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Conserved domains on  [gi|821146012|gb|KKY50590|]
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transposase [Pseudomonas amygdali pv. tabaci str. ATCC 11528]

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 ...
 17-67 2.27e-16

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 pfam01695:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 238  Bit Score: 70.55  E-value: 2.27e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 821146012   17 GKAGRIAQGLLRTYLVILDELGYLPLCQSGGALLFHLLSKLYEHTSVVITT 67
Cdd:pfam01695 142 GKLTRKLQQLLKPDVLILDEWGYLPLDQAEANLLFQVISKRYEHRSIILTS 192
 
Name Accession Description Interval E-value
IstB_IS21 pfam01695
IstB-like ATP binding protein; This protein contains an ATP/GTP binding P-loop motif. It is ...
 17-67 2.27e-16

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


Pssm-ID: 426385 [Multi-domain]  Cd Length: 238  Bit Score: 70.55  E-value: 2.27e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 821146012   17 GKAGRIAQGLLRTYLVILDELGYLPLCQSGGALLFHLLSKLYEHTSVVITT 67
Cdd:pfam01695 142 GKLTRKLQQLLKPDVLILDEWGYLPLDQAEANLLFQVISKRYEHRSIILTS 192
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 17-67 9.81e-16

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


Pssm-ID: 439516  Cd Length: 232  Bit Score: 68.65  E-value: 9.81e-16
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 821146012  17 GKAGRIAQGLLRTYLVILDELGYLPLCQSGGALLFHLLSKLYEHTSVVITT 67
Cdd:NF038214 140 GRLGRLLRRLARYDLLIIDELGYLPFSREGANLLFELIADRYERGSTIITS 190
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
17-67 7.58e-14

DNA replication protein DnaC [Replication, recombination and repair];


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 64.03  E-value: 7.58e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 821146012  17 GKAGRIAQGLLRTYLVILDELGYLPLCQSGGALLFHLLSKLYEHTSVVITT 67
Cdd:COG1484  149 GRLERLLKRLAKVDLLILDELGYLPLDAEGAELLFELISDRYERRSTIITS 199
PRK06526 PRK06526
transposase; Provisional
 19-67 1.74e-05

transposase; Provisional


Pssm-ID: 180607  Cd Length: 254  Bit Score: 41.01  E-value: 1.74e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 821146012  19 AGRIAQGL--LRTY-LVILDELGYLPLCQSGGALLFHLLSKLYEHTSVVITT 67
Cdd:PRK06526 147 AGRLQAELvkLGRYpLLIVDEVGYIPFEPEAANLFFQLVSSRYERASLIVTS 198
 
Name Accession Description Interval E-value
IstB_IS21 pfam01695
IstB-like ATP binding protein; This protein contains an ATP/GTP binding P-loop motif. It is ...
 17-67 2.27e-16

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


Pssm-ID: 426385 [Multi-domain]  Cd Length: 238  Bit Score: 70.55  E-value: 2.27e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 821146012   17 GKAGRIAQGLLRTYLVILDELGYLPLCQSGGALLFHLLSKLYEHTSVVITT 67
Cdd:pfam01695 142 GKLTRKLQQLLKPDVLILDEWGYLPLDQAEANLLFQVISKRYEHRSIILTS 192
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 17-67 9.81e-16

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


Pssm-ID: 439516  Cd Length: 232  Bit Score: 68.65  E-value: 9.81e-16
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 821146012  17 GKAGRIAQGLLRTYLVILDELGYLPLCQSGGALLFHLLSKLYEHTSVVITT 67
Cdd:NF038214 140 GRLGRLLRRLARYDLLIIDELGYLPFSREGANLLFELIADRYERGSTIITS 190
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
17-67 7.58e-14

DNA replication protein DnaC [Replication, recombination and repair];


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 64.03  E-value: 7.58e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 821146012  17 GKAGRIAQGLLRTYLVILDELGYLPLCQSGGALLFHLLSKLYEHTSVVITT 67
Cdd:COG1484  149 GRLERLLKRLAKVDLLILDELGYLPLDAEGAELLFELISDRYERRSTIITS 199
PRK06526 PRK06526
transposase; Provisional
 19-67 1.74e-05

transposase; Provisional


Pssm-ID: 180607  Cd Length: 254  Bit Score: 41.01  E-value: 1.74e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 821146012  19 AGRIAQGL--LRTY-LVILDELGYLPLCQSGGALLFHLLSKLYEHTSVVITT 67
Cdd:PRK06526 147 AGRLQAELvkLGRYpLLIVDEVGYIPFEPEAANLFFQLVSSRYERASLIVTS 198
PRK09183 PRK09183
transposase/IS protein; Provisional
 24-67 6.20e-05

transposase/IS protein; Provisional


Pssm-ID: 181681  Cd Length: 259  Bit Score: 39.69  E-value: 6.20e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 821146012  24 QGLLRTY---------LVILDELGYLPLCQSGGALLFHLLSKLYEHTSVVITT 67
Cdd:PRK09183 151 QGRYKTTlqrgvmaprLLIIDEIGYLPFSQEEANLFFQVIAKRYEKGSMILTS 203
PRK08181 PRK08181
transposase; Validated
 26-66 2.86e-04

transposase; Validated


Pssm-ID: 136670 [Multi-domain]  Cd Length: 269  Bit Score: 37.60  E-value: 2.86e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 821146012  26 LLRTYLVILDELGYLPLCQSGGALLFHLLSKLYEHTSVVIT 66
Cdd:PRK08181 165 LDKFDLLILDDLAYVTKDQAETSVLFELISARYERRSILIT 205
 
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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