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Conserved domains on  [gi|1064289633|gb|AOP02621|]
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transposase [Streptococcus suis]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RpnC super family cl35003
Recombination-promoting DNA endonuclease RpnC/YadD [Replication, recombination and repair];
24-76 9.50e-10

Recombination-promoting DNA endonuclease RpnC/YadD [Replication, recombination and repair];


The actual alignment was detected with superfamily member COG5464:

Pssm-ID: 444215 [Multi-domain]  Cd Length: 301  Bit Score: 53.04  E-value: 9.50e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1064289633  24 RNRGKEEGRAEGLEkGLEEGILQKSLDVAQKLLAR--GLDIEDVLEITGLTSEQL 76
Cdd:COG5464   239 LQEGREEGRQEGRE-GRQEGRQEGKLELALRLLKRrfGLPLELIARITGLSLEQL 292
 
Name Accession Description Interval E-value
RpnC COG5464
Recombination-promoting DNA endonuclease RpnC/YadD [Replication, recombination and repair];
24-76 9.50e-10

Recombination-promoting DNA endonuclease RpnC/YadD [Replication, recombination and repair];


Pssm-ID: 444215 [Multi-domain]  Cd Length: 301  Bit Score: 53.04  E-value: 9.50e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1064289633  24 RNRGKEEGRAEGLEkGLEEGILQKSLDVAQKLLAR--GLDIEDVLEITGLTSEQL 76
Cdd:COG5464   239 LQEGREEGRQEGRE-GRQEGRQEGKLELALRLLKRrfGLPLELIARITGLSLEQL 292
T_den_put_tspse TIGR01784
conserved hypothetical protein (putative transposase or invertase); Several lines of evidence ...
 26-76 1.17e-08

conserved hypothetical protein (putative transposase or invertase); Several lines of evidence suggest that members of this family (loaded as a fragment mode model to find part-length matches) are associated with transposition, inversion, or recombination. Members are found in small numbers of genomes, but in large copy numbers in many of those species, including over 30 full length and fragmentary members in Treponema denticola. The strongest similarities are usually within rather than between species. PSI-BLAST shows similarity to proteins designated as possible transposases, DNA invertases (resolvases), and recombinases. In the oral pathogenic spirochete Treponema denticola, full-length members are often found near transporters or other membrane proteins. This family includes members of the putative transposase family pfam04754.


Pssm-ID: 273806 [Multi-domain]  Cd Length: 270  Bit Score: 49.70  E-value: 1.17e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1064289633  26 RGKEEGRAEGLEKGLEEGILQKSLDVAQKLLARGLDIEDVLEITGLTSEQL 76
Cdd:TIGR01784 217 TDAISAEEEGKEEGIEEGILEAKLETAKKLLKNGLTLEQVAEATGLSVEEL 267
PRK09857 PRK09857
recombination-promoting nuclease RpnA;
37-81 1.30e-03

recombination-promoting nuclease RpnA;


Pssm-ID: 182117 [Multi-domain]  Cd Length: 292  Bit Score: 35.79  E-value: 1.30e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1064289633  37 EKGLEEGILQKSLDVAQKLLARGLDIEDVLEITGLTSEQLTLSSQ 81
Cdd:PRK09857  248 ERLRQEGEQSKALHIAKIMLESGVPLADIMRFTGLSEEELAAASQ 292
 
Name Accession Description Interval E-value
RpnC COG5464
Recombination-promoting DNA endonuclease RpnC/YadD [Replication, recombination and repair];
24-76 9.50e-10

Recombination-promoting DNA endonuclease RpnC/YadD [Replication, recombination and repair];


Pssm-ID: 444215 [Multi-domain]  Cd Length: 301  Bit Score: 53.04  E-value: 9.50e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1064289633  24 RNRGKEEGRAEGLEkGLEEGILQKSLDVAQKLLAR--GLDIEDVLEITGLTSEQL 76
Cdd:COG5464   239 LQEGREEGRQEGRE-GRQEGRQEGKLELALRLLKRrfGLPLELIARITGLSLEQL 292
T_den_put_tspse TIGR01784
conserved hypothetical protein (putative transposase or invertase); Several lines of evidence ...
 26-76 1.17e-08

conserved hypothetical protein (putative transposase or invertase); Several lines of evidence suggest that members of this family (loaded as a fragment mode model to find part-length matches) are associated with transposition, inversion, or recombination. Members are found in small numbers of genomes, but in large copy numbers in many of those species, including over 30 full length and fragmentary members in Treponema denticola. The strongest similarities are usually within rather than between species. PSI-BLAST shows similarity to proteins designated as possible transposases, DNA invertases (resolvases), and recombinases. In the oral pathogenic spirochete Treponema denticola, full-length members are often found near transporters or other membrane proteins. This family includes members of the putative transposase family pfam04754.


Pssm-ID: 273806 [Multi-domain]  Cd Length: 270  Bit Score: 49.70  E-value: 1.17e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1064289633  26 RGKEEGRAEGLEKGLEEGILQKSLDVAQKLLARGLDIEDVLEITGLTSEQL 76
Cdd:TIGR01784 217 TDAISAEEEGKEEGIEEGILEAKLETAKKLLKNGLTLEQVAEATGLSVEEL 267
PRK09857 PRK09857
recombination-promoting nuclease RpnA;
37-81 1.30e-03

recombination-promoting nuclease RpnA;


Pssm-ID: 182117 [Multi-domain]  Cd Length: 292  Bit Score: 35.79  E-value: 1.30e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1064289633  37 EKGLEEGILQKSLDVAQKLLARGLDIEDVLEITGLTSEQLTLSSQ 81
Cdd:PRK09857  248 ERLRQEGEQSKALHIAKIMLESGVPLADIMRFTGLSEEELAAASQ 292
 
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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