ATPase associated with various cellular activities (AAA) family protein [Babesia bovis T2Bo]
Protein Classification
List of domain hits
| Name | Accession | Description | Interval | E-value | |||||||
| P-loop_NTPase super family | cl38936 | P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain ... |
223-399 | 7.45e-109 | |||||||
P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a hydrophobic residue). The Walker A and B motifs bind the beta-gamma phosphate moiety of the bound nucleotide (typically ATP or GTP) and the Mg2+ cation, respectively. The P-loop NTPases are involved in diverse cellular functions, and they can be divided into two major structural classes: the KG (kinase-GTPase) class which includes Ras-like GTPases and its circularly permutated YlqF-like; and the ASCE (additional strand catalytic E) class which includes ATPase Binding Cassette (ABC), DExD/H-like helicases, 4Fe-4S iron sulfur cluster binding proteins of NifH family, RecA-like F1-ATPases, and ATPases Associated with a wide variety of Activities (AAA). Also included are a diverse set of nucleotide/nucleoside kinase families. The actual alignment was detected with superfamily member cd19504: Pssm-ID: 476819 [Multi-domain] Cd Length: 177 Bit Score: 328.68 E-value: 7.45e-109
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| CDC48 super family | cl36852 | AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ... |
215-607 | 2.09e-66 | |||||||
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. The actual alignment was detected with superfamily member TIGR01243: Pssm-ID: 273521 [Multi-domain] Cd Length: 733 Bit Score: 234.03 E-value: 2.09e-66
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| CDC48_N | pfam02359 | Cell division protein 48 (CDC48), N-terminal domain; This domain has a double psi-beta barrel ... |
5-86 | 5.82e-11 | |||||||
Cell division protein 48 (CDC48), N-terminal domain; This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the N-terminus. The VAT-N domain found in AAA ATPases pfam00004 is a substrate 185-residue recognition domain. : Pssm-ID: 426738 Cd Length: 85 Bit Score: 59.13 E-value: 5.82e-11
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| COG1223 super family | cl34192 | Predicted ATPase, AAA+ superfamily [General function prediction only]; |
530-741 | 3.64e-06 | |||||||
Predicted ATPase, AAA+ superfamily [General function prediction only]; The actual alignment was detected with superfamily member COG1223: Pssm-ID: 440836 [Multi-domain] Cd Length: 246 Bit Score: 49.11 E-value: 3.64e-06
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| Name | Accession | Description | Interval | E-value | |||||||
| RecA-like_NSF-SEC18_r1-like | cd19504 | first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ... |
223-399 | 7.45e-109 | |||||||
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; N-ethylmaleimide-sensitive factor (NSF) and Saccharomyces cerevisiae Vesicular-fusion protein Sec18, key factors for eukaryotic trafficking, are ATPases and SNARE disassembly chaperones. NSF/Sec18 activate or prime SNAREs, the terminal catalysts of membrane fusion. Sec18/NSF associates with SNARE complexes through binding Sec17/alpha-SNAP. Sec18 has an N-terminal cap domain and two nucleotide-binding domains (D1 and D2) which form the two rings of the hexameric complex. The hydrolysis of ATP by D1 generates most of the energy necessary to disassemble inactive SNARE bundles, while the D2 ring binds ATP to stabilize the homohexamer. This subfamily includes the first (D1) ATPase domain of NSF/Sec18, 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: 410912 [Multi-domain] Cd Length: 177 Bit Score: 328.68 E-value: 7.45e-109
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| RPT1 | COG1222 | ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ... |
187-491 | 1.41e-82 | |||||||
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]; Pssm-ID: 440835 [Multi-domain] Cd Length: 326 Bit Score: 265.72 E-value: 1.41e-82
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| CDC48 | TIGR01243 | AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ... |
215-607 | 2.09e-66 | |||||||
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: 234.03 E-value: 2.09e-66
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| PRK03992 | PRK03992 | proteasome-activating nucleotidase; Provisional |
214-490 | 1.70e-61 | |||||||
proteasome-activating nucleotidase; Provisional Pssm-ID: 179699 [Multi-domain] Cd Length: 389 Bit Score: 211.61 E-value: 1.70e-61
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| CDC48 | TIGR01243 | AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ... |
189-492 | 1.79e-58 | |||||||
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: 211.69 E-value: 1.79e-58
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| AAA | pfam00004 | ATPase family associated with various cellular activities (AAA); AAA family proteins often ... |
260-401 | 3.60e-40 | |||||||
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: 143.89 E-value: 3.60e-40
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| AAA | pfam00004 | ATPase family associated with various cellular activities (AAA); AAA family proteins often ... |
540-647 | 6.16e-13 | |||||||
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: 66.08 E-value: 6.16e-13
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| AAA | smart00382 | ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
258-403 | 8.00e-13 | |||||||
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: 66.63 E-value: 8.00e-13
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| RecA-like_protease | cd19481 | proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ... |
528-648 | 1.73e-12 | |||||||
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: 65.77 E-value: 1.73e-12
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| SpoVK | COG0464 | AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ... |
535-647 | 1.92e-11 | |||||||
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: 66.47 E-value: 1.92e-11
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| CDC48_N | pfam02359 | Cell division protein 48 (CDC48), N-terminal domain; This domain has a double psi-beta barrel ... |
5-86 | 5.82e-11 | |||||||
Cell division protein 48 (CDC48), N-terminal domain; This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the N-terminus. The VAT-N domain found in AAA ATPases pfam00004 is a substrate 185-residue recognition domain. Pssm-ID: 426738 Cd Length: 85 Bit Score: 59.13 E-value: 5.82e-11
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| AAA | smart00382 | ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
539-652 | 4.15e-09 | |||||||
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: 55.84 E-value: 4.15e-09
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| COG1223 | COG1223 | Predicted ATPase, AAA+ superfamily [General function prediction only]; |
530-741 | 3.64e-06 | |||||||
Predicted ATPase, AAA+ superfamily [General function prediction only]; Pssm-ID: 440836 [Multi-domain] Cd Length: 246 Bit Score: 49.11 E-value: 3.64e-06
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| PRK03992 | PRK03992 | proteasome-activating nucleotidase; Provisional |
540-606 | 2.11e-05 | |||||||
proteasome-activating nucleotidase; Provisional Pssm-ID: 179699 [Multi-domain] Cd Length: 389 Bit Score: 47.52 E-value: 2.11e-05
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| Name | Accession | Description | Interval | E-value | |||||||
| RecA-like_NSF-SEC18_r1-like | cd19504 | first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ... |
223-399 | 7.45e-109 | |||||||
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; N-ethylmaleimide-sensitive factor (NSF) and Saccharomyces cerevisiae Vesicular-fusion protein Sec18, key factors for eukaryotic trafficking, are ATPases and SNARE disassembly chaperones. NSF/Sec18 activate or prime SNAREs, the terminal catalysts of membrane fusion. Sec18/NSF associates with SNARE complexes through binding Sec17/alpha-SNAP. Sec18 has an N-terminal cap domain and two nucleotide-binding domains (D1 and D2) which form the two rings of the hexameric complex. The hydrolysis of ATP by D1 generates most of the energy necessary to disassemble inactive SNARE bundles, while the D2 ring binds ATP to stabilize the homohexamer. This subfamily includes the first (D1) ATPase domain of NSF/Sec18, 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: 410912 [Multi-domain] Cd Length: 177 Bit Score: 328.68 E-value: 7.45e-109
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| RPT1 | COG1222 | ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ... |
187-491 | 1.41e-82 | |||||||
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]; Pssm-ID: 440835 [Multi-domain] Cd Length: 326 Bit Score: 265.72 E-value: 1.41e-82
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| CDC48 | TIGR01243 | AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ... |
215-607 | 2.09e-66 | |||||||
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: 234.03 E-value: 2.09e-66
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| PRK03992 | PRK03992 | proteasome-activating nucleotidase; Provisional |
214-490 | 1.70e-61 | |||||||
proteasome-activating nucleotidase; Provisional Pssm-ID: 179699 [Multi-domain] Cd Length: 389 Bit Score: 211.61 E-value: 1.70e-61
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| SpoVK | COG0464 | AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ... |
224-490 | 7.28e-60 | |||||||
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: 207.46 E-value: 7.28e-60
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| CDC48 | TIGR01243 | AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ... |
189-492 | 1.79e-58 | |||||||
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: 211.69 E-value: 1.79e-58
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| 26Sp45 | TIGR01242 | 26S proteasome subunit P45 family; Many proteins may score above the trusted cutoff because an ... |
214-490 | 2.63e-57 | |||||||
26S proteasome subunit P45 family; Many proteins may score above the trusted cutoff because an internal Pssm-ID: 130309 [Multi-domain] Cd Length: 364 Bit Score: 199.64 E-value: 2.63e-57
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| RecA-like_CDC48_r2-like | cd19511 | second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ... |
246-399 | 5.78e-49 | |||||||
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: 169.39 E-value: 5.78e-49
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| RecA-like_CDC48_NLV2_r1-like | cd19503 | first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ... |
223-399 | 5.80e-49 | |||||||
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: 169.78 E-value: 5.80e-49
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| RecA-like_protease | cd19481 | proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ... |
232-399 | 9.64e-46 | |||||||
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: 160.53 E-value: 9.64e-46
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| RecA-like_VCP_r2 | cd19529 | second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ... |
246-399 | 9.50e-45 | |||||||
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: 157.66 E-value: 9.50e-45
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| pup_AAA | TIGR03689 | proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some ... |
215-462 | 2.33e-44 | |||||||
proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity. [Protein fate, Degradation of proteins, peptides, and glycopeptides] Pssm-ID: 200312 [Multi-domain] Cd Length: 512 Bit Score: 167.19 E-value: 2.33e-44
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| COG1223 | COG1223 | Predicted ATPase, AAA+ superfamily [General function prediction only]; |
247-476 | 6.51e-44 | |||||||
Predicted ATPase, AAA+ superfamily [General function prediction only]; Pssm-ID: 440836 [Multi-domain] Cd Length: 246 Bit Score: 158.51 E-value: 6.51e-44
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| RecA-like_CDC48_r1-like | cd19519 | first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ... |
224-400 | 1.67e-43 | |||||||
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: 154.52 E-value: 1.67e-43
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| FtsH_fam | TIGR01241 | ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct ... |
246-476 | 2.45e-42 | |||||||
ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH. [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides] Pssm-ID: 273520 [Multi-domain] Cd Length: 495 Bit Score: 160.91 E-value: 2.45e-42
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| ftsH | CHL00176 | cell division protein; Validated |
224-445 | 7.35e-41 | |||||||
cell division protein; Validated Pssm-ID: 214386 [Multi-domain] Cd Length: 638 Bit Score: 159.06 E-value: 7.35e-41
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| RecA-like_CDC48_r2-like | cd19528 | second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ... |
244-399 | 1.04e-40 | |||||||
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: 146.50 E-value: 1.04e-40
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| RecA-like_PAN_like | cd19502 | proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ... |
224-399 | 2.25e-40 | |||||||
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. Pssm-ID: 410910 [Multi-domain] Cd Length: 171 Bit Score: 145.94 E-value: 2.25e-40
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| AAA | pfam00004 | ATPase family associated with various cellular activities (AAA); AAA family proteins often ... |
260-401 | 3.60e-40 | |||||||
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: 143.89 E-value: 3.60e-40
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| RecA-like_PEX1_r2 | cd19526 | second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ... |
246-398 | 2.54e-38 | |||||||
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: 139.87 E-value: 2.54e-38
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| HflB | COG0465 | ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; |
258-476 | 2.63e-38 | |||||||
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Pssm-ID: 440233 [Multi-domain] Cd Length: 583 Bit Score: 150.96 E-value: 2.63e-38
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| PTZ00361 | PTZ00361 | 26 proteosome regulatory subunit 4-like protein; Provisional |
224-448 | 9.85e-37 | |||||||
26 proteosome regulatory subunit 4-like protein; Provisional Pssm-ID: 185575 [Multi-domain] Cd Length: 438 Bit Score: 143.76 E-value: 9.85e-37
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| RecA-like_NVL_r2-like | cd19530 | second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ... |
235-394 | 3.16e-35 | |||||||
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: 131.07 E-value: 3.16e-35
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| hflB | PRK10733 | ATP-dependent zinc metalloprotease FtsH; |
246-490 | 1.20e-34 | |||||||
ATP-dependent zinc metalloprotease FtsH; Pssm-ID: 182683 [Multi-domain] Cd Length: 644 Bit Score: 140.55 E-value: 1.20e-34
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| PTZ00454 | PTZ00454 | 26S protease regulatory subunit 6B-like protein; Provisional |
214-479 | 3.52e-33 | |||||||
26S protease regulatory subunit 6B-like protein; Provisional Pssm-ID: 240423 [Multi-domain] Cd Length: 398 Bit Score: 132.19 E-value: 3.52e-33
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| RecA-like_PEX6_r2 | cd19527 | second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ... |
246-394 | 1.37e-32 | |||||||
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: 123.39 E-value: 1.37e-32
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| RecA-like_Yta7-like | cd19517 | ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ... |
224-394 | 5.68e-31 | |||||||
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. Pssm-ID: 410925 [Multi-domain] Cd Length: 170 Bit Score: 119.15 E-value: 5.68e-31
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| RecA-like_FtsH | cd19501 | ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ... |
246-399 | 1.92e-30 | |||||||
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: 117.72 E-value: 1.92e-30
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| RecA-like_NVL_r1-like | cd19518 | first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ... |
224-397 | 2.57e-29 | |||||||
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: 114.42 E-value: 2.57e-29
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| RecA-like_VPS4-like | cd19509 | ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ... |
224-399 | 2.46e-26 | |||||||
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: 105.90 E-value: 2.46e-26
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| AAA | cd00009 | The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ... |
258-401 | 1.48e-20 | |||||||
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: 88.74 E-value: 1.48e-20
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| RecA-like_ATAD1 | cd19520 | ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ... |
224-395 | 5.14e-19 | |||||||
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: 84.78 E-value: 5.14e-19
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| RecA-like_KTNA1 | cd19522 | Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ... |
224-399 | 9.18e-17 | |||||||
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. Pssm-ID: 410930 [Multi-domain] Cd Length: 170 Bit Score: 78.49 E-value: 9.18e-17
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| RecA-like_VPS4 | cd19521 | ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ... |
214-397 | 2.10e-16 | |||||||
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. Pssm-ID: 410929 [Multi-domain] Cd Length: 170 Bit Score: 77.59 E-value: 2.10e-16
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| RecA-like_Pch2-like | cd19508 | ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ... |
254-387 | 8.68e-16 | |||||||
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 Pssm-ID: 410916 [Multi-domain] Cd Length: 199 Bit Score: 76.33 E-value: 8.68e-16
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| RecA-like_Figl-1 | cd19525 | ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ... |
258-389 | 2.59e-14 | |||||||
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; it may be involved in DNA double-strand break repair via homologous recombination. Caenorhabditis elegans FIGL-1 is a nuclear protein and controls the mitotic progression in the germ line and mouse FIGL-1 may be involved in the control of male meiosis. human FIGL-1 has been shown to be a centrosome protein involved in ciliogenesis perhaps as a 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: 410933 [Multi-domain] Cd Length: 186 Bit Score: 71.94 E-value: 2.59e-14
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| RecA-like_BCS1 | cd19510 | Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ... |
250-399 | 1.59e-13 | |||||||
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: 68.53 E-value: 1.59e-13
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| AAA | pfam00004 | ATPase family associated with various cellular activities (AAA); AAA family proteins often ... |
540-647 | 6.16e-13 | |||||||
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: 66.08 E-value: 6.16e-13
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| AAA | smart00382 | ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
258-403 | 8.00e-13 | |||||||
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: 66.63 E-value: 8.00e-13
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| RecA-like_protease | cd19481 | proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ... |
528-648 | 1.73e-12 | |||||||
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: 65.77 E-value: 1.73e-12
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| RecA-like_spastin | cd19524 | ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ... |
258-399 | 3.15e-12 | |||||||
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: 65.26 E-value: 3.15e-12
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| AAA | cd00009 | The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ... |
530-661 | 9.04e-12 | |||||||
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: 63.70 E-value: 9.04e-12
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| SpoVK | COG0464 | AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ... |
535-647 | 1.92e-11 | |||||||
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: 66.47 E-value: 1.92e-11
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| ycf46 | CHL00195 | Ycf46; Provisional |
224-446 | 2.45e-11 | |||||||
Ycf46; Provisional Pssm-ID: 177094 [Multi-domain] Cd Length: 489 Bit Score: 66.58 E-value: 2.45e-11
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| CDC48_N | pfam02359 | Cell division protein 48 (CDC48), N-terminal domain; This domain has a double psi-beta barrel ... |
5-86 | 5.82e-11 | |||||||
Cell division protein 48 (CDC48), N-terminal domain; This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the N-terminus. The VAT-N domain found in AAA ATPases pfam00004 is a substrate 185-residue recognition domain. Pssm-ID: 426738 Cd Length: 85 Bit Score: 59.13 E-value: 5.82e-11
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| RecA-like_Ycf46-like | cd19507 | ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ... |
224-394 | 1.13e-10 | |||||||
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of photosynthesis in cyanobacteria, especially in CO2 uptake and utilization. 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: 410915 [Multi-domain] Cd Length: 161 Bit Score: 60.85 E-value: 1.13e-10
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| AAA_5 | pfam07728 | AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ... |
259-393 | 2.45e-10 | |||||||
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: 58.84 E-value: 2.45e-10
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| RecA-like_NVL_r1-like | cd19518 | first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ... |
536-648 | 4.47e-10 | |||||||
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: 59.34 E-value: 4.47e-10
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| AAA | smart00382 | ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
539-652 | 4.15e-09 | |||||||
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: 55.84 E-value: 4.15e-09
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| RPT1 | COG1222 | ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ... |
536-607 | 7.69e-08 | |||||||
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]; Pssm-ID: 440835 [Multi-domain] Cd Length: 326 Bit Score: 55.01 E-value: 7.69e-08
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| RecA-like_CDC48_r2-like | cd19511 | second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ... |
535-647 | 1.83e-07 | |||||||
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: 51.13 E-value: 1.83e-07
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| RecA-like_CDC48_NLV2_r1-like | cd19503 | first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ... |
535-609 | 2.26e-07 | |||||||
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: 51.14 E-value: 2.26e-07
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| RecA-like_VPS4-like | cd19509 | ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ... |
535-648 | 3.67e-07 | |||||||
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: 50.43 E-value: 3.67e-07
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| RecA-like_NVL_r2-like | cd19530 | second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ... |
540-648 | 9.20e-07 | |||||||
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: 49.41 E-value: 9.20e-07
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| RecA-like_PAN_like | cd19502 | proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ... |
540-607 | 1.28e-06 | |||||||
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. Pssm-ID: 410910 [Multi-domain] Cd Length: 171 Bit Score: 49.26 E-value: 1.28e-06
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| RecA-like_PEX1_r2 | cd19526 | second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ... |
540-579 | 2.82e-06 | |||||||
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: 47.81 E-value: 2.82e-06
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| COG1223 | COG1223 | Predicted ATPase, AAA+ superfamily [General function prediction only]; |
530-741 | 3.64e-06 | |||||||
Predicted ATPase, AAA+ superfamily [General function prediction only]; Pssm-ID: 440836 [Multi-domain] Cd Length: 246 Bit Score: 49.11 E-value: 3.64e-06
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| RecA-like_VCP_r2 | cd19529 | second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ... |
535-609 | 4.02e-06 | |||||||
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: 47.49 E-value: 4.02e-06
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| T7SS_EccA | TIGR03922 | type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ... |
260-433 | 4.21e-06 | |||||||
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: 50.23 E-value: 4.21e-06
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| RecA-like_CDC48_r1-like | cd19519 | first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ... |
535-607 | 5.69e-06 | |||||||
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: 47.05 E-value: 5.69e-06
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| PRK13342 | PRK13342 | recombination factor protein RarA; Reviewed |
234-334 | 7.39e-06 | |||||||
recombination factor protein RarA; Reviewed Pssm-ID: 237355 [Multi-domain] Cd Length: 413 Bit Score: 48.93 E-value: 7.39e-06
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| CDC6 | COG1474 | Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair]; |
260-385 | 8.07e-06 | |||||||
Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair]; Pssm-ID: 441083 [Multi-domain] Cd Length: 389 Bit Score: 48.69 E-value: 8.07e-06
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| RecA-like_fidgetin | cd19523 | ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ... |
258-389 | 1.34e-05 | |||||||
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: 46.03 E-value: 1.34e-05
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| DnaX | COG2812 | DNA polymerase III, gamma/tau subunits [Replication, recombination and repair]; |
261-286 | 1.42e-05 | |||||||
DNA polymerase III, gamma/tau subunits [Replication, recombination and repair]; Pssm-ID: 442061 [Multi-domain] Cd Length: 340 Bit Score: 47.88 E-value: 1.42e-05
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| AAA_lid_3 | pfam17862 | AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ... |
427-468 | 1.69e-05 | |||||||
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains. Pssm-ID: 465537 [Multi-domain] Cd Length: 45 Bit Score: 42.53 E-value: 1.69e-05
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| TIGR02928 | TIGR02928 | orc1/cdc6 family replication initiation protein; Members of this protein family are found ... |
260-385 | 1.81e-05 | |||||||
orc1/cdc6 family replication initiation protein; Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other. [DNA metabolism, DNA replication, recombination, and repair] Pssm-ID: 274354 [Multi-domain] Cd Length: 365 Bit Score: 47.63 E-value: 1.81e-05
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| PRK03992 | PRK03992 | proteasome-activating nucleotidase; Provisional |
540-606 | 2.11e-05 | |||||||
proteasome-activating nucleotidase; Provisional Pssm-ID: 179699 [Multi-domain] Cd Length: 389 Bit Score: 47.52 E-value: 2.11e-05
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| dnaX_nterm | TIGR02397 | DNA polymerase III, subunit gamma and tau; This model represents the well-conserved first ~ ... |
254-287 | 3.26e-05 | |||||||
DNA polymerase III, subunit gamma and tau; This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis. [DNA metabolism, DNA replication, recombination, and repair] Pssm-ID: 274111 [Multi-domain] Cd Length: 355 Bit Score: 46.79 E-value: 3.26e-05
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| RecA-like_CDC48_r2-like | cd19528 | second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ... |
535-648 | 5.99e-05 | |||||||
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: 44.04 E-value: 5.99e-05
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| RarA | COG2256 | Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ... |
260-284 | 1.04e-04 | |||||||
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, recombination and repair]; Pssm-ID: 441857 [Multi-domain] Cd Length: 439 Bit Score: 45.43 E-value: 1.04e-04
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| HolB | COG0470 | DNA polymerase III, delta prime subunit [Replication, recombination and repair]; |
259-287 | 1.37e-04 | |||||||
DNA polymerase III, delta prime subunit [Replication, recombination and repair]; Pssm-ID: 440238 [Multi-domain] Cd Length: 289 Bit Score: 44.58 E-value: 1.37e-04
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| PRK14953 | PRK14953 | DNA polymerase III subunits gamma and tau; Provisional |
238-286 | 1.85e-04 | |||||||
DNA polymerase III subunits gamma and tau; Provisional Pssm-ID: 237867 [Multi-domain] Cd Length: 486 Bit Score: 44.81 E-value: 1.85e-04
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| McrB | COG1401 | 5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ... |
261-334 | 3.39e-04 | |||||||
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms]; Pssm-ID: 441011 [Multi-domain] Cd Length: 477 Bit Score: 43.99 E-value: 3.39e-04
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| RecA-like_ATAD3-like | cd19512 | ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ... |
258-387 | 4.67e-04 | |||||||
ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase domains; ATPase AAA-domain protein 3 (ATAD3) is a ubiquitously expressed mitochondrial protein involved in mitochondrial dynamics, DNA-nucleoid structural organization, cholesterol transport and steroidogenesis. The ATAD3 gene family in human comprises three paralog genes: ATAD3A, ATAD3B and ATAD3C. 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: 410920 [Multi-domain] Cd Length: 150 Bit Score: 41.36 E-value: 4.67e-04
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| CDC48 | TIGR01243 | AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ... |
536-648 | 4.84e-04 | |||||||
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: 43.74 E-value: 4.84e-04
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| EEXXEc_NFX1 | cd17936 | EEXXE-box helicase domain of NFX1; Human NFX1 protein was identified as a protein that ... |
264-292 | 5.14e-04 | |||||||
EEXXE-box helicase domain of NFX1; Human NFX1 protein was identified as a protein that represses class II MHC (major histocompatibility complex) gene expression. NFX1 binds a conserved cis-acting element, termed the X-box, in promoters of human class II MHC genes. The Cys-rich region contains several NFX1-type zinc finger domains. Frequently, a R3H domain is present in the C-terminus, and a RING finger domain and a PAM2 motif are present in the N-terminus. The lack of R3H and PAM2 motifs in the plant proteins indicates functional differences. Plant NFX1-like proteins are proposed to modulate growth and survival by coordinating reactive oxygen species, salicylic acid, further biotic stress and abscisic acid responses. A common feature of all members may be E3 ubiquitin ligase, due to the presence of a RING finger domain, as well as DNA binding. NFX1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region. Pssm-ID: 350694 [Multi-domain] Cd Length: 178 Bit Score: 41.76 E-value: 5.14e-04
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| PRK14962 | PRK14962 | DNA polymerase III subunits gamma and tau; Provisional |
249-289 | 5.83e-04 | |||||||
DNA polymerase III subunits gamma and tau; Provisional Pssm-ID: 237869 [Multi-domain] Cd Length: 472 Bit Score: 43.22 E-value: 5.83e-04
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| RecA-like_fidgetin | cd19523 | ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ... |
535-649 | 8.07e-04 | |||||||
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: 40.64 E-value: 8.07e-04
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| PRK13341 | PRK13341 | AAA family ATPase; |
260-334 | 8.14e-04 | |||||||
AAA family ATPase; Pssm-ID: 237354 [Multi-domain] Cd Length: 725 Bit Score: 42.73 E-value: 8.14e-04
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| PRK13342 | PRK13342 | recombination factor protein RarA; Reviewed |
539-654 | 8.26e-04 | |||||||
recombination factor protein RarA; Reviewed Pssm-ID: 237355 [Multi-domain] Cd Length: 413 Bit Score: 42.38 E-value: 8.26e-04
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| RecA-like_VPS4 | cd19521 | ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ... |
528-609 | 1.06e-03 | |||||||
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. Pssm-ID: 410929 [Multi-domain] Cd Length: 170 Bit Score: 40.62 E-value: 1.06e-03
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| MoxR | COG0714 | MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway ... |
256-283 | 1.08e-03 | |||||||
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: 41.69 E-value: 1.08e-03
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| AAA_7 | pfam12775 | P-loop containing dynein motor region; This domain is found in human cytoplasmic dynein-2 ... |
248-282 | 1.47e-03 | |||||||
P-loop containing dynein motor region; This domain is found in human cytoplasmic dynein-2 proteins. Cytoplasmic dynein-2 (dynein-2) performs intraflagellar transport and is associated with human skeletal ciliopathies. Dyneins share a conserved motor domain that couples cycles of ATP hydrolysis with conformational changes to produce movement. Structural analysis reveal that the motor's ring consists of six AAA+ domains (ATPases associated with various cellular activities (AAA1-AAA6). This is the third nucleotide binding sites in the dynein motor. However, AAA3 has lost the catalytic residues necessary for ATP hydrolysis (the Walker B glutamate, the arginine finger, sensor-I and sensor-II motifs). Pssm-ID: 463698 [Multi-domain] Cd Length: 179 Bit Score: 40.07 E-value: 1.47e-03
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| RecA-like_PEX6_r2 | cd19527 | second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ... |
540-656 | 1.77e-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: 39.80 E-value: 1.77e-03
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| PRK05563 | PRK05563 | DNA polymerase III subunits gamma and tau; Validated |
254-287 | 1.83e-03 | |||||||
DNA polymerase III subunits gamma and tau; Validated Pssm-ID: 235505 [Multi-domain] Cd Length: 559 Bit Score: 41.39 E-value: 1.83e-03
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| PRK08116 | PRK08116 | hypothetical protein; Validated |
259-329 | 1.86e-03 | |||||||
hypothetical protein; Validated Pssm-ID: 236153 [Multi-domain] Cd Length: 268 Bit Score: 40.77 E-value: 1.86e-03
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| TIP49 | pfam06068 | TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and ... |
258-307 | 2.34e-03 | |||||||
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. Pssm-ID: 399217 [Multi-domain] Cd Length: 347 Bit Score: 40.76 E-value: 2.34e-03
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| AAA_22 | pfam13401 | AAA domain; |
260-383 | 2.36e-03 | |||||||
AAA domain; Pssm-ID: 379165 [Multi-domain] Cd Length: 129 Bit Score: 38.86 E-value: 2.36e-03
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| PRK14956 | PRK14956 | DNA polymerase III subunits gamma and tau; Provisional |
249-286 | 3.53e-03 | |||||||
DNA polymerase III subunits gamma and tau; Provisional Pssm-ID: 184920 [Multi-domain] Cd Length: 484 Bit Score: 40.70 E-value: 3.53e-03
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| TIP49 | COG1224 | DNA helicase TIP49, TBP-interacting protein [Transcription]; |
258-296 | 4.20e-03 | |||||||
DNA helicase TIP49, TBP-interacting protein [Transcription]; Pssm-ID: 440837 [Multi-domain] Cd Length: 452 Bit Score: 40.34 E-value: 4.20e-03
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| RecA-like_Lon | cd19500 | lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an ... |
255-283 | 5.63e-03 | |||||||
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. Pssm-ID: 410908 [Multi-domain] Cd Length: 182 Bit Score: 38.69 E-value: 5.63e-03
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| AAA_2 | pfam07724 | AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ... |
261-338 | 6.37e-03 | |||||||
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model. Pssm-ID: 400187 [Multi-domain] Cd Length: 168 Bit Score: 38.33 E-value: 6.37e-03
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| RecA-like_Ycf2 | cd19505 | ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; ... |
251-399 | 7.09e-03 | |||||||
ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; however, its function remains unclear. The gene encoding YCF2 is the largest known plastid gene in angiosperms and has been used to predict phylogenetic relationships. 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: 410913 [Multi-domain] Cd Length: 161 Bit Score: 38.13 E-value: 7.09e-03
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| AAA_18 | pfam13238 | AAA domain; |
261-284 | 8.21e-03 | |||||||
AAA domain; Pssm-ID: 433052 [Multi-domain] Cd Length: 128 Bit Score: 37.02 E-value: 8.21e-03
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| Mg_chelatase | pfam01078 | Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that ... |
260-277 | 9.06e-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: 9.06e-03
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| RNA_helicase | pfam00910 | RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding ... |
261-290 | 9.22e-03 | |||||||
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding during viral RNA replication. Members of this family are found in a variety of single stranded RNA viruses. Pssm-ID: 459992 Cd Length: 102 Bit Score: 36.43 E-value: 9.22e-03
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| HolB | COG0470 | DNA polymerase III, delta prime subunit [Replication, recombination and repair]; |
539-609 | 9.57e-03 | |||||||
DNA polymerase III, delta prime subunit [Replication, recombination and repair]; Pssm-ID: 440238 [Multi-domain] Cd Length: 289 Bit Score: 38.80 E-value: 9.57e-03
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