGARMVRELFEMARTKKACIIFFD  309 (467)
T ss_dssp             EEEECSCTTSSHHHHHHHHHHHH---TCEEEEEEGGGGCCCS------------SSHHHHHHHHHHHHHHHTCSEEEEEE
T ss_pred             ceEeeCCCCCcHHHHHHHHHhcc---CCCeEEEEhHHhhccc------------CCHHHHHHHHHHHHHHhcCCceEeec
Confidence            59999999999999999999999   7889999987765431            1111  12456666777777999999


Q ss_pred             Cccccc-----------HH---HHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           97 EIEKAH-----------RD---VLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        97 eid~~~-----------~~---~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      |+|.+-           ..   ....|+..|+...         ...+++||+|||.+.                     
T Consensus       310 EiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~---------~~~~ViVIaATNrpd---------------------  359 (467)
T 4b4t_H          310 EIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFD---------PRGNIKVMFATNRPN---------------------  359 (467)
T ss_dssp             CCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSC---------CTTTEEEEEECSCTT---------------------
T ss_pred             ccccccccccCcCCCccHHHHHHHHHHHHHhhccC---------CCCcEEEEeCCCCcc---------------------
Confidence            999541           12   3334444444210         113568999999864                     


Q ss_pred             HHhcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChh-HHHHHHHhccCCCCCchhHHHHH
Q 047225          163 LRRRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHT-FKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       163 ~~~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~-~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                         .++++|++  ||+..|.|+.|+.++..+|++.++...           .++.+ -++.|+..+  .+++..+++.+|
T Consensus       360 ---~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~-----------~l~~dvdl~~LA~~T--~GfSGADI~~l~  423 (467)
T 4b4t_H          360 ---TLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSM-----------SVERGIRWELISRLC--PNSTGAELRSVC  423 (467)
T ss_dssp             ---SBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTS-----------CBCSSCCHHHHHHHC--CSCCHHHHHHHH
T ss_pred             ---cCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCC-----------CCCCCCCHHHHHHHC--CCCCHHHHHHHH
Confidence               46789987  999999999999999999997665431           12222 256666653  466789999999


Q ss_pred             HHHHHHHH
Q 047225          240 GRLLEDNL  247 (287)
Q Consensus       240 ~~~~~~~~  247 (287)
                      ..+...++
T Consensus       424 ~eAa~~Ai  431 (467)
T 4b4t_H          424 TEAGMFAI  431 (467)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88877654

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.77  E-value=9.5e-18  Score=150.38  Aligned_cols=169  Identities=22%  Similarity=0.281  Sum_probs=120.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCccc--chhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE--NGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~il~iD   96 (287)
                      .++|+||||||||++|+++|+.+   +.+++.+++++.....            .|-.  ....++........+|||||
T Consensus       217 GvLL~GPPGtGKTllAkAiA~e~---~~~~~~v~~s~l~sk~------------~Gese~~ir~~F~~A~~~~P~IifiD  281 (437)
T 4b4t_L          217 GVLLYGPPGTGKTLLAKAVAATI---GANFIFSPASGIVDKY------------IGESARIIREMFAYAKEHEPCIIFMD  281 (437)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHH---TCEEEEEEGGGTCCSS------------SSHHHHHHHHHHHHHHHSCSEEEEEE
T ss_pred             eEEEECCCCCcHHHHHHHHHHHh---CCCEEEEehhhhcccc------------chHHHHHHHHHHHHHHhcCCceeeee
Confidence            59999999999999999999999   7889999987765431            1111  12456666777777999999


Q ss_pred             Cccccc-----------H---HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           97 EIEKAH-----------R---DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        97 eid~~~-----------~---~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      |+|.+-           .   .....|+..++.-.         ...+++||+|||.+.                     
T Consensus       282 EiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~---------~~~~vivI~ATNrp~---------------------  331 (437)
T 4b4t_L          282 EVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFD---------NLGQTKIIMATNRPD---------------------  331 (437)
T ss_dssp             CCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSS---------CTTSSEEEEEESSTT---------------------
T ss_pred             cccccccccccCCCCcchHHHHHHHHHHHHhhccc---------CCCCeEEEEecCCch---------------------
Confidence            999541           1   23445555555311         113568999999864                     


Q ss_pred             HHhcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          163 LRRRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       163 ~~~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                         .++|+|++  ||+..|.|+.|+.++..+|++.++...       .  +. ++--++.++..  ..+++..+++.++.
T Consensus       332 ---~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~-------~--~~-~d~dl~~lA~~--t~G~sGADi~~l~~  396 (437)
T 4b4t_L          332 ---TLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKV-------K--KT-GEFDFEAAVKM--SDGFNGADIRNCAT  396 (437)
T ss_dssp             ---SSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTS-------C--BC-SCCCHHHHHHT--CCSCCHHHHHHHHH
T ss_pred             ---hhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCC-------C--CC-cccCHHHHHHh--CCCCCHHHHHHHHH
Confidence               46788886  599999999999999999997776432       1  11 11225666664  44678899999998


Q ss_pred             HHHHHHH
Q 047225          241 RLLEDNL  247 (287)
Q Consensus       241 ~~~~~~~  247 (287)
                      .+...++
T Consensus       397 eA~~~ai  403 (437)
T 4b4t_L          397 EAGFFAI  403 (437)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8776554

>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=99.76  E-value=3.8e-17  Score=148.36  Aligned_cols=180  Identities=19%  Similarity=0.251  Sum_probs=130.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      .+++|+||||||||++|++++..+.  ..+++.+++++....     ..|..     ......++..+.....+||||||
T Consensus       168 ~~vLL~GppGtGKT~lA~aia~~~~--~~~~~~v~~~~l~~~-----~~g~~-----~~~~~~~f~~a~~~~~~vl~iDE  235 (444)
T 2zan_A          168 RGILLFGPPGTGKSYLAKAVATEAN--NSTFFSISSSDLVSK-----WLGES-----EKLVKNLFQLARENKPSIIFIDE  235 (444)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHCC--SSEEEEECCC--------------C-----CCTHHHHHHHHHHSCSEEEEESC
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHcC--CCCEEEEeHHHHHhh-----hcchH-----HHHHHHHHHHHHHcCCeEEEEec
Confidence            4799999999999999999999872  457888888765422     11111     11124566666666679999999


Q ss_pred             cccc-----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           98 IEKA-----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        98 id~~-----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                      +|.+           ...+++.|+..++.-.        ....+++||++||.+.                        .
T Consensus       236 id~l~~~~~~~~~~~~~~~~~~lL~~l~~~~--------~~~~~v~vI~atn~~~------------------------~  283 (444)
T 2zan_A          236 IDSLCGSRSENESEAARRIKTEFLVQMQGVG--------VDNDGILVLGATNIPW------------------------V  283 (444)
T ss_dssp             TTTTCCCSSCCCCGGGHHHHHHHHTTTTCSS--------CCCSSCEEEEEESCGG------------------------G
T ss_pred             hHhhccCCCCccccHHHHHHHHHHHHHhCcc--------cCCCCEEEEecCCCcc------------------------c
Confidence            9977           2356666777665421        1124678999999763                        3


Q ss_pred             CChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHH
Q 047225          167 FRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDN  246 (287)
Q Consensus       167 ~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~  246 (287)
                      +++++++||+..+.+++|+.++...|+...+..         ....+++..++.|+..+  .+++.+++..++..++..+
T Consensus       284 ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~---------~~~~l~~~~l~~la~~t--~G~sgadl~~l~~~a~~~a  352 (444)
T 2zan_A          284 LDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGS---------TQNSLTEADFQELGRKT--DGYSGADISIIVRDALMQP  352 (444)
T ss_dssp             SCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTT---------SCEECCHHHHHHHHHHT--TTCCHHHHHHHHHHHHTHH
T ss_pred             cCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhc---------CCCCCCHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHH
Confidence            578999999989999999999999999776542         24677899999998864  4667899999999999988


Q ss_pred             HHHHHH
Q 047225          247 LAEIIL  252 (287)
Q Consensus       247 ~~~~~~  252 (287)
                      +.+...
T Consensus       353 ~r~~~~  358 (444)
T 2zan_A          353 VRKVQS  358 (444)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            876643

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=99.74  E-value=2.8e-17  Score=143.06  Aligned_cols=166  Identities=18%  Similarity=0.220  Sum_probs=123.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh--CCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH--RPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~il~iD   96 (287)
                      +++|+||||||||++++.+++.+   +.+++.++|......                   ..+...+..  ...++||||
T Consensus        40 ~vll~G~~GtGKT~la~~i~~~~---~~~~~~~~~~~~~~~-------------------~~l~~~l~~~~~~~~~l~lD   97 (324)
T 1hqc_A           40 HLLLFGPPGLGKTTLAHVIAHEL---GVNLRVTSGPAIEKP-------------------GDLAAILANSLEEGDILFID   97 (324)
T ss_dssp             CCEEECCTTCCCHHHHHHHHHHH---TCCEEEECTTTCCSH-------------------HHHHHHHTTTCCTTCEEEET
T ss_pred             cEEEECCCCCCHHHHHHHHHHHh---CCCEEEEeccccCCh-------------------HHHHHHHHHhccCCCEEEEE
Confidence            69999999999999999999998   567778887655332                   233333333  345799999


Q ss_pred             CcccccHHHHHHHHHhhcCceeecCCC-------ceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225           97 EIEKAHRDVLNVMLQLLDDGRVTDGKG-------QTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus        97 eid~~~~~~~~~L~~~l~~~~~~~~~g-------~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      |++.++...+..|+++++++.+..-.+       .....+++.+|+++|...                        .+.+
T Consensus        98 Ei~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~------------------------~~~~  153 (324)
T 1hqc_A           98 EIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPG------------------------LITA  153 (324)
T ss_dssp             TTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCS------------------------SCSC
T ss_pred             CCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcc------------------------cCCH
Confidence            999999999999999999876442111       122335678999998752                        4568


Q ss_pred             hHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       170 ~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                      +|.+||+..+.+++|+.+++..++...+...         ...+++++++.++..+   ..++|.+...++.+
T Consensus       154 ~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~---------~~~~~~~~~~~l~~~~---~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          154 PLLSRFGIVEHLEYYTPEELAQGVMRDARLL---------GVRITEEAALEIGRRS---RGTMRVAKRLFRRV  214 (324)
T ss_dssp             STTTTCSCEEECCCCCHHHHHHHHHHHHHTT---------TCCCCHHHHHHHHHHS---CSCHHHHHHHHHHH
T ss_pred             HHHhcccEEEecCCCCHHHHHHHHHHHHHhc---------CCCCCHHHHHHHHHHc---cCCHHHHHHHHHHH
Confidence            8999998899999999999988886655421         3468999999998873   24567777776654

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.73  E-value=1.5e-17  Score=143.55  Aligned_cols=219  Identities=12%  Similarity=0.057  Sum_probs=138.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC-------CCceEEecccccccccch-----hhhhCCCCCCCcccchhhHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS-------KEAMVRIDMSEYMEKHTV-----SKFFGSPPGYVGFENGGQLTEAVR   86 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~-------~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~   86 (287)
                      +++|+||||||||++++.+++.+...       ...++++||....+...+     ..+.|..... + .....+...+.
T Consensus        47 ~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~~~~~-~-~~~~~L~~~f~  124 (318)
T 3te6_A           47 LFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKENLCG-D-ISLEALNFYIT  124 (318)
T ss_dssp             EEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCCC--C-C-CCHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcCCCCCc-h-HHHHHHHHHHH
Confidence            79999999999999999999998421       346788999876654221     1232321111 1 11112222222


Q ss_pred             -----hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHH
Q 047225           87 -----HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAE  161 (287)
Q Consensus        87 -----~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~  161 (287)
                           .....|++|||+|.+.  .++.|+.+++....        ...++.+|+++|......                 
T Consensus       125 ~~~~~~~~~~ii~lDE~d~l~--~q~~L~~l~~~~~~--------~~s~~~vI~i~n~~d~~~-----------------  177 (318)
T 3te6_A          125 NVPKAKKRKTLILIQNPENLL--SEKILQYFEKWISS--------KNSKLSIICVGGHNVTIR-----------------  177 (318)
T ss_dssp             HSCGGGSCEEEEEEECCSSSC--CTHHHHHHHHHHHC--------SSCCEEEEEECCSSCCCH-----------------
T ss_pred             HhhhccCCceEEEEecHHHhh--cchHHHHHHhcccc--------cCCcEEEEEEecCcccch-----------------
Confidence                 3445799999999987  56777777763211        113557888887642110                 


Q ss_pred             HHHhcCChhHHhccC-ceEEeCCCCHHHHHHHHHHHHHHHHHHH----------------H---------h-cCcEEEeC
Q 047225          162 ELRRRFRPEFLNRID-EVIVFRQLNKMQLMEIVDIMLKEIYERL----------------E---------A-KNMELTVT  214 (287)
Q Consensus       162 ~~~~~~~~~l~~r~~-~~i~~~~~~~~~~~~il~~~l~~~~~~~----------------~---------~-~~~~~~i~  214 (287)
                         ..+++.+.+|+. ..+.|+|++.+++.+|++..+.......                .         . ....+.++
T Consensus       178 ---~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  254 (318)
T 3te6_A          178 ---EQINIMPSLKAHFTEIKLNKVDKNELQQMIITRLKSLLKPFHVKVNDKKEMTIYNNIREGQNQKIPDNVIVINHKIN  254 (318)
T ss_dssp             ---HHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECTTCCEEECCCC--------CTTEEEECEECC
T ss_pred             ---hhcchhhhccCCceEEEeCCCCHHHHHHHHHHHHHhhhccccccccccccccccccccccccccccccccccccccC
Confidence               012356788986 5699999999999999998887642110                0         0 00124789


Q ss_pred             hhHHHHHHHhccCCCCCchhHHHHHHHHHHHHHHHHHHhccCCCCCEEEEEEcCCc
Q 047225          215 HTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGG  270 (287)
Q Consensus       215 ~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  270 (287)
                      ++++++++........++|..-..+.+++..+-.++..++... .++++|+.+.-.
T Consensus       255 ~~ai~~~A~~vA~~~GD~R~Al~ilr~A~~~ae~e~~~k~~~~-~~~~~i~~~~~~  309 (318)
T 3te6_A          255 NKITQLIAKNVANVSGSTEKAFKICEAAVEISKKDFVRKGGLQ-KGKLVVSQEMVP  309 (318)
T ss_dssp             HHHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHHHHHHTTEE-TTEECCSEECCT
T ss_pred             HHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHHHHHhccCCC-CCcEEeeHHHHH
Confidence            9999999986444455666666777777777777776666555 466666665443

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=99.73  E-value=8.9e-17  Score=141.36  Aligned_cols=133  Identities=11%  Similarity=0.109  Sum_probs=94.6

Q ss_pred             CcEEEEEcCcccccHHHHHHHHHhhcCceeecC-CCceeec-cceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           89 PHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG-KGQTVDL-KNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        89 ~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~-~g~~i~~-~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                      ..+++||||++.++...++.|+++++.+..... .|..... .++++|+++|+...                       .
T Consensus       144 ~~~vl~iDEi~~l~~~~~~~Ll~~le~~~~~~~~~g~~~~~~~~~~li~~~n~~~~-----------------------~  200 (350)
T 1g8p_A          144 NRGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEG-----------------------D  200 (350)
T ss_dssp             TTEEEEETTGGGSCHHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSC-----------------------C
T ss_pred             CCCEEEEeChhhCCHHHHHHHHHHHhcCceEEEecceEEeeCCceEEEEEeCCCCC-----------------------C
Confidence            358999999999999999999999998764443 2444433 37889999997432                       4


Q ss_pred             CChhHHhccCceEEeCCCC-HHHHHHHHHHHHHH--------------------HHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          167 FRPEFLNRIDEVIVFRQLN-KMQLMEIVDIMLKE--------------------IYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       167 ~~~~l~~r~~~~i~~~~~~-~~~~~~il~~~l~~--------------------~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                      ++++|++||+..+.+++|+ .++..+|+...+..                    ...........+.++++++++++...
T Consensus       201 l~~~L~~R~~~~~~l~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ls~~~~~~l~~~~  280 (350)
T 1g8p_A          201 LRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQILEARERLPKVEAPNTALYDCAALC  280 (350)
T ss_dssp             CCHHHHTTCSEEEECCCCCSHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHGGGCBCCHHHHHHHHHHH
T ss_pred             CCHHHHhhcceEEEcCCCCcHHHHHHHHHHHHhcccCchhhccccccchHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHH
Confidence            6789999997779999995 55655777663221                    00011111124589999999999998


Q ss_pred             cCCCC-CchhHHHHHHHHHH
Q 047225          226 YNPSY-GARPLRRAIGRLLE  244 (287)
Q Consensus       226 ~~~~~-~~r~l~~~i~~~~~  244 (287)
                      +..+. ++|.+.+.++.+..
T Consensus       281 ~~~~~~~~R~~~~ll~~a~~  300 (350)
T 1g8p_A          281 IALGSDGLRGELTLLRSARA  300 (350)
T ss_dssp             HHSSSCSHHHHHHHHHHHHH
T ss_pred             HHhCCCCccHHHHHHHHHHH
Confidence            87665 67777777765544

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.73  E-value=3.7e-17  Score=148.12  Aligned_cols=170  Identities=15%  Similarity=0.272  Sum_probs=114.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      ++++|+||||||||++++.+++.+   +.+++.+++..... ..+...+            .........+...+|||||
T Consensus        51 ~~vLL~GppGtGKTtlAr~ia~~~---~~~f~~l~a~~~~~-~~ir~~~------------~~a~~~~~~~~~~iLfIDE  114 (447)
T 3pvs_A           51 HSMILWGPPGTGKTTLAEVIARYA---NADVERISAVTSGV-KEIREAI------------ERARQNRNAGRRTILFVDE  114 (447)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHT---TCEEEEEETTTCCH-HHHHHHH------------HHHHHHHHTTCCEEEEEET
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHh---CCCeEEEEeccCCH-HHHHHHH------------HHHHHhhhcCCCcEEEEeC
Confidence            379999999999999999999998   56677776543211 1111111            0111122234568999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCc
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDE  177 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~  177 (287)
                      ++.++...++.|++.++++.             +++|++++....                      ..+.++|++|+ .
T Consensus       115 I~~l~~~~q~~LL~~le~~~-------------v~lI~att~n~~----------------------~~l~~aL~sR~-~  158 (447)
T 3pvs_A          115 VHRFNKSQQDAFLPHIEDGT-------------ITFIGATTENPS----------------------FELNSALLSRA-R  158 (447)
T ss_dssp             TTCC------CCHHHHHTTS-------------CEEEEEESSCGG----------------------GSSCHHHHTTE-E
T ss_pred             hhhhCHHHHHHHHHHHhcCc-------------eEEEecCCCCcc----------------------cccCHHHhCce-e
Confidence            99999999999999999742             356666644322                      14678999999 7


Q ss_pred             eEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          178 VIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       178 ~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      .+.++|++.+++..++...+......+.  +..+.+++++++.++.. +  ..++|.+.+.++.++.
T Consensus       159 v~~l~~l~~edi~~il~~~l~~~~~~~~--~~~~~i~~~al~~L~~~-~--~Gd~R~lln~Le~a~~  220 (447)
T 3pvs_A          159 VYLLKSLSTEDIEQVLTQAMEDKTRGYG--GQDIVLPDETRRAIAEL-V--NGDARRALNTLEMMAD  220 (447)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHCTTTSST--TSSEECCHHHHHHHHHH-H--CSCHHHHHHHHHHHHH
T ss_pred             EEeeCCcCHHHHHHHHHHHHHHHhhhhc--cccCcCCHHHHHHHHHH-C--CCCHHHHHHHHHHHHH
Confidence            8999999999999999888765322221  13588999999999997 4  3466777777775544

>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=99.73  E-value=1.3e-16  Score=137.66  Aligned_cols=176  Identities=26%  Similarity=0.377  Sum_probs=123.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||+++++++..+   +.+++.+++++...     ..+|....     ....++........+++||||+
T Consensus        51 ~vLL~Gp~GtGKT~la~ala~~~---~~~~i~v~~~~l~~-----~~~g~~~~-----~~~~~f~~a~~~~p~il~iDEi  117 (301)
T 3cf0_A           51 GVLFYGPPGCGKTLLAKAIANEC---QANFISIKGPELLT-----MWFGESEA-----NVREIFDKARQAAPCVLFFDEL  117 (301)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHT---TCEEEEECHHHHHH-----HHHTTCTT-----HHHHHHHHHHHTCSEEEEECST
T ss_pred             eEEEECCCCcCHHHHHHHHHHHh---CCCEEEEEhHHHHh-----hhcCchHH-----HHHHHHHHHHhcCCeEEEEECh
Confidence            69999999999999999999998   57888888876542     22332111     1234555555556689999999


Q ss_pred             ccccHH--------------HHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           99 EKAHRD--------------VLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        99 d~~~~~--------------~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      |.+...              ++..|+..++.-.         ...+++||++||.+.                       
T Consensus       118 d~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~---------~~~~v~vi~atn~~~-----------------------  165 (301)
T 3cf0_A          118 DSIAKARGGNIGDGGGAADRVINQILTEMDGMS---------TKKNVFIIGATNRPD-----------------------  165 (301)
T ss_dssp             THHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSC---------TTSSEEEEEEESCGG-----------------------
T ss_pred             HHHhhccCCCcCCcchHHHHHHHHHHHHhhccc---------CCCCEEEEEecCCcc-----------------------
Confidence            976543              4577777776311         113578999999753                       


Q ss_pred             hcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          165 RRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       165 ~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                       .+++++++  ||+..+.+++|+.++..+|++..+...       +..   .+..++.++..  ..+++.++++.+++++
T Consensus       166 -~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~-------~~~---~~~~~~~la~~--~~g~sg~dl~~l~~~a  232 (301)
T 3cf0_A          166 -IIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKS-------PVA---KDVDLEFLAKM--TNGFSGADLTEICQRA  232 (301)
T ss_dssp             -GSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTS-------CBC---SSCCHHHHHHT--CSSCCHHHHHHHHHHH
T ss_pred             -ccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccC-------CCC---ccchHHHHHHH--cCCCCHHHHHHHHHHH
Confidence             34678887  999899999999999999987666432       111   22234555554  3356678999999999


Q ss_pred             HHHHHHHHHH
Q 047225          243 LEDNLAEIIL  252 (287)
Q Consensus       243 ~~~~~~~~~~  252 (287)
                      +..++.+.+.
T Consensus       233 ~~~a~~~~~~  242 (301)
T 3cf0_A          233 CKLAIRESIE  242 (301)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9988876643

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.72  E-value=4.9e-17  Score=144.07  Aligned_cols=192  Identities=17%  Similarity=0.192  Sum_probs=117.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccccc-----chhhh---------------------------
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKH-----TVSKF---------------------------   65 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~-----~~~~~---------------------------   65 (287)
                      .+++|+||||||||++++++++.+. ...+++.+++.......     .....                           
T Consensus        71 ~~vLl~GppGtGKT~la~~la~~l~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~  149 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAMGMAQALG-PDTPFTAIAGSEIFSLEMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINS  149 (368)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHC-SSCCEEEEEGGGGSCSSSCHHHHHHHHHHHSBEECC------CEEHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhc-ccCCcccccchhhhhcccchhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhc
Confidence            4799999999999999999999984 23466777765422211     00000                           


Q ss_pred             -----hCCCCCCCcc--cchhhHH-HH----HHhCC----cEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeecc
Q 047225           66 -----FGSPPGYVGF--ENGGQLT-EA----VRHRP----HSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLK  129 (287)
Q Consensus        66 -----~~~~~~~~~~--~~~~~~~-~~----~~~~~----~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~  129 (287)
                           .+...+..+.  ......+ ..    ...+.    +++|||||+|.++.+.++.|++.+++....          
T Consensus       150 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDEi~~l~~~~~~~L~~~le~~~~~----------  219 (368)
T 3uk6_A          150 RTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEVHMLDIESFSFLNRALESDMAP----------  219 (368)
T ss_dssp             ----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEESGGGSBHHHHHHHHHHTTCTTCC----------
T ss_pred             ccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEhhccccChHHHHHHHHHhhCcCCC----------
Confidence                 0000011110  0001111 11    11122    359999999999999999999999874211          


Q ss_pred             ceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCc
Q 047225          130 NTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNM  209 (287)
Q Consensus       130 ~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~  209 (287)
                        +++++++.+...+....   .         .....++++|.+|| ..+.|+||+.+++.+++...+...         
T Consensus       220 --~~ii~t~~~~~~i~~t~---~---------~~~~~l~~~l~sR~-~~i~~~~~~~~e~~~il~~~~~~~---------  275 (368)
T 3uk6_A          220 --VLIMATNRGITRIRGTS---Y---------QSPHGIPIDLLDRL-LIVSTTPYSEKDTKQILRIRCEEE---------  275 (368)
T ss_dssp             --EEEEEESCSEEECBTSS---C---------EEETTCCHHHHTTE-EEEEECCCCHHHHHHHHHHHHHHT---------
T ss_pred             --eeeeecccceeeeeccC---C---------CCcccCCHHHHhhc-cEEEecCCCHHHHHHHHHHHHHHc---------
Confidence              24444442210000000   0         00014678999999 568999999999999997776531         


Q ss_pred             EEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHH
Q 047225          210 ELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDN  246 (287)
Q Consensus       210 ~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~  246 (287)
                      .+.+++++++.++..++.  .++|.+.+.+++++..+
T Consensus       276 ~~~~~~~~l~~l~~~~~~--G~~r~~~~ll~~a~~~A  310 (368)
T 3uk6_A          276 DVEMSEDAYTVLTRIGLE--TSLRYAIQLITAASLVC  310 (368)
T ss_dssp             TCCBCHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHhcC--CCHHHHHHHHHHHHHHH
Confidence            356899999999988653  45688888877766543

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.72  E-value=1.3e-16  Score=142.62  Aligned_cols=175  Identities=18%  Similarity=0.198  Sum_probs=121.8

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      .+++|+||||||||++|++++..+   +.+++.++|++.....     .|.    . ......++..+.....++|||||
T Consensus       149 ~~vLL~GppGtGKT~la~aia~~~---~~~~~~v~~~~l~~~~-----~g~----~-~~~~~~~~~~a~~~~~~il~iDE  215 (389)
T 3vfd_A          149 RGLLLFGPPGNGKTMLAKAVAAES---NATFFNISAASLTSKY-----VGE----G-EKLVRALFAVARELQPSIIFIDQ  215 (389)
T ss_dssp             SEEEEESSTTSCHHHHHHHHHHHT---TCEEEEECSCCC----------------C-HHHHHHHHHHHHHSSSEEEEEET
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhh---cCcEEEeeHHHhhccc-----cch----H-HHHHHHHHHHHHhcCCeEEEEEC
Confidence            379999999999999999999998   7789999997755321     110    0 00113455555556668999999


Q ss_pred             cccc-----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           98 IEKA-----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        98 id~~-----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                      +|.+           ...++..|+..++.....       ...+++||+++|...                        .
T Consensus       216 id~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~-------~~~~v~vI~atn~~~------------------------~  264 (389)
T 3vfd_A          216 VDSLLCERREGEHDASRRLKTEFLIEFDGVQSA-------GDDRVLVMGATNRPQ------------------------E  264 (389)
T ss_dssp             GGGGC--------CTHHHHHHHHHHHHHHHC------------CEEEEEEESCGG------------------------G
T ss_pred             chhhcccCCCccchHHHHHHHHHHHHhhccccc-------CCCCEEEEEecCCch------------------------h
Confidence            9987           445666777777632111       013568899998742                        3


Q ss_pred             CChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHH
Q 047225          167 FRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDN  246 (287)
Q Consensus       167 ~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~  246 (287)
                      +.+++++||+..+.+++|+.++..+++...+..         ....++++.+..++....  +++.+++..++..+...+
T Consensus       265 l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~---------~~~~l~~~~~~~la~~~~--g~~~~~l~~L~~~a~~~~  333 (389)
T 3vfd_A          265 LDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCK---------QGSPLTQKELAQLARMTD--GYSGSDLTALAKDAALGP  333 (389)
T ss_dssp             CCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTT---------SCCCSCHHHHHHHHHHTT--TCCHHHHHHHHHHHTTHH
T ss_pred             cCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHh---------cCCCCCHHHHHHHHHHcC--CCCHHHHHHHHHHHHHHH
Confidence            578999999888999999999999999766543         135688899999988643  445567777776655544


Q ss_pred             H
Q 047225          247 L  247 (287)
Q Consensus       247 ~  247 (287)
                      +
T Consensus       334 ~  334 (389)
T 3vfd_A          334 I  334 (389)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.72  E-value=2.9e-16  Score=138.76  Aligned_cols=175  Identities=16%  Similarity=0.224  Sum_probs=124.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||++|+++++.+   +.+++.+++++.....     .|    . .......++........++|||||+
T Consensus       119 ~vLl~GppGtGKT~la~aia~~~---~~~~~~i~~~~l~~~~-----~g----~-~~~~~~~~~~~a~~~~~~vl~iDEi  185 (357)
T 3d8b_A          119 GILLFGPPGTGKTLIGKCIASQS---GATFFSISASSLTSKW-----VG----E-GEKMVRALFAVARCQQPAVIFIDEI  185 (357)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHT---TCEEEEEEGGGGCCSS-----TT----H-HHHHHHHHHHHHHHTCSEEEEEETH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHc---CCeEEEEehHHhhccc-----cc----h-HHHHHHHHHHHHHhcCCeEEEEeCc
Confidence            69999999999999999999998   6788899987654321     00    0 0001123455555566689999999


Q ss_pred             cccc-----------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKAH-----------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~~-----------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |.+.           ..++..|+..++.....       ...+++||+++|...                        .+
T Consensus       186 d~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~-------~~~~v~vI~atn~~~------------------------~l  234 (357)
T 3d8b_A          186 DSLLSQRGDGEHESSRRIKTEFLVQLDGATTS-------SEDRILVVGATNRPQ------------------------EI  234 (357)
T ss_dssp             HHHTBC------CHHHHHHHHHHHHHHC-----------CCCCEEEEEEESCGG------------------------GB
T ss_pred             hhhhccCCCCcchHHHHHHHHHHHHHhccccc-------CCCCEEEEEecCChh------------------------hC
Confidence            8762           24566677666642111       113568888998753                        34


Q ss_pred             ChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHH
Q 047225          168 RPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNL  247 (287)
Q Consensus       168 ~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~  247 (287)
                      .+++++||+..+.+++|+.++..+++...+...         ...++++.++.++..+  .+++.++++.+++.+...++
T Consensus       235 ~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~---------~~~l~~~~l~~la~~t--~G~s~~dl~~l~~~a~~~~i  303 (357)
T 3d8b_A          235 DEAARRRLVKRLYIPLPEASARKQIVINLMSKE---------QCCLSEEEIEQIVQQS--DAFSGADMTQLCREASLGPI  303 (357)
T ss_dssp             CHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTS---------CBCCCHHHHHHHHHHT--TTCCHHHHHHHHHHHHTHHH
T ss_pred             CHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhc---------CCCccHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHHH
Confidence            689999998889999999999999997766431         3467899999998864  35567899988887776555


Q ss_pred             H
Q 047225          248 A  248 (287)
Q Consensus       248 ~  248 (287)
                      .
T Consensus       304 r  304 (357)
T 3d8b_A          304 R  304 (357)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=99.71  E-value=4.2e-17  Score=142.21  Aligned_cols=186  Identities=13%  Similarity=0.197  Sum_probs=124.9

Q ss_pred             hhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHH
Q 047225            5 RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEA   84 (287)
Q Consensus         5 ~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (287)
                      .++..+..+++..++++|+||||||||++++++++.+...+.+++++++.++.... ...+..        .....+...
T Consensus        25 ~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~~~~~~-~~~~~~--------~~~~~~~~~   95 (324)
T 1l8q_A           25 VVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAM-VEHLKK--------GTINEFRNM   95 (324)
T ss_dssp             HHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHH-HHHHHH--------TCHHHHHHH
T ss_pred             HHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHH-HHHHHc--------CcHHHHHHH
Confidence            34444445543334699999999999999999999886556788899887654321 000000        001233334


Q ss_pred             HHhCCcEEEEEcCcccccH--HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           85 VRHRPHSVILFDEIEKAHR--DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        85 ~~~~~~~il~iDeid~~~~--~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      +..  ..+|||||++.+..  ..+..++.+++...          ..+..+|++++..+..+                  
T Consensus        96 ~~~--~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~----------~~~~~iii~~~~~~~~l------------------  145 (324)
T 1l8q_A           96 YKS--VDLLLLDDVQFLSGKERTQIEFFHIFNTLY----------LLEKQIILASDRHPQKL------------------  145 (324)
T ss_dssp             HHT--CSEEEEECGGGGTTCHHHHHHHHHHHHHHH----------HTTCEEEEEESSCGGGC------------------
T ss_pred             hcC--CCEEEEcCcccccCChHHHHHHHHHHHHHH----------HCCCeEEEEecCChHHH------------------
Confidence            433  35999999999875  66777777765311          01224566665443321                  


Q ss_pred             HHhcCChhHHhccC--ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          163 LRRRFRPEFLNRID--EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       163 ~~~~~~~~l~~r~~--~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                        ..+.++|.+||.  ..+.++| +.++..+++...+...         .+.++++++++++...    .++|.+..+++
T Consensus       146 --~~l~~~L~sR~~~~~~i~l~~-~~~e~~~il~~~~~~~---------~~~l~~~~l~~l~~~~----g~~r~l~~~l~  209 (324)
T 1l8q_A          146 --DGVSDRLVSRFEGGILVEIEL-DNKTRFKIIKEKLKEF---------NLELRKEVIDYLLENT----KNVREIEGKIK  209 (324)
T ss_dssp             --TTSCHHHHHHHHTSEEEECCC-CHHHHHHHHHHHHHHT---------TCCCCHHHHHHHHHHC----SSHHHHHHHHH
T ss_pred             --HHhhhHhhhcccCceEEEeCC-CHHHHHHHHHHHHHhc---------CCCCCHHHHHHHHHhC----CCHHHHHHHHH
Confidence              135789999996  5699999 9999999997776431         3578999999999875    46789888888


Q ss_pred             HHHHH
Q 047225          241 RLLED  245 (287)
Q Consensus       241 ~~~~~  245 (287)
                      +++..
T Consensus       210 ~~~~~  214 (324)
T 1l8q_A          210 LIKLK  214 (324)
T ss_dssp             HHHHH
T ss_pred             HHHHc
Confidence            77654

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=99.70  E-value=2.4e-16  Score=137.37  Aligned_cols=162  Identities=21%  Similarity=0.305  Sum_probs=119.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh----CCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH----RPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~il~   94 (287)
                      .+++.||||||||++++++++.+   +.+++.++++.... ..+.               ..+.+....    +.+.+++
T Consensus        50 ~~L~~G~~G~GKT~la~~la~~l---~~~~~~i~~~~~~~-~~i~---------------~~~~~~~~~~~~~~~~~vli  110 (324)
T 3u61_B           50 IILHSPSPGTGKTTVAKALCHDV---NADMMFVNGSDCKI-DFVR---------------GPLTNFASAASFDGRQKVIV  110 (324)
T ss_dssp             EEEECSSTTSSHHHHHHHHHHHT---TEEEEEEETTTCCH-HHHH---------------THHHHHHHBCCCSSCEEEEE
T ss_pred             EEEeeCcCCCCHHHHHHHHHHHh---CCCEEEEcccccCH-HHHH---------------HHHHHHHhhcccCCCCeEEE
Confidence            58888999999999999999998   67788888765331 1111               112222222    2468999


Q ss_pred             EcCccccc-HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHh
Q 047225           95 FDEIEKAH-RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLN  173 (287)
Q Consensus        95 iDeid~~~-~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  173 (287)
                      |||+|.+. .+.++.|+++++...           .++.+|+++|...                        .+.+++.+
T Consensus       111 iDEi~~l~~~~~~~~L~~~le~~~-----------~~~~iI~~~n~~~------------------------~l~~~l~s  155 (324)
T 3u61_B          111 IDEFDRSGLAESQRHLRSFMEAYS-----------SNCSIIITANNID------------------------GIIKPLQS  155 (324)
T ss_dssp             EESCCCGGGHHHHHHHHHHHHHHG-----------GGCEEEEEESSGG------------------------GSCTTHHH
T ss_pred             EECCcccCcHHHHHHHHHHHHhCC-----------CCcEEEEEeCCcc------------------------ccCHHHHh
Confidence            99999999 999999999998631           3567899998753                        35689999


Q ss_pred             ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeCh-hHHHHHHHhccCCCCCchhHHHHHH
Q 047225          174 RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTH-TFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       174 r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~-~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      || ..+.|++|+.+++.+++...+......+...+  +.+++ ++++.++..+.   .++|.+...++
T Consensus       156 R~-~~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~--~~~~~~~~~~~l~~~~~---gd~R~a~~~L~  217 (324)
T 3u61_B          156 RC-RVITFGQPTDEDKIEMMKQMIRRLTEICKHEG--IAIADMKVVAALVKKNF---PDFRKTIGELD  217 (324)
T ss_dssp             HS-EEEECCCCCHHHHHHHHHHHHHHHHHHHHHHT--CCBSCHHHHHHHHHHTC---SCTTHHHHHHH
T ss_pred             hC-cEEEeCCCCHHHHHHHHHHHHHHHHHHHHHcC--CCCCcHHHHHHHHHhCC---CCHHHHHHHHH
Confidence            99 78999999999999988888777666555443  57888 99999998732   34455444444

>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=99.70  E-value=1.6e-16  Score=134.02  Aligned_cols=174  Identities=24%  Similarity=0.354  Sum_probs=109.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||++++++++.+   +.+++.++++++.....         + .+......++..+.....++|||||+
T Consensus        41 ~vll~G~~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~~---------~-~~~~~~~~~~~~a~~~~~~vl~iDei  107 (262)
T 2qz4_A           41 GALLLGPPGCGKTLLAKAVATEA---QVPFLAMAGAEFVEVIG---------G-LGAARVRSLFKEARARAPCIVYIDEI  107 (262)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHH---TCCEEEEETTTTSSSST---------T-HHHHHHHHHHHHHHHTCSEEEEEECC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh---CCCEEEechHHHHhhcc---------C-hhHHHHHHHHHHHHhcCCeEEEEeCc
Confidence            69999999999999999999998   67888888876543210         0 00011123444455555689999999


Q ss_pred             cccc------------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           99 EKAH------------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        99 d~~~------------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                      |.+.            ...+..+..+++.-...   +   ...++++|+++|...                        .
T Consensus       108 d~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~---~---~~~~~~vi~~tn~~~------------------------~  157 (262)
T 2qz4_A          108 DAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGM---G---TTDHVIVLASTNRAD------------------------I  157 (262)
T ss_dssp             -------------------CHHHHHHHHHHHTC---C---TTCCEEEEEEESCGG------------------------G
T ss_pred             chhhccccccccCccchhHHHHHHHHHHHhhCc---C---CCCCEEEEecCCChh------------------------h
Confidence            9882            33334444444321000   0   113568888898753                        2


Q ss_pred             CChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhH-HHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          167 FRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTF-KKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       167 ~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~-~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                      +++++++  ||+..+.+++|+.++..++++.++...         .+..+.+. ...++...  .+++.++++..++++.
T Consensus       158 ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~---------~~~~~~~~~~~~l~~~~--~g~~~~~l~~l~~~a~  226 (262)
T 2qz4_A          158 LDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSL---------KLTQSSTFYSQRLAELT--PGFSGADIANICNEAA  226 (262)
T ss_dssp             GGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHT---------TCCBTHHHHHHHHHHTC--TTCCHHHHHHHHHHHH
T ss_pred             cCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhC---------CCCcchhhHHHHHHHHC--CCCCHHHHHHHHHHHH
Confidence            3567877  999999999999999999998877542         22344443 35565543  3456678888887665


Q ss_pred             HHH
Q 047225          244 EDN  246 (287)
Q Consensus       244 ~~~  246 (287)
                      ..+
T Consensus       227 ~~a  229 (262)
T 2qz4_A          227 LHA  229 (262)
T ss_dssp             TC-
T ss_pred             HHH
Confidence            544

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.70  E-value=2.9e-16  Score=134.28  Aligned_cols=173  Identities=25%  Similarity=0.323  Sum_probs=116.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||++++++++.+   +.+++.+++++......         +.. ......++..+.....++|||||+
T Consensus        53 ~~ll~G~~GtGKT~la~~la~~~---~~~~~~v~~~~~~~~~~---------~~~-~~~~~~~~~~~~~~~~~vl~iDEi  119 (285)
T 3h4m_A           53 GILLYGPPGTGKTLLAKAVATET---NATFIRVVGSELVKKFI---------GEG-ASLVKDIFKLAKEKAPSIIFIDEI  119 (285)
T ss_dssp             EEEEESSSSSSHHHHHHHHHHHT---TCEEEEEEGGGGCCCST---------THH-HHHHHHHHHHHHHTCSEEEEEETT
T ss_pred             eEEEECCCCCcHHHHHHHHHHHh---CCCEEEEehHHHHHhcc---------chH-HHHHHHHHHHHHHcCCeEEEEECH
Confidence            69999999999999999999998   67888888866543210         000 001123455555566689999999


Q ss_pred             ccc-----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKA-----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~-----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |.+           +...+..+..+++......      ...++++|+|+|...                        .+
T Consensus       120 d~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~------~~~~~~vI~ttn~~~------------------------~l  169 (285)
T 3h4m_A          120 DAIAAKRTDALTGGDREVQRTLMQLLAEMDGFD------ARGDVKIIGATNRPD------------------------IL  169 (285)
T ss_dssp             HHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTC------SSSSEEEEEECSCGG------------------------GB
T ss_pred             HHhcccCccccCCccHHHHHHHHHHHHHhhCCC------CCCCEEEEEeCCCch------------------------hc
Confidence            987           5566777777765421000      013568899998752                        35


Q ss_pred             ChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          168 RPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       168 ~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ++++++  ||+..+.+++|+.++..+|++..+...       +  +. .+..+..++...  .+++.++++.+++.+...
T Consensus       170 ~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~-------~--~~-~~~~~~~l~~~~--~g~~~~~i~~l~~~a~~~  237 (285)
T 3h4m_A          170 DPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKM-------N--LA-EDVNLEEIAKMT--EGCVGAELKAICTEAGMN  237 (285)
T ss_dssp             CHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTS-------C--BC-TTCCHHHHHHHC--TTCCHHHHHHHHHHHHHH
T ss_pred             CHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcC-------C--CC-CcCCHHHHHHHc--CCCCHHHHHHHHHHHHHH
Confidence            678887  998899999999999999997664321       1  11 223356666543  344668888887776654


Q ss_pred             H
Q 047225          246 N  246 (287)
Q Consensus       246 ~  246 (287)
                      +
T Consensus       238 a  238 (285)
T 3h4m_A          238 A  238 (285)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.70  E-value=6.4e-16  Score=132.96  Aligned_cols=175  Identities=19%  Similarity=0.239  Sum_probs=120.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||++++++++.+   +.+++.+++++.....         .+. +......++........++|||||+
T Consensus        56 ~vll~Gp~GtGKT~la~~la~~~---~~~~~~i~~~~l~~~~---------~~~-~~~~~~~~~~~~~~~~~~vl~iDEi  122 (297)
T 3b9p_A           56 GLLLFGPPGNGKTLLARAVATEC---SATFLNISAASLTSKY---------VGD-GEKLVRALFAVARHMQPSIIFIDEV  122 (297)
T ss_dssp             EEEEESSSSSCHHHHHHHHHHHT---TCEEEEEESTTTSSSS---------CSC-HHHHHHHHHHHHHHTCSEEEEEETG
T ss_pred             eEEEECcCCCCHHHHHHHHHHHh---CCCeEEeeHHHHhhcc---------cch-HHHHHHHHHHHHHHcCCcEEEeccH
Confidence            69999999999999999999998   6778888886644221         010 0011223455555566689999999


Q ss_pred             cccc-----------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKAH-----------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~~-----------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |.+.           ...+..|+..++......      ....+++|+++|.+.                        .+
T Consensus       123 d~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~------~~~~v~vi~~tn~~~------------------------~l  172 (297)
T 3b9p_A          123 DSLLSERSSSEHEASRRLKTEFLVEFDGLPGNP------DGDRIVVLAATNRPQ------------------------EL  172 (297)
T ss_dssp             GGTSBCC-----CCSHHHHHHHHHHHHHCC------------CEEEEEEESCGG------------------------GB
T ss_pred             HHhccccccCcchHHHHHHHHHHHHHhcccccC------CCCcEEEEeecCChh------------------------hC
Confidence            9762           345566666666421110      012467888888753                        35


Q ss_pred             ChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHH
Q 047225          168 RPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNL  247 (287)
Q Consensus       168 ~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~  247 (287)
                      .+++++||+..+.+++|+.++...++...+...         ...++++.++.++..+  .+++.++++..++.+...++
T Consensus       173 ~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~---------~~~~~~~~~~~la~~~--~g~~~~~l~~l~~~a~~~a~  241 (297)
T 3b9p_A          173 DEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQ---------GSPLDTEALRRLAKIT--DGYSGSDLTALAKDAALEPI  241 (297)
T ss_dssp             CHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGG---------SCCSCHHHHHHHHHHT--TTCCHHHHHHHHHHHTTHHH
T ss_pred             CHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhc---------CCCCCHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHHH
Confidence            688999999899999999999999887665431         2357888999998864  35566788888877666544

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.70  E-value=2.6e-16  Score=137.59  Aligned_cols=172  Identities=20%  Similarity=0.252  Sum_probs=116.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCC-----CCCCcccchhhHHHHHHhCCcEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSP-----PGYVGFENGGQLTEAVRHRPHSVI   93 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~il   93 (287)
                      +++|+||||||||++++++++.+   +.++..+++......   .+++|..     .+...+. .+.+       ..+++
T Consensus        48 ~vll~G~pGtGKT~la~~la~~~---~~~~~~i~~~~~~~~---~~l~g~~~~~~~~~~~~~~-~g~l-------~~~vl  113 (331)
T 2r44_A           48 HILLEGVPGLAKTLSVNTLAKTM---DLDFHRIQFTPDLLP---SDLIGTMIYNQHKGNFEVK-KGPV-------FSNFI  113 (331)
T ss_dssp             CEEEESCCCHHHHHHHHHHHHHT---TCCEEEEECCTTCCH---HHHHEEEEEETTTTEEEEE-ECTT-------CSSEE
T ss_pred             eEEEECCCCCcHHHHHHHHHHHh---CCCeEEEecCCCCCh---hhcCCceeecCCCCceEec-cCcc-------cccEE
Confidence            69999999999999999999998   556777777432211   1112110     0000000 0111       12599


Q ss_pred             EEcCcccccHHHHHHHHHhhcCceeecCCCceeecc-ceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHH
Q 047225           94 LFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLK-NTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFL  172 (287)
Q Consensus        94 ~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  172 (287)
                      ||||+|++++..++.|++.++++.+.. .|.....+ ++++|+|+|+.....                   ...++++|+
T Consensus       114 ~iDEi~~~~~~~~~~Ll~~l~~~~~~~-~g~~~~~~~~~~viat~np~~~~~-------------------~~~l~~~l~  173 (331)
T 2r44_A          114 LADEVNRSPAKVQSALLECMQEKQVTI-GDTTYPLDNPFLVLATQNPVEQEG-------------------TYPLPEAQV  173 (331)
T ss_dssp             EEETGGGSCHHHHHHHHHHHHHSEEEE-TTEEEECCSSCEEEEEECTTCCSC-------------------CCCCCHHHH
T ss_pred             EEEccccCCHHHHHHHHHHHhcCceee-CCEEEECCCCEEEEEecCCCcccC-------------------cccCCHHHH
Confidence            999999999999999999999988776 45555554 578888888653110                   013689999


Q ss_pred             hccCceEEeCCCCHHHHHHHHHHHHHHH-------------HHHHHhcCcEEEeChhHHHHHHHh
Q 047225          173 NRIDEVIVFRQLNKMQLMEIVDIMLKEI-------------YERLEAKNMELTVTHTFKKKLIEE  224 (287)
Q Consensus       173 ~r~~~~i~~~~~~~~~~~~il~~~l~~~-------------~~~~~~~~~~~~i~~~~~~~l~~~  224 (287)
                      +||+..+.+++|+.++..+|++..+...             ...+......+.++++++++++..
T Consensus       174 ~Rf~~~i~i~~p~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~v~~~~~~~~~i~~~  238 (331)
T 2r44_A          174 DRFMMKIHLTYLDKESELEVMRRVSNMNFNYQVQKIVSKNDVLEIRNEINKVTISESLEKYIIEL  238 (331)
T ss_dssp             TTSSEEEECCCCCHHHHHHHHHHHHCTTCCCCCCCCSCHHHHHHHHHHHHTCBCCHHHHHHHHHH
T ss_pred             hheeEEEEcCCCCHHHHHHHHHhccccCcchhccccCCHHHHHHHHHHhccCCCCHHHHHHHHHH
Confidence            9997789999999999999997765321             000111001467899999999764

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.69  E-value=1.6e-17  Score=127.97  Aligned_cols=119  Identities=14%  Similarity=0.099  Sum_probs=88.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||++|+++++.....+.+++ ++|+...+..                   .....+.....+++||||+
T Consensus        26 ~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~~~~~~-------------------~~~~~~~~a~~g~l~ldei   85 (145)
T 3n70_A           26 AVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELTPDNAP-------------------QLNDFIALAQGGTLVLSHP   85 (145)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECCTTTSS-------------------CHHHHHHHHTTSCEEEECG
T ss_pred             CEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCCCCcch-------------------hhhcHHHHcCCcEEEEcCh
Confidence            6999999999999999999998766677888 9997655431                   1222222224469999999


Q ss_pred             ccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCce
Q 047225           99 EKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEV  178 (287)
Q Consensus        99 d~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~  178 (287)
                      |.++++.+..|+++++...           .++.+|++||.+.....                 -...|.++|..|+...
T Consensus        86 ~~l~~~~q~~Ll~~l~~~~-----------~~~~~I~~t~~~~~~~~-----------------~~~~~~~~L~~rl~~~  137 (145)
T 3n70_A           86 EHLTREQQYHLVQLQSQEH-----------RPFRLIGIGDTSLVELA-----------------ASNHIIAELYYCFAMT  137 (145)
T ss_dssp             GGSCHHHHHHHHHHHHSSS-----------CSSCEEEEESSCHHHHH-----------------HHSCCCHHHHHHHHHH
T ss_pred             HHCCHHHHHHHHHHHhhcC-----------CCEEEEEECCcCHHHHH-----------------HcCCCCHHHHHHhcCC
Confidence            9999999999999995421           24579999998644221                 1346889999998644


Q ss_pred             -EEeCCCC
Q 047225          179 -IVFRQLN  185 (287)
Q Consensus       179 -i~~~~~~  185 (287)
                       |.+||+.
T Consensus       138 ~i~lPpLR  145 (145)
T 3n70_A          138 QIACLPLT  145 (145)
T ss_dssp             EEECCCCC
T ss_pred             EEeCCCCC
Confidence             8999874

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.68  E-value=4.4e-16  Score=142.44  Aligned_cols=201  Identities=16%  Similarity=0.222  Sum_probs=125.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhC--CcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHR--PHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~il~iD   96 (287)
                      +++|+||||||||++|+++++.+.. ..++...++.- .   +...++|...+.... ..+.+..+....  ..+|+|||
T Consensus        43 ~VLL~GpPGtGKT~LAraLa~~l~~-~~~f~~~~~~~-~---t~~dL~G~~~~~~~~-~~g~~~~~~~g~l~~~~IL~ID  116 (500)
T 3nbx_X           43 SVFLLGPPGIAKSLIARRLKFAFQN-ARAFEYLMTRF-S---TPEEVFGPLSIQALK-DEGRYERLTSGYLPEAEIVFLD  116 (500)
T ss_dssp             EEEEECCSSSSHHHHHHHGGGGBSS-CCEEEEECCTT-C---CHHHHHCCBC-----------CBCCTTSGGGCSEEEEE
T ss_pred             eeEeecCchHHHHHHHHHHHHHHhh-hhHHHHHHHhc-C---CHHHhcCcccHHHHh-hchhHHhhhccCCCcceeeeHH
Confidence            7999999999999999999998832 34555555542 1   123455532111100 000110000000  13599999


Q ss_pred             CcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC
Q 047225           97 EIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID  176 (287)
Q Consensus        97 eid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~  176 (287)
                      |++++++..++.|+++++++.+.. .|.....+..++|++||+.+..                     ..+.+++++||.
T Consensus       117 EI~r~~~~~q~~LL~~lee~~v~i-~G~~~~~~~~~iI~ATN~lpe~---------------------~~~~~aLldRF~  174 (500)
T 3nbx_X          117 EIWKAGPAILNTLLTAINERQFRN-GAHVEKIPMRLLVAASNELPEA---------------------DSSLEALYDRML  174 (500)
T ss_dssp             SGGGCCHHHHHHHHHHHHSSEEEC-SSSEEECCCCEEEEEESSCCCT---------------------TCTTHHHHTTCC
T ss_pred             hHhhhcHHHHHHHHHHHHHHhccC-CCCcCCcchhhhhhccccCCCc---------------------cccHHHHHHHHH
Confidence            999999999999999999998876 5666666665678888864331                     134579999998


Q ss_pred             ceEEeCCCCH-HHHHHHHHHHH------------------HHHHHHHHhcCcEEEeChhHHHHHHHhcc-------CCCC
Q 047225          177 EVIVFRQLNK-MQLMEIVDIML------------------KEIYERLEAKNMELTVTHTFKKKLIEEGY-------NPSY  230 (287)
Q Consensus       177 ~~i~~~~~~~-~~~~~il~~~l------------------~~~~~~~~~~~~~~~i~~~~~~~l~~~~~-------~~~~  230 (287)
                      ..+.+++|+. ++...|+....                  ......+.    .+.++++++++++....       ..+.
T Consensus       175 ~~i~v~~p~~~ee~~~IL~~~~~~~~~~~~~~~~~~~e~l~~~~~~~~----~v~v~d~v~e~i~~l~~~lr~~r~~~~i  250 (500)
T 3nbx_X          175 IRLWLDKVQDKANFRSMLTSQQDENDNPVPDALQVTDEEYERWQKEIG----EITLPDHVFELIFMLRQQLDKLPDAPYV  250 (500)
T ss_dssp             EEEECCSCCCHHHHHHHHTCCCCTTSCCSCTTTSBCHHHHHHHHHHHT----TCBCCHHHHHHHHHHHHHHHHCSSSCCC
T ss_pred             HHHHHHHhhhhhhHHHHHhcccccCCCCCCccceecHHHHHHHHhcCC----cccCchHHHHHHHHHHHHhhcCCCCCcc
Confidence            8899999996 66777775432                  12222221    46799999999986531       2344


Q ss_pred             CchhHHHHHHHHHHHHHHHHHHhcc
Q 047225          231 GARPLRRAIGRLLEDNLAEIILTGY  255 (287)
Q Consensus       231 ~~r~l~~~i~~~~~~~~~~~~~~~~  255 (287)
                      +.|.+..++    ..+.+.+.+.+.
T Consensus       251 S~R~~~~ll----r~A~A~A~l~gr  271 (500)
T 3nbx_X          251 SDRRWKKAI----RLLQASAFFSGR  271 (500)
T ss_dssp             CHHHHHHHH----HHHHHHHHHTTC
T ss_pred             chhHHHHHH----HHHHHHHhhcCC
Confidence            555554444    334445555543

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.67  E-value=2e-15  Score=123.52  Aligned_cols=162  Identities=22%  Similarity=0.296  Sum_probs=112.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC--CCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHH-----hCCcE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS--KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVR-----HRPHS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~   91 (287)
                      +++|+||+|||||++++.+++.+...  ...++.++++.........               ..+.....     .....
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~  104 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVR---------------HKIKEFARTAPIGGAPFK  104 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHH---------------HHHHHHHTSCCSTTCSCE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHH---------------HHHHHHhcccCCCccCce
Confidence            49999999999999999999986322  2345566654432211111               11112221     24568


Q ss_pred             EEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhH
Q 047225           92 VILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEF  171 (287)
Q Consensus        92 il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  171 (287)
                      +|+|||++.++...++.|+++++..           ..+..+|+++|...                        .+.+++
T Consensus       105 vliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i~~~~~~~------------------------~~~~~l  149 (226)
T 2chg_A          105 IIFLDEADALTADAQAALRRTMEMY-----------SKSCRFILSCNYVS------------------------RIIEPI  149 (226)
T ss_dssp             EEEEETGGGSCHHHHHHHHHHHHHT-----------TTTEEEEEEESCGG------------------------GSCHHH
T ss_pred             EEEEeChhhcCHHHHHHHHHHHHhc-----------CCCCeEEEEeCChh------------------------hcCHHH
Confidence            9999999999999999999998852           13457888887642                        346789


Q ss_pred             HhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          172 LNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       172 ~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                      .+|+ ..+.++|++.+++.+++...+...         ...+++++++.++..+   ..++|.+.+.++++.
T Consensus       150 ~~r~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~~~~~~~~~l~~~~---~g~~r~l~~~l~~~~  208 (226)
T 2chg_A          150 QSRC-AVFRFKPVPKEAMKKRLLEICEKE---------GVKITEDGLEALIYIS---GGDFRKAINALQGAA  208 (226)
T ss_dssp             HTTS-EEEECCCCCHHHHHHHHHHHHHHH---------TCCBCHHHHHHHHHHH---TTCHHHHHHHHHHHH
T ss_pred             HHhC-ceeecCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHc---CCCHHHHHHHHHHHH
Confidence            9999 599999999999999987765432         2458899999998753   235566666666443

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=99.67  E-value=4.3e-16  Score=129.44  Aligned_cols=167  Identities=13%  Similarity=0.166  Sum_probs=116.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||++++.+++.+...+..+.++++.+.....  .                .....+.  ...+++|||+
T Consensus        54 ~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~~~--~----------------~~~~~~~--~~~vliiDe~  113 (242)
T 3bos_A           54 AIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGIHASIS--T----------------ALLEGLE--QFDLICIDDV  113 (242)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGGGGSC--G----------------GGGTTGG--GSSEEEEETG
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHH--H----------------HHHHhcc--CCCEEEEecc
Confidence            699999999999999999999986656778888887654321  0                1111112  2359999999


Q ss_pred             ccccHHH--HHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC
Q 047225           99 EKAHRDV--LNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID  176 (287)
Q Consensus        99 d~~~~~~--~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~  176 (287)
                      +.++...  +..|+.+++....         .....+|++++.......                    .+.+++.+|+.
T Consensus       114 ~~~~~~~~~~~~l~~~l~~~~~---------~~~~~ii~~~~~~~~~~~--------------------~~~~~l~~r~~  164 (242)
T 3bos_A          114 DAVAGHPLWEEAIFDLYNRVAE---------QKRGSLIVSASASPMEAG--------------------FVLPDLVSRMH  164 (242)
T ss_dssp             GGGTTCHHHHHHHHHHHHHHHH---------HCSCEEEEEESSCTTTTT--------------------CCCHHHHHHHH
T ss_pred             ccccCCHHHHHHHHHHHHHHHH---------cCCCeEEEEcCCCHHHHH--------------------HhhhhhhhHhh
Confidence            9986644  7777777664210         012236777765443220                    22378889985


Q ss_pred             --ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHH
Q 047225          177 --EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDN  246 (287)
Q Consensus       177 --~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~  246 (287)
                        ..+.++||+.+++.+++...+...         .+.++++++++++...   ..++|.+.+.+++++..+
T Consensus       165 ~~~~i~l~~~~~~~~~~~l~~~~~~~---------~~~~~~~~~~~l~~~~---~g~~r~l~~~l~~~~~~a  224 (242)
T 3bos_A          165 WGLTYQLQPMMDDEKLAALQRRAAMR---------GLQLPEDVGRFLLNRM---ARDLRTLFDVLDRLDKAS  224 (242)
T ss_dssp             HSEEEECCCCCGGGHHHHHHHHHHHT---------TCCCCHHHHHHHHHHT---TTCHHHHHHHHHHHHHHH
T ss_pred             cCceEEeCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHc---cCCHHHHHHHHHHHHHHH
Confidence              789999999999999997776431         2468999999999863   346788888888776644

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=99.66  E-value=2.8e-16  Score=142.39  Aligned_cols=188  Identities=16%  Similarity=0.226  Sum_probs=124.9

Q ss_pred             hhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCC--CCceEEecccccccccchhhhhCCCCCCCcccchhhHHH
Q 047225            6 ARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGS--KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTE   83 (287)
Q Consensus         6 ~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (287)
                      ++..+..|+. .++++|+||||||||++++++++.+...  +.+++++++..+...  ....+..       .....+..
T Consensus       120 ~~~~a~~~~~-~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~~~~--~~~~~~~-------~~~~~~~~  189 (440)
T 2z4s_A          120 ALEVAKHPGR-YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLND--LVDSMKE-------GKLNEFRE  189 (440)
T ss_dssp             HHHHHHSTTS-SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHHHHH--HHHHHHT-------TCHHHHHH
T ss_pred             HHHHHhCCCC-CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHH--HHHHHHc-------ccHHHHHH
Confidence            3444444544 3479999999999999999999988332  567788888765321  1111100       00112333


Q ss_pred             HHHhCCcEEEEEcCcccccH--HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHH
Q 047225           84 AVRHRPHSVILFDEIEKAHR--DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAE  161 (287)
Q Consensus        84 ~~~~~~~~il~iDeid~~~~--~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~  161 (287)
                      .+. ....+|||||++.+..  ..+..|+.+++...   .       .+..+|++++..+..+                 
T Consensus       190 ~~~-~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~---~-------~~~~iIitt~~~~~~l-----------------  241 (440)
T 2z4s_A          190 KYR-KKVDILLIDDVQFLIGKTGVQTELFHTFNELH---D-------SGKQIVICSDREPQKL-----------------  241 (440)
T ss_dssp             HHT-TTCSEEEEECGGGGSSCHHHHHHHHHHHHHHH---T-------TTCEEEEEESSCGGGC-----------------
T ss_pred             Hhc-CCCCEEEEeCcccccCChHHHHHHHHHHHHHH---H-------CCCeEEEEECCCHHHH-----------------
Confidence            333 1346999999998875  67777777765311   0       1234666666544322                 


Q ss_pred             HHHhcCChhHHhccC--ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHH
Q 047225          162 ELRRRFRPEFLNRID--EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       162 ~~~~~~~~~l~~r~~--~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                         ..+.+++.+||.  ..+.++||+.+++.+++...+...         .+.++++++++|+...   ..++|.+..++
T Consensus       242 ---~~l~~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~---------~~~i~~e~l~~la~~~---~gn~R~l~~~L  306 (440)
T 2z4s_A          242 ---SEFQDRLVSRFQMGLVAKLEPPDEETRKSIARKMLEIE---------HGELPEEVLNFVAENV---DDNLRRLRGAI  306 (440)
T ss_dssp             ---SSCCHHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHH---------TCCCCTTHHHHHHHHC---CSCHHHHHHHH
T ss_pred             ---HHHHHHHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHhc---CCCHHHHHHHH
Confidence               125688999995  679999999999999997776531         3568999999999764   35779999998


Q ss_pred             HHHHHHH
Q 047225          240 GRLLEDN  246 (287)
Q Consensus       240 ~~~~~~~  246 (287)
                      ++++..+
T Consensus       307 ~~~~~~a  313 (440)
T 2z4s_A          307 IKLLVYK  313 (440)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8877654

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=99.66  E-value=6.2e-16  Score=141.49  Aligned_cols=172  Identities=22%  Similarity=0.291  Sum_probs=120.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||++|+++++.+   +.+++.++|++.....     +|.    . ......++........++|||||+
T Consensus       240 ~vLL~GppGtGKT~lAraia~~~---~~~fv~vn~~~l~~~~-----~g~----~-~~~~~~~f~~A~~~~p~iLfLDEI  306 (489)
T 3hu3_A          240 GILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL-----AGE----S-ESNLRKAFEEAEKNAPAIIFIDEL  306 (489)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC---SSEEEEEEHHHHHTSC-----TTH----H-HHHHHHHHHHHHHTCSEEEEEESH
T ss_pred             cEEEECcCCCCHHHHHHHHHHHh---CCCEEEEEchHhhhhh-----cch----h-HHHHHHHHHHHHhcCCcEEEecch
Confidence            69999999999999999999998   7889999997765321     110    0 000123444555555689999999


Q ss_pred             ccc-----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKA-----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~-----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |.+           +..++..|+++++...         ...++++|++||.+.                        .+
T Consensus       307 d~l~~~~~~~~~~~~~~~~~~LL~~ld~~~---------~~~~v~vIaaTn~~~------------------------~L  353 (489)
T 3hu3_A          307 DAIAPKREKTHGEVERRIVSQLLTLMDGLK---------QRAHVIVMAATNRPN------------------------SI  353 (489)
T ss_dssp             HHHCBCTTSCCCHHHHHHHHHHHHHHHHSC---------TTSCEEEEEEESCGG------------------------GB
T ss_pred             hhhccccccccchHHHHHHHHHHHHhhccc---------cCCceEEEEecCCcc------------------------cc
Confidence            754           3468888999988421         113678999999753                        34


Q ss_pred             ChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          168 RPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       168 ~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ++++.+  ||+..+.+++|+.++..+|++..+...         .+. .+..+..++..  ..+++.+++...+.++...
T Consensus       354 d~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~---------~l~-~~~~l~~la~~--t~g~s~~dL~~L~~~A~~~  421 (489)
T 3hu3_A          354 DPALRRFGRFDREVDIGIPDATGRLEILQIHTKNM---------KLA-DDVDLEQVANE--THGHVGADLAALCSEAALQ  421 (489)
T ss_dssp             CGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTS---------CBC-TTCCHHHHHHT--CTTCCHHHHHHHHHHHHHH
T ss_pred             CHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcC---------CCc-chhhHHHHHHH--ccCCcHHHHHHHHHHHHHH
Confidence            678887  898899999999999999996654321         111 22345666664  3456678888888877776


Q ss_pred             HHH
Q 047225          246 NLA  248 (287)
Q Consensus       246 ~~~  248 (287)
                      ++.
T Consensus       422 a~r  424 (489)
T 3hu3_A          422 AIR  424 (489)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>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=99.66  E-value=8.9e-16  Score=146.82  Aligned_cols=175  Identities=22%  Similarity=0.290  Sum_probs=124.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||++|+++|+.+   +.+++.+++++.....         .+. +......+++.+.....+||||||+
T Consensus       240 GILL~GPPGTGKT~LAraiA~el---g~~~~~v~~~~l~sk~---------~ge-se~~lr~lF~~A~~~~PsIIfIDEi  306 (806)
T 3cf2_A          240 GILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL---------AGE-SESNLRKAFEEAEKNAPAIIFIDEL  306 (806)
T ss_dssp             EEEEECCTTSCHHHHHHHHHTTT---TCEEEEEEHHHHHSSC---------TTH-HHHHHHHHHHHHTTSCSEEEEEESG
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh---CCeEEEEEhHHhhccc---------chH-HHHHHHHHHHHHHHcCCeEEEEehh
Confidence            69999999999999999999998   7889999987655321         000 0001234566666666799999999


Q ss_pred             cccc-----------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKAH-----------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~~-----------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |.+-           ..+.+.|+..|+.-.         ...++++|++||...                        .+
T Consensus       307 Dal~~~r~~~~~~~~~riv~~LL~~mdg~~---------~~~~V~VIaaTN~~d------------------------~L  353 (806)
T 3cf2_A          307 DAIAPKREKTHGEVERRIVSQLLTLMDGLK---------QRAHVIVMAATNRPN------------------------SI  353 (806)
T ss_dssp             GGTCCTTTTCCCTTHHHHHHHHHTHHHHCC---------GGGCEEEEEECSSTT------------------------TS
T ss_pred             cccccccCCCCChHHHHHHHHHHHHHhccc---------ccCCEEEEEecCChh------------------------hc
Confidence            9652           346667777776411         013567889999763                        35


Q ss_pred             ChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          168 RPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       168 ~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      +++|++  ||+..|.++.|+..+..+|++.++..         ..+. ++--+..++..+  .+++..++...++++...
T Consensus       354 D~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~---------~~~~-~dvdl~~lA~~T--~GfsgaDL~~Lv~eA~~~  421 (806)
T 3cf2_A          354 DPALRRFGRFDREVDIGIPDATGRLEILQIHTKN---------MKLA-DDVDLEQVANET--HGHVGADLAALCSEAALQ  421 (806)
T ss_dssp             CTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSS---------SEEC-TTCCHHHHHHHC--CSCCHHHHHHHHHHHHHH
T ss_pred             CHHHhCCcccceEEecCCCCHHHHHHHHHHHhcC---------CCCC-cccCHHHHHHhc--CCCCHHHHHHHHHHHHHH
Confidence            788887  99999999999999999999655432         1221 333467777653  456778999999999888


Q ss_pred             HHHHHH
Q 047225          246 NLAEII  251 (287)
Q Consensus       246 ~~~~~~  251 (287)
                      ++.+..
T Consensus       422 A~~r~~  427 (806)
T 3cf2_A          422 AIRKKM  427 (806)
T ss_dssp             HHHHHH
T ss_pred             HHHhcc
Confidence            876654

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.66  E-value=3e-15  Score=126.14  Aligned_cols=170  Identities=24%  Similarity=0.359  Sum_probs=112.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||+++++++..+   +.+++.++++++....     .+.     +......+++.......+++||||+
T Consensus        47 ~vll~G~~GtGKT~la~~la~~~---~~~~~~i~~~~~~~~~-----~~~-----~~~~~~~~~~~a~~~~~~il~iDei  113 (257)
T 1lv7_A           47 GVLMVGPPGTGKTLLAKAIAGEA---KVPFFTISGSDFVEMF-----VGV-----GASRVRDMFEQAKKAAPCIIFIDEI  113 (257)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH---TCCEEEECSCSSTTSC-----CCC-----CHHHHHHHHHHHHTTCSEEEEETTH
T ss_pred             eEEEECcCCCCHHHHHHHHHHHc---CCCEEEEeHHHHHHHh-----hhh-----hHHHHHHHHHHHHHcCCeeehhhhh
Confidence            59999999999999999999998   5678888887654321     110     0011123444555555689999999


Q ss_pred             ccccH--------------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           99 EKAHR--------------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        99 d~~~~--------------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      |.+..              ..+..++..++.-.         ...+.++|+++|...                       
T Consensus       114 d~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~~~vI~~tn~~~-----------------------  161 (257)
T 1lv7_A          114 DAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFE---------GNEGIIVIAATNRPD-----------------------  161 (257)
T ss_dssp             HHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCC---------SSSCEEEEEEESCTT-----------------------
T ss_pred             hhhccCCCCCcCCCchHHHHHHHHHHHHhhCcc---------cCCCEEEEEeeCCch-----------------------
Confidence            86532              34455555555311         113568889998753                       


Q ss_pred             hcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhH-HHHHHHhccCCCCCchhHHHHHHH
Q 047225          165 RRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTF-KKKLIEEGYNPSYGARPLRRAIGR  241 (287)
Q Consensus       165 ~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~-~~~l~~~~~~~~~~~r~l~~~i~~  241 (287)
                       .+.+++++  ||+..+.+++|+.++..+|++.++.+.           .+.+++ ...++..  .++++.|++..++++
T Consensus       162 -~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~-----------~l~~~~~~~~la~~--~~G~~~~dl~~l~~~  227 (257)
T 1lv7_A          162 -VLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRV-----------PLAPDIDAAIIARG--TPGFSGADLANLVNE  227 (257)
T ss_dssp             -TSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTS-----------CBCTTCCHHHHHHT--CTTCCHHHHHHHHHH
T ss_pred             -hCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcC-----------CCCccccHHHHHHH--cCCCCHHHHHHHHHH
Confidence             34567776  998899999999999999886665321           233333 4444442  345688999999998


Q ss_pred             HHHHHH
Q 047225          242 LLEDNL  247 (287)
Q Consensus       242 ~~~~~~  247 (287)
                      +...+.
T Consensus       228 a~~~a~  233 (257)
T 1lv7_A          228 AALFAA  233 (257)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            876543

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.65  E-value=9.7e-16  Score=131.72  Aligned_cols=145  Identities=12%  Similarity=0.135  Sum_probs=92.0

Q ss_pred             CCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccc--hhhHHHHH----
Q 047225           12 DPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN--GGQLTEAV----   85 (287)
Q Consensus        12 ~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~----   85 (287)
                      ....|. .++|+||||||||++|+++|+.+   +.+++.++++++....            .|...  ...++...    
T Consensus        32 ~~~~p~-~lLl~GppGtGKT~la~aiA~~l---~~~~i~v~~~~l~~~~------------~g~~~~~i~~~f~~a~~~~   95 (293)
T 3t15_A           32 NIKVPL-ILGIWGGKGQGKSFQCELVFRKM---GINPIMMSAGELESGN------------AGEPAKLIRQRYREAAEII   95 (293)
T ss_dssp             TCCCCS-EEEEEECTTSCHHHHHHHHHHHH---TCCCEEEEHHHHHCC---------------HHHHHHHHHHHHHHHHH
T ss_pred             CCCCCe-EEEEECCCCCCHHHHHHHHHHHh---CCCEEEEeHHHhhhcc------------CchhHHHHHHHHHHHHHHH
Confidence            344555 59999999999999999999999   7889999987765331            11110  01222222    


Q ss_pred             HhCCcEEEEEcCcccccH-------------HHHHHHHHhhcCceeecCCC--ceeeccceEEEEeecCCchhhhhhccC
Q 047225           86 RHRPHSVILFDEIEKAHR-------------DVLNVMLQLLDDGRVTDGKG--QTVDLKNTIIIMTSNIGDSVIARESIL  150 (287)
Q Consensus        86 ~~~~~~il~iDeid~~~~-------------~~~~~L~~~l~~~~~~~~~g--~~i~~~~~~iI~t~n~~~~~~~~~~~~  150 (287)
                      +...++||||||+|++.+             .++..|+++++......-.+  ......+++||+|||...         
T Consensus        96 ~~~~~~vl~iDEiD~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~---------  166 (293)
T 3t15_A           96 RKGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFS---------  166 (293)
T ss_dssp             TTSSCCCEEEECCC--------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCC---------
T ss_pred             hcCCCeEEEEechhhhcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcc---------
Confidence            344668999999997654             35688999988543221111  222345788999999753         


Q ss_pred             CchHHHHHHHHHHHhcCChhHH--hccCceEEeCCCCHHHHHHHHHHHHH
Q 047225          151 GSDQMERGVAEELRRRFRPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLK  198 (287)
Q Consensus       151 ~~~~~~~~~~~~~~~~~~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~  198 (287)
                                     .++++|+  .||+..+.+  |+.++..+|++.++.
T Consensus       167 ---------------~ld~al~R~~R~d~~i~~--P~~~~r~~Il~~~~~  199 (293)
T 3t15_A          167 ---------------TLYAPLIRDGRMEKFYWA--PTREDRIGVCTGIFR  199 (293)
T ss_dssp             ---------------C--CHHHHHHHEEEEEEC--CCHHHHHHHHHHHHG
T ss_pred             ---------------cCCHHHhCCCCCceeEeC--cCHHHHHHHHHHhcc
Confidence                           3457777  488766764  499999999975553

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.64  E-value=1.5e-15  Score=134.99  Aligned_cols=192  Identities=15%  Similarity=0.110  Sum_probs=126.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC------CCceEEecccccccccc----hhhhhCCCCCCCcccc---hhhHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS------KEAMVRIDMSEYMEKHT----VSKFFGSPPGYVGFEN---GGQLTEAV   85 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~------~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~---~~~~~~~~   85 (287)
                      +++|+||||||||++++.+++.+...      +..+++++|....+...    +...++......+...   ...+...+
T Consensus        46 ~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l  125 (387)
T 2v1u_A           46 NALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRL  125 (387)
T ss_dssp             CEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHH
Confidence            69999999999999999999987332      56788888876544321    2222333222222221   12333344


Q ss_pred             HhC-CcEEEEEcCcccccHH--HHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           86 RHR-PHSVILFDEIEKAHRD--VLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        86 ~~~-~~~il~iDeid~~~~~--~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      ... ...+|+|||++.+...  .++.|..+++......     . ..++.+|+++|..+..                   
T Consensus       126 ~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~-----~-~~~~~~I~~t~~~~~~-------------------  180 (387)
T 2v1u_A          126 SRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELG-----D-RVWVSLVGITNSLGFV-------------------  180 (387)
T ss_dssp             TTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----------CEEEEECSCSTTS-------------------
T ss_pred             hccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcC-----C-CceEEEEEEECCCchH-------------------
Confidence            333 3569999999999776  6777777665321000     0 1355788888765311                   


Q ss_pred             HHhcCChhHHhccCc-eEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHH
Q 047225          163 LRRRFRPEFLNRIDE-VIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGR  241 (287)
Q Consensus       163 ~~~~~~~~l~~r~~~-~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~  241 (287)
                        ..+.+.+.+|+.. .+.|+|++.+++.+++...+...   +    ....+++++++.++..++....++|.+.+++..
T Consensus       181 --~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~---~----~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~  251 (387)
T 2v1u_A          181 --ENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEA---F----NPGVLDPDVVPLCAALAAREHGDARRALDLLRV  251 (387)
T ss_dssp             --SSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHH---B----CTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHH
T ss_pred             --hhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhh---c----cCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHH
Confidence              1457889999976 79999999999999998776431   1    123578999999998877655677777777776


Q ss_pred             HHH
Q 047225          242 LLE  244 (287)
Q Consensus       242 ~~~  244 (287)
                      +..
T Consensus       252 a~~  254 (387)
T 2v1u_A          252 AGE  254 (387)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.64  E-value=7.4e-16  Score=135.53  Aligned_cols=190  Identities=15%  Similarity=0.210  Sum_probs=119.7

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcC---CCCceEEecccccccccchhhhhCCCCCCCcccchh
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFG---SKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGG   79 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (287)
                      ++.++..+.....+  +++|+||||||||++++++++.+..   ....+..+++++......+...+.............
T Consensus        46 ~~~l~~~l~~~~~~--~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (353)
T 1sxj_D           46 VTVLKKTLKSANLP--HMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVSKPSK  123 (353)
T ss_dssp             HHHHHHHTTCTTCC--CEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHHSCCCCCCT
T ss_pred             HHHHHHHHhcCCCC--EEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHHHHHHHHHhhhcccccch
Confidence            44555555554322  4999999999999999999998732   234566677655322111111100000000000000


Q ss_pred             hHHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHH
Q 047225           80 QLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGV  159 (287)
Q Consensus        80 ~~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~  159 (287)
                      ..........+.+++|||+|.+++..++.|++++++..           .+..+|+++|...                  
T Consensus       124 ~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~-----------~~~~~il~~~~~~------------------  174 (353)
T 1sxj_D          124 HDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYS-----------GVTRFCLICNYVT------------------  174 (353)
T ss_dssp             THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTT-----------TTEEEEEEESCGG------------------
T ss_pred             hhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcC-----------CCceEEEEeCchh------------------
Confidence            00011112345799999999999999999999998632           2456777777543                  


Q ss_pred             HHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHH
Q 047225          160 AEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       160 ~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                            .+.+++.+|+ ..+.|+|++.+++..++...+..       .  .+.++++++++++..++   .++|.+...+
T Consensus       175 ------~l~~~l~sR~-~~i~~~~~~~~~~~~~l~~~~~~-------~--~~~i~~~~l~~l~~~~~---G~~r~~~~~l  235 (353)
T 1sxj_D          175 ------RIIDPLASQC-SKFRFKALDASNAIDRLRFISEQ-------E--NVKCDDGVLERILDISA---GDLRRGITLL  235 (353)
T ss_dssp             ------GSCHHHHHHS-EEEECCCCCHHHHHHHHHHHHHT-------T--TCCCCHHHHHHHHHHTS---SCHHHHHHHH
T ss_pred             ------hCcchhhccC-ceEEeCCCCHHHHHHHHHHHHHH-------h--CCCCCHHHHHHHHHHcC---CCHHHHHHHH
Confidence                  2468899999 68999999999999998766542       1  35789999999999865   3445555555


Q ss_pred             HHH
Q 047225          240 GRL  242 (287)
Q Consensus       240 ~~~  242 (287)
                      +.+
T Consensus       236 ~~~  238 (353)
T 1sxj_D          236 QSA  238 (353)
T ss_dssp             HHT
T ss_pred             HHH
Confidence            433

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=99.64  E-value=2.8e-15  Score=129.83  Aligned_cols=175  Identities=22%  Similarity=0.298  Sum_probs=119.5

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC--CceEEecccccccccchhhhhCCCCCCCcccchhh
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK--EAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQ   80 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (287)
                      ++.++..+.....+  +++|+||+|||||++++.+++.+....  ..++.++++.......+.               ..
T Consensus        26 ~~~l~~~l~~~~~~--~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~---------------~~   88 (319)
T 2chq_A           26 IQRLKGYVERKNIP--HLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVR---------------HK   88 (319)
T ss_dssp             HHHHHTTTTTTCCC--CEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTTSS---------------HH
T ss_pred             HHHHHHHHhCCCCC--eEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHHHH---------------HH
Confidence            34455555554322  499999999999999999999874332  345666665432111100               11


Q ss_pred             HHHHH-----HhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHH
Q 047225           81 LTEAV-----RHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQM  155 (287)
Q Consensus        81 ~~~~~-----~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~  155 (287)
                      +....     ..+++.+++|||+|.++...++.|++++++.           .+++.+|+++|...              
T Consensus        89 ~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~i~~~~~~~--------------  143 (319)
T 2chq_A           89 IKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMY-----------SKSCRFILSCNYVS--------------  143 (319)
T ss_dssp             HHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSS-----------SSSEEEEEEESCGG--------------
T ss_pred             HHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhc-----------CCCCeEEEEeCChh--------------
Confidence            12222     1234689999999999999999999999862           13567888887642              


Q ss_pred             HHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhH
Q 047225          156 ERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPL  235 (287)
Q Consensus       156 ~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l  235 (287)
                                .+.+++.+|+ ..+.|+|++.+++.+++...+.+       .  .+.+++++++.++...   +.++|.+
T Consensus       144 ----------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~-------~--~~~i~~~~l~~l~~~~---~G~~r~~  200 (319)
T 2chq_A          144 ----------RIIEPIQSRC-AVFRFKPVPKEAMKKRLLEICEK-------E--GVKITEDGLEALIYIS---GGDFRKA  200 (319)
T ss_dssp             ----------GSCHHHHTTC-EEEECCCCCHHHHHHHHHHHHHT-------T--CCCBCHHHHHHHHHTT---TTCHHHH
T ss_pred             ----------hcchHHHhhC-eEEEecCCCHHHHHHHHHHHHHH-------c--CCCCCHHHHHHHHHHc---CCCHHHH
Confidence                      3568899999 69999999999999988666542       1  4578999999998653   3345555


Q ss_pred             HHHHHHH
Q 047225          236 RRAIGRL  242 (287)
Q Consensus       236 ~~~i~~~  242 (287)
                      .+.++++
T Consensus       201 ~~~l~~~  207 (319)
T 2chq_A          201 INALQGA  207 (319)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555543

>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=99.64  E-value=3.9e-16  Score=149.29  Aligned_cols=175  Identities=26%  Similarity=0.371  Sum_probs=109.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||.+|+++|..+   +.+++.++.++....     ..|    .. -.....++..++....+||||||+
T Consensus       513 gvLl~GPPGtGKT~lAkaiA~e~---~~~f~~v~~~~l~s~-----~vG----es-e~~vr~lF~~Ar~~~P~IifiDEi  579 (806)
T 3cf2_A          513 GVLFYGPPGCGKTLLAKAIANEC---QANFISIKGPELLTM-----WFG----ES-EANVREIFDKARQAAPCVLFFDEL  579 (806)
T ss_dssp             CCEEESSTTSSHHHHHHHHHHTT---TCEEEECCHHHHHTT-----TCS----SC-HHHHHHHHHHHHTTCSEEEECSCG
T ss_pred             eEEEecCCCCCchHHHHHHHHHh---CCceEEeccchhhcc-----ccc----hH-HHHHHHHHHHHHHcCCceeechhh
Confidence            59999999999999999999998   778888887665432     111    11 011246777777777799999999


Q ss_pred             ccccH--------------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           99 EKAHR--------------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        99 d~~~~--------------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      |.+-.              .+.+.|+..|+.-.         ...+++||+|||.+.                       
T Consensus       580 Dsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~---------~~~~V~vi~aTN~p~-----------------------  627 (806)
T 3cf2_A          580 DSIAKARGGNIGDGGGAADRVINQILTEMDGMS---------TKKNVFIIGATNRPD-----------------------  627 (806)
T ss_dssp             GGCC--------------CHHHHHHHHHHHSSC---------SSSSEEEECC-CCSS-----------------------
T ss_pred             hHHhhccCCCCCCCchHHHHHHHHHHHHHhCCC---------CCCCEEEEEeCCCch-----------------------
Confidence            96521              25667777776411         013567888999863                       


Q ss_pred             hcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          165 RRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       165 ~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                       .+++++++  ||+..|+++.|+.++..+|++.++.+.         .+. .+--++.|+..  ..+++..++..++..+
T Consensus       628 -~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~---------~~~-~~~dl~~la~~--t~g~SGadi~~l~~~A  694 (806)
T 3cf2_A          628 -IIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKS---------PVA-KDVDLEFLAKM--TNGFSGADLTEICQRA  694 (806)
T ss_dssp             -SSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC-----------C-CC------------------CHHHHHHHH
T ss_pred             -hCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCC---------CCC-CCCCHHHHHHh--CCCCCHHHHHHHHHHH
Confidence             46789998  999999999999999999997665421         111 11224556654  3456778999999999


Q ss_pred             HHHHHHHHH
Q 047225          243 LEDNLAEII  251 (287)
Q Consensus       243 ~~~~~~~~~  251 (287)
                      ...++.+.+
T Consensus       695 ~~~a~r~~~  703 (806)
T 3cf2_A          695 CKLAIRESI  703 (806)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            988886653

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.63  E-value=3.7e-17  Score=125.63  Aligned_cols=114  Identities=13%  Similarity=0.144  Sum_probs=84.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||++|+++++...    +++.++|+......                    ....+.....+++||||+
T Consensus        29 ~vll~G~~GtGKt~lA~~i~~~~~----~~~~~~~~~~~~~~--------------------~~~~~~~a~~~~l~lDei   84 (143)
T 3co5_A           29 PVFLTGEAGSPFETVARYFHKNGT----PWVSPARVEYLIDM--------------------PMELLQKAEGGVLYVGDI   84 (143)
T ss_dssp             CEEEEEETTCCHHHHHGGGCCTTS----CEECCSSTTHHHHC--------------------HHHHHHHTTTSEEEEEEC
T ss_pred             cEEEECCCCccHHHHHHHHHHhCC----CeEEechhhCChHh--------------------hhhHHHhCCCCeEEEeCh
Confidence            599999999999999999998763    88888987654321                    222333334569999999


Q ss_pred             ccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCc-
Q 047225           99 EKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDE-  177 (287)
Q Consensus        99 d~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~-  177 (287)
                      +.++++.+..|+++++++.          ..++.+|+++|.+.... .                 .. |.++|.+|+.. 
T Consensus        85 ~~l~~~~q~~Ll~~l~~~~----------~~~~~iI~~tn~~~~~~-~-----------------~~-~~~~L~~rl~~~  135 (143)
T 3co5_A           85 AQYSRNIQTGITFIIGKAE----------RCRVRVIASCSYAAGSD-G-----------------IS-CEEKLAGLFSES  135 (143)
T ss_dssp             TTCCHHHHHHHHHHHHHHT----------TTTCEEEEEEEECTTTC--------------------C-HHHHHHHHSSSE
T ss_pred             HHCCHHHHHHHHHHHHhCC----------CCCEEEEEecCCCHHHH-H-----------------hC-ccHHHHHHhcCc
Confidence            9999999999999998752          13567999999764332 1                 12 55788889754 


Q ss_pred             eEEeCCCC
Q 047225          178 VIVFRQLN  185 (287)
Q Consensus       178 ~i~~~~~~  185 (287)
                      .|.+||+.
T Consensus       136 ~i~lPpLr  143 (143)
T 3co5_A          136 VVRIPPLS  143 (143)
T ss_dssp             EEEECCCC
T ss_pred             EEeCCCCC
Confidence            48999874

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.63  E-value=3e-15  Score=124.07  Aligned_cols=173  Identities=16%  Similarity=0.206  Sum_probs=109.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccch-----hhhhCCCCCCCcccchhhHHHHHHh------
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV-----SKFFGSPPGYVGFENGGQLTEAVRH------   87 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~------   87 (287)
                      .++|+||+|+|||++++.+++.+.... ......|.........     ..++.....  .......+...+..      
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~  123 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAKGLNCET-GITATPCGVCDNCREIEQGRFVDLIEIDAA--SRTKVEDTRDLLDNVQYAPA  123 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHCTT-CSCSSCCSCSHHHHHHHTTCCSSEEEEETT--CGGGHHHHHHHHHSCCCSCS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcCCC-CCCCCCCcccHHHHHHhccCCcceEEecCc--ccccHHHHHHHHHHhhhchh
Confidence            699999999999999999999884322 1111111111000000     000000000  00011122222222      


Q ss_pred             -CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           88 -RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        88 -~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                       ....+|+|||++.+++..++.|++.++..           ..+..+|++++...                        .
T Consensus       124 ~~~~~vlviDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i~~t~~~~------------------------~  168 (250)
T 1njg_A          124 RGRFKVYLIDEVHMLSRHSFNALLKTLEEP-----------PEHVKFLLATTDPQ------------------------K  168 (250)
T ss_dssp             SSSSEEEEEETGGGSCHHHHHHHHHHHHSC-----------CTTEEEEEEESCGG------------------------G
T ss_pred             cCCceEEEEECcccccHHHHHHHHHHHhcC-----------CCceEEEEEeCChH------------------------h
Confidence             23579999999999999999999999852           13557888887532                        3


Q ss_pred             CChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          167 FRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       167 ~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                      +.+.+.+|+ ..+.++|++.+++.+++...+...         .+.+++++++.++..+   ..++|.+...++++
T Consensus       169 ~~~~l~~r~-~~i~l~~l~~~e~~~~l~~~~~~~---------~~~~~~~~~~~l~~~~---~G~~~~~~~~~~~~  231 (250)
T 1njg_A          169 LPVTILSRC-LQFHLKALDVEQIRHQLEHILNEE---------HIAHEPRALQLLARAA---EGSLRDALSLTDQA  231 (250)
T ss_dssp             SCHHHHTTS-EEEECCCCCHHHHHHHHHHHHHHT---------TCCBCHHHHHHHHHHH---TTCHHHHHHHHHHH
T ss_pred             CCHHHHHHh-hhccCCCCCHHHHHHHHHHHHHhc---------CCCCCHHHHHHHHHHc---CCCHHHHHHHHHHH
Confidence            457788997 889999999999999997766431         3468899999998875   23567776666644

>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=99.63  E-value=9.3e-15  Score=132.82  Aligned_cols=169  Identities=24%  Similarity=0.360  Sum_probs=113.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||+++++++...   +.+++.++++++....     .|     .+......++..+.....++|||||+
T Consensus        51 gvLL~GppGtGKT~Laraia~~~---~~~f~~is~~~~~~~~-----~g-----~~~~~~r~lf~~A~~~~p~ILfIDEi  117 (476)
T 2ce7_A           51 GILLVGPPGTGKTLLARAVAGEA---NVPFFHISGSDFVELF-----VG-----VGAARVRDLFAQAKAHAPCIVFIDEI  117 (476)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH---TCCEEEEEGGGTTTCC-----TT-----HHHHHHHHHHHHHHHTCSEEEEEETG
T ss_pred             eEEEECCCCCCHHHHHHHHHHHc---CCCeeeCCHHHHHHHH-----hc-----ccHHHHHHHHHHHHhcCCCEEEEech
Confidence            59999999999999999999998   6788888887765321     11     01111234455555556689999999


Q ss_pred             ccccH--------------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           99 EKAHR--------------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        99 d~~~~--------------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      |.+..              ..++.|+..++.-.         ...+++||+++|.+.                       
T Consensus       118 d~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~---------~~~~viVIaaTn~~~-----------------------  165 (476)
T 2ce7_A          118 DAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFD---------SKEGIIVMAATNRPD-----------------------  165 (476)
T ss_dssp             GGTCCC---------CHHHHHHHHHHHHHHHSC---------GGGTEEEEEEESCGG-----------------------
T ss_pred             hhhhhhcccccCcCcHHHHHHHHHHHHHHhccC---------CCCCEEEEEecCChh-----------------------
Confidence            97633              24555665555200         013568999999752                       


Q ss_pred             hcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhH-HHHHHHhccCCCCCchhHHHHHHH
Q 047225          165 RRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTF-KKKLIEEGYNPSYGARPLRRAIGR  241 (287)
Q Consensus       165 ~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~-~~~l~~~~~~~~~~~r~l~~~i~~  241 (287)
                       .+++++++  ||+..+.+++|+.++..+|++.++.+.           .+.+++ ++.++..  .++++.+++..++++
T Consensus       166 -~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~-----------~l~~~v~l~~la~~--t~G~sgadL~~lv~~  231 (476)
T 2ce7_A          166 -ILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNK-----------PLAEDVNLEIIAKR--TPGFVGADLENLVNE  231 (476)
T ss_dssp             -GSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTS-----------CBCTTCCHHHHHHT--CTTCCHHHHHHHHHH
T ss_pred             -hhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhC-----------CCcchhhHHHHHHh--cCCCcHHHHHHHHHH
Confidence             34567775  999999999999999999986655321           123333 5556553  344556889988887


Q ss_pred             HHHHH
Q 047225          242 LLEDN  246 (287)
Q Consensus       242 ~~~~~  246 (287)
                      +...+
T Consensus       232 Aal~A  236 (476)
T 2ce7_A          232 AALLA  236 (476)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76544

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=99.62  E-value=2.3e-14  Score=127.43  Aligned_cols=191  Identities=17%  Similarity=0.146  Sum_probs=128.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC-CCceEEecccccccccc----hhhhhCCCCCCCcccch---hhHHHHHHh-CC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS-KEAMVRIDMSEYMEKHT----VSKFFGSPPGYVGFENG---GQLTEAVRH-RP   89 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~-~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~---~~~~~~~~~-~~   89 (287)
                      +++|+||+|||||++++.++..+... +..++.++|........    +...++......+....   ..+...+.. ..
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~  125 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDL  125 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHHHHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCC
Confidence            69999999999999999999998665 46788899876553211    12223332222221111   122233333 33


Q ss_pred             cEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225           90 HSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus        90 ~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      ..+|+|||++.++...+..|.++++...-.   +    ..++.+|+++|....                     ...+.+
T Consensus       126 ~~vlilDE~~~l~~~~~~~L~~~~~~~~~~---~----~~~~~iI~~~~~~~~---------------------~~~l~~  177 (389)
T 1fnn_A          126 YMFLVLDDAFNLAPDILSTFIRLGQEADKL---G----AFRIALVIVGHNDAV---------------------LNNLDP  177 (389)
T ss_dssp             CEEEEEETGGGSCHHHHHHHHHHTTCHHHH---S----SCCEEEEEEESSTHH---------------------HHTSCH
T ss_pred             eEEEEEECccccchHHHHHHHHHHHhCCCC---C----cCCEEEEEEECCchH---------------------HHHhCH
Confidence            579999999999999999999998752100   0    024567888775421                     124677


Q ss_pred             hHHhccCc-eEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCC------CCCchhHHHHHHHH
Q 047225          170 EFLNRIDE-VIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNP------SYGARPLRRAIGRL  242 (287)
Q Consensus       170 ~l~~r~~~-~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~------~~~~r~l~~~i~~~  242 (287)
                      .+.+|+.. .+.|+|++.+++.+++...+....       ....+++++++.++..++..      ..++|.+...+..+
T Consensus       178 ~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a  250 (389)
T 1fnn_A          178 STRGIMGKYVIRFSPYTKDQIFDILLDRAKAGL-------AEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRS  250 (389)
T ss_dssp             HHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHB-------CTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHH
T ss_pred             HhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhc-------CCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHH
Confidence            88899865 799999999999999977765311       01258999999999987644      55677777777765


Q ss_pred             HH
Q 047225          243 LE  244 (287)
Q Consensus       243 ~~  244 (287)
                      ..
T Consensus       251 ~~  252 (389)
T 1fnn_A          251 AY  252 (389)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=99.62  E-value=3.4e-15  Score=129.78  Aligned_cols=160  Identities=21%  Similarity=0.320  Sum_probs=111.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCC--CceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHH-----hCCcE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSK--EAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVR-----HRPHS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~   91 (287)
                      +++|+||||||||++++.+++.+....  ..++.+++++......+.               ..+.....     .+++.
T Consensus        48 ~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~  112 (327)
T 1iqp_A           48 HLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIR---------------EKVKEFARTKPIGGASFK  112 (327)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTH---------------HHHHHHHHSCCGGGCSCE
T ss_pred             eEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCchHHHH---------------HHHHHHHhhCCcCCCCCe
Confidence            599999999999999999999873322  235556654432111111               11112211     14468


Q ss_pred             EEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhH
Q 047225           92 VILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEF  171 (287)
Q Consensus        92 il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  171 (287)
                      +++|||+|.++...++.|++++++..           .++.+|+++|...                        .+.+.+
T Consensus       113 vliiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~i~~~~~~~------------------------~l~~~l  157 (327)
T 1iqp_A          113 IIFLDEADALTQDAQQALRRTMEMFS-----------SNVRFILSCNYSS------------------------KIIEPI  157 (327)
T ss_dssp             EEEEETGGGSCHHHHHHHHHHHHHTT-----------TTEEEEEEESCGG------------------------GSCHHH
T ss_pred             EEEEeCCCcCCHHHHHHHHHHHHhcC-----------CCCeEEEEeCCcc------------------------ccCHHH
Confidence            99999999999999999999998631           3457888887642                        346789


Q ss_pred             HhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHH
Q 047225          172 LNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGR  241 (287)
Q Consensus       172 ~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~  241 (287)
                      .+|+ ..+.|+|++.+++.+++...+..       .  .+.++++++++++..+   ..++|.+...++.
T Consensus       158 ~sr~-~~~~~~~l~~~~~~~~l~~~~~~-------~--~~~~~~~~~~~l~~~~---~g~~r~~~~~l~~  214 (327)
T 1iqp_A          158 QSRC-AIFRFRPLRDEDIAKRLRYIAEN-------E--GLELTEEGLQAILYIA---EGDMRRAINILQA  214 (327)
T ss_dssp             HHTE-EEEECCCCCHHHHHHHHHHHHHT-------T--TCEECHHHHHHHHHHH---TTCHHHHHHHHHH
T ss_pred             HhhC-cEEEecCCCHHHHHHHHHHHHHh-------c--CCCCCHHHHHHHHHHC---CCCHHHHHHHHHH
Confidence            9999 68999999999999988665532       1  3579999999998864   2345555555543

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.61  E-value=7.7e-15  Score=130.47  Aligned_cols=184  Identities=21%  Similarity=0.228  Sum_probs=121.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC--------CCceEEecccccc-cccc-----hhhhhCCCCCCCcccch---hhH
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS--------KEAMVRIDMSEYM-EKHT-----VSKFFGSPPGYVGFENG---GQL   81 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~--------~~~~~~~~~~~~~-~~~~-----~~~~~~~~~~~~~~~~~---~~~   81 (287)
                      +++|+||||||||++++.+++.+...        +..++.++|.... ....     ...+.+...+..+....   ..+
T Consensus        47 ~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l  126 (384)
T 2qby_B           47 SNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKI  126 (384)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHH
Confidence            79999999999999999999987332        5678888887654 3211     22233433333333222   223


Q ss_pred             HHHHHhCCcEEEEEcCcccccHHH-HHH-HHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHH
Q 047225           82 TEAVRHRPHSVILFDEIEKAHRDV-LNV-MLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGV  159 (287)
Q Consensus        82 ~~~~~~~~~~il~iDeid~~~~~~-~~~-L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~  159 (287)
                      ...+...+ .+|+|||+|.+.... ++. +..++...            .++.+|+++|..+.                 
T Consensus       127 ~~~l~~~~-~vlilDEi~~l~~~~~~~~~l~~l~~~~------------~~~~iI~~t~~~~~-----------------  176 (384)
T 2qby_B          127 KNGTRNIR-AIIYLDEVDTLVKRRGGDIVLYQLLRSD------------ANISVIMISNDINV-----------------  176 (384)
T ss_dssp             HHHHSSSC-EEEEEETTHHHHHSTTSHHHHHHHHTSS------------SCEEEEEECSSTTT-----------------
T ss_pred             HHHhccCC-CEEEEECHHHhccCCCCceeHHHHhcCC------------cceEEEEEECCCch-----------------
Confidence            33444444 399999999987542 455 55555532            35678888886431                 


Q ss_pred             HHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHH
Q 047225          160 AEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       160 ~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                          ...+.+.+.+|+...+.|+|++.+++.+++...+...   +    ....+++++++.++..++....++|.+..++
T Consensus       177 ----~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~---~----~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l  245 (384)
T 2qby_B          177 ----RDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYG---L----IKGTYDDEILSYIAAISAKEHGDARKAVNLL  245 (384)
T ss_dssp             ----TTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHT---S----CTTSCCSHHHHHHHHHHHTTCCCHHHHHHHH
T ss_pred             ----HhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhh---c----ccCCcCHHHHHHHHHHHHhccCCHHHHHHHH
Confidence                1145688999987799999999999999998776420   1    0235788999999887664445566666655


Q ss_pred             HHHH
Q 047225          240 GRLL  243 (287)
Q Consensus       240 ~~~~  243 (287)
                      +.+.
T Consensus       246 ~~a~  249 (384)
T 2qby_B          246 FRAA  249 (384)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5543

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.61  E-value=3.9e-15  Score=140.13  Aligned_cols=133  Identities=11%  Similarity=0.151  Sum_probs=87.1

Q ss_pred             HHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCC----------ceeeccceEEEEeecCCchhhhhhccCCchH
Q 047225           85 VRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKG----------QTVDLKNTIIIMTSNIGDSVIARESILGSDQ  154 (287)
Q Consensus        85 ~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g----------~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~  154 (287)
                      +.....+++||||++.+++..++.|+++++++.+.....          ..-...++.+|+++|+..             
T Consensus       197 ~~~a~~gvL~LDEi~~l~~~~q~~Ll~~Le~~~~~~~g~~~~~~~~~l~~~~~p~~~~vI~atn~~~-------------  263 (604)
T 3k1j_A          197 IHRAHKGVLFIDEIATLSLKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVLVAAGNLDT-------------  263 (604)
T ss_dssp             HHHTTTSEEEETTGGGSCHHHHHHHHHHHHHSEECCBCSCTTSGGGGCBCSCEECCCEEEEEECHHH-------------
T ss_pred             eeecCCCEEEEechhhCCHHHHHHHHHHHHcCcEEecccccccccccCCCCccceeEEEEEecCHHH-------------
Confidence            334455799999999999999999999999988765321          111124788999999631             


Q ss_pred             HHHHHHHHHHhcCChhHHhccC---ceEEeCCCC---HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccC-
Q 047225          155 MERGVAEELRRRFRPEFLNRID---EVIVFRQLN---KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYN-  227 (287)
Q Consensus       155 ~~~~~~~~~~~~~~~~l~~r~~---~~i~~~~~~---~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~-  227 (287)
                               ...|+++|++||.   ..+.|++..   .+.+..++    ..+.......+....++++++..+..+.+. 
T Consensus       264 ---------~~~l~~~l~~R~~v~~i~i~l~~~~~~~~~~~~~~l----~~~~~~~~~~~~~~~ls~eAl~~Li~~~~r~  330 (604)
T 3k1j_A          264 ---------VDKMHPALRSRIRGYGYEVYMRTTMPDTIENRRKLV----QFVAQEVKRDGKIPHFTKEAVEEIVREAQKR  330 (604)
T ss_dssp             ---------HHHSCHHHHHHHHHHSEEEECCSEEECCHHHHHHHH----HHHHHHHHHHCSSCCBBHHHHHHHHHHHHHT
T ss_pred             ---------HhhcCHHHHHHhhccceEeeccccccCCHHHHHHHH----HHHHHHHhhccCcccCCHHHHHHHHHHHhhh
Confidence                     1257899999995   346655443   33344444    333333332223468999999999987542 


Q ss_pred             -CC-----CCchhHHHHHHHHH
Q 047225          228 -PS-----YGARPLRRAIGRLL  243 (287)
Q Consensus       228 -~~-----~~~r~l~~~i~~~~  243 (287)
                       ..     .+.|++.+.+..+.
T Consensus       331 ~g~r~~l~~~~R~l~~llr~A~  352 (604)
T 3k1j_A          331 AGRKGHLTLRLRDLGGIVRAAG  352 (604)
T ss_dssp             TCSTTEEECCHHHHHHHHHHHH
T ss_pred             hccccccccCHHHHHHHHHHHH
Confidence             21     25677777776543

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.60  E-value=6.3e-16  Score=144.82  Aligned_cols=202  Identities=15%  Similarity=0.141  Sum_probs=119.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEE----ecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVR----IDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      +++|+||||||||++|+++++.+..   ..+.    .++....... ....+.   +.... ..+.+    .....+++|
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~~r---~~~~~~~~~~~~~l~~~~-~~~~~~---g~~~~-~~G~l----~~A~~gil~  396 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVAPR---AVYTTGKGSTAAGLTAAV-VREKGT---GEYYL-EAGAL----VLADGGIAV  396 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTCSC---EECCCTTCSTTTTSEEEC-SSGGGT---SSCSE-EECHH----HHHSSSEEC
T ss_pred             ceEEECCCchHHHHHHHHHHHhCCC---ceecCCCcccccccccee-eecccc---ccccc-cCCee----EecCCCcEE
Confidence            6999999999999999999988732   2221    1112211110 000010   00000 11122    222446999


Q ss_pred             EcCcccccHHHHHHHHHhhcCceeecC-CCceeec-cceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHH
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDGRVTDG-KGQTVDL-KNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFL  172 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~~~~~~-~g~~i~~-~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  172 (287)
                      |||+|+++++.++.|+++|+++.+... .|..... .++.+|+|+|+.........     ....      .-.++++|+
T Consensus       397 IDEid~l~~~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp~~G~~~~~~-----~~~~------ni~l~~aLl  465 (595)
T 3f9v_A          397 IDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKFGRYISER-----PVSD------NINLPPTIL  465 (595)
T ss_dssp             CTTTTCCCSHHHHHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECCTTCCSCTTS-----CSCT------TTCSCSSSG
T ss_pred             eehhhhCCHhHhhhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCCcCCccCccc-----Cchh------ccCCCHHHH
Confidence            999999999999999999999988754 3555555 47899999998642211100     0000      015789999


Q ss_pred             hccCceEEeCCCCHHHHHHHHHHHHH-----------------HHHHHHHhcCcEEEeChhHHHHHHHhcc---------
Q 047225          173 NRIDEVIVFRQLNKMQLMEIVDIMLK-----------------EIYERLEAKNMELTVTHTFKKKLIEEGY---------  226 (287)
Q Consensus       173 ~r~~~~i~~~~~~~~~~~~il~~~l~-----------------~~~~~~~~~~~~~~i~~~~~~~l~~~~~---------  226 (287)
                      +|||..+.+.++...+...|+.+.+.                 ++....+. .....+++++.+.|.....         
T Consensus       466 ~RFDl~~~~~~~~~~e~~~i~~~il~~~~~~~~~~~l~~~~l~~~i~~ar~-~~~p~ls~ea~~~l~~~y~~lR~~~~~~  544 (595)
T 3f9v_A          466 SRFDLIFILKDQPGEQDRELANYILDVHSGKSTKNIIDIDTLRKYIAYARK-YVTPKITSEAKNLITDFFVEMRKKSSET  544 (595)
T ss_dssp             GGCSCCEEECCTTHHHHHHHHHHHHTTTCCCSSSSTTCCTTTHHHHHHHHH-HHCCCCCCCTHHHHHHHHTTSSCSCCBC
T ss_pred             hhCeEEEEeCCCCCHHHHHHHHHHHHHhhccccccCCCHHHHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHHHHhhccC
Confidence            99986655555443335666655442                 12111111 1133688888888887521         


Q ss_pred             ---CCCCCchhHHHHHHHHHH
Q 047225          227 ---NPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       227 ---~~~~~~r~l~~~i~~~~~  244 (287)
                         ....++|.+..++..+..
T Consensus       545 ~~~~~~~s~R~l~~lirla~a  565 (595)
T 3f9v_A          545 PDSPILITPRQLEALIRISEA  565 (595)
T ss_dssp             SSSCBCSSTTTTTHHHHHHHH
T ss_pred             CCccccccHHHHHHHHHHHHH
Confidence               235677888887774433

>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=99.59  E-value=1.3e-14  Score=123.30  Aligned_cols=171  Identities=23%  Similarity=0.307  Sum_probs=108.0

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      .+..+++|+||||||||++|+++++.+   +.+++.+++.+..        +|..... .......+++.......++||
T Consensus        62 ~~~~~vLl~G~~GtGKT~la~~ia~~~---~~~~~~i~~~~~~--------~g~~~~~-~~~~~~~~~~~~~~~~~~vl~  129 (272)
T 1d2n_A           62 TPLVSVLLEGPPHSGKTALAAKIAEES---NFPFIKICSPDKM--------IGFSETA-KCQAMKKIFDDAYKSQLSCVV  129 (272)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHHHH---TCSEEEEECGGGC--------TTCCHHH-HHHHHHHHHHHHHTSSEEEEE
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHh---CCCEEEEeCHHHh--------cCCchHH-HHHHHHHHHHHHHhcCCcEEE
Confidence            344579999999999999999999997   6778888775411        1110000 000112333444445678999


Q ss_pred             EcCcccc----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           95 FDEIEKA----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        95 iDeid~~----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      |||+|.+          ...++..|..+++....        ...++++|+++|....                      
T Consensus       130 iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~--------~~~~~~ii~ttn~~~~----------------------  179 (272)
T 1d2n_A          130 VDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPP--------QGRKLLIIGTTSRKDV----------------------  179 (272)
T ss_dssp             ECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCS--------TTCEEEEEEEESCHHH----------------------
T ss_pred             EEChhhhhccCCCChhHHHHHHHHHHHHhcCccC--------CCCCEEEEEecCChhh----------------------
Confidence            9999987          56677777777764210        0124568888886421                      


Q ss_pred             hcCCh-hHHhccCceEEeCCCCH-HHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCC--CCCchhHHHHHH
Q 047225          165 RRFRP-EFLNRIDEVIVFRQLNK-MQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNP--SYGARPLRRAIG  240 (287)
Q Consensus       165 ~~~~~-~l~~r~~~~i~~~~~~~-~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~--~~~~r~l~~~i~  240 (287)
                        +.+ .+.+||+..+.+||++. +++..++...           .   .++++.+..++......  ..++|.+...++
T Consensus       180 --l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~-----------~---~~~~~~~~~l~~~~~g~~~~g~ir~l~~~l~  243 (272)
T 1d2n_A          180 --LQEMEMLNAFSTTIHVPNIATGEQLLEALELL-----------G---NFKDKERTTIAQQVKGKKVWIGIKKLLMLIE  243 (272)
T ss_dssp             --HHHTTCTTTSSEEEECCCEEEHHHHHHHHHHH-----------T---CSCHHHHHHHHHHHTTSEEEECHHHHHHHHH
T ss_pred             --cchhhhhcccceEEcCCCccHHHHHHHHHHhc-----------C---CCCHHHHHHHHHHhcCCCccccHHHHHHHHH
Confidence              112 46789888899999997 6666655321           1   35788888888764321  225677777766


Q ss_pred             HHH
Q 047225          241 RLL  243 (287)
Q Consensus       241 ~~~  243 (287)
                      .+.
T Consensus       244 ~a~  246 (272)
T 1d2n_A          244 MSL  246 (272)
T ss_dssp             HHT
T ss_pred             HHh
Confidence            543

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.59  E-value=2.5e-14  Score=124.03  Aligned_cols=161  Identities=13%  Similarity=0.228  Sum_probs=112.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC--CCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHH-------hCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS--KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVR-------HRP   89 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~   89 (287)
                      +++|+||+|+|||++++.+++.+...  ...++.+++++......+                ..+.+.+.       .+.
T Consensus        44 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i----------------~~~~~~~~~~~~~~~~~~  107 (323)
T 1sxj_B           44 HMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVV----------------RNQIKHFAQKKLHLPPGK  107 (323)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHH----------------HTHHHHHHHBCCCCCTTC
T ss_pred             eEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHHH----------------HHHHHHHHhccccCCCCC
Confidence            49999999999999999999987322  234556665442111111                12222222       233


Q ss_pred             cEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225           90 HSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus        90 ~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      +.+++|||++.++...++.|++++++.           .+++.+|+++|...                        .+.+
T Consensus       108 ~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~il~~~~~~------------------------~l~~  152 (323)
T 1sxj_B          108 HKIVILDEADSMTAGAQQALRRTMELY-----------SNSTRFAFACNQSN------------------------KIIE  152 (323)
T ss_dssp             CEEEEEESGGGSCHHHHHTTHHHHHHT-----------TTTEEEEEEESCGG------------------------GSCH
T ss_pred             ceEEEEECcccCCHHHHHHHHHHHhcc-----------CCCceEEEEeCChh------------------------hchh
Confidence            689999999999999999999999863           13557888887632                        3468


Q ss_pred             hHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       170 ~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                      .+.+|+ ..+.|+|++.+++.+++...+...         .+.+++++++.++..+   +.++|.+.+.++...
T Consensus       153 ~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~~~~~~~~~l~~~~---~G~~r~a~~~l~~~~  213 (323)
T 1sxj_B          153 PLQSQC-AILRYSKLSDEDVLKRLLQIIKLE---------DVKYTNDGLEAIIFTA---EGDMRQAINNLQSTV  213 (323)
T ss_dssp             HHHTTS-EEEECCCCCHHHHHHHHHHHHHHH---------TCCBCHHHHHHHHHHH---TTCHHHHHHHHHHHH
T ss_pred             HHHhhc-eEEeecCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHc---CCCHHHHHHHHHHHH
Confidence            899999 699999999999999997776432         2468899999998875   234555555555443

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=99.58  E-value=3e-14  Score=126.20  Aligned_cols=176  Identities=17%  Similarity=0.234  Sum_probs=113.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccch-----hhhhC-CCCCCCcccchhhHHHHHHh----C
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV-----SKFFG-SPPGYVGFENGGQLTEAVRH----R   88 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~-----~~~~~-~~~~~~~~~~~~~~~~~~~~----~   88 (287)
                      .++|+||+|||||++++.+++.+..... .....|.........     ..++. ...+..+......+.+.+..    +
T Consensus        40 ~~ll~G~~G~GKT~la~~la~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  118 (373)
T 1jr3_A           40 AYLFSGTRGVGKTSIARLLAKGLNCETG-ITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARG  118 (373)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHSCTTC-SCSSCCSSSHHHHHHHTSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCCC-CCCCCCcccHHHHHHhccCCCceEEecccccCCHHHHHHHHHHHhhccccC
Confidence            5899999999999999999998843221 111112111100000     00000 00011122222334444332    3


Q ss_pred             CcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCC
Q 047225           89 PHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFR  168 (287)
Q Consensus        89 ~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (287)
                      .+.+++|||+|.++...++.|++.+++.           ..++.+|++++...                        .+.
T Consensus       119 ~~~vliiDe~~~l~~~~~~~Ll~~le~~-----------~~~~~~Il~~~~~~------------------------~l~  163 (373)
T 1jr3_A          119 RFKVYLIDEVHMLSRHSFNALLKTLEEP-----------PEHVKFLLATTDPQ------------------------KLP  163 (373)
T ss_dssp             SSEEEEEECGGGSCHHHHHHHHHHHHSC-----------CSSEEEEEEESCGG------------------------GSC
T ss_pred             CeEEEEEECcchhcHHHHHHHHHHHhcC-----------CCceEEEEEeCChH------------------------hCc
Confidence            3579999999999999999999999862           13557787776432                        345


Q ss_pred             hhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          169 PEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       169 ~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                      +.+.+|+ ..+.|+|++.+++.+++...+.+.         .+.+++++++.++..+   +.++|.+.+.+++++
T Consensus       164 ~~l~sr~-~~i~~~~l~~~~~~~~l~~~~~~~---------~~~~~~~a~~~l~~~~---~G~~r~~~~~l~~~~  225 (373)
T 1jr3_A          164 VTILSRC-LQFHLKALDVEQIRHQLEHILNEE---------HIAHEPRALQLLARAA---EGSLRDALSLTDQAI  225 (373)
T ss_dssp             HHHHTTS-EEEECCCCCHHHHHHHHHHHHHHH---------TCCBCHHHHHHHHHHS---SSCHHHHHHHHHHHH
T ss_pred             HHHHhhe-eEeeCCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHC---CCCHHHHHHHHHHHH
Confidence            7889999 899999999999999997776542         3468899999998865   345666666666543

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.57  E-value=6.7e-14  Score=123.18  Aligned_cols=104  Identities=10%  Similarity=0.114  Sum_probs=79.5

Q ss_pred             CcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCC
Q 047225           89 PHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFR  168 (287)
Q Consensus        89 ~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (287)
                      ++.+++|||++.+++..++.|++.+++.           ..+..+|++|+...                        .+.
T Consensus       134 ~~~vlilDE~~~L~~~~~~~L~~~le~~-----------~~~~~~Il~t~~~~------------------------~l~  178 (354)
T 1sxj_E          134 RYKCVIINEANSLTKDAQAALRRTMEKY-----------SKNIRLIMVCDSMS------------------------PII  178 (354)
T ss_dssp             CCEEEEEECTTSSCHHHHHHHHHHHHHS-----------TTTEEEEEEESCSC------------------------SSC
T ss_pred             CCeEEEEeCccccCHHHHHHHHHHHHhh-----------cCCCEEEEEeCCHH------------------------HHH
Confidence            4569999999999999999999999862           12456788777543                        245


Q ss_pred             hhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeC-hhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          169 PEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVT-HTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       169 ~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~-~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      +.+.+|+ ..+.|+|++.+++.+++...+.+.         .+.++ +++++.++..+.   .++|.+...++
T Consensus       179 ~~l~sR~-~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~~~~~l~~i~~~~~---G~~r~a~~~l~  238 (354)
T 1sxj_E          179 APIKSQC-LLIRCPAPSDSEISTILSDVVTNE---------RIQLETKDILKRIAQASN---GNLRVSLLMLE  238 (354)
T ss_dssp             HHHHTTS-EEEECCCCCHHHHHHHHHHHHHHH---------TCEECCSHHHHHHHHHHT---TCHHHHHHHHT
T ss_pred             HHHHhhc-eEEecCCcCHHHHHHHHHHHHHHc---------CCCCCcHHHHHHHHHHcC---CCHHHHHHHHH
Confidence            7899999 899999999999999997776542         35788 999999998752   34444444444

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=99.57  E-value=1.9e-13  Score=119.54  Aligned_cols=169  Identities=17%  Similarity=0.299  Sum_probs=110.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh-CCcEEEEEc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH-RPHSVILFD   96 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~il~iD   96 (287)
                      .+++|+||||+||||++++++..+   +.++...+......                   ...+...... ....|+|+|
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~l---~~~~~~~sg~~~~~-------------------~~~l~~~~~~~~~~~v~~iD  109 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASEL---QTNIHVTSGPVLVK-------------------QGDMAAILTSLERGDVLFID  109 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHHH---TCCEEEEETTTCCS-------------------HHHHHHHHHHCCTTCEEEEE
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHh---CCCEEEEechHhcC-------------------HHHHHHHHHHccCCCEEEEc
Confidence            479999999999999999999998   33332222111110                   1122222222 234699999


Q ss_pred             CcccccHHHHHHHHHhhcCceeec--CCC---ce--eeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225           97 EIEKAHRDVLNVMLQLLDDGRVTD--GKG---QT--VDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus        97 eid~~~~~~~~~L~~~l~~~~~~~--~~g---~~--i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      |++.+.+..++.|+..++.+....  ..+   ..  ...+.+.++.+++...                        .+++
T Consensus       110 E~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~at~~~~------------------------~Ls~  165 (334)
T 1in4_A          110 EIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSG------------------------LLSS  165 (334)
T ss_dssp             TGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGG------------------------GSCH
T ss_pred             chhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEEecCCcc------------------------cCCH
Confidence            999999888888888877643210  001   11  1224556666666532                        4578


Q ss_pred             hHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       170 ~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      .+.+||...+.++|++.+++.++++.....       .  .+.++++++.+++..+.   .++|.+.+.++++..
T Consensus       166 ~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~-------~--~~~~~~~~~~~ia~~~~---G~~R~a~~ll~~~~~  228 (334)
T 1in4_A          166 PLRSRFGIILELDFYTVKELKEIIKRAASL-------M--DVEIEDAAAEMIAKRSR---GTPRIAIRLTKRVRD  228 (334)
T ss_dssp             HHHTTCSEEEECCCCCHHHHHHHHHHHHHH-------T--TCCBCHHHHHHHHHTST---TCHHHHHHHHHHHHH
T ss_pred             HHHHhcCceeeCCCCCHHHHHHHHHHHHHH-------c--CCCcCHHHHHHHHHhcC---CChHHHHHHHHHHHH
Confidence            899999777999999999999999766542       1  35789999999988642   455666666665433

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.57  E-value=6.6e-14  Score=119.04  Aligned_cols=179  Identities=20%  Similarity=0.257  Sum_probs=115.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||+++++++..+   +..++.++..+...... ..         .......+++.......+++++||+
T Consensus        46 GvlL~Gp~GtGKTtLakala~~~---~~~~i~i~g~~l~~~~~-~~---------~~~~i~~vf~~a~~~~p~i~~~Dei  112 (274)
T 2x8a_A           46 GVLLAGPPGCGKTLLAKAVANES---GLNFISVKGPELLNMYV-GE---------SERAVRQVFQRAKNSAPCVIFFDEV  112 (274)
T ss_dssp             EEEEESSTTSCHHHHHHHHHHHT---TCEEEEEETTTTCSSTT-HH---------HHHHHHHHHHHHHHTCSEEEEEETC
T ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCCEEEEEcHHHHhhhh-hH---------HHHHHHHHHHHHHhcCCCeEeeehh
Confidence            39999999999999999999988   44577777655432110 00         0001134455444445589999999


Q ss_pred             ccccH-----------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKAHR-----------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~~~-----------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |.+..           ...+.+...+..+.-         -...++++++|.+.                        .+
T Consensus       113 d~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~---------~~~~i~ia~tn~p~------------------------~L  159 (274)
T 2x8a_A          113 DALCPRRSDRETGASVRVVNQLLTEMDGLEA---------RQQVFIMAATNRPD------------------------II  159 (274)
T ss_dssp             TTTCC---------CTTHHHHHHHHHHTCCS---------TTCEEEEEEESCGG------------------------GS
T ss_pred             hhhhcccCCCcchHHHHHHHHHHHhhhcccc---------cCCEEEEeecCChh------------------------hC
Confidence            96421           233444444443311         12346777887653                        45


Q ss_pred             ChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEe-ChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          168 RPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTV-THTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       168 ~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i-~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      ++++++  ||+..|.+++|+.++..+|++.++...      .  ...+ .+-.++.++......+++..++...++++..
T Consensus       160 D~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~~~------~--~~~~~~~~~~~~la~~~~~~g~sgadl~~l~~~a~~  231 (274)
T 2x8a_A          160 DPAILRPGRLDKTLFVGLPPPADRLAILKTITKNG------T--KPPLDADVNLEAIAGDLRCDCYTGADLSALVREASI  231 (274)
T ss_dssp             CHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTTTT------B--TTBBCTTCCHHHHHTCSGGGSCCHHHHHHHHHHHHH
T ss_pred             CHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHhcc------c--CCCCccccCHHHHHHhhccCCcCHHHHHHHHHHHHH
Confidence            788887  999999999999999999997665320      0  1112 2233566665433446788999999999998


Q ss_pred             HHHHHHH
Q 047225          245 DNLAEII  251 (287)
Q Consensus       245 ~~~~~~~  251 (287)
                      .++.+..
T Consensus       232 ~a~~~~~  238 (274)
T 2x8a_A          232 CALRQEM  238 (274)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHHH
Confidence            8876543

>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=99.57  E-value=6e-16  Score=131.18  Aligned_cols=169  Identities=22%  Similarity=0.340  Sum_probs=107.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||++++++++.+   ..+++.++++.+...     ..+...     .....+++.+.....++|||||+
T Consensus        46 ~vll~G~~GtGKT~la~~la~~~---~~~~~~v~~~~~~~~-----~~~~~~-----~~~~~~~~~a~~~~~~vl~iDEi  112 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAGEA---HVPFFSMGGSSFIEM-----FVGLGA-----SRVRDLFETAKKQAPSIIFIDEI  112 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHHHH---TCCCCCCCSCTTTTS-----CSSSCS-----SSSSTTHHHHHHSCSCEEEESCG
T ss_pred             eEEEECCCCCcHHHHHHHHHHHh---CCCEEEechHHHHHh-----hcchHH-----HHHHHHHHHHHhcCCeEEEEeCh
Confidence            48999999999999999999998   567777777665432     111111     11124455555545579999999


Q ss_pred             ccccHHH---------------HHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHH
Q 047225           99 EKAHRDV---------------LNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEEL  163 (287)
Q Consensus        99 d~~~~~~---------------~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~  163 (287)
                      |.+....               +..|+..++...        -...++++|+++|...                      
T Consensus       113 d~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--------~~~~~v~vi~ttn~~~----------------------  162 (268)
T 2r62_A          113 DAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFG--------SENAPVIVLAATNRPE----------------------  162 (268)
T ss_dssp             GGTTC----------CCCSCSSTTTTTTTTTCSS--------CSCSCCEEEECBSCCT----------------------
T ss_pred             hhhcccccccccCCCchhHHHHHHHHHHHhhCcc--------cCCCCEEEEEecCCch----------------------
Confidence            9886532               233333333210        0112468889998763                      


Q ss_pred             HhcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHH
Q 047225          164 RRRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGR  241 (287)
Q Consensus       164 ~~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~  241 (287)
                        .+++++++  ||+..+.+++|+.++..++++..+...       .  +. ++..++.++..  ..+++.++++.++++
T Consensus       163 --~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~-------~--~~-~~~~~~~la~~--~~g~~g~dl~~l~~~  228 (268)
T 2r62_A          163 --ILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGV-------K--LA-NDVNLQEVAKL--TAGLAGADLANIINE  228 (268)
T ss_dssp             --TSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSS-------C--CC-SSCCTTTTTSS--SCSSCHHHHHHHHHH
T ss_pred             --hcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcC-------C--CC-CccCHHHHHHH--cCCCCHHHHHHHHHH
Confidence              34577887  898889999999999999996655321       1  11 22224445443  234566888888886


Q ss_pred             HHH
Q 047225          242 LLE  244 (287)
Q Consensus       242 ~~~  244 (287)
                      +..
T Consensus       229 a~~  231 (268)
T 2r62_A          229 AAL  231 (268)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            655

>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=99.57  E-value=8e-14  Score=126.96  Aligned_cols=102  Identities=19%  Similarity=0.290  Sum_probs=72.9

Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChh
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      +|+||||++.++.+.+++|++.+++..           .. +||+++|++...+-..      +     .......+++.
T Consensus       297 ~VliIDEa~~l~~~a~~aLlk~lEe~~-----------~~-~~il~tn~~~~~i~~~------~-----~~~~~~~l~~~  353 (456)
T 2c9o_A          297 GVLFVDEVHMLDIECFTYLHRALESSI-----------AP-IVIFASNRGNCVIRGT------E-----DITSPHGIPLD  353 (456)
T ss_dssp             CEEEEESGGGCBHHHHHHHHHHTTSTT-----------CC-EEEEEECCSEEECBTT------S-----SCEEETTCCHH
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhccC-----------CC-EEEEecCCcccccccc------c-----cccccccCChh
Confidence            599999999999999999999999741           12 4666666531100000      0     00000246789


Q ss_pred             HHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          171 FLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       171 l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                      +++|| ..+.|+|++.+++.++++..+...         .+.++++++..++..+
T Consensus       354 i~sR~-~~~~~~~~~~~e~~~iL~~~~~~~---------~~~~~~~~~~~i~~~a  398 (456)
T 2c9o_A          354 LLDRV-MIIRTMLYTPQEMKQIIKIRAQTE---------GINISEEALNHLGEIG  398 (456)
T ss_dssp             HHTTE-EEEECCCCCHHHHHHHHHHHHHHH---------TCCBCHHHHHHHHHHH
T ss_pred             HHhhc-ceeeCCCCCHHHHHHHHHHHHHHh---------CCCCCHHHHHHHHHHc
Confidence            99999 668999999999999998776532         2468999999998875

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=99.56  E-value=1.1e-13  Score=121.15  Aligned_cols=156  Identities=11%  Similarity=0.114  Sum_probs=99.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccccc--------chhhhhCCC-CCCCcccchhhHHHHHHh--
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKH--------TVSKFFGSP-PGYVGFENGGQLTEAVRH--   87 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~-~~~~~~~~~~~~~~~~~~--   87 (287)
                      .++|+||+|+|||++++.+++.+......- ...|.......        .+..+.+.. ....+.+..+.+.+.+..  
T Consensus        26 a~L~~G~~G~GKt~~a~~la~~l~~~~~~~-~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~~~i~~ir~l~~~~~~~~  104 (334)
T 1a5t_A           26 ALLIQALPGMGDDALIYALSRYLLCQQPQG-HKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEHA  104 (334)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCSSCBT-TBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTSCC
T ss_pred             eEEEECCCCchHHHHHHHHHHHHhCCCCCC-CCCCCCCHHHHHHhcCCCCCEEEEeccccCCCCCHHHHHHHHHHHhhcc
Confidence            599999999999999999999984322100 00111100000        000000000 011222222233333332  


Q ss_pred             --CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHh
Q 047225           88 --RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRR  165 (287)
Q Consensus        88 --~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (287)
                        +++.|++|||+|.++.+.++.|++.+++.           .+++++|+++|...                        
T Consensus       105 ~~~~~kvviIdead~l~~~a~naLLk~lEep-----------~~~~~~Il~t~~~~------------------------  149 (334)
T 1a5t_A          105 RLGGAKVVWVTDAALLTDAAANALLKTLEEP-----------PAETWFFLATREPE------------------------  149 (334)
T ss_dssp             TTSSCEEEEESCGGGBCHHHHHHHHHHHTSC-----------CTTEEEEEEESCGG------------------------
T ss_pred             ccCCcEEEEECchhhcCHHHHHHHHHHhcCC-----------CCCeEEEEEeCChH------------------------
Confidence              34689999999999999999999999973           13567888777532                        


Q ss_pred             cCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          166 RFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       166 ~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                      .+.+.+.+|+ ..+.|+|++.+++.+++...+              .++++++..++..+
T Consensus       150 ~l~~ti~SRc-~~~~~~~~~~~~~~~~L~~~~--------------~~~~~~~~~l~~~s  194 (334)
T 1a5t_A          150 RLLATLRSRC-RLHYLAPPPEQYAVTWLSREV--------------TMSQDALLAALRLS  194 (334)
T ss_dssp             GSCHHHHTTS-EEEECCCCCHHHHHHHHHHHC--------------CCCHHHHHHHHHHT
T ss_pred             hCcHHHhhcc-eeeeCCCCCHHHHHHHHHHhc--------------CCCHHHHHHHHHHc
Confidence            4568999999 889999999999998885432              35777777777654

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.55  E-value=1e-14  Score=133.20  Aligned_cols=153  Identities=16%  Similarity=0.236  Sum_probs=97.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcC-------CCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFG-------SKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPH   90 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (287)
                      ++++|+||||||||++++.++..+..       .+.+++.++++..        ..|.    . ......+++.+...+.
T Consensus       202 ~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~~--------~~g~----~-e~~~~~~~~~~~~~~~  268 (468)
T 3pxg_A          202 NNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTK--------YRGE----F-EDRLKKVMDEIRQAGN  268 (468)
T ss_dssp             CEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----------------------CTTHHHHHHHHHTCCC
T ss_pred             CCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCcc--------ccch----H-HHHHHHHHHHHHhcCC
Confidence            37999999999999999999999733       2445666666510        0000    0 0112355666666666


Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChh
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      .|+|||    ...+.++.|++.++.+             ++.+|+++|.....-                 .  ..++++
T Consensus       269 ~iLfiD----~~~~a~~~L~~~L~~g-------------~v~vI~at~~~e~~~-----------------~--~~~~~a  312 (468)
T 3pxg_A          269 IILFID----AAIDASNILKPSLARG-------------ELQCIGATTLDEYRK-----------------Y--IEKDAA  312 (468)
T ss_dssp             CEEEEC----C--------CCCTTSS-------------SCEEEEECCTTTTHH-----------------H--HTTCSH
T ss_pred             eEEEEe----CchhHHHHHHHhhcCC-------------CEEEEecCCHHHHHH-----------------H--hhcCHH
Confidence            899999    5567778888888764             456888888764210                 0  134689


Q ss_pred             HHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          171 FLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       171 l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                      |.+|| ..+.|++|+.+++.+|+...+..+..     ...+.++++++..++..+
T Consensus       313 l~~Rf-~~i~v~~p~~e~~~~iL~~~~~~~~~-----~~~~~i~~~al~~l~~~s  361 (468)
T 3pxg_A          313 LERRF-QPIQVDQPSVDESIQILQGLRDRYEA-----HHRVSITDDAIEAAVKLS  361 (468)
T ss_dssp             HHHSE-EEEECCCCCHHHHHHHHHHTTTTSGG-----GSSCSCCHHHHHHHHHHH
T ss_pred             HHHhC-ccceeCCCCHHHHHHHHHHHHHHHHH-----hcCCCCCHHHHHHHHHHH
Confidence            99999 67999999999999999766544321     124678889988888753

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.55  E-value=5.6e-14  Score=124.62  Aligned_cols=188  Identities=19%  Similarity=0.153  Sum_probs=118.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC---CCceEEecccccccccch----hhhhCCCCCCCcccc---hhhHHHHHHhC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS---KEAMVRIDMSEYMEKHTV----SKFFGSPPGYVGFEN---GGQLTEAVRHR   88 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~---~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~---~~~~~~~~~~~   88 (287)
                      +++|+||+|||||++++.+++.+...   +..+++++|.........    ...++......+...   ...+...+...
T Consensus        47 ~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~  126 (386)
T 2qby_A           47 NIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDY  126 (386)
T ss_dssp             CEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhcc
Confidence            69999999999999999999987433   567788888654432111    112222221222111   12234444443


Q ss_pred             C-cEEEEEcCccccc----HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHH
Q 047225           89 P-HSVILFDEIEKAH----RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEEL  163 (287)
Q Consensus        89 ~-~~il~iDeid~~~----~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~  163 (287)
                      . ..+|+|||++.+.    .+.+..|.+.++..          ...++.+|++++.....                    
T Consensus       127 ~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~----------~~~~~~~I~~~~~~~~~--------------------  176 (386)
T 2qby_A          127 GSQVVIVLDEIDAFVKKYNDDILYKLSRINSEV----------NKSKISFIGITNDVKFV--------------------  176 (386)
T ss_dssp             CSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSC----------CC--EEEEEEESCGGGG--------------------
T ss_pred             CCeEEEEEcChhhhhccCcCHHHHHHhhchhhc----------CCCeEEEEEEECCCChH--------------------
Confidence            3 5799999999875    45666677766532          01245678888754311                    


Q ss_pred             HhcCChhHHhccCc-eEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          164 RRRFRPEFLNRIDE-VIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       164 ~~~~~~~l~~r~~~-~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                       ..+.+.+.+|+.. .+.++|++.+++.+++...+...       .....++++++++++..++....++|.+.+++..+
T Consensus       177 -~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~-------~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a  248 (386)
T 2qby_A          177 -DLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMA-------FKPGVLPDNVIKLCAALAAREHGDARRALDLLRVS  248 (386)
T ss_dssp             -GGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHH-------BCSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             -hhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhh-------ccCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence             1345778888864 79999999999999997766421       11246788999998887654335566666665554


Q ss_pred             HH
Q 047225          243 LE  244 (287)
Q Consensus       243 ~~  244 (287)
                      ..
T Consensus       249 ~~  250 (386)
T 2qby_A          249 GE  250 (386)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=99.54  E-value=1.4e-13  Score=115.62  Aligned_cols=170  Identities=23%  Similarity=0.335  Sum_probs=107.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||+++++++..+   ...++.+++.++....     .    +. .......+++........++++||+
T Consensus        51 g~ll~G~~G~GKTtl~~~i~~~~---~~~~i~~~~~~~~~~~-----~----~~-~~~~i~~~~~~~~~~~~~i~~~Dei  117 (254)
T 1ixz_A           51 GVLLVGPPGVGKTHLARAVAGEA---RVPFITASGSDFVEMF-----V----GV-GAARVRDLFETAKRHAPCIVFIDEI  117 (254)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEHHHHHHSC-----T----TH-HHHHHHHHHHHHTTSSSEEEEEETH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh---CCCEEEeeHHHHHHHH-----h----hH-HHHHHHHHHHHHHhcCCeEEEehhh
Confidence            39999999999999999999988   4567777765443211     0    00 0000123444444334589999999


Q ss_pred             ccccH--------------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           99 EKAHR--------------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        99 d~~~~--------------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      |.+..              ..++.++..++.+.-         -...++++++|.+.                       
T Consensus       118 d~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~---------~~~~i~~a~t~~p~-----------------------  165 (254)
T 1ixz_A          118 DAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK---------DTAIVVMAATNRPD-----------------------  165 (254)
T ss_dssp             HHHHC---------CHHHHHHHHHHHHHHHTCCT---------TCCEEEEEEESCGG-----------------------
T ss_pred             hhhhcccCccccccchHHHHHHHHHHHHHhCCCC---------CCCEEEEEccCCch-----------------------
Confidence            86521              233444444543210         01346677777652                       


Q ss_pred             hcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhH-HHHHHHhccCCCCCchhHHHHHHH
Q 047225          165 RRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTF-KKKLIEEGYNPSYGARPLRRAIGR  241 (287)
Q Consensus       165 ~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~-~~~l~~~~~~~~~~~r~l~~~i~~  241 (287)
                       .+++++++  ||+..+.+++|+.++..+|++..+.         +  ..+.+++ +..++..  .++++.++++.++++
T Consensus       166 -~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~---------~--~~~~~~~~~~~la~~--~~G~~~~dl~~~~~~  231 (254)
T 1ixz_A          166 -ILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR---------G--KPLAEDVDLALLAKR--TPGFVGADLENLLNE  231 (254)
T ss_dssp             -GSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHT---------T--SCBCTTCCHHHHHHT--CTTCCHHHHHHHHHH
T ss_pred             -hCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHc---------C--CCCCcccCHHHHHHH--cCCCCHHHHHHHHHH
Confidence             35678887  8999999999999999999865432         1  1344444 6666664  234556899999998


Q ss_pred             HHHHHH
Q 047225          242 LLEDNL  247 (287)
Q Consensus       242 ~~~~~~  247 (287)
                      +...+.
T Consensus       232 a~~~a~  237 (254)
T 1ixz_A          232 AALLAA  237 (254)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776443

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.54  E-value=2.4e-14  Score=125.58  Aligned_cols=147  Identities=23%  Similarity=0.372  Sum_probs=102.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCC--ceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHH-----hCCcE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKE--AMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVR-----HRPHS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~   91 (287)
                      +++|+||+|||||++++++++.+.....  .+..++.++......+.               ..+.....     ..++.
T Consensus        48 ~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~~~~~ir---------------~~i~~~~~~~~~~~~~~~  112 (340)
T 1sxj_C           48 HLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVR---------------NQIKDFASTRQIFSKGFK  112 (340)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHH---------------THHHHHHHBCCSSSCSCE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccccHHHHH---------------HHHHHHHhhcccCCCCce
Confidence            5999999999999999999999854332  23344443211100000               01111111     12358


Q ss_pred             EEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhH
Q 047225           92 VILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEF  171 (287)
Q Consensus        92 il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  171 (287)
                      +++|||+|.+..+.++.|++++++..           ....+|+++|...                        .+.+.+
T Consensus       113 viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~il~~n~~~------------------------~i~~~i  157 (340)
T 1sxj_C          113 LIILDEADAMTNAAQNALRRVIERYT-----------KNTRFCVLANYAH------------------------KLTPAL  157 (340)
T ss_dssp             EEEETTGGGSCHHHHHHHHHHHHHTT-----------TTEEEEEEESCGG------------------------GSCHHH
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHhcCC-----------CCeEEEEEecCcc------------------------ccchhH
Confidence            99999999999999999999998631           3456888888642                        346889


Q ss_pred             HhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          172 LNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       172 ~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                      .+|+ ..+.|+|++.+++.+++...+..       .  .+.+++++...++..+
T Consensus       158 ~sR~-~~~~~~~l~~~~~~~~l~~~~~~-------~--~~~i~~~~~~~i~~~s  201 (340)
T 1sxj_C          158 LSQC-TRFRFQPLPQEAIERRIANVLVH-------E--KLKLSPNAEKALIELS  201 (340)
T ss_dssp             HTTS-EEEECCCCCHHHHHHHHHHHHHT-------T--TCCBCHHHHHHHHHHH
T ss_pred             Hhhc-eeEeccCCCHHHHHHHHHHHHHH-------c--CCCCCHHHHHHHHHHc
Confidence            9999 78999999999999888666532       1  3568889998888765

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.51  E-value=6.4e-14  Score=129.54  Aligned_cols=168  Identities=16%  Similarity=0.171  Sum_probs=105.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHH-----HhCCcEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAV-----RHRPHSV   92 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~i   92 (287)
                      .+++|+||||||||++|+++++.+   +.+++.+++++......+...+.......   ....++...     ......+
T Consensus        78 ~~lLL~GppGtGKTtla~~la~~l---~~~~i~in~s~~~~~~~~~~~i~~~~~~~---~~~~~~~~~~~~~~~~~~~~v  151 (516)
T 1sxj_A           78 RAAMLYGPPGIGKTTAAHLVAQEL---GYDILEQNASDVRSKTLLNAGVKNALDNM---SVVGYFKHNEEAQNLNGKHFV  151 (516)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHT---TCEEEEECTTSCCCHHHHHHTGGGGTTBC---CSTTTTTC----CCSSTTSEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc---CCCEEEEeCCCcchHHHHHHHHHHHhccc---cHHHHHhhhhhhhhccCCCeE
Confidence            479999999999999999999998   67889999987654322222211100000   000111111     2245589


Q ss_pred             EEEcCcccccHHH---HHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225           93 ILFDEIEKAHRDV---LNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus        93 l~iDeid~~~~~~---~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      |||||+|.+....   ...|.++++..             +..+|+++|.....                      .+ +
T Consensus       152 liIDEid~l~~~~~~~l~~L~~~l~~~-------------~~~iIli~~~~~~~----------------------~l-~  195 (516)
T 1sxj_A          152 IIMDEVDGMSGGDRGGVGQLAQFCRKT-------------STPLILICNERNLP----------------------KM-R  195 (516)
T ss_dssp             EEECSGGGCCTTSTTHHHHHHHHHHHC-------------SSCEEEEESCTTSS----------------------TT-G
T ss_pred             EEEECCCccchhhHHHHHHHHHHHHhc-------------CCCEEEEEcCCCCc----------------------cc-h
Confidence            9999999986643   46777777752             22355555532211                      12 3


Q ss_pred             hHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          170 EFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       170 ~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      .+.+|+ ..+.|++|+.+++.+++...+.+.         .+.+++++++.|+..+.   .++|.+.+.++
T Consensus       196 ~l~~r~-~~i~f~~~~~~~~~~~L~~i~~~~---------~~~i~~~~l~~la~~s~---GdiR~~i~~L~  253 (516)
T 1sxj_A          196 PFDRVC-LDIQFRRPDANSIKSRLMTIAIRE---------KFKLDPNVIDRLIQTTR---GDIRQVINLLS  253 (516)
T ss_dssp             GGTTTS-EEEECCCCCHHHHHHHHHHHHHHH---------TCCCCTTHHHHHHHHTT---TCHHHHHHHHT
T ss_pred             hhHhce-EEEEeCCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHcC---CcHHHHHHHHH
Confidence            455666 789999999999999987665432         24689999999988742   33444444444

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.51  E-value=4.9e-13  Score=113.89  Aligned_cols=169  Identities=21%  Similarity=0.305  Sum_probs=105.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||+++++++..+   ...++.+++.++.....         +. .......+++........++++||+
T Consensus        75 gvll~Gp~GtGKTtl~~~i~~~~---~~~~i~~~~~~~~~~~~---------~~-~~~~i~~~~~~~~~~~~~i~~iDei  141 (278)
T 1iy2_A           75 GVLLVGPPGVGKTHLARAVAGEA---RVPFITASGSDFVEMFV---------GV-GAARVRDLFETAKRHAPCIVFIDEI  141 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEHHHHHHSTT---------TH-HHHHHHHHHHHHHTSCSEEEEEETH
T ss_pred             eEEEECCCcChHHHHHHHHHHHc---CCCEEEecHHHHHHHHh---------hH-HHHHHHHHHHHHHhcCCcEEehhhh
Confidence            39999999999999999999988   45677777655432110         00 0000123444444344589999999


Q ss_pred             cccc-----------HHHHHH---HHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           99 EKAH-----------RDVLNV---MLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        99 d~~~-----------~~~~~~---L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      |.+.           ......   ++..+..+..         -...++++++|.+.                       
T Consensus       142 d~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~---------~~~~i~~a~t~~p~-----------------------  189 (278)
T 1iy2_A          142 DAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK---------DTAIVVMAATNRPD-----------------------  189 (278)
T ss_dssp             HHHHCC--------CHHHHHHHHHHHHHHTTCCT---------TCCEEEEEEESCTT-----------------------
T ss_pred             HhhhcccccccCCcchHHHHHHHHHHHHHhCCCC---------CCCEEEEEecCCch-----------------------
Confidence            8642           122233   3333332210         11346777777652                       


Q ss_pred             hcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhH-HHHHHHhccCCCCCchhHHHHHHH
Q 047225          165 RRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTF-KKKLIEEGYNPSYGARPLRRAIGR  241 (287)
Q Consensus       165 ~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~-~~~l~~~~~~~~~~~r~l~~~i~~  241 (287)
                       .+++++++  ||+..+.+++|+.++..+|++..+..           ..+++++ +..++.. | +++..++++.++++
T Consensus       190 -~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~-----------~~~~~~~~~~~la~~-~-~G~~~~dl~~l~~~  255 (278)
T 1iy2_A          190 -ILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARG-----------KPLAEDVDLALLAKR-T-PGFVGADLENLLNE  255 (278)
T ss_dssp             -SSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTT-----------SCBCTTCCHHHHHHT-C-TTCCHHHHHHHHHH
T ss_pred             -hCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHcc-----------CCCCcccCHHHHHHH-c-CCCCHHHHHHHHHH
Confidence             35678886  89999999999999999998654321           2344444 5666554 3 34455899999887


Q ss_pred             HHHHH
Q 047225          242 LLEDN  246 (287)
Q Consensus       242 ~~~~~  246 (287)
                      +...+
T Consensus       256 a~~~a  260 (278)
T 1iy2_A          256 AALLA  260 (278)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76644

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.50  E-value=5.6e-14  Score=128.41  Aligned_cols=166  Identities=23%  Similarity=0.326  Sum_probs=106.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccc--hhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN--GGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~il~iD   96 (287)
                      .++|+||||||||+++++++..+   ..+++.++++++....            .+...  ...+++.......+++|||
T Consensus        66 GvLL~GppGtGKTtLaraIa~~~---~~~~i~i~g~~~~~~~------------~g~~~~~v~~lfq~a~~~~p~il~ID  130 (499)
T 2dhr_A           66 GVLLVGPPGVGKTHLARAVAGEA---RVPFITASGSDFVEMF------------VGVGAARVRDLFETAKRHAPCIVFID  130 (499)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHT---TCCEEEEEGGGGTSSC------------TTHHHHHHHHHTTTSSSSSSCEEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh---CCCEEEEehhHHHHhh------------hhhHHHHHHHHHHHHHhcCCCEEEEe
Confidence            49999999999999999999988   5778888887654321            01000  0112222222234799999


Q ss_pred             Cccccc-----------H---HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           97 EIEKAH-----------R---DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        97 eid~~~-----------~---~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      |+|.+.           .   ..++.|+..++.+.-         ....++++++|.+.                     
T Consensus       131 EId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~---------~~~viviAatn~p~---------------------  180 (499)
T 2dhr_A          131 EIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK---------DTAIVVMAATNRPD---------------------  180 (499)
T ss_dssp             CGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCS---------SCCCEEEECCSCGG---------------------
T ss_pred             hHHHHHHhhccCcCCCcHHHHHHHHHHHHHhccccc---------CccEEEEEecCChh---------------------
Confidence            998653           1   233445555543210         12457888888752                     


Q ss_pred             HHhcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhH-HHHHHHhccCCCCCchhHHHHH
Q 047225          163 LRRRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTF-KKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       163 ~~~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~-~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                         .+++++++  ||+..+.+++|+.++..+|++.++.           ...+++++ +..++.. | +++..++++.++
T Consensus       181 ---~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~-----------~~~l~~dv~l~~lA~~-t-~G~~gadL~~lv  244 (499)
T 2dhr_A          181 ---ILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR-----------GKPLAEDVDLALLAKR-T-PGFVGADLENLL  244 (499)
T ss_dssp             ---GSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTS-----------SSCCCCSSTTHHHHTT-S-CSCCHHHHHHHH
T ss_pred             ---hcCcccccccccceEEecCCCCHHHHHHHHHHHHh-----------cCCCChHHHHHHHHHh-c-CCCCHHHHHHHH
Confidence               24677876  8999999999999999998864432           12344444 5555543 3 344558999999


Q ss_pred             HHHHHH
Q 047225          240 GRLLED  245 (287)
Q Consensus       240 ~~~~~~  245 (287)
                      +++...
T Consensus       245 ~~Aa~~  250 (499)
T 2dhr_A          245 NEAALL  250 (499)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            877653

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.48  E-value=6.4e-14  Score=111.85  Aligned_cols=134  Identities=15%  Similarity=0.215  Sum_probs=85.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC-------CCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHH-HhCCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG-------SKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAV-RHRPH   90 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~   90 (287)
                      +++|+||+|||||++++.+++.+..       .+.+++.+++.............        ......+...+ .....
T Consensus        45 ~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~  116 (195)
T 1jbk_A           45 NPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEF--------EERLKGVLNDLAKQEGN  116 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHH--------HHHHHHHHHHHHHSTTT
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHHhccCCccccH--------HHHHHHHHHHHhhcCCC
Confidence            6999999999999999999998733       24566777775543211000000        00011222222 33445


Q ss_pred             EEEEEcCccccc--------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           91 SVILFDEIEKAH--------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        91 ~il~iDeid~~~--------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      .+++|||+|.+.        ...++.|..+++.+             ++.+|+++|......                  
T Consensus       117 ~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~~-------------~~~~i~~~~~~~~~~------------------  165 (195)
T 1jbk_A          117 VILFIDELHTMVGAGKADGAMDAGNMLKPALARG-------------ELHCVGATTLDEYRQ------------------  165 (195)
T ss_dssp             EEEEEETGGGGTT------CCCCHHHHHHHHHTT-------------SCCEEEEECHHHHHH------------------
T ss_pred             eEEEEeCHHHHhccCcccchHHHHHHHHHhhccC-------------CeEEEEeCCHHHHHH------------------
Confidence            799999999985        33467777777653             345777777532110                  


Q ss_pred             HHhcCChhHHhccCceEEeCCCCHHHHHHHH
Q 047225          163 LRRRFRPEFLNRIDEVIVFRQLNKMQLMEIV  193 (287)
Q Consensus       163 ~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il  193 (287)
                       ...+++++.+||. .+.+++|+.++..+++
T Consensus       166 -~~~~~~~l~~r~~-~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          166 -YIEKDAALERRFQ-KVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             -HTTTCHHHHTTEE-EEECCCCCHHHHHTTC
T ss_pred             -HHhcCHHHHHHhc-eeecCCCCHHHHHHHh
Confidence             0124689999994 7999999999988765

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=99.48  E-value=4.2e-13  Score=115.63  Aligned_cols=140  Identities=14%  Similarity=0.171  Sum_probs=99.0

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhc---CCCCceEEecccccccccchhhhhCCCCCCCcccchh
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYF---GSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGG   79 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (287)
                      ++.++..+...+  .++++|+||||+|||++++++++.+.   .....+..++.+..               ..+.+..+
T Consensus         6 ~~~L~~~i~~~~--~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~---------------~~~id~ir   68 (305)
T 2gno_A            6 LETLKRIIEKSE--GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGE---------------NIGIDDIR   68 (305)
T ss_dssp             HHHHHHHHHTCS--SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSS---------------CBCHHHHH
T ss_pred             HHHHHHHHHCCC--CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcC---------------CCCHHHHH
Confidence            455566555544  34799999999999999999998641   12334555554310               11111123


Q ss_pred             hHHHHHHhC----CcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHH
Q 047225           80 QLTEAVRHR----PHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQM  155 (287)
Q Consensus        80 ~~~~~~~~~----~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~  155 (287)
                      .+.+.+...    ++.|++|||+|.+....+++|++.+++.           .+++++|++|+.+.              
T Consensus        69 ~li~~~~~~p~~~~~kvviIdead~lt~~a~naLLk~LEep-----------~~~t~fIl~t~~~~--------------  123 (305)
T 2gno_A           69 TIKDFLNYSPELYTRKYVIVHDCERMTQQAANAFLKALEEP-----------PEYAVIVLNTRRWH--------------  123 (305)
T ss_dssp             HHHHHHTSCCSSSSSEEEEETTGGGBCHHHHHHTHHHHHSC-----------CTTEEEEEEESCGG--------------
T ss_pred             HHHHHHhhccccCCceEEEeccHHHhCHHHHHHHHHHHhCC-----------CCCeEEEEEECChH--------------
Confidence            444444432    3589999999999999999999999973           23567888776532              


Q ss_pred             HHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHH
Q 047225          156 ERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIML  197 (287)
Q Consensus       156 ~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l  197 (287)
                                .+.+.+.+|   .+.|+|++.+++.+++...+
T Consensus       124 ----------kl~~tI~SR---~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A          124 ----------YLLPTIKSR---VFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             ----------GSCHHHHTT---SEEEECCCCHHHHHHHHHHH
T ss_pred             ----------hChHHHHce---eEeCCCCCHHHHHHHHHHHh
Confidence                      456899999   89999999999999997765

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=99.47  E-value=3.2e-13  Score=131.91  Aligned_cols=158  Identities=15%  Similarity=0.193  Sum_probs=98.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC-------CCCceEEecccccccccchhhhhCCCCCCCccc--chhhHHHHHHhC-
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG-------SKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE--NGGQLTEAVRHR-   88 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~-   88 (287)
                      +++|+||||||||++++.++..+..       .+.+++.++++.......          +.|..  ....++..+... 
T Consensus       193 ~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g~~----------~~g~~~~~l~~~~~~~~~~~  262 (854)
T 1qvr_A          193 NPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAK----------YRGEFEERLKAVIQEVVQSQ  262 (854)
T ss_dssp             CCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------------------CHHHHHHHHHHHHHTTC
T ss_pred             ceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhccCc----------cchHHHHHHHHHHHHHHhcC
Confidence            6899999999999999999998732       256777888765532110          11100  012334444433 


Q ss_pred             CcEEEEEcCccccc--------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHH
Q 047225           89 PHSVILFDEIEKAH--------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVA  160 (287)
Q Consensus        89 ~~~il~iDeid~~~--------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~  160 (287)
                      ...||||||++.+.        .+..+.|.++++.+             .+.+|+++|.+...                 
T Consensus       263 ~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~~-------------~i~~I~at~~~~~~-----------------  312 (854)
T 1qvr_A          263 GEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG-------------ELRLIGATTLDEYR-----------------  312 (854)
T ss_dssp             SSEEEEECCC-------------------HHHHHTT-------------CCCEEEEECHHHHH-----------------
T ss_pred             CCeEEEEecHHHHhccCCccchHHHHHHHHHHHhCC-------------CeEEEEecCchHHh-----------------
Confidence            45799999999886        45666788888764             33577877754211                 


Q ss_pred             HHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          161 EELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                         +-...++|.+||+ .+.+++|+.++..+|++..+.++....     .+.++++++..++..+
T Consensus       313 ---~~~~d~aL~rRf~-~i~l~~p~~~e~~~iL~~~~~~~~~~~-----~~~i~~~al~~~~~ls  368 (854)
T 1qvr_A          313 ---EIEKDPALERRFQ-PVYVDEPTVEETISILRGLKEKYEVHH-----GVRISDSAIIAAATLS  368 (854)
T ss_dssp             ---HHTTCTTTCSCCC-CEEECCCCHHHHHHHHHHHHHHHHHHT-----TCEECHHHHHHHHHHH
T ss_pred             ---hhccCHHHHhCCc-eEEeCCCCHHHHHHHHHhhhhhhhhhc-----CCCCCHHHHHHHHHHH
Confidence               0134689999995 699999999999999988876654321     4688999999998764

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=99.45  E-value=2.9e-13  Score=142.93  Aligned_cols=203  Identities=17%  Similarity=0.203  Sum_probs=125.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||++|+.+....  .+..+..++++.......+...+......... ..+.+......+...|+||||+
T Consensus      1269 ~vLL~GPpGtGKT~la~~~l~~~--~~~~~~~infsa~ts~~~~~~~i~~~~~~~~~-~~g~~~~P~~~gk~~VlFiDEi 1345 (2695)
T 4akg_A         1269 GIILCGPPGSGKTMIMNNALRNS--SLYDVVGINFSKDTTTEHILSALHRHTNYVTT-SKGLTLLPKSDIKNLVLFCDEI 1345 (2695)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC--SSCEEEEEECCTTCCHHHHHHHHHHHBCCEEE-TTTEEEEEBSSSSCEEEEEETT
T ss_pred             eEEEECCCCCCHHHHHHHHHhcC--CCCceEEEEeecCCCHHHHHHHHHHHhhhccc-cCCccccCCCCCceEEEEeccc
Confidence            69999999999999996655544  24677788887766543333222111000000 0000000000123469999999


Q ss_pred             ccccH------HHHHHHHHhhcCceeecCC-CceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhH
Q 047225           99 EKAHR------DVLNVMLQLLDDGRVTDGK-GQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEF  171 (287)
Q Consensus        99 d~~~~------~~~~~L~~~l~~~~~~~~~-g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  171 (287)
                      |....      ..++.|+++++.|.+.... +..+...++.+|+|+|+++...                   +..++++|
T Consensus      1346 nmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gG-------------------R~~l~~rl 1406 (2695)
T 4akg_A         1346 NLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPG-------------------RIPMSERF 1406 (2695)
T ss_dssp             TCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTT-------------------CCCCCHHH
T ss_pred             ccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCC-------------------CccCChhh
Confidence            86543      3788999999998877653 5667778999999999975211                   12578999


Q ss_pred             HhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHh-cCcE---EEeChhHHHHHHHh-----ccCCCCCchhHHHHHHHH
Q 047225          172 LNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEA-KNME---LTVTHTFKKKLIEE-----GYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       172 ~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~-~~~~---~~i~~~~~~~l~~~-----~~~~~~~~r~l~~~i~~~  242 (287)
                      ++|| ..+.+++|+.+++..|+...+......... .+..   +...-++...+...     ..++-++.|++.++++.+
T Consensus      1407 lRrf-~vi~i~~P~~~~l~~I~~~il~~~l~~~~~v~~~~~~lv~ati~~y~~v~~~~~~~~k~HY~FnlRDLsrv~qGl 1485 (2695)
T 4akg_A         1407 TRHA-AILYLGYPSGKSLSQIYEIYYKAIFKLVPEFRSYTEPFARASVHLYNECKARYSTGLQSHYLFSPRELTRLVRGV 1485 (2695)
T ss_dssp             HTTE-EEEECCCCTTTHHHHHHHHHHHHHTTSSGGGGGGHHHHHHHHHHHHHHHHHHSCTTTCTTCCCCHHHHHHHHHHH
T ss_pred             hhee-eEEEeCCCCHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCCcccCHHHHHHHHHHH
Confidence            9999 999999999999999998887643210000 0000   00011111121111     234577999999999877


Q ss_pred             HH
Q 047225          243 LE  244 (287)
Q Consensus       243 ~~  244 (287)
                      +.
T Consensus      1486 l~ 1487 (2695)
T 4akg_A         1486 YT 1487 (2695)
T ss_dssp             HH
T ss_pred             Hh
Confidence            65

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.42  E-value=3.5e-13  Score=130.11  Aligned_cols=153  Identities=17%  Similarity=0.245  Sum_probs=96.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCC-------CCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGS-------KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPH   90 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (287)
                      ++++|+||||||||++|+.+|+.+...       +..++.+++..        ...|    .. ......+++.+.....
T Consensus       202 ~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~g~--------~~~G----~~-e~~l~~~~~~~~~~~~  268 (758)
T 3pxi_A          202 NNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGT--------KYRG----EF-EDRLKKVMDEIRQAGN  268 (758)
T ss_dssp             CEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----------------------CTTHHHHHHHHHTCCC
T ss_pred             CCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecccc--------cccc----hH-HHHHHHHHHHHHhcCC
Confidence            379999999999999999999997332       33444444400        0000    00 0012355666666666


Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChh
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      .|||||    ...+.++.|++.++.+             .+.+|+++|+....-                   ...++++
T Consensus       269 ~iLfiD----~~~~~~~~L~~~l~~~-------------~v~~I~at~~~~~~~-------------------~~~~d~a  312 (758)
T 3pxi_A          269 IILFID----AAIDASNILKPSLARG-------------ELQCIGATTLDEYRK-------------------YIEKDAA  312 (758)
T ss_dssp             CEEEEC----C--------CCCTTSS-------------SCEEEEECCTTTTHH-------------------HHTTCSH
T ss_pred             EEEEEc----CchhHHHHHHHHHhcC-------------CEEEEeCCChHHHHH-------------------HhhccHH
Confidence            899999    5556778888888754             456888888764210                   0134789


Q ss_pred             HHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          171 FLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       171 l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                      |.+|| ..+.|++|+.+++.+|+...+..+..     ...+.++++++..++..+
T Consensus       313 l~rRf-~~i~v~~p~~~~~~~il~~~~~~~~~-----~~~~~i~~~al~~~~~~s  361 (758)
T 3pxi_A          313 LERRF-QPIQVDQPSVDESIQILQGLRDRYEA-----HHRVSITDDAIEAAVKLS  361 (758)
T ss_dssp             HHHSE-EEEECCCCCHHHHHHHHHHTTTTSGG-----GSSCSCCHHHHHHHHHHH
T ss_pred             HHhhC-cEEEeCCCCHHHHHHHHHHHHHHHHH-----hcCCCCCHHHHHHHHHHh
Confidence            99999 78999999999999999766543221     124678999999888753

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=99.42  E-value=9.6e-14  Score=147.35  Aligned_cols=200  Identities=18%  Similarity=0.227  Sum_probs=130.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccch-hhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENG-GQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~il~iDe   97 (287)
                      +++|+||||||||.+++.....+.  +.+++.++++...+...+...+....... .... +.+......+.+.|+||||
T Consensus      1306 pvLL~GptGtGKT~li~~~L~~l~--~~~~~~infS~~Tta~~l~~~~e~~~e~~-~~~~~G~~~~p~~~Gk~~VlFiDD 1382 (3245)
T 3vkg_A         1306 PLILCGPPGSGKTMTLTSTLRAFP--DFEVVSLNFSSATTPELLLKTFDHHCEYK-RTPSGETVLRPTQLGKWLVVFCDE 1382 (3245)
T ss_dssp             CCEEESSTTSSHHHHHHHHGGGCT--TEEEEEECCCTTCCHHHHHHHHHHHEEEE-ECTTSCEEEEESSTTCEEEEEETT
T ss_pred             cEEEECCCCCCHHHHHHHHHHhCC--CCceEEEEeeCCCCHHHHHHHHhhcceEE-eccCCCcccCCCcCCceEEEEecc
Confidence            599999999999988766555542  45678899988887654444332100000 0000 1111111223456999999


Q ss_pred             cccccHH------HHHHHHHhhcCceeecCC-CceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChh
Q 047225           98 IEKAHRD------VLNVMLQLLDDGRVTDGK-GQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        98 id~~~~~------~~~~L~~~l~~~~~~~~~-g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      ++...++      .++.|+++++.|.+++.. +..+...++.+|+|+||+..+.                   +..+++.
T Consensus      1383 iNmp~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gG-------------------r~~l~~R 1443 (3245)
T 3vkg_A         1383 INLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAG-------------------RVQLTHR 1443 (3245)
T ss_dssp             TTCCCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTT-------------------CCCCCHH
T ss_pred             cCCCCccccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCC-------------------CccCCHH
Confidence            9977654      889999999998888764 6677788999999999875321                   2357899


Q ss_pred             HHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHH------------hccCCCCCchhHHHH
Q 047225          171 FLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIE------------EGYNPSYGARPLRRA  238 (287)
Q Consensus       171 l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~------------~~~~~~~~~r~l~~~  238 (287)
                      |++|| ..+.+++|+.+++..|+..++.........-   ..+.+.+++....            ...++-++.|++.++
T Consensus      1444 f~r~F-~vi~i~~ps~esL~~If~til~~~l~~~p~l---~~~~~~lv~ati~ly~~v~~~~lp~~k~HY~FnLRDLsrv 1519 (3245)
T 3vkg_A         1444 FLRHA-PILLVDFPSTSSLTQIYGTFNRALMKLLPNL---RSFADNLTDAMVEFYSESQKRFTPDIQAHYIYSPRELSRW 1519 (3245)
T ss_dssp             HHTTC-CEEECCCCCHHHHHHHHHHHHHHHTTSCGGG---TTSHHHHHHHHHHHHHHHHHHSCTTTSTTCCCCHHHHHHH
T ss_pred             HHhhc-eEEEeCCCCHHHHHHHHHHHHHHHHhhChHH---HHHHHHHHHHHHHHHHHHHHhcCCCcCCCccccHHHHHHH
Confidence            99999 8899999999999999887765432110000   0011222222211            112456799999999


Q ss_pred             HHHHHH
Q 047225          239 IGRLLE  244 (287)
Q Consensus       239 i~~~~~  244 (287)
                      ++.++.
T Consensus      1520 ~qGll~ 1525 (3245)
T 3vkg_A         1520 DRALLE 1525 (3245)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            987665

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=99.41  E-value=9.5e-13  Score=127.19  Aligned_cols=158  Identities=18%  Similarity=0.275  Sum_probs=104.1

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCC-------CCceEEecccccccccchhhhhCCCCCCCcccc--hhhHHHHHHhC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGS-------KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN--GGQLTEAVRHR   88 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~   88 (287)
                      ++++|+||||||||++++.++..+...       +..++.++++.....          ..+.|..+  ...+++.+...
T Consensus       208 ~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~----------~~~~g~~e~~l~~~~~~~~~~  277 (758)
T 1r6b_X          208 NNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAG----------TKYRGDFEKRFKALLKQLEQD  277 (758)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CC----------CCCSSCHHHHHHHHHHHHSSS
T ss_pred             CCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhcc----------ccccchHHHHHHHHHHHHHhc
Confidence            379999999999999999999987322       223344444332210          01111111  12344455555


Q ss_pred             CcEEEEEcCcccc---------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHH
Q 047225           89 PHSVILFDEIEKA---------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGV  159 (287)
Q Consensus        89 ~~~il~iDeid~~---------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~  159 (287)
                      ...+|||||++.+         ..+..+.|.++++.+             ++.+|+++|+...                 
T Consensus       278 ~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~~-------------~~~~I~at~~~~~-----------------  327 (758)
T 1r6b_X          278 TNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG-------------KIRVIGSTTYQEF-----------------  327 (758)
T ss_dssp             SCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSC-------------CCEEEEEECHHHH-----------------
T ss_pred             CCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhCC-------------CeEEEEEeCchHH-----------------
Confidence            5689999999987         455666777777653             4468888875321                 


Q ss_pred             HHHHHh--cCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          160 AEELRR--RFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       160 ~~~~~~--~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                          .+  ..+++|.+|| ..+.+++|+.++..+++...+..+....     .+.++++++..++..+
T Consensus       328 ----~~~~~~d~aL~~Rf-~~i~v~~p~~~e~~~il~~l~~~~~~~~-----~v~~~~~al~~~~~~s  385 (758)
T 1r6b_X          328 ----SNIFEKDRALARRF-QKIDITEPSIEETVQIINGLKPKYEAHH-----DVRYTAKAVRAAVELA  385 (758)
T ss_dssp             ----HCCCCCTTSSGGGE-EEEECCCCCHHHHHHHHHHHHHHHHHHH-----TCCCCHHHHHHHHHHH
T ss_pred             ----hhhhhcCHHHHhCc-eEEEcCCCCHHHHHHHHHHHHHHHHHhc-----CCCCCHHHHHHHHHHh
Confidence                11  2357799999 5899999999999999988776654322     3568899999888654

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.40  E-value=5.4e-13  Score=106.01  Aligned_cols=126  Identities=21%  Similarity=0.266  Sum_probs=79.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC-------CCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhC-Cc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG-------SKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHR-PH   90 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~   90 (287)
                      +++|+||||||||++++.+++.+..       .+.+++.+++.............        ......+...+... ..
T Consensus        45 ~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~  116 (187)
T 2p65_A           45 NPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSLIAGAKYRGDF--------EERLKSILKEVQDAEGQ  116 (187)
T ss_dssp             EEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECHHHHHHHCCSHHHH--------HHHHHHHHHHHHHTTTS
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeHHHhhcCCCchhHH--------HHHHHHHHHHHHhcCCc
Confidence            6999999999999999999998844       24566666665433211000000        00012233333333 45


Q ss_pred             EEEEEcCccccc---------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHH
Q 047225           91 SVILFDEIEKAH---------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAE  161 (287)
Q Consensus        91 ~il~iDeid~~~---------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~  161 (287)
                      .+|+|||++.+.         .++++.|..+++.+             ++.+|+++|......                 
T Consensus       117 ~vl~iDe~~~l~~~~~~~~~~~~~~~~l~~~~~~~-------------~~~ii~~~~~~~~~~-----------------  166 (187)
T 2p65_A          117 VVMFIDEIHTVVGAGAVAEGALDAGNILKPMLARG-------------ELRCIGATTVSEYRQ-----------------  166 (187)
T ss_dssp             EEEEETTGGGGSSSSSSCTTSCCTHHHHHHHHHTT-------------CSCEEEEECHHHHHH-----------------
T ss_pred             eEEEEeCHHHhcccccccccchHHHHHHHHHHhcC-------------CeeEEEecCHHHHHH-----------------
Confidence            799999999986         56677787777652             346888887542110                 


Q ss_pred             HHHhcCChhHHhccCceEEeCCCC
Q 047225          162 ELRRRFRPEFLNRIDEVIVFRQLN  185 (287)
Q Consensus       162 ~~~~~~~~~l~~r~~~~i~~~~~~  185 (287)
                        ...+.+++.+||. .+.+++|+
T Consensus       167 --~~~~~~~l~~R~~-~i~i~~p~  187 (187)
T 2p65_A          167 --FIEKDKALERRFQ-QILVEQPS  187 (187)
T ss_dssp             --HTTTCHHHHHHEE-EEECCSCC
T ss_pred             --HHhccHHHHHhcC-cccCCCCC
Confidence              0134689999994 69998885

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=99.36  E-value=3.5e-12  Score=114.08  Aligned_cols=179  Identities=16%  Similarity=0.124  Sum_probs=103.3

Q ss_pred             EEEEeccCCChHHHHHHHH-HHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANAL-AFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~l-a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      |++|.|+||| ||.+++.+ +..+..  ..++...++.... ....  +..+   .| .  ..-...+...+.+++|+||
T Consensus       241 hVLL~G~PGt-KS~Lar~i~~~i~pR--~~ft~g~~ss~~g-Lt~s--~r~~---tG-~--~~~~G~l~LAdgGvl~lDE  308 (506)
T 3f8t_A          241 HVLLAGYPVV-CSEILHHVLDHLAPR--GVYVDLRRTELTD-LTAV--LKED---RG-W--ALRAGAAVLADGGILAVDH  308 (506)
T ss_dssp             CEEEESCHHH-HHHHHHHHHHHTCSS--EEEEEGGGCCHHH-HSEE--EEES---SS-E--EEEECHHHHTTTSEEEEEC
T ss_pred             eEEEECCCCh-HHHHHHHHHHHhCCC--eEEecCCCCCccC-ceEE--EEcC---CC-c--ccCCCeeEEcCCCeeehHh
Confidence            7999999999 99999999 766521  1111111111000 0000  1111   11 1  0112233334557999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCc
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDE  177 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~  177 (287)
                      ++++++..+.+|++.|+++.++.. |. .-..++.+|+|+|+.. ....     ....       -...+++++++|||.
T Consensus       309 In~~~~~~qsaLlEaMEe~~VtI~-G~-~lparf~VIAA~NP~~-~yd~-----~~s~-------~~~~Lp~alLDRFDL  373 (506)
T 3f8t_A          309 LEGAPEPHRWALMEAMDKGTVTVD-GI-ALNARCAVLAAINPGE-QWPS-----DPPI-------ARIDLDQDFLSHFDL  373 (506)
T ss_dssp             CTTCCHHHHHHHHHHHHHSEEEET-TE-EEECCCEEEEEECCCC---CC-----SCGG-------GGCCSCHHHHTTCSE
T ss_pred             hhhCCHHHHHHHHHHHhCCcEEEC-CE-EcCCCeEEEEEeCccc-ccCC-----CCCc-------cccCCChHHhhheee
Confidence            999999999999999999999886 66 3335899999999975 2100     0000       023789999999986


Q ss_pred             e-EEeCCCCHHHHHH-----HHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHh
Q 047225          178 V-IVFRQLNKMQLME-----IVDIMLKEIYERLEAKNMELTVTHTFKKKLIEE  224 (287)
Q Consensus       178 ~-i~~~~~~~~~~~~-----il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~  224 (287)
                      . +....++.++-.+     +-...+.++....+.....+.+++++.++|...
T Consensus       374 i~i~~d~pd~e~d~e~~~~~ls~e~L~~yi~~ar~~~~~p~ls~ea~~yI~~~  426 (506)
T 3f8t_A          374 IAFLGVDPRPGEPEEQDTEVPSYTLLRRYLLYAIREHPAPELTEEARKRLEHW  426 (506)
T ss_dssp             EEETTC--------------CCHHHHHHHHHHHHHHCSCCEECHHHHHHHHHH
T ss_pred             EEEecCCCChhHhhcccCCCCCHHHHHHHHHHHHhcCCCceeCHHHHHHHHHH
Confidence            5 4455555433211     112223333333331233578999999988753

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=99.34  E-value=2.2e-11  Score=128.93  Aligned_cols=135  Identities=19%  Similarity=0.230  Sum_probs=104.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +.++.||+|||||++++.+|+.+   +.+++.++|++..+...+.               +.+..++..+  .+++|||+
T Consensus       647 ~~~l~GpaGtGKTe~vk~LA~~l---g~~~v~~nc~e~ld~~~lg---------------~~~~g~~~~G--aw~~~DE~  706 (2695)
T 4akg_A          647 GGCFFGPAGTGKTETVKAFGQNL---GRVVVVFNCDDSFDYQVLS---------------RLLVGITQIG--AWGCFDEF  706 (2695)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTT---TCCCEEEETTSSCCHHHHH---------------HHHHHHHHHT--CEEEEETT
T ss_pred             CCcccCCCCCCcHHHHHHHHHHh---CCcEEEEECCCCCChhHhh---------------HHHHHHHhcC--CEeeehhh
Confidence            47899999999999999999999   8899999999877653331               2344555555  49999999


Q ss_pred             ccccHHHHHHH-------HHhhcCceeecC-CCceeec-cceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225           99 EKAHRDVLNVM-------LQLLDDGRVTDG-KGQTVDL-KNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus        99 d~~~~~~~~~L-------~~~l~~~~~~~~-~g~~i~~-~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      |+++++++..+       ...+.++..... .|..+.. +.+.+++|+||+..+.                    ..++.
T Consensus       707 nr~~~evLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPgy~g~--------------------~eLP~  766 (2695)
T 4akg_A          707 NRLDEKVLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNGR--------------------SELPE  766 (2695)
T ss_dssp             TSSCHHHHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEECCCSSSS--------------------CCCCH
T ss_pred             hhcChHHHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCCCccCc--------------------ccccH
Confidence            99999998887       344444432222 4777776 4789999999975432                    35788


Q ss_pred             hHHhccCceEEeCCCCHHHHHHHHH
Q 047225          170 EFLNRIDEVIVFRQLNKMQLMEIVD  194 (287)
Q Consensus       170 ~l~~r~~~~i~~~~~~~~~~~~il~  194 (287)
                      +|.+|| ..+.+..|+.+.+.+|+.
T Consensus       767 ~Lk~~F-r~v~m~~Pd~~~i~ei~l  790 (2695)
T 4akg_A          767 NLKKSF-REFSMKSPQSGTIAEMIL  790 (2695)
T ss_dssp             HHHTTE-EEEECCCCCHHHHHHHHH
T ss_pred             HHHhhe-EEEEeeCCCHHHHHHHHH
Confidence            999999 889999999999888863

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=99.26  E-value=1.4e-10  Score=123.70  Aligned_cols=173  Identities=15%  Similarity=0.179  Sum_probs=120.0

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCcc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIE   99 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid   99 (287)
                      ..+.||+|||||.+++.||+.+   +..++.++|++..+.....               +.+...+..+.  +.+|||++
T Consensus       607 g~~~GPaGtGKTet~k~La~~l---gr~~~vfnC~~~~d~~~~g---------------~i~~G~~~~Ga--W~cfDEfN  666 (3245)
T 3vkg_A          607 GNPFGPAGTGKTETVKALGSQL---GRFVLVFCCDEGFDLQAMS---------------RIFVGLCQCGA--WGCFDEFN  666 (3245)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHT---TCCEEEEECSSCCCHHHHH---------------HHHHHHHHHTC--EEEEETTT
T ss_pred             CCCCCCCCCCHHHHHHHHHHHh---CCeEEEEeCCCCCCHHHHH---------------HHHhhHhhcCc--EEEehhhh
Confidence            5689999999999999999999   7899999998877653222               23345555554  89999999


Q ss_pred             cccHHHHHHHHHhhc---------CceeecCCCceeec-cceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCCh
Q 047225          100 KAHRDVLNVMLQLLD---------DGRVTDGKGQTVDL-KNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRP  169 (287)
Q Consensus       100 ~~~~~~~~~L~~~l~---------~~~~~~~~g~~i~~-~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (287)
                      +++.+++..+.+.+.         ...+...+|..+.+ +.+.+++|+||+..+.                    ..++.
T Consensus       667 rl~~~vLSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr--------------------~eLP~  726 (3245)
T 3vkg_A          667 RLEERILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGR--------------------SNLPD  726 (3245)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGC--------------------CCSCH
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCc--------------------ccChH
Confidence            999999888776554         33454533777776 4789999999976543                    35788


Q ss_pred             hHHhccCceEEeCCCCHHHHHHHHHHHH-----HHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          170 EFLNRIDEVIVFRQLNKMQLMEIVDIML-----KEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       170 ~l~~r~~~~i~~~~~~~~~~~~il~~~l-----~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      .|.++| ..|.++.|+.+.+.+|+....     ...+.++.       --...+....+...++.+|+|.++.++.
T Consensus       727 nLk~lF-r~v~m~~Pd~~~i~ei~L~s~Gf~~a~~La~k~~-------~~~~l~~e~LS~Q~HYDfGLRalKsVL~  794 (3245)
T 3vkg_A          727 NLKKLF-RSMAMIKPDREMIAQVMLYSQGFKTAEVLAGKIV-------PLFKLCQEQLSAQSHYDFGLRALKSVLV  794 (3245)
T ss_dssp             HHHTTE-EEEECCSCCHHHHHHHHHHTTTCSCHHHHHHHHH-------HHHHHHHHSSCCCTTCCCSHHHHHHHHH
T ss_pred             HHHhhc-EEEEEeCCCHHHHHHHHHHHcccchHHHHHHHHH-------HHHHHHHHHhCCCCCCCCChHHHHHHHH
Confidence            999999 889999999999999873321     11111111       0011222222334566788888888776

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=99.25  E-value=7.2e-11  Score=105.66  Aligned_cols=194  Identities=12%  Similarity=0.084  Sum_probs=112.1

Q ss_pred             EEEE--eccCCChHHHHHHHHHHHhcCC------CCceEEecccccccccc----hhhhhCCCCCCCcccc---hhhHHH
Q 047225           19 SFLF--TGPTGVGKTELANALAFEYFGS------KEAMVRIDMSEYMEKHT----VSKFFGSPPGYVGFEN---GGQLTE   83 (287)
Q Consensus        19 ~ill--~Gp~GtGKT~la~~la~~l~~~------~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~---~~~~~~   83 (287)
                      ++++  +||+|+|||++++.+++.+...      +..+++++|........    +...++......+...   ...+..
T Consensus        52 ~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~  131 (412)
T 1w5s_A           52 NMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVD  131 (412)
T ss_dssp             EEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHH
T ss_pred             EEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHH
Confidence            6888  9999999999999999887321      35667888754432211    1122232211112111   122333


Q ss_pred             HHH-hCCcEEEEEcCccccc------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHH
Q 047225           84 AVR-HRPHSVILFDEIEKAH------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQME  156 (287)
Q Consensus        84 ~~~-~~~~~il~iDeid~~~------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~  156 (287)
                      .+. .....+|+|||++.+.      .+.+..|.+.+.....   .+.   ..++.+|++++....             .
T Consensus       132 ~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~---~~~---~~~v~lI~~~~~~~~-------------~  192 (412)
T 1w5s_A          132 NLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPS---RDG---VNRIGFLLVASDVRA-------------L  192 (412)
T ss_dssp             HHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCC---TTS---CCBEEEEEEEEETHH-------------H
T ss_pred             HHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhccc---CCC---CceEEEEEEeccccH-------------H
Confidence            333 2445799999999875      3666666666653210   010   024567777764311             0


Q ss_pred             HHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCC---CCch
Q 047225          157 RGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPS---YGAR  233 (287)
Q Consensus       157 ~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~---~~~r  233 (287)
                      ..+.    .. .+.+.+++...+.++|++.++..+++...+...       +....++++++..++..+....   ..++
T Consensus       193 ~~l~----~~-~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~-------~~~~~~~~~~~~~i~~~~~~~~~~~G~p~  260 (412)
T 1w5s_A          193 SYMR----EK-IPQVESQIGFKLHLPAYKSRELYTILEQRAELG-------LRDTVWEPRHLELISDVYGEDKGGDGSAR  260 (412)
T ss_dssp             HHHH----HH-CHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHH-------BCTTSCCHHHHHHHHHHHCGGGTSCCCHH
T ss_pred             HHHh----hh-cchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhc-------CCCCCCChHHHHHHHHHHHHhccCCCcHH
Confidence            1110    00 045667776669999999999999997665432       1112478889999988765322   4556


Q ss_pred             hHHHHHHHHH
Q 047225          234 PLRRAIGRLL  243 (287)
Q Consensus       234 ~l~~~i~~~~  243 (287)
                      .+...+..++
T Consensus       261 ~~~~l~~~a~  270 (412)
T 1w5s_A          261 RAIVALKMAC  270 (412)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6666655443

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=99.13  E-value=1.3e-10  Score=92.28  Aligned_cols=104  Identities=16%  Similarity=0.195  Sum_probs=66.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc-CCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF-GSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++|+||+|||||+++++++..+. ..+..++.+++.+.....  ...+...       ....+...+...  .+++|||
T Consensus        40 ~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~~~~~~~--~~~~~~~-------~~~~~~~~~~~~--~llilDE  108 (180)
T 3ec2_A           40 GLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFRL--KHLMDEG-------KDTKFLKTVLNS--PVLVLDD  108 (180)
T ss_dssp             EEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHHHHHHHH--HHHHHHT-------CCSHHHHHHHTC--SEEEEET
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHH--HHHhcCc-------hHHHHHHHhcCC--CEEEEeC
Confidence            699999999999999999999884 334455666665543321  1111000       001344444444  4999999


Q ss_pred             cc--cccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchh
Q 047225           98 IE--KAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSV  143 (287)
Q Consensus        98 id--~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~  143 (287)
                      ++  .+++.....|..+++...          ..+..+|++||.....
T Consensus       109 ~~~~~~~~~~~~~l~~ll~~~~----------~~~~~ii~tsn~~~~~  146 (180)
T 3ec2_A          109 LGSERLSDWQRELISYIITYRY----------NNLKSTIITTNYSLQR  146 (180)
T ss_dssp             CSSSCCCHHHHHHHHHHHHHHH----------HTTCEEEEECCCCSCC
T ss_pred             CCCCcCCHHHHHHHHHHHHHHH----------HcCCCEEEEcCCChhH
Confidence            98  677877788888776421          0134688899887543

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=99.11  E-value=1.5e-10  Score=89.10  Aligned_cols=91  Identities=15%  Similarity=0.212  Sum_probs=62.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||+|+|||+++++++..+...+...++++..+....                    .   .+..  ..+++|||+
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~~--------------------~---~~~~--~~lLilDE~   92 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPLT--------------------D---AAFE--AEYLAVDQV   92 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCCC--------------------G---GGGG--CSEEEEEST
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhHH--------------------H---HHhC--CCEEEEeCc
Confidence            69999999999999999999988655555666666543321                    0   1112  259999999


Q ss_pred             ccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchh
Q 047225           99 EKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSV  143 (287)
Q Consensus        99 d~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~  143 (287)
                      +.++...+..|+++++.....         ....+|+++|..+..
T Consensus        93 ~~~~~~~~~~l~~li~~~~~~---------g~~~iiits~~~p~~  128 (149)
T 2kjq_A           93 EKLGNEEQALLFSIFNRFRNS---------GKGFLLLGSEYTPQQ  128 (149)
T ss_dssp             TCCCSHHHHHHHHHHHHHHHH---------TCCEEEEEESSCTTT
T ss_pred             cccChHHHHHHHHHHHHHHHc---------CCcEEEEECCCCHHH
Confidence            998776688888887642110         122377788865543

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=98.98  E-value=7.3e-09  Score=90.62  Aligned_cols=165  Identities=14%  Similarity=0.099  Sum_probs=108.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCC-CceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh----CCcEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSK-EAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH----RPHSV   92 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~i   92 (287)
                      +.++|+||+|+||++.++.+++.+...+ .+...+....   .                .....+.+.+..    +++.+
T Consensus        19 ~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~---~----------------~~~~~l~~~~~~~plf~~~kv   79 (343)
T 1jr3_D           19 AAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDP---N----------------TDWNAIFSLCQAMSLFASRQT   79 (343)
T ss_dssp             SEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECCT---T----------------CCHHHHHHHHHHHHHCCSCEE
T ss_pred             cEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEecC---C----------------CCHHHHHHHhcCcCCccCCeE
Confidence            3699999999999999999998773211 1211111110   0                011233333322    45679


Q ss_pred             EEEcCccc-ccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhH
Q 047225           93 ILFDEIEK-AHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEF  171 (287)
Q Consensus        93 l~iDeid~-~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  171 (287)
                      ++|||++. ++...++.|++.+++.           .+++++|++++.....-.                  ...+.+.+
T Consensus        80 vii~~~~~kl~~~~~~aLl~~le~p-----------~~~~~~il~~~~~~~~~~------------------~~k~~~~i  130 (343)
T 1jr3_D           80 LLLLLPENGPNAAINEQLLTLTGLL-----------HDDLLLIVRGNKLSKAQE------------------NAAWFTAL  130 (343)
T ss_dssp             EEEECCSSCCCTTHHHHHHHHHTTC-----------BTTEEEEEEESCCCTTTT------------------TSHHHHHH
T ss_pred             EEEECCCCCCChHHHHHHHHHHhcC-----------CCCeEEEEEcCCCChhhH------------------hhHHHHHH
Confidence            99999999 9999999999999862           235566666543211000                  01234677


Q ss_pred             HhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHH
Q 047225          172 LNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLL  243 (287)
Q Consensus       172 ~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~  243 (287)
                      .+|+ ..+.|.|++..++..++...+.+.         ++.+++++++.++....   .+.+.+.+.++++.
T Consensus       131 ~sr~-~~~~~~~l~~~~l~~~l~~~~~~~---------g~~i~~~a~~~l~~~~~---gdl~~~~~elekl~  189 (343)
T 1jr3_D          131 ANRS-VQVTCQTPEQAQLPRWVAARAKQL---------NLELDDAANQVLCYCYE---GNLLALAQALERLS  189 (343)
T ss_dssp             TTTC-EEEEECCCCTTHHHHHHHHHHHHT---------TCEECHHHHHHHHHSST---TCHHHHHHHHHHHH
T ss_pred             HhCc-eEEEeeCCCHHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHhc---hHHHHHHHHHHHHH
Confidence            8999 899999999999999997766532         46899999999998642   34556655555443

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.95  E-value=2.4e-10  Score=92.38  Aligned_cols=105  Identities=19%  Similarity=0.250  Sum_probs=62.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||+|||||+++++++..+...+.+++.+++.++....  ...+..  +     ....+.+.+....  +|+|||+
T Consensus        56 ~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~--~-----~~~~~~~~~~~~~--~lilDei  124 (202)
T 2w58_A           56 GLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFREL--KHSLQD--Q-----TMNEKLDYIKKVP--VLMLDDL  124 (202)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHHHHHHHH--HHC-----C-----CCHHHHHHHHHSS--EEEEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhHHHHHHH--HHHhcc--c-----hHHHHHHHhcCCC--EEEEcCC
Confidence            699999999999999999999987666777778776543221  111100  0     0123445555554  9999999


Q ss_pred             ccccHH--HHHHH-HHhhcCceeecCCCceeeccceEEEEeecCCchhh
Q 047225           99 EKAHRD--VLNVM-LQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVI  144 (287)
Q Consensus        99 d~~~~~--~~~~L-~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~  144 (287)
                      +.....  .+..+ ..+++.+.          ..+..+|+|||.....+
T Consensus       125 ~~~~~~~~~~~~ll~~~l~~~~----------~~~~~~i~tsn~~~~~l  163 (202)
T 2w58_A          125 GAEAMSSWVRDDVFGPILQYRM----------FENLPTFFTSNFDMQQL  163 (202)
T ss_dssp             CCC---CCGGGTTHHHHHHHHH----------HTTCCEEEEESSCHHHH
T ss_pred             CCCcCCHHHHHHHHHHHHHHHH----------hCCCCEEEEcCCCHHHH
Confidence            764332  23322 33444311          01235888999875543

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=98.91  E-value=1.8e-09  Score=86.41  Aligned_cols=115  Identities=23%  Similarity=0.319  Sum_probs=67.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      +++|+||||||||+++.++++.+.+   .+..+..+.   .                   ......+..  ..++++||+
T Consensus        60 ~ili~GPPGtGKTt~a~ala~~l~g---~i~~fans~---s-------------------~f~l~~l~~--~kIiiLDEa  112 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIHFIQG---AVISFVNST---S-------------------HFWLEPLTD--TKVAMLDDA  112 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHHHHTC---EECCCCCSS---S-------------------CGGGGGGTT--CSSEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC---CeeeEEecc---c-------------------hhhhcccCC--CCEEEEECC
Confidence            6999999999999999999999832   221110000   0                   000011111  238999999


Q ss_pred             ccccHHH-HHHHHHhhcCceeecCC--CceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhcc
Q 047225           99 EKAHRDV-LNVMLQLLDDGRVTDGK--GQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRI  175 (287)
Q Consensus        99 d~~~~~~-~~~L~~~l~~~~~~~~~--g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~  175 (287)
                      +....+. ...++.+++...+....  ..........+|+|||.......                    .+ +.|.||+
T Consensus       113 d~~~~~~~d~~lrn~ldG~~~~iD~Khr~~~~~~~~PlIITtN~~~~~~~--------------------~~-~~L~SRi  171 (212)
T 1tue_A          113 TTTCWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDN--------------------RW-PYLESRI  171 (212)
T ss_dssp             CHHHHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSS--------------------SC-HHHHTSC
T ss_pred             CchhHHHHHHHHHHHhCCCcccHHHhhcCccccCCCCEEEecCCCccccc--------------------ch-hhhhhhE
Confidence            9654333 34677777764333211  11122233479999998644211                    12 5788999


Q ss_pred             CceEEeC
Q 047225          176 DEVIVFR  182 (287)
Q Consensus       176 ~~~i~~~  182 (287)
                       ..+.|+
T Consensus       172 -~~f~F~  177 (212)
T 1tue_A          172 -TVFEFP  177 (212)
T ss_dssp             -EEEECC
T ss_pred             -EEEEcC
Confidence             777776

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.79  E-value=1.9e-09  Score=92.89  Aligned_cols=106  Identities=20%  Similarity=0.276  Sum_probs=62.3

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhc-CCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYF-GSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iD   96 (287)
                      .+++|+||||||||++++++++.+. ..+.++.++++.++...     +......  +  ....+...+...+  +|+||
T Consensus       153 ~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~~l~~~-----l~~~~~~--~--~~~~~~~~~~~~~--lLiiD  221 (308)
T 2qgz_A          153 KGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAID-----VKNAISN--G--SVKEEIDAVKNVP--VLILD  221 (308)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHHHHHHH-----HHCCCC--------CCTTHHHHTSS--EEEEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHHHHHHH-----HHHHhcc--c--hHHHHHHHhcCCC--EEEEc
Confidence            3799999999999999999999886 66677777777654321     1111000  0  0012334444444  99999


Q ss_pred             Cccccc--HHHHH-HHHHhhcCceeecCCCceeeccceEEEEeecCCchhh
Q 047225           97 EIEKAH--RDVLN-VMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVI  144 (287)
Q Consensus        97 eid~~~--~~~~~-~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~  144 (287)
                      |++..+  ...++ .|..+++.+..          .+..+|+|||.+...+
T Consensus       222 dig~~~~~~~~~~~ll~~ll~~r~~----------~~~~~IitSN~~~~~l  262 (308)
T 2qgz_A          222 DIGAEQATSWVRDEVLQVILQYRML----------EELPTFFTSNYSFADL  262 (308)
T ss_dssp             TCCC------CTTTTHHHHHHHHHH----------HTCCEEEEESSCHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHH----------CCCcEEEECCCCHHHH
Confidence            996543  33333 23335553210          1235899999876544

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.78  E-value=5.6e-08  Score=84.63  Aligned_cols=145  Identities=17%  Similarity=0.185  Sum_probs=83.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc------cccc----hhhhhCC-----------------CCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM------EKHT----VSKFFGS-----------------PPG   71 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~------~~~~----~~~~~~~-----------------~~~   71 (287)
                      .++++||+|+|||++++.+++..   +  .+++++....      ....    +...++.                 ...
T Consensus        33 ~v~i~G~~G~GKT~Ll~~~~~~~---~--~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  107 (350)
T 2qen_A           33 LTLLLGIRRVGKSSLLRAFLNER---P--GILIDCRELYAERGHITREELIKELQSTISPFQKFQSKFKISLNLKFLTLE  107 (350)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS---S--EEEEEHHHHHHTTTCBCHHHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSC
T ss_pred             eEEEECCCcCCHHHHHHHHHHHc---C--cEEEEeecccccccCCCHHHHHHHHHHHHHHHHhHhhhceeEEEecceeec
Confidence            69999999999999999999886   2  6677775432      1110    1111110                 000


Q ss_pred             CCcccchhhHHHHHH----hCCcEEEEEcCcccccH-------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCC
Q 047225           72 YVGFENGGQLTEAVR----HRPHSVILFDEIEKAHR-------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIG  140 (287)
Q Consensus        72 ~~~~~~~~~~~~~~~----~~~~~il~iDeid~~~~-------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~  140 (287)
                      . .......+...+.    .....+|+|||++.++.       +....|..+++..            +++.+|+++...
T Consensus       108 ~-~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~~~------------~~~~~il~g~~~  174 (350)
T 2qen_A          108 P-RKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAYDSL------------PNLKIILTGSEV  174 (350)
T ss_dssp             G-GGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHHHHC------------TTEEEEEEESSH
T ss_pred             c-ccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHHHhc------------CCeEEEEECCcH
Confidence            0 0011122333332    12257999999999763       6667777776641            245677776542


Q ss_pred             chhhhhhccCCchHHHHHHHHHHH-hcCChhHHhccCceEEeCCCCHHHHHHHHHHHH
Q 047225          141 DSVIARESILGSDQMERGVAEELR-RRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIML  197 (287)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l  197 (287)
                      ..                +...++ ......+..|....+.++|++.++..+++...+
T Consensus       175 ~~----------------l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~  216 (350)
T 2qen_A          175 GL----------------LHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGF  216 (350)
T ss_dssp             HH----------------HHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHH
T ss_pred             HH----------------HHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHH
Confidence            10                000000 011233555665689999999999999886544

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=98.77  E-value=3.2e-08  Score=82.68  Aligned_cols=134  Identities=16%  Similarity=0.230  Sum_probs=77.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +.++|+||||||||+++.+|++.+..    ...++.+.   ..                  ..+.+ +.  ...+++.||
T Consensus       105 n~~~l~GppgtGKt~~a~ala~~~~l----~G~vn~~~---~~------------------f~l~~-~~--~k~i~l~Ee  156 (267)
T 1u0j_A          105 NTIWLFGPATTGKTNIAEAIAHTVPF----YGCVNWTN---EN------------------FPFND-CV--DKMVIWWEE  156 (267)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHSSC----EEECCTTC---SS------------------CTTGG-GS--SCSEEEECS
T ss_pred             cEEEEECCCCCCHHHHHHHHHhhhcc----cceeeccc---cc------------------ccccc-cc--ccEEEEecc
Confidence            46999999999999999999997521    11112211   00                  01111 11  112555555


Q ss_pred             cccccHHHHHHHHHhhcCceeecCC--CceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhcc
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGK--GQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRI  175 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~--g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~  175 (287)
                      .. +..+.+..++.+++.+......  +.........+|+|||.....+..++.   .          .....+.|.+|+
T Consensus       157 ~~-~~~d~~~~lr~i~~G~~~~id~K~k~~~~v~~tPvIitsN~~i~~~~~g~~---~----------s~~~~~~L~sR~  222 (267)
T 1u0j_A          157 GK-MTAKVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNS---T----------TFEHQQPLQDRM  222 (267)
T ss_dssp             CC-EETTTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTE---E----------ECTTHHHHHTTE
T ss_pred             cc-chhHHHHHHHHHhCCCcEEEecCcCCcccccCCCEEEEecCCcccccccCc---c----------chhhhHHHhhhE
Confidence            55 4556777888888755544422  222344566899999985432110000   0          001125688999


Q ss_pred             CceEEeC--------CCCHHHHHHHHH
Q 047225          176 DEVIVFR--------QLNKMQLMEIVD  194 (287)
Q Consensus       176 ~~~i~~~--------~~~~~~~~~il~  194 (287)
                       ..+.|+        +++.++.+..+.
T Consensus       223 -~~f~F~~~~p~~~~~lt~~~~~~f~~  248 (267)
T 1u0j_A          223 -FKFELTRRLDHDFGKVTKQEVKDFFR  248 (267)
T ss_dssp             -EEEECCSCCCTTSCCCCHHHHHHHHH
T ss_pred             -EEEECCCcCCcccCCCCHHHHHHHHH
Confidence             899998        899999888885

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=98.72  E-value=1.5e-07  Score=82.10  Aligned_cols=149  Identities=15%  Similarity=0.188  Sum_probs=85.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc-----ccccc----hhh--------------hhCCCCC----
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY-----MEKHT----VSK--------------FFGSPPG----   71 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~-----~~~~~----~~~--------------~~~~~~~----   71 (287)
                      .++++||+|+|||++++.+++...   ...+++++...     .....    +..              .++...+    
T Consensus        32 ~v~i~G~~G~GKT~L~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~  108 (357)
T 2fna_A           32 ITLVLGLRRTGKSSIIKIGINELN---LPYIYLDLRKFEERNYISYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIM  108 (357)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT---CCEEEEEGGGGTTCSCCCHHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEEC
T ss_pred             cEEEECCCCCCHHHHHHHHHHhcC---CCEEEEEchhhccccCCCHHHHHHHHHHHHHHHhhhhhHHHHHhcccceEEec
Confidence            699999999999999999999873   34677777643     11100    000              1111000    


Q ss_pred             CCc---------ccchhhHHHHHHhC--CcEEEEEcCcccccH----HHHHHHHHhhcCceeecCCCceeeccceEEEEe
Q 047225           72 YVG---------FENGGQLTEAVRHR--PHSVILFDEIEKAHR----DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMT  136 (287)
Q Consensus        72 ~~~---------~~~~~~~~~~~~~~--~~~il~iDeid~~~~----~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t  136 (287)
                      ..+         ......+...+...  ...+|+|||++.++.    ++...|..+++..            ++..+|++
T Consensus       109 ~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~~l~~~~~~~------------~~~~~i~~  176 (357)
T 2fna_A          109 GNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPALAYAYDNL------------KRIKFIMS  176 (357)
T ss_dssp             SSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHHHHHHHHC------------TTEEEEEE
T ss_pred             ceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHHHHHHHHHcC------------CCeEEEEE
Confidence            000         11123455555542  257999999998754    4555666665531            24467777


Q ss_pred             ecCCchhhhhhccCCchHHHHHHHHHHH-hcCChhHHhccCceEEeCCCCHHHHHHHHHHHHH
Q 047225          137 SNIGDSVIARESILGSDQMERGVAEELR-RRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLK  198 (287)
Q Consensus       137 ~n~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~  198 (287)
                      ++....                +.+.+. ......+..|....+.++|++.++..+++...+.
T Consensus       177 g~~~~~----------------l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~  223 (357)
T 2fna_A          177 GSEMGL----------------LYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQ  223 (357)
T ss_dssp             ESSHHH----------------HHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHH
T ss_pred             cCchHH----------------HHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHH
Confidence            764210                000000 0112335556657899999999999999976553

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=98.64  E-value=6.7e-08  Score=76.85  Aligned_cols=96  Identities=17%  Similarity=0.152  Sum_probs=52.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc--ccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME--KHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iD   96 (287)
                      .++++||+|+||||++..++..+...+.....+.......  ...+....|.............+.+.+. .+..+|+||
T Consensus         5 i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~~~~~d~r~~~~~i~s~~g~~~~~~~~~~~~~~~~~~~-~~~dvviID   83 (184)
T 2orw_A            5 LTVITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDSRYHSTMIVSHSGNGVEAHVIERPEEMRKYIE-EDTRGVFID   83 (184)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEEEEC-----CCCEECC----CEECEEESSGGGGGGGCC-TTEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeeccccccCcccEEecCCCceeeEEECCHHHHHHHhc-CCCCEEEEE
Confidence            5889999999999998666666533344444333221000  0011111111100011111122333222 245799999


Q ss_pred             CcccccHHHHHHHHHhhcC
Q 047225           97 EIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        97 eid~~~~~~~~~L~~~l~~  115 (287)
                      |++.+++++++.|..+.+.
T Consensus        84 E~Q~~~~~~~~~l~~l~~~  102 (184)
T 2orw_A           84 EVQFFNPSLFEVVKDLLDR  102 (184)
T ss_dssp             CGGGSCTTHHHHHHHHHHT
T ss_pred             CcccCCHHHHHHHHHHHHC
Confidence            9999988898988888875

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=98.47  E-value=8.8e-07  Score=72.39  Aligned_cols=98  Identities=15%  Similarity=0.065  Sum_probs=60.7

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc-ccchhhhhCCCCCCCcccchhhHHHHHHh----CCcEE
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME-KHTVSKFFGSPPGYVGFENGGQLTEAVRH----RPHSV   92 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~i   92 (287)
                      ..++++||+|+||||++..++..+...+.....++...... ...+...+|.............+.+.+..    ....+
T Consensus        13 ~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~~~~~~dv   92 (223)
T 2b8t_A           13 WIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDETKV   92 (223)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCTTCCE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHhcCCCccccccCCHHHHHHHHHHHhhCCCCCE
Confidence            46899999999999999888888855555666554332111 11122222321111112222345555554    34579


Q ss_pred             EEEcCcccccHHHHHHHHHhhcC
Q 047225           93 ILFDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        93 l~iDeid~~~~~~~~~L~~~l~~  115 (287)
                      |+|||++.++.++.+.+..+.+.
T Consensus        93 ViIDEaQ~l~~~~ve~l~~L~~~  115 (223)
T 2b8t_A           93 IGIDEVQFFDDRICEVANILAEN  115 (223)
T ss_dssp             EEECSGGGSCTHHHHHHHHHHHT
T ss_pred             EEEecCccCcHHHHHHHHHHHhC
Confidence            99999999988888877776664

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.45  E-value=7e-07  Score=71.75  Aligned_cols=131  Identities=15%  Similarity=0.101  Sum_probs=70.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc-----CCC-CceEEecccccccccc--hhhhhCCCCCCCccc-chhhHHHHH--Hh
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF-----GSK-EAMVRIDMSEYMEKHT--VSKFFGSPPGYVGFE-NGGQLTEAV--RH   87 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~-----~~~-~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~-~~~~~~~~~--~~   87 (287)
                      ..+++|+||||||+.+..+.....     ..+ .++++.++.+......  ...-+ ......... ....+.+++  ..
T Consensus         7 i~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~gL~~~~~~~~~~k~-~~~~~~~~~~~~~~~~~~~~~~~   85 (199)
T 2r2a_A            7 ICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAK-KLPKSTDEQLSAHDMYEWIKKPE   85 (199)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCTTBCSCCEEEECCTT-TCSSCCSSCEEGGGHHHHTTSGG
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCCCccccccccchhhh-hccccCcccccHHHHHHHhhccc
Confidence            588999999999999887655432     234 5555566554432111  00000 000000000 112344442  34


Q ss_pred             CCcEEEEEcCcccc--cH-HHHH--HHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           88 RPHSVILFDEIEKA--HR-DVLN--VMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        88 ~~~~il~iDeid~~--~~-~~~~--~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      +...+|+|||++.+  +. ...+  .++..++..+          .....+|+++++. .                    
T Consensus        86 ~~~~vliIDEAq~l~~~~~~~~e~~rll~~l~~~r----------~~~~~iil~tq~~-~--------------------  134 (199)
T 2r2a_A           86 NIGSIVIVDEAQDVWPARSAGSKIPENVQWLNTHR----------HQGIDIFVLTQGP-K--------------------  134 (199)
T ss_dssp             GTTCEEEETTGGGTSBCCCTTCCCCHHHHGGGGTT----------TTTCEEEEEESCG-G--------------------
T ss_pred             cCceEEEEEChhhhccCccccchhHHHHHHHHhcC----------cCCeEEEEECCCH-H--------------------
Confidence            44579999999987  21 1111  2333333321          0133577778773 2                    


Q ss_pred             HHhcCChhHHhccCceEEeCCC
Q 047225          163 LRRRFRPEFLNRIDEVIVFRQL  184 (287)
Q Consensus       163 ~~~~~~~~l~~r~~~~i~~~~~  184 (287)
                         .+..++.+|+...+.+.++
T Consensus       135 ---~l~~~lr~ri~~~~~l~~~  153 (199)
T 2r2a_A          135 ---LLDQNLRTLVRKHYHIASN  153 (199)
T ss_dssp             ---GBCHHHHTTEEEEEEEEEC
T ss_pred             ---HHhHHHHHHhheEEEEcCc
Confidence               4567789999878888774

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=98.33  E-value=3.9e-06  Score=66.16  Aligned_cols=23  Identities=35%  Similarity=0.576  Sum_probs=21.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+||+|+||||+++.|+..+
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999999987

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=98.23  E-value=2.8e-06  Score=72.78  Aligned_cols=70  Identities=19%  Similarity=0.119  Sum_probs=40.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc--cccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM--SEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iD   96 (287)
                      .++|+||||||||+++..++...   +.+..+++.  .+..+...          .........+.+.+...+  +|+||
T Consensus       125 viLI~GpPGsGKTtLAlqlA~~~---G~~VlyIs~~~eE~v~~~~----------~~le~~l~~i~~~l~~~~--LLVID  189 (331)
T 2vhj_A          125 MVIVTGKGNSGKTPLVHALGEAL---GGKDKYATVRFGEPLSGYN----------TDFNVFVDDIARAMLQHR--VIVID  189 (331)
T ss_dssp             EEEEECSCSSSHHHHHHHHHHHH---HTTSCCEEEEBSCSSTTCB----------CCHHHHHHHHHHHHHHCS--EEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhC---CCCEEEEEecchhhhhhhh----------cCHHHHHHHHHHHHhhCC--EEEEe
Confidence            47999999999999999999872   233333333  22110000          000000123445565555  99999


Q ss_pred             CcccccH
Q 047225           97 EIEKAHR  103 (287)
Q Consensus        97 eid~~~~  103 (287)
                      +++.+..
T Consensus       190 sI~aL~~  196 (331)
T 2vhj_A          190 SLKNVIG  196 (331)
T ss_dssp             CCTTTC-
T ss_pred             ccccccc
Confidence            9997643

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=98.20  E-value=1.2e-05  Score=65.36  Aligned_cols=149  Identities=18%  Similarity=0.179  Sum_probs=80.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCC---CC---CCcccch-hhHHHHHHhCCc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSP---PG---YVGFENG-GQLTEAVRHRPH   90 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~---~~~~~~~-~~~~~~~~~~~~   90 (287)
                      .++++.|++|+|||+++-.++..+...+.....++.............-+..   ..   +.+.... ..+...+... +
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~D~q~~~~~~al~~gl~~~~~~~~~~~~~~~~e~~l~~~L~~~-p   85 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVETHGRAETEALLNGLPQQPLLRTEYRGMTLEEMDLDALLKAA-P   85 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCTTCHHHHHHHTTSCBCCCEEEEETTEEEEECCHHHHHHHC-C
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeCCCCChhHHHHhcCccccCcceeecCCcccccccHHHHHhcC-C
Confidence            3699999999999999999998886556666666664432221111111111   01   1111111 2344444443 4


Q ss_pred             EEEEEcCcccccHH------HHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHH---
Q 047225           91 SVILFDEIEKAHRD------VLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAE---  161 (287)
Q Consensus        91 ~il~iDeid~~~~~------~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~---  161 (287)
                      .++++||+-..+..      ....+...++.              .+-++.|+|....          +++.+.+..   
T Consensus        86 dlvIVDElG~~~~~~~r~~~~~qDV~~~l~s--------------gidVitT~Nlqh~----------esl~d~v~~itg  141 (228)
T 2r8r_A           86 SLVLVDELAHTNAPGSRHTKRWQDIQELLAA--------------GIDVYTTVNVQHL----------ESLNDQVRGITG  141 (228)
T ss_dssp             SEEEESCTTCBCCTTCSSSBHHHHHHHHHHT--------------TCEEEEEEEGGGB----------GGGHHHHHHHHS
T ss_pred             CEEEEeCCCCCCcccchhHHHHHHHHHHHcC--------------CCCEEEEcccccc----------ccHHHHHHHHcC
Confidence            79999998754211      22222334443              2247888886432          122222221   


Q ss_pred             -HHHhcCChhHHhccCceEEeCCCCHHHHHHH
Q 047225          162 -ELRRRFRPEFLNRIDEVIVFRQLNKMQLMEI  192 (287)
Q Consensus       162 -~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~i  192 (287)
                       ..++.++..++++.+ .|.+-.++++++.+-
T Consensus       142 ~~v~e~vpd~~~~~a~-~v~lvD~~p~~l~~r  172 (228)
T 2r8r_A          142 VQVRETLPDWVLQEAF-DLVLIDLPPRELLER  172 (228)
T ss_dssp             CCCCSCBCHHHHHTCS-EEEEBCCCHHHHHHH
T ss_pred             CCcCCcCccHHHhhCC-eEEEecCCHHHHHHH
Confidence             223567778888884 466666666664443

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=98.18  E-value=4.5e-06  Score=66.56  Aligned_cols=96  Identities=16%  Similarity=0.168  Sum_probs=56.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc--ccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME--KHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iD   96 (287)
                      ..+++||.|+|||+.+-.++..+...+.....+.......  ...+...+|.............+.+.+.. +..+|+||
T Consensus        10 i~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k~~~d~r~~~~~i~s~~g~~~~a~~~~~~~~i~~~~~~-~~dvViID   88 (191)
T 1xx6_A           10 VEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAIKNSREILKYFEE-DTEVIAID   88 (191)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEECTTSCEEECEEESSSTHHHHHCCT-TCSEEEEC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCccchHHHHHhhcCCceeeEeeCCHHHHHHHHhc-cCCEEEEE
Confidence            6899999999999988888888755555555554221111  11111112211111111112234443332 35699999


Q ss_pred             CcccccHHHHHHHHHhhcC
Q 047225           97 EIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        97 eid~~~~~~~~~L~~~l~~  115 (287)
                      |++.++++.++.+..+.+.
T Consensus        89 Eaqfl~~~~v~~l~~l~~~  107 (191)
T 1xx6_A           89 EVQFFDDEIVEIVNKIAES  107 (191)
T ss_dssp             SGGGSCTHHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHhC
Confidence            9999988888888777664

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=98.07  E-value=7.4e-06  Score=71.74  Aligned_cols=97  Identities=23%  Similarity=0.330  Sum_probs=55.6

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCC-CCceEEe-cccccccccchhhhhCC-CCCCCcccchhhHHHHHHhCCcEE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGS-KEAMVRI-DMSEYMEKHTVSKFFGS-PPGYVGFENGGQLTEAVRHRPHSV   92 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~-~~~~~~~-~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i   92 (287)
                      +.+.++++||+|+||||+.++++..+... +..++.+ +..++...... ..+.. ..+.........+..++...| .+
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~-~~v~q~~~~~~~~~~~~~La~aL~~~P-dv  199 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKK-CLVNQREVHRDTLGFSEALRSALREDP-DI  199 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSS-SEEEEEEBTTTBSCHHHHHHHHTTSCC-SE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccc-cceeeeeeccccCCHHHHHHHHhhhCc-CE
Confidence            33579999999999999999999988543 3344333 22222111000 00000 000011111234555555555 79


Q ss_pred             EEEcCcccccHHHHHHHHHhhcCc
Q 047225           93 ILFDEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        93 l~iDeid~~~~~~~~~L~~~l~~~  116 (287)
                      +++||.-  +.+....+.++.+.|
T Consensus       200 illDEp~--d~e~~~~~~~~~~~G  221 (356)
T 3jvv_A          200 ILVGEMR--DLETIRLALTAAETG  221 (356)
T ss_dssp             EEESCCC--SHHHHHHHHHHHHTT
T ss_pred             EecCCCC--CHHHHHHHHHHHhcC
Confidence            9999997  677777777777664

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=98.05  E-value=1.4e-05  Score=64.43  Aligned_cols=99  Identities=15%  Similarity=0.051  Sum_probs=55.5

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc--ccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME--KHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVI   93 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il   93 (287)
                      +....+++||.|+|||+.+-.++......+...+.+.......  ...+...+|.............+.+.+. .+..+|
T Consensus        27 ~G~l~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k~~~d~R~ge~~i~s~~g~~~~a~~~~~~~~~~~~~~-~~~dvV  105 (214)
T 2j9r_A           27 NGWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPCIDNRYSEEDVVSHNGLKVKAVPVSASKDIFKHIT-EEMDVI  105 (214)
T ss_dssp             SCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEECC-----------------CCEEECSSGGGGGGGCC-SSCCEE
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCCcchHHHHHhhcCCeeEEeecCCHHHHHHHHh-cCCCEE
Confidence            3335789999999999988888887755566666555332111  1122222222211111122223333332 235799


Q ss_pred             EEcCcccccHHHHHHHHHhhcC
Q 047225           94 LFDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        94 ~iDeid~~~~~~~~~L~~~l~~  115 (287)
                      +|||+..++++.++.|..+.+.
T Consensus       106 iIDEaQF~~~~~V~~l~~l~~~  127 (214)
T 2j9r_A          106 AIDEVQFFDGDIVEVVQVLANR  127 (214)
T ss_dssp             EECCGGGSCTTHHHHHHHHHHT
T ss_pred             EEECcccCCHHHHHHHHHHhhC
Confidence            9999999998888777776664

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=97.92  E-value=2.8e-05  Score=61.68  Aligned_cols=92  Identities=15%  Similarity=0.091  Sum_probs=55.0

Q ss_pred             EEEEeccCCChHH-HHHHHHHHHhcCCCCceEEeccc---ccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           19 SFLFTGPTGVGKT-ELANALAFEYFGSKEAMVRIDMS---EYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        19 ~ill~Gp~GtGKT-~la~~la~~l~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      -.+++||.|+||| .|.+.+.+.... +..+..+...   .+. . .+...+|.............+.+.....  .+|+
T Consensus        22 l~fiyG~MgsGKTt~Ll~~i~n~~~~-~~kvl~~kp~~D~R~~-~-~i~S~~g~~~~A~~~~~~~d~~~~~~~~--DvIl   96 (195)
T 1w4r_A           22 IQVILGPMFSGKSTELMRRVRRFQIA-QYKCLVIKYAKDTRYS-S-SFCTHDRNTMEALPACLLRDVAQEALGV--AVIG   96 (195)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHT-TCCEEEEEETTCCCGG-G-SCCHHHHHHSEEEEESSGGGGHHHHHTC--SEEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHc-CCeEEEEccccCccch-h-hhhhccCCcccceecCCHHHHHHhccCC--CEEE
Confidence            5899999999999 788888877643 4566666543   222 1 1221111110001112233455555443  5999


Q ss_pred             EcCcccccHHHHHHHHHhhcCc
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~  116 (287)
                      |||+..+ +++.+.+..+.+.|
T Consensus        97 IDEaQFf-k~~ve~~~~L~~~g  117 (195)
T 1w4r_A           97 IDEGQFF-PDIVEFCEAMANAG  117 (195)
T ss_dssp             ESSGGGC-TTHHHHHHHHHHTT
T ss_pred             EEchhhh-HHHHHHHHHHHHCC
Confidence            9999999 67777776676653

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.89  E-value=1.6e-05  Score=63.22  Aligned_cols=35  Identities=20%  Similarity=0.168  Sum_probs=29.1

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      +.+++++++|.||||+|-.++....+.+.++..+.
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQ   63 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQ   63 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            46999999999999999999998866676666554

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=97.83  E-value=3e-05  Score=72.28  Aligned_cols=90  Identities=19%  Similarity=0.258  Sum_probs=54.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc----------ccchhhhhCCCCCCCcccchhhHHHHHHhC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME----------KHTVSKFFGSPPGYVGFENGGQLTEAVRHR   88 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (287)
                      .+++.||||||||+++..+...+...+..+.....+....          ..++..+++..+.  ++...     .-...
T Consensus       206 ~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~ApT~~Aa~~L~e~~~~~a~Tih~ll~~~~~--~~~~~-----~~~~~  278 (574)
T 3e1s_A          206 LVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCAPTGKAARRLGEVTGRTASTVHRLLGYGPQ--GFRHN-----HLEPA  278 (574)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESSHHHHHHHHHHHTSCEEEHHHHTTEETT--EESCS-----SSSCC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEecCcHHHHHHhHhhhcccHHHHHHHHcCCcc--hhhhh-----hcccc
Confidence            6999999999999999999988755455554443221110          1122222221110  00000     00112


Q ss_pred             CcEEEEEcCcccccHHHHHHHHHhhcC
Q 047225           89 PHSVILFDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        89 ~~~il~iDeid~~~~~~~~~L~~~l~~  115 (287)
                      +..+|+|||+..++......|++.+..
T Consensus       279 ~~dvlIIDEasml~~~~~~~Ll~~~~~  305 (574)
T 3e1s_A          279 PYDLLIVDEVSMMGDALMLSLLAAVPP  305 (574)
T ss_dssp             SCSEEEECCGGGCCHHHHHHHHTTSCT
T ss_pred             cCCEEEEcCccCCCHHHHHHHHHhCcC
Confidence            346999999999999988888877653

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=97.81  E-value=0.00037  Score=64.59  Aligned_cols=85  Identities=16%  Similarity=0.258  Sum_probs=46.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHH----HhcCCCCceEEecccccc--cc----cchhhhhCCCCC---CCcccc------h
Q 047225           18 SSFLFTGPTGVGKTELANALAF----EYFGSKEAMVRIDMSEYM--EK----HTVSKFFGSPPG---YVGFEN------G   78 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~----~l~~~~~~~~~~~~~~~~--~~----~~~~~~~~~~~~---~~~~~~------~   78 (287)
                      ..+.++|+.|+|||+||+.+++    .........+.++.+...  +.    ..+...++....   ......      .
T Consensus       153 ~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~~~l~  232 (549)
T 2a5y_B          153 FFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLK  232 (549)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHHHhcCcccccccccccccHHHHH
Confidence            4799999999999999999996    332222223344444432  11    111222222211   001111      1


Q ss_pred             hhHHHHHHhCCcEEEEEcCccccc
Q 047225           79 GQLTEAVRHRPHSVILFDEIEKAH  102 (287)
Q Consensus        79 ~~~~~~~~~~~~~il~iDeid~~~  102 (287)
                      ..+.+.+....+-+|+||+++...
T Consensus       233 ~~l~~~L~~~kr~LlVLDdv~~~~  256 (549)
T 2a5y_B          233 RMICNALIDRPNTLFVFDDVVQEE  256 (549)
T ss_dssp             HHHHHHHTTSTTEEEEEEEECCHH
T ss_pred             HHHHHHHcCCCcEEEEEECCCCch
Confidence            234445555436899999999754

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=97.81  E-value=3.9e-05  Score=69.56  Aligned_cols=94  Identities=16%  Similarity=0.250  Sum_probs=52.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCC-ceEEeccccccc----------ccchhhhhCCCCCCCcccchhhH--HHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKE-AMVRIDMSEYME----------KHTVSKFFGSPPGYVGFENGGQL--TEAV   85 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~-~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~--~~~~   85 (287)
                      ++++.|+||||||+++..++..+...+. .+..+..+....          ..++..+++......+.  ...+  ....
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~a~T~~Aa~~l~~~~~~~~~T~h~~~~~~~~~~~~--~~~~~~~~~~  124 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALISTGETGIILAAPTHAAKKILSKLSGKEASTIHSILKINPVTYEE--NVLFEQKEVP  124 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEEESSHHHHHHHHHHHSSCEEEHHHHHTEEEEECSS--CEEEEECSCC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhcCCceEEEecCcHHHHHHHHhhhccchhhHHHHhccCcccccc--cchhcccccc
Confidence            6999999999999999999988854433 333332221110          01111122110000000  0000  0000


Q ss_pred             HhCCcEEEEEcCcccccHHHHHHHHHhhc
Q 047225           86 RHRPHSVILFDEIEKAHRDVLNVMLQLLD  114 (287)
Q Consensus        86 ~~~~~~il~iDeid~~~~~~~~~L~~~l~  114 (287)
                      ......++++||+..++...+..|...+.
T Consensus       125 ~~~~~~~iiiDE~~~~~~~~~~~l~~~~~  153 (459)
T 3upu_A          125 DLAKCRVLICDEVSMYDRKLFKILLSTIP  153 (459)
T ss_dssp             CCSSCSEEEESCGGGCCHHHHHHHHHHSC
T ss_pred             cccCCCEEEEECchhCCHHHHHHHHHhcc
Confidence            01234699999999999999999998886

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.77  E-value=7.3e-05  Score=62.54  Aligned_cols=93  Identities=25%  Similarity=0.364  Sum_probs=50.4

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCC-CCceEEecc-cccccccc---h-hhhhCCCCCCCcccchhhHHHHHHhCC
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGS-KEAMVRIDM-SEYMEKHT---V-SKFFGSPPGYVGFENGGQLTEAVRHRP   89 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~-~~~~~~~~~-~~~~~~~~---~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (287)
                      +...++|+||+|+||||+.+.++..+... ...+..... -++.....   + ...++..    .......+..++...+
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~~i~~~~~~~~~~v~q~~~gl~----~~~l~~~la~aL~~~p   99 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKKSIVNQREVGED----TKSFADALRAALREDP   99 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTT----BSCHHHHHHHHHHHCC
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcCCcceeecCCcceeeeHHHhCCC----HHHHHHHHHHHHhhCC
Confidence            33579999999999999999999987443 333333221 11111000   0 0011100    0111234556666654


Q ss_pred             cEEEEEcCcccccHHHHHHHHHhhcC
Q 047225           90 HSVILFDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        90 ~~il~iDeid~~~~~~~~~L~~~l~~  115 (287)
                       .++++||..  +++....+.+..+.
T Consensus       100 -~illlDEp~--D~~~~~~~l~~~~~  122 (261)
T 2eyu_A          100 -DVIFVGEMR--DLETVETALRAAET  122 (261)
T ss_dssp             -SEEEESCCC--SHHHHHHHHHHHHT
T ss_pred             -CEEEeCCCC--CHHHHHHHHHHHcc
Confidence             699999997  55544444444443

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.73  E-value=7.2e-05  Score=60.82  Aligned_cols=36  Identities=17%  Similarity=0.241  Sum_probs=27.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .++|+||+|+|||++++.++..+...+..+.+++..
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~~~   60 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVTTE   60 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEESS
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEEcc
Confidence            689999999999999999997764434555555543

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.69  E-value=4.3e-05  Score=79.57  Aligned_cols=82  Identities=17%  Similarity=0.130  Sum_probs=52.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCC-------CCCcccchhhHHHHHHhCCcE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPP-------GYVGFENGGQLTEAVRHRPHS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~   91 (287)
                      +++|+||||||||++|.+++......+....++++........ ..-+|...       ...+-.....+...+++....
T Consensus      1429 ~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~~~~~l~-a~~~G~dl~~l~v~~~~~~E~~l~~~~~lvr~~~~~ 1507 (2050)
T 3cmu_A         1429 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIY-ARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVD 1507 (2050)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHH-HHHTTCCTTTCEEECCSSHHHHHHHHHHHHHHTCCS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcccccCHHH-HHHcCCCchhceeecCChHHHHHHHHHHHHhcCCCC
Confidence            6999999999999999999988766677888888775443322 22222110       000001112233455556668


Q ss_pred             EEEEcCcccc
Q 047225           92 VILFDEIEKA  101 (287)
Q Consensus        92 il~iDeid~~  101 (287)
                      +|+||+++.+
T Consensus      1508 lVVIDsi~al 1517 (2050)
T 3cmu_A         1508 VIVVDSVAAL 1517 (2050)
T ss_dssp             EEEESCGGGC
T ss_pred             EEEEcChhHh
Confidence            9999999733

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.63  E-value=3.6e-05  Score=60.11  Aligned_cols=33  Identities=15%  Similarity=0.324  Sum_probs=26.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .++|+|+||+||||+++.|++.+   +.+++.++..
T Consensus         5 ~i~l~G~~GsGKST~a~~La~~l---~~~~~~~~~D   37 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCLQSVL---PEPWLAFGVD   37 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS---SSCEEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc---CCCeEEeccc
Confidence            59999999999999999999998   3455544443

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=97.62  E-value=0.00016  Score=67.84  Aligned_cols=24  Identities=25%  Similarity=0.324  Sum_probs=20.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+++.|+||||||+++..+...+.
T Consensus       166 ~~vi~G~pGTGKTt~l~~ll~~l~  189 (608)
T 1w36_D          166 ISVISGGPGTGKTTTVAKLLAALI  189 (608)
T ss_dssp             EEEEECCTTSTHHHHHHHHHHHHH
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHHH
Confidence            699999999999999888877663

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.61  E-value=0.00034  Score=62.67  Aligned_cols=94  Identities=13%  Similarity=0.114  Sum_probs=55.3

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccccc-----chhhhhCCC--CCCCcccchh---hHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKH-----TVSKFFGSP--PGYVGFENGG---QLTEAVRH   87 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~--~~~~~~~~~~---~~~~~~~~   87 (287)
                      ..++++|++|+||||++..||..+...+.....+++..+....     ......+.+  ....+.+...   .....+..
T Consensus       101 ~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~a~~  180 (443)
T 3dm5_A          101 TILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYFKS  180 (443)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHHHh
Confidence            3799999999999999999999987767777777776554321     111111111  0011111111   22334444


Q ss_pred             CCcEEEEEcCccccc--HHHHHHHHH
Q 047225           88 RPHSVILFDEIEKAH--RDVLNVMLQ  111 (287)
Q Consensus        88 ~~~~il~iDeid~~~--~~~~~~L~~  111 (287)
                      ..+.+++||...+.+  ......+..
T Consensus       181 ~~~DvVIIDTaGrl~~d~~lm~el~~  206 (443)
T 3dm5_A          181 KGVDIIIVDTAGRHKEDKALIEEMKQ  206 (443)
T ss_dssp             TTCSEEEEECCCCSSCCHHHHHHHHH
T ss_pred             CCCCEEEEECCCcccchHHHHHHHHH
Confidence            456799999987654  344444444

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=97.59  E-value=0.00013  Score=64.30  Aligned_cols=93  Identities=25%  Similarity=0.356  Sum_probs=50.8

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCC-CCceEEecc-cccccccc---h-hhhhCCCCCCCcccchhhHHHHHHhCC
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGS-KEAMVRIDM-SEYMEKHT---V-SKFFGSPPGYVGFENGGQLTEAVRHRP   89 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~-~~~~~~~~~-~~~~~~~~---~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (287)
                      +...++++||+|+||||+++.++..+... ...++.+.. .++.....   + +..++.    ........+...+...+
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~~~e~~~~~~~~~v~Q~~~g~----~~~~~~~~l~~~L~~~p  210 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKKSIVNQREVGE----DTKSFADALRAALREDP  210 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEESSCCSCCCCSSSEEEEEEBTT----TBSCSHHHHHHHTTSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecccHhhhhccCceEEEeeecCC----CHHHHHHHHHHHhhhCc
Confidence            33579999999999999999999988543 344444332 11100000   0 000110    01112334556666544


Q ss_pred             cEEEEEcCcccccHHHHHHHHHhhcC
Q 047225           90 HSVILFDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        90 ~~il~iDeid~~~~~~~~~L~~~l~~  115 (287)
                       .++++||+-  +++....+.+....
T Consensus       211 -d~illdE~~--d~e~~~~~l~~~~~  233 (372)
T 2ewv_A          211 -DVIFVGEMR--DLETVETALRAAET  233 (372)
T ss_dssp             -SEEEESCCC--SHHHHHHHHHHHTT
T ss_pred             -CEEEECCCC--CHHHHHHHHHHHhc
Confidence             799999996  44444444444443

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.56  E-value=5.1e-05  Score=59.92  Aligned_cols=36  Identities=19%  Similarity=0.099  Sum_probs=29.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .++|.|+||+||||+++.|++.+...+.++..++.+
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~~~~~   38 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILDNQGINNKIINYG   38 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCceEEEEECC
Confidence            589999999999999999999986555556655543

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=97.55  E-value=8.8e-05  Score=57.78  Aligned_cols=27  Identities=22%  Similarity=0.471  Sum_probs=23.5

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+...++|+||+|+||||+++.|+..+
T Consensus         6 ~~g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            6 HDHHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            334479999999999999999999887

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=97.54  E-value=0.00017  Score=64.50  Aligned_cols=40  Identities=25%  Similarity=0.288  Sum_probs=32.8

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      ..++++||+|+||||++..|+..+...+..+..+++..+.
T Consensus        98 ~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~~r  137 (433)
T 3kl4_A           98 FIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYR  137 (433)
T ss_dssp             EEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecCccc
Confidence            4799999999999999999999886666777777765543

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.54  E-value=5.5e-05  Score=59.49  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=22.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +++|+|++|+||||+++.|++.+
T Consensus         7 ~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            7 NIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999998

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=97.54  E-value=0.00076  Score=62.88  Aligned_cols=22  Identities=27%  Similarity=0.292  Sum_probs=20.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~   39 (287)
                      ..+.++|++|+|||++|+.+++
T Consensus       148 ~~v~I~G~~GiGKTtLa~~~~~  169 (591)
T 1z6t_A          148 GWVTIHGMAGCGKSVLAAEAVR  169 (591)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEcCCCCCHHHHHHHHHh
Confidence            4799999999999999999875

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=97.54  E-value=7.2e-05  Score=59.76  Aligned_cols=31  Identities=29%  Similarity=0.398  Sum_probs=25.2

Q ss_pred             CCCCCCCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           10 IRDPNRPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        10 ~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ...+.+|. .++|.|+||+||||+++.|++.+
T Consensus        14 ~~~~~~~~-~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           14 LVPRGSHM-RVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             --CCCSCC-EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccCCCCCe-EEEEECCCCCCHHHHHHHHHHHh
Confidence            33445555 69999999999999999999988

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.53  E-value=7.6e-05  Score=57.76  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|++|+||||+++.|++.+
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999998

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=97.49  E-value=7.2e-05  Score=58.98  Aligned_cols=36  Identities=17%  Similarity=0.142  Sum_probs=27.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .++|.|+||+||||+++.|++.+...+.++..++.+
T Consensus         5 ~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~i~~~   40 (192)
T 1kht_A            5 VVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVSFG   40 (192)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTTTCCCEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCcceEEEehH
Confidence            599999999999999999999885444334444443

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.48  E-value=0.00035  Score=57.29  Aligned_cols=37  Identities=22%  Similarity=0.382  Sum_probs=28.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      .+++.||||+|||+++..++......+...++++...
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~~e~   61 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVALEE   61 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEESSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccC
Confidence            6999999999999998888776544455666666543

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=97.47  E-value=0.00025  Score=57.13  Aligned_cols=95  Identities=19%  Similarity=0.176  Sum_probs=51.9

Q ss_pred             EEEEeccCCChHHH-HHHHHHHHhcCCCCceEEecccc--cccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEE
Q 047225           19 SFLFTGPTGVGKTE-LANALAFEYFGSKEAMVRIDMSE--YMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILF   95 (287)
Q Consensus        19 ~ill~Gp~GtGKT~-la~~la~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~i   95 (287)
                      ..+++||-|+|||+ +.+.+ ..+...+.....++...  ......+...+|.............+.+.+. .+..+|+|
T Consensus        30 I~vitG~M~sGKTT~Llr~~-~r~~~~g~kvli~kp~~D~R~~~~~I~Sr~G~~~~a~~v~~~~di~~~i~-~~~dvV~I  107 (219)
T 3e2i_A           30 IECITGSMFSGKSEELIRRL-RRGIYAKQKVVVFKPAIDDRYHKEKVVSHNGNAIEAINISKASEIMTHDL-TNVDVIGI  107 (219)
T ss_dssp             EEEEEECTTSCHHHHHHHHH-HHHHHTTCCEEEEEEC-----------CBTTBCCEEEEESSGGGGGGSCC-TTCSEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHH-HHHHHcCCceEEEEeccCCcchhhhHHHhcCCceeeEEeCCHHHHHHHHh-cCCCEEEE
Confidence            58899999999999 55555 44433344444443321  1111122222221111111122223333322 34469999


Q ss_pred             cCcccccHHHHHHHHHhhcC
Q 047225           96 DEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        96 Deid~~~~~~~~~L~~~l~~  115 (287)
                      ||+..+++++.+.+..+.+.
T Consensus       108 DEaQFf~~~~v~~l~~la~~  127 (219)
T 3e2i_A          108 DEVQFFDDEIVSIVEKLSAD  127 (219)
T ss_dssp             CCGGGSCTHHHHHHHHHHHT
T ss_pred             echhcCCHHHHHHHHHHHHC
Confidence            99999999999999988864

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.47  E-value=7.7e-05  Score=59.59  Aligned_cols=23  Identities=39%  Similarity=0.569  Sum_probs=22.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||+|+||||+++.|++.+
T Consensus        27 ~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           27 RIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            69999999999999999999998

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.46  E-value=9.9e-05  Score=58.30  Aligned_cols=23  Identities=39%  Similarity=0.497  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus         7 ~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            7 LIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            69999999999999999999988

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=97.45  E-value=0.0004  Score=57.08  Aligned_cols=23  Identities=39%  Similarity=0.306  Sum_probs=20.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++||+|+|||.++..++...
T Consensus       110 ~~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A          110 RGCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHS
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHc
Confidence            48999999999999998888776

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.45  E-value=0.00013  Score=60.66  Aligned_cols=42  Identities=29%  Similarity=0.530  Sum_probs=30.3

Q ss_pred             CCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           11 RDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        11 ~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      ....+|. .++|.|+||+||||+++.|+..+.   ...+.++...+
T Consensus        27 ~~~~~~~-~i~l~G~~GsGKSTla~~L~~~l~---~~~~~~~~D~~   68 (253)
T 2p5t_B           27 KSSKQPI-AILLGGQSGAGKTTIHRIKQKEFQ---GNIVIIDGDSF   68 (253)
T ss_dssp             CCCSSCE-EEEEESCGGGTTHHHHHHHHHHTT---TCCEEECGGGG
T ss_pred             CcccCCe-EEEEECCCCCCHHHHHHHHHHhcC---CCcEEEecHHH
Confidence            3334444 699999999999999999999883   33445555443

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.45  E-value=5.9e-05  Score=59.94  Aligned_cols=24  Identities=38%  Similarity=0.524  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+.|+||+|+||||+++.++..+.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhcc
Confidence            488999999999999999999874

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.44  E-value=0.00013  Score=61.86  Aligned_cols=39  Identities=33%  Similarity=0.466  Sum_probs=29.1

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      ..+|. .++|.||||+||||+++.|++.+.   ...+.++...
T Consensus        30 ~~~~~-livl~G~sGsGKSTla~~L~~~~~---~~~~~Is~D~   68 (287)
T 1gvn_B           30 VESPT-AFLLGGQPGSGKTSLRSAIFEETQ---GNVIVIDNDT   68 (287)
T ss_dssp             CSSCE-EEEEECCTTSCTHHHHHHHHHHTT---TCCEEECTHH
T ss_pred             CCCCe-EEEEECCCCCCHHHHHHHHHHHhC---CCeEEEechH
Confidence            33454 699999999999999999998872   2345666533

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=97.44  E-value=0.0025  Score=58.71  Aligned_cols=73  Identities=16%  Similarity=0.250  Sum_probs=51.6

Q ss_pred             CcEEEEEcCcccc----cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           89 PHSVILFDEIEKA----HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        89 ~~~il~iDeid~~----~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      ++-+|+|||+..+    ..+....|.+++..|+-          ..+.+|+++..+...                     
T Consensus       343 P~ivvVIDE~~~L~~~~~~~~~~~L~~Iar~GRa----------~GIhLIlaTQRPs~d---------------------  391 (574)
T 2iut_A          343 PTIVVVVDEFADMMMIVGKKVEELIARIAQKARA----------AGIHLILATQRPSVD---------------------  391 (574)
T ss_dssp             CEEEEEESCCTTHHHHTCHHHHHHHHHHHHHCTT----------TTEEEEEEESCCCTT---------------------
T ss_pred             CcEEEEEeCHHHHhhhhhHHHHHHHHHHHHHHhh----------CCeEEEEEecCcccc---------------------
Confidence            3469999999855    34667778888876541          134677777665421                     


Q ss_pred             hcCChhHHhccCceEEeCCCCHHHHHHHH
Q 047225          165 RRFRPEFLNRIDEVIVFRQLNKMQLMEIV  193 (287)
Q Consensus       165 ~~~~~~l~~r~~~~i~~~~~~~~~~~~il  193 (287)
                       .++..+.+.|+..|.+.-.+..+...++
T Consensus       392 -~I~~~Iran~~~RI~lrv~s~~Dsr~IL  419 (574)
T 2iut_A          392 -VITGLIKANIPTRIAFQVSSKIDSRTIL  419 (574)
T ss_dssp             -TSCHHHHHTCCEEEEECCSCHHHHHHHH
T ss_pred             -cccHHHHhhhccEEEEEcCCHHHHHHhc
Confidence             2456777888888999988888887776

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.43  E-value=9.4e-05  Score=57.24  Aligned_cols=23  Identities=30%  Similarity=0.550  Sum_probs=22.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +++|.|++||||||+++.|++.+
T Consensus         9 ~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            9 HLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            79999999999999999999998

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=97.43  E-value=0.0004  Score=56.30  Aligned_cols=24  Identities=38%  Similarity=0.380  Sum_probs=21.8

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..+.|+||+|+||||+++.++..+
T Consensus        26 ~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           26 AITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            369999999999999999999865

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.40  E-value=8.4e-05  Score=57.99  Aligned_cols=23  Identities=43%  Similarity=0.638  Sum_probs=21.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +++|.|+||+||||+++.|++.+
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999998

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=97.39  E-value=0.00068  Score=55.16  Aligned_cols=92  Identities=10%  Similarity=-0.053  Sum_probs=49.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc-cchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK-HTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      ..+++||.|+|||+.+-..+......+...+.+........ ..+...+|......+......+.+.+  .+..+|+|||
T Consensus        21 l~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~kp~~D~Ryg~~i~sr~G~~~~a~~i~~~~di~~~~--~~~dvViIDE   98 (234)
T 2orv_A           21 IQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQEA--LGVAVIGIDE   98 (234)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETTCCCC-----------CEEEEESSGGGGHHHH--TTCSEEEESS
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeecCCccchHHHHhhcCCeeEEEecCCHHHHHHHh--ccCCEEEEEc
Confidence            58889999999998776666666555666655543211110 12222222221111122223455555  3456999999


Q ss_pred             cccccHHHHHHHHHhhc
Q 047225           98 IEKAHRDVLNVMLQLLD  114 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~  114 (287)
                      +..+..  +..+.+++.
T Consensus        99 aQF~~~--v~el~~~l~  113 (234)
T 2orv_A           99 GQFFPD--IVEFCEAMA  113 (234)
T ss_dssp             GGGCTT--HHHHHHHHH
T ss_pred             hhhhhh--HHHHHHHHH
Confidence            999974  444445554

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=97.38  E-value=0.00031  Score=61.26  Aligned_cols=83  Identities=22%  Similarity=0.140  Sum_probs=49.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC---CcccchhhHH----HHHHhCCcE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY---VGFENGGQLT----EAVRHRPHS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~----~~~~~~~~~   91 (287)
                      .++|+||||+|||+++..++..+...+..+++++.....+.. ....++.....   ........+.    ..+......
T Consensus        63 i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~~~~-ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l~~~~~~d  141 (356)
T 3hr8_A           63 IVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPV-YAKNLGVDLKSLLISQPDHGEQALEIVDELVRSGVVD  141 (356)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHH-HHHHHTCCGGGCEEECCSSHHHHHHHHHHHHHTSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccccchH-HHHHcCCchhhhhhhhccCHHHHHHHHHHHhhhcCCC
Confidence            699999999999999999998875556677777765433221 12222211110   0001112222    233345557


Q ss_pred             EEEEcCccccc
Q 047225           92 VILFDEIEKAH  102 (287)
Q Consensus        92 il~iDeid~~~  102 (287)
                      +++||.+..+.
T Consensus       142 lvVIDSi~~l~  152 (356)
T 3hr8_A          142 LIVVDSVAALV  152 (356)
T ss_dssp             EEEEECTTTCC
T ss_pred             eEEehHhhhhc
Confidence            99999988654

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.37  E-value=0.00015  Score=60.38  Aligned_cols=31  Identities=39%  Similarity=0.462  Sum_probs=25.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      .++++||+|+||||+++.|++.+   +..++..|
T Consensus         3 li~I~G~~GSGKSTla~~La~~~---~~~~i~~D   33 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQET---GWPVVALD   33 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH---CCCEEECC
T ss_pred             EEEEECCCCcCHHHHHHHHHhcC---CCeEEecc
Confidence            58999999999999999999988   44454443

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.36  E-value=0.00013  Score=56.66  Aligned_cols=23  Identities=30%  Similarity=0.671  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||+|+||||+++.|+..+
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            59999999999999999999987

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=97.35  E-value=0.00015  Score=57.18  Aligned_cols=22  Identities=45%  Similarity=0.715  Sum_probs=21.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      +++|+|++||||||+++.|++.
T Consensus        12 ~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           12 NILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            6999999999999999999998

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=97.35  E-value=0.00017  Score=57.53  Aligned_cols=35  Identities=29%  Similarity=0.319  Sum_probs=26.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      .+.|.||+|+||||+++.|+..+...+...+.++.
T Consensus        27 ~i~l~G~sGsGKSTl~~~La~~l~~~G~~~~~~d~   61 (200)
T 3uie_A           27 VIWVTGLSGSGKSTLACALNQMLYQKGKLCYILDG   61 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCceEEEecC
Confidence            69999999999999999999998533333334443

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=97.33  E-value=0.00013  Score=57.30  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=21.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+|+||+||||+++.|++.+
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999988

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=97.32  E-value=0.00028  Score=61.08  Aligned_cols=88  Identities=19%  Similarity=0.267  Sum_probs=47.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc-ccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS-EYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      .++++||+|+||||+.++|+..+..... .+.++.. ++... .....++...+ -|......+..++...+ .++++||
T Consensus       173 ~v~i~G~~GsGKTTll~~l~g~~~~~~g-~i~i~~~~e~~~~-~~~~~i~~~~g-gg~~~r~~la~aL~~~p-~ilildE  248 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSIMEFIPKEER-IISIEDTEEIVFK-HHKNYTQLFFG-GNITSADCLKSCLRMRP-DRIILGE  248 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHGGGGSCTTSC-EEEEESSCCCCCS-SCSSEEEEECB-TTBCHHHHHHHHTTSCC-SEEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcCCCc-EEEECCeeccccc-cchhEEEEEeC-CChhHHHHHHHHhhhCC-CEEEEcC
Confidence            5999999999999999999998855433 3344322 21100 00000000000 11222223344444444 7999999


Q ss_pred             cccccHHHHHHHHHh
Q 047225           98 IEKAHRDVLNVMLQL  112 (287)
Q Consensus        98 id~~~~~~~~~L~~~  112 (287)
                      ...  .++.+.|..+
T Consensus       249 ~~~--~e~~~~l~~~  261 (330)
T 2pt7_A          249 LRS--SEAYDFYNVL  261 (330)
T ss_dssp             CCS--THHHHHHHHH
T ss_pred             CCh--HHHHHHHHHH
Confidence            885  3455544443

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.32  E-value=0.00016  Score=57.08  Aligned_cols=34  Identities=29%  Similarity=0.385  Sum_probs=26.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      .++|+||+|+||||+++.|+...   ....+.++..+
T Consensus        11 ~i~l~G~~GsGKSTl~~~La~~~---~~g~i~i~~d~   44 (191)
T 1zp6_A           11 ILLLSGHPGSGKSTIAEALANLP---GVPKVHFHSDD   44 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTCS---SSCEEEECTTH
T ss_pred             EEEEECCCCCCHHHHHHHHHhcc---CCCeEEEcccc
Confidence            69999999999999999999863   33445555433

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=97.31  E-value=0.00012  Score=57.28  Aligned_cols=23  Identities=48%  Similarity=0.690  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +++|+|+||+||||+++.|++.+
T Consensus        13 ~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           13 NILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHh
Confidence            59999999999999999999988

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.31  E-value=0.00014  Score=59.26  Aligned_cols=23  Identities=17%  Similarity=0.447  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus         9 ~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            9 RAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            69999999999999999999987

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=97.30  E-value=0.0013  Score=55.33  Aligned_cols=24  Identities=33%  Similarity=0.328  Sum_probs=21.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .++|+||+|+|||+++..++..+.
T Consensus        32 i~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A           32 VGALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHh
Confidence            699999999999999999997663

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=97.29  E-value=0.00098  Score=58.42  Aligned_cols=83  Identities=22%  Similarity=0.204  Sum_probs=48.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC---CcccchhhHH----HHHHhCCcE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY---VGFENGGQLT----EAVRHRPHS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~----~~~~~~~~~   91 (287)
                      .++|+||||+|||+++..++......+.++++++.....+.. ....+|.....   ........+.    ..++.....
T Consensus        76 li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~~~~-~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l~~~~~~~  154 (366)
T 1xp8_A           76 ITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPV-YARALGVNTDELLVSQPDNGEQALEIMELLVRSGAID  154 (366)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHH-HHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTCCS
T ss_pred             EEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCChhHH-HHHHcCCCHHHceeecCCcHHHHHHHHHHHHhcCCCC
Confidence            589999999999999999988764445677788775433221 11112211000   0000112222    233345567


Q ss_pred             EEEEcCccccc
Q 047225           92 VILFDEIEKAH  102 (287)
Q Consensus        92 il~iDeid~~~  102 (287)
                      +|+||.+..+.
T Consensus       155 lVVIDsl~~l~  165 (366)
T 1xp8_A          155 VVVVDSVAALT  165 (366)
T ss_dssp             EEEEECTTTCC
T ss_pred             EEEEeChHHhc
Confidence            99999998654

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.29  E-value=0.00015  Score=56.04  Aligned_cols=22  Identities=45%  Similarity=0.588  Sum_probs=20.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.||||+||||+++.| +.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHT
T ss_pred             EEEEECCCCCCHHHHHHHH-HHC
Confidence            5899999999999999999 665

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.29  E-value=0.00026  Score=55.72  Aligned_cols=36  Identities=28%  Similarity=0.199  Sum_probs=28.7

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      ..++|.|++|+||||+++.|+..+...+..+..++.
T Consensus        14 ~~i~l~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~   49 (186)
T 2yvu_A           14 IVVWLTGLPGSGKTTIATRLADLLQKEGYRVEVLDG   49 (186)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEeeH
Confidence            369999999999999999999998554555555543

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=97.28  E-value=0.00038  Score=60.67  Aligned_cols=83  Identities=20%  Similarity=0.214  Sum_probs=48.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC---CcccchhhHHH----HHHhCCcE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY---VGFENGGQLTE----AVRHRPHS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~----~~~~~~~~   91 (287)
                      .++++||||+|||+++..++......+....+++.....+.. ....+|.....   ........+..    .+......
T Consensus        63 iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~~~~~-~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l~~~~~~~  141 (349)
T 2zr9_A           63 VIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPE-YAKKLGVDTDSLLVSQPDTGEQALEIADMLVRSGALD  141 (349)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHH-HHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTCCS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCcCHH-HHHHcCCCHHHeEEecCCCHHHHHHHHHHHHhcCCCC
Confidence            699999999999999999988775556677777765432221 11222211000   00001122222    33344567


Q ss_pred             EEEEcCccccc
Q 047225           92 VILFDEIEKAH  102 (287)
Q Consensus        92 il~iDeid~~~  102 (287)
                      +|+||++..+.
T Consensus       142 lIVIDsl~~l~  152 (349)
T 2zr9_A          142 IIVIDSVAALV  152 (349)
T ss_dssp             EEEEECGGGCC
T ss_pred             EEEEcChHhhc
Confidence            99999999764

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=97.27  E-value=0.00017  Score=58.41  Aligned_cols=23  Identities=30%  Similarity=0.569  Sum_probs=22.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus         6 ~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            6 RMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            69999999999999999999988

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.27  E-value=0.00014  Score=56.92  Aligned_cols=23  Identities=39%  Similarity=0.541  Sum_probs=18.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus         7 ~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            7 IIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             EEEEECCC----CHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            69999999999999999999988

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.26  E-value=0.00019  Score=56.62  Aligned_cols=23  Identities=22%  Similarity=0.382  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus         5 ~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            5 VVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999987

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.26  E-value=0.00028  Score=57.23  Aligned_cols=33  Identities=15%  Similarity=0.334  Sum_probs=26.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      .++|.||||+||+|.|+.|++.+   +  +..++.++.
T Consensus        31 iI~llGpPGsGKgTqa~~L~~~~---g--~~hIstGdl   63 (217)
T 3umf_A           31 VIFVLGGPGSGKGTQCEKLVQKF---H--FNHLSSGDL   63 (217)
T ss_dssp             EEEEECCTTCCHHHHHHHHHHHH---C--CEEECHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH---C--CceEcHHHH
Confidence            68899999999999999999988   2  344555443

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.26  E-value=0.00022  Score=56.88  Aligned_cols=27  Identities=22%  Similarity=0.396  Sum_probs=23.5

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++. .++|.|++|+||||+++.|++.+
T Consensus        13 ~~~~-~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           13 DQVS-VIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TTCE-EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCc-EEEEECCCCCCHHHHHHHHHHHc
Confidence            3443 69999999999999999999987

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.26  E-value=0.00021  Score=56.46  Aligned_cols=23  Identities=22%  Similarity=0.426  Sum_probs=22.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus        11 ~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A           11 IIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999988

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=97.25  E-value=0.00044  Score=56.59  Aligned_cols=37  Identities=22%  Similarity=0.187  Sum_probs=28.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC------CCCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG------SKEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~------~~~~~~~~~~~~   55 (287)
                      .+.|+||+|+|||++++.++.....      .....++++...
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~   68 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEG   68 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCC
Confidence            6999999999999999999986321      245566776654

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.25  E-value=0.00021  Score=57.03  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|++|+||||+++.|++.+
T Consensus        20 ~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           20 SIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             CEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            59999999999999999999988

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=97.24  E-value=0.00019  Score=55.66  Aligned_cols=23  Identities=26%  Similarity=0.460  Sum_probs=21.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|++|+||||+++.|++.+
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999988

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.24  E-value=0.00021  Score=57.66  Aligned_cols=23  Identities=26%  Similarity=0.485  Sum_probs=21.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.||||+||||+++.|++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999988

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=97.24  E-value=0.00019  Score=57.88  Aligned_cols=23  Identities=22%  Similarity=0.479  Sum_probs=21.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||||+||||+++.|++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999987

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=97.23  E-value=0.00027  Score=55.25  Aligned_cols=34  Identities=26%  Similarity=0.299  Sum_probs=27.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      .+.|+|++|+||||+++.|+..+...+.+++.++
T Consensus         7 ~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d   40 (179)
T 2pez_A            7 TVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   40 (179)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEEC
Confidence            6899999999999999999998744445555554

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=97.22  E-value=0.00025  Score=58.62  Aligned_cols=26  Identities=23%  Similarity=0.296  Sum_probs=23.4

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +|. .++|+||||+||||+++.|++.+
T Consensus        28 ~~~-~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           28 PDG-RYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CCE-EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCc-EEEEECCCCCCHHHHHHHHHHHh
Confidence            444 69999999999999999999987

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.22  E-value=0.00025  Score=55.71  Aligned_cols=23  Identities=43%  Similarity=0.693  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus         6 ~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            6 AVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999987

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=97.22  E-value=0.00027  Score=56.83  Aligned_cols=33  Identities=36%  Similarity=0.543  Sum_probs=26.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      .++|.||||+||+|.|+.|++.+   +  +..++.++.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~---g--~~~istGdl   34 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK---G--FVHISTGDI   34 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH---C--CEEEEHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH---C--CeEEcHHHH
Confidence            58899999999999999999988   3  344555443

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.21  E-value=0.00024  Score=54.83  Aligned_cols=23  Identities=17%  Similarity=0.244  Sum_probs=21.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|++|+||||+++.|++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999988

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=97.21  E-value=0.00037  Score=56.09  Aligned_cols=34  Identities=26%  Similarity=0.287  Sum_probs=27.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      .++|+||+|+|||+++..++. .  .+...++++...
T Consensus        22 ~~~i~G~~GsGKTtl~~~l~~-~--~~~~v~~i~~~~   55 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQTGL-L--SGKKVAYVDTEG   55 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH-H--HCSEEEEEESSC
T ss_pred             EEEEECCCCCCHHHHHHHHHH-H--cCCcEEEEECCC
Confidence            699999999999999999998 2  245667776654

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=97.20  E-value=0.00058  Score=59.65  Aligned_cols=83  Identities=18%  Similarity=0.183  Sum_probs=48.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCC---cccchhhHH----HHHHhCCcE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYV---GFENGGQLT----EAVRHRPHS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~----~~~~~~~~~   91 (287)
                      .++++|+||+|||+++..++......+...++++.....+... ...+|......   .......+.    ..++.....
T Consensus        65 ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~s~~~~~-a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~~~~~~~  143 (356)
T 1u94_A           65 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIY-ARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVD  143 (356)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHH-HHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCccHHH-HHHcCCChhheeeeCCCCHHHHHHHHHHHHhccCCC
Confidence            6999999999999999999987754556777888754332211 11122110000   000111222    233345567


Q ss_pred             EEEEcCccccc
Q 047225           92 VILFDEIEKAH  102 (287)
Q Consensus        92 il~iDeid~~~  102 (287)
                      +|+||.+..+.
T Consensus       144 lVVIDsl~~l~  154 (356)
T 1u94_A          144 VIVVDSVAALT  154 (356)
T ss_dssp             EEEEECGGGCC
T ss_pred             EEEEcCHHHhc
Confidence            99999998764

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=97.19  E-value=0.00028  Score=57.82  Aligned_cols=23  Identities=35%  Similarity=0.554  Sum_probs=22.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus        18 ~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           18 RAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999998

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=97.19  E-value=0.00032  Score=55.22  Aligned_cols=23  Identities=17%  Similarity=0.364  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus         8 ~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            8 VVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999988

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.18  E-value=0.00021  Score=55.59  Aligned_cols=22  Identities=27%  Similarity=0.348  Sum_probs=20.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++|.|+||+||||+++.|++.
T Consensus         4 ~I~i~G~~GsGKST~a~~L~~~   25 (181)
T 1ly1_A            4 IILTIGCPGSGKSTWAREFIAK   25 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHhh
Confidence            5899999999999999999983

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=97.16  E-value=0.0013  Score=58.73  Aligned_cols=91  Identities=13%  Similarity=0.034  Sum_probs=50.8

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhC---CCCCCCcccchhhHHHHHHhCC----
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFG---SPPGYVGFENGGQLTEAVRHRP----   89 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~----   89 (287)
                      ....++.|+||||||++...++..     .....+....... ..+..-+.   .... ... ....+..++....    
T Consensus       161 ~~v~~I~G~aGsGKTt~I~~~~~~-----~~~lVlTpT~~aa-~~l~~kl~~~~~~~~-~~~-~V~T~dsfL~~~~~~~~  232 (446)
T 3vkw_A          161 AKVVLVDGVPGCGKTKEILSRVNF-----EEDLILVPGRQAA-EMIRRRANASGIIVA-TKD-NVRTVDSFLMNYGKGAR  232 (446)
T ss_dssp             SEEEEEEECTTSCHHHHHHHHCCT-----TTCEEEESCHHHH-HHHHHHHTTTSCCCC-CTT-TEEEHHHHHHTTTSSCC
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcc-----CCeEEEeCCHHHH-HHHHHHhhhcCcccc-ccc-eEEEeHHhhcCCCCCCC
Confidence            346899999999999999877642     1222222221111 11111111   1000 000 1123334433321    


Q ss_pred             --cEEEEEcCcccccHHHHHHHHHhhcC
Q 047225           90 --HSVILFDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        90 --~~il~iDeid~~~~~~~~~L~~~l~~  115 (287)
                        ..+++|||+-.+++..+..+..++..
T Consensus       233 ~~~d~liiDE~sm~~~~~l~~l~~~~~~  260 (446)
T 3vkw_A          233 CQFKRLFIDEGLMLHTGCVNFLVEMSLC  260 (446)
T ss_dssp             CCCSEEEEETGGGSCHHHHHHHHHHTTC
T ss_pred             CcCCEEEEeCcccCCHHHHHHHHHhCCC
Confidence              46999999999999998888877653

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=97.16  E-value=0.00027  Score=58.97  Aligned_cols=36  Identities=22%  Similarity=0.328  Sum_probs=27.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .++|.|+||+||||+++.|++.+...+..++.++..
T Consensus         6 lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~~D   41 (260)
T 3a4m_A            6 LIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSD   41 (260)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECTH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEECch
Confidence            699999999999999999999863334555544543

>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=97.16  E-value=0.00046  Score=71.15  Aligned_cols=82  Identities=16%  Similarity=0.130  Sum_probs=51.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCC-CCCcc------cchhhHHHHHHhCCcE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPP-GYVGF------ENGGQLTEAVRHRPHS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~------~~~~~~~~~~~~~~~~   91 (287)
                      .++++||||||||++|++++......+.+.+.++.....+.. +...+|-.. .+.+.      .....++..++....+
T Consensus      1084 ~~l~~G~~g~GKT~la~~~~~~~~~~g~~~~fi~~~~~~~~~-~~~~~G~d~~~~~~~~~~~~e~~l~~~~~~ar~~~~~ 1162 (1706)
T 3cmw_A         1084 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPI-YARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVD 1162 (1706)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHH-HHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCS
T ss_pred             EEEEEcCCCCChHHHHHHHHHHhhhcCCceeEEEcccchHHH-HHHHhCCCHHHHhhccccchHHHHHHHHHHHHhcCCe
Confidence            599999999999999999998875556777788775533221 112222110 01111      0112344445566678


Q ss_pred             EEEEcCcccc
Q 047225           92 VILFDEIEKA  101 (287)
Q Consensus        92 il~iDeid~~  101 (287)
                      ++++|+++-+
T Consensus      1163 ~i~~d~~~al 1172 (1706)
T 3cmw_A         1163 VIVVDSVAAL 1172 (1706)
T ss_dssp             EEEESCGGGC
T ss_pred             EEEeCchHhc
Confidence            9999998833

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=97.15  E-value=0.00027  Score=56.06  Aligned_cols=23  Identities=26%  Similarity=0.429  Sum_probs=22.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus        14 ~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           14 IIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999988

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=97.15  E-value=0.00032  Score=56.22  Aligned_cols=25  Identities=20%  Similarity=0.190  Sum_probs=22.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      .++|.|++|+||||+++.|++.+..
T Consensus        12 ~I~l~G~~GsGKST~~~~L~~~l~~   36 (212)
T 2wwf_A           12 FIVFEGLDRSGKSTQSKLLVEYLKN   36 (212)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            6999999999999999999998743

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=97.15  E-value=0.00031  Score=55.41  Aligned_cols=33  Identities=24%  Similarity=0.105  Sum_probs=25.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEe
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRI   51 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~   51 (287)
                      .+.|.|++|+||||+++.|++.+...+.+++..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~~g~~~i~~   34 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLY   34 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            488999999999999999999874334444433

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.14  E-value=0.00048  Score=55.33  Aligned_cols=25  Identities=32%  Similarity=0.465  Sum_probs=23.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      ..+.|.||+|+||||+++.|+..+.
T Consensus        23 ~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           23 QLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3699999999999999999999985

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=97.13  E-value=0.00043  Score=55.34  Aligned_cols=26  Identities=27%  Similarity=0.152  Sum_probs=23.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .++|.|+||+||||+++.|++.+...
T Consensus         6 ~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            6 LIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            69999999999999999999998543

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.12  E-value=0.00028  Score=56.29  Aligned_cols=23  Identities=35%  Similarity=0.488  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||+|+||||+++.|+..+
T Consensus        31 ~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           31 HVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            69999999999999999999987

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.11  E-value=0.00032  Score=56.39  Aligned_cols=24  Identities=29%  Similarity=0.486  Sum_probs=22.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+.|+||+|+||||+++.|+..+.
T Consensus        10 ~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A           10 LIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             EEEEECcCCCCHHHHHHHHHhhCC
Confidence            699999999999999999998873

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=97.10  E-value=0.00041  Score=55.64  Aligned_cols=30  Identities=13%  Similarity=0.181  Sum_probs=24.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCce
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAM   48 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~   48 (287)
                      .++|.|++|+||||+++.|++.+.......
T Consensus        11 ~I~l~G~~GsGKsT~~~~L~~~l~~~~~~v   40 (215)
T 1nn5_A           11 LIVLEGVDRAGKSTQSRKLVEALCAAGHRA   40 (215)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCcE
Confidence            699999999999999999999874333333

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=97.08  E-value=0.00035  Score=56.33  Aligned_cols=23  Identities=22%  Similarity=0.336  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999988

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=97.07  E-value=0.0003  Score=56.96  Aligned_cols=23  Identities=26%  Similarity=0.527  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus         7 ~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            7 NLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            59999999999999999999998

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=97.07  E-value=0.0084  Score=54.73  Aligned_cols=74  Identities=19%  Similarity=0.261  Sum_probs=47.7

Q ss_pred             CcEEEEEcCccccc----HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           89 PHSVILFDEIEKAH----RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        89 ~~~il~iDeid~~~----~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      |+-+++|||+..+-    ..+.+.+.++...++-          ..+.+|+++..+...                     
T Consensus       297 P~ivlvIDE~~~ll~~~~~~~~~~l~~Lar~gRa----------~GI~LIlaTQrp~~d---------------------  345 (512)
T 2ius_A          297 PYIVVLVDEFADLMMTVGKKVEELIARLAQKARA----------AGIHLVLATQRPSVD---------------------  345 (512)
T ss_dssp             CEEEEEEETHHHHHHHHHHHHHHHHHHHHHHCGG----------GTEEEEEEESCCCTT---------------------
T ss_pred             CcEEEEEeCHHHHHhhhhHHHHHHHHHHHHHhhh----------CCcEEEEEecCCccc---------------------
Confidence            33589999996432    2445556666655431          134566777665422                     


Q ss_pred             hcCChhHHhccCceEEeCCCCHHHHHHHHH
Q 047225          165 RRFRPEFLNRIDEVIVFRQLNKMQLMEIVD  194 (287)
Q Consensus       165 ~~~~~~l~~r~~~~i~~~~~~~~~~~~il~  194 (287)
                       .++..+.+.++..|.|.-.+..+...++.
T Consensus       346 -vl~~~i~~n~~~RI~lrv~s~~dsr~ilg  374 (512)
T 2ius_A          346 -VITGLIKANIPTRIAFTVSSKIDSRTILD  374 (512)
T ss_dssp             -TSCHHHHHHCCEEEEECCSSHHHHHHHHS
T ss_pred             -cccHHHHhhcCCeEEEEcCCHHHHHHhcC
Confidence             24556778887888898888888887774

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.07  E-value=0.00054  Score=54.73  Aligned_cols=36  Identities=25%  Similarity=0.236  Sum_probs=28.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .+.+.|++|+||||+++.|+..+...+..+...+..
T Consensus        24 ~i~i~G~~GsGKstl~~~l~~~~~~~~~~v~~~~~d   59 (201)
T 1rz3_A           24 VLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMD   59 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcCCeEEEeccC
Confidence            699999999999999999999875444555544433

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=97.05  E-value=0.00033  Score=56.82  Aligned_cols=23  Identities=17%  Similarity=0.413  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus         7 ~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            7 KVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            59999999999999999999998

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.05  E-value=0.00041  Score=54.36  Aligned_cols=23  Identities=26%  Similarity=0.564  Sum_probs=21.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+||+|+||||+++.|+..+
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            59999999999999999999876

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=97.05  E-value=0.0044  Score=55.26  Aligned_cols=23  Identities=17%  Similarity=0.238  Sum_probs=21.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+|+||+||||+++.|++.+
T Consensus       260 lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          260 VVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             EEEEESCTTSSHHHHHHHHTGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            69999999999999999999876

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=97.05  E-value=0.00049  Score=55.82  Aligned_cols=23  Identities=35%  Similarity=0.576  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+||+|+||||+++.|+..+
T Consensus         7 ~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            7 VITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999987

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=97.05  E-value=0.00052  Score=56.89  Aligned_cols=39  Identities=13%  Similarity=0.185  Sum_probs=28.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC-----CCceEEecccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS-----KEAMVRIDMSEYM   57 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~-----~~~~~~~~~~~~~   57 (287)
                      .+.|.|++|+||||+++.|++.+...     +.....+++.++.
T Consensus        24 iI~I~G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~i~~D~~~   67 (252)
T 1uj2_A           24 LIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSFY   67 (252)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGGGB
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhhhcccccCCceEEEecCccc
Confidence            69999999999999999999987321     1233456665554

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=97.03  E-value=0.00085  Score=57.74  Aligned_cols=39  Identities=21%  Similarity=0.288  Sum_probs=31.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      ..++++|++|+||||++..||..+...+..+..+++..+
T Consensus       106 ~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~D~~  144 (320)
T 1zu4_A          106 NIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAADTF  144 (320)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCc
Confidence            479999999999999999999988666667776666543

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=97.02  E-value=0.00047  Score=59.24  Aligned_cols=31  Identities=39%  Similarity=0.605  Sum_probs=26.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      .++|+||+|+|||++++.|++.+   +..++..|
T Consensus         7 ~i~i~GptGsGKTtla~~La~~l---~~~iis~D   37 (323)
T 3crm_A            7 AIFLMGPTAAGKTDLAMALADAL---PCELISVD   37 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS---CEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc---CCcEEecc
Confidence            69999999999999999999998   44555554

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.02  E-value=0.00039  Score=55.27  Aligned_cols=23  Identities=17%  Similarity=0.417  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|++|+||||+++.|++.+
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHhc
Confidence            48999999999999999999998

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=97.01  E-value=0.00055  Score=56.08  Aligned_cols=23  Identities=30%  Similarity=0.549  Sum_probs=22.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|.||+|+||||+++.|++.+
T Consensus        11 ~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A           11 VVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999988

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=97.00  E-value=0.001  Score=56.89  Aligned_cols=38  Identities=18%  Similarity=0.203  Sum_probs=29.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc--CCCCceEEeccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF--GSKEAMVRIDMSEY   56 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~--~~~~~~~~~~~~~~   56 (287)
                      .+.|.||+|+||||+++.|+..+.  +....+..+++..+
T Consensus        82 iigI~G~~GsGKSTl~~~L~~~l~~~~~~G~i~vi~~d~~  121 (308)
T 1sq5_A           82 IISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGF  121 (308)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhCCCCCeEEEEecCCc
Confidence            699999999999999999999885  44455555555443

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=97.00  E-value=0.00042  Score=55.27  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=20.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+|++|+||||+++.|+. +
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~   24 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-L   24 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-T
T ss_pred             EEEEECCCCcCHHHHHHHHHH-C
Confidence            589999999999999999998 6

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.99  E-value=0.00037  Score=55.77  Aligned_cols=23  Identities=35%  Similarity=0.699  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||+|+||||+++.|+..+
T Consensus        14 ~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           14 PLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            58999999999999999999987

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.98  E-value=0.00048  Score=54.81  Aligned_cols=23  Identities=22%  Similarity=0.235  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|.|++|+||||+++.|++.+
T Consensus         6 ~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            6 LIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTS
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            69999999999999999999987

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.97  E-value=0.002  Score=67.31  Aligned_cols=82  Identities=18%  Similarity=0.211  Sum_probs=53.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCC-C------CCcccchhhHHH-HHHhCCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPP-G------YVGFENGGQLTE-AVRHRPH   90 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~------~~~~~~~~~~~~-~~~~~~~   90 (287)
                      +++++||||||||+++..++......+.+..++++.+..+... ...+|-.. .      ..+ .....+.+ ..+....
T Consensus      1083 ~vll~G~~GtGKT~la~~~~~ea~k~Ge~~~Fit~ee~~~~L~-a~~~G~dl~~l~~~~pd~~-e~~~~i~~~l~~~~~~ 1160 (2050)
T 3cmu_A         1083 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIY-ARKLGVDIDNLLCSQPDTG-EQALEICDALARSGAV 1160 (2050)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHH-HHHTTCCTTTCEEECCSSH-HHHHHHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEccccHHHHH-HHHcCCChhHheeecCcch-HHHHHHHHHHHHhCCC
Confidence            6999999999999999999988777788889999877655432 12222100 0      011 01112222 3334556


Q ss_pred             EEEEEcCccccc
Q 047225           91 SVILFDEIEKAH  102 (287)
Q Consensus        91 ~il~iDeid~~~  102 (287)
                      .+|+||++..+.
T Consensus      1161 dlvVIDsl~~L~ 1172 (2050)
T 3cmu_A         1161 DVIVVDSVAALT 1172 (2050)
T ss_dssp             SEEEESCGGGCC
T ss_pred             CEEEECCccccc
Confidence            799999999773

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=96.97  E-value=0.00064  Score=57.88  Aligned_cols=31  Identities=32%  Similarity=0.495  Sum_probs=25.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      .++++||+|+|||+++..|++.+   +..++..|
T Consensus        12 ~i~i~GptgsGKt~la~~La~~~---~~~iis~D   42 (316)
T 3foz_A           12 AIFLMGPTASGKTALAIELRKIL---PVELISVD   42 (316)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS---CEEEEECC
T ss_pred             EEEEECCCccCHHHHHHHHHHhC---CCcEEecc
Confidence            58999999999999999999998   34444443

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=96.96  E-value=0.0021  Score=55.87  Aligned_cols=38  Identities=21%  Similarity=0.165  Sum_probs=30.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcC------CCCceEEecccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFG------SKEAMVRIDMSE   55 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~------~~~~~~~~~~~~   55 (287)
                      ..+.|+||||+|||+++..++.....      .+...++++...
T Consensus       123 ~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~  166 (343)
T 1v5w_A          123 AITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTEN  166 (343)
T ss_dssp             EEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            36899999999999999999987422      345677887755

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.96  E-value=0.00047  Score=56.86  Aligned_cols=23  Identities=26%  Similarity=0.559  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||+|+||||+++.|++.+
T Consensus        29 ~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           29 RAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999887

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=96.95  E-value=0.0021  Score=57.05  Aligned_cols=37  Identities=22%  Similarity=0.191  Sum_probs=27.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC------CCCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG------SKEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~------~~~~~~~~~~~~   55 (287)
                      .+.|+||||+|||+++..++.....      .....++++...
T Consensus       180 i~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~  222 (400)
T 3lda_A          180 ITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEG  222 (400)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             EEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCC
Confidence            6999999999999999977644311      245577777654

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.95  E-value=0.00047  Score=54.89  Aligned_cols=23  Identities=39%  Similarity=0.676  Sum_probs=21.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+||+|+||||+++.|+..+
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHhhC
Confidence            68999999999999999999875

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.95  E-value=0.00095  Score=57.00  Aligned_cols=35  Identities=26%  Similarity=0.238  Sum_probs=28.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      .++|+||+|+||||+++.|+..+...+..+.....
T Consensus       104 vi~lvG~nGsGKTTll~~Lagll~~~~g~V~l~g~  138 (304)
T 1rj9_A          104 VVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAG  138 (304)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEee
Confidence            79999999999999999999998766655554444

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.94  E-value=0.0007  Score=55.01  Aligned_cols=23  Identities=35%  Similarity=0.595  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999988

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.93  E-value=0.0013  Score=56.59  Aligned_cols=43  Identities=19%  Similarity=0.257  Sum_probs=30.7

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHhcC--CCCceEEeccccc
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEYFG--SKEAMVRIDMSEY   56 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l~~--~~~~~~~~~~~~~   56 (287)
                      ..+|. .+.|.||+|+||||+++.|+..+..  ....+..+....+
T Consensus        89 ~~~p~-iigI~GpsGSGKSTl~~~L~~ll~~~~~~~~v~~i~~D~f  133 (321)
T 3tqc_A           89 PKVPY-IIGIAGSVAVGKSTTSRVLKALLSRWPDHPNVEVITTDGF  133 (321)
T ss_dssp             CCCCE-EEEEECCTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             CCCCE-EEEEECCCCCCHHHHHHHHHHHhcccCCCCeEEEEeeccc
Confidence            44555 6999999999999999999998842  2334444444443

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=96.91  E-value=0.0014  Score=59.50  Aligned_cols=37  Identities=24%  Similarity=0.286  Sum_probs=29.1

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      ..++|+|++|+||||+++.|+..+...+..+...+..
T Consensus       294 eVI~LVGpNGSGKTTLl~~LAgll~~~~G~V~l~g~D  330 (503)
T 2yhs_A          294 FVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGD  330 (503)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECCC
T ss_pred             eEEEEECCCcccHHHHHHHHHHHhhhcCCeEEEecCc
Confidence            3799999999999999999999886555555544443

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=96.91  E-value=0.00084  Score=57.34  Aligned_cols=84  Identities=13%  Similarity=0.213  Sum_probs=48.7

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcC--CCCceEEecccccccccchhhhhCCCCCC---CcccchhhH-HH---H---H
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFG--SKEAMVRIDMSEYMEKHTVSKFFGSPPGY---VGFENGGQL-TE---A---V   85 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~-~~---~---~   85 (287)
                      +.++++||||+|||+++-.++.....  .+..+++++...-.+.. ....+|-....   ...+....+ .+   .   +
T Consensus        29 GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~-ra~~lGvd~d~llv~~~~~~E~~~l~i~~~l~~i  107 (333)
T 3io5_A           29 GLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA-YLRSMGVDPERVIHTPVQSLEQLRIDMVNQLDAI  107 (333)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH-HHHHTTCCGGGEEEEECSBHHHHHHHHHHHHHTC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH-HHHHhCCCHHHeEEEcCCCHHHHHHHHHHHHHHh
Confidence            36899999999999998777766533  25677888875543321 12222321110   011112223 22   2   2


Q ss_pred             HhCCcEEEEEcCccccc
Q 047225           86 RHRPHSVILFDEIEKAH  102 (287)
Q Consensus        86 ~~~~~~il~iDeid~~~  102 (287)
                      ++....+++||-+..+.
T Consensus       108 ~~~~~~lvVIDSI~aL~  124 (333)
T 3io5_A          108 ERGEKVVVFIDSLGNLA  124 (333)
T ss_dssp             CTTCCEEEEEECSTTCB
T ss_pred             hccCceEEEEecccccc
Confidence            44567899999988663

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.91  E-value=0.00054  Score=53.98  Aligned_cols=23  Identities=39%  Similarity=0.732  Sum_probs=20.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+||+|+||||+++.|+...
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~~~   26 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAAQL   26 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCcHHHHHHHHhccc
Confidence            58899999999999999998754

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.91  E-value=0.00062  Score=54.07  Aligned_cols=22  Identities=32%  Similarity=0.293  Sum_probs=20.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .+.|+|++|+||||+++.|++.
T Consensus        10 ~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A           10 IIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
Confidence            6999999999999999999986

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.90  E-value=0.00083  Score=55.72  Aligned_cols=23  Identities=39%  Similarity=0.583  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|.||+|+||||+++.|++.+
T Consensus        29 ~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           29 VITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            69999999999999999999887

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.90  E-value=0.00068  Score=54.50  Aligned_cols=35  Identities=26%  Similarity=0.377  Sum_probs=27.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc-CCCCceEEecc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF-GSKEAMVRIDM   53 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~-~~~~~~~~~~~   53 (287)
                      .++|.|++|+||||+++.|+..+. ..+.+.+.++.
T Consensus        27 ~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~~   62 (211)
T 1m7g_A           27 TIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDG   62 (211)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhccccCCcEEEECC
Confidence            699999999999999999999884 23344566653

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.90  E-value=0.00047  Score=54.95  Aligned_cols=23  Identities=26%  Similarity=0.524  Sum_probs=21.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+||+|+||||+++.|+..+
T Consensus         8 ~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            8 LIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            69999999999999999999877

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.88  E-value=0.00069  Score=54.30  Aligned_cols=24  Identities=42%  Similarity=0.332  Sum_probs=22.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+.|.||+|+||||+++.|+..+.
T Consensus         8 ~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            8 VIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            699999999999999999999873

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.86  E-value=0.00057  Score=58.97  Aligned_cols=31  Identities=29%  Similarity=0.505  Sum_probs=25.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      .++|+||+|+|||+++..||+.+   +..++..|
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~l---~~eiIs~D   72 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAHF---PLEVINSD   72 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTTS---CEEEEECC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHC---CCcEEccc
Confidence            69999999999999999999988   44444443

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=96.85  E-value=0.00077  Score=53.55  Aligned_cols=33  Identities=21%  Similarity=0.358  Sum_probs=26.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      .+.|+|++||||||+++.|++.+   +.  ..+++..+
T Consensus        14 iIgltG~~GSGKSTva~~L~~~l---g~--~vid~D~~   46 (192)
T 2grj_A           14 VIGVTGKIGTGKSTVCEILKNKY---GA--HVVNVDRI   46 (192)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH---CC--EEEEHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc---CC--EEEECcHH
Confidence            58999999999999999999986   33  44555544

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.84  E-value=0.0012  Score=50.70  Aligned_cols=24  Identities=25%  Similarity=0.360  Sum_probs=22.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..+.|.||.|+||||+++.++..+
T Consensus        34 e~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           34 IMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            369999999999999999999998

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.83  E-value=0.0021  Score=57.56  Aligned_cols=40  Identities=23%  Similarity=0.285  Sum_probs=33.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCC-CCceEEecccccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGS-KEAMVRIDMSEYM   57 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~-~~~~~~~~~~~~~   57 (287)
                      ..++++|++|+||||++-.||..+... +.....+++..+.
T Consensus       101 ~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~r  141 (433)
T 2xxa_A          101 AVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYR  141 (433)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Confidence            479999999999999999999988665 6777778877554

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.81  E-value=0.00088  Score=53.59  Aligned_cols=35  Identities=26%  Similarity=0.240  Sum_probs=26.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      ..+.++|++|+||||+++.|+..+.    .+..++...+
T Consensus        22 ~~i~i~G~~GsGKSTl~~~L~~~~~----~~~~i~~D~~   56 (207)
T 2qt1_A           22 FIIGISGVTNSGKTTLAKNLQKHLP----NCSVISQDDF   56 (207)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTTST----TEEEEEGGGG
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC----CcEEEeCCcc
Confidence            3699999999999999999998652    2444554443

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.81  E-value=0.00059  Score=54.41  Aligned_cols=23  Identities=35%  Similarity=0.625  Sum_probs=21.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+||+|+||||+++.|...+
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48999999999999999999876

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=96.80  E-value=0.0011  Score=56.68  Aligned_cols=39  Identities=21%  Similarity=0.317  Sum_probs=31.2

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      ..++++||+|+||||++..||..+...+..+..+++..+
T Consensus       105 ~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~D~~  143 (306)
T 1vma_A          105 FVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTF  143 (306)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTT
T ss_pred             eEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEccccc
Confidence            479999999999999999999988655566666665443

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=96.79  E-value=0.0011  Score=52.88  Aligned_cols=23  Identities=26%  Similarity=0.443  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|.|++|+||||+++.|++.+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            59999999999999999999988

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=96.78  E-value=0.00094  Score=53.21  Aligned_cols=23  Identities=30%  Similarity=0.655  Sum_probs=21.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+||+|+||||+++.|....
T Consensus        21 ~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           21 TLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHhhC
Confidence            58999999999999999999876

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.77  E-value=0.0011  Score=51.41  Aligned_cols=35  Identities=14%  Similarity=0.068  Sum_probs=27.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      .+.|.|++|+||||++..|+..+...+..+..+..
T Consensus         6 ~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik~   40 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKH   40 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEEe
Confidence            69999999999999999999988554555544443

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.77  E-value=0.0013  Score=56.13  Aligned_cols=36  Identities=19%  Similarity=0.205  Sum_probs=28.7

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      ..++|+||+|+||||+++.|+..+...+..+.....
T Consensus       101 ~vi~lvG~nGsGKTTll~~Lag~l~~~~g~V~l~g~  136 (302)
T 3b9q_A          101 AVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAG  136 (302)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEECC
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEee
Confidence            479999999999999999999998655555544443

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.75  E-value=0.00069  Score=53.51  Aligned_cols=22  Identities=41%  Similarity=0.800  Sum_probs=20.6

Q ss_pred             EEEeccCCChHHHHHHHHHHHh
Q 047225           20 FLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ++|+||+|+||||+++.|.+..
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            8899999999999999998876

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.75  E-value=0.00089  Score=55.49  Aligned_cols=23  Identities=30%  Similarity=0.460  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+|++|+||||+++.|+..+
T Consensus        50 ~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           50 SMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             CEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            59999999999999999999988

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.74  E-value=0.00074  Score=53.94  Aligned_cols=21  Identities=38%  Similarity=0.422  Sum_probs=19.9

Q ss_pred             EEEEeccCCChHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~   39 (287)
                      .+.|+||+|+||||+++.|+.
T Consensus         4 ~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999987

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.74  E-value=0.0021  Score=52.53  Aligned_cols=30  Identities=27%  Similarity=0.463  Sum_probs=25.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMV   49 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~   49 (287)
                      .+.|.|++|+||||+++.|++.+.. +..++
T Consensus        28 ~i~i~G~~GsGKsT~~~~l~~~l~~-~~~~~   57 (229)
T 4eaq_A           28 FITFEGPEGSGKTTVINEVYHRLVK-DYDVI   57 (229)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTT-TSCEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHhc-CCCce
Confidence            6999999999999999999999965 44444

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=96.73  E-value=0.0018  Score=57.84  Aligned_cols=80  Identities=25%  Similarity=0.306  Sum_probs=45.5

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc-cccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM-SEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      +...++++||+|+||||+.++++..+......++++.. -++.........+   ....++.....+...++..+ .+++
T Consensus       166 ~ggii~I~GpnGSGKTTlL~allg~l~~~~g~I~~~ed~ie~~~~~~~q~~v---~~~~g~~f~~~lr~~Lrq~p-d~i~  241 (418)
T 1p9r_A          166 PHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDIDGIGQTQV---NPRVDMTFARGLRAILRQDP-DVVM  241 (418)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCCSSSEEEEC---BGGGTBCHHHHHHHHGGGCC-SEEE
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHhhcCCCCCEEEEecccchhccCCcceEEE---ccccCcCHHHHHHHHhccCC-CeEE
Confidence            34579999999999999999999988655555554432 1111000000000   01122223334455566655 5778


Q ss_pred             EcCcc
Q 047225           95 FDEIE   99 (287)
Q Consensus        95 iDeid   99 (287)
                      +.|+.
T Consensus       242 vgEiR  246 (418)
T 1p9r_A          242 VGEIR  246 (418)
T ss_dssp             ESCCC
T ss_pred             EcCcC
Confidence            88875

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=96.70  E-value=0.0011  Score=55.82  Aligned_cols=26  Identities=31%  Similarity=0.424  Sum_probs=22.1

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHH
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~   39 (287)
                      ++++. .+.|+|++|+||||+++.|+.
T Consensus        72 ~~~~~-iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           72 PSGLY-VLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             CTTCE-EEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCCE-EEEEECCCCCCHHHHHHHHHH
Confidence            34454 699999999999999999994

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=96.70  E-value=0.0015  Score=56.29  Aligned_cols=36  Identities=25%  Similarity=0.171  Sum_probs=28.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      ..++|+||+|+||||+++.|+..+...+..+....+
T Consensus       130 ~vi~lvG~nGaGKTTll~~Lag~l~~~~g~V~l~g~  165 (328)
T 3e70_C          130 YVIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAAS  165 (328)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEee
Confidence            479999999999999999999988655555554443

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=96.68  E-value=0.001  Score=53.30  Aligned_cols=23  Identities=26%  Similarity=0.538  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+||+|+||||+++.|+..+
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            68999999999999999999887

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.68  E-value=0.0013  Score=53.09  Aligned_cols=21  Identities=43%  Similarity=0.526  Sum_probs=20.1

Q ss_pred             EEEEeccCCChHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~   39 (287)
                      .+.|.|++|+||||+++.|+.
T Consensus         6 ~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            6 IVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999999987

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=96.66  E-value=0.00061  Score=57.80  Aligned_cols=39  Identities=15%  Similarity=0.261  Sum_probs=27.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      .+.+.||+|+||||+++.|++.+...+..+..+++..+.
T Consensus         7 iIgItG~sGSGKSTva~~L~~~lg~~~~~~~vI~~D~~~   45 (290)
T 1a7j_A            7 IISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAFH   45 (290)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGGB
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcCCCeeEeecchhh
Confidence            599999999999999999999874333446667776665

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.66  E-value=0.0014  Score=56.80  Aligned_cols=23  Identities=26%  Similarity=0.486  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +++|+|++|+||||+++.|+..+
T Consensus        26 ~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A           26 CVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHh
Confidence            69999999999999999999987

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.65  E-value=0.0013  Score=56.88  Aligned_cols=23  Identities=39%  Similarity=0.628  Sum_probs=22.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+++.||+|+|||++++.|+..+
T Consensus         9 lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            9 LIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             eEEEECCCcCcHHHHHHHHHHHc
Confidence            69999999999999999999998

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=96.65  E-value=0.0091  Score=60.23  Aligned_cols=23  Identities=26%  Similarity=0.296  Sum_probs=20.7

Q ss_pred             EEEEEeccCCChHHHHHHHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      ..+.|+|+.|+|||+||+.+++.
T Consensus       148 ~~v~i~G~gG~GKTtLa~~~~~~  170 (1249)
T 3sfz_A          148 GWVTIYGMAGCGKSVLAAEAVRD  170 (1249)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTCC
T ss_pred             CEEEEEeCCCCCHHHHHHHHhcC
Confidence            46999999999999999998875

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.65  E-value=0.0015  Score=55.44  Aligned_cols=29  Identities=24%  Similarity=0.464  Sum_probs=24.8

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHhc
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      +++|. .+.+.||+|+||||+++.|+..+.
T Consensus        28 ~~~~~-ii~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           28 NKCPL-FIFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             CCSCE-EEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCCe-EEEEECCCCCCHHHHHHHHHHHhh
Confidence            44454 699999999999999999999884

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.65  E-value=0.0017  Score=59.50  Aligned_cols=32  Identities=31%  Similarity=0.308  Sum_probs=25.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEe
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRI   51 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~   51 (287)
                      +++++||+|+||||+.++++..+... ...+++
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~~i~~~-~giiti  293 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMMFIPPD-AKVVSI  293 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGSCTT-CCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCCCC-CCEEEE
Confidence            59999999999999999999888543 344444

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.64  E-value=0.0043  Score=56.00  Aligned_cols=36  Identities=19%  Similarity=0.258  Sum_probs=28.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC-CCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG-SKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~-~~~~~~~~~~~   54 (287)
                      .+++.|+||+|||+++..++..... .+.++.+++..
T Consensus       205 liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~E  241 (454)
T 2r6a_A          205 LIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSLE  241 (454)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEESS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEECC
Confidence            6999999999999999999987743 34466666643

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=96.64  E-value=0.0013  Score=56.10  Aligned_cols=23  Identities=39%  Similarity=0.469  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+++.||+|+|||+++..|++.+
T Consensus         5 ~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEECCCcCCHHHHHHHHHHhC
Confidence            58999999999999999999987

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=96.63  E-value=0.0018  Score=55.11  Aligned_cols=39  Identities=26%  Similarity=0.329  Sum_probs=31.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      ..++++|++|+||||++..|+..+...+..+..+++..+
T Consensus        99 ~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~~  137 (297)
T 1j8m_F           99 YVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVY  137 (297)
T ss_dssp             EEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECCCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCC
Confidence            368899999999999999999988655666776766543

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.60  E-value=0.0011  Score=53.60  Aligned_cols=23  Identities=39%  Similarity=0.739  Sum_probs=21.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+||+|+||||+++.|+..+
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48899999999999999999877

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.60  E-value=0.0019  Score=56.32  Aligned_cols=36  Identities=19%  Similarity=0.205  Sum_probs=28.8

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      ..++|+||+|+||||+++.|+..+...+..+....+
T Consensus       158 ~vi~lvG~nGsGKTTll~~Lag~l~~~~G~V~l~g~  193 (359)
T 2og2_A          158 AVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAG  193 (359)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEECC
T ss_pred             eEEEEEcCCCChHHHHHHHHHhhccccCCEEEEecc
Confidence            479999999999999999999998655555554443

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.59  E-value=0.002  Score=52.69  Aligned_cols=28  Identities=25%  Similarity=0.528  Sum_probs=23.6

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +.++. .+.|.|++|+||||+++.|+..+
T Consensus        13 ~~~~~-~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           13 KMKTI-QIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             -CCCC-EEEEECSSCSSHHHHHHHHHHHH
T ss_pred             ccCCc-EEEEECCCCCCHHHHHHHHHHHc
Confidence            33444 69999999999999999999987

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=96.58  E-value=0.0022  Score=58.99  Aligned_cols=36  Identities=31%  Similarity=0.352  Sum_probs=28.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .++|.||+|+|||++++.++......+.+.+++...
T Consensus       283 i~~i~G~~GsGKSTLl~~l~g~~~~~G~~vi~~~~e  318 (525)
T 1tf7_A          283 IILATGATGTGKTLLVSRFVENACANKERAILFAYE  318 (525)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEEEe
Confidence            699999999999999999998876555555555443

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=96.58  E-value=0.0018  Score=57.18  Aligned_cols=23  Identities=39%  Similarity=0.693  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+++.||+|+|||+++..|++.+
T Consensus         4 ~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            4 VIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHH
T ss_pred             EEEEECcchhhHHHHHHHHHHHC
Confidence            58999999999999999999998

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.56  E-value=0.00067  Score=54.39  Aligned_cols=24  Identities=25%  Similarity=0.362  Sum_probs=22.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+.|.|++|+||||+++.|++.+.
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            488999999999999999999884

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=96.55  E-value=0.0035  Score=56.88  Aligned_cols=35  Identities=14%  Similarity=0.075  Sum_probs=27.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      .++++|.||+||||+++.|++.+.....+...++.
T Consensus        41 ~IvlvGlpGsGKSTia~~La~~l~~~~~~t~~~~~   75 (469)
T 1bif_A           41 LIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNV   75 (469)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhccCCCceEEec
Confidence            69999999999999999999987433344444443

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=96.55  E-value=0.0018  Score=55.10  Aligned_cols=38  Identities=26%  Similarity=0.309  Sum_probs=30.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC-CCCceEEeccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG-SKEAMVRIDMSEY   56 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~-~~~~~~~~~~~~~   56 (287)
                      .++|+||+|+||||++..|+..+.. .+..+..+++..+
T Consensus       107 vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~~  145 (296)
T 2px0_A          107 YIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDTY  145 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCCS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCcc
Confidence            7999999999999999999998853 4556666666544

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.54  E-value=0.0013  Score=51.11  Aligned_cols=19  Identities=26%  Similarity=0.517  Sum_probs=17.3

Q ss_pred             EEEEeccCCChHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANAL   37 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~l   37 (287)
                      .+.|+||+|+||||+++.+
T Consensus        11 i~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6899999999999999963

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.54  E-value=0.0014  Score=53.09  Aligned_cols=24  Identities=29%  Similarity=0.492  Sum_probs=22.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+.|+||+|+|||||.+.|+..+.
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhccCC
Confidence            589999999999999999998874

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=96.54  E-value=0.0088  Score=48.75  Aligned_cols=20  Identities=30%  Similarity=0.493  Sum_probs=16.5

Q ss_pred             EEEEeccCCChHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALA   38 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la   38 (287)
                      .+++.||+|||||++...+.
T Consensus        78 ~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           78 VVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCcHHhHHHHH
Confidence            69999999999998665543

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=96.53  E-value=0.0019  Score=56.81  Aligned_cols=23  Identities=48%  Similarity=0.606  Sum_probs=21.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||+|+||||+++.|+..+
T Consensus       171 ~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          171 YWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            69999999999999999999877

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=96.42  E-value=0.0044  Score=64.01  Aligned_cols=83  Identities=19%  Similarity=0.187  Sum_probs=51.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCC---CcccchhhHHHHH----HhCCcE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGY---VGFENGGQLTEAV----RHRPHS   91 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~----~~~~~~   91 (287)
                      .++|.||||+|||+++..++......+.++.+++.....+... ...+|-....   ........+...+    ......
T Consensus       734 lVlI~G~PG~GKTtLal~lA~~aa~~g~~VlyiS~Ees~~ql~-A~~lGvd~~~L~i~~~~~leei~~~l~~lv~~~~~~  812 (1706)
T 3cmw_A          734 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIY-ARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVD  812 (1706)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHH-HHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCS
T ss_pred             eEEEECCCCCCcHHHHHHHHHHHHHcCCCeEEEeccchHHHHH-HHHcCCChhheEEecCCcHHHHHHHHHHHHHccCCC
Confidence            6999999999999999999988755556777887755443211 2222211000   0001122333333    345668


Q ss_pred             EEEEcCccccc
Q 047225           92 VILFDEIEKAH  102 (287)
Q Consensus        92 il~iDeid~~~  102 (287)
                      +|+||.+..+.
T Consensus       813 lVVIDsLq~l~  823 (1706)
T 3cmw_A          813 VIVVDSVAALT  823 (1706)
T ss_dssp             EEEESCSTTCC
T ss_pred             EEEEechhhhc
Confidence            99999999765

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=96.41  E-value=0.0018  Score=54.86  Aligned_cols=23  Identities=26%  Similarity=0.313  Sum_probs=21.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|+||+||||+++.|++.+
T Consensus         4 ~I~l~G~~GsGKST~a~~L~~~~   26 (301)
T 1ltq_A            4 IILTIGCPGSGKSTWAREFIAKN   26 (301)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            58999999999999999999864

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=96.41  E-value=0.0074  Score=59.55  Aligned_cols=22  Identities=32%  Similarity=0.433  Sum_probs=20.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .+.++|+.|+|||+||+.+++.
T Consensus       152 VV~IvGmGGIGKTTLAk~Vy~d  173 (1221)
T 1vt4_I          152 NVLIDGVLGSGKTWVALDVCLS  173 (1221)
T ss_dssp             EEEECCSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCccHHHHHHHHHHh
Confidence            7999999999999999999853

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.40  E-value=0.0025  Score=52.47  Aligned_cols=23  Identities=17%  Similarity=0.183  Sum_probs=21.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|.||+|+||||+++.|+..+
T Consensus        27 iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           27 LIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999987

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=96.40  E-value=0.0029  Score=58.84  Aligned_cols=48  Identities=17%  Similarity=0.084  Sum_probs=32.3

Q ss_pred             hhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC-CceEEecc
Q 047225            6 ARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK-EAMVRIDM   53 (287)
Q Consensus         6 ~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~-~~~~~~~~   53 (287)
                      .|..+...++....++|.|++|+||||+++.|++.+...+ .+++.++.
T Consensus       385 lRe~~~~~gq~~~~I~l~GlsGSGKSTiA~~La~~L~~~G~~~~~~lD~  433 (573)
T 1m8p_A          385 LRESNPPRATQGFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLLG  433 (573)
T ss_dssp             HHTTSCCTTTCCEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEEH
T ss_pred             HHHhcccccccceEEEeecCCCCCHHHHHHHHHHHhcccCCceEEEECc
Confidence            4444432222334699999999999999999999984322 45555553

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=96.39  E-value=0.0015  Score=53.66  Aligned_cols=26  Identities=23%  Similarity=0.337  Sum_probs=23.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||+|+||||+.+.|+..+.+.
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl~~p~   58 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCLDKPT   58 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCCC
Confidence            68999999999999999999887544

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=96.39  E-value=0.002  Score=51.91  Aligned_cols=23  Identities=30%  Similarity=0.576  Sum_probs=21.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+|++|+|||++++.|++.+
T Consensus         5 ~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            5 NIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            59999999999999999999987

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.38  E-value=0.0027  Score=49.52  Aligned_cols=30  Identities=23%  Similarity=0.195  Sum_probs=24.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCce
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAM   48 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~   48 (287)
                      .+.|.|++|+||||+++.|...+...+...
T Consensus         8 ~i~i~G~sGsGKTTl~~~l~~~l~~~g~~v   37 (174)
T 1np6_A            8 LLAFAAWSGTGKTTLLKKLIPALCARGIRP   37 (174)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCE
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhccccCCce
Confidence            699999999999999999998874333333

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.37  E-value=0.0021  Score=54.80  Aligned_cols=23  Identities=35%  Similarity=0.579  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+||+|+||||+++.|+..+
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhhhc
Confidence            69999999999999999999988

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.36  E-value=0.0018  Score=53.32  Aligned_cols=26  Identities=27%  Similarity=0.321  Sum_probs=23.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||.|+||||+.+.++..+.+.
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl~~p~   51 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGIVKPD   51 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            68999999999999999999887543

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=96.36  E-value=0.002  Score=51.22  Aligned_cols=23  Identities=43%  Similarity=0.527  Sum_probs=21.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.||+|+|||+++..|++..
T Consensus        36 ~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           36 GVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             EEEEECCCTTTTHHHHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            48999999999999999999876

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.35  E-value=0.0013  Score=53.61  Aligned_cols=23  Identities=35%  Similarity=0.587  Sum_probs=15.2

Q ss_pred             EEEEeccCCChHHHHHHHHH-HHh
Q 047225           19 SFLFTGPTGVGKTELANALA-FEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la-~~l   41 (287)
                      .+.|+||+|+||||+++.|+ ..+
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             EEEEECSCC----CHHHHHHC---
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCC
Confidence            58999999999999999999 765

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=96.34  E-value=0.0024  Score=52.58  Aligned_cols=29  Identities=31%  Similarity=0.449  Sum_probs=24.3

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKE   46 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~   46 (287)
                      ..+.|+||.|+||||+.+.|+..+.+...
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   57 (243)
T 1mv5_A           29 SIIAFAGPSGGGKSTIFSLLERFYQPTAG   57 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTSSCCSBS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            36899999999999999999988754433

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.34  E-value=0.0015  Score=53.24  Aligned_cols=26  Identities=23%  Similarity=0.257  Sum_probs=22.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||.|+|||||.+.++..+.+.
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl~~p~   57 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLLDAPT   57 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            58899999999999999999877443

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=96.33  E-value=0.0048  Score=58.29  Aligned_cols=33  Identities=18%  Similarity=0.277  Sum_probs=21.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEe
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRI   51 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~   51 (287)
                      ..++.||||||||+++-.+...+...+..+..+
T Consensus       207 ~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~  239 (646)
T 4b3f_X          207 LAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCC  239 (646)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence            589999999999975554444443334444333

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=96.32  E-value=0.0021  Score=58.70  Aligned_cols=25  Identities=20%  Similarity=0.286  Sum_probs=23.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+++|.|.+||||||++++|++.+.
T Consensus       396 ~~I~l~GlsGsGKSTIa~~La~~L~  420 (511)
T 1g8f_A          396 FSIVLGNSLTVSREQLSIALLSTFL  420 (511)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHHHHT
T ss_pred             eEEEecccCCCCHHHHHHHHHHHHH
Confidence            4799999999999999999999994

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.31  E-value=0.0029  Score=54.21  Aligned_cols=25  Identities=24%  Similarity=0.195  Sum_probs=23.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      .+.|.||+|+||||+++.|+..+..
T Consensus        92 ivgI~G~sGsGKSTL~~~L~gll~~  116 (312)
T 3aez_A           92 IIGVAGSVAVGKSTTARVLQALLAR  116 (312)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCchHHHHHHHHHhhccc
Confidence            6999999999999999999998854

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=96.30  E-value=0.0024  Score=53.48  Aligned_cols=25  Identities=28%  Similarity=0.510  Sum_probs=22.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      ++.|+||+|+||||+.+.|+.....
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~~   28 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQVS   28 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC
Confidence            5899999999999999999998744

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.29  E-value=0.0032  Score=53.31  Aligned_cols=35  Identities=14%  Similarity=0.245  Sum_probs=27.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC-CCceEEecc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS-KEAMVRIDM   53 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~-~~~~~~~~~   53 (287)
                      .++|.||||+|||++++.++..+... +..+.+++.
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~~   72 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAML   72 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEES
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            69999999999999999999988543 335555544

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=96.26  E-value=0.0037  Score=58.46  Aligned_cols=34  Identities=26%  Similarity=0.299  Sum_probs=28.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      .|+|.|.+|+||||+++.|++.+...+.+++.++
T Consensus        54 lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lD   87 (630)
T 1x6v_B           54 TVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   87 (630)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEES
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEec
Confidence            6999999999999999999999854455566554

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=96.26  E-value=0.0041  Score=50.15  Aligned_cols=31  Identities=23%  Similarity=0.231  Sum_probs=26.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMV   49 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~   49 (287)
                      .+.|.|++|+||||+++.|++.+...+.+++
T Consensus         8 ~i~~eG~~gsGKsT~~~~l~~~l~~~~~~v~   38 (213)
T 4edh_A            8 FVTLEGPEGAGKSTNRDYLAERLRERGIEVQ   38 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHTTTCCEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCCcc
Confidence            5899999999999999999999965555544

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=96.25  E-value=0.0034  Score=58.01  Aligned_cols=38  Identities=32%  Similarity=0.412  Sum_probs=28.8

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCC-ceEEecccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKE-AMVRIDMSE   55 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~-~~~~~~~~~   55 (287)
                      ..++|+|++|+||||+++.|+..+...+. .+..++...
T Consensus       370 ~iI~LiG~sGSGKSTLar~La~~L~~~~G~~i~~lDgD~  408 (552)
T 3cr8_A          370 FTVFFTGLSGAGKSTLARALAARLMEMGGRCVTLLDGDI  408 (552)
T ss_dssp             EEEEEEESSCHHHHHHHHHHHHHHHTTCSSCEEEESSHH
T ss_pred             eEEEEECCCCChHHHHHHHHHHhhcccCCceEEEECCcH
Confidence            36999999999999999999999854432 344455433

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.23  E-value=0.0023  Score=49.78  Aligned_cols=26  Identities=19%  Similarity=0.170  Sum_probs=23.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+|++|+||||+++.|+..+...
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~~~~~   29 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPILRER   29 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            58899999999999999999998544

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.23  E-value=0.002  Score=53.76  Aligned_cols=26  Identities=23%  Similarity=0.341  Sum_probs=23.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||.|+|||||.+.|+..+.+.
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl~~p~   59 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFLEKPS   59 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            68999999999999999999887543

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=96.23  E-value=0.0028  Score=58.21  Aligned_cols=36  Identities=14%  Similarity=0.078  Sum_probs=27.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .++++|.||+||||+++.|++.+.-.......++.+
T Consensus        37 lIvlvGlpGSGKSTia~~La~~L~~~~~d~~v~s~D   72 (520)
T 2axn_A           37 VIVMVGLPARGKTYISKKLTRYLNWIGVPTKVFNVG   72 (520)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEeccc
Confidence            699999999999999999999874333344344433

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=96.22  E-value=0.0024  Score=53.37  Aligned_cols=29  Identities=28%  Similarity=0.308  Sum_probs=24.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEA   47 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~   47 (287)
                      .+.|+||.|+||||+.+.|+..+.+....
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl~~p~~G~   67 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGYLSPSHGE   67 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSSSCCSSCE
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCCCCcE
Confidence            58899999999999999999887554333

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=96.18  E-value=0.0042  Score=49.61  Aligned_cols=28  Identities=21%  Similarity=0.211  Sum_probs=24.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMV   49 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~   49 (287)
                      .|.|.|++|||||++++.||+.+   +.+++
T Consensus         8 iI~i~g~~GsGk~ti~~~la~~l---g~~~~   35 (201)
T 3fdi_A            8 IIAIGREFGSGGHLVAKKLAEHY---NIPLY   35 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHT---TCCEE
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHh---CcCEE
Confidence            69999999999999999999999   55544

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=96.18  E-value=0.067  Score=41.83  Aligned_cols=24  Identities=17%  Similarity=0.336  Sum_probs=20.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++++|++|+|||++++.+....
T Consensus        21 ~ki~~vG~~~vGKTsLi~~l~~~~   44 (196)
T 3llu_A           21 PRILLMGLRRSGKSSIQKVVFHKM   44 (196)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHSCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhcC
Confidence            369999999999999999776643

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=96.17  E-value=0.0024  Score=55.71  Aligned_cols=26  Identities=31%  Similarity=0.313  Sum_probs=23.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|.||+|+||||+.++|+....+.
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~~p~   57 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFEQPD   57 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCchHHHHHHHHhcCCCCC
Confidence            58999999999999999999987543

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.17  E-value=0.0021  Score=54.04  Aligned_cols=26  Identities=27%  Similarity=0.197  Sum_probs=22.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||.|+||||+.+.|+..+.+.
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl~~p~   61 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGILKPS   61 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCC
Confidence            58999999999999999999877443

>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=96.17  E-value=0.0021  Score=53.45  Aligned_cols=26  Identities=31%  Similarity=0.409  Sum_probs=23.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||.|+||||+.+.|+..+.+.
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl~~p~   60 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGFLKAD   60 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            68999999999999999999887443

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=96.14  E-value=0.0022  Score=53.51  Aligned_cols=26  Identities=23%  Similarity=0.328  Sum_probs=23.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||.|+|||||.+.|+..+.+.
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl~~p~   77 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLLEDFD   77 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCC
Confidence            68999999999999999999887543

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=96.13  E-value=0.0018  Score=58.08  Aligned_cols=38  Identities=29%  Similarity=0.234  Sum_probs=30.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      +++++|++|+||||++..|+..+...+.....+++..+
T Consensus       101 vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D~~  138 (432)
T 2v3c_C          101 VILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAADTY  138 (432)
T ss_dssp             CEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCSCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecccc
Confidence            69999999999999999999988544566677776544

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=96.13  E-value=0.0023  Score=52.91  Aligned_cols=26  Identities=23%  Similarity=0.356  Sum_probs=22.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||+|+||||+.+.|+..+.+.
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl~~p~   62 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRFYIPE   62 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            58999999999999999999887443

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.12  E-value=0.0023  Score=52.59  Aligned_cols=26  Identities=27%  Similarity=0.247  Sum_probs=22.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||.|+||||+.+.|+..+.+.
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl~~p~   59 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGLVRAQ   59 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            58999999999999999999877443

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=96.11  E-value=0.0056  Score=52.64  Aligned_cols=37  Identities=30%  Similarity=0.300  Sum_probs=29.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC------CCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS------KEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~------~~~~~~~~~~~   55 (287)
                      .++|+||||+|||+++..++......      +...++++...
T Consensus       109 i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~  151 (324)
T 2z43_A          109 MTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEG  151 (324)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             EEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            69999999999999999999875332      45677777755

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=96.11  E-value=0.0022  Score=51.80  Aligned_cols=26  Identities=31%  Similarity=0.457  Sum_probs=22.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||.|+||||+.+.|+..+.+.
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl~~p~   62 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTYLKPL   62 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            48899999999999999999877443

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=96.10  E-value=0.0043  Score=54.10  Aligned_cols=36  Identities=22%  Similarity=0.334  Sum_probs=29.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .+.|+|+||+||||++..|+..+...+..+..+++.
T Consensus        81 ~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~D  116 (355)
T 3p32_A           81 RVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAVD  116 (355)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEecC
Confidence            699999999999999999998885555666555554

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.08  E-value=0.0025  Score=52.01  Aligned_cols=26  Identities=35%  Similarity=0.325  Sum_probs=22.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||.|+||||+.+.|+..+.+.
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~~p~   61 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGELEPS   61 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcCC
Confidence            58899999999999999999887443

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=96.07  E-value=0.0029  Score=55.57  Aligned_cols=26  Identities=31%  Similarity=0.402  Sum_probs=23.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||+|+||||+.+.|+....+.
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl~~p~   56 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGLETIT   56 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEEcCCCchHHHHHHHHHcCCCCC
Confidence            58999999999999999999887543

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.07  E-value=0.0027  Score=53.25  Aligned_cols=26  Identities=31%  Similarity=0.447  Sum_probs=23.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||.|+|||||.+.|+..+.+.
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl~~p~   72 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNLYQPT   72 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            58999999999999999999887443

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=96.07  E-value=0.0051  Score=47.31  Aligned_cols=29  Identities=28%  Similarity=0.491  Sum_probs=23.1

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      |......++++|++|+|||++++.+....
T Consensus         5 ~~~~~~~i~v~G~~~~GKssli~~l~~~~   33 (181)
T 2fn4_A            5 PPSETHKLVVVGGGGVGKSALTIQFIQSY   33 (181)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhCc
Confidence            33333469999999999999999998763

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=96.05  E-value=0.0045  Score=57.18  Aligned_cols=37  Identities=22%  Similarity=0.208  Sum_probs=29.2

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      ..++|+|++|+||||+++.|++.+...+.++..++..
T Consensus       373 ~~I~l~G~~GsGKSTia~~La~~L~~~G~~~~~ld~D  409 (546)
T 2gks_A          373 FCVWLTGLPCAGKSTIAEILATMLQARGRKVTLLDGD  409 (546)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECHH
T ss_pred             eEEEccCCCCCCHHHHHHHHHHHhhhcCCeEEEECch
Confidence            3699999999999999999999885444555555543

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.03  E-value=0.0032  Score=54.85  Aligned_cols=26  Identities=27%  Similarity=0.263  Sum_probs=22.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|.||+|+|||||.+.|+..+.+.
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl~~p~   68 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGLERPT   68 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCC
Confidence            58899999999999999999887443

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.02  E-value=0.0027  Score=53.45  Aligned_cols=26  Identities=31%  Similarity=0.390  Sum_probs=23.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||.|+|||||.+.|+..+.+.
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl~~p~   74 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAYEPAT   74 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCC
Confidence            58899999999999999999887543

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=96.02  E-value=0.0032  Score=54.93  Aligned_cols=26  Identities=35%  Similarity=0.360  Sum_probs=22.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|.||+|+||||+.+.|+....+.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~~p~   56 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGIYKPT   56 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEEcCCCchHHHHHHHHHCCCCCC
Confidence            58899999999999999999887443

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.02  E-value=0.0028  Score=52.71  Aligned_cols=26  Identities=31%  Similarity=0.364  Sum_probs=22.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|.||.|+|||||.+.|+..+.+.
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl~~p~   68 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTLIKPS   68 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            68999999999999999999877443

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=96.02  E-value=0.11  Score=44.23  Aligned_cols=28  Identities=25%  Similarity=0.290  Sum_probs=22.9

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHH
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      +..|.+.+.++|.||+|||||...+...
T Consensus         6 ~~~~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            6 HHMKVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             -CCEEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3445567999999999999999998754

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.01  E-value=0.0028  Score=50.96  Aligned_cols=26  Identities=38%  Similarity=0.336  Sum_probs=22.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSK   45 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~   45 (287)
                      .+.|+||.|+|||||.+.++.. .+..
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl-~p~~   49 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ-ALQS   49 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH-HHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhcC-CCcC
Confidence            5889999999999999999987 4433

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.01  E-value=0.0033  Score=54.94  Aligned_cols=25  Identities=32%  Similarity=0.441  Sum_probs=22.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      .+.|.||+|+||||+.+.|+..+.+
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~~p   55 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGIYKP   55 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEECCCCchHHHHHHHHhcCCCC
Confidence            5899999999999999999988744

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=95.98  E-value=0.005  Score=53.85  Aligned_cols=33  Identities=33%  Similarity=0.443  Sum_probs=26.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      .++|+||+|+||||++++|+..+.... -.+.++
T Consensus       177 ~i~ivG~sGsGKSTll~~l~~~~~~~~-g~I~ie  209 (361)
T 2gza_A          177 VIVVAGETGSGKTTLMKALMQEIPFDQ-RLITIE  209 (361)
T ss_dssp             CEEEEESSSSCHHHHHHHHHTTSCTTS-CEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCCCCc-eEEEEC
Confidence            699999999999999999999875433 334443

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=95.98  E-value=0.0034  Score=51.48  Aligned_cols=24  Identities=33%  Similarity=0.375  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+.|+||+|+||||+.+.|+..+.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~~   56 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAEMD   56 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCSE
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            689999999999999999998764

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=95.96  E-value=0.003  Score=54.93  Aligned_cols=26  Identities=35%  Similarity=0.423  Sum_probs=22.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|.||+|+|||||.+.|+....+.
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl~~p~   53 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGFHVPD   53 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCccHHHHHHHHHcCCCCC
Confidence            58999999999999999999887443

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=95.96  E-value=0.0035  Score=54.95  Aligned_cols=25  Identities=28%  Similarity=0.299  Sum_probs=22.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      .+.|.||+|+|||||.+.|+..+.+
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl~~p   63 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGLEEP   63 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCC
Confidence            5899999999999999999987744

>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=95.95  E-value=0.0054  Score=54.17  Aligned_cols=37  Identities=22%  Similarity=0.290  Sum_probs=30.7

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .|++++||+|+|||++++.+...+...+..++.+|..
T Consensus        36 ~~~~i~G~~G~GKs~~~~~~~~~~~~~~~~~~~~D~~   72 (392)
T 4ag6_A           36 SNWTILAKPGAGKSFTAKMLLLREYMQGSRVIIIDPE   72 (392)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEESS
T ss_pred             CceEEEcCCCCCHHHHHHHHHHHHHHCCCEEEEEeCC
Confidence            4799999999999999999998876666677777653

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=95.94  E-value=0.015  Score=51.97  Aligned_cols=16  Identities=25%  Similarity=0.239  Sum_probs=14.6

Q ss_pred             EEEEeccCCChHHHHH
Q 047225           19 SFLFTGPTGVGKTELA   34 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la   34 (287)
                      ++++.||+|+|||..+
T Consensus         4 ~~lv~a~TGsGKT~~~   19 (431)
T 2v6i_A            4 LTVLDLHPGAGKTRRV   19 (431)
T ss_dssp             EEEEECCTTSCTTTTH
T ss_pred             EEEEEcCCCCCHHHHH
Confidence            6999999999999865

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.94  E-value=0.0033  Score=52.52  Aligned_cols=25  Identities=32%  Similarity=0.328  Sum_probs=22.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      .+.|+||.|+||||+.+.|+..+.+
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl~~p   59 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGLIEP   59 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCC
Confidence            6889999999999999999987744

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.94  E-value=0.0059  Score=49.74  Aligned_cols=23  Identities=26%  Similarity=0.504  Sum_probs=21.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+-|.|+||+||||.++.|++.+
T Consensus        10 ~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A           10 RLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ceeeECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999999988

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=95.93  E-value=0.0037  Score=54.85  Aligned_cols=26  Identities=31%  Similarity=0.323  Sum_probs=23.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|.||+|+|||||.+.|+..+.+.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~~p~   56 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGLEEPS   56 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCcHHHHHHHHHHcCCCCC
Confidence            58999999999999999999887443

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=95.92  E-value=0.021  Score=51.45  Aligned_cols=23  Identities=35%  Similarity=0.431  Sum_probs=20.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||+|+|||+|++.++...
T Consensus       153 ~~~i~G~sGvGKTtL~~~l~~~~  175 (473)
T 1sky_E          153 KIGLFGGAGVGKTVLIQELIHNI  175 (473)
T ss_dssp             EEEEECCSSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCccHHHHHHHhhh
Confidence            58999999999999999998775

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=95.92  E-value=0.0088  Score=52.02  Aligned_cols=38  Identities=29%  Similarity=0.301  Sum_probs=28.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCC------CCceEEecccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGS------KEAMVRIDMSE   55 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~------~~~~~~~~~~~   55 (287)
                      ..+.|+||+|+|||++++.++......      +...++++...
T Consensus       132 ~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~  175 (349)
T 1pzn_A          132 AITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN  175 (349)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCC
Confidence            369999999999999999999886211      23556776643

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.91  E-value=0.005  Score=50.40  Aligned_cols=23  Identities=26%  Similarity=0.457  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|.|++|+||||+++.|++.+
T Consensus         4 ~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            4 RLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            59999999999999999999988

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=95.91  E-value=0.0068  Score=47.12  Aligned_cols=25  Identities=28%  Similarity=0.481  Sum_probs=22.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      ..+|+||.|+|||+++++|.-.+.+
T Consensus        28 ~~~i~G~NGsGKStll~ai~~~l~~   52 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILFVLGG   52 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHTTC
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHcC
Confidence            5899999999999999999988854

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=95.90  E-value=0.0057  Score=47.06  Aligned_cols=24  Identities=29%  Similarity=0.446  Sum_probs=21.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++++|++|+|||++++.+...-
T Consensus         9 ~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            9 LKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            469999999999999999887654

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.88  E-value=0.0031  Score=52.32  Aligned_cols=26  Identities=23%  Similarity=0.161  Sum_probs=23.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||.|+||||+.+.|+..+.+.
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl~~p~   58 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGIHRPI   58 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            58899999999999999999887543

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=95.86  E-value=0.0047  Score=51.07  Aligned_cols=22  Identities=36%  Similarity=0.608  Sum_probs=20.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .+.|+||.|+||||+.+.|+..
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6899999999999999999986

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=95.86  E-value=0.0052  Score=53.76  Aligned_cols=26  Identities=27%  Similarity=0.316  Sum_probs=23.2

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      ..+.|+||+|+|||||++.|+..+..
T Consensus       171 ~k~~IvG~nGsGKSTLlk~L~gl~~~  196 (365)
T 1lw7_A          171 KTVAILGGESSGKSVLVNKLAAVFNT  196 (365)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHHTTC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCC
Confidence            46999999999999999999998743

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.85  E-value=0.0066  Score=55.40  Aligned_cols=38  Identities=26%  Similarity=0.330  Sum_probs=30.2

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      ..++|+|++|+||||++..|+..+...+.....+++..
T Consensus       102 ~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~  139 (504)
T 2j37_W          102 NVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADT  139 (504)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccc
Confidence            37999999999999999999988855455666666643

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.83  E-value=0.0077  Score=52.13  Aligned_cols=31  Identities=26%  Similarity=0.266  Sum_probs=25.3

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCce
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAM   48 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~   48 (287)
                      ..+.|+||||+||||+.+.++..+...+..+
T Consensus        56 ~~v~i~G~~GaGKSTLl~~l~g~~~~~~g~v   86 (337)
T 2qm8_A           56 IRVGITGVPGVGKSTTIDALGSLLTAAGHKV   86 (337)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHHHTTCCE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhhhhCCCEE
Confidence            3699999999999999999998875444444

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=95.82  E-value=0.0033  Score=53.66  Aligned_cols=26  Identities=31%  Similarity=0.439  Sum_probs=22.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||+|+||||+++.|+..+.+.
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl~~p~  107 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRFYDIS  107 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCchHHHHHHHHHcCCCCC
Confidence            68999999999999999999877443

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=95.81  E-value=0.0037  Score=51.71  Aligned_cols=26  Identities=31%  Similarity=0.447  Sum_probs=23.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||.|+|||||.+.|+..+.+.
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl~~p~   53 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGMTSGK   53 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCE
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCC
Confidence            58999999999999999999887543

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.80  E-value=0.0093  Score=51.06  Aligned_cols=36  Identities=17%  Similarity=0.151  Sum_probs=29.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .+++.|+||+|||+++..++......+.+..++++.
T Consensus        70 l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~slE  105 (315)
T 3bh0_A           70 FVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLE  105 (315)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEESS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEECC
Confidence            699999999999999999987764445667777765

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=95.78  E-value=0.011  Score=52.83  Aligned_cols=39  Identities=26%  Similarity=0.364  Sum_probs=32.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      ..++++|++|+||||++..|+..+...+..+..+++..+
T Consensus        99 ~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~D~~  137 (425)
T 2ffh_A           99 NLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQ  137 (425)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeecccc
Confidence            368899999999999999999999766777777776543

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=95.78  E-value=0.005  Score=47.27  Aligned_cols=29  Identities=31%  Similarity=0.634  Sum_probs=21.6

Q ss_pred             CCCCCCcEEEEEeccCCChHHHHHHHHHHH
Q 047225           11 RDPNRPISSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        11 ~~~~~~~~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .+|-+.. .++++|++|+|||+++..+...
T Consensus         9 ~~~~~~~-~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A            9 GNPLRKF-KLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             ---CEEE-EEEEEESTTSSHHHHHHHHHHS
T ss_pred             cCCCcce-EEEEECCCCCCHHHHHHHHHcC
Confidence            3443334 5999999999999999999754

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=95.78  E-value=0.0056  Score=51.15  Aligned_cols=22  Identities=36%  Similarity=0.555  Sum_probs=20.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .+.|+||.|+|||||.+.|+..
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6899999999999999999986

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=95.77  E-value=0.0056  Score=47.32  Aligned_cols=31  Identities=26%  Similarity=0.416  Sum_probs=23.1

Q ss_pred             ccCCCCCCCcEEEEEeccCCChHHHHHHHHHH
Q 047225            8 VGIRDPNRPISSFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus         8 ~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~   39 (287)
                      ..+..|.++. .++++|++|+|||++...+..
T Consensus        10 ~~~~~~~~~~-~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           10 DKLWGSNKEL-RILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             GGGTTCSSCE-EEEEEEETTSSHHHHHHHTCC
T ss_pred             HHhcCCCCcc-EEEEECCCCCCHHHHHHHHhc
Confidence            3333434444 699999999999999988863

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=95.77  E-value=0.0076  Score=51.12  Aligned_cols=38  Identities=26%  Similarity=0.389  Sum_probs=30.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      ..+.++|++|+||||++..|+..+...+..+..+++..
T Consensus        99 ~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~~d~  136 (295)
T 1ls1_A           99 NLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADT  136 (295)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecCCc
Confidence            36889999999999999999998865566666666543

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=95.77  E-value=0.0053  Score=48.26  Aligned_cols=23  Identities=26%  Similarity=0.489  Sum_probs=21.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+|++|+||||+.+.++...
T Consensus        31 kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            58999999999999999998765

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=95.77  E-value=0.0031  Score=54.96  Aligned_cols=26  Identities=35%  Similarity=0.419  Sum_probs=22.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||+|+|||||.+.|+....+.
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl~~p~   58 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGLDVPS   58 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCC
Confidence            58999999999999999999877443

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.76  E-value=0.0041  Score=51.90  Aligned_cols=26  Identities=31%  Similarity=0.427  Sum_probs=22.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSK   45 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~   45 (287)
                      .+.|.||.|+||||+.+.|+..+ +..
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl~-p~~   57 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGLL-PYS   57 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS-CCE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC-CCC
Confidence            58999999999999999999887 543

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=95.75  E-value=0.0061  Score=48.10  Aligned_cols=23  Identities=26%  Similarity=0.489  Sum_probs=21.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+|++|+||||+.+.+....
T Consensus         7 kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            7 KVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            58999999999999999998764

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=95.75  E-value=0.0076  Score=46.81  Aligned_cols=31  Identities=32%  Similarity=0.431  Sum_probs=23.6

Q ss_pred             cCCCCCCCcEEEEEeccCCChHHHHHHHHHHH
Q 047225            9 GIRDPNRPISSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus         9 ~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      ....|.+.. .++++|++|+|||++.+.+...
T Consensus         9 ~~~~~~~~~-ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A            9 LKSAPDQEV-RILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             CSSCCSSCE-EEEEEESTTSSHHHHHHHHCCS
T ss_pred             HhccCCCce-EEEEECCCCCCHHHHHHHHhcC
Confidence            333344444 6999999999999999988653

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=95.73  E-value=0.014  Score=48.04  Aligned_cols=37  Identities=19%  Similarity=0.318  Sum_probs=30.7

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      ..+++.|.+|+||||++..++..+. .+.....+++..
T Consensus        15 ~i~~~~GkgGvGKTTl~~~La~~l~-~g~~v~vvd~D~   51 (262)
T 1yrb_A           15 MIVVFVGTAGSGKTTLTGEFGRYLE-DNYKVAYVNLDT   51 (262)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHT-TTSCEEEEECCS
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHH-CCCeEEEEeCCC
Confidence            4699999999999999999999887 666776666543

>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase, hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP: b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19 d.315.1.1

Probab=95.72  E-value=0.076  Score=53.43  Aligned_cols=35  Identities=29%  Similarity=0.324  Sum_probs=23.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      +++++||+|+|||..+-..+......+...+.+-.
T Consensus       626 d~ll~~~TGsGKT~val~aa~~~~~~g~~vlvlvP  660 (1151)
T 2eyq_A          626 DRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVP  660 (1151)
T ss_dssp             EEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECS
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHHHhCCeEEEEec
Confidence            69999999999998876554433333444444433

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.72  E-value=0.007  Score=47.28  Aligned_cols=23  Identities=35%  Similarity=0.566  Sum_probs=20.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||+++..+....
T Consensus        50 ~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           50 SIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            69999999999999999998754

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.72  E-value=0.0051  Score=51.19  Aligned_cols=24  Identities=33%  Similarity=0.405  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+.|+||.|+|||||.+.|+..+.
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl~~   71 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRFYD   71 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhccCC
Confidence            689999999999999999998763

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.71  E-value=0.0063  Score=49.55  Aligned_cols=25  Identities=24%  Similarity=0.211  Sum_probs=19.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      .|.|.|++|+||||+++.|++.+..
T Consensus        27 ~I~~eG~~GsGKsT~~~~l~~~l~~   51 (227)
T 3v9p_A           27 FITFEGIDGAGKTTHLQWFCDRLQE   51 (227)
T ss_dssp             EEEEECCC---CHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHh
Confidence            5999999999999999999998843

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=95.69  E-value=0.0084  Score=49.12  Aligned_cols=29  Identities=14%  Similarity=0.150  Sum_probs=25.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEA   47 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~   47 (287)
                      .+.|.|++|+||||+++.|++.+...+.+
T Consensus        29 ~i~~eG~~GsGKsT~~~~l~~~l~~~~~~   57 (236)
T 3lv8_A           29 FIVIEGLEGAGKSTAIQVVVETLQQNGID   57 (236)
T ss_dssp             EEEEEESTTSCHHHHHHHHHHHHHHTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCC
Confidence            59999999999999999999998554444

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=95.68  E-value=0.007  Score=45.86  Aligned_cols=23  Identities=17%  Similarity=0.312  Sum_probs=20.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+....
T Consensus         7 ~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            7 KMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            69999999999999999998754

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.66  E-value=0.008  Score=45.23  Aligned_cols=23  Identities=30%  Similarity=0.405  Sum_probs=20.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+...-
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998653

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=95.63  E-value=0.01  Score=45.86  Aligned_cols=27  Identities=26%  Similarity=0.399  Sum_probs=22.4

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.-.++++|++|+|||++++.+....
T Consensus        16 ~~~~ki~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           16 LPTYKLVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCC
Confidence            334469999999999999999998654

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=95.62  E-value=0.011  Score=45.39  Aligned_cols=23  Identities=26%  Similarity=0.315  Sum_probs=20.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||+++..+...-
T Consensus        10 ~i~v~G~~~~GKssl~~~l~~~~   32 (178)
T 2lkc_A           10 VVTIMGHVDHGKTTLLDAIRHSK   32 (178)
T ss_dssp             EEEEESCTTTTHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            69999999999999999997643

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=95.61  E-value=0.0059  Score=53.28  Aligned_cols=26  Identities=19%  Similarity=0.302  Sum_probs=22.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||+|+|||||.++|+..+.+.
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL~~p~   81 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLLERPT   81 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEEcCCCchHHHHHHHHhcCCCCC
Confidence            58999999999999999999877443

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=95.61  E-value=0.0085  Score=46.85  Aligned_cols=32  Identities=31%  Similarity=0.365  Sum_probs=25.7

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      ++++|++|+|||++|..++..    +.+.+++....
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~----~~~~~yiaT~~   33 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD----APQVLYIATSQ   33 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS----CSSEEEEECCC
T ss_pred             EEEECCCCCcHHHHHHHHHhc----CCCeEEEecCC
Confidence            689999999999999999865    34566766644

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.60  E-value=0.014  Score=46.65  Aligned_cols=24  Identities=25%  Similarity=0.169  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .++|+|++|+||||++..++..+.
T Consensus        32 ~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           32 AVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhc
Confidence            699999999999999999998863

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=95.60  E-value=0.0098  Score=48.27  Aligned_cols=23  Identities=22%  Similarity=0.182  Sum_probs=22.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .|.+.|++|||||++++.||+.+
T Consensus        16 iI~i~g~~gsGk~~i~~~la~~l   38 (223)
T 3hdt_A           16 IITIEREYGSGGRIVGKKLAEEL   38 (223)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHc
Confidence            69999999999999999999998

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=95.59  E-value=0.0082  Score=47.99  Aligned_cols=23  Identities=35%  Similarity=0.566  Sum_probs=21.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+|++|+|||+++..+....
T Consensus        14 ~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           14 SIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            69999999999999999998765

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=95.56  E-value=0.0086  Score=45.89  Aligned_cols=24  Identities=29%  Similarity=0.423  Sum_probs=20.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++++|++|+|||++.+.+...-
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            369999999999999999997643

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=95.55  E-value=0.0079  Score=45.90  Aligned_cols=22  Identities=36%  Similarity=0.484  Sum_probs=20.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .+.|+|++|+|||++.+.+...
T Consensus         5 ~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            5 EIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5999999999999999999864

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=95.53  E-value=0.0099  Score=46.14  Aligned_cols=22  Identities=36%  Similarity=0.484  Sum_probs=20.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++|+|++|+|||++.+.+...
T Consensus         9 ~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            9 EIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6999999999999999999863

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=95.53  E-value=0.012  Score=51.18  Aligned_cols=29  Identities=17%  Similarity=0.236  Sum_probs=24.0

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHhcCCC
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEYFGSK   45 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l~~~~   45 (287)
                      ...+.|+|+||+||||+...|...+...+
T Consensus        74 ~~~v~lvG~pgaGKSTLln~L~~~~~~~~  102 (349)
T 2www_A           74 AFRVGLSGPPGAGKSTFIEYFGKMLTERG  102 (349)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhhhcC
Confidence            34799999999999999999998764333

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=95.52  E-value=0.004  Score=51.74  Aligned_cols=23  Identities=22%  Similarity=0.286  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .|+|.|++|+||||+++.|++.+
T Consensus        26 ~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           26 KISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            69999999999999999999987

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=95.52  E-value=0.0099  Score=45.39  Aligned_cols=22  Identities=41%  Similarity=0.567  Sum_probs=19.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++++|++|+|||++++.+...
T Consensus         6 ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            6 RVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCccHHHHHHHHhcC
Confidence            6999999999999999998754

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=95.50  E-value=0.0087  Score=45.93  Aligned_cols=23  Identities=35%  Similarity=0.473  Sum_probs=20.2

Q ss_pred             EEEEEeccCCChHHHHHHHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      ..++++|++|+|||++++.+...
T Consensus        10 ~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B           10 FKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHCSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            36999999999999999998653

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=95.50  E-value=0.011  Score=55.64  Aligned_cols=24  Identities=29%  Similarity=0.523  Sum_probs=20.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      ..++.||||||||+++..+...+.
T Consensus       197 ~~li~GppGTGKT~~~~~~i~~l~  220 (624)
T 2gk6_A          197 LSLIQGPPGTGKTVTSATIVYHLA  220 (624)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CeEEECCCCCCHHHHHHHHHHHHH
Confidence            589999999999998877777664

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=95.48  E-value=0.0092  Score=45.02  Aligned_cols=23  Identities=26%  Similarity=0.398  Sum_probs=20.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||+++..+...-
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            69999999999999999987654

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=95.48  E-value=0.009  Score=44.97  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=20.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+....
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            59999999999999999998654

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=95.47  E-value=0.0074  Score=53.24  Aligned_cols=23  Identities=30%  Similarity=0.322  Sum_probs=21.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|.||+|+||||+.+.|+..+
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTCS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            58999999999999999999865

>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA binding protein; HET: DNA; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.23

Probab=95.47  E-value=0.022  Score=47.63  Aligned_cols=23  Identities=26%  Similarity=0.371  Sum_probs=18.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +.++.+|+|+|||.++-.++...
T Consensus       130 ~~ll~~~tGsGKT~~~~~~~~~~  152 (282)
T 1rif_A          130 RRILNLPTSAGRSLIQALLARYY  152 (282)
T ss_dssp             EEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEcCCCCCcHHHHHHHHHHH
Confidence            46789999999999987776654

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=95.47  E-value=0.0064  Score=47.34  Aligned_cols=21  Identities=38%  Similarity=0.559  Sum_probs=19.5

Q ss_pred             EEEEeccCCChHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~   39 (287)
                      .++++|++|+|||+|++.+..
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            489999999999999999976

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=95.45  E-value=0.012  Score=44.32  Aligned_cols=23  Identities=26%  Similarity=0.575  Sum_probs=20.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+...-
T Consensus         6 ~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            6 KVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            69999999999999999998653

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=95.45  E-value=0.046  Score=42.43  Aligned_cols=23  Identities=22%  Similarity=0.247  Sum_probs=20.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||+|++.+....
T Consensus        16 ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           16 KIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            69999999999999998887655

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=95.44  E-value=0.041  Score=48.30  Aligned_cols=37  Identities=22%  Similarity=0.199  Sum_probs=27.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC--CCCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG--SKEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~--~~~~~~~~~~~~   55 (287)
                      .++++||+|+|||++++.|++.+..  .+..++++-+++
T Consensus       176 r~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~I~~lIGE  214 (422)
T 3ice_A          176 RGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDE  214 (422)
T ss_dssp             EEEEECCSSSSHHHHHHHHHHHHHHHCTTSEEEEEEESS
T ss_pred             EEEEecCCCCChhHHHHHHHHHHhhcCCCeeEEEEEecC
Confidence            6999999999999999999987622  234455554444

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=95.44  E-value=0.011  Score=45.24  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=20.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+...-
T Consensus         8 ki~v~G~~~~GKssl~~~l~~~~   30 (178)
T 2hxs_A            8 KIVVLGDGASGKTSLTTCFAQET   30 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHGGG
T ss_pred             EEEEECcCCCCHHHHHHHHHhCc
Confidence            69999999999999999998643

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.43  E-value=0.0082  Score=46.52  Aligned_cols=22  Identities=41%  Similarity=0.557  Sum_probs=20.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++|.|++|+|||+++..+.+.
T Consensus        18 gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           18 GVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHc
Confidence            4999999999999999999874

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=95.43  E-value=0.011  Score=46.72  Aligned_cols=24  Identities=33%  Similarity=0.466  Sum_probs=21.2

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++++|++|+|||++++.+...-
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            9 LKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            369999999999999999997654

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=95.42  E-value=0.044  Score=44.10  Aligned_cols=29  Identities=31%  Similarity=0.623  Sum_probs=20.8

Q ss_pred             CCCCCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           12 DPNRPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        12 ~~~~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +|-+.. -++|+|.+|+|||+|+..+...-
T Consensus         9 ~P~k~~-KivlvGd~~VGKTsLi~r~~~~~   37 (216)
T 4dkx_A            9 NPLRKF-KLVFLGEQSVGKTSLITRFMYDS   37 (216)
T ss_dssp             ----CE-EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCCCcE-EEEEECcCCcCHHHHHHHHHhCC
Confidence            344444 49999999999999999887543

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=95.42  E-value=0.0098  Score=48.52  Aligned_cols=36  Identities=31%  Similarity=0.397  Sum_probs=25.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh-cCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEY-FGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l-~~~~~~~~~~~~~   54 (287)
                      .+++.|+||+|||+++..++... ...+.+..+++..
T Consensus        32 l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~E   68 (251)
T 2zts_A           32 TVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLE   68 (251)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEESS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeeccc
Confidence            69999999999999998876542 2224456666554

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=95.41  E-value=0.011  Score=45.98  Aligned_cols=23  Identities=39%  Similarity=0.537  Sum_probs=20.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      ..++++|++|+|||+++..+...
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           24 GEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            36999999999999999998765

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=95.40  E-value=0.012  Score=50.17  Aligned_cols=23  Identities=30%  Similarity=0.567  Sum_probs=20.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+.|.||+|+|||||.+.|+ ...
T Consensus       167 i~~l~G~sG~GKSTLln~l~-~~~  189 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT-GEE  189 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH-SCC
T ss_pred             EEEEECCCCCCHHHHHHHHH-Hhh
Confidence            58999999999999999999 653

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=95.40  E-value=0.01  Score=44.96  Aligned_cols=23  Identities=17%  Similarity=0.340  Sum_probs=20.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++.+.+...-
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            59999999999999999987654

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=95.39  E-value=0.0099  Score=46.43  Aligned_cols=22  Identities=27%  Similarity=0.481  Sum_probs=20.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++++|++|+|||++...+...
T Consensus        25 ~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           25 EIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6999999999999999998754

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.39  E-value=0.02  Score=46.02  Aligned_cols=25  Identities=36%  Similarity=0.428  Sum_probs=22.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      .++++|++|+|||+++..++.....
T Consensus        40 ~i~ivG~~gvGKTtl~~~l~~~~~~   64 (226)
T 2hf9_A           40 AFDFMGAIGSGKTLLIEKLIDNLKD   64 (226)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            6999999999999999999988643

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.39  E-value=0.013  Score=47.58  Aligned_cols=31  Identities=29%  Similarity=0.188  Sum_probs=25.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC-CCCceE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG-SKEAMV   49 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~-~~~~~~   49 (287)
                      .+.|.|++|+||||+++.|++.+.. .+..++
T Consensus        23 ~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~   54 (223)
T 3ld9_A           23 FITFEGIDGSGKTTQSHLLAEYLSEIYGVNNV   54 (223)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHHHCGGGE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhccCceee
Confidence            6999999999999999999998854 343443

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=95.38  E-value=0.025  Score=54.24  Aligned_cols=23  Identities=30%  Similarity=0.394  Sum_probs=21.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+||.|+||||+.+.++...
T Consensus       578 i~~I~GpNGsGKSTlLr~iagl~  600 (765)
T 1ewq_A          578 LVLITGPNMAGKSTFLRQTALIA  600 (765)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCChHHHHHHHHhhh
Confidence            58999999999999999998765

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=95.38  E-value=0.011  Score=45.63  Aligned_cols=22  Identities=36%  Similarity=0.486  Sum_probs=20.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++|+|++|+|||+|.+.+...
T Consensus         6 ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            6 KVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6999999999999999999864

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=95.34  E-value=0.011  Score=44.86  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=20.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++.+.+...-
T Consensus         8 ~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            8 KVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            69999999999999999998754

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=95.33  E-value=0.011  Score=44.91  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=20.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||+++..+...-
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1g16_A            5 KILLIGDSGVGKSCLLVRFVEDK   27 (170)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHhCC
Confidence            59999999999999999997543

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=95.32  E-value=0.011  Score=46.20  Aligned_cols=23  Identities=30%  Similarity=0.507  Sum_probs=20.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+...-
T Consensus        27 ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           27 KVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            69999999999999999988754

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=95.32  E-value=0.011  Score=45.39  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=20.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||+++..+...-
T Consensus        12 ~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           12 KVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHhCC
Confidence            69999999999999999997654

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=95.31  E-value=0.014  Score=45.97  Aligned_cols=24  Identities=25%  Similarity=0.548  Sum_probs=21.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++++|++|+|||+++..+...-
T Consensus        15 ~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           15 HKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            469999999999999999987654

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=95.29  E-value=0.012  Score=45.76  Aligned_cols=24  Identities=29%  Similarity=0.419  Sum_probs=21.2

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -.++++|++|+|||+++..+....
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            369999999999999999998654

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=95.28  E-value=0.008  Score=48.87  Aligned_cols=23  Identities=30%  Similarity=0.355  Sum_probs=21.1

Q ss_pred             EEEEEeccCCChHHHHHHHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      ..+.|.|+.|+||||+++.|+..
T Consensus        21 ~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           21 FTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             EEEEEECSTTSCHHHHHHTTGGG
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            46999999999999999999876

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=95.27  E-value=0.012  Score=44.75  Aligned_cols=23  Identities=26%  Similarity=0.255  Sum_probs=20.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++.+.+...-
T Consensus         8 ~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            8 KVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            69999999999999999998653

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=95.27  E-value=0.015  Score=49.78  Aligned_cols=24  Identities=29%  Similarity=0.397  Sum_probs=21.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++|+||||+|||+++..++...
T Consensus        99 ~i~~i~G~~gsGKT~la~~la~~~  122 (322)
T 2i1q_A           99 SVTEFAGVFGSGKTQIMHQSCVNL  122 (322)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            369999999999999999998763

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=95.27  E-value=0.013  Score=45.13  Aligned_cols=24  Identities=25%  Similarity=0.548  Sum_probs=21.1

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++++|++|+|||++++.+...-
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCC
Confidence            469999999999999999998654

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=95.26  E-value=0.0058  Score=55.21  Aligned_cols=24  Identities=25%  Similarity=0.355  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+.|+||.|+|||||++.|+....
T Consensus       140 ~v~IvGpnGsGKSTLlr~L~Gl~~  163 (460)
T 2npi_A          140 RVVIVGGSQTGKTSLSRTLCSYAL  163 (460)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHTTH
T ss_pred             EEEEECCCCCCHHHHHHHHhCccc
Confidence            599999999999999999998763

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=95.26  E-value=0.012  Score=44.46  Aligned_cols=23  Identities=26%  Similarity=0.437  Sum_probs=20.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++.+.+...-
T Consensus         5 ki~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            59999999999999999998643

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=95.25  E-value=0.0088  Score=50.58  Aligned_cols=24  Identities=33%  Similarity=0.343  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+.|+||.|+||||+.+.|+..+.
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl~~   89 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGELE   89 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCC
Confidence            589999999999999999998763

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=95.24  E-value=0.016  Score=44.86  Aligned_cols=24  Identities=29%  Similarity=0.407  Sum_probs=21.1

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++++|++|+|||++++.+...-
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            369999999999999999998654

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=95.23  E-value=0.011  Score=44.91  Aligned_cols=22  Identities=27%  Similarity=0.341  Sum_probs=20.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++++|++|+|||++++.+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5999999999999999999864

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=95.23  E-value=0.012  Score=44.74  Aligned_cols=21  Identities=33%  Similarity=0.612  Sum_probs=19.1

Q ss_pred             EEEEeccCCChHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~   39 (287)
                      .++++|++|+|||++++.+..
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999999864

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=95.22  E-value=0.011  Score=51.23  Aligned_cols=35  Identities=20%  Similarity=0.262  Sum_probs=26.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      ..+.++|++|+||||++..|+..+...+..+..++
T Consensus        57 ~~i~i~G~~g~GKSTl~~~l~~~~~~~~~~v~v~~   91 (341)
T 2p67_A           57 LRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIA   91 (341)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEe
Confidence            36999999999999999999987743344443333

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=95.22  E-value=0.013  Score=44.29  Aligned_cols=23  Identities=26%  Similarity=0.369  Sum_probs=20.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++...+...-
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            48999999999999999997654

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=95.20  E-value=0.012  Score=47.59  Aligned_cols=25  Identities=28%  Similarity=0.224  Sum_probs=23.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      .+.|.|++|+||||.++.|++.+..
T Consensus         7 ~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            7 LILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcc
Confidence            5999999999999999999999943

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=95.20  E-value=0.013  Score=44.38  Aligned_cols=23  Identities=22%  Similarity=0.355  Sum_probs=20.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+...-
T Consensus         8 ~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1r2q_A            8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            69999999999999999998643

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=95.20  E-value=0.013  Score=46.72  Aligned_cols=23  Identities=35%  Similarity=0.314  Sum_probs=20.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||+++..+....
T Consensus         9 ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            9 AVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            69999999999999999998654

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=95.19  E-value=0.015  Score=45.47  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=20.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++.+.+...-
T Consensus        10 ki~vvG~~~~GKSsli~~l~~~~   32 (199)
T 2gf0_A           10 RVVVFGAGGVGKSSLVLRFVKGT   32 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCcHHHHHHHHHcCC
Confidence            69999999999999999998643

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=95.18  E-value=0.015  Score=52.60  Aligned_cols=28  Identities=14%  Similarity=0.218  Sum_probs=24.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKE   46 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~   46 (287)
                      .+.|+||+|+||||+.++|+..+.+...
T Consensus        31 ~~~liG~nGsGKSTLl~~l~Gl~~p~~G   58 (483)
T 3euj_A           31 VTTLSGGNGAGKSTTMAGFVTALIPDLT   58 (483)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCCTT
T ss_pred             eEEEECCCCCcHHHHHHHHhcCCCCCCC
Confidence            6899999999999999999998855433

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=95.17  E-value=0.011  Score=44.70  Aligned_cols=21  Identities=38%  Similarity=0.578  Sum_probs=19.0

Q ss_pred             EEEEeccCCChHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~   39 (287)
                      .++++|++|+|||++.+.+..
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            599999999999999998864

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=95.15  E-value=0.013  Score=45.42  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=20.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+...-
T Consensus        13 ki~v~G~~~~GKSsli~~l~~~~   35 (195)
T 3bc1_A           13 KFLALGDSGVGKTSVLYQYTDGK   35 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            69999999999999999998643

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=95.14  E-value=0.017  Score=45.10  Aligned_cols=23  Identities=22%  Similarity=0.359  Sum_probs=20.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||+++..+...-
T Consensus         9 ki~v~G~~~~GKSsli~~l~~~~   31 (208)
T 3clv_A            9 KTVLLGESSVGKSSIVLRLTKDT   31 (208)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            69999999999999999998764

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=95.13  E-value=0.019  Score=43.55  Aligned_cols=23  Identities=30%  Similarity=0.403  Sum_probs=20.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++...+...-
T Consensus         9 ~i~v~G~~~~GKssl~~~l~~~~   31 (171)
T 1upt_A            9 RILILGLDGAGKTTILYRLQVGE   31 (171)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            69999999999999999997643

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.13  E-value=0.013  Score=47.25  Aligned_cols=28  Identities=21%  Similarity=0.170  Sum_probs=24.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKE   46 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~   46 (287)
                      .|.|.|++|+||||.++.|++.+...+.
T Consensus         5 ~i~~eG~~gsGKsT~~~~l~~~l~~~~~   32 (213)
T 4tmk_A            5 YIVIEGLEGAGKTTARNVVVETLEQLGI   32 (213)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence            5899999999999999999999854443

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=95.12  E-value=0.015  Score=50.41  Aligned_cols=26  Identities=19%  Similarity=0.190  Sum_probs=23.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||+|+||||+.+.|+......
T Consensus        73 ~~gIiG~nGaGKTTLl~~I~g~~~~~   98 (347)
T 2obl_A           73 RIGIFAGSGVGKSTLLGMICNGASAD   98 (347)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            58999999999999999999998543

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=95.09  E-value=0.019  Score=44.69  Aligned_cols=24  Identities=17%  Similarity=0.119  Sum_probs=20.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -.++|+|++|+|||++++.+....
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            369999999999999998777654

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=95.06  E-value=0.017  Score=45.78  Aligned_cols=30  Identities=23%  Similarity=0.277  Sum_probs=25.0

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceE
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMV   49 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~   49 (287)
                      |.|-|+.|+||||.++.|++.+...+.+++
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~g~~v~   32 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKRGKKVI   32 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEE
Confidence            678999999999999999999865555544

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=95.05  E-value=0.016  Score=44.82  Aligned_cols=23  Identities=30%  Similarity=0.481  Sum_probs=20.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||+++..+...-
T Consensus         6 ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            69999999999999999998654

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*

Probab=95.05  E-value=0.046  Score=49.21  Aligned_cols=23  Identities=39%  Similarity=0.306  Sum_probs=20.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+++.+|+|+|||..+-.++...
T Consensus       110 ~~ll~~~TGsGKT~~~l~~i~~~  132 (472)
T 2fwr_A          110 RGCIVLPTGSGKTHVAMAAINEL  132 (472)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHc
Confidence            48999999999999887777766

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=95.05  E-value=0.015  Score=44.47  Aligned_cols=24  Identities=25%  Similarity=0.429  Sum_probs=21.2

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++++|++|+|||++++.+...-
T Consensus        16 ~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           16 FKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            369999999999999999998654

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=95.04  E-value=0.019  Score=43.33  Aligned_cols=25  Identities=28%  Similarity=0.440  Sum_probs=22.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      ..+|+||.|+|||++..+|.-.+.+
T Consensus        25 ~~~I~G~NGsGKStil~Ai~~~l~g   49 (149)
T 1f2t_A           25 INLIIGQNGSGKSSLLDAILVGLYW   49 (149)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHcC
Confidence            5899999999999999999877743

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=95.04  E-value=0.014  Score=44.88  Aligned_cols=22  Identities=23%  Similarity=0.262  Sum_probs=20.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++++|++|+|||+++..+...
T Consensus         8 ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            8 KIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            6999999999999999999854

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.04  E-value=0.017  Score=49.83  Aligned_cols=36  Identities=11%  Similarity=0.253  Sum_probs=29.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .+++.|+||+|||+++..++......+.++.++++.
T Consensus        48 LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fSlE   83 (338)
T 4a1f_A           48 LVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFSLE   83 (338)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEESS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeCC
Confidence            699999999999999999988775455666666654

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=95.03  E-value=0.015  Score=45.16  Aligned_cols=23  Identities=26%  Similarity=0.423  Sum_probs=20.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+...-
T Consensus         9 ki~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A            9 KIVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            69999999999999999998754

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=95.02  E-value=0.015  Score=47.32  Aligned_cols=24  Identities=25%  Similarity=0.387  Sum_probs=21.3

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++|+|++|+|||+++..+....
T Consensus        30 ~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           30 LRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             eEEEEECCCCCCHHHHHHHHcCCC
Confidence            469999999999999999998654

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=95.01  E-value=0.03  Score=52.09  Aligned_cols=23  Identities=35%  Similarity=0.442  Sum_probs=19.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+++++|+|+|||.++-.++..+
T Consensus       200 ~~ll~~~TGsGKT~~~~~~~~~l  222 (590)
T 3h1t_A          200 RSLITMATGTGKTVVAFQISWKL  222 (590)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHH
T ss_pred             ceEEEecCCCChHHHHHHHHHHH
Confidence            58999999999999877777665

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=95.01  E-value=0.021  Score=46.12  Aligned_cols=23  Identities=22%  Similarity=0.511  Sum_probs=20.3

Q ss_pred             EEEEEeccCCChHHHHHHHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      ..++++|++|+|||+++..+...
T Consensus        30 ~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           30 KTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            36999999999999999998754

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=95.00  E-value=0.014  Score=51.96  Aligned_cols=24  Identities=33%  Similarity=0.322  Sum_probs=21.8

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..+.|+||+|+||||+.++|+...
T Consensus        70 ~~valvG~nGaGKSTLln~L~Gl~   93 (413)
T 1tq4_A           70 LNVAVTGETGSGKSSFINTLRGIG   93 (413)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCcHHHHHHHHhCCC
Confidence            379999999999999999999865

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=94.99  E-value=0.018  Score=44.82  Aligned_cols=24  Identities=25%  Similarity=0.297  Sum_probs=20.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -.++++|++|+|||++++.+...-
T Consensus        21 ~ki~v~G~~~~GKSsli~~l~~~~   44 (189)
T 1z06_A           21 FKIIVIGDSNVGKTCLTYRFCAGR   44 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            369999999999999999987643

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=94.98  E-value=0.017  Score=51.78  Aligned_cols=26  Identities=23%  Similarity=0.185  Sum_probs=23.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||+|+|||||.+.|+......
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~~~~~  184 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARYTRAD  184 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcccCCC
Confidence            58999999999999999999998543

>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic subunit]; helicase, flavivirus, DEAD-BOX, ATPase, rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP: c.37.1.14 c.37.1.14 PDB: 1ymf_A*

Probab=94.97  E-value=0.041  Score=49.29  Aligned_cols=16  Identities=25%  Similarity=0.247  Sum_probs=14.5

Q ss_pred             EEEEeccCCChHHHHH
Q 047225           19 SFLFTGPTGVGKTELA   34 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la   34 (287)
                      ++++.||+|+|||..+
T Consensus        10 ~vlv~a~TGSGKT~~~   25 (440)
T 1yks_A           10 TTVLDFHPGAGKTRRF   25 (440)
T ss_dssp             EEEECCCTTSSTTTTH
T ss_pred             CEEEEcCCCCCHHHHH
Confidence            6999999999999864

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=94.96  E-value=0.016  Score=45.35  Aligned_cols=27  Identities=19%  Similarity=0.239  Sum_probs=21.6

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+...++++|++|+|||+++..+...-
T Consensus        15 ~~~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           15 KTKLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            334569999999999999999887543

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=94.95  E-value=0.019  Score=44.17  Aligned_cols=23  Identities=26%  Similarity=0.216  Sum_probs=20.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++.+.+...-
T Consensus        10 ki~v~G~~~~GKssl~~~~~~~~   32 (182)
T 3bwd_D           10 KCVTVGDGAVGKTCLLISYTSNT   32 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            69999999999999999987643

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=94.94  E-value=0.018  Score=45.39  Aligned_cols=24  Identities=29%  Similarity=0.290  Sum_probs=21.3

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++|+|++|+|||++++.+...-
T Consensus        25 ~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           25 RKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCC
Confidence            369999999999999999998754

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=94.94  E-value=0.018  Score=45.80  Aligned_cols=24  Identities=25%  Similarity=0.407  Sum_probs=21.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++++|++|+|||++++.+...-
T Consensus        29 ~ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           29 CKIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            469999999999999999998754

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=94.94  E-value=0.01  Score=47.13  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.2

Q ss_pred             EEEEEeccCCChHHHHHHHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      ..+.|+|++|+||||+.+.+...
T Consensus        27 ~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           27 IEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             EEEEEEECTTSSHHHHHTTTCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            36999999999999999988754

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=94.91  E-value=0.015  Score=45.03  Aligned_cols=22  Identities=32%  Similarity=0.560  Sum_probs=19.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++++|++|+|||++...+...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            5899999999999999998764

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=94.91  E-value=0.012  Score=52.41  Aligned_cols=23  Identities=35%  Similarity=0.520  Sum_probs=20.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ++.|+||+|+|||||.+.|+...
T Consensus        44 ~vaLvG~nGaGKSTLln~L~G~~   66 (427)
T 2qag_B           44 NILCVGETGLGKSTLMDTLFNTK   66 (427)
T ss_dssp             EEEEECSTTSSSHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCcc
Confidence            38999999999999999998763

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=94.90  E-value=0.017  Score=44.35  Aligned_cols=23  Identities=22%  Similarity=0.421  Sum_probs=20.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+...-
T Consensus        14 ki~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           14 KLVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            69999999999999999988653

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=94.88  E-value=0.017  Score=48.17  Aligned_cols=22  Identities=36%  Similarity=0.418  Sum_probs=20.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .+.|+|++|+||||+.+.+...
T Consensus         5 ~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            5 TVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             EEEEEECSSSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6999999999999999999764

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4}

Probab=94.87  E-value=0.036  Score=50.45  Aligned_cols=23  Identities=26%  Similarity=0.371  Sum_probs=19.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++||+|+|||..+-.++...
T Consensus       130 ~~ll~~~tGsGKT~~~~~~~~~~  152 (510)
T 2oca_A          130 RRILNLPTSAGRSLIQALLARYY  152 (510)
T ss_dssp             EEEEECCSTTTHHHHHHHHHHHH
T ss_pred             CcEEEeCCCCCHHHHHHHHHHHH
Confidence            58999999999999886666554

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=94.87  E-value=0.017  Score=45.19  Aligned_cols=22  Identities=36%  Similarity=0.536  Sum_probs=20.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++++|++|+|||++.+.+...
T Consensus        25 ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           25 KLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6999999999999999999864

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=94.86  E-value=0.022  Score=55.06  Aligned_cols=25  Identities=28%  Similarity=0.489  Sum_probs=20.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      ..++.||||||||+++..+...+..
T Consensus       373 ~~lI~GppGTGKT~ti~~~i~~l~~  397 (800)
T 2wjy_A          373 LSLIQGPPGTGKTVTSATIVYHLAR  397 (800)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            5899999999999988877776643

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=94.85  E-value=0.016  Score=45.92  Aligned_cols=23  Identities=30%  Similarity=0.478  Sum_probs=20.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+....
T Consensus        28 ki~lvG~~~vGKSsLi~~l~~~~   50 (201)
T 2ew1_A           28 KIVLIGNAGVGKTCLVRRFTQGL   50 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECcCCCCHHHHHHHHHhCC
Confidence            69999999999999999987654

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=94.85  E-value=0.012  Score=50.03  Aligned_cols=24  Identities=33%  Similarity=0.379  Sum_probs=21.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .+.|.||+|+||||+.++|+....
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~~  194 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGLK  194 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCC
T ss_pred             eEEEECCCCCcHHHHHHHhccccc
Confidence            588999999999999999987663

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=94.85  E-value=0.018  Score=44.35  Aligned_cols=23  Identities=26%  Similarity=0.254  Sum_probs=20.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++.+.+....
T Consensus         7 ~i~~~G~~~~GKssl~~~l~~~~   29 (186)
T 1mh1_A            7 KCVVVGDGAVGKTCLLISYTTNA   29 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            59999999999999999987643

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=94.84  E-value=0.016  Score=50.52  Aligned_cols=23  Identities=43%  Similarity=0.541  Sum_probs=20.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|+||+|+|||||++.|+...
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCS
T ss_pred             EEEEECCCCccHHHHHHHHhccc
Confidence            58999999999999999998665

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=94.84  E-value=0.019  Score=53.52  Aligned_cols=28  Identities=25%  Similarity=0.353  Sum_probs=24.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKE   46 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~   46 (287)
                      .+.++||+|+||||+++.++..+.+...
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~~p~~G  398 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRFYDVDSG  398 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCC
Confidence            6899999999999999999998755433

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=94.82  E-value=0.017  Score=49.52  Aligned_cols=25  Identities=40%  Similarity=0.448  Sum_probs=22.1

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHh
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ...+.|+|+.|+||||+.+.|....
T Consensus         4 i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            4 IAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             ccEEEEEecCCCCHHHHHHHHHhhc
Confidence            3479999999999999999999765

>1qzm_A ATP-dependent protease LA; oligomerization domain, AAA+ protein, hydrolase; 1.90A {Escherichia coli} SCOP: c.37.1.20

Probab=94.81  E-value=0.16  Score=34.93  Aligned_cols=81  Identities=21%  Similarity=0.308  Sum_probs=57.4

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHhcCc---EEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHHHHHHHhccCCCC
Q 047225          183 QLNKMQLMEIVDIMLKEIYERLEAKNM---ELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVG  259 (287)
Q Consensus       183 ~~~~~~~~~il~~~l~~~~~~~~~~~~---~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~  259 (287)
                      .++.+|-.+|.+.+|-.  ..+..+|.   .+.++++++..+... |....|+|.|++.+.+++..+..+...++.   .
T Consensus         2 GYt~~EK~~IAk~~LiP--kql~~~GL~~~~~~i~d~al~~iI~~-YTREaGVRnLer~i~~i~RK~a~~i~~~~~---~   75 (94)
T 1qzm_A            2 GYTEDEKLNIAKRHLLP--KQIERNALKKGELTVDDSAIIGIIRY-YTREAGVRGLEREISKLCRKAVKQLLLDKS---L   75 (94)
T ss_dssp             CCCHHHHHHHHHHTHHH--HHHHHTTCCTTTEEECHHHHHHHHHH-HCCCSSSHHHHHHHHHHHHHHHHHHHTCTT---C
T ss_pred             CCCHHHHHHHHHHhccH--HHHHHhCCChhhceECHHHHHHHHHH-hcccccchHHHHHHHHHHHHHHHHHHHcCC---C
Confidence            46788889999888743  33333333   499999999999986 778889999999999988877766543122   2


Q ss_pred             CEEEEEEcCC
Q 047225          260 DSVTMDCDSG  269 (287)
Q Consensus       260 ~~~~i~~~~~  269 (287)
                      .++.|+.++.
T Consensus        76 ~~v~v~~~~l   85 (94)
T 1qzm_A           76 KHIEINGDNL   85 (94)
T ss_dssp             CCEEECTTTT
T ss_pred             CCeeECHHHH
Confidence            3455554443

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.80  E-value=0.022  Score=44.65  Aligned_cols=23  Identities=26%  Similarity=0.387  Sum_probs=20.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+...-
T Consensus        30 ki~v~G~~~vGKSsli~~l~~~~   52 (196)
T 2atv_A           30 KLAIFGRAGVGKSALVVRFLTKR   52 (196)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            69999999999999999998753

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=94.79  E-value=0.017  Score=44.96  Aligned_cols=23  Identities=30%  Similarity=0.475  Sum_probs=20.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+...-
T Consensus        17 ~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           17 KILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            69999999999999999998654

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=94.77  E-value=0.022  Score=44.30  Aligned_cols=24  Identities=25%  Similarity=0.264  Sum_probs=21.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -.++++|++|+|||++.+.+...-
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHcCC
Confidence            369999999999999999998643

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=94.76  E-value=0.019  Score=47.37  Aligned_cols=24  Identities=25%  Similarity=0.432  Sum_probs=20.9

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHH
Q 047225           17 ISSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      ...++|+|++|+|||++...+...
T Consensus        22 ~~~I~lvG~~g~GKStl~n~l~~~   45 (260)
T 2xtp_A           22 ELRIILVGKTGTGKSAAGNSILRK   45 (260)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHTS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCC
Confidence            347999999999999999998754

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=94.74  E-value=0.019  Score=44.87  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=20.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+...-
T Consensus        25 ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           25 KVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            69999999999999999997654

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=94.74  E-value=0.0092  Score=48.55  Aligned_cols=27  Identities=19%  Similarity=0.262  Sum_probs=23.2

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCC
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKE   46 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~   46 (287)
                      +.|+||+|+||||+.++|+..+.+...
T Consensus        30 ~~i~GpnGsGKSTll~~i~g~~~~~~G   56 (227)
T 1qhl_A           30 TTLSGGNGAGKSTTMAAFVTALIPDLT   56 (227)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHSCCTT
T ss_pred             EEEECCCCCCHHHHHHHHhcccccCCC
Confidence            568999999999999999999865543

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=94.74  E-value=0.02  Score=44.62  Aligned_cols=23  Identities=22%  Similarity=0.362  Sum_probs=20.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+...-
T Consensus        23 ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           23 NLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCcHHHHHHHHHhCC
Confidence            59999999999999998887654

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=94.74  E-value=0.025  Score=44.06  Aligned_cols=23  Identities=35%  Similarity=0.481  Sum_probs=20.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+...-
T Consensus        18 ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           18 KLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            69999999999999999998654

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=94.74  E-value=0.029  Score=43.58  Aligned_cols=24  Identities=29%  Similarity=0.335  Sum_probs=21.1

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -.++++|++|+|||++++.+...-
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            369999999999999999997654

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=94.72  E-value=0.065  Score=52.40  Aligned_cols=22  Identities=27%  Similarity=0.449  Sum_probs=19.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++|+||.|+||||+.+.++..
T Consensus       675 i~~ItGPNGaGKSTlLr~i~~i  696 (918)
T 3thx_B          675 VMIITGPNMGGKSSYIKQVALI  696 (918)
T ss_dssp             EEEEESCCCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCchHHHHHHHHHH
Confidence            6999999999999999998754

>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=94.71  E-value=0.017  Score=51.67  Aligned_cols=37  Identities=32%  Similarity=0.470  Sum_probs=29.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .|++++|++|+|||++++.+...+...+..++.+|..
T Consensus        54 ~h~~i~G~tGsGKs~~~~~li~~~~~~g~~viv~Dpk   90 (437)
T 1e9r_A           54 RHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDPN   90 (437)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEET
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCC
Confidence            4799999999999999887777765556677777763

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=94.70  E-value=0.017  Score=45.49  Aligned_cols=22  Identities=32%  Similarity=0.542  Sum_probs=19.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~   39 (287)
                      ..++++|++|+|||+|++.+..
T Consensus        24 ~ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           24 FKVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHTCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            3699999999999999999853

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=94.69  E-value=0.02  Score=43.86  Aligned_cols=23  Identities=17%  Similarity=0.174  Sum_probs=20.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+...-
T Consensus         9 ki~~vG~~~vGKTsli~~l~~~~   31 (178)
T 2iwr_A            9 RLGVLGDARSGKSSLIHRFLTGS   31 (178)
T ss_dssp             EEEEECCGGGCHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            69999999999999999998754

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=94.69  E-value=0.024  Score=50.86  Aligned_cols=36  Identities=14%  Similarity=0.061  Sum_probs=29.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC-CCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG-SKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~-~~~~~~~~~~~   54 (287)
                      .+++.|+||+|||+++..++..... .+.+..++++.
T Consensus       202 l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~slE  238 (444)
T 2q6t_A          202 LNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSLE  238 (444)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEESS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEECC
Confidence            6999999999999999999887643 35567777764

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=94.68  E-value=0.022  Score=44.55  Aligned_cols=23  Identities=30%  Similarity=0.509  Sum_probs=19.7

Q ss_pred             EEEEEeccCCChHHHHHHHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      ..++++|++|+|||++++.+...
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC-
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            35999999999999999998754

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=94.68  E-value=0.026  Score=50.76  Aligned_cols=37  Identities=16%  Similarity=0.129  Sum_probs=30.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      .+++.|+||+|||+++..++......+.+..++++..
T Consensus       199 liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSlEm  235 (444)
T 3bgw_A          199 FVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLEM  235 (444)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECSSS
T ss_pred             EEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEECCC
Confidence            6999999999999999999887744466777777654

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.68  E-value=0.022  Score=44.46  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=21.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+|++|+|||++++.+...-
T Consensus        25 ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           25 KLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            59999999999999999998765

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=94.67  E-value=0.021  Score=44.51  Aligned_cols=23  Identities=30%  Similarity=0.468  Sum_probs=20.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++++.+...-
T Consensus        23 ki~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           23 KYIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            59999999999999999998643

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.66  E-value=0.021  Score=52.66  Aligned_cols=34  Identities=29%  Similarity=0.388  Sum_probs=26.4

Q ss_pred             CCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           10 IRDPNRPISSFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        10 ~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      +..|.+. -.+.|+||.|+||||+.+.|+..+.+.
T Consensus        19 l~~~~~G-ei~gLiGpNGaGKSTLlkiL~Gl~~p~   52 (538)
T 3ozx_A           19 LPTPKNN-TILGVLGKNGVGKTTVLKILAGEIIPN   52 (538)
T ss_dssp             CCCCCTT-EEEEEECCTTSSHHHHHHHHTTSSCCC
T ss_pred             CCCCCCC-CEEEEECCCCCcHHHHHHHHhcCCCCC
Confidence            4444433 369999999999999999999877443

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=94.65  E-value=0.012  Score=50.08  Aligned_cols=37  Identities=27%  Similarity=0.303  Sum_probs=30.9

Q ss_pred             EEEEecc-CCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           19 SFLFTGP-TGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp-~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      .++++|+ +|+|||+++..||..+...+.....+|+..
T Consensus       106 vI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID~D~  143 (299)
T 3cio_A          106 ILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFIDADL  143 (299)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEEEECCT
T ss_pred             EEEEECCCCCCChHHHHHHHHHHHHhCCCcEEEEECCC
Confidence            6888886 799999999999998866677788888764

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=94.65  E-value=0.017  Score=49.13  Aligned_cols=22  Identities=32%  Similarity=0.687  Sum_probs=19.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++++||+|+|||||.+.|...
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998754

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=94.63  E-value=0.019  Score=45.16  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=20.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||+++..+...-
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A           10 KILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            69999999999999999987643

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=94.63  E-value=0.022  Score=44.50  Aligned_cols=23  Identities=30%  Similarity=0.284  Sum_probs=20.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||++.+.+...-
T Consensus        25 ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           25 KIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            69999999999999999998754

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=94.63  E-value=0.018  Score=45.41  Aligned_cols=22  Identities=32%  Similarity=0.533  Sum_probs=19.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++++|++|+|||++++.+...
T Consensus        27 ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           27 KFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHC-
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            6999999999999999998754

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=94.62  E-value=0.024  Score=44.51  Aligned_cols=24  Identities=21%  Similarity=0.320  Sum_probs=20.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++++|++|+|||++++.+...-
T Consensus        29 ~ki~v~G~~~~GKSsli~~l~~~~   52 (199)
T 2p5s_A           29 YKIVLAGDAAVGKSSFLMRLCKNE   52 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            369999999999999999997643

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=94.62  E-value=0.021  Score=45.06  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=20.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||+++..+...-
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y           10 KLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            69999999999999999997654

>2zpa_A Uncharacterized protein YPFI; RNA modification enzyme, RNA helicase, acetyltransferase, GCN5 acetyltransferase; HET: ACO ADP; 2.35A {Escherichia coli K12}

Probab=94.60  E-value=0.11  Score=48.85  Aligned_cols=85  Identities=18%  Similarity=0.232  Sum_probs=49.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +...|+|+.|.|||+++..++..+..   .. .+..........+..+.+..   ..+.....+..  .....++|+|||
T Consensus       193 ~~~vlta~RGRGKSa~lG~~~a~~~~---~~-~vtAP~~~a~~~l~~~~~~~---i~~~~Pd~~~~--~~~~~dlliVDE  263 (671)
T 2zpa_A          193 GVAAVTAARGRGKSALAGQLISRIAG---RA-IVTAPAKASTDVLAQFAGEK---FRFIAPDALLA--SDEQADWLVVDE  263 (671)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHSSS---CE-EEECSSCCSCHHHHHHHGGG---CCBCCHHHHHH--SCCCCSEEEEET
T ss_pred             CeEEEecCCCCCHHHHHHHHHHHHHh---Cc-EEECCCHHHHHHHHHHhhCC---eEEeCchhhhh--CcccCCEEEEEc
Confidence            46899999999999999999988843   22 22222212112223332221   12211111111  122346999999


Q ss_pred             cccccHHHHHHHHH
Q 047225           98 IEKAHRDVLNVMLQ  111 (287)
Q Consensus        98 id~~~~~~~~~L~~  111 (287)
                      +-.++...+..|..
T Consensus       264 AAaIp~pll~~ll~  277 (671)
T 2zpa_A          264 AAAIPAPLLHQLVS  277 (671)
T ss_dssp             GGGSCHHHHHHHHT
T ss_pred             hhcCCHHHHHHHHh
Confidence            99999988666665

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=94.57  E-value=0.027  Score=44.12  Aligned_cols=21  Identities=29%  Similarity=0.460  Sum_probs=19.2

Q ss_pred             EEEEeccCCChHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~   39 (287)
                      .++++|++|+|||+++..+..
T Consensus        31 ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           31 RILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             EEEEEESTTSSHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            699999999999999998853

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=94.57  E-value=0.032  Score=50.90  Aligned_cols=37  Identities=11%  Similarity=0.135  Sum_probs=30.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC-CCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS-KEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~-~~~~~~~~~~~   55 (287)
                      .+++.|+||+|||+++..++...... +.++.+++...
T Consensus       244 l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~E~  281 (503)
T 1q57_A          244 VIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAMLEE  281 (503)
T ss_dssp             EEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEESSS
T ss_pred             EEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEeccC
Confidence            69999999999999999999887554 56777777644

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=94.56  E-value=0.027  Score=43.64  Aligned_cols=22  Identities=18%  Similarity=0.404  Sum_probs=20.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++++|++|+|||++.+.+...
T Consensus        18 ~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           18 KVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6999999999999999999843

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=94.55  E-value=0.018  Score=47.72  Aligned_cols=22  Identities=41%  Similarity=0.436  Sum_probs=20.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++|+|+||+|||++...+...
T Consensus         7 kI~lvG~~nvGKTsL~n~l~g~   28 (258)
T 3a1s_A            7 KVALAGCPNVGKTSLFNALTGT   28 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            5999999999999999999753

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=94.49  E-value=0.024  Score=45.28  Aligned_cols=24  Identities=33%  Similarity=0.563  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      -|.|-|+.|+||||.++.|++.+.
T Consensus         4 FI~~EG~dGsGKsTq~~~L~~~L~   27 (205)
T 4hlc_A            4 FITFEGPEGSGKTTVINEVYHRLV   27 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHH
Confidence            478999999999999999999984

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=94.48  E-value=0.027  Score=44.33  Aligned_cols=21  Identities=33%  Similarity=0.461  Sum_probs=19.3

Q ss_pred             EEEEeccCCChHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~   39 (287)
                      .++++|++|+|||++.+.+..
T Consensus        27 ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           27 KLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             EEEEEEETTSSHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            699999999999999999864

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=94.48  E-value=0.022  Score=44.01  Aligned_cols=23  Identities=17%  Similarity=0.384  Sum_probs=20.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      ..++++|++|+|||++.+.+...
T Consensus        22 ~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           22 HKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            36999999999999999999754

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=94.48  E-value=0.017  Score=53.77  Aligned_cols=26  Identities=23%  Similarity=0.346  Sum_probs=23.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.++||+|+||||+++.++..+.+.
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~~~p~  396 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRFYDID  396 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTTCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhhccCCC
Confidence            68999999999999999999887443

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=94.45  E-value=0.026  Score=43.61  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=20.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++++|++|+|||++.+.+...
T Consensus        20 ~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           20 RLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6999999999999999998754

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=94.44  E-value=0.017  Score=44.50  Aligned_cols=22  Identities=32%  Similarity=0.501  Sum_probs=9.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++++|++|+|||+++..+...
T Consensus        10 ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C           10 KLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            6999999999999999988754

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=94.40  E-value=0.028  Score=44.14  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=19.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      ..++++|++|+|||++.+.+...
T Consensus        21 ~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           21 VKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC-
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            36999999999999999998754

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.39  E-value=0.026  Score=44.62  Aligned_cols=22  Identities=32%  Similarity=0.502  Sum_probs=20.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++++|++|+|||+++..+...
T Consensus        22 ~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           22 KILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            6999999999999999998754

>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3 catalytic subunit; nucleotide-binding, capsid protein; 2.75A {Murray valley encephalitis virus}

Probab=94.39  E-value=0.071  Score=50.47  Aligned_cols=15  Identities=27%  Similarity=0.253  Sum_probs=14.0

Q ss_pred             EEEEeccCCChHHHH
Q 047225           19 SFLFTGPTGVGKTEL   33 (287)
Q Consensus        19 ~ill~Gp~GtGKT~l   33 (287)
                      ++++.||+|+|||..
T Consensus       243 dvlv~apTGSGKTl~  257 (673)
T 2wv9_A          243 LTVLDLHPGAGKTRR  257 (673)
T ss_dssp             EEEECCCTTTTTTTT
T ss_pred             eEEEEeCCCCCHHHH
Confidence            699999999999986

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=94.36  E-value=0.025  Score=44.34  Aligned_cols=22  Identities=41%  Similarity=0.563  Sum_probs=19.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++++|++|+|||+|...+...
T Consensus         8 kv~lvG~~~vGKSsL~~~~~~~   29 (192)
T 2cjw_A            8 RVVLIGEQGVGKSTLANIFAGV   29 (192)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5999999999999999998753

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=94.36  E-value=0.027  Score=47.07  Aligned_cols=39  Identities=26%  Similarity=0.334  Sum_probs=31.7

Q ss_pred             EEEEEecc-CCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           18 SSFLFTGP-TGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        18 ~~ill~Gp-~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      ..++++|+ +|+|||+++..||..+...+.+...+|+...
T Consensus        83 kvI~vts~kgG~GKTt~a~nLA~~lA~~G~rVLLID~D~~  122 (271)
T 3bfv_A           83 QSIVITSEAPGAGKSTIAANLAVAYAQAGYKTLIVDGDMR  122 (271)
T ss_dssp             CEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCSS
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCC
Confidence            36888876 7999999999999998666778888888643

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=94.33  E-value=0.028  Score=45.03  Aligned_cols=22  Identities=36%  Similarity=0.454  Sum_probs=20.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+-|+|..||||||+++.+++ +
T Consensus        11 ~iglTGgigsGKStv~~~l~~-~   32 (210)
T 4i1u_A           11 AIGLTGGIGSGKTTVADLFAA-R   32 (210)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH-T
T ss_pred             EEEEECCCCCCHHHHHHHHHH-C
Confidence            488999999999999999987 5

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=94.32  E-value=0.036  Score=48.45  Aligned_cols=26  Identities=38%  Similarity=0.783  Sum_probs=22.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .++|+||.|+||||+..+|+-.+++.
T Consensus        25 ~~~i~G~NGaGKTTll~ai~~al~g~   50 (365)
T 3qf7_A           25 ITVVEGPNGAGKSSLFEAISFALFGN   50 (365)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHSC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            57899999999999999999887543

---

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	287
d1qvra3	315	c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus	2e-88
d1r6bx3	315	c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, A	4e-74
d1um8a_	364	c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 2	6e-39
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	5e-32
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	1e-18
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	6e-09
d1ny5a2	247	c.37.1.20 (A:138-384) Transcriptional activator si	6e-09
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	3e-08
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	5e-08
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	1e-07
d1g41a_	443	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	2e-07
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	5e-06
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	6e-06
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	2e-05
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	3e-04
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	7e-04
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	0.002
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	0.002
d1a5ta2	207	c.37.1.20 (A:1-207) delta prime subunit of DNA pol	0.002
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	0.002

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]} Length = 315

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]

 Score =  263 bits (674), Expect = 2e-88
 Identities = 154/274 (56%), Positives = 197/274 (71%), Gaps = 2/274 (0%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            + RAR G++DPNRPI SFLF GPTGVGKTELA  LA   F ++EAM+RIDM+EYMEKH 
Sbjct: 38  AIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHA 97

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VS+  G+PPGYVG+E GGQLTEAVR RP+SVILFDEIEKAH DV N++LQ+LDDGR+TD 
Sbjct: 98  VSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDS 157

Query: 122 KGQTVDLKNTIIIMTSNIGDSVI--ARESILGSDQMERGVAEELRRRFRPEFLNRIDEVI 179
            G+TVD +NT+II+TSN+G  +I    +     +++   V + L++ FRPEFLNR+DE++
Sbjct: 158 HGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIV 217

Query: 180 VFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAI 239
           VFR L K Q+ +IV+I L  +  RL  K + L +T   K  L E GY+P +GARPLRR I
Sbjct: 218 VFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVI 277

Query: 240 GRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVI 273
            R LE  LA+ IL G ++ GD V +D    G V 
Sbjct: 278 QRELETPLAQKILAGEVKEGDRVQVDVGPAGLVF 311

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]} Length = 315

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]

 Score =  227 bits (579), Expect = 4e-74
 Identities = 115/276 (41%), Positives = 170/276 (61%), Gaps = 4/276 (1%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            ++ AR G+   ++P+ SFLF GPTGVGKTE+   L+         ++R DMSEYME+HT
Sbjct: 37  AIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG---IELLRFDMSEYMERHT 93

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
           VS+  G+PPGYVGF+ GG LT+AV   PH+V+L DEIEKAH DV N++LQ++D+G +TD 
Sbjct: 94  VSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDN 153

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIARESILGSDQ-MERGVAEELRRRFRPEFLNRIDEVIV 180
            G+  D +N +++MT+N G     R+SI    Q       EE+++ F PEF NR+D +I 
Sbjct: 154 NGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIW 213

Query: 181 FRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG 240
           F  L+   + ++VD  + E+  +L+ K + L V+   +  L E+GY+ + GARP+ R I 
Sbjct: 214 FDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQEARNWLAEKGYDRAMGARPMARVIQ 273

Query: 241 RLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYR 276
             L+  LA  +L G +  G  VT+  D   N + Y 
Sbjct: 274 DNLKKPLANELLFGSLVDGGQVTVALDKEKNELTYG 309

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]} Length = 364

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]

 Score =  138 bits (347), Expect = 6e-39
 Identities = 45/305 (14%), Positives = 93/305 (30%), Gaps = 48/305 (15%)

Query: 4   ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM--------SE 55
                 + +     S+ L  GPTG GKT +A  LA         +   D           
Sbjct: 55  NVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL---DIPIAISDATSLTEAGYVG 111

Query: 56  YMEKHTVSKFFGSPPGYVGFENGG--QLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLL 113
              ++ +++   +    V     G   + E  +    S       + +   V   +L+++
Sbjct: 112 EDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIV 171

Query: 114 DDGR--VTDGKGQTVDLKNTIIIMTSNIGDSVIARESIL--------------------- 150
           +     +    G+     N I I TS+I          L                     
Sbjct: 172 EGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMS 231

Query: 151 ---GSDQMERGVAEELRRRF-RPEFLNRIDEVIVFRQLNKMQLMEIVDI----MLKEIYE 202
                  +      +L      PE + R+  +     ++   +++I+      ++K+  +
Sbjct: 232 KKEQEAILHLVQTHDLVTYGLIPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQ 291

Query: 203 RLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSV 262
             +   ++L       K++ +       GAR LR  I     D + ++        G  V
Sbjct: 292 LFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIEDFCLDIMFDLPKLK----GSEV 347

Query: 263 TMDCD 267
            +  D
Sbjct: 348 RITKD 352

>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 =  118 bits (296), Expect = 5e-32
 Identities = 50/260 (19%), Positives = 93/260 (35%), Gaps = 35/260 (13%)

Query: 7   RVGIRDPNR---PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVS 63
           R+ +++P R      + L  GPTGVGKTE+A  LA          ++++ +++ E   V 
Sbjct: 36  RMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN---APFIKVEATKFTEVGYVG 92

Query: 64  KFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTD--- 120
           K   S    +    GG +        + ++  DEI+K  +        +  +G   D   
Sbjct: 93  KEVDSIIRDLTDSAGGAID---AVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLP 149

Query: 121 -GKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVI 179
             +G TV  K+ ++     +  +  A +    SD               PE   R+   +
Sbjct: 150 LVEGSTVSTKHGMVKTDHILFIASGAFQVARPSD-------------LIPELQGRLPIRV 196

Query: 180 VFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEE---------GYNPSY 230
               L+      I+      + E+ +A      V   F    +++             + 
Sbjct: 197 ELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENI 256

Query: 231 GARPLRRAIGRLLEDNLAEI 250
           GAR L   + RL++      
Sbjct: 257 GARRLHTVMERLMDKISFSA 276

>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 = 81.5 bits (200), Expect = 1e-18
 Identities = 35/251 (13%), Positives = 78/251 (31%), Gaps = 13/251 (5%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            LE    G +    P + FL  G  G GKT L +A+  E  G+   ++ ID   + ++H 
Sbjct: 18  NLEELIQGKKAVESPTA-FLLGGQPGSGKTSLRSAIFEETQGN---VIVIDNDTFKQQHP 73

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
                             +      +R    I+    ++ +  V+    +  D    T  
Sbjct: 74  NFDELVKLYEKDVV----KHVTPYSNRMTEAIISRLSDQGYNLVIEGTGRTTDVPIQTAT 129

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIV- 180
             Q    +  + +M     +S +     +   +          R    +  + + + +  
Sbjct: 130 MLQAKGYETKMYVMAVPKINSYLG---TIERYETMYADDPMTARATPKQAHDIVVKNLPT 186

Query: 181 -FRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAI 239
               L+K  L   + +  +E  +   +            +K +    +       L R  
Sbjct: 187 NLETLHKTGLFSDIRLYNREGVKLYSSLETPSISPKETLEKELNRKVSGKEIQPTLERIE 246

Query: 240 GRLLEDNLAEI 250
            +++ +   E 
Sbjct: 247 QKMVLNKHQET 257

>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 = 53.9 bits (129), Expect = 6e-09
 Identities = 23/171 (13%), Positives = 44/171 (25%), Gaps = 17/171 (9%)

Query: 18  SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN 77
             +LF GP   GKT LA AL     G     + +++        +          V FE+
Sbjct: 155 RYWLFKGPIDSGKTTLAAALLELCGGK---ALNVNLPLDRLNFELGV--AIDQFLVVFED 209

Query: 78  GGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTS 137
                   R  P S    + ++     +   +   L+   +               I+T 
Sbjct: 210 VKGTGGESRDLP-SGQGINNLDNLRDYLDGSVKVNLEKKHLN-----KRTQIFPPGIVTM 263

Query: 138 NIGDSVIAR------ESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFR 182
           N              +         +   E          +     +++  
Sbjct: 264 NEYSVPKTLQARFVKQIDFRPKDYLKHCLERSEFLLEKRIIQSGIALLLML 314

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]} 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: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

 Score = 53.0 bits (127), Expect = 6e-09
 Identities = 33/174 (18%), Positives = 65/174 (37%), Gaps = 40/174 (22%)

Query: 18  SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN 77
              L TG +GVGK  +A  +      SKE  V ++++        ++ FG          
Sbjct: 24  CPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFG--------YE 75

Query: 78  GGQLTEAVRHRP-------HSVILFDEIEKAHRDVLNVMLQLLDDG---RVTDGKGQTVD 127
            G  T AV  +           +  DEI +   +    +L++++ G   R+   K   V+
Sbjct: 76  KGAFTGAVSSKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVN 135

Query: 128 LKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRR-RFRPEFLNRIDEVIV 180
           ++   I+  +N                  R + E ++  +FR +   R+  + +
Sbjct: 136 VR---ILAATN------------------RNIKELVKEGKFREDLYYRLGVIEI 168

>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 = 51.0 bits (122), Expect = 3e-08
 Identities = 39/210 (18%), Positives = 61/210 (29%), Gaps = 62/210 (29%)

Query: 5   RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSK 64
              +G R P       L  GP GVGKT LA A+A E   ++   +    S++     V  
Sbjct: 34  FHEMGARIPKG----VLLVGPPGVGKTHLARAVAGE---ARVPFITASGSDF-----VEM 81

Query: 65  FFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEK--------------AHRDVLNVML 110
           F G     V       L E  +     ++  DEI+                    LN +L
Sbjct: 82  FVGVGAARV-----RDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLL 136

Query: 111 QLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE 170
             +D                 +++  +N  D                 +   L R     
Sbjct: 137 VEMDGFE---------KDTAIVVMAATNRPDI----------------LDPALLRP---- 167

Query: 171 FLNRIDEVIVFRQLNKMQLMEIVDIMLKEI 200
              R D  I     +     +I+ I  +  
Sbjct: 168 --GRFDRQIAIDAPDVKGREQILRIHARGK 195

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 237

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 50.5 bits (119), Expect = 5e-08
 Identities = 21/101 (20%), Positives = 39/101 (38%), Gaps = 3/101 (2%)

Query: 14  NRPISSFLFTGPTGVGKTELANALAFEYFGS---KEAMVRIDMSEYMEKHTVSKFFGSPP 70
           +  +   LF GP G GKT    AL  E +G    K  ++ ++ S+      V +   +  
Sbjct: 30  SANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFA 89

Query: 71  GYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQ 111
                +      E     P+ +I+ DE +    D  + + +
Sbjct: 90  RLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRR 130

>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 = 49.4 bits (118), Expect = 1e-07
 Identities = 41/205 (20%), Positives = 62/205 (30%), Gaps = 62/205 (30%)

Query: 6   ARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKF 65
            ++G + P       L  GP G GKT LA A+A E   +K     I  S++     V  F
Sbjct: 38  QKLGGKIPK----GVLMVGPPGTGKTLLAKAIAGE---AKVPFFTISGSDF-----VEMF 85

Query: 66  FGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEK--------------AHRDVLNVMLQ 111
            G     V       + E  +     +I  DEI+                    LN ML 
Sbjct: 86  VGVGASRV-----RDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLV 140

Query: 112 LLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEF 171
            +D              +  I+I  +N  D                 +   L R      
Sbjct: 141 EMDGFE---------GNEGIIVIAATNRPDV----------------LDPALLRP----- 170

Query: 172 LNRIDEVIVFRQLNKMQLMEIVDIM 196
             R D  +V    +     +I+ + 
Sbjct: 171 -GRFDRQVVVGLPDVRGREQILKVH 194

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 443

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 = 49.8 bits (118), Expect = 2e-07
 Identities = 20/85 (23%), Positives = 37/85 (43%), Gaps = 6/85 (7%)

Query: 7   RVGIRDPNRPI---SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVS 63
           R+ +++P R      + L  GPTGVGKTE+A  LA          ++++ +++ E   V 
Sbjct: 36  RMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA---NAPFIKVEATKFTEVGYVG 92

Query: 64  KFFGSPPGYVGFENGGQLTEAVRHR 88
           K   S    +       + +    +
Sbjct: 93  KEVDSIIRDLTDSAMKLVRQQEIAK 117

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 276

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

 Score = 44.4 bits (103), Expect = 5e-06
 Identities = 34/260 (13%), Positives = 57/260 (21%), Gaps = 29/260 (11%)

Query: 7   RVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAM-VRIDMSEYMEKHTVSKF 65
              +R+P          G  G GKT     L   Y     A  V I+   Y     +   
Sbjct: 33  GNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAI--- 89

Query: 66  FGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQT 125
                G +              R   + L  E  +     + ++L    +          
Sbjct: 90  ----IGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFI 145

Query: 126 VDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLN 185
              +    +    I   ++                  L              VI F    
Sbjct: 146 RLGQEADKLGAFRIALVIVGHN------------DAVLNNLDPSTRGIMGKYVIRFSPYT 193

Query: 186 KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED 245
           K Q+ +I+    K            L        ++I +            R   RL  D
Sbjct: 194 KDQIFDILLDRAKAGLAEGSYSEDIL--------QMIADITGAQTPLD-TNRGDARLAID 244

Query: 246 NLAEIILTGYIQVGDSVTMD 265
            L              +  +
Sbjct: 245 ILYRSAYAAQQNGRKHIAPE 264

>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 = 44.6 bits (105), Expect = 6e-06
 Identities = 21/138 (15%), Positives = 37/138 (26%), Gaps = 38/138 (27%)

Query: 15  RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVG 74
                 + TG    GKT L +AL     G K+    +   E +              Y  
Sbjct: 121 YASGMVIVTGKGNSGKTPLVHALGEA-LGGKDKYATVRFGEPLSG------------YNT 167

Query: 75  -FENG-GQLTEAVRHRPHSVILFDEIEK------------AHRDVLNVMLQLLDDGRVTD 120
            F      +  A+    H VI+ D ++                     +L  +       
Sbjct: 168 DFNVFVDDIARAMLQ--HRVIVIDSLKNVIGAAGGNTTSGGISRGAFDLLSDIG------ 219

Query: 121 GKGQTVDLKNTIIIMTSN 138
                   +  ++I + N
Sbjct: 220 ---AMAASRGCVVIASLN 234

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

 Score = 42.3 bits (98), Expect = 2e-05
 Identities = 25/176 (14%), Positives = 48/176 (27%), Gaps = 20/176 (11%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
            L       +    P+   L  GP G+GKT LA+                     +    
Sbjct: 20  KLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHV--------------------IAHEL 59

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
                 +    +          A       ++  DEI +  R     +   ++D  +   
Sbjct: 60  GVNLRVTSGPAIEKPGDLAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIV 119

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDE 177
            GQ    +   + +          R  ++ +  + R    E    + PE L +   
Sbjct: 120 IGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVM 175

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

 Score = 39.4 bits (90), Expect = 3e-04
 Identities = 22/249 (8%), Positives = 56/249 (22%), Gaps = 4/249 (1%)

Query: 2   TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
                 +     +     +   G  G+GKT LA         +           Y+    
Sbjct: 31  IYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFN 90

Query: 62  VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
                 +    +                 ++ +   +        + +L +LD+ +    
Sbjct: 91  AP----NLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLS 146

Query: 122 KGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVF 181
             +        ++       S      I          A    R   P+  ++I   +  
Sbjct: 147 SPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHL 206

Query: 182 RQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGR 241
                 +L  I++   +        +   L +      +      +       L+ A   
Sbjct: 207 PAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSARRAIVALKMACEM 266

Query: 242 LLEDNLAEI 250
                   +
Sbjct: 267 AEAMGRDSL 275

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

 Score = 37.8 bits (87), Expect = 7e-04
 Identities = 25/141 (17%), Positives = 47/141 (33%), Gaps = 20/141 (14%)

Query: 14  NRPISSFLFTGPTGVGKTELANA-----LAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGS 68
            R   ++LF+G  GVGKT +A              +    V  +  E  +   V      
Sbjct: 31  GRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEID 90

Query: 69  PPGYVGFENGGQLTEAVRHRPHS----VILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQ 124
                  E+   L + V++ P      V L DE+    R   N +L+ L++         
Sbjct: 91  AASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPP------- 143

Query: 125 TVDLKNTIIIMTSNIGDSVIA 145
               ++   ++ +     +  
Sbjct: 144 ----EHVKFLLATTDPQKLPV 160

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 252

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 36.7 bits (83), Expect = 0.002
 Identities = 13/47 (27%), Positives = 20/47 (42%)

Query: 14 NRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKH 60
           R +   L  GP G GK     AL    FG     ++ID+ +++   
Sbjct: 30 PRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTAS 76

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 253

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 36.7 bits (83), Expect = 0.002
 Identities = 15/86 (17%), Positives = 32/86 (37%)

Query: 11  RDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPP 70
           +D +    + +  GP G+GKT  A+ +A E           D+      +   K      
Sbjct: 46  KDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNM 105

Query: 71  GYVGFENGGQLTEAVRHRPHSVILFD 96
             VG+    +  + +  +   +I+ +
Sbjct: 106 SVVGYFKHNEEAQNLNGKHFVIIMDE 131

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

 Score = 36.2 bits (82), Expect = 0.002
 Identities = 7/40 (17%), Positives = 12/40 (30%)

Query: 14 NRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM 53
           R   + L     G+G   L  AL+      +    +   
Sbjct: 21 GRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCG 60

>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 = 36.1 bits (82), Expect = 0.002
 Identities = 38/238 (15%), Positives = 73/238 (30%), Gaps = 47/238 (19%)

Query: 11  RDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPP 70
                P+ S L  GP   GKT LA  +A E                  K           
Sbjct: 34  NSDRTPLVSVLLEGPPHSGKTALAAKIAEESNF------------PFIKICSPDKMIGFS 81

Query: 71  GYVGFENGGQLTEAVRHRPHSVILFDEIEK--AHRDVLNVMLQLLDDGRVTDGKGQTVDL 128
                +   ++ +       S ++ D+IE+   +  +      L+    +   K      
Sbjct: 82  ETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQG 141

Query: 129 KNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF-----------RPEFLNRIDE 177
           +  +II T++  D +                  E+   F             + L  ++ 
Sbjct: 142 RKLLIIGTTSRKDVL---------------QEMEMLNAFSTTIHVPNIATGEQLLEALEL 186

Query: 178 VIVFRQLNKMQLMEIVD-----IMLKEIYERLE-AKNMELTV-THTFKKKLIEEGYNP 228
           +  F+   +  + + V      I +K++   +E +  M+       F   L EEG +P
Sbjct: 187 LGNFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFLALLREEGASP 244

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	287
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	100.0
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	100.0
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.95
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.88
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	99.87
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.79
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.78
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.77
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.76
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.75
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.75
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.73
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	99.73
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.72
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.72
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.72
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.72
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.7
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.7
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.65
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.64
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.63
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.62
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.61
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.58
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.58
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.5
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.44
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.44
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.41
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	98.86
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.66
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.43
d1tuea_	205	Replication protein E1 helicase domain {Human papi	98.39
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.27
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.1
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	98.07
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.04
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.04
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.03
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.99
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	97.97
d1okkd2	207	GTPase domain of the signal recognition particle r	97.94
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.91
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.91
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.9
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.89
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.88
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.87
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.86
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.86
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.83
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.83
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.82
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.81
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	97.81
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	97.78
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.78
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.78
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.76
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.76
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.73
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.7
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.69
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.67
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.65
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.62
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.61
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.61
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.6
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.59
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.57
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.52
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.52
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.52
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.49
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.47
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.46
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.42
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.36
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.28
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	97.26
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.19
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.18
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	97.12
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	97.12
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.07
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.06
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.99
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	96.98
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.98
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.96
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.84
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.84
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.77
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	96.7
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.67
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.63
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	96.61
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.58
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.58
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.54
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.53
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	96.53
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	96.51
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.5
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.48
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.47
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.43
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	96.4
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.39
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.38
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.38
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.37
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.36
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.33
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.33
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.32
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.32
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.32
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	96.31
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	96.28
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.27
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	96.27
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.27
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.25
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	96.24
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	96.23
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.23
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	96.22
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.21
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.2
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	96.17
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.1
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.06
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.03
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	95.98
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.97
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.96
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.95
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.89
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	95.85
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.84
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.82
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	95.8
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	95.8
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.8
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.78
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	95.75
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	95.72
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.71
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.7
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	95.7
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.69
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.67
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	95.64
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.63
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	95.62
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.6
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.59
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.58
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	95.57
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.55
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.51
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.47
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	95.47
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.45
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.45
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	95.44
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	95.42
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	95.4
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.39
d1qzma_	94	ATPase domain of protease Lon (La) {Escherichia co	95.38
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	95.38
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	95.36
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	95.34
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	95.31
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	95.29
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	95.28
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.28
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	95.27
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.26
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.26
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	95.25
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	95.23
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.23
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	95.16
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	95.16
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.12
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	95.11
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.1
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	95.1
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.09
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.08
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.08
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	95.07
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	95.06
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.05
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	95.05
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	95.04
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.02
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.01
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	95.0
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	94.97
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	94.95
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.94
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.93
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.92
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.91
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	94.87
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	94.86
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.84
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	94.84
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	94.81
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	94.81
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	94.8
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	94.79
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	94.78
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	94.73
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	94.72
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.72
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.7
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.56
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	94.52
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	94.5
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	94.5
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.48
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	94.43
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	94.34
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.27
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	94.26
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.13
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	94.08
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	93.97
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	93.95
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.93
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	93.71
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	93.63
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	93.43
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	93.34
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	93.33
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	93.24
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	93.22
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.16
d1xpua3	289	Transcription termination factor Rho, ATPase domai	93.14
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.08
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	92.95
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.48
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	92.34
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	91.96
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	91.93
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	91.89
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	91.69
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	91.52
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	91.07
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	90.84
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	90.77
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	90.56
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	90.42
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	90.4
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	90.34
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	90.05
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	89.84
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	89.13
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	88.93
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	88.21
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	87.33
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	86.16
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	86.14
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	84.85
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	83.4
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	83.18
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	82.5
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	82.28
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	82.15
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	81.68
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	81.53
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	80.88
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	80.82

>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=100.00  E-value=1.1e-42  Score=299.65  Aligned_cols=274  Identities=56%  Similarity=0.922  Sum_probs=241.0

Q ss_pred             chhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhH
Q 047225            2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL   81 (287)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (287)
                      ++.+++.++.+|++|.++++|+||+|+|||.+|+.||+.+.+...+++.++++++.+......++|+++||.|+...+.+
T Consensus        38 ~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~~~~~L~g~~~gyvG~~~~~~l  117 (315)
T d1qvra3          38 AIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQL  117 (315)
T ss_dssp             HHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGGGC--------------CH
T ss_pred             HHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccchhhhhhcCCCCCCcCcccCChH
Confidence            46778889999999999999999999999999999999998888899999999999999999999999999999988899


Q ss_pred             HHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhh--ccCCchHHHHHH
Q 047225           82 TEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARE--SILGSDQMERGV  159 (287)
Q Consensus        82 ~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~--~~~~~~~~~~~~  159 (287)
                      .+++...+++|++|||+|++++++++.|++++++|.++..+|+.+++.++++|+|||.+...+...  ............
T Consensus       118 ~~~~~~~p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~~~gr~v~~~~~i~i~tsnlG~~~i~~~~~~~~~~~~~~~~~  197 (315)
T d1qvra3         118 TEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEV  197 (315)
T ss_dssp             HHHHHHCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHhCCCcEEEEehHhhcCHHHHHHHHHHhccCceeCCCCcEecCcceEEEEecccChHHHhhhcccccchhhhhHHH
Confidence            999999999999999999999999999999999999999889999999999999999988766554  223355556666


Q ss_pred             HHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHH
Q 047225          160 AEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       160 ~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                      ...+++.|+|+|++|++.++.|.|++.+++.+|+...+.++..++...+..+.++++++++|+...|.+.+|+|++++.+
T Consensus       198 ~~~l~~~f~pEflnRid~Ii~F~~L~~~~~~~I~~~~l~~l~~rl~~~~i~l~i~~~~~~~L~~~~y~~~~GAR~L~r~I  277 (315)
T d1qvra3         198 FKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVI  277 (315)
T ss_dssp             HHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHHHHHCBTTTBTSTHHHHH
T ss_pred             HHHHHhhcCHHHHhcCCeeeeccchhhhhhHHHHHHHHHHHHHHHHhccccccccHHHHHHHHHhCCCCCCCcchHHHHH
Confidence            77788999999999999999999999999999999999999999999899999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhccCCCCCEEEEEEcCCccEEEE
Q 047225          240 GRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMY  275 (287)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~  275 (287)
                      ++.+...+++.++++++.+++++.|++++++.++.+
T Consensus       278 e~~i~~~La~~iL~~~~~~g~~i~i~~~~~~lvf~~  313 (315)
T d1qvra3         278 QRELETPLAQKILAGEVKEGDRVQVDVGPAGLVFAV  313 (315)
T ss_dssp             HHHTHHHHHHHHHHTSSCSSCEEEEECCTTSCEEES
T ss_pred             HHHHHHHHHHHHHhCcCCCCCEEEEEEECCEEEEEe
Confidence            999999999999999999999999999999988765

>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=100.00  E-value=5.9e-41  Score=289.41  Aligned_cols=270  Identities=42%  Similarity=0.726  Sum_probs=238.9

Q ss_pred             chhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhH
Q 047225            2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL   81 (287)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (287)
                      +|..++.++.++++|.++++|+||||||||.+|+.||+.+   +.+++.++|+++.+...+..++|+++++.|+...+.+
T Consensus        37 ~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l---~~~~i~~d~s~~~~~~~~~~l~g~~~gy~g~~~~~~l  113 (315)
T d1r6bx3          37 AIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL---GIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLL  113 (315)
T ss_dssp             HHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH---TCEEEEEEGGGCSSSSCCSSSCCCCSCSHHHHHTTHH
T ss_pred             HHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc---cCCeeEeccccccchhhhhhhcccCCCccccccCChh
Confidence            4667888999999999999999999999999999999998   6789999999999998999999999999999998889


Q ss_pred             HHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhc-cCCchHHHHHHH
Q 047225           82 TEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARES-ILGSDQMERGVA  160 (287)
Q Consensus        82 ~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~-~~~~~~~~~~~~  160 (287)
                      ...+...++++++|||+|++++++++.|++++++|.++.+.|+.+++.++++|+|+|.+...+.... ...+........
T Consensus       114 ~~~~~~~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~Tsnig~~~i~~~~~~~~~~~~~~~~~  193 (315)
T d1r6bx3         114 TDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAM  193 (315)
T ss_dssp             HHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECSSCC-----------------CH
T ss_pred             hHHHHhCccchhhhcccccccchHhhhhHHhhccceecCCCCCccCccceEEEeccchhhHHHHhhhccchhhhhhHhHH
Confidence            9999999999999999999999999999999999999999999999999999999999876654331 223444555556


Q ss_pred             HHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          161 EELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      +.++..|+|+|++|++..+.|.|++.+++.+|+...+.++..++...+..+.++++++++++...|.+.+|+|++++.|+
T Consensus       194 ~~l~~~f~pEflnRid~ii~f~~l~~~~~~~I~~~~l~~~~~~l~~~~i~l~~~~~a~~~l~~~~yd~~~GaR~L~r~Ie  273 (315)
T d1r6bx3         194 EEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQEARNWLAEKGYDRAMGARPMARVIQ  273 (315)
T ss_dssp             HHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEEEECHHHHHHHHHHHCBTTTBTTTHHHHHH
T ss_pred             HHHHHhcCHHHHhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhcCcchhhHHHHHHHHHHhCCCCCCChhhHHHHHH
Confidence            67788999999999999999999999999999999999999999988889999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhccCCCCCEEEEEEcCCccEEE
Q 047225          241 RLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIM  274 (287)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~  274 (287)
                      +.+...+++.++.+++.+++++.|+++..+.-+.
T Consensus       274 ~~i~~~la~~il~~~~~~g~~i~V~~~~~~~~l~  307 (315)
T d1r6bx3         274 DNLKKPLANELLFGSLVDGGQVTVALDKEKNELT  307 (315)
T ss_dssp             HHHTHHHHHHHHHSTTTTCEEEEEEEEGGGTEEE
T ss_pred             HHHHHHHHHHHHhCcCCCCCEEEEEEECCCCEEE
Confidence            9999999999999999999999999876655433

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=99.95  E-value=4.9e-28  Score=211.31  Aligned_cols=239  Identities=23%  Similarity=0.343  Sum_probs=165.9

Q ss_pred             cCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHH----
Q 047225            9 GIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEA----   84 (287)
Q Consensus         9 ~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----   84 (287)
                      ++.+++.|.++++|+||+|||||.+|+.||+.+   +.+++.++++.|.+.           +|.|+...+.+.+.    
T Consensus        60 ~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~---~~~~ir~D~s~~~e~-----------gyvg~dv~~~i~~l~~~~  125 (364)
T d1um8a_          60 HLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL---DIPIAISDATSLTEA-----------GYVGEDVENILTRLLQAS  125 (364)
T ss_dssp             HHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEGGGCC-------------------CTHHHHHHHHHT
T ss_pred             ccccccCCCcceeeeCCCCccHHHHHHHHHhhc---ccceeehhhhhcccc-----------hhhHhhhccchhhhhhhc
Confidence            344567777789999999999999999999987   778999999998863           55566555555554    


Q ss_pred             ---HHhCCcEEEEEcCccc--------------ccHHHHHHHHHhhcCceee--cCCCceeeccceEEEEeecCC-----
Q 047225           85 ---VRHRPHSVILFDEIEK--------------AHRDVLNVMLQLLDDGRVT--DGKGQTVDLKNTIIIMTSNIG-----  140 (287)
Q Consensus        85 ---~~~~~~~il~iDeid~--------------~~~~~~~~L~~~l~~~~~~--~~~g~~i~~~~~~iI~t~n~~-----  140 (287)
                         +...+++++++||+++              .++++++.|+++++.+...  ...|+.....+.+++.|+|..     
T Consensus       126 ~~~v~~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~lLqild~~~~~~~~~~gr~~~~~~~i~i~t~~i~~~~~g  205 (364)
T d1um8a_         126 DWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAG  205 (364)
T ss_dssp             TTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCEEC---------------CEECTTCEEEEEE
T ss_pred             hhHHHHhhcccchhhhhhhhccccccccccccccchHHHHhhhhhhcCceeccCCCCCCcCCcceeEEEeehhhhhhhcc
Confidence               3445678999999999              7778999999999976644  445777777777777776651     


Q ss_pred             c----hhhhhh----ccCCch----------HHHH--HHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHH----H
Q 047225          141 D----SVIARE----SILGSD----------QMER--GVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDI----M  196 (287)
Q Consensus       141 ~----~~~~~~----~~~~~~----------~~~~--~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~----~  196 (287)
                      .    ......    ...++.          ....  ...+.++..|.|+|+.|++..+.|.|++.+++.+|+..    .
T Consensus       206 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEf~gRi~~iv~f~~L~~~~l~~Il~~~~~~l  285 (364)
T d1um8a_         206 AFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELIGRLPVLSTLDSISLEAMVDILQKPKNAL  285 (364)
T ss_dssp             CCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCH
T ss_pred             cchhhhhhhhhhcccccccccccccchhhhhhhhccccHHHHhhhhhHHHHHHHhcchhhHhhhhHHHHHHHHHHHHHHH
Confidence            0    000000    011100          0000  01245677899999999999999999999999999975    5


Q ss_pred             HHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHHHHHHHhccCCCCCEEEEE
Q 047225          197 LKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMD  265 (287)
Q Consensus       197 l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~i~  265 (287)
                      +.++...+...+..+.++++++++|+..+|.+++|+|.|++.+++.+..    ..+......+.++.|+
T Consensus       286 ~kq~~~~l~~~gi~L~~td~a~~~la~~g~d~~~GAR~L~riie~~l~~----~~f~~p~~~~~~v~I~  350 (364)
T d1um8a_         286 IKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIEDFCLD----IMFDLPKLKGSEVRIT  350 (364)
T ss_dssp             HHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHHHHHHHHH----HHHTGGGGTTSEEEEC
T ss_pred             HHHHHHHHHhCCcEEEECHHHHHHHHHhccCCCCCchHHHHHHHHHHHH----HhccCCCCCCCEEEEC
Confidence            6677777888899999999999999999999999999999999988774    4455455556677665

>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=99.88  E-value=3.9e-22  Score=170.72  Aligned_cols=219  Identities=22%  Similarity=0.334  Sum_probs=147.4

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILF   95 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~i   95 (287)
                      |..+++|+||||||||++|+++|+.+   +.+++.++++++.+...+....+...++.+......+....   .++||||
T Consensus        48 ~~~~iLl~GPpG~GKT~lAkalA~~~---~~~~~~i~~s~~~~~~~~~~~~~~~~~~~f~~a~~~~~~~~---~~~IIf~  121 (309)
T d1ofha_          48 TPKNILMIGPTGVGKTEIARRLAKLA---NAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVE---QNGIVFI  121 (309)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHH---TCCEEEEEGGGGSSCCSGGGSTTHHHHHHHHTTTTCHHHHH---HHCEEEE
T ss_pred             CCceEEEECCCCCCHHHHHHHHhhcc---ccchhcccccccccceeEeeeccccccccchhhhccccccc---CCceEEe
Confidence            43479999999999999999999998   67899999999987654444443333322222111111111   2369999


Q ss_pred             cCcccccH------------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHH
Q 047225           96 DEIEKAHR------------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEEL  163 (287)
Q Consensus        96 Deid~~~~------------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~  163 (287)
                      ||+|++.+            .+++.|+++++.......+ ..+...+..+|++.+.....                    
T Consensus       122 DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~~~-~~i~~s~ilfi~~ga~~~~~--------------------  180 (309)
T d1ofha_         122 DEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKH-GMVKTDHILFIASGAFQVAR--------------------  180 (309)
T ss_dssp             ECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETT-EEEECTTCEEEEEECCSSSC--------------------
T ss_pred             hhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEecCC-eEEEccceeEEeccchhhcC--------------------
Confidence            99999854            3667788888865555433 34455677777764321110                    


Q ss_pred             HhcCChhHHhccCceEEeCCCCHHHHHHHHHHH----HHHHHHHHHhcCcEEEeChhHHHHHHHh-----ccCCCCCchh
Q 047225          164 RRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIM----LKEIYERLEAKNMELTVTHTFKKKLIEE-----GYNPSYGARP  234 (287)
Q Consensus       164 ~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~----l~~~~~~~~~~~~~~~i~~~~~~~l~~~-----~~~~~~~~r~  234 (287)
                      ...+.|+|.+||+..+.+++|+..++.+|+...    ...........+..+.+.+.+.......     .+..+.|+|.
T Consensus       181 ~~~~~p~l~~R~~~~i~~~~~~~~~~~~Il~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~GaR~  260 (309)
T d1ofha_         181 PSDLIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARR  260 (309)
T ss_dssp             GGGSCHHHHHTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHHTTCEEEECHHHHHHHHHHHHHHHHHSCCCTTHH
T ss_pred             cccchhhhhhhhheeeeccCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCCccccchHHHHHHHHHHHHHhhcchhcCchH
Confidence            125789999999999999999999999998643    2233333444566788999888777643     2345789999


Q ss_pred             HHHHHHHHHHHHHHHHHHhccCCCCCEEEEE
Q 047225          235 LRRAIGRLLEDNLAEIILTGYIQVGDSVTMD  265 (287)
Q Consensus       235 l~~~i~~~~~~~~~~~~~~~~~~~~~~~~i~  265 (287)
                      +++++++++..    ..+......+..+.++
T Consensus       261 L~~~ie~i~~~----~~~~~~~~~~~~v~i~  287 (309)
T d1ofha_         261 LHTVMERLMDK----ISFSASDMNGQTVNID  287 (309)
T ss_dssp             HHHHHHHHSHH----HHHHGGGCTTCEEEEC
T ss_pred             HHHHHHHHHHH----HHccccccCCCEEEEC
Confidence            99999887664    3344444555666554

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.87  E-value=5.8e-22  Score=164.06  Aligned_cols=203  Identities=19%  Similarity=0.266  Sum_probs=154.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCC-cccchhhHHHHHHhCCcEEEEEcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYV-GFENGGQLTEAVRHRPHSVILFDE   97 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~il~iDe   97 (287)
                      +++|.|++||||+.+|++|+........+++.++|...........+||...+.. +...  .-...+....+++|||||
T Consensus        25 pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~~~~~~lfg~~~~~~~~~~~--~~~g~l~~a~gGtL~l~~  102 (247)
T d1ny5a2          25 PVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEKGAFTGAVS--SKEGFFELADGGTLFLDE  102 (247)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCBCTTSSTTCCS--CBCCHHHHTTTSEEEEES
T ss_pred             CEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhcccHHHhcCcccCCcCCccc--ccCCHHHccCCCEEEEeC
Confidence            5999999999999999999998877788999999998877766777887654432 1111  112233444557999999


Q ss_pred             cccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCc
Q 047225           98 IEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDE  177 (287)
Q Consensus        98 id~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~  177 (287)
                      +|.++...|..|.++++++.+..-++......++.+|++++.+....                 ..++.|.++|++|+..
T Consensus       103 i~~L~~~~Q~~L~~~l~~~~~~~~~~~~~~~~~~RlI~~s~~~l~~l-----------------~~~~~f~~~L~~~l~~  165 (247)
T d1ny5a2         103 IGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKEL-----------------VKEGKFREDLYYRLGV  165 (247)
T ss_dssp             GGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHH-----------------HHTTSSCHHHHHHHTT
T ss_pred             hHhCCHHHHHHHHHHHHhCCEEECCCCCceecCeEEEEecCCCHHHH-----------------HHcCCCcHHHHhhcCe
Confidence            99999999999999999877654333333334678999988753322                 1134789999999865


Q ss_pred             e-EEeCCCC--HHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHH
Q 047225          178 V-IVFRQLN--KMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLE  244 (287)
Q Consensus       178 ~-i~~~~~~--~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~  244 (287)
                      . +.+||+.  .+|+..++..++.++..+....  ...+++++++.|..+.|+.  +.++|++++++++.
T Consensus       166 ~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~--~~~ls~~al~~L~~~~WPG--Nl~EL~~~l~~a~~  231 (247)
T d1ny5a2         166 IEIEIPPLRERKEDIIPLANHFLKKFSRKYAKE--VEGFTKSAQELLLSYPWYG--NVRELKNVIERAVL  231 (247)
T ss_dssp             EEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCC--CCEECHHHHHHHHHSCCTT--HHHHHHHHHHHHHH
T ss_pred             eeecCCChhhchhhHhhhhhhhhhhhhhhcCCC--CCCCCHHHHHHHHhCCCCC--HHHHHHHHHHHHHH
Confidence            5 9999996  6899999999999887776532  3579999999999999976  45899998887664

>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=99.79  E-value=1.3e-18  Score=144.32  Aligned_cols=168  Identities=24%  Similarity=0.355  Sum_probs=120.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccc--hhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN--GGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~il~iD   96 (287)
                      .++|+||||||||++|+++|+.+   +.+++.+++++....            +.|..+  ...+++.+....++|||||
T Consensus        47 ~iLL~GppGtGKT~la~~iA~~~---~~~~~~i~~~~l~~~------------~~g~~~~~l~~~f~~A~~~~P~il~iD  111 (256)
T d1lv7a_          47 GVLMVGPPGTGKTLLAKAIAGEA---KVPFFTISGSDFVEM------------FVGVGASRVRDMFEQAKKAAPCIIFID  111 (256)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH---TCCEEEECSCSSTTS------------CCCCCHHHHHHHHHHHHTTCSEEEEET
T ss_pred             eEEeeCCCCCCccHHHHHHHHHc---CCCEEEEEhHHhhhc------------chhHHHHHHHHHHHHHHHcCCEEEEEE
Confidence            59999999999999999999999   789999999876532            122211  2356667777777999999


Q ss_pred             Cccccc--------------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           97 EIEKAH--------------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        97 eid~~~--------------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      |+|.+-              ..+.+.|+..++...         ...++++|+|||.+.                     
T Consensus       112 eiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~---------~~~~v~vIatTn~~~---------------------  161 (256)
T d1lv7a_         112 EIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFE---------GNEGIIVIAATNRPD---------------------  161 (256)
T ss_dssp             THHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCC---------SSSCEEEEEEESCTT---------------------
T ss_pred             ChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCC---------CCCCEEEEEeCCCcc---------------------
Confidence            999641              124456666666321         013567888998753                     


Q ss_pred             HHhcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          163 LRRRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       163 ~~~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                         .+++++++  ||+..|.|++|+.++..+|++.++.+         ..+. .+..+..++..  ..+++.++++..++
T Consensus       162 ---~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~---------~~~~-~~~~~~~la~~--t~G~s~adi~~l~~  226 (256)
T d1lv7a_         162 ---VLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRR---------VPLA-PDIDAAIIARG--TPGFSGADLANLVN  226 (256)
T ss_dssp             ---TSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTT---------SCBC-TTCCHHHHHHT--CTTCCHHHHHHHHH
T ss_pred             ---cCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccC---------CCcC-cccCHHHHHHh--CCCCCHHHHHHHHH
Confidence               45788885  89999999999999999999776543         1222 33445666664  45678899999988


Q ss_pred             HHHHHH
Q 047225          241 RLLEDN  246 (287)
Q Consensus       241 ~~~~~~  246 (287)
                      ++...+
T Consensus       227 ~A~~~a  232 (256)
T d1lv7a_         227 EAALFA  232 (256)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776543

>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=99.78  E-value=1.7e-18  Score=142.85  Aligned_cols=168  Identities=23%  Similarity=0.335  Sum_probs=118.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccc--hhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN--GGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~il~iD   96 (287)
                      .++|+||||||||++|+++++.+   +.+++.++++++...            +.|..+  ...+++.+....++|||||
T Consensus        44 giLl~GppGtGKT~la~aia~~~---~~~~~~i~~~~l~~~------------~~g~~~~~l~~~f~~a~~~~p~Ii~iD  108 (247)
T d1ixza_          44 GVLLVGPPGVGKTHLARAVAGEA---RVPFITASGSDFVEM------------FVGVGAARVRDLFETAKRHAPCIVFID  108 (247)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEHHHHHHS------------CTTHHHHHHHHHHHHHTTSSSEEEEEE
T ss_pred             eEEEecCCCCChhHHHHHHHHHc---CCCEEEEEhHHhhhc------------cccHHHHHHHHHHHHHHHcCCEEEEEE
Confidence            59999999999999999999998   788999998776532            111111  1355666666667899999


Q ss_pred             Cccccc-----------H---HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHH
Q 047225           97 EIEKAH-----------R---DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEE  162 (287)
Q Consensus        97 eid~~~-----------~---~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~  162 (287)
                      |+|.+-           .   .+++.|+..++.-.         ..+++++|+|||.+.                     
T Consensus       109 eid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~---------~~~~vivi~tTn~~~---------------------  158 (247)
T d1ixza_         109 EIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE---------KDTAIVVMAATNRPD---------------------  158 (247)
T ss_dssp             THHHHHC---------CHHHHHHHHHHHHHHHTCC---------TTCCEEEEEEESCGG---------------------
T ss_pred             ChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCC---------CCCCEEEEEeCCCcc---------------------
Confidence            999641           1   24556666666311         013567888898742                     


Q ss_pred             HHhcCChhHH--hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          163 LRRRFRPEFL--NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       163 ~~~~~~~~l~--~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                         .++++++  +||+..|.|++|+.++..+|++.++.+.         ... .+..++.++..  ..+++.+++++.++
T Consensus       159 ---~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~---------~~~-~~~~~~~la~~--t~g~s~~di~~lv~  223 (247)
T d1ixza_         159 ---ILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGK---------PLA-EDVDLALLAKR--TPGFVGADLENLLN  223 (247)
T ss_dssp             ---GSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTS---------CBC-TTCCHHHHHHT--CTTCCHHHHHHHHH
T ss_pred             ---ccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhccc---------CCc-cccCHHHHHHH--CCCCCHHHHHHHHH
Confidence               4578887  5999999999999999999997776432         111 33346677765  34667789999888


Q ss_pred             HHHHHH
Q 047225          241 RLLEDN  246 (287)
Q Consensus       241 ~~~~~~  246 (287)
                      .+...+
T Consensus       224 ~A~l~a  229 (247)
T d1ixza_         224 EAALLA  229 (247)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776543

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=99.77  E-value=9.8e-18  Score=137.82  Aligned_cols=156  Identities=15%  Similarity=0.274  Sum_probs=111.8

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHH-hCCcEEEE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVR-HRPHSVIL   94 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~il~   94 (287)
                      +.++++|+||||||||++|+++++.+   +.++..++.+.....                   ..+...+. .....+++
T Consensus        34 ~~~~~L~~GPpGtGKT~lA~~la~~~---~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~   91 (238)
T d1in4a2          34 VLDHVLLAGPPGLGKTTLAHIIASEL---QTNIHVTSGPVLVKQ-------------------GDMAAILTSLERGDVLF   91 (238)
T ss_dssp             CCCCEEEESSTTSSHHHHHHHHHHHH---TCCEEEEETTTCCSH-------------------HHHHHHHHHCCTTCEEE
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHhcc---CCCcccccCcccccH-------------------HHHHHHHHhhccCCchH
Confidence            34479999999999999999999999   555665554443322                   12222222 23446999


Q ss_pred             EcCcccccHHHHHHHHHhhcCceeecCC-----C--ceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDGRVTDGK-----G--QTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~~~~~~~-----g--~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      +||++++++..++.+...++.+......     .  .....+++++|++||....                        .
T Consensus        92 ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~------------------------~  147 (238)
T d1in4a2          92 IDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGL------------------------L  147 (238)
T ss_dssp             EETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGG------------------------S
T ss_pred             HHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCcc------------------------c
Confidence            9999999999999999999876532211     1  1122357789998887643                        3


Q ss_pred             ChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhcc
Q 047225          168 RPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGY  226 (287)
Q Consensus       168 ~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~  226 (287)
                      .+++.+||...+.+++++.+++..++...+...         ...+++++++.++..+.
T Consensus       148 ~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~~~~l~~i~~~s~  197 (238)
T d1in4a2         148 SSPLRSRFGIILELDFYTVKELKEIIKRAASLM---------DVEIEDAAAEMIAKRSR  197 (238)
T ss_dssp             CHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHT---------TCCBCHHHHHHHHHTST
T ss_pred             cccceeeeeEEEEecCCCHHHHHHHHHHhhhhc---------cchhhHHHHHHHHHhCC
Confidence            578899998889999999999999997665432         46789999999988753

>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=99.76  E-value=1e-17  Score=139.39  Aligned_cols=174  Identities=21%  Similarity=0.273  Sum_probs=122.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||+++++++..+   +.+++.++++.......         +. +......+++.......+||+|||+
T Consensus        40 giLL~GppGtGKT~l~~ala~~~---~~~~~~i~~~~l~~~~~---------g~-~~~~l~~~f~~A~~~~p~il~iDei  106 (258)
T d1e32a2          40 GILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLA---------GE-SESNLRKAFEEAEKNAPAIIFIDEL  106 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHT---TCEEEEECHHHHTTSCT---------TH-HHHHHHHHHHHHHHTCSEEEEESSG
T ss_pred             eeEEecCCCCCchHHHHHHHHHh---CCeEEEEEchhhccccc---------cc-HHHHHHHHHHHHHhcCCeEEEehhh
Confidence            59999999999999999999998   78899999877553310         00 0111235566666667799999999


Q ss_pred             ccccH-----------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcC
Q 047225           99 EKAHR-----------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRF  167 (287)
Q Consensus        99 d~~~~-----------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (287)
                      |.+-.           .+...++..+....         ...++++|+|||.+.                        .+
T Consensus       107 d~l~~~r~~~~~~~~~~~~~~~~~~~~~~~---------~~~~vlvi~tTn~~~------------------------~l  153 (258)
T d1e32a2         107 DAIAPKREKTHGEVERRIVSQLLTLMDGLK---------QRAHVIVMAATNRPN------------------------SI  153 (258)
T ss_dssp             GGTCCHHHHCCCTTHHHHHHHHHHHHHTCC---------CSSCEEEEEEESCGG------------------------GS
T ss_pred             hhhccCCCCCCCchHHHHHHHhcccccccc---------ccCCccEEEeCCCcc------------------------cc
Confidence            97632           23444444444311         113568888998753                        45


Q ss_pred             ChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHH
Q 047225          168 RPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLED  245 (287)
Q Consensus       168 ~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~  245 (287)
                      ++++++  ||+..|.|++|+.++..+|++.++...         .+. .+.-++.|+..+  .+++.++++.+++.+...
T Consensus       154 d~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~---------~~~-~~~~~~~la~~t--~G~s~adl~~lv~~A~~~  221 (258)
T d1e32a2         154 DPALRRFGRFDREVDIGIPDATGRLEILQIHTKNM---------KLA-DDVDLEQVANET--HGHVGADLAALCSEAALQ  221 (258)
T ss_dssp             CGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTS---------CBC-TTCCHHHHHHHC--TTCCHHHHHHHHHHHHHH
T ss_pred             chhhhhcccccceeECCCCCHHHHHHHhhhhccCc---------ccc-cccchhhhhhcc--cCCCHHHHHHHHHHHHHH
Confidence            788887  899999999999999999997776421         222 222367777754  457889999999998887


Q ss_pred             HHHHH
Q 047225          246 NLAEI  250 (287)
Q Consensus       246 ~~~~~  250 (287)
                      ++.+.
T Consensus       222 a~~~~  226 (258)
T d1e32a2         222 AIRKK  226 (258)
T ss_dssp             HHHHH
T ss_pred             HHHhh
Confidence            77654

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.75  E-value=3.5e-18  Score=140.27  Aligned_cols=185  Identities=17%  Similarity=0.262  Sum_probs=120.5

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCC---CCceEEecccccccccchhhhhCCCCCCCcccchh
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGS---KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGG   79 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (287)
                      ++.++..+.+...|  +++|+||||||||++++.+++.+...   ......++.+...........+.............
T Consensus        21 ~~~l~~~i~~~~~~--~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (237)
T d1sxjd2          21 VTVLKKTLKSANLP--HMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVSKPSK   98 (237)
T ss_dssp             HHHHHHHTTCTTCC--CEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHHSCCCCCCT
T ss_pred             HHHHHHHHHcCCCC--eEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHHHhhhhhhhhhH
Confidence            45566666655433  59999999999999999999987321   23445555544332211111110000000000111


Q ss_pred             hHHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHH
Q 047225           80 QLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGV  159 (287)
Q Consensus        80 ~~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~  159 (287)
                      .........++.+++|||+|.+....++.+..+++...           ....+|++++...                  
T Consensus        99 ~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~-----------~~~~~i~~~~~~~------------------  149 (237)
T d1sxjd2          99 HDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYS-----------GVTRFCLICNYVT------------------  149 (237)
T ss_dssp             THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTT-----------TTEEEEEEESCGG------------------
T ss_pred             HHHhhccccCceEEEEecccccCHHHHHHHhhcccccc-----------ccccccccccccc------------------
Confidence            22333334456799999999999999999999888532           2445677766543                  


Q ss_pred             HHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHH
Q 047225          160 AEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAI  239 (287)
Q Consensus       160 ~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i  239 (287)
                            .+.+++.+|+ ..+.|+|++.+++.+++...+.+       .  .+.+++++++.|+..+.      +++|+++
T Consensus       150 ------~~~~~l~sr~-~~i~f~~~~~~~~~~~L~~i~~~-------e--~i~i~~~~l~~ia~~s~------gd~R~ai  207 (237)
T d1sxjd2         150 ------RIIDPLASQC-SKFRFKALDASNAIDRLRFISEQ-------E--NVKCDDGVLERILDISA------GDLRRGI  207 (237)
T ss_dssp             ------GSCHHHHHHS-EEEECCCCCHHHHHHHHHHHHHT-------T--TCCCCHHHHHHHHHHTS------SCHHHHH
T ss_pred             ------cccccccchh-hhhccccccccccchhhhhhhhh-------h--cCcCCHHHHHHHHHHcC------CCHHHHH
Confidence                  3357899999 89999999999999999766543       1  45799999999999763      4666666


Q ss_pred             H
Q 047225          240 G  240 (287)
Q Consensus       240 ~  240 (287)
                      +
T Consensus       208 ~  208 (237)
T d1sxjd2         208 T  208 (237)
T ss_dssp             H
T ss_pred             H
Confidence            5

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.75  E-value=8.8e-18  Score=138.32  Aligned_cols=180  Identities=18%  Similarity=0.219  Sum_probs=115.0

Q ss_pred             hhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCce-----EEecccccccccchhhhhC-CCCCCCcccch
Q 047225            5 RARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAM-----VRIDMSEYMEKHTVSKFFG-SPPGYVGFENG   78 (287)
Q Consensus         5 ~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~-----~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~   78 (287)
                      .++..+.+.+-|. .++|+||||+|||++|+.+++.+......-     ...+|........ ..++. ......+   .
T Consensus        23 ~L~~~i~~~~~~~-~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~-~~~~~~~~~~~~~---i   97 (239)
T d1njfa_          23 ALANGLSLGRIHH-AYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRF-VDLIEIDAASRTK---V   97 (239)
T ss_dssp             HHHHHHHTTCCCS-EEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCC-TTEEEEETTCSSS---H
T ss_pred             HHHHHHHcCCCCe-eEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCC-CeEEEecchhcCC---H
Confidence            3444443333232 599999999999999999999884332100     0001111100000 00000 0000011   1


Q ss_pred             hhHHHHHHh-------CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCC
Q 047225           79 GQLTEAVRH-------RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILG  151 (287)
Q Consensus        79 ~~~~~~~~~-------~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~  151 (287)
                      ..+.+.+..       +.+.+++|||+|.++.+.++.|++.+++.           ..++.||++||...          
T Consensus        98 ~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~-----------~~~~~~il~tn~~~----------  156 (239)
T d1njfa_          98 EDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEP-----------PEHVKFLLATTDPQ----------  156 (239)
T ss_dssp             HHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSC-----------CTTEEEEEEESCGG----------
T ss_pred             HHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcC-----------CCCeEEEEEcCCcc----------
Confidence            122222222       34579999999999999999999999963           13567888887643          


Q ss_pred             chHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCC
Q 047225          152 SDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYG  231 (287)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~  231 (287)
                                    .+.+++.+|| ..+.|++++.+++.+++...+...         .+.+++++++.++..+.     
T Consensus       157 --------------~i~~~i~SRc-~~i~~~~~~~~~i~~~l~~i~~~e---------~~~~~~~~l~~i~~~s~-----  207 (239)
T d1njfa_         157 --------------KLPVTILSRC-LQFHLKALDVEQIRHQLEHILNEE---------HIAHEPRALQLLARAAE-----  207 (239)
T ss_dssp             --------------GSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHHHH---------TCCBCHHHHHHHHHHTT-----
T ss_pred             --------------ccChhHhhhh-cccccccCcHHHhhhHHHHHHhhh---------ccCCCHHHHHHHHHHcC-----
Confidence                          3458899999 899999999999999887776543         35789999999998764     


Q ss_pred             chhHHHHHH
Q 047225          232 ARPLRRAIG  240 (287)
Q Consensus       232 ~r~l~~~i~  240 (287)
                       .++|++++
T Consensus       208 -Gd~R~ain  215 (239)
T d1njfa_         208 -GSLRDALS  215 (239)
T ss_dssp             -TCHHHHHH
T ss_pred             -CCHHHHHH
Confidence             46666665

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.73  E-value=1.9e-17  Score=138.17  Aligned_cols=172  Identities=24%  Similarity=0.338  Sum_probs=115.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||||||||++++++|..+   +.+++.++++......         .+... .....++..+.....++++|||+
T Consensus        43 giLL~Gp~GtGKT~l~~ala~~~---~~~~~~~~~~~l~~~~---------~~~~~-~~l~~~f~~A~~~~p~il~idei  109 (265)
T d1r7ra3          43 GVLFYGPPGCGKTLLAKAIANEC---QANFISIKGPELLTMW---------FGESE-ANVREIFDKARQAAPCVLFFDEL  109 (265)
T ss_dssp             EEEEBCCTTSSHHHHHHHHHHHT---TCEEEEECHHHHHTSC---------TTTHH-HHHHHHHHHHHHTCSEEEEESSG
T ss_pred             eEEEECCCCCcchhHHHHHHHHh---CCcEEEEEHHHhhhcc---------ccchH-HHHHHHHHHHHhcCCcceeHHhh
Confidence            59999999999999999999999   7889999887654321         11100 11234555556666699999999


Q ss_pred             ccccH--------------HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHH
Q 047225           99 EKAHR--------------DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELR  164 (287)
Q Consensus        99 d~~~~--------------~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (287)
                      |.+-.              .+.+.|+..++.-         ....++++|+|||...                       
T Consensus       110 d~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~---------~~~~~v~vi~ttn~~~-----------------------  157 (265)
T d1r7ra3         110 DSIAKARGGNIGDGGGAADRVINQILTEMDGM---------STKKNVFIIGATNRPD-----------------------  157 (265)
T ss_dssp             GGTCCHHHHCCCTTHHHHHHHHHHHHHTCC---------------CCEEEECCBSCT-----------------------
T ss_pred             hhccccCCCcCCCCcHHHHHHHHHHHHHhhCc---------CCCCCEEEEEeCCCch-----------------------
Confidence            96532              1345555555421         1113468899998763                       


Q ss_pred             hcCChhHHh--ccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHHHH
Q 047225          165 RRFRPEFLN--RIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRL  242 (287)
Q Consensus       165 ~~~~~~l~~--r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~  242 (287)
                       .++++|++  ||+..|.|++|+.++..+|++.++.+.         ... .+..++.++..+  .+++.+++...++++
T Consensus       158 -~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~---------~~~-~~~~l~~la~~t--~g~s~~di~~lv~~A  224 (265)
T d1r7ra3         158 -IIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKS---------PVA-KDVDLEFLAKMT--NGFSGADLTEICQRA  224 (265)
T ss_dssp             -TTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC--------------CCCCHHHHHHH--CSSCCHHHHHHHHHH
T ss_pred             -hCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccC---------Cch-hhhhHHHHHhcC--CCCCHHHHHHHHHHH
Confidence             35788875  899999999999999999997665431         111 122345666543  245678999999888


Q ss_pred             HHHHHH
Q 047225          243 LEDNLA  248 (287)
Q Consensus       243 ~~~~~~  248 (287)
                      ...++.
T Consensus       225 ~~~A~~  230 (265)
T d1r7ra3         225 CKLAIR  230 (265)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776653

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.73  E-value=3.4e-16  Score=138.96  Aligned_cols=150  Identities=19%  Similarity=0.336  Sum_probs=110.2

Q ss_pred             EEEEEcCcccc------------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHH
Q 047225           91 SVILFDEIEKA------------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERG  158 (287)
Q Consensus        91 ~il~iDeid~~------------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~  158 (287)
                      +++++||+++.            ...++..++.+++........| .++.....+|.++......               
T Consensus       251 ~~~~~dei~k~~~~~~~~g~d~~~eg~~~~ll~~~e~~~v~~~~~-~~~~~~~l~i~~~~~~~~~---------------  314 (443)
T d1g41a_         251 GIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHG-MVKTDHILFIASGAFQVAR---------------  314 (443)
T ss_dssp             CEEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEETTE-EEECTTCEEEEEECCSSCC---------------
T ss_pred             CccccchhhhhhhcccCCCCCcccchhhhhhhhhccccccccccc-cccccchhhccccchhhcc---------------
Confidence            58999999964            2346777888888665554333 3444455666665442211               


Q ss_pred             HHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHH----HHHHHHHHHHHhcCcEEEeChhHHHHHHHhccC-----CC
Q 047225          159 VAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVD----IMLKEIYERLEAKNMELTVTHTFKKKLIEEGYN-----PS  229 (287)
Q Consensus       159 ~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~----~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~-----~~  229 (287)
                           .+.|-|+|..||+..+.+.+++.+++..|+.    ..+.++...+...|..+.++++++..++..++.     .+
T Consensus       315 -----~~gliPEliGRlPi~v~L~~L~~~dL~rILtEPknsLikQy~~lf~~~gv~L~ft~~al~~iA~~A~~~n~~~~~  389 (443)
T d1g41a_         315 -----PSDLIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTEN  389 (443)
T ss_dssp             -----GGGSCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCC
T ss_pred             -----cccchhhhccceEEEEEccCccHHHHHHHHHhhhhhHHHHHHHHHhhcCcEEEEcHHHHHHHHHHHHHhhhhccc
Confidence                 1246799999999999999999999999996    467777777887899999999999999988775     67


Q ss_pred             CCchhHHHHHHHHHHHHHHHHHHhccCCCCCEEEEE
Q 047225          230 YGARPLRRAIGRLLEDNLAEIILTGYIQVGDSVTMD  265 (287)
Q Consensus       230 ~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~i~  265 (287)
                      .|+|.|+..+++++...+-+    ..-.....+.|+
T Consensus       390 ~GAR~Lr~i~E~~l~~~~f~----~p~~~~~~v~Id  421 (443)
T d1g41a_         390 IGARRLHTVMERLMDKISFS----ASDMNGQTVNID  421 (443)
T ss_dssp             CGGGHHHHHHHHHHHHHHHH----GGGCTTCEEEEC
T ss_pred             CCchHHHHHHHHHHHHHhcc----CCCCCCCEEEEC
Confidence            89999999999988865543    333345555554

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=99.72  E-value=8.2e-17  Score=132.29  Aligned_cols=156  Identities=17%  Similarity=0.218  Sum_probs=109.9

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh--CCcEEE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH--RPHSVI   93 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~il   93 (287)
                      +.++++|+||||||||++|+++++.+   ..++...+.+.....                   ......+..  ....++
T Consensus        34 ~~~~~Ll~GPpG~GKTtla~~la~~~---~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~i~   91 (239)
T d1ixsb2          34 PLEHLLLFGPPGLGKTTLAHVIAHEL---GVNLRVTSGPAIEKP-------------------GDLAAILANSLEEGDIL   91 (239)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHH---TCCEEEEETTTCCSH-------------------HHHHHHHHTTCCTTCEE
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHh---CCCeEeccCCccccc-------------------hhhHHHHHhhccCCCee
Confidence            34479999999999999999999998   555666655443321                   111111111  123599


Q ss_pred             EEcCcccccHHHHHHHHHhhcCceeecCC-------CceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhc
Q 047225           94 LFDEIEKAHRDVLNVMLQLLDDGRVTDGK-------GQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRR  166 (287)
Q Consensus        94 ~iDeid~~~~~~~~~L~~~l~~~~~~~~~-------g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (287)
                      ++||+|.+....+..++..++.+......       ......+++.+|+++|....                        
T Consensus        92 ~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~------------------------  147 (239)
T d1ixsb2          92 FIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGL------------------------  147 (239)
T ss_dssp             EEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEESCCSS------------------------
T ss_pred             eeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeeccCccc------------------------
Confidence            99999999999999999999865432111       12233457788888776543                        


Q ss_pred             CChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhcc
Q 047225          167 FRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGY  226 (287)
Q Consensus       167 ~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~  226 (287)
                      ..++.++++...+.+.+++.+++.+++...+...         .+.++++.++.++..+.
T Consensus       148 ~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~---------~i~~~~~~l~~ia~~s~  198 (239)
T d1ixsb2         148 ITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLL---------GVRITEEAALEIGRRSR  198 (239)
T ss_dssp             CSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGG---------CCCBCHHHHHHHHHHTT
T ss_pred             ccchhhcccceeeEeeccChhhhhHHHHHHHHHh---------CCccchHHHHHHHHHcC
Confidence            2345666666999999999999999987665432         56889999999998764

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.72  E-value=6.7e-18  Score=138.22  Aligned_cols=161  Identities=22%  Similarity=0.325  Sum_probs=112.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC--CCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS--KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iD   96 (287)
                      +++|+||||+|||++|+.+++.+...  ...++.+++++.............          .............++++|
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~~~~~~~~~~~----------~~~~~~~~~~~~~iilid  116 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKVKE----------FARTKPIGGASFKIIFLD  116 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHHHH----------HHHSCCGGGCSCEEEEEE
T ss_pred             eEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccchhHHHHHHHH----------HHhhhhccCCCceEEeeh
Confidence            79999999999999999999987432  234566666543322111111100          000001112345799999


Q ss_pred             CcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccC
Q 047225           97 EIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRID  176 (287)
Q Consensus        97 eid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~  176 (287)
                      |+|.+....+..|+.+++.+.           .++.+|+++|...                        .+.+++.+|+ 
T Consensus       117 e~d~~~~~~~~~ll~~l~~~~-----------~~~~~i~~~n~~~------------------------~i~~~l~sR~-  160 (231)
T d1iqpa2         117 EADALTQDAQQALRRTMEMFS-----------SNVRFILSCNYSS------------------------KIIEPIQSRC-  160 (231)
T ss_dssp             TGGGSCHHHHHHHHHHHHHTT-----------TTEEEEEEESCGG------------------------GSCHHHHHTE-
T ss_pred             hhhhcchhHHHHHhhhcccCC-----------cceEEEeccCChh------------------------hchHhHhCcc-
Confidence            999999999999999998642           2457888887653                        3457899999 


Q ss_pred             ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          177 EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       177 ~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      ..+.++|++..++.+++...+.+.         .+.+++++++.|+..+.      +++|++++
T Consensus       161 ~~i~~~~~~~~~~~~~l~~~~~~e---------~i~i~~~~l~~I~~~~~------gdiR~ai~  209 (231)
T d1iqpa2         161 AIFRFRPLRDEDIAKRLRYIAENE---------GLELTEEGLQAILYIAE------GDMRRAIN  209 (231)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTT---------TCEECHHHHHHHHHHHT------TCHHHHHH
T ss_pred             ccccccccchhhHHHHHHHHHHHh---------CCCCCHHHHHHHHHHcC------CCHHHHHH
Confidence            889999999999999997766432         46899999999998753      35555554

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.72  E-value=2.3e-17  Score=134.38  Aligned_cols=169  Identities=17%  Similarity=0.300  Sum_probs=117.9

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC--CceEEecccccccccchhhhhCCCCCCCcccchhhH
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK--EAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL   81 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (287)
                      ++++..+.+.+.|  +++|+||||||||++|+.+++.+....  ..++.+++++.........               .+
T Consensus        25 ~~L~~~~~~~~~~--~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~---------------~~   87 (224)
T d1sxjb2          25 DRLQQIAKDGNMP--HMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRN---------------QI   87 (224)
T ss_dssp             HHHHHHHHSCCCC--CEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHT---------------HH
T ss_pred             HHHHHHHHcCCCC--eEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhh---------------HH
Confidence            3444444443333  699999999999999999999884332  2345555554332111110               11


Q ss_pred             HHHHHh------CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHH
Q 047225           82 TEAVRH------RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQM  155 (287)
Q Consensus        82 ~~~~~~------~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~  155 (287)
                      ......      ..+.++++||+|.+....++.|+..++...           ....++++++...              
T Consensus        88 ~~~~~~~~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~-----------~~~~~i~~~~~~~--------------  142 (224)
T d1sxjb2          88 KHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYS-----------NSTRFAFACNQSN--------------  142 (224)
T ss_dssp             HHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTT-----------TTEEEEEEESCGG--------------
T ss_pred             HHHHHhhccCCCcceEEEEEecccccchhHHHHHhhhccccc-----------cceeeeeccCchh--------------
Confidence            111111      234699999999999999999999988632           2446777776542              


Q ss_pred             HHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhH
Q 047225          156 ERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPL  235 (287)
Q Consensus       156 ~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l  235 (287)
                                .+.+++.+|| ..+.|+||+.+++..++...+...         .+.+++++++.++..+.      +++
T Consensus       143 ----------~i~~~l~sr~-~~i~~~~~~~~~i~~~l~~i~~~e---------~~~i~~~~l~~I~~~s~------Gd~  196 (224)
T d1sxjb2         143 ----------KIIEPLQSQC-AILRYSKLSDEDVLKRLLQIIKLE---------DVKYTNDGLEAIIFTAE------GDM  196 (224)
T ss_dssp             ----------GSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHHHH---------TCCBCHHHHHHHHHHHT------TCH
T ss_pred             ----------hhhhHHHHHH-HHhhhcccchhhhHHHHHHHHHhc---------ccCCCHHHHHHHHHHcC------CcH
Confidence                      3467899999 889999999999999998877653         45789999999998864      466


Q ss_pred             HHHHH
Q 047225          236 RRAIG  240 (287)
Q Consensus       236 ~~~i~  240 (287)
                      |+++.
T Consensus       197 R~ai~  201 (224)
T d1sxjb2         197 RQAIN  201 (224)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66666

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.72  E-value=2.6e-17  Score=132.78  Aligned_cols=185  Identities=14%  Similarity=0.194  Sum_probs=127.3

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHH
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLT   82 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (287)
                      ...++..+..|+...++++|+||+|||||+|++++++.+...+..+++++..+..........-         .....+.
T Consensus        22 ~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~   92 (213)
T d1l8qa2          22 YEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKK---------GTINEFR   92 (213)
T ss_dssp             HHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHH---------TCHHHHH
T ss_pred             HHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHHHHHHHHc---------cchhhHH
Confidence            3445555566666555699999999999999999999997667778888877655331111000         0123455


Q ss_pred             HHHHhCCcEEEEEcCcccc--cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHH
Q 047225           83 EAVRHRPHSVILFDEIEKA--HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVA  160 (287)
Q Consensus        83 ~~~~~~~~~il~iDeid~~--~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~  160 (287)
                      +.+....  +++|||++.+  .+.++..|+.+++...          ..+..+|+|++.++..+.               
T Consensus        93 ~~~~~~d--ll~iDDi~~i~~~~~~~~~lf~lin~~~----------~~~~~iiits~~~p~~l~---------------  145 (213)
T d1l8qa2          93 NMYKSVD--LLLLDDVQFLSGKERTQIEFFHIFNTLY----------LLEKQIILASDRHPQKLD---------------  145 (213)
T ss_dssp             HHHHTCS--EEEEECGGGGTTCHHHHHHHHHHHHHHH----------HTTCEEEEEESSCGGGCT---------------
T ss_pred             HHHhhcc--chhhhhhhhhcCchHHHHHHHHHHHHHh----------hccceEEEecCCcchhcc---------------
Confidence            5566555  9999999987  4677888888877421          123467788877765441               


Q ss_pred             HHHHhcCChhHHhccC--ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHH
Q 047225          161 EELRRRFRPEFLNRID--EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRA  238 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~--~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~  238 (287)
                           .+.++|.+|+.  ..+.++ |+.++..++++..+.+       .  .+.++++++++|+...-    ++|++..+
T Consensus       146 -----~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a~~-------r--gl~l~~~v~~yl~~~~~----~~R~L~~~  206 (213)
T d1l8qa2         146 -----GVSDRLVSRFEGGILVEIE-LDNKTRFKIIKEKLKE-------F--NLELRKEVIDYLLENTK----NVREIEGK  206 (213)
T ss_dssp             -----TSCHHHHHHHHTSEEEECC-CCHHHHHHHHHHHHHH-------T--TCCCCHHHHHHHHHHCS----SHHHHHHH
T ss_pred             -----ccchHHHHHhhCceEEEEC-CCcHHHHHHHHHHHHH-------c--CCCCCHHHHHHHHHhcC----cHHHHHHH
Confidence                 34688999985  346675 5667888888666543       1  47899999999998631    57888888


Q ss_pred             HHHH
Q 047225          239 IGRL  242 (287)
Q Consensus       239 i~~~  242 (287)
                      ++.+
T Consensus       207 l~~l  210 (213)
T d1l8qa2         207 IKLI  210 (213)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            8754

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.70  E-value=3.7e-16  Score=129.10  Aligned_cols=186  Identities=16%  Similarity=0.202  Sum_probs=111.0

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhC---------CCCCCCc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFG---------SPPGYVG   74 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~   74 (287)
                      +.++........+ ++++|+||||||||++++++++.+..........++............+.         ......+
T Consensus        21 ~~L~~~~~~~~~~-~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   99 (252)
T d1sxje2          21 NFLKSLSDQPRDL-PHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMG   99 (252)
T ss_dssp             HHHHTTTTCTTCC-CCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECSSEEEECCC---
T ss_pred             HHHHHHHHcCCCC-CeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhccCCccceeeecccc
Confidence            3444444444333 36999999999999999999999854443333333322211100000000         0000001


Q ss_pred             ccchhhHHHH-----------------HHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEee
Q 047225           75 FENGGQLTEA-----------------VRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTS  137 (287)
Q Consensus        75 ~~~~~~~~~~-----------------~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~  137 (287)
                      ..........                 .......+++|||+|.+....++.|+..++..           ..++.||++|
T Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~-----------~~~~~~Il~t  168 (252)
T d1sxje2         100 NNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKY-----------SKNIRLIMVC  168 (252)
T ss_dssp             -CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHS-----------TTTEEEEEEE
T ss_pred             cCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccccccchhhhcccccc-----------cccccceeee
Confidence            1100001110                 01123469999999999999999999999852           1356788888


Q ss_pred             cCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhH
Q 047225          138 NIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTF  217 (287)
Q Consensus       138 n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~  217 (287)
                      |...                        .+.+++.+|| ..|.|+||+.+++.+++...+...       +..+ .++++
T Consensus       169 n~~~------------------------~i~~~l~sR~-~~i~~~~~~~~~~~~~l~~i~~~e-------~~~~-~~~~~  215 (252)
T d1sxje2         169 DSMS------------------------PIIAPIKSQC-LLIRCPAPSDSEISTILSDVVTNE-------RIQL-ETKDI  215 (252)
T ss_dssp             SCSC------------------------SSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHHHH-------TCEE-CCSHH
T ss_pred             cccc------------------------chhhhhhcch-heeeecccchhhHHHHHHHHHHHc-------CCCC-CcHHH
Confidence            8753                        3468899999 899999999999999997776542       2222 25788


Q ss_pred             HHHHHHhccCCCCCchhHHHHHH
Q 047225          218 KKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       218 ~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      ++.++..+.      +++|+++.
T Consensus       216 l~~i~~~s~------Gd~R~ai~  232 (252)
T d1sxje2         216 LKRIAQASN------GNLRVSLL  232 (252)
T ss_dssp             HHHHHHHHT------TCHHHHHH
T ss_pred             HHHHHHHcC------CcHHHHHH
Confidence            899988654      46777765

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.70  E-value=1.7e-17  Score=135.42  Aligned_cols=169  Identities=22%  Similarity=0.350  Sum_probs=116.4

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCC--ceEEecccccccccchhhhhCCCCCCCcccchhhH
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKE--AMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQL   81 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (287)
                      +.++..+.+..-|  +++|+||||+|||++++.+++.+.....  .+...+.++.........               ..
T Consensus        24 ~~L~~~i~~~~~~--~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~---------------~~   86 (227)
T d1sxjc2          24 TTVRKFVDEGKLP--HLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRN---------------QI   86 (227)
T ss_dssp             HHHHHHHHTTCCC--CEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHT---------------HH
T ss_pred             HHHHHHHHcCCCC--eEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeec---------------ch
Confidence            3444444443333  5999999999999999999999854332  223444433322111000               11


Q ss_pred             HHHH-----HhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHH
Q 047225           82 TEAV-----RHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQME  156 (287)
Q Consensus        82 ~~~~-----~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~  156 (287)
                      ....     ......+++|||+|.+....+..|++.++...           ..+++++++|...               
T Consensus        87 ~~~~~~~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~-----------~~~~~~~~~~~~~---------------  140 (227)
T d1sxjc2          87 KDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYT-----------KNTRFCVLANYAH---------------  140 (227)
T ss_dssp             HHHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTT-----------TTEEEEEEESCGG---------------
T ss_pred             hhccccccccCCCeEEEEEeccccchhhHHHHHHHHhhhcc-----------cceeeccccCcHH---------------
Confidence            1111     11234699999999999999999999998631           2557788887643               


Q ss_pred             HHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHH
Q 047225          157 RGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLR  236 (287)
Q Consensus       157 ~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~  236 (287)
                               .+.+.+.+|+ ..+.|+||+.+++.+++...+...         .+.+++++++.++..+.      +++|
T Consensus       141 ---------~i~~~i~sr~-~~i~~~~~~~~~i~~~l~~I~~~e---------~i~i~~~~l~~i~~~s~------Gd~R  195 (227)
T d1sxjc2         141 ---------KLTPALLSQC-TRFRFQPLPQEAIERRIANVLVHE---------KLKLSPNAEKALIELSN------GDMR  195 (227)
T ss_dssp             ---------GSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHHTT---------TCCBCHHHHHHHHHHHT------TCHH
T ss_pred             ---------HhHHHHHHHH-hhhccccccccccccccccccccc---------cccCCHHHHHHHHHHcC------CcHH
Confidence                     3457899999 899999999999999997766432         46799999999998864      4677


Q ss_pred             HHHH
Q 047225          237 RAIG  240 (287)
Q Consensus       237 ~~i~  240 (287)
                      ++++
T Consensus       196 ~ain  199 (227)
T d1sxjc2         196 RVLN  199 (227)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7776

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.65  E-value=1.4e-15  Score=122.02  Aligned_cols=180  Identities=11%  Similarity=0.087  Sum_probs=111.1

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceE--Eecc---cccccc--cchhhhhCCC-CCCCcc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMV--RIDM---SEYMEK--HTVSKFFGSP-PGYVGF   75 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~--~~~~---~~~~~~--~~~~~~~~~~-~~~~~~   75 (287)
                      +++...+.+..-|- .++|+||+|+|||++|+.+++.+......-.  ...|   ......  .....+.... ....+.
T Consensus        12 ~~l~~~~~~~~l~h-~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~i~~   90 (207)
T d1a5ta2          12 EKLVASYQAGRGHH-ALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGV   90 (207)
T ss_dssp             HHHHHHHHTTCCCS-EEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCH
T ss_pred             HHHHHHHHcCCcCe-EEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhccccccc
Confidence            34444444433332 5999999999999999999998843221100  0000   000000  0000010000 011111


Q ss_pred             cchhhHHHHHHh----CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCC
Q 047225           76 ENGGQLTEAVRH----RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILG  151 (287)
Q Consensus        76 ~~~~~~~~~~~~----~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~  151 (287)
                      +..+.+.+.+..    +.+.|++|||+|.+....+++|++.+|+.           ..+++||++|+...          
T Consensus        91 ~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep-----------~~~~~fIl~t~~~~----------  149 (207)
T d1a5ta2          91 DAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEP-----------PAETWFFLATREPE----------  149 (207)
T ss_dssp             HHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSC-----------CTTEEEEEEESCGG----------
T ss_pred             chhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhh-----------cccceeeeeecChh----------
Confidence            111223333222    34579999999999999999999999973           23567888887643          


Q ss_pred             chHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCC
Q 047225          152 SDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYG  231 (287)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~  231 (287)
                                    .+.+.+.||| ..+.|+|++.+++..++..              .+.+++++++.++..+.     
T Consensus       150 --------------~ll~tI~SRc-~~i~~~~~~~~~~~~~L~~--------------~~~~~~~~~~~i~~~s~-----  195 (207)
T d1a5ta2         150 --------------RLLATLRSRC-RLHYLAPPPEQYAVTWLSR--------------EVTMSQDALLAALRLSA-----  195 (207)
T ss_dssp             --------------GSCHHHHTTS-EEEECCCCCHHHHHHHHHH--------------HCCCCHHHHHHHHHHTT-----
T ss_pred             --------------hhhhhhccee-EEEecCCCCHHHHHHHHHH--------------cCCCCHHHHHHHHHHcC-----
Confidence                          3468899999 9999999999998888732              23578899999988654     


Q ss_pred             chhHHHHHH
Q 047225          232 ARPLRRAIG  240 (287)
Q Consensus       232 ~r~l~~~i~  240 (287)
                       +++++++.
T Consensus       196 -Gs~r~al~  203 (207)
T d1a5ta2         196 -GSPGAALA  203 (207)
T ss_dssp             -TCHHHHHH
T ss_pred             -CCHHHHHH
Confidence             35666554

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.64  E-value=5.5e-16  Score=128.18  Aligned_cols=170  Identities=18%  Similarity=0.168  Sum_probs=106.4

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhh----hhCCCCCCCcccchhhHHHHHHhCCcEE
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSK----FFGSPPGYVGFENGGQLTEAVRHRPHSV   92 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~i   92 (287)
                      .++++|+||||||||++|+++|+.+   +..++.+++++......+..    .+..........  .............+
T Consensus        52 ~~~lll~GPpG~GKTt~a~~la~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~v  126 (253)
T d1sxja2          52 FRAAMLYGPPGIGKTTAAHLVAQEL---GYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFK--HNEEAQNLNGKHFV  126 (253)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHT---TCEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTT--C----CCSSTTSEE
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHH---HhhhhccccccchhhHHHHHHHHHHhhcchhhhhhh--hhhhcccccccceE
Confidence            3479999999999999999999998   67788888876554322211    111110000000  00011112234579


Q ss_pred             EEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHH
Q 047225           93 ILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFL  172 (287)
Q Consensus        93 l~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  172 (287)
                      +++||++.+....+..+..+++....          ....+++++|.....                       ....+.
T Consensus       127 i~ide~~~~~~~~~~~~~~~~~~~~~----------~~~~ii~i~~~~~~~-----------------------~~~~l~  173 (253)
T d1sxja2         127 IIMDEVDGMSGGDRGGVGQLAQFCRK----------TSTPLILICNERNLP-----------------------KMRPFD  173 (253)
T ss_dssp             EEECSGGGCCTTSTTHHHHHHHHHHH----------CSSCEEEEESCTTSS-----------------------TTGGGT
T ss_pred             EEeeeccccccchhhhhHHHhhhhcc----------ccccccccccccccc-----------------------cccccc
Confidence            99999999887766666655543110          111244444432211                       123455


Q ss_pred             hccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCchhHHHHHH
Q 047225          173 NRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIG  240 (287)
Q Consensus       173 ~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~  240 (287)
                      +|+ ..+.|++|+.+++..++...+.+.         .+.+++++++.|+..+.      .++|++++
T Consensus       174 ~~~-~~i~f~~~~~~~i~~~l~~i~~~e---------~i~i~~~~l~~i~~~s~------GDiR~ai~  225 (253)
T d1sxja2         174 RVC-LDIQFRRPDANSIKSRLMTIAIRE---------KFKLDPNVIDRLIQTTR------GDIRQVIN  225 (253)
T ss_dssp             TTS-EEEECCCCCHHHHHHHHHHHHHHH---------TCCCCTTHHHHHHHHTT------TCHHHHHH
T ss_pred             cee-eeeeccccchhHHHHHHHHHHHHh---------CCCCCHHHHHHHHHhCC------CcHHHHHH
Confidence            555 899999999999999998777542         35789999999998753      47777766

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=99.63  E-value=1.1e-15  Score=131.58  Aligned_cols=79  Identities=13%  Similarity=0.295  Sum_probs=66.5

Q ss_pred             HHHhCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCC-Cceeecc-ceEEEEeecCCchhhhhhccCCchHHHHHHHH
Q 047225           84 AVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGK-GQTVDLK-NTIIIMTSNIGDSVIARESILGSDQMERGVAE  161 (287)
Q Consensus        84 ~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~-g~~i~~~-~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~  161 (287)
                      .+...+++|+|+||++++++.+++.|++.|+++.+.... |..+.++ ++++++|+|+...                   
T Consensus       122 ~l~~A~~gvl~iDEi~~~~~~~~~aLl~~me~~~v~i~r~g~~~~~p~~f~liaa~Np~~~-------------------  182 (333)
T d1g8pa_         122 LLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEG-------------------  182 (333)
T ss_dssp             HHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSC-------------------
T ss_pred             ccccccccEeecccHHHHHHHHHHHHhhhhcCCeEEecccCceecCCCCEEEEEecCcccc-------------------
Confidence            344446689999999999999999999999999988864 7777776 7899999999754                   


Q ss_pred             HHHhcCChhHHhccCceEEeCCCC
Q 047225          162 ELRRRFRPEFLNRIDEVIVFRQLN  185 (287)
Q Consensus       162 ~~~~~~~~~l~~r~~~~i~~~~~~  185 (287)
                          .+++++++||+..+.++++.
T Consensus       183 ----~l~~~llDRf~~~i~v~~~~  202 (333)
T d1g8pa_         183 ----DLRPQLLDRFGLSVEVLSPR  202 (333)
T ss_dssp             ----CCCHHHHTTCSEEEECCCCC
T ss_pred             ----ccccchhhhhcceeeccCcc
Confidence                46889999999888888775

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.62  E-value=1.6e-15  Score=124.87  Aligned_cols=135  Identities=26%  Similarity=0.355  Sum_probs=87.5

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILF   95 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~i   95 (287)
                      |...++|+||||||||++|+++|+.+   +.+++.+++++........         ........+++.+....++||||
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~~~---~~~~~~i~~~~~~~g~~~~---------~~~~~i~~if~~A~~~~p~il~i  106 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAEES---NFPFIKICSPDKMIGFSET---------AKCQAMKKIFDDAYKSQLSCVVV  106 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHHH---TCSEEEEECGGGCTTCCHH---------HHHHHHHHHHHHHHTSSEEEEEE
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhhcc---ccccccccccccccccccc---------chhhhhhhhhhhhhhcccceeeh
Confidence            44579999999999999999999998   7888888876432110000         00011234566666677799999


Q ss_pred             cCcccc----------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHh
Q 047225           96 DEIEKA----------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRR  165 (287)
Q Consensus        96 Deid~~----------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (287)
                      ||+|.+          ...+...|+.+++.....   +     .+++||+|||.+..                ++     
T Consensus       107 DEid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~---~-----~~v~vi~tTn~~~~----------------ld-----  157 (246)
T d1d2na_         107 DDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQ---G-----RKLLIIGTTSRKDV----------------LQ-----  157 (246)
T ss_dssp             CCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCST---T-----CEEEEEEEESCHHH----------------HH-----
T ss_pred             hhhhhHhhhcccccchhHHHHHHHHHHhcCCCcc---c-----cceeeeeccCChhh----------------cc-----
Confidence            999864          345667777777753211   1     24578889986421                10     


Q ss_pred             cCChhHHhccCceEEeCCCC-HHHHHHHH
Q 047225          166 RFRPEFLNRIDEVIVFRQLN-KMQLMEIV  193 (287)
Q Consensus       166 ~~~~~l~~r~~~~i~~~~~~-~~~~~~il  193 (287)
                        .+.+.+||+..+.+|.++ .+++.+++
T Consensus       158 --~~~~~~rF~~~i~~P~~~~r~~il~~l  184 (246)
T d1d2na_         158 --EMEMLNAFSTTIHVPNIATGEQLLEAL  184 (246)
T ss_dssp             --HTTCTTTSSEEEECCCEEEHHHHHHHH
T ss_pred             --chhhcCccceEEecCCchhHHHHHHHH
Confidence              124668998889997776 44444444

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.61  E-value=4.6e-15  Score=122.63  Aligned_cols=201  Identities=18%  Similarity=0.249  Sum_probs=129.0

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCC-------CCceEEecccccccccchhhhhCCCCCCCcc
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGS-------KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGF   75 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   75 (287)
                      ++++-..+....+  +|++|+||||+|||++++.+|..+...       +..++.++++.....          .++.|-
T Consensus        27 i~~l~~iL~r~~k--~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag----------~~~~g~   94 (268)
T d1r6bx2          27 LERAIQVLCRRRK--NNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAG----------TKYRGD   94 (268)
T ss_dssp             HHHHHHHHTSSSS--CEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CC----------CCCSSC
T ss_pred             HHHHHHHHhcCcc--CCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhcc----------Cccchh
Confidence            3444444444333  379999999999999999999987321       234555555544321          122222


Q ss_pred             cch--hhHHHHHHhCCcEEEEEcCcccc---------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhh
Q 047225           76 ENG--GQLTEAVRHRPHSVILFDEIEKA---------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVI  144 (287)
Q Consensus        76 ~~~--~~~~~~~~~~~~~il~iDeid~~---------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~  144 (287)
                      .+.  ..+.+.+...+..|+||||++.+         ..++-+.|.+++..|             ++.+|++|.+...  
T Consensus        95 ~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg-------------~i~vIgatT~eey--  159 (268)
T d1r6bx2          95 FEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG-------------KIRVIGSTTYQEF--  159 (268)
T ss_dssp             HHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSC-------------CCEEEEEECHHHH--
T ss_pred             HHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCC-------------CCeEEEeCCHHHH--
Confidence            221  23455666677789999999966         245677788888875             4458888876321  


Q ss_pred             hhhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHh
Q 047225          145 ARESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEE  224 (287)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~  224 (287)
                                     ....  .-.++|.+|| ..|.+.+|+.++...|+......+....     .+.++++++..++..
T Consensus       160 ---------------~~~~--e~d~al~rrF-~~I~V~Eps~e~t~~IL~~~~~~~e~~h-----~v~~~~~al~~~v~l  216 (268)
T d1r6bx2         160 ---------------SNIF--EKDRALARRF-QKIDITEPSIEETVQIINGLKPKYEAHH-----DVRYTAKAVRAAVEL  216 (268)
T ss_dssp             ---------------HCCC--CCTTSSGGGE-EEEECCCCCHHHHHHHHHHHHHHHHHHH-----TCCCCHHHHHHHHHH
T ss_pred             ---------------HHHH--hhcHHHHhhh-cccccCCCCHHHHHHHHHHhhHHHhccC-----CEEeChHHHHHHHHH
Confidence                           1100  1257899999 9999999999999999988776665544     478999999999876


Q ss_pred             ccCCCCCchhHHHHHHHHHHHHHHHHHHhc
Q 047225          225 GYNPSYGARPLRRAIGRLLEDNLAEIILTG  254 (287)
Q Consensus       225 ~~~~~~~~r~l~~~i~~~~~~~~~~~~~~~  254 (287)
                      +..+--+..-..++++ ++..+.+.+....
T Consensus       217 s~ryi~~~~~PdKAId-llDea~a~~~~~~  245 (268)
T d1r6bx2         217 AVKYINDRHLPDKAID-VIDEAGARARLMP  245 (268)
T ss_dssp             HHHHCTTSCTTHHHHH-HHHHHHHHHHHSS
T ss_pred             HHhhccCCCCCcHHHH-HHHHHHHHHHhhc
Confidence            4322112122334555 7777766665543

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=99.58  E-value=9.1e-14  Score=116.02  Aligned_cols=206  Identities=13%  Similarity=0.044  Sum_probs=115.5

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHhcC------CCCceEEecccccccccc----hhhhhCCCCCCCcccch---h
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEYFG------SKEAMVRIDMSEYMEKHT----VSKFFGSPPGYVGFENG---G   79 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l~~------~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~---~   79 (287)
                      ++.+..+++|+||||||||++++++++.+..      ......++++........    .....+......+....   .
T Consensus        42 ~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (287)
T d1w5sa2          42 LSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILK  121 (287)
T ss_dssp             BCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHH
T ss_pred             CCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchhhHHHHHhhhcccccccccchHHHHHH
Confidence            4444445778999999999999999998721      123445566555433311    11222222222222221   1


Q ss_pred             hHHHHHH-hCCcEEEEEcCcccc------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCc
Q 047225           80 QLTEAVR-HRPHSVILFDEIEKA------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGS  152 (287)
Q Consensus        80 ~~~~~~~-~~~~~il~iDeid~~------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~  152 (287)
                      .+..... .....++++||+|.+      ..+....+..+++.-.-.      .......+|+.++....          
T Consensus       122 ~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~------~~~~~~~~i~i~~~~~~----------  185 (287)
T d1w5sa2         122 ALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSR------DGVNRIGFLLVASDVRA----------  185 (287)
T ss_dssp             HHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCT------TSCCBEEEEEEEEETHH----------
T ss_pred             HHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchh------hcccceeEEeecccHHH----------
Confidence            2233333 345568899999965      334555555555421100      11124455655553211          


Q ss_pred             hHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhccCCCCCc
Q 047225          153 DQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGA  232 (287)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~  232 (287)
                         .+.+.     ...+.+.+|++..+.|+|++.+++.+|+...++..       .....+++++++.+++.+.......
T Consensus       186 ---~~~~~-----~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~-------~~~~~~~~~al~~ia~~~~~~~~~~  250 (287)
T d1w5sa2         186 ---LSYMR-----EKIPQVESQIGFKLHLPAYKSRELYTILEQRAELG-------LRDTVWEPRHLELISDVYGEDKGGD  250 (287)
T ss_dssp             ---HHHHH-----HHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHH-------BCTTSCCHHHHHHHHHHHCGGGTSC
T ss_pred             ---HHHHH-----hhccchhcccceeeeccCCcHHHHHHHHhhhHHHh-------hccCCCCHHHHHHHHHHHhccccCC
Confidence               11111     12467889998999999999999999997766432       1123579999999998754332222


Q ss_pred             hhHHHHHHHHHHHHHHHH
Q 047225          233 RPLRRAIGRLLEDNLAEI  250 (287)
Q Consensus       233 r~l~~~i~~~~~~~~~~~  250 (287)
                      +++|++++ ++..+...+
T Consensus       251 gd~R~ai~-~l~~a~~~A  267 (287)
T d1w5sa2         251 GSARRAIV-ALKMACEMA  267 (287)
T ss_dssp             CCHHHHHH-HHHHHHHHH
T ss_pred             CCHHHHHH-HHHHHHHHH
Confidence            45665554 444444333

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=99.58  E-value=2.4e-14  Score=118.94  Aligned_cols=181  Identities=17%  Similarity=0.176  Sum_probs=113.9

Q ss_pred             CCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcC-CCCceEEecccccccccch----hhhhCCCCCCCcccc---hhhH
Q 047225           10 IRDPNRPISSFLFTGPTGVGKTELANALAFEYFG-SKEAMVRIDMSEYMEKHTV----SKFFGSPPGYVGFEN---GGQL   81 (287)
Q Consensus        10 ~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~-~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~---~~~~   81 (287)
                      +.+|+.+.++++|+||||||||++++.+++.+.. ....++.+++.........    ....+......+...   ...+
T Consensus        36 l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (276)
T d1fnna2          36 LRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALL  115 (276)
T ss_dssp             HHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHH
T ss_pred             HhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhhhhhhhHHhhhhhhhhhccchhHHHHHH
Confidence            3445555568999999999999999999999843 2355666666554433211    111222222222211   1122


Q ss_pred             HHHHH-hCCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHH
Q 047225           82 TEAVR-HRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVA  160 (287)
Q Consensus        82 ~~~~~-~~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~  160 (287)
                      .+.+. .....+.++|++|.........+..++......       ......+|++++....                  
T Consensus       116 ~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~-------~~~~~~~i~~~~~~~~------------------  170 (276)
T d1fnna2         116 VEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKL-------GAFRIALVIVGHNDAV------------------  170 (276)
T ss_dssp             HHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHH-------SSCCEEEEEEESSTHH------------------
T ss_pred             HHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccc-------cccceEEeecCCchhh------------------
Confidence            23332 344578899999999888877777766542211       1134567777775422                  


Q ss_pred             HHHHhcCChhHHhccC-ceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          161 EELRRRFRPEFLNRID-EVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       161 ~~~~~~~~~~l~~r~~-~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                         ...+.+.+.+|+. ..+.|+|++.+++.+|+...+...       +....+++++++.++..+
T Consensus       171 ---~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~~~-------~~~~~~~~~~l~~ia~~~  226 (276)
T d1fnna2         171 ---LNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAG-------LAEGSYSEDILQMIADIT  226 (276)
T ss_dssp             ---HHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHH-------BCTTSSCHHHHHHHHHHH
T ss_pred             ---hhhcchhhhhhhcchhccccchhHHHHHHHHHHHHHHh-------cccccccHHHHHHHHHHh
Confidence               1245677888764 459999999999999998776532       112347899999998753

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=99.50  E-value=7.3e-14  Score=121.55  Aligned_cols=199  Identities=15%  Similarity=0.195  Sum_probs=118.5

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCC-------CCceEEecccccccccchhhhhCCCCCCCccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGS-------KEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE   76 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   76 (287)
                      +++...+....+  +|++|+||||+|||+++..||..+...       +..++.++++......          ++.|-.
T Consensus        32 ~~~~~~L~r~~k--~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~----------~~~g~~   99 (387)
T d1qvra2          32 RRVIQILLRRTK--NNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGA----------KYRGEF   99 (387)
T ss_dssp             HHHHHHHHCSSC--CCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------------------CH
T ss_pred             HHHHHHHhcCCC--CCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhccc----------CcchhH
Confidence            344444433333  258899999999999999999887322       3456677776555321          122222


Q ss_pred             ch--hhHHHHHHhC-CcEEEEEcCcccc--------cHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhh
Q 047225           77 NG--GQLTEAVRHR-PHSVILFDEIEKA--------HRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIA  145 (287)
Q Consensus        77 ~~--~~~~~~~~~~-~~~il~iDeid~~--------~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~  145 (287)
                      +.  ..+...+... +..||||||++.+        ..++-+.|.+++..|.             +.+|++|.+.     
T Consensus       100 e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg~-------------~~~I~~tT~~-----  161 (387)
T d1qvra2         100 EERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGE-------------LRLIGATTLD-----  161 (387)
T ss_dssp             HHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTTC-------------CCEEEEECHH-----
T ss_pred             HHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCCC-------------cceeeecCHH-----
Confidence            11  1233344333 4568999999966        2356678899998864             3477777652     


Q ss_pred             hhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCcEEEeChhHHHHHHHhc
Q 047225          146 RESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEG  225 (287)
Q Consensus       146 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~~i~~~~~~~l~~~~  225 (287)
                                  ++.. +++  .++|.+|| +.|.+.+|+.++...|+......+..+.     .+.++++++..++..+
T Consensus       162 ------------ey~~-~e~--d~al~rrF-~~v~v~ep~~~~~~~il~~~~~~~e~~h-----~v~~~~~ai~~~v~ls  220 (387)
T d1qvra2         162 ------------EYRE-IEK--DPALERRF-QPVYVDEPTVEETISILRGLKEKYEVHH-----GVRISDSAIIAAATLS  220 (387)
T ss_dssp             ------------HHHH-HTT--CTTTCSCC-CCEEECCCCHHHHHHHHHHHHHHHHHHT-----TCEECHHHHHHHHHHH
T ss_pred             ------------HHHH-hcc--cHHHHHhc-ccccCCCCcHHHHHHHHHHHHHHHHhcc-----CCcccHHHHHHHHHhc
Confidence                        3322 222  68999999 9999999999999999987776665543     5799999999998764


Q ss_pred             cCCCCCchhHHHHHHHHHHHHHHHHHHhc
Q 047225          226 YNPSYGARPLRRAIGRLLEDNLAEIILTG  254 (287)
Q Consensus       226 ~~~~~~~r~l~~~i~~~~~~~~~~~~~~~  254 (287)
                      ..+ ...|.+....-+++..+.++.-+..
T Consensus       221 ~ry-i~~r~~PdKAidlld~a~a~~~i~~  248 (387)
T d1qvra2         221 HRY-ITERRLPDKAIDLIDEAAARLRMAL  248 (387)
T ss_dssp             HHH-CCSSCTHHHHHHHHHHHHHHHHHTT
T ss_pred             ccc-cccccChhhHHHHHHHHHHHHHhhc
Confidence            322 2225555555557777766665443

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.44  E-value=1.6e-13  Score=107.40  Aligned_cols=145  Identities=14%  Similarity=0.231  Sum_probs=94.2

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcC-------CCCceEEecccccccccchhhhhCCCCCCCccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFG-------SKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFE   76 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   76 (287)
                      +++...+....+  +|++|+||||+|||+++..+|..+..       .+..++.++++.......          +.|-.
T Consensus        32 ~~l~~iL~r~~k--~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~----------~rG~~   99 (195)
T d1jbka_          32 RRTIQVLQRRTK--NNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAK----------YRGEF   99 (195)
T ss_dssp             HHHHHHHTSSSS--CEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTC----------SHHHH
T ss_pred             HHHHHHHhccCC--CCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCC----------ccHHH
Confidence            344444444443  37999999999999999999998732       235667777765543211          11111


Q ss_pred             c--hhhHHHHHH-hCCcEEEEEcCccccc--------HHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhh
Q 047225           77 N--GGQLTEAVR-HRPHSVILFDEIEKAH--------RDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIA  145 (287)
Q Consensus        77 ~--~~~~~~~~~-~~~~~il~iDeid~~~--------~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~  145 (287)
                      +  ...+.+.+. ..+..|+||||++.+-        .++-+.|.+.+..|.             ..+|++|.+.     
T Consensus       100 E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~rg~-------------l~~IgatT~e-----  161 (195)
T d1jbka_         100 EERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARGE-------------LHCVGATTLD-----  161 (195)
T ss_dssp             HHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHTTS-------------CCEEEEECHH-----
T ss_pred             HHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhCCC-------------ceEEecCCHH-----
Confidence            1  112344443 3445799999999662        135578888998764             4478877653     


Q ss_pred             hhccCCchHHHHHHHHHHHhcCChhHHhccCceEEeCCCCHHHHHHHH
Q 047225          146 RESILGSDQMERGVAEELRRRFRPEFLNRIDEVIVFRQLNKMQLMEIV  193 (287)
Q Consensus       146 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~~~~i~~~~~~~~~~~~il  193 (287)
                                  ++....+  -+++|.+|| ..|.+.+|+.++...|+
T Consensus       162 ------------ey~~~~e--~d~aL~rrF-~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         162 ------------EYRQYIE--KDAALERRF-QKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             ------------HHHHHTT--TCHHHHTTE-EEEECCCCCHHHHHTTC
T ss_pred             ------------HHHHHHH--cCHHHHhcC-CEeecCCCCHHHHHHHh
Confidence                        2222222  268999999 99999999999987765

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.44  E-value=1.5e-12  Score=103.12  Aligned_cols=127  Identities=13%  Similarity=0.197  Sum_probs=88.2

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcC---CCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHh----CCc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFG---SKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRH----RPH   90 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~   90 (287)
                      .+++|+||+|+|||++|..+++.+..   .+..++.+....-               ..+.+..+.+.+.+..    +.+
T Consensus        16 ~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~---------------~I~Id~IR~i~~~~~~~~~~~~~   80 (198)
T d2gnoa2          16 ISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGE---------------NIGIDDIRTIKDFLNYSPELYTR   80 (198)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSS---------------CBCHHHHHHHHHHHTSCCSSSSS
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcC---------------CCCHHHHHHHHHHHhhCcccCCC
Confidence            37999999999999999999987732   2234555554210               0122222344444444    345


Q ss_pred             EEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChh
Q 047225           91 SVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPE  170 (287)
Q Consensus        91 ~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (287)
                      .|++|||+|++....+++|++.+|+.           ..+++||++|+...                        .+.|.
T Consensus        81 KviIId~ad~l~~~aqNaLLK~LEEP-----------p~~t~fiLit~~~~------------------------~ll~T  125 (198)
T d2gnoa2          81 KYVIVHDCERMTQQAANAFLKALEEP-----------PEYAVIVLNTRRWH------------------------YLLPT  125 (198)
T ss_dssp             EEEEETTGGGBCHHHHHHTHHHHHSC-----------CTTEEEEEEESCGG------------------------GSCHH
T ss_pred             EEEEEeCccccchhhhhHHHHHHhCC-----------CCCceeeeccCChh------------------------hCHHH
Confidence            79999999999999999999999973           23667888887643                        35689


Q ss_pred             HHhccCceEEeCCCCHHHHHHHHHHHH
Q 047225          171 FLNRIDEVIVFRQLNKMQLMEIVDIML  197 (287)
Q Consensus       171 l~~r~~~~i~~~~~~~~~~~~il~~~l  197 (287)
                      +.||| ..+.|++|+.  ...++...+
T Consensus       126 I~SRC-~~i~~~~p~~--~~~~~~~~~  149 (198)
T d2gnoa2         126 IKSRV-FRVVVNVPKE--FRDLVKEKI  149 (198)
T ss_dssp             HHTTS-EEEECCCCHH--HHHHHHHHH
T ss_pred             Hhcce-EEEeCCCchH--HHHHHHHHH
Confidence            99999 9999987753  344444333

>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=99.41  E-value=2e-13  Score=115.28  Aligned_cols=136  Identities=15%  Similarity=0.145  Sum_probs=86.8

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccc--hhhHHHHHHhCCcEEE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFEN--GGQLTEAVRHRPHSVI   93 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~il   93 (287)
                      |.++++|+||||||||.+|++||..+.. ..+++.++.+++...            |.|-.+  ...+++.++..  +||
T Consensus       122 ~~g~~l~~G~pG~GKT~la~ala~~~~~-~~~~~~~~~~~~~~~------------~~G~~e~~~~~~f~~a~~~--~il  186 (321)
T d1w44a_         122 ASGMVIVTGKGNSGKTPLVHALGEALGG-KDKYATVRFGEPLSG------------YNTDFNVFVDDIARAMLQH--RVI  186 (321)
T ss_dssp             ESEEEEEECSSSSCHHHHHHHHHHHHHT-TSCCEEEEBSCSSTT------------CBCCHHHHHHHHHHHHHHC--SEE
T ss_pred             CCceEEEECCCCccHHHHHHHHHHHhcC-CCCeEEEEhhHhhhc------------ccchHHHHHHHHHHHHhhc--cEE
Confidence            4567888999999999999999999843 356777877765532            222221  23455555553  599


Q ss_pred             EEcCcccccHH------------HHHHHHHhhcCceeecCCCceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHH
Q 047225           94 LFDEIEKAHRD------------VLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAE  161 (287)
Q Consensus        94 ~iDeid~~~~~------------~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~  161 (287)
                      ||||+|.+...            +++.|+.-|+.-         -...+++||++||+....             ..+. 
T Consensus       187 f~DEid~~~~~r~~~~~~~~~~r~v~~lL~e~dg~---------~~~~~v~viaatN~~~~~-------------~~i~-  243 (321)
T d1w44a_         187 VIDSLKNVIGAAGGNTTSGGISRGAFDLLSDIGAM---------AASRGCVVIASLNPTSND-------------DKIV-  243 (321)
T ss_dssp             EEECCTTTC-----------CCHHHHHHHHHHHHH---------HHHHTCEEEEECCCCCCC-------------HHHH-
T ss_pred             EeehhhhhccccccCCCCCcchhhhhhhhhhcccc---------ccCCCeEEEEeCCCcccc-------------cchh-
Confidence            99999976432            333344333310         011367899999974210             0111 


Q ss_pred             HHHhcCChhH--HhccCceEEeCCCCHHHHHHHHHHH
Q 047225          162 ELRRRFRPEF--LNRIDEVIVFRQLNKMQLMEIVDIM  196 (287)
Q Consensus       162 ~~~~~~~~~l--~~r~~~~i~~~~~~~~~~~~il~~~  196 (287)
                             +++  .+||+..+.+++|+.++..+|+...
T Consensus       244 -------~~~~r~~Rf~~~v~v~~pd~~~r~~il~~~  273 (321)
T d1w44a_         244 -------ELVKEASRSNSTSLVISTDVDGEWQVLTRT  273 (321)
T ss_dssp             -------HHHHHHHHHSCSEEEEECSSTTEEEEEEEC
T ss_pred             -------hhhhccCcccceeecCCCChHHHHHHHHHh
Confidence                   111  2789899999999999988888443

>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=98.86  E-value=3.4e-09  Score=91.02  Aligned_cols=37  Identities=30%  Similarity=0.355  Sum_probs=32.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME   58 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~   58 (287)
                      .++|+||||||||++|+++++.+   +.+++.+++++...
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~~~~---~~~~i~in~s~~rs  192 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALLELC---GGKALNVNLPLDRL  192 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH---CCEEECCSSCTTTH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHc---CCCEEEEECcchhh
Confidence            69999999999999999999999   67888888876543

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=98.66  E-value=7.8e-09  Score=84.99  Aligned_cols=52  Identities=31%  Similarity=0.473  Sum_probs=43.7

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME   58 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~   58 (287)
                      ++.+..+...+..|. .++|+||||||||++|++||..+   +..++.++++++..
T Consensus        19 ~~~~~~~~~~~~~P~-~ilL~GpPGtGKT~la~~la~~~---~~~~~~i~~d~~~~   70 (273)
T d1gvnb_          19 LEELIQGKKAVESPT-AFLLGGQPGSGKTSLRSAIFEET---QGNVIVIDNDTFKQ   70 (273)
T ss_dssp             HHHHHTTCCCCSSCE-EEEEECCTTSCTHHHHHHHHHHT---TTCCEEECTHHHHT
T ss_pred             HHHHHhcccCCCCCE-EEEEECCCCCCHHHHHHHHHHHh---hcceEEEecHHHHH
Confidence            556677778888888 49999999999999999999999   56788888877654

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.43  E-value=3.3e-07  Score=70.03  Aligned_cols=25  Identities=32%  Similarity=0.446  Sum_probs=22.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      .++|+||+|+|||||++.++..+..
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCC
Confidence            4899999999999999999998843

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=98.39  E-value=2.2e-07  Score=71.84  Aligned_cols=115  Identities=23%  Similarity=0.309  Sum_probs=69.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+|||+||||+++.+|.+.+.+   .++.+.-+.   ..                  -.+... ...  .++++||+
T Consensus        55 ~i~~~GP~~TGKS~f~~sl~~~l~G---~vis~~N~~---s~------------------F~Lq~l-~~~--kv~l~dD~  107 (205)
T d1tuea_          55 CLVFCGPANTGKSYFGMSFIHFIQG---AVISFVNST---SH------------------FWLEPL-TDT--KVAMLDDA  107 (205)
T ss_dssp             EEEEESCGGGCHHHHHHHHHHHHTC---EECCCCCSS---SC------------------GGGGGG-TTC--SSEEEEEE
T ss_pred             EEEEECCCCccHHHHHHHHHHHhCC---EEEeccCCC---CC------------------cccccc-cCC--eEEEEecc
Confidence            6999999999999999999999843   221111000   00                  011111 122  38999999


Q ss_pred             ccccHHHHHH-HHHhhcCceeecCC--CceeeccceEEEEeecCCchhhhhhccCCchHHHHHHHHHHHhcCChhHHhcc
Q 047225           99 EKAHRDVLNV-MLQLLDDGRVTDGK--GQTVDLKNTIIIMTSNIGDSVIARESILGSDQMERGVAEELRRRFRPEFLNRI  175 (287)
Q Consensus        99 d~~~~~~~~~-L~~~l~~~~~~~~~--g~~i~~~~~~iI~t~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~r~  175 (287)
                      ....-...+. ++.+++...+....  ...+...-..+|+|+|.......                     -...|.+|+
T Consensus       108 t~~~~~~~d~~lK~ll~G~~vsvd~KhK~~vqi~~pPliITsN~~~~~~d---------------------~~~~L~sRi  166 (205)
T d1tuea_         108 TTTCWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDN---------------------RWPYLESRI  166 (205)
T ss_dssp             CHHHHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSS---------------------SCHHHHTSC
T ss_pred             ccchHHHHHHHHHhccCCCeeeeecccCCcccccCCCEEEEcCCCCCccc---------------------cchhhhheE
Confidence            8776666665 56677754444331  22333333457889998654321                     125788999


Q ss_pred             CceEEeC
Q 047225          176 DEVIVFR  182 (287)
Q Consensus       176 ~~~i~~~  182 (287)
                       ..++|+
T Consensus       167 -~~f~F~  172 (205)
T d1tuea_         167 -TVFEFP  172 (205)
T ss_dssp             -EEEECC
T ss_pred             -EEEECC
Confidence             888887

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.27  E-value=1.4e-06  Score=70.95  Aligned_cols=33  Identities=18%  Similarity=0.206  Sum_probs=26.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      +++++||+|+|||++++.+++..   +.....+++.
T Consensus        31 ~i~i~G~~G~GKTsLl~~~~~~~---~~~~~~i~~~   63 (283)
T d2fnaa2          31 ITLVLGLRRTGKSSIIKIGINEL---NLPYIYLDLR   63 (283)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH---TCCEEEEEGG
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHC---CCCeEEEEec
Confidence            69999999999999999999888   4455555543

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=98.10  E-value=7.7e-07  Score=66.58  Aligned_cols=28  Identities=25%  Similarity=0.544  Sum_probs=24.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMV   49 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~   49 (287)
                      +|+|+|||||||||+++.||+.+   +.+++
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L---~~~~i   31 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQL---NMEFY   31 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHT---TCEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh---CCCeE
Confidence            48999999999999999999998   55554

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=98.07  E-value=8.2e-07  Score=67.16  Aligned_cols=28  Identities=39%  Similarity=0.551  Sum_probs=24.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMV   49 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~   49 (287)
                      +++|+|||||||||+++.|++.+   +.+++
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l---~~~~i   33 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKS---GLKYI   33 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHH---CCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH---CCcEE
Confidence            58999999999999999999998   55554

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=98.04  E-value=1.5e-05  Score=62.30  Aligned_cols=98  Identities=16%  Similarity=0.267  Sum_probs=58.2

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc-----cchhhhhCCCCC--CCcccchhhHHH---H
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK-----HTVSKFFGSPPG--YVGFENGGQLTE---A   84 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~--~~~~~~~~~~~~---~   84 (287)
                      +|. .++|+||+|+||||++-.||..+...+..+..+.+..|...     ....+.++-+.-  ..+.+....+.+   .
T Consensus         8 ~p~-vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~~~~   86 (211)
T d2qy9a2           8 APF-VILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQA   86 (211)
T ss_dssp             TTE-EEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHHHHH
T ss_pred             CCE-EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHHHHH
Confidence            344 79999999999999888888888666677777777766542     122333332211  111111111222   2


Q ss_pred             HHhCCcEEEEEcCcccccHH--HHHHHHHhh
Q 047225           85 VRHRPHSVILFDEIEKAHRD--VLNVMLQLL  113 (287)
Q Consensus        85 ~~~~~~~il~iDeid~~~~~--~~~~L~~~l  113 (287)
                      .......+++||=.-+.+.+  ..+.|.++.
T Consensus        87 a~~~~~d~ilIDTaGr~~~d~~~~~el~~l~  117 (211)
T d2qy9a2          87 AKARNIDVLIADTAGRLQNKSHLMEELKKIV  117 (211)
T ss_dssp             HHHTTCSEEEECCCCCGGGHHHHHHHHHHHH
T ss_pred             HHHcCCCEEEeccCCCccccHHHHHHHHHHH
Confidence            23345679999998876543  444554443

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=98.04  E-value=1.2e-06  Score=66.94  Aligned_cols=32  Identities=22%  Similarity=0.189  Sum_probs=26.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      .|+|.|||||||||+|+.|++.+   +.+++..+.
T Consensus         9 ~I~i~G~~GsGKTTla~~La~~~---~~~~i~~~~   40 (192)
T d1lw7a2           9 TVAILGGESSGKSVLVNKLAAVF---NTTSAWEYG   40 (192)
T ss_dssp             EEEEECCTTSHHHHHHHHHHHHT---TCEEECCTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh---CCCeEeeeh
Confidence            59999999999999999999998   455544333

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=98.03  E-value=1.4e-05  Score=62.49  Aligned_cols=91  Identities=16%  Similarity=0.178  Sum_probs=47.8

Q ss_pred             CCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc-----cchhhhhCCCCC--CCcccchhhHHH-
Q 047225           12 DPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK-----HTVSKFFGSPPG--YVGFENGGQLTE-   83 (287)
Q Consensus        12 ~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~--~~~~~~~~~~~~-   83 (287)
                      .|.+.-..++|+||+|+||||++-.||..+...+.++..+++..+.-.     .......+-+..  ....+....+.+ 
T Consensus         7 ~~~k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~a   86 (211)
T d1j8yf2           7 IPDKIPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRG   86 (211)
T ss_dssp             SCSSSSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHH
T ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeeccccchhHHHHHhccccCcceeecccchhhhHHHHHH
Confidence            344443479999999999999888888877555566666666554432     122334443211  111111111222 


Q ss_pred             --HHHhCCcEEEEEcCccccc
Q 047225           84 --AVRHRPHSVILFDEIEKAH  102 (287)
Q Consensus        84 --~~~~~~~~il~iDeid~~~  102 (287)
                        ........+++||=.-+.+
T Consensus        87 ~~~~~~~~~d~IlIDTaGr~~  107 (211)
T d1j8yf2          87 VEKFLSEKMEIIIVDTAGRHG  107 (211)
T ss_dssp             HHHHHHTTCSEEEEECCCSCC
T ss_pred             HHHhhccCCceEEEecCCcCc
Confidence              2223555799999887653

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.99  E-value=1.6e-06  Score=66.12  Aligned_cols=36  Identities=28%  Similarity=0.308  Sum_probs=28.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      +++|+||||||||++++.++..+...+.....+.|.
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~~l~~~~~~v~~~~~~   38 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASEVLKSSGVPVDGFYTE   38 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHHHTTCCCEEEECC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEec
Confidence            699999999999999999999985555545444443

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=97.97  E-value=5.3e-05  Score=61.93  Aligned_cols=25  Identities=20%  Similarity=0.263  Sum_probs=21.9

Q ss_pred             cEEEEEeccCCChHHHHHHHHHHHh
Q 047225           17 ISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        17 ~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ...+.++|..|+|||++|+.+.+..
T Consensus        44 ~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          44 SFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhh
Confidence            3478999999999999999998764

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=97.94  E-value=2.7e-05  Score=60.70  Aligned_cols=98  Identities=17%  Similarity=0.238  Sum_probs=57.4

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc-----cchhhhhCCCC--CCCcccchhhHHH---H
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK-----HTVSKFFGSPP--GYVGFENGGQLTE---A   84 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~--~~~~~~~~~~~~~---~   84 (287)
                      +|. .++|+||+|+||||++-.||..+...+.++..+++..|...     ....+.++-+.  ...+.+....+.+   .
T Consensus         5 ~~~-vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~~~~   83 (207)
T d1okkd2           5 KGR-VVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDAVQA   83 (207)
T ss_dssp             SSS-EEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTHHHHHHHHHHHHTCCEECCCTTCCHHHHHHHHHHH
T ss_pred             CCE-EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeccccccchhhHhhcccccCceEEeccCCccHHHHHHHHHHH
Confidence            344 79999999999999888888888666677777777665532     12334444321  1111122222222   1


Q ss_pred             HHhCCcEEEEEcCcccccH--HHHHHHHHhh
Q 047225           85 VRHRPHSVILFDEIEKAHR--DVLNVMLQLL  113 (287)
Q Consensus        85 ~~~~~~~il~iDeid~~~~--~~~~~L~~~l  113 (287)
                      .......+++||=.-+.+.  +....|..+.
T Consensus        84 ~~~~~~d~ilIDTaGr~~~d~~l~~el~~~~  114 (207)
T d1okkd2          84 MKARGYDLLFVDTAGRLHTKHNLMEELKKVK  114 (207)
T ss_dssp             HHHHTCSEEEECCCCCCTTCHHHHHHHHHHH
T ss_pred             HHHCCCCEEEcCccccchhhHHHHHHHHHHH
Confidence            2233456999999887643  4444444443

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=97.91  E-value=2.3e-05  Score=61.23  Aligned_cols=114  Identities=18%  Similarity=0.257  Sum_probs=64.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc-----cchhhhhCCCCCCC-cccchhhH----HHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK-----HTVSKFFGSPPGYV-GFENGGQL----TEAVRH   87 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~-~~~~~~~~----~~~~~~   87 (287)
                      +.++|+||+|+||||++-.||..+...+.....+++..+...     ....+.++-+.... .......+    ......
T Consensus        11 ~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~~~~~~~   90 (207)
T d1ls1a2          11 NLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARL   90 (207)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccchHHHHHHHHHHhcCCccccccccchhhHHHHHHHHHHhh
Confidence            368999999999999988888888655666666776655432     12233333321111 01111112    112233


Q ss_pred             CCcEEEEEcCcccccH--HHHHHHHHhhcCceeecCCCceeeccceEEEEeecCCc
Q 047225           88 RPHSVILFDEIEKAHR--DVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNIGD  141 (287)
Q Consensus        88 ~~~~il~iDeid~~~~--~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~~~  141 (287)
                      ....++++|=..+.+.  .....|..+.+..          ......+++.++.+.
T Consensus        91 ~~~d~vlIDTaGr~~~d~~~~~el~~~~~~~----------~~~~~llv~~a~~~~  136 (207)
T d1ls1a2          91 EARDLILVDTAGRLQIDEPLMGELARLKEVL----------GPDEVLLVLDAMTGQ  136 (207)
T ss_dssp             HTCCEEEEECCCCSSCCHHHHHHHHHHHHHH----------CCSEEEEEEEGGGTH
T ss_pred             ccCcceeecccccchhhhhhHHHHHHHHhhc----------CCceEEEEeccccch
Confidence            4456999998886644  4555566555431          112345666666553

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.91  E-value=3.8e-06  Score=63.65  Aligned_cols=25  Identities=28%  Similarity=0.360  Sum_probs=22.9

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      ..|+|+|+||+||||+|+.|++.+.
T Consensus         7 ~~I~l~G~~GsGKTTia~~La~~L~   31 (183)
T d1m8pa3           7 FTIFLTGYMNSGKDAIARALQVTLN   31 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3699999999999999999999984

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.90  E-value=3.1e-06  Score=64.10  Aligned_cols=35  Identities=29%  Similarity=0.374  Sum_probs=29.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      .++|.|||||||||+++.|++.+   +.+++.++...+
T Consensus         6 iI~l~G~~GsGKSTia~~La~~l---g~~~~~~~~d~~   40 (176)
T d1zp6a1           6 ILLLSGHPGSGKSTIAEALANLP---GVPKVHFHSDDL   40 (176)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTCS---SSCEEEECTTHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh---CCCEEEecHHHH
Confidence            68999999999999999999987   667776665443

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.89  E-value=4.1e-06  Score=63.30  Aligned_cols=23  Identities=43%  Similarity=0.684  Sum_probs=22.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +++|+||||+||||+++.|++.+
T Consensus         7 ~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           7 NILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999987

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.88  E-value=5.8e-06  Score=62.26  Aligned_cols=24  Identities=25%  Similarity=0.562  Sum_probs=22.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++|+|||||||||+++.|++.+
T Consensus         7 ~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           7 HIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            368899999999999999999998

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.87  E-value=6.4e-06  Score=63.70  Aligned_cols=27  Identities=19%  Similarity=0.413  Sum_probs=24.4

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ++|. .|+++||||+||||+|+.|++.+
T Consensus         4 ~kp~-iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPN-VVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCE-EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCc-EEEEECCCCCCHHHHHHHHHHHH
Confidence            4665 69999999999999999999998

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.86  E-value=3.6e-06  Score=64.85  Aligned_cols=34  Identities=26%  Similarity=0.299  Sum_probs=26.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      .|+|+|+||+||||+|+.|++.+.........+.
T Consensus        21 vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~~~~   54 (195)
T d1x6va3          21 TVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   54 (195)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCCccchh
Confidence            6889999999999999999999844444444433

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.86  E-value=3.1e-06  Score=63.87  Aligned_cols=28  Identities=21%  Similarity=0.370  Sum_probs=24.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMV   49 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~   49 (287)
                      +++|+|+||+||||+++.||+.+   +.+++
T Consensus         3 ~IvliG~~G~GKSTig~~La~~l---~~~fi   30 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAKAL---GVGLL   30 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHH---TCCEE
T ss_pred             cEEEECCCCCCHHHHHHHHHHHh---CCCeE
Confidence            37788999999999999999999   56655

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.83  E-value=4e-06  Score=63.56  Aligned_cols=28  Identities=25%  Similarity=0.393  Sum_probs=24.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMV   49 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~   49 (287)
                      +++|+|+||+||||+++.||+.+   +.+++
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~L---g~~~i   31 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARAL---GYEFV   31 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH---TCEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh---CCCEE
Confidence            47889999999999999999999   55554

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.83  E-value=4.1e-06  Score=62.99  Aligned_cols=29  Identities=34%  Similarity=0.517  Sum_probs=25.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVR   50 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~   50 (287)
                      +++|+|+||+||||+++.||+.+   +.+++-
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l---~~~~~d   30 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDL---DLVFLD   30 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH---TCEEEE
T ss_pred             cEEEECCCCCCHHHHHHHHHHHh---CCCEEe
Confidence            48899999999999999999999   566553

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.82  E-value=5.1e-06  Score=64.04  Aligned_cols=26  Identities=19%  Similarity=0.494  Sum_probs=23.6

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +|. .++|.|||||||||+++.|++.+
T Consensus         2 ~Pm-~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           2 DPL-KVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CSC-CEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCe-EEEEECCCCCCHHHHHHHHHHHH
Confidence            455 59999999999999999999998

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=97.81  E-value=7.8e-06  Score=64.15  Aligned_cols=101  Identities=16%  Similarity=0.264  Sum_probs=56.1

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc-----cchhhhhCCCCC--CCcccchhhH---H
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK-----HTVSKFFGSPPG--YVGFENGGQL---T   82 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~--~~~~~~~~~~---~   82 (287)
                      |++|. .++|+||+|+||||++-.||..+...+.++..+.+..|.-.     ....+.++-+..  ..+.+.....   .
T Consensus         8 ~~~p~-vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~~   86 (213)
T d1vmaa2           8 PEPPF-VIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAV   86 (213)
T ss_dssp             SSSCE-EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHHH
T ss_pred             CCCCE-EEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeecccccchhHHHHHHhhhcCccccccCCCCcHHHHHHHHH
Confidence            45665 79999999999999888888877555566666666554432     122233332211  1111111111   1


Q ss_pred             HHHHhCCcEEEEEcCcccccHH--HHHHHHHhhc
Q 047225           83 EAVRHRPHSVILFDEIEKAHRD--VLNVMLQLLD  114 (287)
Q Consensus        83 ~~~~~~~~~il~iDeid~~~~~--~~~~L~~~l~  114 (287)
                      .........+++||=.-+.+.+  ..+.|..+.+
T Consensus        87 ~~~~~~~~d~ilIDTaGr~~~d~~~~~el~~~~~  120 (213)
T d1vmaa2          87 AHALARNKDVVIIDTAGRLHTKKNLMEELRKVHR  120 (213)
T ss_dssp             HHHHHTTCSEEEEEECCCCSCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCEEEEeccccccchHHHHHHHHHHHh
Confidence            1222344569999988866543  4444544443

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=97.81  E-value=1.5e-05  Score=67.75  Aligned_cols=37  Identities=16%  Similarity=0.292  Sum_probs=28.1

Q ss_pred             CcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEEEeecC
Q 047225           89 PHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIIIMTSNI  139 (287)
Q Consensus        89 ~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI~t~n~  139 (287)
                      +..+++|||+..++......++..+..              +..+|+.+++
T Consensus       261 ~~d~lIIDEaSmv~~~l~~~ll~~~~~--------------~~~lILvGD~  297 (359)
T d1w36d1         261 HLDVLVVDEASMIDLPMMSRLIDALPD--------------HARVIFLGDR  297 (359)
T ss_dssp             SCSEEEECSGGGCBHHHHHHHHHTCCT--------------TCEEEEEECT
T ss_pred             ccceeeehhhhccCHHHHHHHHHHhcC--------------CCEEEEECCh
Confidence            356999999999998887777776653              3357777765

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=97.78  E-value=4.5e-05  Score=65.78  Aligned_cols=96  Identities=24%  Similarity=0.289  Sum_probs=59.4

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEe-cccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEE
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRI-DMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVIL   94 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~   94 (287)
                      +.+-+++.||+|+||||+..++...+.....+++++ |.-++.-....+..+   ....+.+....+..+++..| ++++
T Consensus       157 ~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~~~~~~~q~~v---~~~~~~~~~~~l~~~lR~dP-Dvi~  232 (401)
T d1p9ra_         157 PHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDIDGIGQTQV---NPRVDMTFARGLRAILRQDP-DVVM  232 (401)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCCSSSEEEEC---BGGGTBCHHHHHHHHGGGCC-SEEE
T ss_pred             hhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCcccccCCCCeeee---cCCcCCCHHHHHHHHHhhcC-CEEE
Confidence            346799999999999999999999885545555544 334433211111000   01112222334556666666 8999


Q ss_pred             EcCcccccHHHHHHHHHhhcCce
Q 047225           95 FDEIEKAHRDVLNVMLQLLDDGR  117 (287)
Q Consensus        95 iDeid~~~~~~~~~L~~~l~~~~  117 (287)
                      +.|+.  +++......+...+|.
T Consensus       233 igEiR--d~~ta~~a~~aa~tGh  253 (401)
T d1p9ra_         233 VGEIR--DLETAQIAVQASLTGH  253 (401)
T ss_dssp             ESCCC--SHHHHHHHHHHHHTTC
T ss_pred             ecCcC--ChHHHHHHHHHHhcCC
Confidence            99998  5566666667777664

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.78  E-value=7.1e-06  Score=61.59  Aligned_cols=34  Identities=24%  Similarity=0.163  Sum_probs=27.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      .++|+|++|||||||++.|++.+...+..+..+.
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~   37 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIK   37 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEec
Confidence            6999999999999999999999865555554443

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.78  E-value=5.6e-06  Score=62.28  Aligned_cols=23  Identities=39%  Similarity=0.732  Sum_probs=21.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+|||||||||+|+.|++.+
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999988

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.76  E-value=2.3e-05  Score=59.47  Aligned_cols=74  Identities=14%  Similarity=0.150  Sum_probs=44.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++++|+|||||||+++.++...   +  +..++..++....   .+            ...+...+..+.  .+++|..
T Consensus        16 liil~G~pGsGKST~a~~l~~~~---~--~~~i~~D~~~~~~---~~------------~~~~~~~l~~g~--~vIiD~t   73 (172)
T d1yj5a2          16 VVVAVGFPGAGKSTFIQEHLVSA---G--YVHVNRDTLGSWQ---RC------------VSSCQAALRQGK--RVVIDNT   73 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHTGGG---T--CEEEEHHHHCSHH---HH------------HHHHHHHHHTTC--CEEEESC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc---C--CEEEchHHHHHHH---HH------------HHHHHHHHHCCC--CceeeCc
Confidence            59999999999999999987665   2  3334433322211   00            123444555554  5778877


Q ss_pred             ccccHHHHHHHHHhhcC
Q 047225           99 EKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        99 d~~~~~~~~~L~~~l~~  115 (287)
                      +. .......+..+...
T Consensus        74 ~~-~~~~R~~~~~~a~~   89 (172)
T d1yj5a2          74 NP-DVPSRARYIQCAKD   89 (172)
T ss_dssp             CC-SHHHHHHHHHHHHH
T ss_pred             CC-CHHHHHHHHHHHHh
Confidence            64 44454556666553

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.76  E-value=1e-05  Score=61.03  Aligned_cols=31  Identities=16%  Similarity=0.322  Sum_probs=25.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      .|+|.|+||+||||+|+.|++.+   +.+.+.++
T Consensus         5 iI~l~G~~GsGKsTva~~L~~~l---~~~~~~~~   35 (178)
T d1qhxa_           5 MIILNGGSSAGKSGIVRCLQSVL---PEPWLAFG   35 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS---SSCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc---CCCeEEee
Confidence            68999999999999999999998   44444444

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.73  E-value=1.4e-05  Score=61.85  Aligned_cols=24  Identities=29%  Similarity=0.475  Sum_probs=22.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +.++|.||||+||||+|+.|++.+
T Consensus         9 ~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           9 SVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999999988

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.70  E-value=1.1e-05  Score=61.41  Aligned_cols=23  Identities=26%  Similarity=0.515  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +++|.||||+||||+++.|++.+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            48999999999999999999998

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.69  E-value=1.9e-05  Score=60.85  Aligned_cols=39  Identities=13%  Similarity=0.366  Sum_probs=29.5

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      |++.. .++|.||||+||||+++.|++.+   +  +..++.++..
T Consensus         3 ~~r~m-rIiliG~PGSGKtT~a~~La~~~---g--~~~is~gdll   41 (189)
T d2ak3a1           3 SARLL-RAAIMGAPGSGKGTVSSRITKHF---E--LKHLSSGDLL   41 (189)
T ss_dssp             SSCCC-EEEEECCTTSSHHHHHHHHHHHB---C--CEEEEHHHHH
T ss_pred             CCcce-eEEEECCCCCCHHHHHHHHHHHH---C--CeEEcHHHHH
Confidence            45555 58899999999999999999988   3  3445554443

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.67  E-value=1.3e-05  Score=61.08  Aligned_cols=23  Identities=39%  Similarity=0.524  Sum_probs=21.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +++|.|||||||||+++.|++.+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999998

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.65  E-value=1.5e-05  Score=60.62  Aligned_cols=36  Identities=17%  Similarity=0.142  Sum_probs=29.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .|+|.|+||+||||+++.|++.+...+.....+..+
T Consensus         3 iI~i~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~~   38 (190)
T d1khta_           3 VVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVSFG   38 (190)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTTTCCCEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEecC
Confidence            689999999999999999999986655555554443

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.62  E-value=1.5e-05  Score=62.14  Aligned_cols=38  Identities=16%  Similarity=0.156  Sum_probs=29.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      .++++|.||+||||+|+.|++.+...+.....++...+
T Consensus         4 li~l~GlpgsGKSTla~~L~~~l~~~~~~~~~~~~D~~   41 (213)
T d1bifa1           4 LIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVGQY   41 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEcccce
Confidence            59999999999999999999988544455555555433

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.61  E-value=2.3e-05  Score=59.83  Aligned_cols=23  Identities=26%  Similarity=0.511  Sum_probs=21.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.||||+||||+|+.||+.+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            48899999999999999999998

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.61  E-value=2.1e-05  Score=60.59  Aligned_cols=23  Identities=22%  Similarity=0.382  Sum_probs=22.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.||||+||||.|+.|++.+
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999988

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.60  E-value=2.8e-05  Score=59.64  Aligned_cols=40  Identities=23%  Similarity=0.214  Sum_probs=29.9

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      ++.|. .|.+.||+|+||||+|+.|++.+..........+.
T Consensus        19 ~~~~~-iIgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~~~   58 (198)
T d1rz3a_          19 TAGRL-VLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHM   58 (198)
T ss_dssp             CSSSE-EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEG
T ss_pred             CCCCE-EEEEECCCCCCHHHHHHHHHHHhccccccceeccc
Confidence            34565 58899999999999999999988544444444443

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.59  E-value=1.8e-05  Score=58.21  Aligned_cols=34  Identities=24%  Similarity=0.372  Sum_probs=25.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      .|+|+||||+||||+|+.|.+..    ..+..++..+.
T Consensus         4 lIii~G~pGsGKTTla~~L~~~~----~~~~~~~~d~~   37 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFIAKN----PGFYNINRDDY   37 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS----TTEEEECHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC----CCCEEechHHH
Confidence            48899999999999999987764    23445554443

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.57  E-value=2.8e-05  Score=59.76  Aligned_cols=23  Identities=35%  Similarity=0.554  Sum_probs=21.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|||||||||.++.||+.+
T Consensus         5 riil~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           5 RAVLLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47789999999999999999998

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.52  E-value=3.5e-05  Score=58.55  Aligned_cols=23  Identities=22%  Similarity=0.336  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.||||+||||.++.|++.+
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999998

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.52  E-value=3.7e-05  Score=59.26  Aligned_cols=34  Identities=15%  Similarity=0.366  Sum_probs=27.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      .|+|.||||+||||.++.|++.+   +  +..+++++..
T Consensus        10 iI~l~G~pGSGKsT~a~~La~~~---g--~~~is~g~ll   43 (194)
T d3adka_          10 IIFVVGGPGSGKGTQCEKIVQKY---G--YTHLSTGDLL   43 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHT---C--CEEEEHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh---C--CeeEeccHHH
Confidence            69999999999999999999987   3  3445555443

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=97.52  E-value=7.5e-05  Score=53.93  Aligned_cols=22  Identities=27%  Similarity=0.273  Sum_probs=17.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~   39 (287)
                      ...++.+|+|+|||+++-.+..
T Consensus         9 ~~~ll~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1           9 QVAHLHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             EEEEEECCTTSCTTTHHHHHHH
T ss_pred             CEEEEEeCCCCCHHHHHHHHHH
Confidence            4689999999999987755443

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.49  E-value=3.2e-05  Score=58.89  Aligned_cols=23  Identities=30%  Similarity=0.569  Sum_probs=21.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.||||+||||+++.|++.+
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47889999999999999999998

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=97.47  E-value=4e-05  Score=60.05  Aligned_cols=33  Identities=27%  Similarity=0.423  Sum_probs=26.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      .|++.||||+||+|.|+.|++.+   +  +.+++.++.
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~---g--l~~iStGdL   37 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEAL---Q--WHLLDSGAI   37 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH---T--CEEEEHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh---C--CcEECHHHH
Confidence            68999999999999999999998   3  344555444

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=97.46  E-value=2.5e-05  Score=56.33  Aligned_cols=35  Identities=14%  Similarity=0.080  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHH-HHHHHHhcCCCCceEEecc
Q 047225           19 SFLFTGPTGVGKTELA-NALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la-~~la~~l~~~~~~~~~~~~   53 (287)
                      +++|.+|+|+|||..+ ..+..........++.+..
T Consensus         9 ~~il~~~tGsGKT~~~~~~~~~~~~~~~~~vli~~p   44 (140)
T d1yksa1           9 TTVLDFHPGAGKTRRFLPQILAECARRRLRTLVLAP   44 (140)
T ss_dssp             EEEECCCTTSSTTTTHHHHHHHHHHHTTCCEEEEES
T ss_pred             cEEEEcCCCCChhHHHHHHHHHHhhhcCceeeeeec
Confidence            6899999999999655 3444444333444444433

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=97.42  E-value=5e-05  Score=57.81  Aligned_cols=35  Identities=20%  Similarity=0.098  Sum_probs=28.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      .++|.|+||+||||+++.|++.+...+..+..+..
T Consensus         3 iivi~G~~GsGKTT~~~~La~~L~~~~~~~~~~~~   37 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEILDNQGINNKIINY   37 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEC
Confidence            47899999999999999999999666655555543

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=97.36  E-value=7.9e-05  Score=58.43  Aligned_cols=23  Identities=26%  Similarity=0.585  Sum_probs=21.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.+.||||+||||.|+.||+.+
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47788999999999999999999

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=97.28  E-value=0.00012  Score=61.02  Aligned_cols=89  Identities=22%  Similarity=0.351  Sum_probs=53.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEe-cccccccc--cchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEE
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRI-DMSEYMEK--HTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILF   95 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~-~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~i   95 (287)
                      +++++||+|+||||+.++|...+.. ...++++ +..++.-.  .....+.+    ..+.+....+..+++..| +.+++
T Consensus       168 nili~G~tgSGKTT~l~al~~~i~~-~~rivtiEd~~El~l~~~~~~~~~~~----~~~~~~~~ll~~~lR~~p-d~iiv  241 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEFIPK-EERIISIEDTEEIVFKHHKNYTQLFF----GGNITSADCLKSCLRMRP-DRIIL  241 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGSCT-TCCEEEEESSCCCCCSSCSSEEEEEC----BTTBCHHHHHHHHTTSCC-SEEEE
T ss_pred             CEEEEeeccccchHHHHHHhhhccc-ccceeeccchhhhhcccccccceecc----ccchhHHHHHHHHhccCC-CcccC
Confidence            5999999999999999999988754 4555555 33333211  11111111    011222233445555554 79999


Q ss_pred             cCcccccHHHHHHHHHhhcCc
Q 047225           96 DEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        96 Deid~~~~~~~~~L~~~l~~~  116 (287)
                      .|+-.  ++... +++.+..|
T Consensus       242 gEiR~--~ea~~-~l~a~~tG  259 (323)
T d1g6oa_         242 GELRS--SEAYD-FYNVLCSG  259 (323)
T ss_dssp             SCCCS--THHHH-HHHHHHTT
T ss_pred             CccCc--hhHHH-HHHHHHhc
Confidence            99984  35555 45677765

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=97.26  E-value=0.00011  Score=58.57  Aligned_cols=28  Identities=29%  Similarity=0.330  Sum_probs=24.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKE   46 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~   46 (287)
                      .+.|.||.|+|||||.++|+..+.++..
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~~p~~G   57 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLIKPSSG   57 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCC
Confidence            6889999999999999999998865433

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.19  E-value=0.00012  Score=57.05  Aligned_cols=43  Identities=23%  Similarity=0.342  Sum_probs=31.2

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHhcC-CCCceEEecccccc
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEYFG-SKEAMVRIDMSEYM   57 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l~~-~~~~~~~~~~~~~~   57 (287)
                      .++. .++|+|.||+||||+|+.|++.+.. ...+.+.++.....
T Consensus        22 ~kg~-vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~iR   65 (208)
T d1m7ga_          22 QRGL-TIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNIR   65 (208)
T ss_dssp             SSCE-EEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHHT
T ss_pred             CCCe-EEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchHHH
Confidence            3444 7999999999999999999987732 23455666655443

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=97.18  E-value=0.0007  Score=53.57  Aligned_cols=26  Identities=27%  Similarity=0.307  Sum_probs=23.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|.||+|+||||+.+.++..+.++
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~~p~   59 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLEEPT   59 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCCC
Confidence            68999999999999999999987554

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=97.12  E-value=0.0003  Score=57.98  Aligned_cols=48  Identities=17%  Similarity=0.218  Sum_probs=36.4

Q ss_pred             CCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcC--CCCceEEeccccccc
Q 047225           10 IRDPNRPISSFLFTGPTGVGKTELANALAFEYFG--SKEAMVRIDMSEYME   58 (287)
Q Consensus        10 ~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~--~~~~~~~~~~~~~~~   58 (287)
                      -..+..|. .|.+.|++|+||||+|+.|...+..  .+..+..+++.+|.-
T Consensus        74 ~~~~k~P~-iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F~~  123 (308)
T d1sq5a_          74 TNGQRIPY-IISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFLH  123 (308)
T ss_dssp             CC-CCCCE-EEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGBC
T ss_pred             ccCCCCCE-EEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeeeEC
Confidence            34456677 7999999999999999999998842  245566777777654

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=97.12  E-value=0.0012  Score=53.25  Aligned_cols=92  Identities=16%  Similarity=0.257  Sum_probs=52.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      .++|+||++||||+++.+|.+.++. .   ..++-+.   .                  ...+.. +  .+..++++||.
T Consensus       106 ~~~l~G~~~tGKS~f~~~i~~~lg~-~---~~~~~~~---~------------------~f~l~~-l--~~k~~~~~~e~  157 (267)
T d1u0ja_         106 TIWLFGPATTGKTNIAEAIAHTVPF-Y---GCVNWTN---E------------------NFPFND-C--VDKMVIWWEEG  157 (267)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSC-E---EECCTTC---S------------------SCTTGG-G--SSCSEEEECSC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhcc-h---hhccccC---C------------------Cccccc-c--CCCEEEEEeCC
Confidence            5999999999999999999998821 1   1111100   0                  001111 1  12248999998


Q ss_pred             ccccHHHHHHHHHhhcCceeecCC--Cceeecc-ceEEEEeecC
Q 047225           99 EKAHRDVLNVMLQLLDDGRVTDGK--GQTVDLK-NTIIIMTSNI  139 (287)
Q Consensus        99 d~~~~~~~~~L~~~l~~~~~~~~~--g~~i~~~-~~~iI~t~n~  139 (287)
                      +.-. ...+.+..++....+....  +..+.+. ..++|.++|.
T Consensus       158 ~~~~-~~~~~~K~l~gGd~i~v~~K~k~~~~~~~~p~li~s~n~  200 (267)
T d1u0ja_         158 KMTA-KVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTN  200 (267)
T ss_dssp             CEET-TTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSC
T ss_pred             Cccc-cHHHHHHHhcCCCceEeecccCCCcEeeCCeEEEEeCCC
Confidence            8654 4556677777755554432  3334443 4566666664

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.07  E-value=0.0002  Score=53.38  Aligned_cols=34  Identities=15%  Similarity=0.083  Sum_probs=28.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEec
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRID   52 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~   52 (287)
                      .+.++|++|+||||++..|...+...+.....+.
T Consensus         3 ii~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik   36 (165)
T d1xjca_           3 VWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   36 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            4779999999999999999999866666665553

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.06  E-value=0.00018  Score=56.07  Aligned_cols=26  Identities=19%  Similarity=0.221  Sum_probs=23.3

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhc
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      |. .|.+.|++|+||||+++.|++.+.
T Consensus         2 P~-iIgI~G~~gSGKSTla~~L~~~l~   27 (213)
T d1uj2a_           2 PF-LIGVSGGTASGKSSVCAKIVQLLG   27 (213)
T ss_dssp             CE-EEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CE-EEEEECCCCCCHHHHHHHHHHHhc
Confidence            55 688999999999999999999883

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.99  E-value=0.00017  Score=55.37  Aligned_cols=22  Identities=36%  Similarity=0.647  Sum_probs=21.0

Q ss_pred             EEEeccCCChHHHHHHHHHHHh
Q 047225           20 FLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l   41 (287)
                      |+|+||+|+|||++++.|++..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            7899999999999999999987

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=96.98  E-value=0.0033  Score=49.40  Aligned_cols=125  Identities=16%  Similarity=0.202  Sum_probs=68.8

Q ss_pred             hhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc---cchhhhhCCCCCC----Cccc
Q 047225            4 ERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK---HTVSKFFGSPPGY----VGFE   76 (287)
Q Consensus         4 ~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~----~~~~   76 (287)
                      +....++..+. |. +.+|+|.+|+|||.++-..+......+...+.+-.......   ......|+..+..    .+..
T Consensus        65 ~~i~~~~~~~~-~~-~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~Pt~~La~Q~~~~~~~~~~~~~~~v~~l~~~~  142 (233)
T d2eyqa3          65 NAVLSDMCQPL-AM-DRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFR  142 (233)
T ss_dssp             HHHHHHHHSSS-CC-EEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECSSHHHHHHHHHHHHHHSTTTTCCEEEESTTS
T ss_pred             HHHHHHHhccC-cc-CeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEccHHHhHHHHHHHHHHHHhhCCCEEEeccCcc
Confidence            33444455543 33 68999999999999887777666555666665555443332   1222333322110    1111


Q ss_pred             ---chhhHHHHHHh-------------------CCcEEEEEcCcccccHHHHHHHHHhhcCceeecCCCceeeccceEEE
Q 047225           77 ---NGGQLTEAVRH-------------------RPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDLKNTIII  134 (287)
Q Consensus        77 ---~~~~~~~~~~~-------------------~~~~il~iDeid~~~~~~~~~L~~~l~~~~~~~~~g~~i~~~~~~iI  134 (287)
                         +...+...+..                   ...+++++||=++......+.+.....+              --++.
T Consensus       143 ~~~~~~~~~~~~~~g~~~iviGths~l~~~~~f~~LgLiIiDEeH~fg~kQ~~~l~~~~~~--------------~~~l~  208 (233)
T d2eyqa3         143 SAKEQTQILAEVAEGKIDILIGTHKLLQSDVKFKDLGLLIVDEEHRFGVRHKERIKAMRAN--------------VDILT  208 (233)
T ss_dssp             CHHHHHHHHHHHHTTCCSEEEECTHHHHSCCCCSSEEEEEEESGGGSCHHHHHHHHHHHTT--------------SEEEE
T ss_pred             cchhHHHHHHHHhCCCCCEEEeehhhhccCCccccccceeeechhhhhhHHHHHHHhhCCC--------------CCEEE
Confidence               11112222222                   2348999999999988877776554432              11466


Q ss_pred             EeecCCchhh
Q 047225          135 MTSNIGDSVI  144 (287)
Q Consensus       135 ~t~n~~~~~~  144 (287)
                      +++.|.+..+
T Consensus       209 ~SATPiprtl  218 (233)
T d2eyqa3         209 LTATPIPRTL  218 (233)
T ss_dssp             EESSCCCHHH
T ss_pred             EecchhHHHH
Confidence            6666665443

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=96.98  E-value=0.013  Score=42.13  Aligned_cols=23  Identities=26%  Similarity=0.369  Sum_probs=20.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+|+||+|||+|.+.+...-
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            38899999999999999987654

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.96  E-value=0.00017  Score=55.02  Aligned_cols=22  Identities=41%  Similarity=0.800  Sum_probs=21.0

Q ss_pred             EEEeccCCChHHHHHHHHHHHh
Q 047225           20 FLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l   41 (287)
                      |+|+||+|+|||++++.|++..
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            8899999999999999999887

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.84  E-value=0.0005  Score=54.31  Aligned_cols=37  Identities=32%  Similarity=0.375  Sum_probs=30.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      .++++||||+|||+++..++......+....++++..
T Consensus        28 l~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~e~   64 (242)
T d1tf7a2          28 IILATGATGTGKTLLVSRFVENACANKERAILFAYEE   64 (242)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHHhccccceeeccC
Confidence            6999999999999999999998866666777776643

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.84  E-value=0.00029  Score=53.39  Aligned_cols=24  Identities=25%  Similarity=0.463  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .++|+||+|+||||+++.|.+...
T Consensus         4 iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           4 VVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHST
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCC
Confidence            588999999999999999998873

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.77  E-value=0.0012  Score=53.16  Aligned_cols=39  Identities=21%  Similarity=0.179  Sum_probs=32.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      .+.|+||||+|||+++-.++......+...+++|...-.
T Consensus        56 itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~   94 (263)
T d1u94a1          56 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHAL   94 (263)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCC
T ss_pred             EEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEcccccc
Confidence            699999999999999998888886667788888876543

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.70  E-value=0.0097  Score=44.13  Aligned_cols=22  Identities=27%  Similarity=0.552  Sum_probs=19.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      -++++|++|+|||+|++.+...
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999988664

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.67  E-value=0.0016  Score=52.38  Aligned_cols=40  Identities=20%  Similarity=0.194  Sum_probs=32.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME   58 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~   58 (287)
                      ...|+||+|+|||+++-.++......+...+++|.....+
T Consensus        62 i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~  101 (269)
T d1mo6a1          62 VIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALD  101 (269)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCC
T ss_pred             eEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCC
Confidence            6999999999999999887777766677788888865443

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=96.63  E-value=0.019  Score=42.16  Aligned_cols=22  Identities=18%  Similarity=0.404  Sum_probs=19.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++|+|.+|+|||+|+..+...
T Consensus        17 kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          17 KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6999999999999999988653

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.61  E-value=0.0078  Score=44.60  Aligned_cols=22  Identities=32%  Similarity=0.516  Sum_probs=19.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      -++++|++|+|||+++..+...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3889999999999999987654

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.58  E-value=0.001  Score=54.03  Aligned_cols=41  Identities=17%  Similarity=0.419  Sum_probs=29.4

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcC---CCCceEEeccccc
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFG---SKEAMVRIDMSEY   56 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~---~~~~~~~~~~~~~   56 (287)
                      +|+ .+.|.|++||||||++..|...+..   ....+..++..++
T Consensus        26 ~P~-iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~Ddf   69 (286)
T d1odfa_          26 CPL-FIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   69 (286)
T ss_dssp             SCE-EEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             CCE-EEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCC
Confidence            465 5889999999999999988776521   1234555666665

>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=96.58  E-value=0.00042  Score=54.58  Aligned_cols=29  Identities=21%  Similarity=0.307  Sum_probs=24.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEA   47 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~   47 (287)
                      .+.|.||+|||||||.++++....++...
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl~~p~sG~   61 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCLDKPTEGE   61 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCSEEE
T ss_pred             EEEEECCCCCCcchhhHhccCCCCCCcce
Confidence            68999999999999999999887554444

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.54  E-value=0.00074  Score=51.06  Aligned_cols=23  Identities=26%  Similarity=0.564  Sum_probs=20.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||+|+||+++.+.|.+..
T Consensus         5 ~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           5 TLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHC
T ss_pred             cEEEECCCCCCHHHHHHHHHHhC
Confidence            48899999999999999998775

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.53  E-value=0.00059  Score=53.78  Aligned_cols=30  Identities=27%  Similarity=0.369  Sum_probs=24.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCce
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAM   48 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~   48 (287)
                      .+.|.||+|+||||+.+.++..+.++...+
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl~~p~sG~I   57 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGLETITSGDL   57 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             EEEEECCCCChHHHHHHHHhcCCCCCCCEE
Confidence            689999999999999999998875543333

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=96.53  E-value=0.012  Score=42.13  Aligned_cols=95  Identities=18%  Similarity=0.136  Sum_probs=49.1

Q ss_pred             EEEeccCCChHHH-HHHHHHHHhcCCCCceEEecccccccc-cchhhhhCCCCCCCcccchhhHHHHHHhC----CcEEE
Q 047225           20 FLFTGPTGVGKTE-LANALAFEYFGSKEAMVRIDMSEYMEK-HTVSKFFGSPPGYVGFENGGQLTEAVRHR----PHSVI   93 (287)
Q Consensus        20 ill~Gp~GtGKT~-la~~la~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~il   93 (287)
                      -+++||=.+|||+ |.+.+.+.. ..+.+++.++....... ..+....|.............+...+...    ...++
T Consensus         5 ~~i~GpMfsGKTteLi~~~~~~~-~~~~kv~~ikp~~D~R~~~~i~s~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dvI   83 (139)
T d2b8ta1           5 EFITGPMFAGKTAELIRRLHRLE-YADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDETKVI   83 (139)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHH-HTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCTTCCEE
T ss_pred             EEEEccccCHHHHHHHHHHHHHH-HCCCcEEEEEEcccccccceEEcccCceeeeEEeccchhhHHHHHhhccccCcCEE
Confidence            4678999999998 666665443 33556666655432211 11111111111111122223444444332    34699


Q ss_pred             EEcCcccccHHHHHHHHHhhcC
Q 047225           94 LFDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        94 ~iDeid~~~~~~~~~L~~~l~~  115 (287)
                      +|||+..++..+...+..+.+.
T Consensus        84 ~IDE~QFf~d~i~~~~~~~~~~  105 (139)
T d2b8ta1          84 GIDEVQFFDDRICEVANILAEN  105 (139)
T ss_dssp             EECSGGGSCTHHHHHHHHHHHT
T ss_pred             EechhhhcchhHHHHHHHHHhc
Confidence            9999999985444434444443

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.51  E-value=0.0045  Score=45.81  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=19.6

Q ss_pred             EEEeccCCChHHHHHHHHHHHh
Q 047225           20 FLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ++++|++|+|||+|+..+...-
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7999999999999999988654

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=96.50  E-value=0.0014  Score=51.44  Aligned_cols=34  Identities=21%  Similarity=0.351  Sum_probs=26.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      .+++.|++|+|||||.+.|.+.+.. ......++.
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~~-~~~~~ivn~   35 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLED-NYKVAYVNL   35 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTT-TSCEEEEEC
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhh-CCeEEEEec
Confidence            5899999999999999999987743 445555543

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=96.48  E-value=0.00087  Score=53.26  Aligned_cols=27  Identities=33%  Similarity=0.497  Sum_probs=23.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      -.+.++||+|+||||+++.|+..+.+.
T Consensus        29 e~vaivG~sGsGKSTLl~ll~gl~~p~   55 (242)
T d1mv5a_          29 SIIAFAGPSGGGKSTIFSLLERFYQPT   55 (242)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhCCC
Confidence            368999999999999999999887544

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.47  E-value=0.00066  Score=53.75  Aligned_cols=27  Identities=30%  Similarity=0.345  Sum_probs=23.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSK   45 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~   45 (287)
                      .+.|.||+|+||||++++++..+.++.
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~~p~s   57 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLEEPSR   57 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCCSE
T ss_pred             EEEEECCCCChHHHHHHHHhcCCCCCC
Confidence            689999999999999999998875543

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.43  E-value=0.00074  Score=53.39  Aligned_cols=27  Identities=26%  Similarity=0.342  Sum_probs=23.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSK   45 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~   45 (287)
                      .+.|.||+|+||||+.+.++..+.+..
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~~p~~   52 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIVKPDR   52 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCSE
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCCCc
Confidence            577999999999999999999885543

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.40  E-value=0.0051  Score=47.28  Aligned_cols=23  Identities=39%  Similarity=0.306  Sum_probs=19.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +.++..|+|+|||.++-.++..+
T Consensus        87 ~~ll~~~tG~GKT~~a~~~~~~~  109 (206)
T d2fz4a1          87 RGCIVLPTGSGKTHVAMAAINEL  109 (206)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHS
T ss_pred             CcEEEeCCCCCceehHHhHHHHh
Confidence            46788999999999988888777

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.39  E-value=0.0011  Score=50.95  Aligned_cols=33  Identities=18%  Similarity=0.328  Sum_probs=26.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEe
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRI   51 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~   51 (287)
                      -|.|.|+.|+||||+++.|++.+...+.+++.+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~g~~v~~~   34 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAAGRSVATL   34 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEE
Confidence            378999999999999999999986555555544

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.38  E-value=0.00062  Score=52.53  Aligned_cols=30  Identities=30%  Similarity=0.451  Sum_probs=24.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCce
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAM   48 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~   48 (287)
                      .+.|.||.|+||||+.+.++..+.+....+
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl~~p~~G~I   58 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTYLKPLKGEI   58 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             EEEEECCCCChHHHHHHHHhcccccCCCEE
Confidence            488999999999999999998885544433

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.38  E-value=0.00068  Score=53.26  Aligned_cols=28  Identities=32%  Similarity=0.384  Sum_probs=24.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKE   46 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~   46 (287)
                      .+.|.||+|+||||+.+.++....+...
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~~p~sG   55 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFHVPDSG   55 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSSCCSEE
T ss_pred             EEEEECCCCCcHHHHHHHHhcCcCCCCC
Confidence            6899999999999999999998755433

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.37  E-value=0.00061  Score=52.03  Aligned_cols=27  Identities=30%  Similarity=0.442  Sum_probs=24.2

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+|. .|.|.|+.|+||||+++.|++.+
T Consensus         7 ~kp~-~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           7 TQPF-TVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCCE-EEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCce-EEEEECCCCCCHHHHHHHHHHHh
Confidence            4565 69999999999999999999987

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=96.36  E-value=0.0028  Score=50.93  Aligned_cols=40  Identities=25%  Similarity=0.215  Sum_probs=33.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME   58 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~   58 (287)
                      ..-++||+|||||+++-.++......+..++++|...-.+
T Consensus        59 itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~   98 (268)
T d1xp8a1          59 ITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALD   98 (268)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCC
T ss_pred             EEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCC
Confidence            6899999999999999998888866677888888865443

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.33  E-value=0.001  Score=51.51  Aligned_cols=24  Identities=29%  Similarity=0.492  Sum_probs=21.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .++|+||+|+|||++.+.|.+..+
T Consensus         4 livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCC
Confidence            589999999999999999998863

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.33  E-value=0.00083  Score=53.76  Aligned_cols=26  Identities=23%  Similarity=0.346  Sum_probs=23.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||+|+||||+++.|+..+.+.
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl~~p~   68 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRFYDID   68 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTTCCS
T ss_pred             EEEEECCCCChHHHHHHHHhcccCCC
Confidence            69999999999999999999887544

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.32  E-value=0.0021  Score=47.20  Aligned_cols=29  Identities=21%  Similarity=0.211  Sum_probs=24.8

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcC
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      +|...++|.|+=|+|||+++|.+++.+..
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhccc
Confidence            34447999999999999999999999843

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.32  E-value=0.0013  Score=51.08  Aligned_cols=33  Identities=12%  Similarity=0.152  Sum_probs=26.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEe
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRI   51 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~   51 (287)
                      -|.|.|+.|+||||+++.|++.+...+.+.+..
T Consensus         5 lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~   37 (209)
T d1nn5a_           5 LIVLEGVDRAGKSTQSRKLVEALCAAGHRAELL   37 (209)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            478889999999999999999986555555544

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.32  E-value=0.00074  Score=53.49  Aligned_cols=29  Identities=17%  Similarity=0.288  Sum_probs=24.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEA   47 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~   47 (287)
                      .+.|.||+|+||||+++.++....+....
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl~~p~sG~   61 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLLERPTEGS   61 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSSCCSEEE
T ss_pred             EEEEECCCCCCHHHHHHHHcCCccccCCc
Confidence            58999999999999999999887554333

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.31  E-value=0.012  Score=46.23  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=20.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++||.++|||++.|.++-..
T Consensus        43 ~~iiTGpN~~GKSt~lk~i~l~~   65 (234)
T d1wb9a2          43 MLIITGPNMGGKSTYMRQTALIA   65 (234)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEeccCchhhHHHHHHHHHHH
Confidence            58999999999999999998765

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=96.28  E-value=0.0013  Score=50.18  Aligned_cols=27  Identities=26%  Similarity=0.500  Sum_probs=22.4

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHH
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~   39 (287)
                      |..+.+.++|+|+||+||||+.+.|..
T Consensus        19 p~~~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          19 PEGGLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CCSCCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHhcC
Confidence            444445799999999999999999974

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.27  E-value=0.00088  Score=53.53  Aligned_cols=26  Identities=31%  Similarity=0.447  Sum_probs=23.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.++||+|+||||+++.|...+.+.
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl~~p~   67 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNLYQPT   67 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHhcccCCC
Confidence            68999999999999999999887543

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.27  E-value=0.0022  Score=47.35  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=20.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++++|++|+|||+++..+...-
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            38999999999999999887653

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.27  E-value=0.00084  Score=53.29  Aligned_cols=26  Identities=23%  Similarity=0.356  Sum_probs=23.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.++||+|+||||+++.|...+.+.
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl~~p~   56 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRFYIPE   56 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCCCC
Confidence            58999999999999999999987543

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=96.25  E-value=0.0015  Score=48.65  Aligned_cols=33  Identities=30%  Similarity=0.387  Sum_probs=24.8

Q ss_pred             hhccCCCCCCCcEEEEEeccCCChHHHHHHHHHH
Q 047225            6 ARVGIRDPNRPISSFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus         6 ~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~   39 (287)
                      ++..-..|.+.. .++++|++|+|||++.+.+..
T Consensus         6 ~~k~~~~~~~~~-kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_           6 LRKLKSAPDQEV-RILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             HHHCSSCCSSCE-EEEEEESTTSSHHHHHHHHCC
T ss_pred             HHHhhCCCCCEE-EEEEECCCCCCHHHHHHHHhc
Confidence            334444555665 599999999999999988743

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.24  E-value=0.021  Score=45.75  Aligned_cols=95  Identities=15%  Similarity=0.134  Sum_probs=57.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCc--e----EEeccccccc--------------ccchhhhhCCCCCCCcccch
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEA--M----VRIDMSEYME--------------KHTVSKFFGSPPGYVGFENG   78 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~--~----~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~   78 (287)
                      |+.++|..|+|||||+.+|..........  .    ...|......              +....-.+-+.||+..+.  
T Consensus         8 ni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~~~~n~iDtPG~~dF~--   85 (276)
T d2bv3a2           8 NIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDAPGHVDFT--   85 (276)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETTEEEEEECCCSSSSCS--
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCCeEEEEecCCchhhhH--
Confidence            79999999999999999997765321110  0    0111100000              000011122456655444  


Q ss_pred             hhHHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcC
Q 047225           79 GQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        79 ~~~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~  115 (287)
                      ......++.....|+++|=.+...+.....+...-+.
T Consensus        86 ~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w~~a~~~  122 (276)
T d2bv3a2          86 IEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKY  122 (276)
T ss_dssp             TTHHHHHHHCCEEEEEEETTTSSCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhheEEeccccCCcchhHHHHHHHHHHc
Confidence            3566677778888999999999998887777666654

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=96.23  E-value=0.0023  Score=51.34  Aligned_cols=51  Identities=18%  Similarity=0.257  Sum_probs=32.4

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      ++....++..+. |. +-+|.|..|+|||.++-..+......+.....+-...
T Consensus        92 i~ei~~d~~~~~-~m-~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~Pt~  142 (264)
T d1gm5a3          92 HQEIRNDMISEK-PM-NRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVPTS  142 (264)
T ss_dssp             HHHHHHHHHSSS-CC-CCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECSCH
T ss_pred             HHHHHHHhhccC-cc-eeeeeccccccccHHHHHHHHHHHhcccceeEEeehH
Confidence            344455554432 33 4899999999999988777666544455555554443

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.23  E-value=0.0007  Score=53.64  Aligned_cols=29  Identities=31%  Similarity=0.368  Sum_probs=24.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEA   47 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~   47 (287)
                      .+.|.||+|+||||+.++++....+....
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~~p~~G~   61 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLDVPSTGE   61 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSSCCSEEE
T ss_pred             EEEEECCCCCcHHHHHHHHHcCcCCCCce
Confidence            69999999999999999999987554433

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.22  E-value=0.0059  Score=44.76  Aligned_cols=21  Identities=33%  Similarity=0.700  Sum_probs=19.0

Q ss_pred             EEEeccCCChHHHHHHHHHHH
Q 047225           20 FLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~   40 (287)
                      ++++|.+|+|||++++.+...
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988754

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=96.21  E-value=0.0015  Score=54.31  Aligned_cols=41  Identities=20%  Similarity=0.312  Sum_probs=30.3

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCc--eEEeccc
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEYFGSKEA--MVRIDMS   54 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~--~~~~~~~   54 (287)
                      .++.. .+-++||||+|||||...++..+...+..  ++.+|.+
T Consensus        51 ~~~~~-~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDps   93 (327)
T d2p67a1          51 CGNTL-RLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPS   93 (327)
T ss_dssp             CSCSE-EEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC
T ss_pred             cCCce-EEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCc
Confidence            34444 69999999999999999999888554443  4455554

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=96.20  E-value=0.00078  Score=54.76  Aligned_cols=39  Identities=15%  Similarity=0.261  Sum_probs=29.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      .|.+.|++|+||||+++.+.+.+...+.....+....|.
T Consensus         6 IIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Dsfy   44 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAFH   44 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGGB
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCCCC
Confidence            699999999999999999999886555666677776664

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.17  E-value=0.0066  Score=44.66  Aligned_cols=23  Identities=26%  Similarity=0.488  Sum_probs=19.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++++|++|+|||++++.+...-
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            38999999999999999887643

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.10  E-value=0.0017  Score=49.83  Aligned_cols=23  Identities=26%  Similarity=0.299  Sum_probs=21.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|.||||+|||+++..++...
T Consensus        25 v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          25 ITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            69999999999999999998776

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=96.06  E-value=0.0023  Score=46.82  Aligned_cols=23  Identities=30%  Similarity=0.403  Sum_probs=20.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+|+||+|||+|.+.+...-
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            59999999999999999987653

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.03  E-value=0.0019  Score=49.01  Aligned_cols=21  Identities=33%  Similarity=0.374  Sum_probs=18.9

Q ss_pred             EEEEeccCCChHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~   39 (287)
                      .+.++|++|+||||+|+.|.+
T Consensus         5 IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           5 IIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999954

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.98  E-value=0.0016  Score=52.92  Aligned_cols=26  Identities=38%  Similarity=0.369  Sum_probs=23.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|+||+|+||||+++.|+..+.+.
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl~~p~   89 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGELEAS   89 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCChHHHHHHHHhCCCcCC
Confidence            58999999999999999999887543

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.97  E-value=0.0021  Score=49.52  Aligned_cols=28  Identities=21%  Similarity=0.170  Sum_probs=23.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKE   46 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~   46 (287)
                      -|.|-|+.|+||||+++.|++.+...+.
T Consensus         4 fIviEG~dGsGKsT~~~~L~~~L~~~g~   31 (210)
T d4tmka_           4 YIVIEGLEGAGKTTARNVVVETLEQLGI   31 (210)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCC
Confidence            3788999999999999999998854443

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.96  E-value=0.0021  Score=46.81  Aligned_cols=23  Identities=35%  Similarity=0.486  Sum_probs=20.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++|+|+||+|||+|...+...-
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999987753

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.95  E-value=0.0015  Score=52.38  Aligned_cols=27  Identities=22%  Similarity=0.343  Sum_probs=23.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSK   45 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~   45 (287)
                      .+.|+||+|+||||++++|+..+.+..
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl~~p~~   56 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFLEKPSE   56 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCSE
T ss_pred             EEEEECCCCCcHHHHHHHHHcCccCCC
Confidence            689999999999999999998764433

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.89  E-value=0.0027  Score=50.01  Aligned_cols=23  Identities=39%  Similarity=0.381  Sum_probs=21.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++||||+|||+++-.++...
T Consensus        38 ~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            69999999999999999888765

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.85  E-value=0.0023  Score=48.34  Aligned_cols=30  Identities=27%  Similarity=0.294  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           12 DPNRPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        12 ~~~~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .|+++.--++++|++|+|||+|++.+...-
T Consensus         4 ~~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1           4 GPGALMLKCVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             CCEEEEEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             CCCCcEEEEEEECCCCCCHHHHHHHHhhCC
Confidence            455666569999999999999998887643

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.84  E-value=0.0018  Score=50.72  Aligned_cols=37  Identities=24%  Similarity=0.291  Sum_probs=26.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc------CCCCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF------GSKEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~------~~~~~~~~~~~~~   55 (287)
                      .++|+||||||||+++-.++....      ..+...++++...
T Consensus        36 ~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~   78 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEG   78 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSS
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecc
Confidence            699999999999999988876531      1234555665543

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=95.82  E-value=0.0033  Score=51.98  Aligned_cols=38  Identities=34%  Similarity=0.379  Sum_probs=29.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc--CCCCceEEeccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF--GSKEAMVRIDMSEY   56 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~--~~~~~~~~~~~~~~   56 (287)
                      .+-++||||+||||+...+...+.  +...-++.+|.+..
T Consensus        53 ~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~   92 (323)
T d2qm8a1          53 RVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSST   92 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGG
T ss_pred             EEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccH
Confidence            699999999999999999998763  33445566666543

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=95.80  E-value=0.0024  Score=51.87  Aligned_cols=22  Identities=32%  Similarity=0.457  Sum_probs=16.4

Q ss_pred             EEEEEeccCCChHHHHH-HHHHH
Q 047225           18 SSFLFTGPTGVGKTELA-NALAF   39 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la-~~la~   39 (287)
                      +++++.|+||||||+++ ..++.
T Consensus        15 ~~~lI~g~aGTGKTt~l~~rv~~   37 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVITNKIAH   37 (306)
T ss_dssp             SEEEECCCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEeeCCccHHHHHHHHHHH
Confidence            36899999999999753 44433

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=95.80  E-value=0.028  Score=41.74  Aligned_cols=22  Identities=32%  Similarity=0.431  Sum_probs=19.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++|+|.+|+|||||..+|...
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            5999999999999999998753

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.80  E-value=0.0034  Score=49.37  Aligned_cols=24  Identities=25%  Similarity=0.223  Sum_probs=21.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++|+||||+|||+++..++...
T Consensus        38 ~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          38 AITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             EEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            379999999999999999998764

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=95.78  E-value=0.0025  Score=46.89  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=19.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++|+|++|+|||+|.+.+...
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            5899999999999999998654

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=95.75  E-value=0.0025  Score=47.50  Aligned_cols=26  Identities=27%  Similarity=0.396  Sum_probs=21.1

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHH
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      ++.. -++|+|++|+|||+|...+...
T Consensus        11 ~k~~-kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          11 KKTG-KLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             TCCE-EEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCCC-EEEEECCCCCCHHHHHHHHhCC
Confidence            3444 5999999999999999888554

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=95.72  E-value=0.018  Score=44.72  Aligned_cols=23  Identities=30%  Similarity=0.394  Sum_probs=20.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|+||..+|||++.|.++-..
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l~~   59 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTALIA   59 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCccccchhhhhhHHHH
Confidence            48999999999999999888765

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=95.71  E-value=0.0021  Score=50.86  Aligned_cols=27  Identities=30%  Similarity=0.277  Sum_probs=23.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSK   45 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~   45 (287)
                      .+.|.||.|+||||+.++++..+.+..
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl~~p~~   60 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGLVRAQK   60 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCSE
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCCc
Confidence            689999999999999999999885543

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.70  E-value=0.0029  Score=48.36  Aligned_cols=22  Identities=36%  Similarity=0.620  Sum_probs=20.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++|+|+||+|||||...|...
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6999999999999999999765

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.70  E-value=0.048  Score=38.50  Aligned_cols=93  Identities=11%  Similarity=-0.014  Sum_probs=46.2

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccccc-cchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEK-HTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEI   98 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDei   98 (287)
                      -+++||=.+|||+-.-..++.+...+..+..++....... .......+.....................  .+++|||+
T Consensus         5 ~li~GpMfsGKTt~Li~~~~~~~~~g~~v~~ikp~~D~R~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--d~I~IDEa   82 (133)
T d1xbta1           5 QVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQEALGV--AVIGIDEG   82 (133)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETTCCC--------------CEEESSGGGGHHHHHTC--SEEEESSG
T ss_pred             EEEEecccCHHHHHHHHHHHHHHHcCCcEEEEecccccCCcceeeecCCCcceeeeeechhhhhhhhccc--ceEEeehh
Confidence            5678999999997444444444334555666654322211 11100000000001111122344445444  49999999


Q ss_pred             ccccHHHHHHHHHhhcC
Q 047225           99 EKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        99 d~~~~~~~~~L~~~l~~  115 (287)
                      ..++ ++......+.+.
T Consensus        83 QFf~-dl~~~~~~~~~~   98 (133)
T d1xbta1          83 QFFP-DIVEFCEAMANA   98 (133)
T ss_dssp             GGCT-THHHHHHHHHHT
T ss_pred             HHHH-HHHHHHHHHHhc
Confidence            9997 555555555554

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.69  E-value=0.003  Score=46.55  Aligned_cols=22  Identities=18%  Similarity=0.336  Sum_probs=19.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++|+|++|+|||+|+..+...
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999887753

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=95.67  E-value=0.0013  Score=52.56  Aligned_cols=26  Identities=31%  Similarity=0.397  Sum_probs=22.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.++||+|+||||+++.|+..+.+.
T Consensus        46 ~vaivG~sGsGKSTLl~ll~gl~~p~   71 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPRFYDVT   71 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHHhcCCcc
Confidence            58999999999999999998877443

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.64  E-value=0.022  Score=47.20  Aligned_cols=111  Identities=17%  Similarity=0.167  Sum_probs=68.8

Q ss_pred             hhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCC----CceE-------------Eeccccccc-------
Q 047225            3 LERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSK----EAMV-------------RIDMSEYME-------   58 (287)
Q Consensus         3 ~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~----~~~~-------------~~~~~~~~~-------   58 (287)
                      ++..+..+.++..-+ |+++.|..|+|||||+..|......-.    ....             ++..+...-       
T Consensus         4 ~~~~~~lm~~~~~IR-NI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~   82 (341)
T d1n0ua2           4 VDQMRSLMDKVTNVR-NMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDE   82 (341)
T ss_dssp             HHHHHHHHHCGGGEE-EEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHH
T ss_pred             HHHHHHHhcCcccCc-EEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcc
Confidence            455666666766544 699999999999999999976542110    0000             000000000       


Q ss_pred             ----------ccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcCc
Q 047225           59 ----------KHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        59 ----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~~  116 (287)
                                .....--+-+.||+..+.  .....+++.....+|++|=.+...+.....+....+.+
T Consensus        83 ~~~~~~~~~~~~~~~inliDtPGh~dF~--~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~~~  148 (341)
T d1n0ua2          83 DVKEIKQKTDGNSFLINLIDSPGHVDFS--SEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGER  148 (341)
T ss_dssp             HHHHCSSCCCSSEEEEEEECCCCCCSSC--HHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHHTT
T ss_pred             cccchhccccccceEEEEEcCCCcHHHH--HHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHHcC
Confidence                      000000112445554433  46677788888899999999999999999998888764

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.63  E-value=0.0032  Score=46.65  Aligned_cols=22  Identities=32%  Similarity=0.406  Sum_probs=19.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      -++++|++|+|||+|+..+...
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3899999999999999988764

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=95.62  E-value=0.022  Score=45.52  Aligned_cols=94  Identities=17%  Similarity=0.222  Sum_probs=55.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEe-cccccccccch--------------------hhhhCCCCCCCcccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRI-DMSEYMEKHTV--------------------SKFFGSPPGYVGFEN   77 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~-~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~   77 (287)
                      |+.+.|..|+|||||+.+|......... .-.+ +.+.+.+....                    .-.+-+.||+..+  
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~g~~~~-~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~~~~n~iDtPGh~dF--   80 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKTGAKER-RGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDF--   80 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSSSS-CCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGG--
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHcCCchh-hccchhccccccchHHHHHhCCeEEeecccccccccceeEEccCchhhh--
Confidence            7999999999999999999655421110 0000 00111110000                    0011133454322  


Q ss_pred             hhhHHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcC
Q 047225           78 GGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        78 ~~~~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~  115 (287)
                      .......++.....++++|=.+.........+....+.
T Consensus        81 ~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~~~~~  118 (267)
T d2dy1a2          81 VGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAERL  118 (267)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHT
T ss_pred             hhhhhhhhcccCceEEEeeccCCccchhHHHHHhhhhc
Confidence            23556677778888999999988888887777766664

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.60  E-value=0.0035  Score=48.02  Aligned_cols=23  Identities=35%  Similarity=0.314  Sum_probs=20.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +|+|+|+||+|||+|...+...-
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            59999999999999999997643

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.59  E-value=0.0034  Score=46.34  Aligned_cols=23  Identities=26%  Similarity=0.398  Sum_probs=20.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++|+|++|+|||+|+..+...-
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            38999999999999999887653

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=95.58  E-value=0.0055  Score=49.49  Aligned_cols=40  Identities=28%  Similarity=0.413  Sum_probs=33.6

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      .|. .+++.|.-|+||||++-.+|..+...+.+...+++..
T Consensus         7 ~p~-~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~Dp   46 (296)
T d1ihua1           7 IPP-YLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTDP   46 (296)
T ss_dssp             CCS-EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECCT
T ss_pred             CCe-EEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCCC
Confidence            354 6889999999999999999999976677888888764

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=95.57  E-value=0.024  Score=40.59  Aligned_cols=97  Identities=16%  Similarity=0.188  Sum_probs=50.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc--cccchhhhhCCCCCCCcccchhhHHHHHHhCCcEEEEEc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM--EKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFD   96 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iD   96 (287)
                      -=+++||=.+|||+-.-..++.+...+.++..++.....  ....+....|.............+.+... ....+++||
T Consensus         9 l~lI~GpMfSGKTteLi~~~~~~~~~g~~vl~i~~~~D~Ry~~~~i~sh~g~~~~a~~~~~~~~~~~~~~-~~~dvI~ID   87 (141)
T d1xx6a1           9 VEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAIKNSREILKYFE-EDTEVIAID   87 (141)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEECTTSCEEECEEESSSTHHHHHCC-TTCSEEEEC
T ss_pred             EEEEEeccccHHHHHHHHHHHHhhhcCCcEEEEEeccccccccceeeecccceEEEEEecchhhhhhhhc-ccccEEEEe
Confidence            356799999999974444444443335566655543211  11112111111111111111223333322 234699999


Q ss_pred             CcccccHHHHHHHHHhhcCc
Q 047225           97 EIEKAHRDVLNVMLQLLDDG  116 (287)
Q Consensus        97 eid~~~~~~~~~L~~~l~~~  116 (287)
                      |+..++......+..+.+.+
T Consensus        88 E~QFf~d~~~~~~~~l~~~g  107 (141)
T d1xx6a1          88 EVQFFDDEIVEIVNKIAESG  107 (141)
T ss_dssp             SGGGSCTHHHHHHHHHHHTT
T ss_pred             ehhhccccHHHHHHhheeCC
Confidence            99999887777777776653

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.55  E-value=0.0037  Score=48.91  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=22.3

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHhc
Q 047225           18 SSFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      ..++|.|+||+|||+++..++....
T Consensus        35 ~l~~i~G~~G~GKT~~~l~~a~~~~   59 (258)
T d2i1qa2          35 SVTEFAGVFGSGKTQIMHQSCVNLQ   59 (258)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            3699999999999999999998773

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.51  E-value=0.0036  Score=46.40  Aligned_cols=23  Identities=30%  Similarity=0.478  Sum_probs=20.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++|+|++|+|||+|++.+...-
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            38999999999999999988643

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=95.47  E-value=0.0029  Score=50.50  Aligned_cols=26  Identities=31%  Similarity=0.409  Sum_probs=23.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+.|.||.|+||||+++.++..+.+.
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl~~p~   57 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGFLKAD   57 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHHCCCcCC
Confidence            58999999999999999999987554

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.47  E-value=0.0033  Score=49.04  Aligned_cols=22  Identities=36%  Similarity=0.463  Sum_probs=19.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      ..+|+|++|+|||||..+|...
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTT
T ss_pred             eEEEECCCCCCHHHHHHhhcch
Confidence            5789999999999999998643

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=95.45  E-value=0.0045  Score=45.51  Aligned_cols=23  Identities=26%  Similarity=0.296  Sum_probs=19.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++|.|++|+|||++...+...-
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            48899999999999999886644

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.45  E-value=0.0041  Score=46.02  Aligned_cols=23  Identities=26%  Similarity=0.387  Sum_probs=20.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++++|++|+|||+|++.+...-
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            38999999999999999887654

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.44  E-value=0.0038  Score=46.94  Aligned_cols=22  Identities=32%  Similarity=0.424  Sum_probs=19.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      -++++|++|+|||++++.+...
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3899999999999999888753

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.42  E-value=0.0042  Score=46.13  Aligned_cols=22  Identities=32%  Similarity=0.549  Sum_probs=19.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      -++++|++|+|||++++.+...
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4899999999999999988653

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=95.40  E-value=0.0041  Score=46.08  Aligned_cols=22  Identities=36%  Similarity=0.523  Sum_probs=19.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++++|++|+|||||++.|...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999753

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.39  E-value=0.0042  Score=46.01  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=19.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      -++|+|.+|+|||+|.+.+...
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3999999999999999988764

>d1qzma_ c.37.1.20 (A:) ATPase domain of protease Lon (La) {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: ATPase domain of protease Lon (La)
species: Escherichia coli [TaxId: 562]

Probab=95.38  E-value=0.076  Score=34.94  Aligned_cols=80  Identities=21%  Similarity=0.319  Sum_probs=55.1

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHhcCc---EEEeChhHHHHHHHhccCCCCCchhHHHHHHHHHHHHHHHHHHhccCCCC
Q 047225          183 QLNKMQLMEIVDIMLKEIYERLEAKNM---ELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLAEIILTGYIQVG  259 (287)
Q Consensus       183 ~~~~~~~~~il~~~l~~~~~~~~~~~~---~~~i~~~~~~~l~~~~~~~~~~~r~l~~~i~~~~~~~~~~~~~~~~~~~~  259 (287)
                      -++.+|-.+|.+.+|-  ...+...|.   .+.++++++.++.+. |....|+|.|++.+..++.....+...+..   .
T Consensus         2 GYt~~EK~~Iak~yLi--Pk~l~~~gl~~~~i~i~~~~l~~iI~~-YtrEaGVR~Ler~i~~I~Rk~a~~~~~~~~---~   75 (94)
T d1qzma_           2 GYTEDEKLNIAKRHLL--PKQIERNALKKGELTVDDSAIIGIIRY-YTREAGVRGLEREISKLCRKAVKQLLLDKS---L   75 (94)
T ss_dssp             CCCHHHHHHHHHHTHH--HHHHHHTTCCTTTEEECHHHHHHHHHH-HCCCSSSHHHHHHHHHHHHHHHHHHHTCTT---C
T ss_pred             CCCHHHHHHHHHHHhH--HHHHHHhccccccccchHHHHHHHHHH-HccHHHHHHHHHHHHHHHHHHHHHHHhCCC---C
Confidence            3567888889988873  223333333   499999999999985 677789999999999998876554433322   2


Q ss_pred             CEEEEEEcC
Q 047225          260 DSVTMDCDS  268 (287)
Q Consensus       260 ~~~~i~~~~  268 (287)
                      .++.|+.++
T Consensus        76 ~~~~i~~~~   84 (94)
T d1qzma_          76 KHIEINGDN   84 (94)
T ss_dssp             CCEEECTTT
T ss_pred             CCeeeCHHH
Confidence            345555443

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.38  E-value=0.0044  Score=45.71  Aligned_cols=22  Identities=27%  Similarity=0.299  Sum_probs=19.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      -++|+|.+|+|||++++.+...
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999988764

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=95.36  E-value=0.0042  Score=46.42  Aligned_cols=22  Identities=32%  Similarity=0.560  Sum_probs=19.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .|+|+|+||+|||||..+|...
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999753

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.34  E-value=0.0064  Score=45.13  Aligned_cols=23  Identities=30%  Similarity=0.543  Sum_probs=20.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++++|++|+|||+|++.+...-
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            59999999999999998877643

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=95.31  E-value=0.0043  Score=53.19  Aligned_cols=36  Identities=33%  Similarity=0.485  Sum_probs=28.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      |++++|++|+|||++++.+...+...+..++.+|..
T Consensus        52 H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD~k   87 (433)
T d1e9ra_          52 HLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDPN   87 (433)
T ss_dssp             CEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEET
T ss_pred             eEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            699999999999999887776665556677777763

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=95.29  E-value=0.0051  Score=45.85  Aligned_cols=23  Identities=30%  Similarity=0.300  Sum_probs=20.5

Q ss_pred             EEEEEeccCCChHHHHHHHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      +.|+|+|.+|+|||++++.|...
T Consensus         6 ~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           6 GFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46999999999999999999754

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.28  E-value=0.0048  Score=45.41  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=20.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++++|++|+|||++++.+...-
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            48999999999999999887643

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.28  E-value=0.005  Score=45.18  Aligned_cols=22  Identities=27%  Similarity=0.394  Sum_probs=19.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      -++++|++|+|||++++.+...
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999988764

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=95.27  E-value=0.0063  Score=44.95  Aligned_cols=25  Identities=24%  Similarity=0.603  Sum_probs=20.9

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHH
Q 047225           16 PISSFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~   40 (287)
                      |..-++++|++|+|||++++.+...
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhC
Confidence            4445999999999999999988653

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.26  E-value=0.0045  Score=45.80  Aligned_cols=21  Identities=29%  Similarity=0.360  Sum_probs=18.7

Q ss_pred             EEEeccCCChHHHHHHHHHHH
Q 047225           20 FLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~   40 (287)
                      ++++|++|+|||+|++.+...
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            889999999999999887653

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=95.26  E-value=0.0048  Score=46.14  Aligned_cols=22  Identities=45%  Similarity=0.611  Sum_probs=19.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++|.|++|+|||+++-.+...
T Consensus        16 gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          16 GVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHc
Confidence            4999999999999999887764

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.25  E-value=0.005  Score=45.35  Aligned_cols=22  Identities=23%  Similarity=0.262  Sum_probs=19.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      -++++|++|+|||+|++.+...
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998754

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.23  E-value=0.0052  Score=46.10  Aligned_cols=22  Identities=36%  Similarity=0.572  Sum_probs=19.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      -++++|.+|||||++++.+...
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999988763

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.23  E-value=0.0022  Score=50.32  Aligned_cols=23  Identities=22%  Similarity=0.286  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -|.|-|+.|+||||+++.|++.+
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            48999999999999999999987

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.16  E-value=0.0055  Score=45.46  Aligned_cols=22  Identities=32%  Similarity=0.517  Sum_probs=19.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      -++++|++|+|||+++..+...
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999988653

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=95.16  E-value=0.0058  Score=44.55  Aligned_cols=22  Identities=36%  Similarity=0.486  Sum_probs=19.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++|+|+||+|||+|.++|...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999754

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.12  E-value=0.006  Score=44.95  Aligned_cols=23  Identities=26%  Similarity=0.437  Sum_probs=20.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++++|.+|+|||++++.+...-
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            48999999999999999887654

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.11  E-value=0.0053  Score=45.37  Aligned_cols=22  Identities=36%  Similarity=0.481  Sum_probs=18.8

Q ss_pred             EEEeccCCChHHHHHHHHHHHh
Q 047225           20 FLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ++++|++|+|||++++.+...-
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~~   25 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGVE   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC-
T ss_pred             EEEECCCCcCHHHHHHHHhCCc
Confidence            7899999999999999886543

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.10  E-value=0.0061  Score=44.90  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=19.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++|+|.+|+|||++.+.+...-
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            48999999999999999887643

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.10  E-value=0.0062  Score=45.17  Aligned_cols=22  Identities=32%  Similarity=0.350  Sum_probs=20.0

Q ss_pred             EEEEEeccCCChHHHHHHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~   39 (287)
                      +.|.|+|.||+|||||.++|..
T Consensus         6 ~~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           6 GFIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4689999999999999999975

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=95.09  E-value=0.0048  Score=46.15  Aligned_cols=22  Identities=41%  Similarity=0.602  Sum_probs=19.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++|.|++|+|||+++-.+...
T Consensus        17 gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          17 GVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHc
Confidence            4999999999999999888654

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.08  E-value=0.0065  Score=47.56  Aligned_cols=24  Identities=25%  Similarity=0.386  Sum_probs=22.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      -|.|-|+.|+||||+++.|++.+.
T Consensus         4 ~IviEG~~GsGKST~~~~L~~~l~   27 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHh
Confidence            589999999999999999999883

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=95.08  E-value=0.012  Score=47.09  Aligned_cols=36  Identities=14%  Similarity=0.259  Sum_probs=28.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh-cCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEY-FGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l-~~~~~~~~~~~~~   54 (287)
                      .++|.|+||+|||+++..++..+ ...+.++.++++.
T Consensus        37 l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~E   73 (277)
T d1cr2a_          37 VIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLE   73 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEESS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeeec
Confidence            68999999999999999888654 3446677777664

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.07  E-value=0.006  Score=45.39  Aligned_cols=23  Identities=22%  Similarity=0.225  Sum_probs=19.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++++|++|+|||+|+..+...-
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            38899999999999998887654

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=95.06  E-value=0.019  Score=46.33  Aligned_cols=23  Identities=22%  Similarity=0.215  Sum_probs=16.4

Q ss_pred             EEEEeccCCChHHH--HHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTE--LANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~--la~~la~~l   41 (287)
                      ++++.+|+|+|||+  +...+....
T Consensus        11 ~~lv~~~TGsGKT~~~l~~~~~~~~   35 (305)
T d2bmfa2          11 LTIMDLHPGAGKTKRYLPAIVREAI   35 (305)
T ss_dssp             EEEECCCTTSSTTTTHHHHHHHHHH
T ss_pred             cEEEEECCCCCHHHHHHHHHHHHHH
Confidence            68999999999995  334443333

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.05  E-value=0.0084  Score=46.31  Aligned_cols=24  Identities=29%  Similarity=0.256  Sum_probs=22.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      -|.|-|+.|+||||+++.|++.+.
T Consensus         5 ~I~iEG~DGsGKST~~~~L~~~L~   28 (214)
T d1tmka_           5 LILIEGLDRTGKTTQCNILYKKLQ   28 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHH
Confidence            488999999999999999999984

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.05  E-value=0.0064  Score=45.11  Aligned_cols=22  Identities=32%  Similarity=0.536  Sum_probs=19.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      -++++|++|+|||+++..+...
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999887664

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.04  E-value=0.0065  Score=44.88  Aligned_cols=21  Identities=33%  Similarity=0.444  Sum_probs=18.9

Q ss_pred             EEEeccCCChHHHHHHHHHHH
Q 047225           20 FLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~   40 (287)
                      ++++|++|+|||++++.+...
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999987664

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.02  E-value=0.007  Score=46.86  Aligned_cols=36  Identities=25%  Similarity=0.367  Sum_probs=24.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHH-hcCCCCceEEeccc
Q 047225           19 SFLFTGPTGVGKTELANALAFE-YFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~-l~~~~~~~~~~~~~   54 (287)
                      .++|+|+||+|||+++..++.. .........+++..
T Consensus        28 ~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~e   64 (242)
T d1tf7a1          28 STLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFE   64 (242)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHHhcCCCccccccc
Confidence            6999999999999999766543 22223344455443

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.01  E-value=0.0067  Score=44.78  Aligned_cols=23  Identities=17%  Similarity=0.340  Sum_probs=19.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++++|++|+|||+|+..+...-
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            48999999999999999877643

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.00  E-value=0.0067  Score=45.17  Aligned_cols=23  Identities=30%  Similarity=0.475  Sum_probs=20.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++++|++|+|||++++.+...-
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            49999999999999999887643

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=94.97  E-value=0.22  Score=36.46  Aligned_cols=21  Identities=29%  Similarity=0.306  Sum_probs=19.6

Q ss_pred             EEEEeccCCChHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~   39 (287)
                      ++.++|.|++|||||..+|..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            699999999999999999975

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.95  E-value=0.0066  Score=45.01  Aligned_cols=22  Identities=41%  Similarity=0.563  Sum_probs=19.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      -++|+|++|+|||+|++.+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999988653

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=94.94  E-value=0.0066  Score=46.52  Aligned_cols=21  Identities=38%  Similarity=0.422  Sum_probs=18.5

Q ss_pred             EEEEeccCCChHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~   39 (287)
                      .+.++|++||||||+++.+.+
T Consensus         4 iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           4 IVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            477999999999999998864

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=94.93  E-value=0.0075  Score=46.33  Aligned_cols=21  Identities=43%  Similarity=0.526  Sum_probs=18.7

Q ss_pred             EEEEeccCCChHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~   39 (287)
                      .+.++|++|+||||+++.+.+
T Consensus         5 iIgitG~igSGKStv~~~l~~   25 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFAD   25 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHHH
Confidence            477999999999999998864

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.92  E-value=0.0069  Score=45.88  Aligned_cols=21  Identities=33%  Similarity=0.531  Sum_probs=19.0

Q ss_pred             EEEeccCCChHHHHHHHHHHH
Q 047225           20 FLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~   40 (287)
                      ++++|++|+|||++++.+...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            899999999999999988754

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=94.91  E-value=0.0062  Score=49.78  Aligned_cols=23  Identities=26%  Similarity=0.507  Sum_probs=17.0

Q ss_pred             EEEEeccCCChHHHH-HHHHHHHh
Q 047225           19 SFLFTGPTGVGKTEL-ANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~l-a~~la~~l   41 (287)
                      ++++.|+||||||++ +..++..+
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~~ll   49 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIAYLM   49 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEecCCccHHHHHHHHHHHHH
Confidence            588999999999964 44454444

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=94.87  E-value=0.0041  Score=48.65  Aligned_cols=23  Identities=43%  Similarity=0.736  Sum_probs=18.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..+|.|++|+|||||+.+|....
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             eEEEECCCCccHHHHHHhhccHh
Confidence            46799999999999999986543

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.86  E-value=0.0076  Score=45.10  Aligned_cols=23  Identities=26%  Similarity=0.254  Sum_probs=20.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++++|.+|+|||++++.+...-
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            49999999999999998887653

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=94.84  E-value=0.0073  Score=44.82  Aligned_cols=22  Identities=41%  Similarity=0.582  Sum_probs=19.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .++|.|++|+|||+++-.+.+.
T Consensus        17 gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          17 GVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHc
Confidence            4999999999999999887765

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=94.84  E-value=0.044  Score=39.41  Aligned_cols=22  Identities=36%  Similarity=0.525  Sum_probs=19.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      .+.|+|.||+|||+++++|...
T Consensus         2 kI~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999765

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=94.81  E-value=0.0082  Score=47.91  Aligned_cols=23  Identities=35%  Similarity=0.375  Sum_probs=20.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..+|+|+||+|||+++-.+|..+
T Consensus        31 ~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          31 VGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            57899999999999999888765

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=94.81  E-value=0.0054  Score=45.67  Aligned_cols=22  Identities=27%  Similarity=0.419  Sum_probs=19.4

Q ss_pred             EEEEEeccCCChHHHHHHHHHH
Q 047225           18 SSFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~   39 (287)
                      ..|.|+|.|++|||+|.++|..
T Consensus        17 ~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          17 IEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             EEEEEEECTTSSHHHHHTTTCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4699999999999999988854

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=94.80  E-value=0.0082  Score=44.81  Aligned_cols=26  Identities=31%  Similarity=0.530  Sum_probs=20.8

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHH
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~   39 (287)
                      ..+.. .++++|++|+|||++.+.+..
T Consensus        14 ~~k~~-KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          14 SNKEL-RILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             CSSCE-EEEEEEETTSSHHHHHHHTCC
T ss_pred             CCceE-EEEEECCCCCCHHHHHHHHhc
Confidence            34444 699999999999999988743

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.79  E-value=0.033  Score=47.18  Aligned_cols=23  Identities=35%  Similarity=0.478  Sum_probs=20.6

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHH
Q 047225           16 PISSFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~   39 (287)
                      |+ +|.++|.||+|||++..+|..
T Consensus        56 ~l-~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          56 VL-NVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CE-EEEEEECTTSSHHHHHHHHHT
T ss_pred             Cc-EEEEECCCCCCHHHHHHHHhC
Confidence            45 699999999999999999974

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=94.78  E-value=0.0061  Score=47.79  Aligned_cols=23  Identities=30%  Similarity=0.449  Sum_probs=20.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .+.|.||.|+||||+.+.++...
T Consensus        27 i~~iiG~nGaGKSTLl~~l~Gl~   49 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAGMT   49 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            58899999999999999999854

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.73  E-value=0.0084  Score=44.80  Aligned_cols=23  Identities=26%  Similarity=0.423  Sum_probs=19.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++|+|++|+|||++++.+...-
T Consensus         4 KivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            48999999999999998887654

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=94.72  E-value=0.012  Score=44.95  Aligned_cols=36  Identities=25%  Similarity=0.178  Sum_probs=31.1

Q ss_pred             EEEEecc-CCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFTGP-TGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~Gp-~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .++++|- +|+|||+++-.||..+...+.....++..
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id~d   39 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKPV   39 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEECSE
T ss_pred             eEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEECcc
Confidence            5899999 59999999999999997778888888753

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.72  E-value=0.009  Score=46.48  Aligned_cols=26  Identities=42%  Similarity=0.528  Sum_probs=22.8

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      |.+..+++|.-|+||||+.+.+.+..
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            56789999999999999999988764

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=94.70  E-value=0.0062  Score=45.13  Aligned_cols=21  Identities=29%  Similarity=0.439  Sum_probs=18.9

Q ss_pred             EEEEeccCCChHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~   39 (287)
                      .++++|++|+|||++.+.+..
T Consensus        14 kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            599999999999999998754

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.56  E-value=0.014  Score=42.93  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=19.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      -++++|++|+|||++++.+...
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999988764

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.52  E-value=0.01  Score=44.79  Aligned_cols=23  Identities=26%  Similarity=0.255  Sum_probs=19.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++++|++|+|||+++..+...-
T Consensus         5 KvvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            38999999999999998876544

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.50  E-value=0.0051  Score=45.91  Aligned_cols=21  Identities=24%  Similarity=0.301  Sum_probs=18.9

Q ss_pred             EEEEeccCCChHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~   39 (287)
                      .+.|+|.||+|||||.+.|..
T Consensus         3 ~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999864

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.50  E-value=0.0056  Score=45.43  Aligned_cols=21  Identities=33%  Similarity=0.523  Sum_probs=8.6

Q ss_pred             EEEeccCCChHHHHHHHHHHH
Q 047225           20 FLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~   40 (287)
                      ++++|.+|||||+|++.+...
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999877653

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=94.48  E-value=0.012  Score=46.11  Aligned_cols=32  Identities=19%  Similarity=0.364  Sum_probs=25.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      .+.|+|+.||||||+|+.|++.+   +  +..+++++
T Consensus         3 iIgiTG~igSGKsTva~~l~e~~---g--~~~i~~aD   34 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMSNY---S--AVKYQLAG   34 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS---C--EEECCTTH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC---C--CeEEcccH
Confidence            48899999999999999998875   2  44555443

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.43  E-value=0.0063  Score=45.04  Aligned_cols=21  Identities=24%  Similarity=0.408  Sum_probs=17.4

Q ss_pred             EEEeccCCChHHHHHHHHHHH
Q 047225           20 FLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~   40 (287)
                      ++++|++|+|||+++..+...
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999877654

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=94.34  E-value=0.008  Score=44.96  Aligned_cols=21  Identities=24%  Similarity=0.319  Sum_probs=18.8

Q ss_pred             EEEEeccCCChHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~   39 (287)
                      .|.|+|+|++|||||...|..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999998854

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=94.27  E-value=0.017  Score=46.06  Aligned_cols=38  Identities=24%  Similarity=0.243  Sum_probs=32.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      .+++.|.-|+||||++-.||..+...+.+...+|+...
T Consensus        22 iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~Dp~   59 (279)
T d1ihua2          22 LIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDPA   59 (279)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESCCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCCC
Confidence            58999999999999999999888666778888888754

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.26  E-value=0.21  Score=37.72  Aligned_cols=98  Identities=13%  Similarity=0.142  Sum_probs=53.9

Q ss_pred             CcEEEEEeccCCChHHHHHHHHHHHhcCCC--Cce----------------EEecccccc-cccchhhhhCCCCCCCccc
Q 047225           16 PISSFLFTGPTGVGKTELANALAFEYFGSK--EAM----------------VRIDMSEYM-EKHTVSKFFGSPPGYVGFE   76 (287)
Q Consensus        16 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~--~~~----------------~~~~~~~~~-~~~~~~~~~~~~~~~~~~~   76 (287)
                      |--|+.+.|-+++|||||+.+|........  ...                ++++..... ......-.+-+.||+..+.
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~~~i~iiDtPGh~df~   81 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYI   81 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGH
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCCeEEEEEeCCCchhhH
Confidence            423799999999999999999965431110  000                011110000 0000001111334443222


Q ss_pred             chhhHHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcC
Q 047225           77 NGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        77 ~~~~~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~  115 (287)
                        ......++.....+|++|=.+...+.....+.-+...
T Consensus        82 --~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~~~~~~  118 (204)
T d2c78a3          82 --KNMITGAAQMDGAILVVSAADGPMPQTREHILLARQV  118 (204)
T ss_dssp             --HHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHT
T ss_pred             --HHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHc
Confidence              3455667777889999998888888766655555543

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=94.08  E-value=0.054  Score=41.88  Aligned_cols=95  Identities=18%  Similarity=0.134  Sum_probs=50.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCC--------ceEEeccccccc------------ccchhhhhCCCCCCCcccch
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKE--------AMVRIDMSEYME------------KHTVSKFFGSPPGYVGFENG   78 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~--------~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~   78 (287)
                      .+.+.|-+.+|||||+.+|.........        ............            .....-.+-+.+|+..+.. 
T Consensus         7 ~IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~-   85 (227)
T d1g7sa4           7 IVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTT-   85 (227)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTT-
T ss_pred             EEEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccc-
Confidence            5999999999999999999775421110        011111000000            0000011113344332221 


Q ss_pred             hhHHHHHHhCCcEEEEEcCcccccHHHHHHHHHhhcC
Q 047225           79 GQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDD  115 (287)
Q Consensus        79 ~~~~~~~~~~~~~il~iDeid~~~~~~~~~L~~~l~~  115 (287)
                       .....+......++++|=.+.+.+.....+..+.+.
T Consensus        86 -~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~  121 (227)
T d1g7sa4          86 -LRKRGGALADLAILIVDINEGFKPQTQEALNILRMY  121 (227)
T ss_dssp             -SBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHT
T ss_pred             -cchhcccccceEEEEEecccCcccchhHHHHHhhcC
Confidence             112234445668999998888888877766666554

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=93.97  E-value=0.024  Score=45.01  Aligned_cols=39  Identities=13%  Similarity=0.224  Sum_probs=33.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      .|.++|--|+||||++-.||..+...+.+...+|+....
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D~q~   41 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKA   41 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEECTTS
T ss_pred             EEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecCCCC
Confidence            367899999999999999999997778889999987654

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=93.95  E-value=0.0098  Score=47.35  Aligned_cols=22  Identities=36%  Similarity=0.554  Sum_probs=20.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      +++|+|.||+|||++...|...
T Consensus        34 ~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          34 TILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            6999999999999999999754

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.93  E-value=0.014  Score=43.92  Aligned_cols=19  Identities=21%  Similarity=0.443  Sum_probs=17.9

Q ss_pred             EEEEeccCCChHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANAL   37 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~l   37 (287)
                      -++|.|.+|+|||++++.+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4899999999999999998

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=93.71  E-value=0.0073  Score=45.42  Aligned_cols=25  Identities=20%  Similarity=0.312  Sum_probs=22.0

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCC
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGS   44 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~   44 (287)
                      .+|+||.|+|||++..+|.-.+.+.
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L~g~   51 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTALIPD   51 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHSCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Confidence            6789999999999999999888554

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.63  E-value=0.026  Score=41.86  Aligned_cols=24  Identities=17%  Similarity=0.138  Sum_probs=20.6

Q ss_pred             EEEEEeccCCChHHHHHHHHHHHh
Q 047225           18 SSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        18 ~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -.++++|++|+|||+++..+...-
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            469999999999999999876644

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=93.34  E-value=0.03  Score=46.19  Aligned_cols=25  Identities=24%  Similarity=0.404  Sum_probs=22.8

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      .|.|-|+-|+||||+++.|++.+..
T Consensus         8 rI~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           8 RIYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             EEEEECCccCCHHHHHHHHHHHhcc
Confidence            5899999999999999999999854

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=93.33  E-value=0.021  Score=47.13  Aligned_cols=30  Identities=20%  Similarity=0.389  Sum_probs=24.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCce
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAM   48 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~   48 (287)
                      .|.|-|+-|+||||+++.|++.+...+..+
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l~~~g~~v   36 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHFAITPNRI   36 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTTTTSGGGE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcCCce
Confidence            488999999999999999999885443333

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=93.24  E-value=0.021  Score=44.07  Aligned_cols=22  Identities=18%  Similarity=0.389  Sum_probs=19.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHH
Q 047225           19 SFLFTGPTGVGKTELANALAFE   40 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~   40 (287)
                      -++|.|++|+|||++++.+...
T Consensus         8 KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999988543

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.22  E-value=0.18  Score=40.07  Aligned_cols=39  Identities=26%  Similarity=0.147  Sum_probs=28.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC-CCCceEEecccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG-SKEAMVRIDMSEYM   57 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~-~~~~~~~~~~~~~~   57 (287)
                      .++++|++|+|||+++..+++.... .....++.-+.+..
T Consensus        70 r~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~~iGer~  109 (276)
T d2jdid3          70 KIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERT  109 (276)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEEEESCCH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHHHhhCCCeEEEEEeccCh
Confidence            4899999999999999999887532 23345555555544

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=93.14  E-value=0.022  Score=45.88  Aligned_cols=24  Identities=29%  Similarity=0.281  Sum_probs=21.7

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      ..+++|++|||||+++..+++...
T Consensus        45 r~~I~g~~g~GKT~l~~~i~~~~~   68 (289)
T d1xpua3          45 RGLIVAPPKAGKTMLLQNIAQSIA   68 (289)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             eeeEeCCCCCCHHHHHHHHHHHHh
Confidence            589999999999999999998763

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.08  E-value=0.026  Score=42.20  Aligned_cols=23  Identities=17%  Similarity=0.319  Sum_probs=20.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -+++.|..|+|||++.+.+...-
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999986654

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: DNA helicase UvsW
domain: DNA helicase UvsW
species: Bacteriophage T4 [TaxId: 10665]

Probab=92.95  E-value=0.17  Score=40.43  Aligned_cols=23  Identities=26%  Similarity=0.371  Sum_probs=18.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..++.-|+|+|||.++-.++..+
T Consensus       130 ~~il~~pTGsGKT~i~~~i~~~~  152 (282)
T d1rifa_         130 RRILNLPTSAGRSLIQALLARYY  152 (282)
T ss_dssp             EEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CceeEEEcccCccHHHHHHHHHh
Confidence            46778899999999887777654

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=92.48  E-value=0.032  Score=41.46  Aligned_cols=23  Identities=17%  Similarity=0.349  Sum_probs=19.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      -++|+|..|+|||++++.+...-
T Consensus         4 KivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            48999999999999998876543

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=92.34  E-value=0.28  Score=35.40  Aligned_cols=34  Identities=21%  Similarity=0.202  Sum_probs=24.4

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      +.++=-+|=||||.|-.+|-+..+.+.++..+..
T Consensus         5 i~vytG~GKGKTTAAlG~alRA~G~G~rV~ivQF   38 (157)
T d1g5ta_           5 IIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQF   38 (157)
T ss_dssp             EEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEEeCCCCCcHHHHHHHHHHHhcCCCEEEEEEE
Confidence            5566668999999998888776555666655544

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=91.96  E-value=0.031  Score=45.94  Aligned_cols=25  Identities=28%  Similarity=0.337  Sum_probs=19.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcC
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFG   43 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~   43 (287)
                      .|.|-|+-|+||||+++.|++.+..
T Consensus         6 rI~IEG~iGsGKTTl~~~La~~l~~   30 (329)
T d1e2ka_           6 RVYIDGPHGMGKTTTTQLLVALGSR   30 (329)
T ss_dssp             EEEECSCTTSSHHHHHHHHTC----
T ss_pred             EEEEECCcCCCHHHHHHHHHHHhCC
Confidence            4889999999999999999988743

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=91.93  E-value=0.35  Score=36.20  Aligned_cols=27  Identities=26%  Similarity=0.258  Sum_probs=22.3

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           15 RPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      +|--|+.+.|-+..|||||+..|...+
T Consensus         1 kp~ini~iiGHvd~GKSTL~~~l~~~~   27 (196)
T d1d2ea3           1 KPHVNVGTIGHVDHGKTTLTAAITKIL   27 (196)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHH
Confidence            353479999999999999999987643

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=91.89  E-value=0.055  Score=43.32  Aligned_cols=39  Identities=13%  Similarity=0.174  Sum_probs=32.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      .|.+.|--|+||||++-.||..+...+.....+|+....
T Consensus         4 ~IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID~DpQ~   42 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKA   42 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEECSSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecCCCC
Confidence            366799999999999999988886667788888887553

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=91.69  E-value=0.049  Score=40.90  Aligned_cols=35  Identities=26%  Similarity=0.212  Sum_probs=22.1

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh-cCCCCceEEecc
Q 047225           19 SFLFTGPTGVGKTELANALAFEY-FGSKEAMVRIDM   53 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l-~~~~~~~~~~~~   53 (287)
                      +.++++|+|+|||.++-.++... ...+..++.+-+
T Consensus        25 n~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~P   60 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAP   60 (200)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECS
T ss_pred             CeEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEcC
Confidence            47899999999998766555433 222344444443

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=91.52  E-value=0.039  Score=41.73  Aligned_cols=17  Identities=47%  Similarity=0.657  Sum_probs=14.9

Q ss_pred             EEEEeccCCChHHHHHH
Q 047225           19 SFLFTGPTGVGKTELAN   35 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~   35 (287)
                      ++++.+|+|+|||+.+.
T Consensus        42 ~~il~apTGsGKT~~a~   58 (202)
T d2p6ra3          42 NLLLAMPTAAGKTLLAE   58 (202)
T ss_dssp             CEEEECSSHHHHHHHHH
T ss_pred             CEEEEcCCCCchhHHHH
Confidence            58999999999998764

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=91.07  E-value=0.092  Score=40.16  Aligned_cols=36  Identities=19%  Similarity=0.272  Sum_probs=29.0

Q ss_pred             EEEe-ccCCChHHHHHHHHHHHhcCCCCceEEecccc
Q 047225           20 FLFT-GPTGVGKTELANALAFEYFGSKEAMVRIDMSE   55 (287)
Q Consensus        20 ill~-Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~   55 (287)
                      |.++ |-.|+||||++..||..+...+.....+|+..
T Consensus         4 Iav~s~KGGvGKTtia~nlA~~la~~g~~VlliD~D~   40 (232)
T d1hyqa_           4 ITVASGKGGTGKTTITANLGVALAQLGHDVTIVDADI   40 (232)
T ss_dssp             EEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEECCC
T ss_pred             EEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEeCCC
Confidence            4444 88999999999999999866677888888754

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=90.84  E-value=0.055  Score=41.96  Aligned_cols=35  Identities=34%  Similarity=0.298  Sum_probs=23.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEecc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDM   53 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~   53 (287)
                      ++++++|+|+|||..+-..+......+...+.+-.
T Consensus        60 ~~~i~apTGsGKT~~~~~~~~~~~~~~~rvliv~P   94 (237)
T d1gkub1          60 SFAATAPTGVGKTSFGLAMSLFLALKGKRCYVIFP   94 (237)
T ss_dssp             CEECCCCBTSCSHHHHHHHHHHHHTTSCCEEEEES
T ss_pred             CEEEEecCCChHHHHHHHHHHHHHHhcCeEEEEec
Confidence            48899999999998766555544333444444444

>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=90.77  E-value=0.04  Score=44.41  Aligned_cols=23  Identities=26%  Similarity=0.651  Sum_probs=20.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ..+|+||.|+|||++..+|.-.+
T Consensus        26 lnvlvG~NgsGKS~iL~Ai~~~l   48 (308)
T d1e69a_          26 VTAIVGPNGSGKSNIIDAIKWVF   48 (308)
T ss_dssp             EEEEECCTTTCSTHHHHHHHHTS
T ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Confidence            47899999999999999997765

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.56  E-value=0.17  Score=34.71  Aligned_cols=24  Identities=21%  Similarity=0.336  Sum_probs=22.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYF   42 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~   42 (287)
                      .++|.|-+|+||+++|++|...+.
T Consensus         8 ~i~~tg~~~~gk~~ia~al~~~l~   31 (122)
T d1g8fa3           8 SIVLGNSLTVSREQLSIALLSTFL   31 (122)
T ss_dssp             EEEECTTCCSCHHHHHHHHHHHHT
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHH
Confidence            699999999999999999988773

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=90.42  E-value=0.052  Score=43.93  Aligned_cols=17  Identities=41%  Similarity=0.657  Sum_probs=15.1

Q ss_pred             EEEEeccCCChHHHHHH
Q 047225           19 SFLFTGPTGVGKTELAN   35 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~   35 (287)
                      .-+|+|.+|||||||+.
T Consensus        16 ~alfFGLSGTGKTTLs~   32 (313)
T d2olra1          16 VAVFFGLSGTGKTTLST   32 (313)
T ss_dssp             EEEEECSTTSSHHHHHC
T ss_pred             EEEEEccCCCCccccee
Confidence            57899999999999873

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=90.40  E-value=0.049  Score=44.26  Aligned_cols=17  Identities=41%  Similarity=0.657  Sum_probs=15.2

Q ss_pred             EEEEeccCCChHHHHHH
Q 047225           19 SFLFTGPTGVGKTELAN   35 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~   35 (287)
                      ..+|+|.+|||||||+.
T Consensus        16 valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          16 VAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             EEEEEECTTSCHHHHTC
T ss_pred             EEEEEccCCCCcccccc
Confidence            68999999999999764

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=90.34  E-value=0.12  Score=39.56  Aligned_cols=36  Identities=19%  Similarity=0.279  Sum_probs=29.4

Q ss_pred             EEEEe-ccCCChHHHHHHHHHHHhcCCCCceEEeccc
Q 047225           19 SFLFT-GPTGVGKTELANALAFEYFGSKEAMVRIDMS   54 (287)
Q Consensus        19 ~ill~-Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~   54 (287)
                      .|.++ +-.|+||||++-.||..+...+.+...+|+.
T Consensus         4 vIav~~~kGGvGKTtia~nLA~~la~~g~~VlliD~D   40 (237)
T d1g3qa_           4 IISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGD   40 (237)
T ss_dssp             EEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             EEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            45566 6789999999999999987667788888875

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.05  E-value=0.07  Score=44.76  Aligned_cols=23  Identities=30%  Similarity=0.602  Sum_probs=20.0

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .-+|+||.|+|||++..+|+-.+
T Consensus        27 l~~i~G~NGsGKS~ileAi~~~l   49 (427)
T d1w1wa_          27 FTSIIGPNGSGKSNMMDAISFVL   49 (427)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999997655

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=89.84  E-value=0.6  Score=37.18  Aligned_cols=86  Identities=20%  Similarity=0.189  Sum_probs=49.3

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHh--cCCCCceEEeccccc----cc------------------ccchhhhhCC
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEY--FGSKEAMVRIDMSEY----ME------------------KHTVSKFFGS   68 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l--~~~~~~~~~~~~~~~----~~------------------~~~~~~~~~~   68 (287)
                      ++... -+-|+|-|.+||||+-.++...-  ...+.|+.++++..-    .+                  .-.+.+.-|.
T Consensus         7 ~~~~~-kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGL   85 (296)
T d1ni3a1           7 PGNNL-KTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGL   85 (296)
T ss_dssp             SSSCC-EEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGG
T ss_pred             CCCCc-EEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeecccc
Confidence            44444 48899999999999999998653  234566665543210    00                  0011111121


Q ss_pred             CCC-CCcccchhhHHHHHHhCCcEEEEEcCcc
Q 047225           69 PPG-YVGFENGGQLTEAVRHRPHSVILFDEIE   99 (287)
Q Consensus        69 ~~~-~~~~~~~~~~~~~~~~~~~~il~iDeid   99 (287)
                      .+| ..|......+...++...--+.++|-++
T Consensus        86 v~gA~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          86 TKGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             CCCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             ccccccccccHHHHHHHhhccceeEEEEeccC
Confidence            122 1222334678888988886677776444

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=89.13  E-value=0.09  Score=42.68  Aligned_cols=17  Identities=41%  Similarity=0.643  Sum_probs=15.3

Q ss_pred             EEEEeccCCChHHHHHH
Q 047225           19 SFLFTGPTGVGKTELAN   35 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~   35 (287)
                      .-+|+|-+|||||||+.
T Consensus        16 ~alfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          16 VTVFFGLSGTGKTTLSA   32 (323)
T ss_dssp             EEEEECCTTSSHHHHHC
T ss_pred             EEEEEccCCCCccccee
Confidence            57899999999999984

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.93  E-value=0.093  Score=41.91  Aligned_cols=29  Identities=28%  Similarity=0.282  Sum_probs=24.5

Q ss_pred             CCCCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           13 PNRPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        13 ~~~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      ...|...|.++||.+||||+|...|....
T Consensus        28 ~~~~v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          28 ITQPMVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             CCSBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             CCCCEEEEEEECCCCCCHHHHHHHHcCCC
Confidence            35578889999999999999999887644

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=88.21  E-value=2  Score=32.49  Aligned_cols=28  Identities=25%  Similarity=0.377  Sum_probs=23.3

Q ss_pred             CCCcEEEEEeccCCChHHHHHHHHHHHh
Q 047225           14 NRPISSFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        14 ~~~~~~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++..+++++|-..+|||||+..|....
T Consensus         6 ~~~~~~i~viGHVd~GKSTL~~~Ll~~~   33 (222)
T d1zunb3           6 RKEMLRFLTCGNVDDGKSTLIGRLLHDS   33 (222)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cCCcceEEEEcCCCCCHHHHHHHHHHHc
Confidence            4455579999999999999999997654

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=87.33  E-value=0.23  Score=36.79  Aligned_cols=33  Identities=30%  Similarity=0.347  Sum_probs=23.8

Q ss_pred             EEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      ++++|+..+|||..|..++..    ..+.+++-.+..
T Consensus         2 iLVtGGarSGKS~~AE~l~~~----~~~~~YiAT~~~   34 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD----APQVLYIATSQI   34 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS----CSSEEEEECCCC
T ss_pred             EEEECCCCccHHHHHHHHHhc----CCCcEEEEccCC
Confidence            689999999999999988643    334555544433

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=86.14  E-value=0.22  Score=39.61  Aligned_cols=38  Identities=21%  Similarity=0.257  Sum_probs=26.6

Q ss_pred             EEEEeccCCChHHHHHHHHHHHhcCCCCceEEeccccc
Q 047225           19 SFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEY   56 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~   56 (287)
                      .++++|++|+|||+++..+..........+++.-+.+.
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~~~~~~~v~V~~~iGer  106 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILNQQGQNVICVYVAIGQK  106 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHTCCTTTCEEEEEEESCC
T ss_pred             eEeeccCCCCChHHHHHHHHhhhcccCceeeeeeecch
Confidence            37899999999999998776655444444455555443

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=84.85  E-value=0.28  Score=44.28  Aligned_cols=23  Identities=26%  Similarity=0.459  Sum_probs=20.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .|++.|.+|+|||..++.+.+.+
T Consensus        88 sIiisGeSGsGKTe~~k~il~yL  110 (684)
T d1lkxa_          88 CVIISGESGAGKTEASKKIMQFL  110 (684)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            69999999999999998887655

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=83.40  E-value=0.36  Score=43.71  Aligned_cols=23  Identities=39%  Similarity=0.517  Sum_probs=20.5

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .|++.|.+|+|||..++.+.+.+
T Consensus       127 sIiisGeSGaGKTe~~k~il~yL  149 (712)
T d1d0xa2         127 SLLITGESGAGKTENTKKVIQYL  149 (712)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEeCCCCCCHHHHHHHHHHHH
Confidence            69999999999999988887765

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=83.18  E-value=0.35  Score=43.76  Aligned_cols=23  Identities=39%  Similarity=0.476  Sum_probs=20.9

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .|++.|.+|+|||..++.+.+.+
T Consensus        93 ~IiisGeSGaGKTe~~k~il~yL  115 (710)
T d1br2a2          93 SILCTGESGAGKTENTKKVIQYL  115 (710)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            69999999999999998887776

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=82.50  E-value=0.32  Score=38.72  Aligned_cols=23  Identities=26%  Similarity=0.258  Sum_probs=19.2

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .++++|++|+|||+++..++...
T Consensus        70 r~~If~~~g~GKt~ll~~~~~~~   92 (285)
T d2jdia3          70 RELIIGDRQTGKTSIAIDTIINQ   92 (285)
T ss_dssp             BCEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEeecCCCCChHHHHHHHHHhH
Confidence            37899999999999988777653

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=82.28  E-value=0.39  Score=44.00  Aligned_cols=23  Identities=35%  Similarity=0.494  Sum_probs=20.3

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .|++.|.+|+|||..++.+.+.+
T Consensus       125 sIiisGeSGaGKTe~~K~il~yL  147 (794)
T d2mysa2         125 SILITGESGAGKTVNTKRVIQYF  147 (794)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            69999999999999888777766

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=81.68  E-value=0.34  Score=39.02  Aligned_cols=33  Identities=18%  Similarity=0.211  Sum_probs=18.6

Q ss_pred             EEEeccCCChHHHHHHHHHHHhc-CCCCceEEec
Q 047225           20 FLFTGPTGVGKTELANALAFEYF-GSKEAMVRID   52 (287)
Q Consensus        20 ill~Gp~GtGKT~la~~la~~l~-~~~~~~~~~~   52 (287)
                      +-|+|-|.+|||||-.+|...-. ..+.++.+++
T Consensus         3 v~lvG~pn~GKStlfn~lt~~~~~v~nypftT~~   36 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIE   36 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC--------------
T ss_pred             EeEECCCCCCHHHHHHHHHCCCCchhcCCCCccc
Confidence            67999999999999999976531 1234555443

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=81.53  E-value=0.46  Score=43.53  Aligned_cols=23  Identities=39%  Similarity=0.537  Sum_probs=20.4

Q ss_pred             EEEEeccCCChHHHHHHHHHHHh
Q 047225           19 SFLFTGPTGVGKTELANALAFEY   41 (287)
Q Consensus        19 ~ill~Gp~GtGKT~la~~la~~l   41 (287)
                      .|++.|.+|+|||..++.+.+.+
T Consensus       123 ~IiisGESGaGKTe~~K~il~yL  145 (789)
T d1kk8a2         123 SCLITGESGAGKTENTKKVIMYL  145 (789)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            69999999999999988877766

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=80.88  E-value=0.4  Score=40.36  Aligned_cols=50  Identities=18%  Similarity=0.258  Sum_probs=36.5

Q ss_pred             chhhhhccCCCCCCCcEEEEEeccCCChHHHHHHHHHHHhcCCCCceEEecccccc
Q 047225            2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM   57 (287)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~   57 (287)
                      ||+++..++....+   ..+|.|-+|+|||.++..+.+..   +.+++.+..+...
T Consensus        19 aI~~l~~~l~~g~~---~q~l~GltGS~ka~~iA~l~~~~---~rp~LVVt~n~~~   68 (413)
T d1t5la1          19 AIAKLVDGLRRGVK---HQTLLGATGTGKTFTISNVIAQV---NKPTLVIAHNKTL   68 (413)
T ss_dssp             HHHHHHHHHHHTCS---EEEEEECTTSCHHHHHHHHHHHH---TCCEEEECSSHHH
T ss_pred             HHHHHHHHHhcCCC---cEEEeCCCCcHHHHHHHHHHHHh---CCCEEEEeCCHHH
Confidence            46666666654322   57899999999999999998888   5677777665444

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=80.82  E-value=0.64  Score=34.69  Aligned_cols=25  Identities=28%  Similarity=0.324  Sum_probs=21.2

Q ss_pred             CCcEEEEEeccCCChHHHHHHHHHH
Q 047225           15 RPISSFLFTGPTGVGKTELANALAF   39 (287)
Q Consensus        15 ~~~~~ill~Gp~GtGKT~la~~la~   39 (287)
                      +|--|+.+.|....|||||+..|..
T Consensus         6 ~p~ini~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3           6 QPEVNIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHS
T ss_pred             CCCeEEEEEEccCCcHHHHHHHHHh
Confidence            4533799999999999999999965