TIP49 AAA-lid 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
                  ....*....|....*....|....*....|.
gi 1034636075 374 IIKIRAQTEGINISEEALNHLGEIGTKTTLR 404
Cdd:pfam17856   1 ILKIRAQEEGVKIDEEALDLLAKIGTETSLR 31

DNA helicase TIP49, TBP-interacting protein [Transcription];

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034636075   3 IEEVKSTTKTQRIASHSHVKGLGLDESGLAKQAASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALA 82
Cdd:COG1224     4 IREIEKVKEFERISAHSHIRGLGLDENGKAKFVADGLVGQVEAREAAGIVVKMIKEGKMAGKGILIVGPPGTGKTALAVA 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034636075  83 IAQELGSKVPFCPMVGSEVYSTEIKKTEVLMENFRRAIGLRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLK 162
Cdd:COG1224    84 IARELGEDTPFVAISGSEIYSAELKKTEFLMQALRKAIGVRVREKRKVYEGVVKEIKIRYARHPYNPYVKVPREATITLA 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034636075 163 TAKGTKQLKLDPSIFESLQKERVEAGDVIYIEANSGAVKRQGRCDTYATE-FDLEAEEYVPLPKGDVHKKKEIIQDVTLH 241
Cdd:COG1224   164 TKDEEKTLTVGEEIAQQLVELGIRKGDVIWIDAETGRVSKLGRAKGEGAKtYDIETKRIVEVPSGPVKKEKEIVRTLTLH 243

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034636075 242 DLDVANARPQGGqdILSMMGQlmkPKKTEITDKLRGEINKVVNKYIDQGIAELVPGVLFVDEVHMLDIECFTYLHRALES 321
Cdd:COG1224   244 DLDLYLAAQRAA--FSALFGF---FEEREIPSEVRKQVDELVKKWIEEGKAELVPGVLFIDDAHMLDIEAFSFLTRAMES 318

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034636075 322 SIAPIVIFASNRGNCVIRGTeDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEALNHLGEIGTKT 401
Cdd:COG1224   319 ELAPIIILATNRGITKIRGT-DIESPHGIPLDLLDRLLIIPTRPYTEDEIREIIKIRAEEEDIELSDDALEELTKIGVER 397

                  ...
gi 1034636075 402 TLR 404
Cdd:COG1224   398 SLR 400

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        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1034636075  40 VGQENAREACGVIVELIKS----KKMAGR---AVLLAGPPGTGKTALALAIAQELGskVPFCPMVGSE 100
Cdd:cd19501     7 AGCEEAKEELKEVVEFLKNpekfTKLGAKipkGVLLVGPPGTGKTLLAKAVAGEAG--VPFFSISGSD 72

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        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1034636075  40 VGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKV 91
Cdd:TIGR00635   7 IGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNL 58

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 1034636075  62 AGRAVLLAGPPGTGKTALALAIAQEL---GSKVPFCPMV 97
Cdd:NF038214   89 RAENVLLLGPPGTGKTHLAIALGYAAcrqGYRVRFTTAA 127

DNA helicase TIP49, TBP-interacting protein [Transcription];

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034636075   3 IEEVKSTTKTQRIASHSHVKGLGLDESGLAKQAASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALA 82
Cdd:COG1224     4 IREIEKVKEFERISAHSHIRGLGLDENGKAKFVADGLVGQVEAREAAGIVVKMIKEGKMAGKGILIVGPPGTGKTALAVA 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034636075  83 IAQELGSKVPFCPMVGSEVYSTEIKKTEVLMENFRRAIGLRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLK 162
Cdd:COG1224    84 IARELGEDTPFVAISGSEIYSAELKKTEFLMQALRKAIGVRVREKRKVYEGVVKEIKIRYARHPYNPYVKVPREATITLA 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034636075 163 TAKGTKQLKLDPSIFESLQKERVEAGDVIYIEANSGAVKRQGRCDTYATE-FDLEAEEYVPLPKGDVHKKKEIIQDVTLH 241
Cdd:COG1224   164 TKDEEKTLTVGEEIAQQLVELGIRKGDVIWIDAETGRVSKLGRAKGEGAKtYDIETKRIVEVPSGPVKKEKEIVRTLTLH 243

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034636075 242 DLDVANARPQGGqdILSMMGQlmkPKKTEITDKLRGEINKVVNKYIDQGIAELVPGVLFVDEVHMLDIECFTYLHRALES 321
Cdd:COG1224   244 DLDLYLAAQRAA--FSALFGF---FEEREIPSEVRKQVDELVKKWIEEGKAELVPGVLFIDDAHMLDIEAFSFLTRAMES 318

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034636075 322 SIAPIVIFASNRGNCVIRGTeDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEALNHLGEIGTKT 401
Cdd:COG1224   319 ELAPIIILATNRGITKIRGT-DIESPHGIPLDLLDRLLIIPTRPYTEDEIREIIKIRAEEEDIELSDDALEELTKIGVER 397

                  ...
gi 1034636075 402 TLR 404
Cdd:COG1224   398 SLR 400

TIP49 AAA-lid 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
                  ....*....|....*....|....*....|.
gi 1034636075 374 IIKIRAQTEGINISEEALNHLGEIGTKTTLR 404
Cdd:pfam17856   1 ILKIRAQEEGVKIDEEALDLLAKIGTETSLR 31

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        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1034636075  54 ELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGskVPFCPMVGSEVYSTEIKKTEVLMEN-FRRA 119
Cdd:cd19481    17 RLRRYGLGLPKGILLYGPPGTGKTLLAKALAGELG--LPLIVVKLSSLLSKYVGESEKNLRKiFERA 81

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        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1034636075  40 VGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELG 88
Cdd:pfam05496  10 IGQEKVKENLKIFIEAAKQRGEALDHVLLYGPPGLGKTTLANIIANEMG 58

Holliday junction branch migration DNA helicase RuvB;

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1034636075  40 VGQENAREACGViveLIKSKKMAGRA---VLLAGPPGTGKTALALAIAQELGSK 90
Cdd:PRK00080   28 IGQEKVKENLKI---FIEAAKKRGEAldhVLLYGPPGLGKTTLANIIANEMGVN 78

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

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1034636075  46 REAcgVIVELIKSKKMA------GRAVLLAGPPGTGKTALALAIAQELGskVPFCPMVGSEV 101
Cdd:COG1222    91 REA--VELPLKNPELFRkygiepPKGVLLYGPPGTGKTLLAKAVAGELG--APFIRVRGSEL 148

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 1034636075  64 RAVLLAGPPGTGKTALALAIAQELGskVPFCPMVGSEVYSTEIKKTE-VLMENFRRA 119
Cdd:cd19503    35 RGVLLHGPPGTGKTLLARAVANEAG--ANFLSISGPSIVSKYLGESEkNLREIFEEA 89

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

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1034636075  42 QENAREAcgvIVELIKSKKMAgRAVLLAGPPGTGKTALALAIAQELG 88
Cdd:COG0470     1 QEEAWEQ---LLAAAESGRLP-HALLLHGPPGIGKTTLALALARDLL 43

ATP-dependent zinc metalloprotease FtsH;

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1034636075  33 KQAASGLVGQENAREACGVIVELIKS----KKMAGR---AVLLAGPPGTGKTALALAIAQElgSKVPFCPMVGSE 100
Cdd:PRK10733  148 KTTFADVAGCDEAKEEVAELVEYLREpsrfQKLGGKipkGVLMVGPPGTGKTLLAKAIAGE--AKVPFFTISGSD 220

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

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1034636075  31 LAKQAASGLVGQENAREAcgVIVELikskkMAGRAVLLAGPPGTGKTALALAIAQELG 88
Cdd:COG0714     6 LRAEIGKVYVGQEELIEL--VLIAL-----LAGGHLLLEGVPGVGKTTLAKALARALG 56

proteasome-activating nucleotidase; Provisional

                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1034636075  66 VLLAGPPGTGKTALALAIAQElgSKVPFCPMVGSE 100
Cdd:PRK03992  168 VLLYGPPGTGKTLLAKAVAHE--TNATFIRVVGSE 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        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1034636075  40 VGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKV 91
Cdd:TIGR00635   7 IGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNL 58

ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein sorting-associated protein 4 (Vps4) is believed to be involved in intracellular protein transport out of a prevacuolar endosomal compartment. 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        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034636075  37 SGLVGQENAREAC--GVIV-----ELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKvpFCPMVGSEVYSTEIKKT 109
Cdd:cd19521     7 EDVAGLEGAKEALkeAVILpvkfpHLFTGNRKPWSGILLYGPPGTGKSYLAKAVATEANST--FFSVSSSDLVSKWMGES 84

                  ....*.
gi 1034636075 110 EVLMEN 115
Cdd:cd19521    85 EKLVKQ 90

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.

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1034636075  64 RAVLLAGPPGTGKTALALAIAQELgsKVPFCPMVGSEVYS 103
Cdd:cd19518    35 RGVLLHGPPGCGKTMLANAIAGEL--KVPFLKISATEIVS 72

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 1034636075  64 RAVLLAGPPGTGKTALALAIAQELGSKvpFCPMVGSEVYSTEIKKTE-VLMENFRRA 119
Cdd:TIGR01243 488 KGVLLFGPPGTGKTLLAKAVATESGAN--FIAVRGPEILSKWVGESEkAIREIFRKA 542

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 1034636075  64 RAVLLAGPPGTGKTALALAIAQELGSKvpFCPMVGSE 100
Cdd:cd19502    38 KGVLLYGPPGTGKTLLAKAVANHTDAT--FIRVVGSE 72

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.

                           10        20
                   ....*....|....*....|....*...
gi 1034636075   63 GRAVLLAGPPGTGKTALALAIAQELGSK 90
Cdd:smart00382   2 GEVILIVGPPGSGKTTLARALARELGPP 29

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

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1034636075  40 VGQENAREACGVIVELIKSKKMagRAVLLAGPPGTGKTALALAIAQELGSK 90
Cdd:COG2256    28 VGQEHLLGPGKPLRRAIEAGRL--SSMILWGPPGTGKTTLARLIANATDAE 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 1034636075  64 RAVLLAGPPGTGKTALALAIAQELGSKvpFCPMVGSEVYSTEIKKTEV-LMENFRRA 119
Cdd:TIGR01243 213 KGVLLYGPPGTGKTLLAKAVANEAGAY--FISINGPEIMSKYYGESEErLREIFKEA 267

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        30
                  ....*....|....*....|....*....|....*.
gi 1034636075  54 ELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGS 89
Cdd:cd19522    24 EFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECGT 59

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.

                          10        20
                  ....*....|....*....|....*
gi 1034636075  64 RAVLLAGPPGTGKTALALAIAQELG 88
Cdd:cd19520    36 KGVLLYGPPGCGKTMLAKATAKEAG 60

MoxR domain in the MoxR-vWA-beta-propeller ternary systems; Core MoxR component domain of the MoxR-vWA-beta-propeller ternary systems, a class of NTP-dependent biological conflict systems.

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1034636075  33 KQAASGLVGQENareacgvIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGSK 90
Cdd:pfam20030   8 RPLKTGFVGKDE-------IIDLLGLALVARENLFLLGPPGTAKSALVRRLAARLGGR 58

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]

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1034636075  28 ESGLAKQAASGLVGQENAREACGVIVELIKSK---KMAGRA--VLLAGPPGTGKTALALAIAQEL 87
Cdd:TIGR03922 272 EAELAEQIGLERVKRQVAALKSSTAMALARAErglPVAQTSnhMLFAGPPGTGKTTIARVVAKIY 336

DNA polymerase III subunits gamma and tau; Provisional

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034636075 298 VLFVDEVHMLDIECFTYLHRALESSiAPIVIFasnrgncvIRGTEDItspHGIPLDLLDRVMIIRTMLYTPQEMKQIIKI 377
Cdd:PRK14957  122 VYLIDEVHMLSKQSFNALLKTLEEP-PEYVKF--------ILATTDY---HKIPVTILSRCIQLHLKHISQADIKDQLKI 189

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1034636075 378 RAQTEGINISEEALNHLGeIGTKTTLRshDSMNMLVQLI 416
Cdd:PRK14957  190 ILAKENINSDEQSLEYIA-YHAKGSLR--DALSLLDQAI 225

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.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034636075  39 LVGQENAREACGVIV-------ELIKSKKMAGRAVLLAGPPGTGKTALALAIAQElgSKVPFCPMVGSEVYSTEIKKTEV 111
Cdd:cd19524     2 IAGQDLAKQALQEMVilpslrpELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAE--SNATFFNISAASLTSKYVGEGEK 79

                  ..
gi 1034636075 112 LM 113
Cdd:cd19524    80 LV 81

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        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034636075  59 KKMAGraVLLAGPPGTGKTALALAIAQELgsKVPFCPMVGSEVYSTEIKKTEvlmENFRR 118
Cdd:cd19527    24 RKRSG--ILLYGPPGTGKTLLAKAIATEC--SLNFLSVKGPELINMYIGESE---ANVRE 76

Predicted kinase, contains AAA domain [General function prediction only];

                          10        20
                  ....*....|....*....|...
gi 1034636075  66 VLLAGPPGTGKTALALAIAQELG 88
Cdd:COG0645     2 ILVCGLPGSGKSTLARALAERLG 24

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 1034636075  64 RAVLLAGPPGTGKTALALAIAQEL---GSKVPFCPMVGSEVYSTEIKKTE 110
Cdd:cd19517    35 RGVLFHGPPGTGKTLMARALAAECskgGQKVSFFMRKGADCLSKWVGEAE 84

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 1034636075  66 VLLAGPPGTGKTALALAIAQELGskVPFCPMVGSEVYSTEIKKTEVLMEN-FRRA 119
Cdd:cd19526    30 ILLYGPPGCGKTLLASAIASECG--LNFISVKGPELLNKYIGASEQNVRDlFSRA 82

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

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1034636075  39 LVGQENAREAcgvIVELIKSKKM-AGRAVLLAGPPGTGKTALALAIAQEL 87
Cdd:pfam13191   2 LVGREEELEQ---LLDALDRVRSgRPPSVLLTGEAGTGKTTLLRELLRAL 48