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Conserved domains on  [gi|568065217|ref|WP_024052878|]
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MULTISPECIES: Holliday junction branch migration DNA helicase RuvB [Streptococcus]

Protein Classification

Holliday junction branch migration DNA helicase RuvB( domain architecture ID 11455025)

Holliday junction branch migration DNA helicase RuvB is an ATPase that forms a complex with RuvA; the helicase RuvAB mediates the Holliday junction migration by localized denaturation and reannealing

CATH:  1.10.10.10|1.10.8.60
EC:  3.6.4.12
Gene Symbol:  ruvB
Gene Ontology:  GO:0003677|GO:0005524|GO:0009378
PubMed:  11478862|7625278

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RuvB COG2255
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ...
 2-329 0e+00

Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, recombination and repair];


:

Pssm-ID: 441856 [Multi-domain]  Cd Length: 337  Bit Score: 612.47  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   2 SRILDNELMGDEELVERTLRPQYLQEYIGQDKVKNQLKIFIEAAKMRDEALDHTLLFGPPGLGKTTMAFVIANELGVNLK 81
Cdd:COG2255    4 EDRLSSSASEEEDALERSLRPKRLDEYIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLAHIIANEMGVNIR 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  82 QTSGPVVEKAGDLVAILNDLEPGDVLFIDEIHRLPMSVEEVLYSAMEDFYIDIMIGSGETGRSVHLDLPPFTLIGATTRA 161
Cdd:COG2255   84 ITSGPAIEKPGDLAAILTNLEEGDVLFIDEIHRLSRVVEEILYPAMEDFRLDIVIGKGPAARSIRLDLPPFTLVGATTRA 163

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 162 GMLSNPLRARFGITGHMEYYAEADLTEIVERTADIFEMEITHEAAEELALRSRGTPRIANRLLKRVRDFAQIMGNGLIDD 241
Cdd:COG2255  164 GLLTSPLRDRFGIVLRLEFYTVEELAEIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITL 243

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 242 QITDQALTMLDVDQEGLDYVDQKILKTMIEVYGGGPVGLGTLSINIAEEQETVEDMYEPYLIQKGFVMRTRTGRVATRKA 321
Cdd:COG2255  244 EIADAALELLEVDELGLDEMDRRILETIIEKFGGGPVGLETLAAALGEERDTIEDVYEPYLIQQGFLQRTPRGRVATPKA 323


                 ....*...
gi 568065217 322 YEHLGYEY 329
Cdd:COG2255  324 YEHLGLKP 331
 
Name Accession Description Interval E-value
RuvB COG2255
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ...
 2-329 0e+00

Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, recombination and repair];


Pssm-ID: 441856 [Multi-domain]  Cd Length: 337  Bit Score: 612.47  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   2 SRILDNELMGDEELVERTLRPQYLQEYIGQDKVKNQLKIFIEAAKMRDEALDHTLLFGPPGLGKTTMAFVIANELGVNLK 81
Cdd:COG2255    4 EDRLSSSASEEEDALERSLRPKRLDEYIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLAHIIANEMGVNIR 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  82 QTSGPVVEKAGDLVAILNDLEPGDVLFIDEIHRLPMSVEEVLYSAMEDFYIDIMIGSGETGRSVHLDLPPFTLIGATTRA 161
Cdd:COG2255   84 ITSGPAIEKPGDLAAILTNLEEGDVLFIDEIHRLSRVVEEILYPAMEDFRLDIVIGKGPAARSIRLDLPPFTLVGATTRA 163

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 162 GMLSNPLRARFGITGHMEYYAEADLTEIVERTADIFEMEITHEAAEELALRSRGTPRIANRLLKRVRDFAQIMGNGLIDD 241
Cdd:COG2255  164 GLLTSPLRDRFGIVLRLEFYTVEELAEIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITL 243

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 242 QITDQALTMLDVDQEGLDYVDQKILKTMIEVYGGGPVGLGTLSINIAEEQETVEDMYEPYLIQKGFVMRTRTGRVATRKA 321
Cdd:COG2255  244 EIADAALELLEVDELGLDEMDRRILETIIEKFGGGPVGLETLAAALGEERDTIEDVYEPYLIQQGFLQRTPRGRVATPKA 323


                 ....*...
gi 568065217 322 YEHLGYEY 329
Cdd:COG2255  324 YEHLGLKP 331
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
3-329 0e+00

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 610.21  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   3 RILDNELMGDEELV-ERTLRPQYLQEYIGQDKVKNQLKIFIEAAKMRDEALDHTLLFGPPGLGKTTMAFVIANELGVNLK 81
Cdd:PRK00080   1 RLVSPETLEEEEDEiERSLRPKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  82 QTSGPVVEKAGDLVAILNDLEPGDVLFIDEIHRLPMSVEEVLYSAMEDFYIDIMIGSGETGRSVHLDLPPFTLIGATTRA 161
Cdd:PRK00080  81 ITSGPALEKPGDLAAILTNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRA 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 162 GMLSNPLRARFGITGHMEYYAEADLTEIVERTADIFEMEITHEAAEELALRSRGTPRIANRLLKRVRDFAQIMGNGLIDD 241
Cdd:PRK00080 161 GLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITK 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 242 QITDQALTMLDVDQEGLDYVDQKILKTMIEVYGGGPVGLGTLSINIAEEQETVEDMYEPYLIQKGFVMRTRTGRVATRKA 321
Cdd:PRK00080 241 EIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGGPVGLDTLAAALGEERDTIEDVYEPYLIQQGFIQRTPRGRVATPKA 320


                 ....*...
gi 568065217 322 YEHLGYEY 329
Cdd:PRK00080 321 YEHLGLNP 328
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 25-327 1.36e-169

Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129721 [Multi-domain]  Cd Length: 305  Bit Score: 473.33  E-value: 1.36e-169
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   25 LQEYIGQDKVKNQLKIFIEAAKMRDEALDHTLLFGPPGLGKTTMAFVIANELGVNLKQTSGPVVEKAGDLVAILNDLEPG 104
Cdd:TIGR00635   3 LAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKPGDLAAILTNLEEG 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  105 DVLFIDEIHRLPMSVEEVLYSAMEDFYIDIMIGSGETGRSVHLDLPPFTLIGATTRAGMLSNPLRARFGITGHMEYYAEA 184
Cdd:TIGR00635  83 DVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILRLEFYTVE 162

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  185 DLTEIVERTADIFEMEITHEAAEELALRSRGTPRIANRLLKRVRDFAQIMGNGLIDDQITDQALTMLDVDQEGLDYVDQK 264
Cdd:TIGR00635 163 ELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALEMLMIDELGLDEIDRK 242

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 568065217  265 ILKTMIEVYGGGPVGLGTLSINIAEEQETVEDMYEPYLIQKGFVMRTRTGRVATRKAYEHLGY 327
Cdd:TIGR00635 243 LLSVLIEQFQGGPVGLKTLAAALGEDADTIEDVYEPYLLQIGFLQRTPRGRIATELAYEHLGL 305
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
 20-178 5.78e-115

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


Pssm-ID: 398900 [Multi-domain]  Cd Length: 159  Bit Score: 329.46  E-value: 5.78e-115
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   20 LRPQYLQEYIGQDKVKNQLKIFIEAAKMRDEALDHTLLFGPPGLGKTTMAFVIANELGVNLKQTSGPVVEKAGDLVAILN 99
Cdd:pfam05496   1 LRPRTLDEYIGQEKVKENLKIFIEAAKQRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPAIERPGDLAAILT 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 568065217  100 DLEPGDVLFIDEIHRLPMSVEEVLYSAMEDFYIDIMIGSGETGRSVHLDLPPFTLIGATTRAGMLSNPLRARFGITGHM 178
Cdd:pfam05496  81 NLEPGDVLFIDEIHRLNRAVEEILYPAMEDFRLDIVIGKGPSARSIRLDLPPFTLVGATTRAGLLTSPLRDRFGIVLRL 159
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 29-180 5.32e-14

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. 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.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 68.33  E-value: 5.32e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  29 IGQDKVKNQLKIFIEAAKMRdealdHTLLFGPPGLGKTTMAFVIANELGVNlkqtSGPVVE-KAGDLVAI---------- 97
Cdd:cd00009    1 VGQEEAIEALREALELPPPK-----NLLLYGPPGTGKTTLARAIANELFRP----GAPFLYlNASDLLEGlvvaelfghf 71

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  98 -------LNDLEPGDVLFIDEIHRLPMSVEEVLYSAMEDFYIDIMIGSGetgrsvhldlppFTLIGATTRA--GMLSNPL 168
Cdd:cd00009   72 lvrllfeLAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDREN------------VRVIGATNRPllGDLDRAL 139

                        170
                 ....*....|..
gi 568065217 169 RARFGITGHMEY 180
Cdd:cd00009  140 YDRLDIRIVIPL 151
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 54-172 3.43e-06

ATPases associated with a variety of cellular activities; 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.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 46.21  E-value: 3.43e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217    54 HTLLFGPPGLGKTTMAFVIANELG--------------------------VNLKQTSGPVVEKAGDLVAILNDLEPgDVL 107
Cdd:smart00382   4 VILIVGPPGSGKTTLARALARELGppgggviyidgedileevldqllliiVGGKKASGSGELRLRLALALARKLKP-DVL 82

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 568065217   108 FIDEIHRLPMSVEEVLYSAMEDFYIDIMIGSGEtgrsvhldlpPFTLIGATTRAGML-SNPLRARF 172
Cdd:smart00382  83 ILDEITSLLDAEQEALLLLLEELRLLLLLKSEK----------NLTVILTTNDEKDLgPALLRRRF 138
 
Name Accession Description Interval E-value
RuvB COG2255
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ...
 2-329 0e+00

Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, recombination and repair];


Pssm-ID: 441856 [Multi-domain]  Cd Length: 337  Bit Score: 612.47  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   2 SRILDNELMGDEELVERTLRPQYLQEYIGQDKVKNQLKIFIEAAKMRDEALDHTLLFGPPGLGKTTMAFVIANELGVNLK 81
Cdd:COG2255    4 EDRLSSSASEEEDALERSLRPKRLDEYIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLAHIIANEMGVNIR 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  82 QTSGPVVEKAGDLVAILNDLEPGDVLFIDEIHRLPMSVEEVLYSAMEDFYIDIMIGSGETGRSVHLDLPPFTLIGATTRA 161
Cdd:COG2255   84 ITSGPAIEKPGDLAAILTNLEEGDVLFIDEIHRLSRVVEEILYPAMEDFRLDIVIGKGPAARSIRLDLPPFTLVGATTRA 163

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 162 GMLSNPLRARFGITGHMEYYAEADLTEIVERTADIFEMEITHEAAEELALRSRGTPRIANRLLKRVRDFAQIMGNGLIDD 241
Cdd:COG2255  164 GLLTSPLRDRFGIVLRLEFYTVEELAEIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITL 243

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 242 QITDQALTMLDVDQEGLDYVDQKILKTMIEVYGGGPVGLGTLSINIAEEQETVEDMYEPYLIQKGFVMRTRTGRVATRKA 321
Cdd:COG2255  244 EIADAALELLEVDELGLDEMDRRILETIIEKFGGGPVGLETLAAALGEERDTIEDVYEPYLIQQGFLQRTPRGRVATPKA 323


                 ....*...
gi 568065217 322 YEHLGYEY 329
Cdd:COG2255  324 YEHLGLKP 331
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
3-329 0e+00

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 610.21  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   3 RILDNELMGDEELV-ERTLRPQYLQEYIGQDKVKNQLKIFIEAAKMRDEALDHTLLFGPPGLGKTTMAFVIANELGVNLK 81
Cdd:PRK00080   1 RLVSPETLEEEEDEiERSLRPKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  82 QTSGPVVEKAGDLVAILNDLEPGDVLFIDEIHRLPMSVEEVLYSAMEDFYIDIMIGSGETGRSVHLDLPPFTLIGATTRA 161
Cdd:PRK00080  81 ITSGPALEKPGDLAAILTNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRA 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 162 GMLSNPLRARFGITGHMEYYAEADLTEIVERTADIFEMEITHEAAEELALRSRGTPRIANRLLKRVRDFAQIMGNGLIDD 241
Cdd:PRK00080 161 GLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITK 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 242 QITDQALTMLDVDQEGLDYVDQKILKTMIEVYGGGPVGLGTLSINIAEEQETVEDMYEPYLIQKGFVMRTRTGRVATRKA 321
Cdd:PRK00080 241 EIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGGPVGLDTLAAALGEERDTIEDVYEPYLIQQGFIQRTPRGRVATPKA 320


                 ....*...
gi 568065217 322 YEHLGYEY 329
Cdd:PRK00080 321 YEHLGLNP 328
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 25-327 1.36e-169

Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129721 [Multi-domain]  Cd Length: 305  Bit Score: 473.33  E-value: 1.36e-169
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   25 LQEYIGQDKVKNQLKIFIEAAKMRDEALDHTLLFGPPGLGKTTMAFVIANELGVNLKQTSGPVVEKAGDLVAILNDLEPG 104
Cdd:TIGR00635   3 LAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKPGDLAAILTNLEEG 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  105 DVLFIDEIHRLPMSVEEVLYSAMEDFYIDIMIGSGETGRSVHLDLPPFTLIGATTRAGMLSNPLRARFGITGHMEYYAEA 184
Cdd:TIGR00635  83 DVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILRLEFYTVE 162

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  185 DLTEIVERTADIFEMEITHEAAEELALRSRGTPRIANRLLKRVRDFAQIMGNGLIDDQITDQALTMLDVDQEGLDYVDQK 264
Cdd:TIGR00635 163 ELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALEMLMIDELGLDEIDRK 242

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 568065217  265 ILKTMIEVYGGGPVGLGTLSINIAEEQETVEDMYEPYLIQKGFVMRTRTGRVATRKAYEHLGY 327
Cdd:TIGR00635 243 LLSVLIEQFQGGPVGLKTLAAALGEDADTIEDVYEPYLLQIGFLQRTPRGRIATELAYEHLGL 305
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
 20-178 5.78e-115

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


Pssm-ID: 398900 [Multi-domain]  Cd Length: 159  Bit Score: 329.46  E-value: 5.78e-115
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   20 LRPQYLQEYIGQDKVKNQLKIFIEAAKMRDEALDHTLLFGPPGLGKTTMAFVIANELGVNLKQTSGPVVEKAGDLVAILN 99
Cdd:pfam05496   1 LRPRTLDEYIGQEKVKENLKIFIEAAKQRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPAIERPGDLAAILT 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 568065217  100 DLEPGDVLFIDEIHRLPMSVEEVLYSAMEDFYIDIMIGSGETGRSVHLDLPPFTLIGATTRAGMLSNPLRARFGITGHM 178
Cdd:pfam05496  81 NLEPGDVLFIDEIHRLNRAVEEILYPAMEDFRLDIVIGKGPSARSIRLDLPPFTLVGATTRAGLLTSPLRDRFGIVLRL 159
AAA_lid_4 pfam17864
RuvB AAA lid domain; The RuvB protein makes up part of the RuvABC revolvasome which catalyzes ...
 181-254 2.18e-39

RuvB AAA lid domain; The RuvB protein makes up part of the RuvABC revolvasome which catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalyzed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This entry contains the AAA lid domain that is found to the C-terminus of the AAA domain.


Pssm-ID: 380039 [Multi-domain]  Cd Length: 74  Bit Score: 133.33  E-value: 2.18e-39
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 568065217  181 YAEADLTEIVERTADIFEMEITHEAAEELALRSRGTPRIANRLLKRVRDFAQIMGNGLIDDQITDQALTMLDVD 254
Cdd:pfam17864   1 YSVEELELIVKRSARILGVEIDEEGAAEIARRSRGTPRIANRLLRRVRDFAQVKGDGRITLEIADAALDLLEVD 74
RuvB_C pfam05491
RuvB C-terminal winged helix domain; The RuvB protein makes up part of the RuvABC revolvasome ...
 255-326 2.06e-24

RuvB C-terminal winged helix domain; The RuvB protein makes up part of the RuvABC revolvasome which catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalyzed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family consists of the C-terminal region of the RuvB protein which is thought to be helicase DNA-binding domain.


Pssm-ID: 398896 [Multi-domain]  Cd Length: 72  Bit Score: 94.16  E-value: 2.06e-24
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568065217  255 QEGLDYVDQKILKTMIEVYGGGPVGLGTLSINIAEEQETVEDMYEPYLIQKGFVMRTRTGRVATRKAYEHLG 326
Cdd:pfam05491   1 EYGLDELDINYLKTLYENFKGGPVGLDTLAAILGEDKDTIEDVIEPYLLRLGLIERTSRGRIITPKGYKYLK 72
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 56-174 5.68e-20

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 84.18  E-value: 5.68e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   56 LLFGPPGLGKTTMAFVIANELGVNLKQTSGP------VVEKAGDLVAILNDLEPG--DVLFIDEIHRL-----------P 116
Cdd:pfam00004   2 LLYGPPGTGKTTLAKAVAKELGAPFIEISGSelvskyVGESEKRLRELFEAAKKLapCVIFIDEIDALagsrgsggdseS 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 568065217  117 MSVEEVLYSAMEDFYIDImigsgetgrsvhldlPPFTLIGATTRAGMLSNPLRARFGI 174
Cdd:pfam00004  82 RRVVNQLLTELDGFTSSN---------------SKVIVIAATNRPDKLDPALLGRFDR 124
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 15-220 1.25e-16

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 80.13  E-value: 1.25e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  15 LVERtLRPQYLQEYIGQDKVKNQLKIF---IEAAKmrdeaLDHTLLFGPPGLGKTTMAFVIANELGVNLKQ----TSG-- 85
Cdd:PRK13342   2 LAER-MRPKTLDEVVGQEHLLGPGKPLrrmIEAGR-----LSSMILWGPPGTGKTTLARIIAGATDAPFEAlsavTSGvk 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  86 ---PVVEKAGDLVAILNdlepGDVLFIDEIHRLPMSVEEVLYSAMEDfyidimigsGEtgrsvhldlppFTLIGATTrag 162
Cdd:PRK13342  76 dlrEVIEEARQRRSAGR----RTILFIDEIHRFNKAQQDALLPHVED---------GT-----------ITLIGATT--- 128

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 163 mlSNP-------LRARFGItghMEYYA--EADLTEIVER---TADIFEMEITHEAAEELALRSRGTPRIA 220
Cdd:PRK13342 129 --ENPsfevnpaLLSRAQV---FELKPlsEEDIEQLLKRaleDKERGLVELDDEALDALARLANGDARRA 193
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 1-248 8.62e-15

Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, recombination and repair];


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 74.71  E-value: 8.62e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   1 MSRILDNELMGDEELVERtLRPQYLQEYIGQDKV--KNQ-LKIFIEAAKMrdealdHTL-LFGPPGLGKTTMAFVIANEL 76
Cdd:COG2256    1 MDDAAAEASAANAPLAER-MRPRTLDEVVGQEHLlgPGKpLRRAIEAGRL------SSMiLWGPPGTGKTTLARLIANAT 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  77 GVNLKQ----TSG-----PVVEKAGDLVAILNdlepGDVLFIDEIHRLPMSVEEVLYSAMEDfyidimiGSgetgrsvhl 147
Cdd:COG2256   74 DAEFVAlsavTSGvkdirEVIEEARERRAYGR----RTILFVDEIHRFNKAQQDALLPHVED-------GT--------- 133

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 148 dlppFTLIGATTragmlSNPL---------RARFgitghMEYYA--EADLTEIVERTADIFE-------MEITHEAAEEL 209
Cdd:COG2256  134 ----ITLIGATT-----ENPSfevnsallsRCRV-----FVLKPlsEEDLEQLLERALADDErglggykLELDDEALEAL 199

                        250       260       270
                 ....*....|....*....|....*....|....*....
gi 568065217 210 ALRSRGTPRIANRLLKRVRDFAQIMGNGLIDDQITDQAL 248
Cdd:COG2256  200 ARLADGDARRALNALELAVLSAPPDGVIEITLELVEEAL 238
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 29-180 5.32e-14

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. 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.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 68.33  E-value: 5.32e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  29 IGQDKVKNQLKIFIEAAKMRdealdHTLLFGPPGLGKTTMAFVIANELGVNlkqtSGPVVE-KAGDLVAI---------- 97
Cdd:cd00009    1 VGQEEAIEALREALELPPPK-----NLLLYGPPGTGKTTLARAIANELFRP----GAPFLYlNASDLLEGlvvaelfghf 71

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  98 -------LNDLEPGDVLFIDEIHRLPMSVEEVLYSAMEDFYIDIMIGSGetgrsvhldlppFTLIGATTRA--GMLSNPL 168
Cdd:cd00009   72 lvrllfeLAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDREN------------VRVIGATNRPllGDLDRAL 139

                        170
                 ....*....|..
gi 568065217 169 RARFGITGHMEY 180
Cdd:cd00009  140 YDRLDIRIVIPL 151
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
25-248 2.85e-12

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 65.68  E-value: 2.85e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  25 LQEYIGQDKVKNQLKIFIE-------AAKMRDEALDHTLLFGPPGLGKTTMAFVIANELG-----VNLKQTSGPVV-EKA 91
Cdd:COG1223    1 LDDVVGQEEAKKKLKLIIKelrrrenLRKFGLWPPRKILFYGPPGTGKTMLAEALAGELKlplltVRLDSLIGSYLgETA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  92 GDLVAILNDLE--PGdVLFIDEIHRLpmsveevlysAMEDFYIDimiGSGETGRSVH-----LDLPP--FTLIGATTRAG 162
Cdd:COG1223   81 RNLRKLFDFARraPC-VIFFDEFDAI----------AKDRGDQN---DVGEVKRVVNallqeLDGLPsgSVVIAATNHPE 146

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 163 MLSNPLRARFGITghMEY--YAEADLTEIVERTADIFEMEITHEaAEELALRSRG-TPRIANRLLKRVRDFAQIMGNGLI 239
Cdd:COG1223  147 LLDSALWRRFDEV--IEFplPDKEERKEILELNLKKFPLPFELD-LKKLAKKLEGlSGADIEKVLKTALKKAILEDREKV 223


                 ....*....
gi 568065217 240 DDQITDQAL 248
Cdd:COG1223  224 TKEDLEEAL 232
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 11-256 7.01e-12

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 65.70  E-value: 7.01e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  11 GDEELVERTLRPQYLQEYIGQDKVKNQLKIFIEAAKMRDEALD--------HTLLFGPPGLGKTTMAFVIANELGVNLKQ 82
Cdd:COG0464  142 GGLEEELLELREAILDDLGGLEEVKEELRELVALPLKRPELREeyglppprGLLLYGPPGTGKTLLARALAGELGLPLIE 221

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  83 TSGPVV--------EKA-GDLVAILNDLEPGdVLFIDEIHRLPMSVEEVlysamEDFYIDIMIGS------GETGRSVhl 147
Cdd:COG0464  222 VDLSDLvskyvgetEKNlREVFDKARGLAPC-VLFIDEADALAGKRGEV-----GDGVGRRVVNTlltemeELRSDVV-- 293

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 148 dlppftLIGATTRAGMLSNPLRARFGITGHMEYYAEADLTEIVERTADifEMEITHEAA-EELALRSRG-TPRIANRLLK 225
Cdd:COG0464  294 ------VIAATNRPDLLDPALLRRFDEIIFFPLPDAEERLEIFRIHLR--KRPLDEDVDlEELAEATEGlSGADIRNVVR 365

                        250       260       270
                 ....*....|....*....|....*....|.
gi 568065217 226 RVRDFAQIMGNGLIDDQITDQALTMLDVDQE 256
Cdd:COG0464  366 RAALQALRLGREPVTTEDLLEALEREDIFLK 396
T7SS_EccA TIGR03922
type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ...
 25-237 1.47e-11

type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the actinobacterial flavor of type VII secretion systems. Species such as Mycobacterium tuberculosis have several instances of this system per genome, designated EccA1, EccA2, etc. [Protein fate, Protein and peptide secretion and trafficking]


Pssm-ID: 188437 [Multi-domain]  Cd Length: 557  Bit Score: 65.25  E-value: 1.47e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   25 LQEYIGQDKVKNQLKIFIEAAKMR----------DEALDHTLLFGPPGLGKTTMAFVIANE---LGV----NLKQTS--- 84
Cdd:TIGR03922 275 LAEQIGLERVKRQVAALKSSTAMAlaraerglpvAQTSNHMLFAGPPGTGKTTIARVVAKIycgLGVlrkpLVREVSrad 354

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   85 --GPVVEKAGDLVAILNDLEPGDVLFIDEIHRLpmsVEEvLYSAMEDF---YIDIMIGSGETGRSvhldlpPFTLIGATT 159
Cdd:TIGR03922 355 liGQYIGESEAKTNEIIDSALGGVLFLDEAYTL---VET-GYGQKDPFgleAIDTLLARMENDRD------RLVVIGAGY 424

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  160 RAGM----LSNP-LRARFGITGHMEYYAEADLTEIVERTADIFEMEITHEAAEEL-----ALRSRGTPRiANRLLKRVRD 229
Cdd:TIGR03922 425 RKDLdkflEVNEgLRSRFTRVIEFPSYSPDELVEIARRMATERDSVLDDAAADALleaatTLAQDTTPD-ANGDLRRGLD 503


                  ....*...
gi 568065217  230 faqIMGNG 237
Cdd:TIGR03922 504 ---IAGNG 508
PRK04195 PRK04195
replication factor C large subunit; Provisional
 21-89 3.55e-09

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 57.62  E-value: 3.55e-09
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 568065217  21 RPQYLQEYIGQDKVKNQLKIFIEA-AKMRD-EALdhtLLFGPPGLGKTTMAFVIANELGVnlkqtsgPVVE 89
Cdd:PRK04195   9 RPKTLSDVVGNEKAKEQLREWIESwLKGKPkKAL---LLYGPPGVGKTSLAHALANDYGW-------EVIE 69
rfc PRK00440
replication factor C small subunit; Reviewed
 10-76 4.10e-09

replication factor C small subunit; Reviewed


Pssm-ID: 234763 [Multi-domain]  Cd Length: 319  Bit Score: 56.80  E-value: 4.10e-09
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 568065217  10 MGDEEL-VERtLRPQYLQEYIGQDKVKNQLKIFIEAAKMrdealDHTLLFGPPGLGKTTMAFVIANEL 76
Cdd:PRK00440   1 AMMEEIwVEK-YRPRTLDEIVGQEEIVERLKSYVKEKNM-----PHLLFAGPPGTGKTTAALALAREL 62
PRK13341 PRK13341
AAA family ATPase;
1-159 6.87e-09

AAA family ATPase;


Pssm-ID: 237354 [Multi-domain]  Cd Length: 725  Bit Score: 56.99  E-value: 6.87e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   1 MSRILDNELMGDEELVERtLRPQYLQEYIGQDKVKNQLKIFIEAAKMrdEALDHTLLFGPPGLGKTTMAFVIANEL---- 76
Cdd:PRK13341   4 FAFHGEQMSQSEAPLADR-LRPRTLEEFVGQDHILGEGRLLRRAIKA--DRVGSLILYGPPGVGKTTLARIIANHTrahf 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  77 --------GV-NLKQtsgpVVEKAGDLvaiLNDLEPGDVLFIDEIHRLPMSVEEVLYSAMEDFYIdimigsgetgrsvhl 147
Cdd:PRK13341  81 sslnavlaGVkDLRA----EVDRAKER---LERHGKRTILFIDEVHRFNKAQQDALLPWVENGTI--------------- 138

                        170
                 ....*....|..
gi 568065217 148 dlppfTLIGATT 159
Cdd:PRK13341 139 -----TLIGATT 145
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 56-128 3.20e-08

proteases similar to RecA; RecA-like NTPases. 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.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 52.29  E-value: 3.20e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  56 LLFGPPGLGKTTMAFVIANELGVNL---------KQTSGPVVEKAGDLVAILNDLEPGdVLFIDEIHRLPMSVEEVLYSA 126
Cdd:cd19481   30 LLYGPPGTGKTLLAKALAGELGLPLivvklssllSKYVGESEKNLRKIFERARRLAPC-ILFIDEIDAIGRKRDSSGESG 108


                 ..
gi 568065217 127 ME 128
Cdd:cd19481  109 EL 110
MoxR COG0714
MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway ...
 28-228 7.36e-08

MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway/BioSystem: Cobalamine/B12 biosynthesis


Pssm-ID: 440478 [Multi-domain]  Cd Length: 292  Bit Score: 52.86  E-value: 7.36e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  28 YIGQDKVKNQLKIFIEAAKmrdealdHTLLFGPPGLGKTTMAFVIANELGVNLKQ---TSGpvvEKAGDLV--AILND-- 100
Cdd:COG0714   14 YVGQEELIELVLIALLAGG-------HLLLEGVPGVGKTTLAKALARALGLPFIRiqfTPD---LLPSDILgtYIYDQqt 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 101 ----LEPG----DVLFIDEIHRLPMSVEEVLYSAMEDFYIDIMigsgetGRSVHLDLPPFTLigAT--------TRAgmL 164
Cdd:COG0714   84 gefeFRPGplfaNVLLADEINRAPPKTQSALLEAMEERQVTIP------GGTYKLPEPFLVI--ATqnpieqegTYP--L 153

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 568065217 165 SNPLRARFGITGHMEYYAEADLTEIVERTADIFEMEITHE-------AAEELALRSRGTPRIANRLLKRVR 228
Cdd:COG0714  154 PEAQLDRFLLKLYIGYPDAEEEREILRRHTGRHLAEVEPVlspeellALQELVRQVHVSEAVLDYIVDLVR 224
44 PHA02544
clamp loader, small subunit; Provisional
 10-130 1.05e-06

clamp loader, small subunit; Provisional


Pssm-ID: 222866 [Multi-domain]  Cd Length: 316  Bit Score: 49.60  E-value: 1.05e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  10 MGDEELVERTLRPQYLQEYIGQDKVKNQLKIFIEAAKmrdeaLDHTLLFGP-PGLGKTTMAFVIANELGVNLkqtsgPVV 88
Cdd:PHA02544   5 NPNEFMWEQKYRPSTIDECILPAADKETFKSIVKKGR-----IPNMLLHSPsPGTGKTTVAKALCNEVGAEV-----LFV 74

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 568065217  89 EKA-GDLVAILNDL----------EPGDVLFIDEIHRLPMS-VEEVLYSAMEDF 130
Cdd:PHA02544  75 NGSdCRIDFVRNRLtrfastvsltGGGKVIIIDEFDRLGLAdAQRHLRSFMEAY 128
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 54-172 1.12e-06

AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400191 [Multi-domain]  Cd Length: 135  Bit Score: 47.29  E-value: 1.12e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   54 HTLLFGPPGLGKTTMAFVIA-------------------NEL-------GVNLKQTSGPVVEKAgdlvailndlEPGDVL 107
Cdd:pfam07728   1 GVLLVGPPGTGKTELAERLAaalsnrpvfyvqltrdtteEDLfgrrnidPGGASWVDGPLVRAA----------REGEIA 70

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 568065217  108 FIDEIHRLPMSVEEVLYSAMEDFYIDIMIGSGEtgrsVHLDLPPFTLIGATTRAGM----LSNPLRARF 172
Cdd:pfam07728  71 VLDEINRANPDVLNSLLSLLDERRLLLPDGGEL----VKAAPDGFRLIATMNPLDRglneLSPALRSRF 135
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 56-112 3.25e-06

first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which 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. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 46.52  E-value: 3.25e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 568065217  56 LLFGPPGLGKTTMAFVIANELGVNLKQTSGP-VVEK-AGDLVAILND-------LEPGdVLFIDEI 112
Cdd:cd19503   38 LLHGPPGTGKTLLARAVANEAGANFLSISGPsIVSKyLGESEKNLREifeearsHAPS-IIFIDEI 102
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 54-172 3.43e-06

ATPases associated with a variety of cellular activities; 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.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 46.21  E-value: 3.43e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217    54 HTLLFGPPGLGKTTMAFVIANELG--------------------------VNLKQTSGPVVEKAGDLVAILNDLEPgDVL 107
Cdd:smart00382   4 VILIVGPPGSGKTTLARALARELGppgggviyidgedileevldqllliiVGGKKASGSGELRLRLALALARKLKP-DVL 82

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 568065217   108 FIDEIHRLPMSVEEVLYSAMEDFYIDIMIGSGEtgrsvhldlpPFTLIGATTRAGML-SNPLRARF 172
Cdd:smart00382  83 ILDEITSLLDAEQEALLLLLEELRLLLLLKSEK----------NLTVILTTNDEKDLgPALLRRRF 138
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 30-172 4.40e-06

first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which 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. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410926 [Multi-domain]  Cd Length: 169  Bit Score: 46.24  E-value: 4.40e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  30 GQDKVKNQLKIFIEAAKMRDEALDHT--------LLFGPPGLGKTTMAFVIANELGVNLKQTSGPVV---------EKAG 92
Cdd:cd19518    4 GMDSTLKELCELLIHPILPPEYFQHLgvepprgvLLHGPPGCGKTMLANAIAGELKVPFLKISATEIvsgvsgeseEKIR 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  93 DLVAILNDLEPGdVLFIDEIHRLpMSVEEVLYSAMEDFYIDIMIGSGETGRSVHLDLPPFTLIGATTRAGMLSNPLR--A 170
Cdd:cd19518   84 ELFDQAISNAPC-IVFIDEIDAI-TPKRESAQREMERRIVSQLLTCMDELNNEKTAGGPVLVIGATNRPDSLDPALRraG 161


                 ..
gi 568065217 171 RF 172
Cdd:cd19518  162 RF 163
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 56-172 8.23e-06

AAA family ATPase, CDC48 subfamily; 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.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 47.59  E-value: 8.23e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   56 LLFGPPGLGKTTMAFVIANELGVNLKQTSGPVV------EKAGDLVAILNDLEPG--DVLFIDEIHRLPMSVEEVLYSAM 127
Cdd:TIGR01243 216 LLYGPPGTGKTLLAKAVANEAGAYFISINGPEImskyygESEERLREIFKEAEENapSIIFIDEIDAIAPKREEVTGEVE 295

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 568065217  128 EDF---YIDIMIGSGETGRSVhldlppftLIGATTRAGMLSNPLR--ARF 172
Cdd:TIGR01243 296 KRVvaqLLTLMDGLKGRGRVI--------VIGATNRPDALDPALRrpGRF 337
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 34-112 8.29e-06

second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which 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. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 45.35  E-value: 8.29e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  34 VKNQLKIFIEA--------AKMRDEALDHTLLFGPPGLGKTTMAFVIANELGVNLKQTSGPVV--------EKA-GDLVA 96
Cdd:cd19511    1 VKRELKEAVEWplkhpdafKRLGIRPPKGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELfskyvgesERAvREIFQ 80

                         90
                 ....*....|....*.
gi 568065217  97 ILNDLEPGdVLFIDEI 112
Cdd:cd19511   81 KARQAAPC-IIFFDEI 95
AAA_14 pfam13173
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 56-154 8.78e-06

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily.


Pssm-ID: 463799 [Multi-domain]  Cd Length: 128  Bit Score: 44.50  E-value: 8.78e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   56 LLFGPPGLGKTTMAFVIANELG-------VNLKQTSGPVVEKAGDLVAILNDLEPGD-VLFIDEIHRLPMSVEEVLYSAM 127
Cdd:pfam13173   6 VITGPRQVGKTTLLLQLIKELLppenilyINLDDPRLLKLADFELLELFLELLYPGKtYLFLDEIQRVPDWELALKRLYD 85

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 568065217  128 EDFYIDIMI-GS------GE-----TGRSVHLDLPPFTL 154
Cdd:pfam13173  86 DGPNGRVILtGSsalllsKEiaeslAGRVVVIELYPLSF 124
PRK12402 PRK12402
replication factor C small subunit 2; Reviewed
 21-76 1.03e-05

replication factor C small subunit 2; Reviewed


Pssm-ID: 237090 [Multi-domain]  Cd Length: 337  Bit Score: 46.52  E-value: 1.03e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 568065217  21 RPQYLQEYIGQDKVKNQLKIFIEAAKmrdeaLDHTLLFGPPGLGKTTMAFVIANEL 76
Cdd:PRK12402  10 RPALLEDILGQDEVVERLSRAVDSPN-----LPHLLVQGPPGSGKTAAVRALAREL 60
PRK14962 PRK14962
DNA polymerase III subunits gamma and tau; Provisional
 14-299 2.33e-05

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237869 [Multi-domain]  Cd Length: 472  Bit Score: 45.91  E-value: 2.33e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  14 ELVERTLRPQYLQEYIGQDKVKnqlKIFIEAAKMRDeaLDHTLLF-GPPGLGKTTMAFVIANELGVNLKQTSGPVVE--- 89
Cdd:PRK14962   2 EALYRKYRPKTFSEVVGQDHVK---KLIINALKKNS--ISHAYIFaGPRGTGKTTVARILAKSLNCENRKGVEPCNEcra 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  90 ----KAGDLVAILnDLEPGDVLFIDEIHRLPmsvEEVLYSAMEDFYIDIMIGsgetgrSVH-------------LDLPP- 151
Cdd:PRK14962  77 crsiDEGTFMDVI-ELDAASNRGIDEIRKIR---DAVGYRPMEGKYKVYIID------EVHmltkeafnallktLEEPPs 146

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 152 -FTLIGATTragmlsNPLRARFGITGHMEYYAEADLTE--IVERTADIFEME---ITHEAAEELALRSRGTPRIANRLLK 225
Cdd:PRK14962 147 hVVFVLATT------NLEKVPPTIISRCQVIEFRNISDelIIKRLQEVAEAEgieIDREALSFIAKRASGGLRDALTMLE 220

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217 226 RVRDFAqimgNGLIDDQITDQALTMLDvDQEGLDYVD-------QKILKTMIEVYGGGpvglGTLSINIaeeQETVEDMY 298
Cdd:PRK14962 221 QVWKFS----EGKITLETVHEALGLIP-IEVVRDYINaifngdvKRVFTVLDDVYYSG----KDYEVLI---QQAIEDLV 288


                 .
gi 568065217 299 E 299
Cdd:PRK14962 289 E 289
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 56-122 4.63e-05

first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r1-like subfamily belongs to the RecA-like family which 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. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410927 [Multi-domain]  Cd Length: 166  Bit Score: 43.19  E-value: 4.63e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 568065217  56 LLFGPPGLGKTTMAFVIANELGVNLKQTSGPVV------EKAGDLVAILNDLEPGD--VLFIDEIHRLPMSVEEV 122
Cdd:cd19519   38 LLYGPPGTGKTLIARAVANETGAFFFLINGPEImsklagESESNLRKAFEEAEKNApaIIFIDEIDAIAPKREKT 112
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 56-112 5.19e-05

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 44.23  E-value: 5.19e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 568065217  56 LLFGPPGLGKTTMAFVIANELGVNLKQTSGP-VVEK-AGDLVAILNDL-------EPGdVLFIDEI 112
Cdd:COG1222  116 LLYGPPGTGKTLLAKAVAGELGAPFIRVRGSeLVSKyIGEGARNVREVfelarekAPS-IIFIDEI 180
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 56-115 6.57e-05

second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ATPase domains; The Valosin-containing protein-like ATPase of Thermoplasma acidophilum (VAT), is an archaeal homolog of the ubiquitous Cdc48/p97. It is a protein unfoldase that functions in concert with the 20S proteasome by unfolding proteasome substrates and passing them on for degradation. VAT forms a homohexamer, each monomer contains two tandem ATPase domains, referred to as D1 and D2, and an N-terminal domain. This subfamily belongs to the RecA-like NTPase family which 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. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410937 [Multi-domain]  Cd Length: 159  Bit Score: 42.48  E-value: 6.57e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 568065217  56 LLFGPPGLGKTTMAFVIANELGVNLKQTSGPVV--------EKA-GDLVAILNDLEPGdVLFIDEIHRL 115
Cdd:cd19529   31 LLYGPPGTGKTLLAKAVATESNANFISVKGPELlskwvgesEKAiREIFRKARQVAPC-VIFFDEIDSI 98
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
31-115 8.19e-05

DNA polymerase III, delta prime subunit [Replication, recombination and repair];


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 43.81  E-value: 8.19e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  31 QDKVKNQLKIFIEAAKMRdealdHTLLF-GPPGLGKTTMAFVIANELGVNLKQTSGPVVEKAGDLVA--------ILNDL 101
Cdd:COG0470    1 QEEAWEQLLAAAESGRLP-----HALLLhGPPGIGKTTLALALARDLLCENPEGGKACGQCHSRLMAagnhpdllELNPE 75

                         90
                 ....*....|....
gi 568065217 102 EPGDVLFIDEIHRL 115
Cdd:COG0470   76 EKSDQIGIDQIREL 89
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 56-115 8.50e-05

ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This subfamily includes the ATPase domains of vacuolar protein sorting-associated protein 4 (VPS4), ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase), Katanin p60 ATPase-containing subunit A1 (KTNA1), Spastin, and Fidgetin-Like 1 (FIGL-1). This subfamily belongs to the RecA-like NTPase family which 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. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410917 [Multi-domain]  Cd Length: 163  Bit Score: 42.34  E-value: 8.50e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  56 LLFGPPGLGKTTMAFVIANELGVNLKQ------TSGPVVEkAGDLVAIL----NDLEPGdVLFIDEIHRL 115
Cdd:cd19509   36 LLYGPPGTGKTLLARAVASESGSTFFSisasslVSKWVGE-SEKIVRALfalaRELQPS-IIFIDEIDSL 103
DnaX COG2812
DNA polymerase III, gamma/tau subunits [Replication, recombination and repair];
22-73 2.25e-04

DNA polymerase III, gamma/tau subunits [Replication, recombination and repair];


Pssm-ID: 442061 [Multi-domain]  Cd Length: 340  Bit Score: 42.49  E-value: 2.25e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 568065217  22 PQYLQEYIGQDKVKNQLKIFIEAAKMRdealdHTLLF-GPPGLGKTTMAFVIA 73
Cdd:COG2812    6 PQTFDDVVGQEHVVRTLKNALASGRLA-----HAYLFtGPRGVGKTTLARILA 53
PRK04132 PRK04132
replication factor C small subunit; Provisional
 21-85 2.37e-04

replication factor C small subunit; Provisional


Pssm-ID: 235223 [Multi-domain]  Cd Length: 846  Bit Score: 42.90  E-value: 2.37e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 568065217  21 RPQYLQEYIGQDKVKNQLKIFIEAAKMrdealDHTLLFGPPGLGK--TTMAFVIAN----ELGVNLKQTSG 85
Cdd:PRK04132  14 RPQRLDDIVGQEHIVKRLKHYVKTGSM-----PHLLFAGPPGVGKclTGDTKVIANgelfEIGELVEKISN 79
COG1373 COG1373
Predicted ATPase, AAA+ superfamily [General function prediction only];
56-154 2.71e-04

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440984 [Multi-domain]  Cd Length: 405  Bit Score: 42.24  E-value: 2.71e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  56 LLFGPPGLGKTTMAFVIANELG----VNL--KQTSGPVVEKAGDLVAILNDLEPGDV-LFIDEIHRLPmSVEEVLYSAME 128
Cdd:COG1373   24 VITGPRQVGKTTLLKQLAKELEnilyINLddPRLRALAEEDPDDLLEALKELYPGKTyLFLDEIQRVP-EWEDALKRLVD 102

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 568065217 129 DFY-IDIMI-GS------GE-----TGRSVHLDLPPFTL 154
Cdd:COG1373  103 DGRnGRFILtGSsslllsKElaeslAGRIESLELYPLSF 141
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 56-86 4.14e-04

second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which 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. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410938 [Multi-domain]  Cd Length: 161  Bit Score: 40.16  E-value: 4.14e-04
                         10        20        30
                 ....*....|....*....|....*....|.
gi 568065217  56 LLFGPPGLGKTTMAFVIANELGVNLKQTSGP 86
Cdd:cd19530   34 LLYGPPGCGKTLLAKAVANESGANFISVKGP 64
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 56-86 4.61e-04

second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP in metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the second of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r2-like subfamily belongs to the RecA-like family which 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. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410936 [Multi-domain]  Cd Length: 161  Bit Score: 40.19  E-value: 4.61e-04
                         10        20        30
                 ....*....|....*....|....*....|.
gi 568065217  56 LLFGPPGLGKTTMAFVIANELGVNLKQTSGP 86
Cdd:cd19528   31 LFYGPPGCGKTLLAKAIANECQANFISVKGP 61
PRK14952 PRK14952
DNA polymerase III subunits gamma/tau;
18-86 4.61e-04

DNA polymerase III subunits gamma/tau;


Pssm-ID: 237866 [Multi-domain]  Cd Length: 584  Bit Score: 41.79  E-value: 4.61e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  18 RTLRPQYLQEYIGQDKVKNQLKIFIEAAKmrdeaLDHTLLF-GPPGLGKTTMAFVIANELGVNLKQTSGP 86
Cdd:PRK14952   5 RKYRPATFAEVVGQEHVTEPLSSALDAGR-----INHAYLFsGPRGCGKTSSARILARSLNCAQGPTATP 69
PRK14953 PRK14953
DNA polymerase III subunits gamma and tau; Provisional
 18-76 5.75e-04

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237867 [Multi-domain]  Cd Length: 486  Bit Score: 41.35  E-value: 5.75e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  18 RTLRPQYLQEYIGQDKVKNQLKIFIEAAKmrdeaLDHTLLF-GPPGLGKTTMAFVIANEL 76
Cdd:PRK14953   8 RKYRPKFFKEVIGQEIVVRILKNAVKLQR-----VSHAYIFaGPRGTGKTTIARILAKVL 62
PRK14956 PRK14956
DNA polymerase III subunits gamma and tau; Provisional
 9-76 6.23e-04

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184920 [Multi-domain]  Cd Length: 484  Bit Score: 41.47  E-value: 6.23e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 568065217   9 LMGDEELVERTLRPQYLQEYIGQDKVKNQLKIFIEAAKmrdeaLDHT-LLFGPPGLGKTTMAFVIANEL 76
Cdd:PRK14956   1 MSGTHEVLSRKYRPQFFRDVIHQDLAIGALQNALKSGK-----IGHAyIFFGPRGVGKTTIARILAKRL 64
PRK07133 PRK07133
DNA polymerase III subunits gamma and tau; Validated
 18-76 6.31e-04

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 235943 [Multi-domain]  Cd Length: 725  Bit Score: 41.34  E-value: 6.31e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  18 RTLRPQYLQEYIGQDKVKNQLKIFIEAAKmrdeaLDHTLLF-GPPGLGKTTMAFVIANEL 76
Cdd:PRK07133  10 RKYRPKTFDDIVGQDHIVQTLKNIIKSNK-----ISHAYLFsGPRGTGKTSVAKIFANAL 64
PRK14960 PRK14960
DNA polymerase III subunit gamma/tau;
14-86 7.07e-04

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237868 [Multi-domain]  Cd Length: 702  Bit Score: 41.19  E-value: 7.07e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 568065217  14 ELVERTLRPQYLQEYIGQDKVKNQLKIFIEAAKmrdeaLDHTLLF-GPPGLGKTTMAFVIANELGVNLKQTSGP 86
Cdd:PRK14960   3 QVLARKYRPRNFNELVGQNHVSRALSSALERGR-----LHHAYLFtGTRGVGKTTIARILAKCLNCETGVTSTP 71
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 30-112 8.98e-04

ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase) is an ATPase that plays a critical role in regulating the surface expression of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors, thereby regulating synaptic plasticity, learning and memory. This subfamily belongs to the RecA-like NTPase family which 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. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 39.33  E-value: 8.98e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  30 GQDKVKNQLKIFIEAAKMRDEALDHT---------LLFGPPGLGKTTMAFVIANELG---VNLKQTS------GPVVEKA 91
Cdd:cd19520    4 GLDEVITELKELVILPLQRPELFDNSrllqppkgvLLYGPPGCGKTMLAKATAKEAGarfINLQVSSltdkwyGESQKLV 83

                         90       100
                 ....*....|....*....|.
gi 568065217  92 GDLVAILNDLEPGdVLFIDEI 112
Cdd:cd19520   84 AAVFSLASKLQPS-IIFIDEI 103
AAA_3 pfam07726
ATPase family associated with various cellular activities (AAA); This Pfam entry includes some ...
 54-158 1.16e-03

ATPase family associated with various cellular activities (AAA); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 429622 [Multi-domain]  Cd Length: 131  Bit Score: 38.31  E-value: 1.16e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   54 HTLLFGPPGLGKTTMAFVIANELGVNLKQtsgpvVEKAGDL-------VAILN------DLEPG----DVLFIDEIHRLP 116
Cdd:pfam07726   1 HVLLEGVPGLAKTLLVRTLARSLGLDFRR-----IQFTPDLlpsditgTEVFDqktrefEFRPGpvfaNVLLADEINRAP 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 568065217  117 MSVEEVLYSAMEDFYIDImigSGETgrsvhLDLP-PFTLIgAT 158
Cdd:pfam07726  76 PKTQSALLEAMQERQVTI---DGET-----HPLPePFFVL-AT 109
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 56-172 1.51e-03

ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. This subfamily belongs to the RecA-like NTPase family which 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. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410931 [Multi-domain]  Cd Length: 163  Bit Score: 38.71  E-value: 1.51e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  56 LLFGPPGLGKTTMAFVIANELGVNLKQTSGP--VVEKAGDLVAILN------DLEPGDVLFIDEIHRLPMSV--EEVLYS 125
Cdd:cd19523   37 LLFGPRGTGKTLLGRCLASQLGATFLRLRGStlVAKWAGEGEKILQasflaaRCRQPSVLFISDLDALLSSQddEASPVG 116

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 568065217 126 AMED---FYIDIMIGSGETGRSVhldlppftlIGATTRAGMLSNPLRARF 172
Cdd:cd19523  117 RLQVellAQLDGVLGSGEDGVLV---------VCTTSKPEEIDESLRRYF 157
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 56-88 2.17e-03

AAA family ATPase, CDC48 subfamily; 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.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 39.89  E-value: 2.17e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 568065217   56 LLFGPPGLGKTTMAFVIANELGVNLKQTSGPVV 88
Cdd:TIGR01243 491 LLFGPPGTGKTLLAKAVATESGANFIAVRGPEI 523
PRK06647 PRK06647
DNA polymerase III subunits gamma and tau; Validated
 21-92 2.25e-03

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 235845 [Multi-domain]  Cd Length: 563  Bit Score: 39.75  E-value: 2.25e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 568065217  21 RPQYLQEYIGQDKVKNQLKIFIEAAKmrdeaLDHTLLF-GPPGLGKTTMAFVIANELgvNLKQtsGPVVEKAG 92
Cdd:PRK06647  11 RPRDFNSLEGQDFVVETLKHSIESNK-----IANAYIFsGPRGVGKTSSARAFARCL--NCVN--GPTPMPCG 74
PRK14963 PRK14963
DNA polymerase III subunits gamma and tau; Provisional
 18-73 2.42e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184927 [Multi-domain]  Cd Length: 504  Bit Score: 39.44  E-value: 2.42e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 568065217  18 RTLRPQYLQEYIGQDKVKNQLKifieaAKMRDEALDHTLLF-GPPGLGKTTMAFVIA 73
Cdd:PRK14963   6 QRARPITFDEVVGQEHVKEVLL-----AALRQGRLGHAYLFsGPRGVGKTTTARLIA 57
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 56-112 2.84e-03

Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of mitochondrial respiratory chain complex III and plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex. RecA-like NTPases. 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.


Pssm-ID: 410918 [Multi-domain]  Cd Length: 153  Bit Score: 37.72  E-value: 2.84e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568065217  56 LLFGPPGLGKTTMAFVIANELG-----VNLKQtsgpVVEKAGDLVAILNDLEPGDVLFIDEI 112
Cdd:cd19510   27 LLYGPPGTGKSSFIAALAGELDydicdLNLSE----VVLTDDRLNHLLNTAPKQSIILLEDI 84
Mg_chelatase pfam01078
Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that ...
 25-170 2.89e-03

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


Pssm-ID: 426032 [Multi-domain]  Cd Length: 207  Bit Score: 38.29  E-value: 2.89e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   25 LQEYIGQDKVKNQLKIfieAAkmrdeALDHTLLF-GPPGLGKTTMAF----------------VIANELGVNLKQTSGPV 87
Cdd:pfam01078   2 LADVKGQEQAKRALEI---AA-----AGGHNLLMiGPPGSGKTMLAKrlpgilpplteaealeVTAIHSVAGLGGDGGLI 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   88 -----------VEKAGdLVAILNDLEPGD-------VLFIDEIHRLPMSVEEVLYSAMEDFYIDIMIGSGetgrsvHLDL 149
Cdd:pfam01078  74 rrrpfraphhsASAAA-LVGGGSIPRPGEislahngVLFLDELPEFKRRVLESLRQPLEDGEITISRARA------KVTF 146

                         170       180
                  ....*....|....*....|....
gi 568065217  150 PP-FTLIGATT--RAGMLSNPLRA 170
Cdd:pfam01078 147 PArFQLVAAMNpcPCGYLGDPNKR 170
PRK14950 PRK14950
DNA polymerase III subunits gamma and tau; Provisional
 18-73 2.98e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237864 [Multi-domain]  Cd Length: 585  Bit Score: 39.41  E-value: 2.98e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 568065217  18 RTLRPQYLQEYIGQDKVKNQLKIFIEAAKmrdeaLDHTLLF-GPPGLGKTTMAFVIA 73
Cdd:PRK14950   8 RKWRSQTFAELVGQEHVVQTLRNAIAEGR-----VAHAYLFtGPRGVGKTSTARILA 59
PRK06835 PRK06835
DNA replication protein DnaC; Validated
 35-76 3.71e-03

DNA replication protein DnaC; Validated


Pssm-ID: 235871 [Multi-domain]  Cd Length: 329  Bit Score: 38.73  E-value: 3.71e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 568065217  35 KNQLKI------FIEAAKMRDEALdhtLLFGPPGLGKTTMAFVIANEL 76
Cdd:PRK06835 163 KNMEKIlekcknFIENFDKNNENL---LFYGNTGTGKTFLSNCIAKEL 207
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 56-86 4.17e-03

second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as Peroxin-1)/PEX6 is a protein unfoldase; PEX1 and PEX6 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. PEX-1 is required for stability of PEX5. This subfamily belongs to the RecA-like NTPase family which 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. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410934 [Multi-domain]  Cd Length: 158  Bit Score: 37.41  E-value: 4.17e-03
                         10        20        30
                 ....*....|....*....|....*....|.
gi 568065217  56 LLFGPPGLGKTTMAFVIANELGVNLKQTSGP 86
Cdd:cd19526   31 LLYGPPGCGKTLLASAIASECGLNFISVKGP 61
ftsH CHL00176
cell division protein; Validated
 56-112 5.09e-03

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 38.49  E-value: 5.09e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 568065217  56 LLFGPPGLGKTTMAFVIANELGVNLKQTSGP-VVE--------KAGDLVAILNDLEPGdVLFIDEI 112
Cdd:CHL00176 220 LLVGPPGTGKTLLAKAIAGEAEVPFFSISGSeFVEmfvgvgaaRVRDLFKKAKENSPC-IVFIDEI 284
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 56-112 5.30e-03

ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. It is anchored to the cytoplasmic membrane such that the amino- and carboxy-termini are exposed to the cytoplasm. It presents a membrane-bound hexameric structure that is able to unfold and degrade protein substrates. It is comprised of an N-terminal transmembrane region and the larger C-terminal cytoplasmic region, which consists of an ATPase domain and a protease domain. This RecA-Like FTsH subfamily represents the ATPase domain, and belongs to the RecA-like NTPase family which 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. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410909 [Multi-domain]  Cd Length: 171  Bit Score: 37.21  E-value: 5.30e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 568065217  56 LLFGPPGLGKTTMAFVIANELGVNLKQTSGP-VVE--------KAGDLVAILNDLEPGdVLFIDEI 112
Cdd:cd19501   41 LLVGPPGTGKTLLAKAVAGEAGVPFFSISGSdFVEmfvgvgasRVRDLFEQAKKNAPC-IVFIDEI 105
PRK14965 PRK14965
DNA polymerase III subunits gamma and tau; Provisional
 18-89 5.60e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237871 [Multi-domain]  Cd Length: 576  Bit Score: 38.57  E-value: 5.60e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 568065217  18 RTLRPQYLQEYIGQDKVKNQLKIFIEAAKmrdeaLDHTLLF-GPPGLGKTTMAFVIANELgvNLKQtsGPVVE 89
Cdd:PRK14965   8 RKYRPQTFSDLTGQEHVSRTLQNAIDTGR-----VAHAFLFtGARGVGKTSTARILAKAL--NCEQ--GLTAE 71
Bac_DnaA pfam00308
Bacterial dnaA protein;
45-232 5.83e-03

Bacterial dnaA protein;


Pssm-ID: 278724 [Multi-domain]  Cd Length: 219  Bit Score: 37.69  E-value: 5.83e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217   45 AKMRDEALDHTLLFGPPGLGKTTMAFVIANELgvnLKQTSGPVV------EKAGDLVAILND---------LEPGDVLFI 109
Cdd:pfam00308  27 AKAPGKAYNPLFIYGGVGLGKTHLLHAIGNYA---LQNAPNLRVvyltaeEFLNDFVDAIRDnktnqfkekYRNVDVLLI 103

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  110 DEIHRL--PMSVEEVLYSAMEDFYidimigsgETGRSVHL--DLPPFTLIGATTRagmlsnpLRARF--GITGHMEYYAE 183
Cdd:pfam00308 104 DDIQFLagKEGTQEEFFHTFNALH--------ESGKQIVFssDRPPKELEELEDR-------LRSRFqwGLVTDIEPPDL 168

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 568065217  184 ADLTEIVERTADIFEMEITHEAAEELALRSRGTPRIANRLLKRVRDFAQ 232
Cdd:pfam00308 169 ETRLAILRKKAEAEGIEIPPEVLNFIAQRVTDNVRELEGALNRLLAYSS 217
PRK06305 PRK06305
DNA polymerase III subunits gamma and tau; Validated
 10-76 8.78e-03

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 180523 [Multi-domain]  Cd Length: 451  Bit Score: 37.83  E-value: 8.78e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 568065217  10 MGDEELVERTLRPQYLQEYIGQDKVKNQLKifiEAAKMRDEAldHTLLF-GPPGLGKTTMAFVIANEL 76
Cdd:PRK06305   1 MTSYQVSSRKYRPQTFSEILGQDAVVAVLK---NALRFNRAA--HAYLFsGIRGTGKTTLARIFAKAL 63
PRK14970 PRK14970
DNA polymerase III subunits gamma and tau; Provisional
 18-76 9.00e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184934 [Multi-domain]  Cd Length: 367  Bit Score: 37.55  E-value: 9.00e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  18 RTLRPQYLQEYIGQDKVKNQLKIFIEaakmrDEALDHTLLF-GPPGLGKTTMAFVIANEL 76
Cdd:PRK14970   9 RKYRPQTFDDVVGQSHITNTLLNAIE-----NNHLAQALLFcGPRGVGKTTCARILARKI 63
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 30-115 9.42e-03

ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in microtubule dynamics; it specifically recognizes and cuts microtubules that are polyglutamylated. This subfamily belongs to the RecA-like NTPase family which 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. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410932 [Multi-domain]  Cd Length: 164  Bit Score: 36.37  E-value: 9.42e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568065217  30 GQDKVKNQLKIFIEAAKMRDEALDHT-------LLFGPPGLGKTTMAFVIANE-----LGVNLKQTSGPVVEKAGDLV-- 95
Cdd:cd19524    4 GQDLAKQALQEMVILPSLRPELFTGLraparglLLFGPPGNGKTMLAKAVAAEsnatfFNISAASLTSKYVGEGEKLVra 83

                         90       100
                 ....*....|....*....|..
gi 568065217  96 --AILNDLEPgDVLFIDEIHRL 115
Cdd:cd19524   84 lfAVARELQP-SIIFIDEVDSL 104
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 56-86 9.66e-03

second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as Peroxin61)/PEX1 is a protein unfoldase; PEX6 and PEX1 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. This subfamily represents the second ATPase domain of PEX6. This subfamily belongs to the RecA-like NTPase family which 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. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410935 [Multi-domain]  Cd Length: 160  Bit Score: 36.34  E-value: 9.66e-03
                         10        20        30
                 ....*....|....*....|....*....|.
gi 568065217  56 LLFGPPGLGKTTMAFVIANELGVNLKQTSGP 86
Cdd:cd19527   30 LLYGPPGTGKTLLAKAIATECSLNFLSVKGP 60
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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