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Conserved domains on  [gi|485354702|gb|EOC15973|]
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exonuclease, RdgC family protein, partial [Neisseria meningitidis 73696]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RdgC super family cl01122
Putative exonuclease, RdgC; Members of the RdgC family may have exonuclease activity. RdgC is ...
 1-111 1.30e-43

Putative exonuclease, RdgC; Members of the RdgC family may have exonuclease activity. RdgC is required for efficient pilin variation in Neisseria gonorrhoeae, suggesting that it may be involved in recombination reactions. In Escherichia coli, RdgC is required for growth in recombination-deficient exonuclease-depleted strains. Under these conditions, RdgC may act as an exonuclease to remove collapsed replication forks, in the absence of the normal repair mechanisms.


The actual alignment was detected with superfamily member COG2974:

Pssm-ID: 470084  Cd Length: 302  Bit Score: 143.75  E-value: 1.30e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485354702   1 DSDCELKGTGDIVPVVKVSKQDLTADEVVQHVKNGKTVTQLGLVWREQIAFILTQDFTLKRIQYLDVLQEEAES-NGDDA 79
Cdd:COG2974  191 GDECELKSPGEDGAVVRCKRQDLDSDEIRAHLEAGKQVTKLALTWDDRISFVLTEDLSIKRLKFLDVLLEQADDiDGDDA 270

                         90       100       110
                 ....*....|....*....|....*....|..
gi 485354702  80 ASLAFASQILMAESVSTMLEELVSYLGGWEQE 111
Cdd:COG2974  271 AERFDADFALMTGELSRLLPDLIEALGGEAEP 302
 
Name Accession Description Interval E-value
RdgC COG2974
DNA recombination-dependent growth factor RdgC [Replication, recombination and repair];
1-111 1.30e-43

DNA recombination-dependent growth factor RdgC [Replication, recombination and repair];


Pssm-ID: 442213  Cd Length: 302  Bit Score: 143.75  E-value: 1.30e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485354702   1 DSDCELKGTGDIVPVVKVSKQDLTADEVVQHVKNGKTVTQLGLVWREQIAFILTQDFTLKRIQYLDVLQEEAES-NGDDA 79
Cdd:COG2974  191 GDECELKSPGEDGAVVRCKRQDLDSDEIRAHLEAGKQVTKLALTWDDRISFVLTEDLSIKRLKFLDVLLEQADDiDGDDA 270

                         90       100       110
                 ....*....|....*....|....*....|..
gi 485354702  80 ASLAFASQILMAESVSTMLEELVSYLGGWEQE 111
Cdd:COG2974  271 AERFDADFALMTGELSRLLPDLIEALGGEAEP 302
RdgC pfam04381
Putative exonuclease, RdgC; Members of the RdgC family may have exonuclease activity. RdgC is ...
 1-108 1.16e-42

Putative exonuclease, RdgC; Members of the RdgC family may have exonuclease activity. RdgC is required for efficient pilin variation in Neisseria gonorrhoeae, suggesting that it may be involved in recombination reactions. In Escherichia coli, RdgC is required for growth in recombination-deficient exonuclease-depleted strains. Under these conditions, RdgC may act as an exonuclease to remove collapsed replication forks, in the absence of the normal repair mechanisms.


Pssm-ID: 427910  Cd Length: 298  Bit Score: 141.10  E-value: 1.16e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485354702    1 DSDCELKGTGDIVPVVKVSKQDLTADEVVQHVKNGKTVTQLGLVWREQIAFILTQDFTLKRIQYLDVLQEEAESNG-DDA 79
Cdd:pfam04381 190 DDECELKSPGEEGAVVRCKRQDLESDEIRAHLEAGKQVTKLALTWNDRISFVLTEDLSIKRLKFLDVLKEQADDIDaEDA 269

                          90       100
                  ....*....|....*....|....*....
gi 485354702   80 ASLAFASQILMAESVSTMLEELVSYLGGW 108
Cdd:pfam04381 270 AERFDADFALMTGELRQLLPDLVEALGGE 298
rdgC PRK00321
recombination associated protein; Reviewed
 1-111 1.61e-37

recombination associated protein; Reviewed


Pssm-ID: 234726  Cd Length: 303  Bit Score: 128.03  E-value: 1.61e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485354702   1 DSDCELKGTGDIVPVVKVSKQDLTADEVVQHVKNGKTVTQLGLVWREQIAFILTQDFTLKRIQYLDVLQEEAE-SNGDDA 79
Cdd:PRK00321 191 DDECELKSALEDGAVVRCKRQDLDSDEIRQHIEAGKQVTKLALTWQDRLSFVLTDDLTIKRLKFLDVLREQNDdIDGEDA 270

                         90       100       110
                 ....*....|....*....|....*....|..
gi 485354702  80 ASLAFASQILMAESVSTMLEELVSYLGGWEQE 111
Cdd:PRK00321 271 AARFDADFALMTGELARLIPDLIEALGGEAER 302
 
Name Accession Description Interval E-value
RdgC COG2974
DNA recombination-dependent growth factor RdgC [Replication, recombination and repair];
1-111 1.30e-43

DNA recombination-dependent growth factor RdgC [Replication, recombination and repair];


Pssm-ID: 442213  Cd Length: 302  Bit Score: 143.75  E-value: 1.30e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485354702   1 DSDCELKGTGDIVPVVKVSKQDLTADEVVQHVKNGKTVTQLGLVWREQIAFILTQDFTLKRIQYLDVLQEEAES-NGDDA 79
Cdd:COG2974  191 GDECELKSPGEDGAVVRCKRQDLDSDEIRAHLEAGKQVTKLALTWDDRISFVLTEDLSIKRLKFLDVLLEQADDiDGDDA 270

                         90       100       110
                 ....*....|....*....|....*....|..
gi 485354702  80 ASLAFASQILMAESVSTMLEELVSYLGGWEQE 111
Cdd:COG2974  271 AERFDADFALMTGELSRLLPDLIEALGGEAEP 302
RdgC pfam04381
Putative exonuclease, RdgC; Members of the RdgC family may have exonuclease activity. RdgC is ...
 1-108 1.16e-42

Putative exonuclease, RdgC; Members of the RdgC family may have exonuclease activity. RdgC is required for efficient pilin variation in Neisseria gonorrhoeae, suggesting that it may be involved in recombination reactions. In Escherichia coli, RdgC is required for growth in recombination-deficient exonuclease-depleted strains. Under these conditions, RdgC may act as an exonuclease to remove collapsed replication forks, in the absence of the normal repair mechanisms.


Pssm-ID: 427910  Cd Length: 298  Bit Score: 141.10  E-value: 1.16e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485354702    1 DSDCELKGTGDIVPVVKVSKQDLTADEVVQHVKNGKTVTQLGLVWREQIAFILTQDFTLKRIQYLDVLQEEAESNG-DDA 79
Cdd:pfam04381 190 DDECELKSPGEEGAVVRCKRQDLESDEIRAHLEAGKQVTKLALTWNDRISFVLTEDLSIKRLKFLDVLKEQADDIDaEDA 269

                          90       100
                  ....*....|....*....|....*....
gi 485354702   80 ASLAFASQILMAESVSTMLEELVSYLGGW 108
Cdd:pfam04381 270 AERFDADFALMTGELRQLLPDLVEALGGE 298
rdgC PRK00321
recombination associated protein; Reviewed
 1-111 1.61e-37

recombination associated protein; Reviewed


Pssm-ID: 234726  Cd Length: 303  Bit Score: 128.03  E-value: 1.61e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485354702   1 DSDCELKGTGDIVPVVKVSKQDLTADEVVQHVKNGKTVTQLGLVWREQIAFILTQDFTLKRIQYLDVLQEEAE-SNGDDA 79
Cdd:PRK00321 191 DDECELKSALEDGAVVRCKRQDLDSDEIRQHIEAGKQVTKLALTWQDRLSFVLTDDLTIKRLKFLDVLREQNDdIDGEDA 270

                         90       100       110
                 ....*....|....*....|....*....|..
gi 485354702  80 ASLAFASQILMAESVSTMLEELVSYLGGWEQE 111
Cdd:PRK00321 271 AARFDADFALMTGELARLIPDLIEALGGEAER 302
 
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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