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Conserved domains on  [gi|1083068760|gb|OGD67950|]
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hypothetical protein A3F08_02365 [Candidatus Berkelbacteria bacterium RIFCSPHIGHO2_12_FULL_36_9]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TatD super family cl43021
3'->5' ssDNA/RNA exonuclease TatD [Cell motility];
2-41 1.74e-12

3'->5' ssDNA/RNA exonuclease TatD [Cell motility];


The actual alignment was detected with superfamily member COG0084:

Pssm-ID: 439854 [Multi-domain]  Cd Length: 253  Bit Score: 60.07  E-value: 1.74e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1083068760   2 FIDTHAHLNFKAFKDDYKGVIKRAFDANVKRIINVGSNYK 41
Cdd:COG0084     1 LIDTHCHLDFPEFDEDRDEVLARARAAGVERIVVVGTDLE 40
 
Name Accession Description Interval E-value
TatD COG0084
3'->5' ssDNA/RNA exonuclease TatD [Cell motility];
2-41 1.74e-12

3'->5' ssDNA/RNA exonuclease TatD [Cell motility];


Pssm-ID: 439854 [Multi-domain]  Cd Length: 253  Bit Score: 60.07  E-value: 1.74e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1083068760   2 FIDTHAHLNFKAFKDDYKGVIKRAFDANVKRIINVGSNYK 41
Cdd:COG0084     1 LIDTHCHLDFPEFDEDRDEVLARARAAGVERIVVVGTDLE 40
TatD_DNAse cd01310
TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent ...
 2-41 1.10e-11

TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity.


Pssm-ID: 238635 [Multi-domain]  Cd Length: 251  Bit Score: 57.97  E-value: 1.10e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1083068760   2 FIDTHAHLNFKAFKDDYKGVIKRAFDANVKRIINVGSNYK 41
Cdd:cd01310     1 LIDTHCHLDFPQFDADRDDVLARAREAGVIKIIVVGTDLK 40
TatD_DNase pfam01026
TatD related DNase; This family of proteins are related to a large superfamily of ...
 3-64 2.58e-11

TatD related DNase; This family of proteins are related to a large superfamily of metalloenzymes. TatD, a member of this family has been shown experimentally to be a DNase enzyme.


Pssm-ID: 425997 [Multi-domain]  Cd Length: 253  Bit Score: 56.89  E-value: 2.58e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1083068760   3 IDTHAHLNFKAFKDDYKGVIKRAFDANVKRIINVGSNYKLLDSQLNRLTAYGLQLDAVLAIY 64
Cdd:pfam01026   1 IDTHCHLDFKDFDEDRDEVIERAREAGVTGVVVVGTDLEDFLRVLELAEKYPDRVYAAVGVH 62
TIGR00010 TIGR00010
hydrolase, TatD family; PSI-BLAST, starting with a urease alpha subunit, finds a large ...
 2-41 4.90e-10

hydrolase, TatD family; PSI-BLAST, starting with a urease alpha subunit, finds a large superfamily of proteins, including a number of different enzymes that act as hydrolases at C-N bonds other than peptide bonds (EC 3.5.-.-), many uncharacterized proteins, and the members of this family. Several genomes have multiple paralogs related to this family. However, a set of 17 proteins can be found, one each from 17 of the first 20 genomes, such that each member forms a bidirectional best hit across genomes with all other members of the set. This core set (and one other near-perfect member), but not the other paralogs, form the seed for this model. Additionally, members of the seed alignment and all trusted hits, but not all paralogs, have a conserved motif DxHxH near the amino end. The member from E. coli was recently shown to have DNase activity. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 272852 [Multi-domain]  Cd Length: 252  Bit Score: 53.42  E-value: 4.90e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1083068760   2 FIDTHAHLNFKAFKDDYKGVIKRAFDANVKRIINVGSNYK 41
Cdd:TIGR00010   1 LIDAHCHLDFLDFEEDVEEVIERAKAAGVTAVVAVGTDLE 40
PRK11449 PRK11449
metal-dependent hydrolase;
2-34 1.71e-05

metal-dependent hydrolase;


Pssm-ID: 171118 [Multi-domain]  Cd Length: 258  Bit Score: 41.10  E-value: 1.71e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1083068760   2 FIDTHAHLNFKAFKDDYKGVIKRAFDANVKRII 34
Cdd:PRK11449    5 FIDTHCHFDFPPFSGDEEASLQRAAQAGVGKII 37
 
Name Accession Description Interval E-value
TatD COG0084
3'->5' ssDNA/RNA exonuclease TatD [Cell motility];
2-41 1.74e-12

3'->5' ssDNA/RNA exonuclease TatD [Cell motility];


Pssm-ID: 439854 [Multi-domain]  Cd Length: 253  Bit Score: 60.07  E-value: 1.74e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1083068760   2 FIDTHAHLNFKAFKDDYKGVIKRAFDANVKRIINVGSNYK 41
Cdd:COG0084     1 LIDTHCHLDFPEFDEDRDEVLARARAAGVERIVVVGTDLE 40
TatD_DNAse cd01310
TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent ...
 2-41 1.10e-11

TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity.


Pssm-ID: 238635 [Multi-domain]  Cd Length: 251  Bit Score: 57.97  E-value: 1.10e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1083068760   2 FIDTHAHLNFKAFKDDYKGVIKRAFDANVKRIINVGSNYK 41
Cdd:cd01310     1 LIDTHCHLDFPQFDADRDDVLARAREAGVIKIIVVGTDLK 40
TatD_DNase pfam01026
TatD related DNase; This family of proteins are related to a large superfamily of ...
 3-64 2.58e-11

TatD related DNase; This family of proteins are related to a large superfamily of metalloenzymes. TatD, a member of this family has been shown experimentally to be a DNase enzyme.


Pssm-ID: 425997 [Multi-domain]  Cd Length: 253  Bit Score: 56.89  E-value: 2.58e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1083068760   3 IDTHAHLNFKAFKDDYKGVIKRAFDANVKRIINVGSNYKLLDSQLNRLTAYGLQLDAVLAIY 64
Cdd:pfam01026   1 IDTHCHLDFKDFDEDRDEVIERAREAGVTGVVVVGTDLEDFLRVLELAEKYPDRVYAAVGVH 62
TIGR00010 TIGR00010
hydrolase, TatD family; PSI-BLAST, starting with a urease alpha subunit, finds a large ...
 2-41 4.90e-10

hydrolase, TatD family; PSI-BLAST, starting with a urease alpha subunit, finds a large superfamily of proteins, including a number of different enzymes that act as hydrolases at C-N bonds other than peptide bonds (EC 3.5.-.-), many uncharacterized proteins, and the members of this family. Several genomes have multiple paralogs related to this family. However, a set of 17 proteins can be found, one each from 17 of the first 20 genomes, such that each member forms a bidirectional best hit across genomes with all other members of the set. This core set (and one other near-perfect member), but not the other paralogs, form the seed for this model. Additionally, members of the seed alignment and all trusted hits, but not all paralogs, have a conserved motif DxHxH near the amino end. The member from E. coli was recently shown to have DNase activity. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 272852 [Multi-domain]  Cd Length: 252  Bit Score: 53.42  E-value: 4.90e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1083068760   2 FIDTHAHLNFKAFKDDYKGVIKRAFDANVKRIINVGSNYK 41
Cdd:TIGR00010   1 LIDAHCHLDFLDFEEDVEEVIERAKAAGVTAVVAVGTDLE 40
PRK11449 PRK11449
metal-dependent hydrolase;
2-34 1.71e-05

metal-dependent hydrolase;


Pssm-ID: 171118 [Multi-domain]  Cd Length: 258  Bit Score: 41.10  E-value: 1.71e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1083068760   2 FIDTHAHLNFKAFKDDYKGVIKRAFDANVKRII 34
Cdd:PRK11449    5 FIDTHCHFDFPPFSGDEEASLQRAAQAGVGKII 37
 
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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