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Conserved domains on  [gi|1063714678|ref|NP_001327863|]
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P-loop containing nucleoside triphosphate hydrolases superfamily protein [Arabidopsis thaliana]

Protein Classification

P-loop NTPase family protein( domain architecture ID 1562424)

P-loop NTPase (nucleoside triphosphate hydrolase) family protein contains two conserved sequence signatures, the Walker A motif (the P-loop proper) and Walker B motif which bind, respectively, the beta and gamma phosphate moieties of the bound nucleotide (typically ATP or GTP), and a Mg(2+) cation

Graphical summary

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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 ...
 9-82 3.14e-32

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 cd00983:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 235  Bit Score: 113.80  E-value: 3.14e-32
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1063714678   9 SLAKAIGVNTENLLLSQPDCGKQALSLVDTLIQSGSVDVIVVDSVAALVPKGELDGEMGDAHMAIQARLMSQAL 82
Cdd:cd00983    67 EYAKKLGVDIDNLLVSQPDTGEQALEIADTLIRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQAL 140
 
Name Accession Description Interval E-value
RecA cd00983
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 9-82 3.14e-32

recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.


Pssm-ID: 410863 [Multi-domain]  Cd Length: 235  Bit Score: 113.80  E-value: 3.14e-32
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1063714678   9 SLAKAIGVNTENLLLSQPDCGKQALSLVDTLIQSGSVDVIVVDSVAALVPKGELDGEMGDAHMAIQARLMSQAL 82
Cdd:cd00983    67 EYAKKLGVDIDNLLVSQPDTGEQALEIADTLIRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQAL 140
recA PRK09354
recombinase A; Provisional
 11-82 1.19e-31

recombinase A; Provisional


Pssm-ID: 236476 [Multi-domain]  Cd Length: 349  Bit Score: 114.89  E-value: 1.19e-31
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063714678  11 AKAIGVNTENLLLSQPDCGKQALSLVDTLIQSGSVDVIVVDSVAALVPKGELDGEMGDAHMAIQARLMSQAL 82
Cdd:PRK09354  105 AKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQAL 176
tigrfam_recA TIGR02012
protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization ...
 11-82 2.02e-31

protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 162659 [Multi-domain]  Cd Length: 321  Bit Score: 114.00  E-value: 2.02e-31
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063714678  11 AKAIGVNTENLLLSQPDCGKQALSLVDTLIQSGSVDVIVVDSVAALVPKGELDGEMGDAHMAIQARLMSQAL 82
Cdd:TIGR02012 100 ARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDIIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQAL 171
RecA COG0468
RecA/RadA recombinase [Replication, recombination and repair];
11-82 2.11e-31

RecA/RadA recombinase [Replication, recombination and repair];


Pssm-ID: 440236 [Multi-domain]  Cd Length: 351  Bit Score: 114.50  E-value: 2.11e-31
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063714678  11 AKAIGVNTENLLLSQPDCGKQALSLVDTLIQSGSVDVIVVDSVAALVPKGELDGEMGDAHMAIQARLMSQAL 82
Cdd:COG0468   108 AKKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQAL 179
RecA pfam00154
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ...
 11-82 1.16e-30

recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA repair systems. RecA protein catalyzes an ATP-dependent DNA strand-exchange reaction that is the central step in the repair of dsDNA breaks by homologous recombination.


Pssm-ID: 425488 [Multi-domain]  Cd Length: 262  Bit Score: 110.57  E-value: 1.16e-30
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063714678  11 AKAIGVNTENLLLSQPDCGKQALSLVDTLIQSGSVDVIVVDSVAALVPKGELDGEMGDAHMAIQARLMSQAL 82
Cdd:pfam00154  97 AKKLGVDIDNLLVSQPDTGEQALEIADMLVRSGAIDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQAL 168
 
Name Accession Description Interval E-value
RecA cd00983
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 9-82 3.14e-32

recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.


Pssm-ID: 410863 [Multi-domain]  Cd Length: 235  Bit Score: 113.80  E-value: 3.14e-32
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1063714678   9 SLAKAIGVNTENLLLSQPDCGKQALSLVDTLIQSGSVDVIVVDSVAALVPKGELDGEMGDAHMAIQARLMSQAL 82
Cdd:cd00983    67 EYAKKLGVDIDNLLVSQPDTGEQALEIADTLIRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQAL 140
recA PRK09354
recombinase A; Provisional
 11-82 1.19e-31

recombinase A; Provisional


Pssm-ID: 236476 [Multi-domain]  Cd Length: 349  Bit Score: 114.89  E-value: 1.19e-31
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063714678  11 AKAIGVNTENLLLSQPDCGKQALSLVDTLIQSGSVDVIVVDSVAALVPKGELDGEMGDAHMAIQARLMSQAL 82
Cdd:PRK09354  105 AKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQAL 176
tigrfam_recA TIGR02012
protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization ...
 11-82 2.02e-31

protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 162659 [Multi-domain]  Cd Length: 321  Bit Score: 114.00  E-value: 2.02e-31
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063714678  11 AKAIGVNTENLLLSQPDCGKQALSLVDTLIQSGSVDVIVVDSVAALVPKGELDGEMGDAHMAIQARLMSQAL 82
Cdd:TIGR02012 100 ARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDIIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQAL 171
RecA COG0468
RecA/RadA recombinase [Replication, recombination and repair];
11-82 2.11e-31

RecA/RadA recombinase [Replication, recombination and repair];


Pssm-ID: 440236 [Multi-domain]  Cd Length: 351  Bit Score: 114.50  E-value: 2.11e-31
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063714678  11 AKAIGVNTENLLLSQPDCGKQALSLVDTLIQSGSVDVIVVDSVAALVPKGELDGEMGDAHMAIQARLMSQAL 82
Cdd:COG0468   108 AKKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQAL 179
RecA pfam00154
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ...
 11-82 1.16e-30

recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA repair systems. RecA protein catalyzes an ATP-dependent DNA strand-exchange reaction that is the central step in the repair of dsDNA breaks by homologous recombination.


Pssm-ID: 425488 [Multi-domain]  Cd Length: 262  Bit Score: 110.57  E-value: 1.16e-30
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063714678  11 AKAIGVNTENLLLSQPDCGKQALSLVDTLIQSGSVDVIVVDSVAALVPKGELDGEMGDAHMAIQARLMSQAL 82
Cdd:pfam00154  97 AKKLGVDIDNLLVSQPDTGEQALEIADMLVRSGAIDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQAL 168
recA PRK09519
intein-containing recombinase RecA;
11-82 5.03e-22

intein-containing recombinase RecA;


Pssm-ID: 77219 [Multi-domain]  Cd Length: 790  Bit Score: 90.54  E-value: 5.03e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063714678  11 AKAIGVNTENLLLSQPDCGKQALSLVDTLIQSGSVDVIVVDSVAALVPKGELDGEMGDAHMAIQARLMSQAL 82
Cdd:PRK09519  105 AKKLGVDTDSLLVSQPDTGEQALEIADMLIRSGALDIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQAL 176
RecA-like cd01393
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 18-82 5.11e-03

RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs RadA and RadB.


Pssm-ID: 410881 [Multi-domain]  Cd Length: 185  Bit Score: 35.41  E-value: 5.11e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1063714678  18 TENLLLSQPDCGKQALSLVDTLIQSGSVDVIVVD----SVAALVPKGELDGEMGDAHMAIQARLMSQAL 82
Cdd:cd01393    64 LSRLLYFRPPDTLAHLLALDSLPESLFPPPNTSLvvvdSVSALFRKAFPRGGDGDSSSSLRARLLSQLA 132
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

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