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Conserved domains on  [gi|15241910|ref|NP_198225|]
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nuclease [Arabidopsis thaliana]

Protein Classification

transposase family protein( domain architecture ID 229435)

transposase family protein might bind to the end of a transposon and catalyze the movement of the transposon to another part of the genome by a cut and paste mechanism or a replicative transposition mechanism

Gene Ontology:  GO:0004803
PubMed:  20615441

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DDE_Tnp_4 super family cl48181
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 139-218 2.54e-07

DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are probably endonucleases of the DDE superfamily. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction.


The actual alignment was detected with superfamily member pfam13359:

Pssm-ID: 463855 [Multi-domain]  Cd Length: 158  Bit Score: 49.20  E-value: 2.54e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15241910   139 SFNVLAICDLDMLFTYCFVGMAGSTHDARVLSAAISDDPLFHVPPDSKYYLVDSGYANKRGYLAPYRREHRE---AQDII 215
Cdd:pfam13359  29 TLKVLIVVTPNGKIIFVSKGYPGSVSDKSILENSGLLKALNLAFGPGDYILADKGFPISDWLLVPYKKPGGAqlsPEEVE 108


                  ...
gi 15241910   216 SNN 218
Cdd:pfam13359 109 FNR 111
 
Name Accession Description Interval E-value
DDE_Tnp_4 pfam13359
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 139-218 2.54e-07

DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are probably endonucleases of the DDE superfamily. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction.


Pssm-ID: 463855 [Multi-domain]  Cd Length: 158  Bit Score: 49.20  E-value: 2.54e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15241910   139 SFNVLAICDLDMLFTYCFVGMAGSTHDARVLSAAISDDPLFHVPPDSKYYLVDSGYANKRGYLAPYRREHRE---AQDII 215
Cdd:pfam13359  29 TLKVLIVVTPNGKIIFVSKGYPGSVSDKSILENSGLLKALNLAFGPGDYILADKGFPISDWLLVPYKKPGGAqlsPEEVE 108


                  ...
gi 15241910   216 SNN 218
Cdd:pfam13359 109 FNR 111
 
Name Accession Description Interval E-value
DDE_Tnp_4 pfam13359
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 139-218 2.54e-07

DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are probably endonucleases of the DDE superfamily. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction.


Pssm-ID: 463855 [Multi-domain]  Cd Length: 158  Bit Score: 49.20  E-value: 2.54e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15241910   139 SFNVLAICDLDMLFTYCFVGMAGSTHDARVLSAAISDDPLFHVPPDSKYYLVDSGYANKRGYLAPYRREHRE---AQDII 215
Cdd:pfam13359  29 TLKVLIVVTPNGKIIFVSKGYPGSVSDKSILENSGLLKALNLAFGPGDYILADKGFPISDWLLVPYKKPGGAqlsPEEVE 108


                  ...
gi 15241910   216 SNN 218
Cdd:pfam13359 109 FNR 111
 
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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