TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities.TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 977381070    1 MAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVLMENFRRAIGLRIKETKEVYEGEVTELTP 80
Cdd:pfam06068  48 IAGRAVLIAGPPGTGKTALAIAISKELGEDTPFTSISGSEVYSLEMKKTEALTQAFRKAIGVRIKEEKEVYEGEVVELEI 127

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 977381070   81 CETENPMGGyGKTISHVIIGLKTAKGTKQLKLDPSIFESLQKERVEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEY 160
Cdd:pfam06068 128 EEAENPLSG-GKTIKGGKITLKTTKMEKTLKLGPKIYEQLQKEKVSAGDVIYIDKNTGRVKKLGRSFARATDFDLEATEF 206

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 977381070  161 VPLPKGDVHKKKEIIQDVTLHDLDVANARPqggQDILSMmgqlMKPKKTEITDKLRGEINKVVNKYIDQGIAELVPGVLF 240
Cdd:pfam06068 207 VPCPKGEVHKRKEVVQTVTLHDIDVANARP---QGILSL----FSPKKGEITSELREEINKKVNKWIEEGKAEIVPGVLF 279

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 977381070  241 VDEVHMLDIECFTYLHRALESSIAPIVIFASNRGNCVIRGTeDITSPHGIPLDLLDRVMIIRTMLYTPQ 309
Cdd:pfam06068 280 IDEVHMLDIECFSFLNRALESDLAPIVILATNRGICTIRGT-DIISPHGIPLDLLDRLLIITTEPYTRE 347

TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities.TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 977381070    1 MAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVLMENFRRAIGLRIKETKEVYEGEVTELTP 80
Cdd:pfam06068  48 IAGRAVLIAGPPGTGKTALAIAISKELGEDTPFTSISGSEVYSLEMKKTEALTQAFRKAIGVRIKEEKEVYEGEVVELEI 127

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 977381070   81 CETENPMGGyGKTISHVIIGLKTAKGTKQLKLDPSIFESLQKERVEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEY 160
Cdd:pfam06068 128 EEAENPLSG-GKTIKGGKITLKTTKMEKTLKLGPKIYEQLQKEKVSAGDVIYIDKNTGRVKKLGRSFARATDFDLEATEF 206

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 977381070  161 VPLPKGDVHKKKEIIQDVTLHDLDVANARPqggQDILSMmgqlMKPKKTEITDKLRGEINKVVNKYIDQGIAELVPGVLF 240
Cdd:pfam06068 207 VPCPKGEVHKRKEVVQTVTLHDIDVANARP---QGILSL----FSPKKGEITSELREEINKKVNKWIEEGKAEIVPGVLF 279

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 977381070  241 VDEVHMLDIECFTYLHRALESSIAPIVIFASNRGNCVIRGTeDITSPHGIPLDLLDRVMIIRTMLYTPQ 309
Cdd:pfam06068 280 IDEVHMLDIECFSFLNRALESDLAPIVILATNRGICTIRGT-DIISPHGIPLDLLDRLLIITTEPYTRE 347

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.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 977381070   2 AGRAVLLAGPPGTGKTALALAIAQELGskVPFCPMVGSEVYSTEIKKTEVLMEN-FRRA 59
Cdd:cd19481   25 LPKGILLYGPPGTGKTLLAKALAGELG--LPLIVVKLSSLLSKYVGESEKNLRKiFERA 81

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.

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 977381070    4 RAVLLAGPPGTGKTALALAIAQELGSKvpFCPMVGSEVYSTEIKKTE-VLMENFRRA 59
Cdd:TIGR01243 488 KGVLLFGPPGTGKTLLAKAVATESGAN--FIAVRGPEILSKWVGESEkAIREIFRKA 542

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.

                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 977381070   2 AGRAVLLAGPPGTGKTALALAIAQEL---GSKVPFCPMV 37
Cdd:NF038214  89 RAENVLLLGPPGTGKTHLAIALGYAAcrqGYRVRFTTAA 127

TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities.TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 977381070    1 MAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVLMENFRRAIGLRIKETKEVYEGEVTELTP 80
Cdd:pfam06068  48 IAGRAVLIAGPPGTGKTALAIAISKELGEDTPFTSISGSEVYSLEMKKTEALTQAFRKAIGVRIKEEKEVYEGEVVELEI 127

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 977381070   81 CETENPMGGyGKTISHVIIGLKTAKGTKQLKLDPSIFESLQKERVEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEY 160
Cdd:pfam06068 128 EEAENPLSG-GKTIKGGKITLKTTKMEKTLKLGPKIYEQLQKEKVSAGDVIYIDKNTGRVKKLGRSFARATDFDLEATEF 206

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 977381070  161 VPLPKGDVHKKKEIIQDVTLHDLDVANARPqggQDILSMmgqlMKPKKTEITDKLRGEINKVVNKYIDQGIAELVPGVLF 240
Cdd:pfam06068 207 VPCPKGEVHKRKEVVQTVTLHDIDVANARP---QGILSL----FSPKKGEITSELREEINKKVNKWIEEGKAEIVPGVLF 279

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 977381070  241 VDEVHMLDIECFTYLHRALESSIAPIVIFASNRGNCVIRGTeDITSPHGIPLDLLDRVMIIRTMLYTPQ 309
Cdd:pfam06068 280 IDEVHMLDIECFSFLNRALESDLAPIVILATNRGICTIRGT-DIISPHGIPLDLLDRLLIITTEPYTRE 347

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.

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 977381070    6 VLLAGPPGTGKTALALAIAQELGskVPFCPMVGSEVYSTEIKKTEVLMEN-FRRA 59
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELG--APFIEISGSELVSKYVGESEKRLRElFEAA 53

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.

                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 977381070   4 RAVLLAGPPGTGKTALALAIAQELGskVPFCPMVGSE 40
Cdd:cd19501   38 KGVLLVGPPGTGKTLLAKAVAGEAG--VPFFSISGSD 72

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.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 977381070   4 RAVLLAGPPGTGKTALALAIAQELGskVPFCPMVGSEVYSTEIKKTE-VLMENFRRA 59
Cdd:cd19503   35 RGVLLHGPPGTGKTLLARAVANEAG--ANFLSISGPSIVSKYLGESEkNLREIFEEA 89

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.

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 977381070   3 GRAVLLAGPPGTGKTALALAIAQELG-SKVPFCPMVGSEVYSTEIKKTEVLMENFRRAIGLR 63
Cdd:cd00009   19 PKNLLLYGPPGTGKTTLARAIANELFrPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFELA 80

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.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 977381070   4 RAVLLAGPPGTGKTALALAIAQElgSKVPFCPMVGSEVYSTEIKKTE-VLMENFRRA 59
Cdd:cd19511   28 KGVLLYGPPGCGKTLLAKALASE--AGLNFISVKGPELFSKYVGESErAVREIFQKA 82

proteasome-activating nucleotidase; Provisional

                         10        20        30
                 ....*....|....*....|....*....|....*
gi 977381070   6 VLLAGPPGTGKTALALAIAQElgSKVPFCPMVGSE 40
Cdd:PRK03992 168 VLLYGPPGTGKTLLAKAVAHE--TNATFIRVVGSE 200

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

                         10        20        30
                 ....*....|....*....|....*....|
gi 977381070   4 RAVLLAGPPGTGKTALALAIAQELgsKVPF 33
Cdd:COG1223   36 RKILFYGPPGTGKTMLAEALAGEL--KLPL 63

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

                         10        20
                 ....*....|....*....|....
gi 977381070   5 AVLLAGPPGTGKTALALAIAQELG 28
Cdd:COG0470   20 ALLLHGPPGIGKTTLALALARDLL 43

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.

                          10        20
                  ....*....|....*....|...
gi 977381070    6 VLLAGPPGTGKTALALAIAQELG 28
Cdd:pfam05496  36 VLLYGPPGLGKTTLANIIANEMG 58

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.

                         10        20
                 ....*....|....*....|....*.
gi 977381070   4 RAVLLAGPPGTGKTALALAIAQELGS 29
Cdd:cd19509   33 RGILLYGPPGTGKTLLARAVASESGS 58

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.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 977381070   4 RAVLLAGPPGTGKTALALAIAQELGSKvpFCPMVGSEVYSTEIKKTEvlmENFRRA 59
Cdd:cd19519   35 RGILLYGPPGTGKTLIARAVANETGAF--FFLINGPEIMSKLAGESE---SNLRKA 85

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

                         10        20
                 ....*....|....*....|....*...
gi 977381070   1 MAGRAVLLAGPPGTGKTALALAIAQELG 28
Cdd:COG0714   29 LAGGHLLLEGVPGVGKTTLAKALARALG 56

proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily contains ATPase subunits of the eukaryotic 26S proteasome, and of the archaeal proteasome which carry out ATP-dependent degradation of substrates of the ubiquitin-proteasome pathway. The eukaryotic 26S proteasome consists of a proteolytic 20S core particle (CP), and a 19S regulatory particle (RP) which provides the ATP-dependence and the specificity for ubiquitinated proteins. In the archaea the RP is a homohexameric complex of proteasome-activating nucleotidase (PAN). This subfamily also includes various eukaryotic 26S subunits including, proteasome 26S subunit, ATPase 2 (PSMC2, also known as S7 and MSS1) which is a member of the 19S RP and has a chaperone like activity; and proteasome 20S subunit alpha 6 (PSMA6, also known as IOTA, p27K, and PROS27) which is a member of the 20S CP. This RecA-like_PAN 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.

                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 977381070   4 RAVLLAGPPGTGKTALALAIAQELGSKvpFCPMVGSE 40
Cdd:cd19502   38 KGVLLYGPPGTGKTLLAKAVANHTDAT--FIRVVGSE 72

5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms];

                         10        20
                 ....*....|....*....|....*..
gi 977381070   6 VLLAGPPGTGKTALALAIAQELGSKVP 32
Cdd:COG1401  224 VILAGPPGTGKTYLARRLAEALGGEDN 250

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.

                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 977381070   2 AGRAVLLAGPPGTGKTALALAIAQEL---GSKVPFCPMV 37
Cdd:NF038214  89 RAENVLLLGPPGTGKTHLAIALGYAAcrqGYRVRFTTAA 127

Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is the catalytic subunit of the Katanin complex which is severs microtubules in an ATP-dependent manner, and is implicated in multiple aspects of microtubule dynamics. In addition to the p60 catalytic ATPase subunit, Katanin contains an accessory subunit (p80 or p80-like). The microtubule-severing activity of the ATPase is essential for female meiotic spindle assembly, and male gamete production; and the katanin complex severing microtubules is under tight regulation during the transition from the meiotic to mitotic stage to allow proper embryogenesis. 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.

                         10        20
                 ....*....|....*....|....*.
gi 977381070   4 RAVLLAGPPGTGKTALALAIAQELGS 29
Cdd:cd19522   34 KGVLMVGPPGTGKTLLAKAVATECGT 59

Predicted ATPase [General function prediction only];

                         10        20
                 ....*....|....*....|....*.
gi 977381070   2 AGRAVLLAGPPGTGKTALALAIAQEL 27
Cdd:COG3903  175 AARLVTLTGPGGVGKTRLALEVAHRL 200

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]

                          10        20
                  ....*....|....*....|....*.
gi 977381070    6 VLLAGPPGTGKTALALAIAQELGSKV 31
Cdd:TIGR00635  33 LLLYGPPGLGKTTLAHIIANEMGVNL 58

ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as Thyroid hormone receptor interactor 13 (TRIP13) and 16E1BP) is a key regulator of specific chromosomal events, like the control of G2/prophase processes such as DNA break formation and recombination, checkpoint signaling, and chromosome synapsis. 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

                         10        20
                 ....*....|....*....|....
gi 977381070   4 RAVLLAGPPGTGKTALALAIAQEL 27
Cdd:cd19508   53 RLVLLHGPPGTGKTSLCKALAQKL 76

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.

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 977381070    4 RAVLLAGPPGTGKTALALAIAQELGSKvpFCPMVGSEVYSTEIKKTEV-LMENFRRA 59
Cdd:TIGR01243 213 KGVLLYGPPGTGKTLLAKAVANEAGAY--FISINGPEIMSKYYGESEErLREIFKEA 267

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.

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 977381070   4 RAVLLAGPPGTGKTALALAIAQElgSKVPFCPMVGSEVYSTEIKKTE 50
Cdd:cd19528   28 KGVLFYGPPGCGKTLLAKAIANE--CQANFISVKGPELLTMWFGESE 72

lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an evolutionarily conserved ATP-dependent serine protease, present in bacteria and eukaryotic mitochondria and peroxisomes, which mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Lon protease is both an ATP-dependent peptidase and a protein-activated ATPase. This RecA-like Lon domain 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.

                         10        20        30
                 ....*....|....*....|....*....|
gi 977381070   1 MAGRAVLLAGPPGTGKTALALAIAQELGSK 30
Cdd:cd19500   35 MKGPILCLVGPPGVGKTSLGKSIARALGRK 64

ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces cerevisiae Yta7 is a chromatin-associated AAA-ATPase involved in regulation of chromatin dynamics. Its human ortholog ANCCA/ATAD2 transcriptionally activates pathways of malignancy in a broad range of cancers. The RecA-like_Yta7 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.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 977381070   4 RAVLLAGPPGTGKTALALAIAQEL---GSKVPFCPMVGSEVYSTEIKKTE 50
Cdd:cd19517   35 RGVLFHGPPGTGKTLMARALAAECskgGQKVSFFMRKGADCLSKWVGEAE 84

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.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 977381070   6 VLLAGPPGTGKTALALAIAQELgsKVPFCPMVGSEVYSTEIKKTEvlmENFRR 58
Cdd:cd19527   29 ILLYGPPGTGKTLLAKAIATEC--SLNFLSVKGPELINMYIGESE---ANVRE 76

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.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 977381070   6 VLLAGPPGTGKTALALAIAQELGskVPFCPMVGSEVYSTEIKKTEVLMEN-FRRA 59
Cdd:cd19526   30 ILLYGPPGCGKTLLASAIASECG--LNFISVKGPELLNKYIGASEQNVRDlFSRA 82

RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];

                         10        20
                 ....*....|....*....|....*
gi 977381070   2 AGRAVLLAGPPGTGKTALALAIAQE 26
Cdd:COG0467   19 RGSSTLLSGPPGTGKTTLALQFLAE 43

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

                          10        20
                  ....*....|....*....|....*.
gi 977381070    2 AGRAVLLAGPPGTGKTALALAIAQEL 27
Cdd:pfam13191  23 RPPSVLLTGEAGTGKTTLLRELLRAL 48

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

                         10        20
                 ....*....|....*....|...
gi 977381070   5 AVLLAGPPGTGKTALALAIAQEL 27
Cdd:COG2812   34 AYLFTGPRGVGKTTLARILAKAL 56

Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];

                         10        20        30
                 ....*....|....*....|....*....|...
gi 977381070   2 AGRAVLLAGPPGTGKTALALAIAQELGSKVPFC 34
Cdd:COG1061   99 GGGRGLVVAPTGTGKTVLALALAAELLRGKRVL 131

IstB-like ATP binding protein; This protein contains an ATP/GTP binding P-loop motif. It is found associated with IS21 family insertion sequences. The function of this protein is unknown, but it may perform a transposase function.

                          10        20
                  ....*....|....*....|.
gi 977381070    6 VLLAGPPGTGKTALALAIAQE 26
Cdd:pfam01695  95 VVLLGPPGVGKTHLAIALGVE 115