proteasome regulatory subunit Rpt4 [Schizosaccharomyces pombe]
Protein Classification
26S proteasome regulatory subunit family protein( domain architecture ID 1001539)
26S proteasome regulatory subunit family protein may act as a component of the 26S proteasome, a multiprotein complex facilitating the ATP-dependent degradation of ubiquitinated proteins
List of domain hits
| Name | Accession | Description | Interval | E-value | ||||||
| PRK03992 super family | cl32052 | proteasome-activating nucleotidase; Provisional |
3-373 | 1.75e-165 | ||||||
proteasome-activating nucleotidase; Provisional The actual alignment was detected with superfamily member PRK03992: Pssm-ID: 179699 [Multi-domain] Cd Length: 389 Bit Score: 468.54 E-value: 1.75e-165
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| Name | Accession | Description | Interval | E-value | ||||||
| PRK03992 | PRK03992 | proteasome-activating nucleotidase; Provisional |
3-373 | 1.75e-165 | ||||||
proteasome-activating nucleotidase; Provisional Pssm-ID: 179699 [Multi-domain] Cd Length: 389 Bit Score: 468.54 E-value: 1.75e-165
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| 26Sp45 | TIGR01242 | 26S proteasome subunit P45 family; Many proteins may score above the trusted cutoff because an ... |
18-373 | 2.99e-140 | ||||||
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: 403.80 E-value: 2.99e-140
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| RPT1 | COG1222 | ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ... |
87-373 | 4.15e-134 | ||||||
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]; Pssm-ID: 440835 [Multi-domain] Cd Length: 326 Bit Score: 386.67 E-value: 4.15e-134
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| RecA-like_PAN_like | cd19502 | proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ... |
130-300 | 4.84e-106 | ||||||
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: 309.27 E-value: 4.84e-106
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| AAA | pfam00004 | ATPase family associated with various cellular activities (AAA); AAA family proteins often ... |
169-302 | 1.84e-52 | ||||||
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: 170.85 E-value: 1.84e-52
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| AAA | smart00382 | ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
165-304 | 3.17e-18 | ||||||
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: 80.88 E-value: 3.17e-18
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| Name | Accession | Description | Interval | E-value | ||||||
| PRK03992 | PRK03992 | proteasome-activating nucleotidase; Provisional |
3-373 | 1.75e-165 | ||||||
proteasome-activating nucleotidase; Provisional Pssm-ID: 179699 [Multi-domain] Cd Length: 389 Bit Score: 468.54 E-value: 1.75e-165
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| 26Sp45 | TIGR01242 | 26S proteasome subunit P45 family; Many proteins may score above the trusted cutoff because an ... |
18-373 | 2.99e-140 | ||||||
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: 403.80 E-value: 2.99e-140
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| RPT1 | COG1222 | ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ... |
87-373 | 4.15e-134 | ||||||
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]; Pssm-ID: 440835 [Multi-domain] Cd Length: 326 Bit Score: 386.67 E-value: 4.15e-134
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| PTZ00361 | PTZ00361 | 26 proteosome regulatory subunit 4-like protein; Provisional |
8-378 | 2.16e-112 | ||||||
26 proteosome regulatory subunit 4-like protein; Provisional Pssm-ID: 185575 [Multi-domain] Cd Length: 438 Bit Score: 335.59 E-value: 2.16e-112
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| PTZ00454 | PTZ00454 | 26S protease regulatory subunit 6B-like protein; Provisional |
33-385 | 7.84e-110 | ||||||
26S protease regulatory subunit 6B-like protein; Provisional Pssm-ID: 240423 [Multi-domain] Cd Length: 398 Bit Score: 327.49 E-value: 7.84e-110
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| RecA-like_PAN_like | cd19502 | proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ... |
130-300 | 4.84e-106 | ||||||
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: 309.27 E-value: 4.84e-106
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| SpoVK | COG0464 | AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ... |
86-378 | 1.19e-82 | ||||||
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: 257.92 E-value: 1.19e-82
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| FtsH_fam | TIGR01241 | ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct ... |
121-373 | 5.18e-81 | ||||||
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: 256.44 E-value: 5.18e-81
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| HflB | COG0465 | ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; |
124-373 | 3.91e-79 | ||||||
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Pssm-ID: 440233 [Multi-domain] Cd Length: 583 Bit Score: 254.19 E-value: 3.91e-79
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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 ... |
133-300 | 3.51e-71 | ||||||
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: 220.24 E-value: 3.51e-71
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| CDC48 | TIGR01243 | AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ... |
123-380 | 1.26e-70 | ||||||
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: 235.19 E-value: 1.26e-70
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| RecA-like_FtsH | cd19501 | ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ... |
129-300 | 1.75e-68 | ||||||
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: 213.63 E-value: 1.75e-68
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| CDC48 | TIGR01243 | AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ... |
128-355 | 9.55e-67 | ||||||
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: 224.79 E-value: 9.55e-67
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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 ... |
142-298 | 7.15e-65 | ||||||
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: 203.67 E-value: 7.15e-65
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| ftsH | CHL00176 | cell division protein; Validated |
128-382 | 3.54e-64 | ||||||
cell division protein; Validated Pssm-ID: 214386 [Multi-domain] Cd Length: 638 Bit Score: 216.07 E-value: 3.54e-64
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| hflB | PRK10733 | ATP-dependent zinc metalloprotease FtsH; |
121-373 | 6.46e-63 | ||||||
ATP-dependent zinc metalloprotease FtsH; Pssm-ID: 182683 [Multi-domain] Cd Length: 644 Bit Score: 212.97 E-value: 6.46e-63
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| RecA-like_VCP_r2 | cd19529 | second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ... |
142-300 | 1.75e-62 | ||||||
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: 197.72 E-value: 1.75e-62
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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 ... |
134-301 | 1.16e-61 | ||||||
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: 195.73 E-value: 1.16e-61
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| RecA-like_protease | cd19481 | proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ... |
140-300 | 2.37e-60 | ||||||
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: 192.11 E-value: 2.37e-60
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| COG1223 | COG1223 | Predicted ATPase, AAA+ superfamily [General function prediction only]; |
137-381 | 4.48e-60 | ||||||
Predicted ATPase, AAA+ superfamily [General function prediction only]; Pssm-ID: 440836 [Multi-domain] Cd Length: 246 Bit Score: 194.72 E-value: 4.48e-60
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| pup_AAA | TIGR03689 | proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some ... |
52-361 | 4.18e-59 | ||||||
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: 199.94 E-value: 4.18e-59
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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 ... |
134-298 | 4.39e-54 | ||||||
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: 176.44 E-value: 4.39e-54
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| AAA | pfam00004 | ATPase family associated with various cellular activities (AAA); AAA family proteins often ... |
169-302 | 1.84e-52 | ||||||
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: 170.85 E-value: 1.84e-52
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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 ... |
142-300 | 5.39e-52 | ||||||
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: 170.77 E-value: 5.39e-52
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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 ... |
139-296 | 3.64e-50 | ||||||
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: 166.12 E-value: 3.64e-50
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| RecA-like_PEX1_r2 | cd19526 | second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ... |
144-299 | 3.77e-48 | ||||||
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: 160.67 E-value: 3.77e-48
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| RecA-like_Yta7-like | cd19517 | ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ... |
134-297 | 6.28e-48 | ||||||
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: 160.75 E-value: 6.28e-48
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| RecA-like_VPS4-like | cd19509 | ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ... |
134-300 | 1.31e-47 | ||||||
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: 159.44 E-value: 1.31e-47
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| RecA-like_PEX6_r2 | cd19527 | second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ... |
143-296 | 3.26e-44 | ||||||
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: 150.74 E-value: 3.26e-44
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| RecA-like_ATAD1 | cd19520 | ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ... |
134-300 | 1.64e-42 | ||||||
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: 146.42 E-value: 1.64e-42
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| RecA-like_KTNA1 | cd19522 | Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ... |
134-300 | 5.37e-41 | ||||||
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: 142.43 E-value: 5.37e-41
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| RecA-like_VPS4 | cd19521 | ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ... |
128-300 | 1.56e-37 | ||||||
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: 133.45 E-value: 1.56e-37
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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; ... |
121-300 | 7.00e-37 | ||||||
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: 132.42 E-value: 7.00e-37
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| RecA-like_spastin | cd19524 | ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ... |
134-298 | 1.37e-34 | ||||||
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: 125.35 E-value: 1.37e-34
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| RecA-like_NSF-SEC18_r1-like | cd19504 | first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ... |
133-300 | 2.74e-33 | ||||||
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: 122.60 E-value: 2.74e-33
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| AAA | cd00009 | The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ... |
135-302 | 6.35e-28 | ||||||
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: 107.23 E-value: 6.35e-28
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| RecA-like_fidgetin | cd19523 | ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ... |
132-290 | 3.45e-25 | ||||||
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: 100.34 E-value: 3.45e-25
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| ycf46 | CHL00195 | Ycf46; Provisional |
162-381 | 3.80e-23 | ||||||
Ycf46; Provisional Pssm-ID: 177094 [Multi-domain] Cd Length: 489 Bit Score: 100.86 E-value: 3.80e-23
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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 ... |
160-296 | 4.13e-22 | ||||||
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: 91.66 E-value: 4.13e-22
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| RecA-like_BCS1 | cd19510 | Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ... |
148-300 | 2.89e-18 | ||||||
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: 80.86 E-value: 2.89e-18
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| AAA | smart00382 | ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
165-304 | 3.17e-18 | ||||||
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: 80.88 E-value: 3.17e-18
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| RecA-like_Ycf2 | cd19505 | ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; ... |
159-300 | 1.95e-13 | ||||||
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: 67.40 E-value: 1.95e-13
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| RecA-like_ATAD3-like | cd19512 | ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ... |
167-299 | 1.11e-11 | ||||||
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: 62.16 E-value: 1.11e-11
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| RecA-like_Pch2-like | cd19508 | ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ... |
169-288 | 1.77e-10 | ||||||
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: 59.77 E-value: 1.77e-10
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| PRK04195 | PRK04195 | replication factor C large subunit; Provisional |
130-343 | 4.47e-10 | ||||||
replication factor C large subunit; Provisional Pssm-ID: 235250 [Multi-domain] Cd Length: 482 Bit Score: 61.09 E-value: 4.47e-10
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| Prot_ATP_ID_OB | pfam16450 | Proteasomal ATPase OB C-terminal domain; This is the interdomain (ID) or oligonucleotide ... |
56-111 | 1.94e-09 | ||||||
Proteasomal ATPase OB C-terminal domain; This is the interdomain (ID) or oligonucleotide binding (OB) domain of proteasomal ATPase Pssm-ID: 465118 [Multi-domain] Cd Length: 56 Bit Score: 52.89 E-value: 1.94e-09
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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 ... |
324-368 | 3.73e-09 | ||||||
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: 51.77 E-value: 3.73e-09
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| PRK13342 | PRK13342 | recombination factor protein RarA; Reviewed |
169-234 | 2.64e-08 | ||||||
recombination factor protein RarA; Reviewed Pssm-ID: 237355 [Multi-domain] Cd Length: 413 Bit Score: 55.48 E-value: 2.64e-08
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| T7SS_EccA | TIGR03922 | type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ... |
131-301 | 3.81e-08 | ||||||
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: 55.24 E-value: 3.81e-08
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| RecA-like_HslU | cd19498 | ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease ... |
166-260 | 7.55e-08 | ||||||
ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease HslVU. In HslVU, HslU ATPase serves to unfold and translocate protein substrate, and the HslV protease degrades the unfolded proteins. This RecA-like_HslU 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: 410906 [Multi-domain] Cd Length: 183 Bit Score: 52.00 E-value: 7.55e-08
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| RarA | COG2256 | Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ... |
169-243 | 7.81e-08 | ||||||
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, recombination and repair]; Pssm-ID: 441857 [Multi-domain] Cd Length: 439 Bit Score: 53.91 E-value: 7.81e-08
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| RuvB_N | pfam05496 | Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ... |
169-234 | 1.45e-07 | ||||||
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the RuvABC revolvasome which catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalyzed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein. Pssm-ID: 398900 [Multi-domain] Cd Length: 159 Bit Score: 50.58 E-value: 1.45e-07
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| AAA_5 | pfam07728 | AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ... |
168-290 | 2.15e-07 | ||||||
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: 49.60 E-value: 2.15e-07
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| RecA-like_ClpX | cd19497 | ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent ... |
169-260 | 9.74e-07 | ||||||
ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent protease ClpXP. In ClpXP, ClpX ATPase serves to specifically recognize, unfold, and translocate protein substrates into the chamber of ClpP protease for degradation. This RecA-like_ClpX 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: 410905 [Multi-domain] Cd Length: 251 Bit Score: 49.52 E-value: 9.74e-07
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| RecA-like_Lon | cd19500 | lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an ... |
170-314 | 9.86e-07 | ||||||
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: 48.71 E-value: 9.86e-07
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| ruvB | PRK00080 | Holliday junction branch migration DNA helicase RuvB; |
169-234 | 1.03e-06 | ||||||
Holliday junction branch migration DNA helicase RuvB; Pssm-ID: 234619 [Multi-domain] Cd Length: 328 Bit Score: 50.13 E-value: 1.03e-06
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| ycf2 | CHL00206 | Ycf2; Provisional |
159-388 | 3.28e-06 | ||||||
Ycf2; Provisional Pssm-ID: 214396 [Multi-domain] Cd Length: 2281 Bit Score: 49.52 E-value: 3.28e-06
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| MoxR | COG0714 | MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway ... |
169-194 | 3.70e-06 | ||||||
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: 48.24 E-value: 3.70e-06
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| ruvB | TIGR00635 | Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ... |
159-238 | 5.31e-06 | ||||||
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair] Pssm-ID: 129721 [Multi-domain] Cd Length: 305 Bit Score: 47.68 E-value: 5.31e-06
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| 44 | PHA02544 | clamp loader, small subunit; Provisional |
170-385 | 8.84e-06 | ||||||
clamp loader, small subunit; Provisional Pssm-ID: 222866 [Multi-domain] Cd Length: 316 Bit Score: 47.29 E-value: 8.84e-06
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| CDC6 | COG1474 | Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair]; |
138-383 | 1.02e-05 | ||||||
Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair]; Pssm-ID: 441083 [Multi-domain] Cd Length: 389 Bit Score: 47.15 E-value: 1.02e-05
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| RecA-like_IQCA1 | cd19506 | ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein ... |
167-233 | 1.77e-05 | ||||||
ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein regulatory complex subunit 11, DRC11 and IQCA) is an ATPase subunit of the nexin-dynein regulatory complex (N-DRC). The 9 + 2 axoneme of most motile cilia and flagella consists of nine outer doublet microtubules arranged in a ring surrounding a central pair of two singlet microtubules. The N-DRC complex maintains alignment between outer doublet microtubules and limits microtubule sliding in motile axonemes. 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: 410914 [Multi-domain] Cd Length: 160 Bit Score: 44.44 E-value: 1.77e-05
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| RuvB | COG2255 | Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ... |
169-234 | 2.18e-05 | ||||||
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, recombination and repair]; Pssm-ID: 441856 [Multi-domain] Cd Length: 337 Bit Score: 45.84 E-value: 2.18e-05
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| RecA-like_ClpB_Hsp104-like | cd19499 | Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and ... |
160-298 | 3.17e-05 | ||||||
Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and eukaryotic Heat shock protein 104 (Hsp104) are ATP-dependent molecular chaperones and essential proteins of the heat-shock response. ClpB/Hsp104 ATPases, in concert with the DnaK/Hsp70 chaperone system, disaggregate and reactivate aggregated proteins. This RecA-like_ClpB_Hsp104_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: 410907 [Multi-domain] Cd Length: 178 Bit Score: 44.09 E-value: 3.17e-05
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| AAA_2 | pfam07724 | AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ... |
166-279 | 6.62e-05 | ||||||
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: 42.95 E-value: 6.62e-05
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| McrB | COG1401 | 5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ... |
163-191 | 1.09e-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: 1.09e-04
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| RNA_helicase | pfam00910 | RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding ... |
169-237 | 3.67e-04 | ||||||
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: 39.51 E-value: 3.67e-04
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| clpX | PRK05342 | ATP-dependent Clp protease ATP-binding subunit ClpX; |
169-252 | 3.76e-04 | ||||||
ATP-dependent Clp protease ATP-binding subunit ClpX; Pssm-ID: 235422 [Multi-domain] Cd Length: 412 Bit Score: 42.45 E-value: 3.76e-04
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| HolB | COG0470 | DNA polymerase III, delta prime subunit [Replication, recombination and repair]; |
166-191 | 4.02e-04 | ||||||
DNA polymerase III, delta prime subunit [Replication, recombination and repair]; Pssm-ID: 440238 [Multi-domain] Cd Length: 289 Bit Score: 41.88 E-value: 4.02e-04
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| DUF815 | pfam05673 | Protein of unknown function (DUF815); This family consists of several bacterial proteins of ... |
123-232 | 4.47e-04 | ||||||
Protein of unknown function (DUF815); This family consists of several bacterial proteins of unknown function. Pssm-ID: 428578 [Multi-domain] Cd Length: 250 Bit Score: 41.37 E-value: 4.47e-04
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| RecA-like_superfamily | cd01120 | RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ... |
169-285 | 4.68e-04 | ||||||
RecA-like_NTPases; RecA-like NTPases. This superfamily 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: 410865 [Multi-domain] Cd Length: 119 Bit Score: 39.79 E-value: 4.68e-04
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| TIP49 | COG1224 | DNA helicase TIP49, TBP-interacting protein [Transcription]; |
167-191 | 4.76e-04 | ||||||
DNA helicase TIP49, TBP-interacting protein [Transcription]; Pssm-ID: 440837 [Multi-domain] Cd Length: 452 Bit Score: 41.88 E-value: 4.76e-04
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| Sigma54_activat | pfam00158 | Sigma-54 interaction domain; |
169-222 | 7.70e-04 | ||||||
Sigma-54 interaction domain; Pssm-ID: 425491 [Multi-domain] Cd Length: 168 Bit Score: 39.69 E-value: 7.70e-04
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| PLN00020 | PLN00020 | ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional |
162-296 | 8.48e-04 | ||||||
ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional Pssm-ID: 215031 [Multi-domain] Cd Length: 413 Bit Score: 41.24 E-value: 8.48e-04
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| TIP49 | pfam06068 | TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and ... |
167-202 | 1.08e-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: 1.08e-03
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| AAA_16 | pfam13191 | AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the ... |
139-204 | 1.46e-03 | ||||||
AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Pssm-ID: 433025 [Multi-domain] Cd Length: 167 Bit Score: 39.02 E-value: 1.46e-03
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| TsaE | pfam02367 | Threonylcarbamoyl adenosine biosynthesis protein TsaE; This family of proteins is involved in ... |
169-213 | 1.54e-03 | ||||||
Threonylcarbamoyl adenosine biosynthesis protein TsaE; This family of proteins is involved in the synthesis of threonylcarbamoyl adenosine (t(6)A). Pssm-ID: 460540 Cd Length: 127 Bit Score: 38.18 E-value: 1.54e-03
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| ExeA | COG3267 | Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, ... |
137-194 | 1.84e-03 | ||||||
Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures]; Pssm-ID: 442498 [Multi-domain] Cd Length: 261 Bit Score: 39.77 E-value: 1.84e-03
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| PRK08116 | PRK08116 | hypothetical protein; Validated |
168-198 | 2.07e-03 | ||||||
hypothetical protein; Validated Pssm-ID: 236153 [Multi-domain] Cd Length: 268 Bit Score: 39.62 E-value: 2.07e-03
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| Lon | COG0466 | ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, ... |
170-238 | 2.71e-03 | ||||||
ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Pssm-ID: 440234 [Multi-domain] Cd Length: 785 Bit Score: 40.00 E-value: 2.71e-03
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| ClpX | COG1219 | ATP-dependent protease Clp, ATPase subunit ClpX [Posttranslational modification, protein ... |
169-209 | 2.97e-03 | ||||||
ATP-dependent protease Clp, ATPase subunit ClpX [Posttranslational modification, protein turnover, chaperones]; Pssm-ID: 440832 [Multi-domain] Cd Length: 409 Bit Score: 39.26 E-value: 2.97e-03
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| Mg_chelatase | pfam01078 | Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that ... |
169-190 | 4.02e-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: 4.02e-03
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| YifB | COG0606 | Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational ... |
169-184 | 4.36e-03 | ||||||
Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational modification, protein turnover, chaperones]; Pssm-ID: 440371 [Multi-domain] Cd Length: 502 Bit Score: 38.87 E-value: 4.36e-03
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| DnaC | COG1484 | DNA replication protein DnaC [Replication, recombination and repair]; |
163-187 | 4.66e-03 | ||||||
DNA replication protein DnaC [Replication, recombination and repair]; Pssm-ID: 441093 [Multi-domain] Cd Length: 242 Bit Score: 38.22 E-value: 4.66e-03
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| PRK13341 | PRK13341 | AAA family ATPase; |
170-187 | 7.12e-03 | ||||||
AAA family ATPase; Pssm-ID: 237354 [Multi-domain] Cd Length: 725 Bit Score: 38.50 E-value: 7.12e-03
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| RepA | COG3598 | RecA-family ATPase [Replication, recombination and repair]; |
166-195 | 8.70e-03 | ||||||
RecA-family ATPase [Replication, recombination and repair]; Pssm-ID: 442817 [Multi-domain] Cd Length: 313 Bit Score: 37.96 E-value: 8.70e-03
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| DnaX | COG2812 | DNA polymerase III, gamma/tau subunits [Replication, recombination and repair]; |
170-190 | 1.00e-02 | ||||||
DNA polymerase III, gamma/tau subunits [Replication, recombination and repair]; Pssm-ID: 442061 [Multi-domain] Cd Length: 340 Bit Score: 37.48 E-value: 1.00e-02
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