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Conserved domains on  [gi|1235114902|gb|OZQ25339|]
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hypothetical protein CIG59_29505 [Klebsiella pneumoniae]

Protein Classification

PDDEXK family nuclease( domain architecture ID 1750065)

PDDEXK family nuclease similar to Halobacterium salinarum endonuclease NucS 1 that cleaves both 3' and 5' ssDNA extremities of branched DNA structures

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Mrr_cat super family cl46443
Restriction endonuclease; Prokaryotic family found in type II restriction enzymes containing ...
 22-93 1.96e-05

Restriction endonuclease; Prokaryotic family found in type II restriction enzymes containing the hallmark (D/E)-(D/E)XK active site. Presence of catalytic residues implicates this region in the enzymatic cleavage of DNA.


The actual alignment was detected with superfamily member pfam04471:

Pssm-ID: 480783  Cd Length: 114  Bit Score: 41.02  E-value: 1.96e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1235114902  22 LNNETYLVEAKWHSTKTGNADLHAFHGKLDQKisWA-RGVFISWAGFTKSGLDAWGRGKKVICVSGYDLVLML 93
Cdd:pfam04471  44 LGLERILVQAKRYKNTVGVPAVQELVGALAGY--GAdKGIFVTTSDFTPDAREFAKALNGIVLIDGDELAELL 114
 
Name Accession Description Interval E-value
Mrr_cat pfam04471
Restriction endonuclease; Prokaryotic family found in type II restriction enzymes containing ...
 22-93 1.96e-05

Restriction endonuclease; Prokaryotic family found in type II restriction enzymes containing the hallmark (D/E)-(D/E)XK active site. Presence of catalytic residues implicates this region in the enzymatic cleavage of DNA.


Pssm-ID: 461322  Cd Length: 114  Bit Score: 41.02  E-value: 1.96e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1235114902  22 LNNETYLVEAKWHSTKTGNADLHAFHGKLDQKisWA-RGVFISWAGFTKSGLDAWGRGKKVICVSGYDLVLML 93
Cdd:pfam04471  44 LGLERILVQAKRYKNTVGVPAVQELVGALAGY--GAdKGIFVTTSDFTPDAREFAKALNGIVLIDGDELAELL 114
 
Name Accession Description Interval E-value
Mrr_cat pfam04471
Restriction endonuclease; Prokaryotic family found in type II restriction enzymes containing ...
 22-93 1.96e-05

Restriction endonuclease; Prokaryotic family found in type II restriction enzymes containing the hallmark (D/E)-(D/E)XK active site. Presence of catalytic residues implicates this region in the enzymatic cleavage of DNA.


Pssm-ID: 461322  Cd Length: 114  Bit Score: 41.02  E-value: 1.96e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1235114902  22 LNNETYLVEAKWHSTKTGNADLHAFHGKLDQKisWA-RGVFISWAGFTKSGLDAWGRGKKVICVSGYDLVLML 93
Cdd:pfam04471  44 LGLERILVQAKRYKNTVGVPAVQELVGALAGY--GAdKGIFVTTSDFTPDAREFAKALNGIVLIDGDELAELL 114
 
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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