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Conserved domains on  [gi|981897463|ref|WP_060082436|]
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SOS response-associated peptidase family protein [Burkholderia vietnamiensis]

Protein Classification

SOS response-associated peptidase( domain architecture ID 10005396)

SOS response-associated peptidase (SRAP) catalyzes the conversion of the apurinic/apyrimidinic (AP, or abasic) sites in DNA to its reactive, ring-opened aldehyde form, and the reversal of DNA-protein cross-links

CATH:  3.90.1680.10
EC:  3.4.-.-
Gene Ontology:  GO:0009432|GO:0003697|GO:0008233
PubMed:  32663791|35934051
SCOP:  4003435

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SRAP COG2135
ssDNA abasic site-binding protein YedK/HMCES, SRAP family [Replication, recombination and ...
 59-211 5.05e-38

ssDNA abasic site-binding protein YedK/HMCES, SRAP family [Replication, recombination and repair];


:

Pssm-ID: 441738  Cd Length: 222  Bit Score: 131.14  E-value: 5.05e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 981897463  59 GIIPKDHQPTGKRYITVNARAETVGEKPAYRTAWRAgQRCLIPARWIYEPNWETGNHVRYRIGVADWQPCCVAGVWRAWK 138
Cdd:COG2135   59 GLVPSWAKDPKKGPRLINARAETVAEKPSFRAAFRR-RRCLIPADGFYEWRKEGGKKQPYYIHRKDGEPFAFAGLWERWR 137

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 981897463 139 GPDGSKSLAMAMLTVNADahPVMQRMHkpgdeKRSVVILRPADYDEWLHTKNADA-ARAMLQLFPADEMLAEPV 211
Cdd:COG2135  138 DPDGEWLLTFTILTTEAN--GLMAPIH-----DRMPVILPPEDWDAWLDPDLTDEeLLALLRPYPAEELEAYPV 204
 
Name Accession Description Interval E-value
SRAP COG2135
ssDNA abasic site-binding protein YedK/HMCES, SRAP family [Replication, recombination and ...
 59-211 5.05e-38

ssDNA abasic site-binding protein YedK/HMCES, SRAP family [Replication, recombination and repair];


Pssm-ID: 441738  Cd Length: 222  Bit Score: 131.14  E-value: 5.05e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 981897463  59 GIIPKDHQPTGKRYITVNARAETVGEKPAYRTAWRAgQRCLIPARWIYEPNWETGNHVRYRIGVADWQPCCVAGVWRAWK 138
Cdd:COG2135   59 GLVPSWAKDPKKGPRLINARAETVAEKPSFRAAFRR-RRCLIPADGFYEWRKEGGKKQPYYIHRKDGEPFAFAGLWERWR 137

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 981897463 139 GPDGSKSLAMAMLTVNADahPVMQRMHkpgdeKRSVVILRPADYDEWLHTKNADA-ARAMLQLFPADEMLAEPV 211
Cdd:COG2135  138 DPDGEWLLTFTILTTEAN--GLMAPIH-----DRMPVILPPEDWDAWLDPDLTDEeLLALLRPYPAEELEAYPV 204
SRAP pfam02586
SOS response associated peptidase (SRAP); The SRAP family functions as a DNA-associated ...
 58-211 1.19e-28

SOS response associated peptidase (SRAP); The SRAP family functions as a DNA-associated autoproteolytic switch that recruits diverse repair enzymes onto DNA damage. We propose that the human protein Q96FZ2:UniProtKB, the eukaryotic member of the SRAP family, which has been recently shown to bind specifically to DNA with 5-hydroxymethylcytosine, 5-formylcytosine and 5-carboxycytosine, is a sensor for these oxidized bases generated by the TET (tetrahedral aminopeptidase of the M42 family) enzymes from methylcytosine. Hence, its autoproteolytic activity might help it act as a switch that recruits DNA repair enzymes to remove these oxidized methylcytosine species as part of the DNA demethylation pathway downstream of the TET enzymes.


Pssm-ID: 460605  Cd Length: 213  Bit Score: 106.46  E-value: 1.19e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 981897463   58 FGIIPKDHQPTGKRYITVNARAETVGEKPAYRTAWRAgQRCLIPARWIYEpnWETGNHVR--YRIGVADWQPCCVAGVWR 135
Cdd:pfam02586  59 WGLVPSWAKDPKIGPRTINARSETLAEKPSFRSAFRR-RRCLVPADGFYE--WKKGGKGKqpYYIHRKDGRPLAFAGLWE 135

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 981897463  136 AWKGPDGSKSLAMAMLTVnaDAHPVMQRMHkpgDekRSVVILRPADYDEWLHTKNADA--ARAMLQLFPADEMLAEPV 211
Cdd:pfam02586 136 VWRDPDGEPLYTFTIITT--EANGLLAPIH---D--RMPVILDPEDWDAWLDPRTTDPdeLLELLRPYPGEELEAYPV 206
 
Name Accession Description Interval E-value
SRAP COG2135
ssDNA abasic site-binding protein YedK/HMCES, SRAP family [Replication, recombination and ...
 59-211 5.05e-38

ssDNA abasic site-binding protein YedK/HMCES, SRAP family [Replication, recombination and repair];


Pssm-ID: 441738  Cd Length: 222  Bit Score: 131.14  E-value: 5.05e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 981897463  59 GIIPKDHQPTGKRYITVNARAETVGEKPAYRTAWRAgQRCLIPARWIYEPNWETGNHVRYRIGVADWQPCCVAGVWRAWK 138
Cdd:COG2135   59 GLVPSWAKDPKKGPRLINARAETVAEKPSFRAAFRR-RRCLIPADGFYEWRKEGGKKQPYYIHRKDGEPFAFAGLWERWR 137

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 981897463 139 GPDGSKSLAMAMLTVNADahPVMQRMHkpgdeKRSVVILRPADYDEWLHTKNADA-ARAMLQLFPADEMLAEPV 211
Cdd:COG2135  138 DPDGEWLLTFTILTTEAN--GLMAPIH-----DRMPVILPPEDWDAWLDPDLTDEeLLALLRPYPAEELEAYPV 204
SRAP pfam02586
SOS response associated peptidase (SRAP); The SRAP family functions as a DNA-associated ...
 58-211 1.19e-28

SOS response associated peptidase (SRAP); The SRAP family functions as a DNA-associated autoproteolytic switch that recruits diverse repair enzymes onto DNA damage. We propose that the human protein Q96FZ2:UniProtKB, the eukaryotic member of the SRAP family, which has been recently shown to bind specifically to DNA with 5-hydroxymethylcytosine, 5-formylcytosine and 5-carboxycytosine, is a sensor for these oxidized bases generated by the TET (tetrahedral aminopeptidase of the M42 family) enzymes from methylcytosine. Hence, its autoproteolytic activity might help it act as a switch that recruits DNA repair enzymes to remove these oxidized methylcytosine species as part of the DNA demethylation pathway downstream of the TET enzymes.


Pssm-ID: 460605  Cd Length: 213  Bit Score: 106.46  E-value: 1.19e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 981897463   58 FGIIPKDHQPTGKRYITVNARAETVGEKPAYRTAWRAgQRCLIPARWIYEpnWETGNHVR--YRIGVADWQPCCVAGVWR 135
Cdd:pfam02586  59 WGLVPSWAKDPKIGPRTINARSETLAEKPSFRSAFRR-RRCLVPADGFYE--WKKGGKGKqpYYIHRKDGRPLAFAGLWE 135

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 981897463  136 AWKGPDGSKSLAMAMLTVnaDAHPVMQRMHkpgDekRSVVILRPADYDEWLHTKNADA--ARAMLQLFPADEMLAEPV 211
Cdd:pfam02586 136 VWRDPDGEPLYTFTIITT--EANGLLAPIH---D--RMPVILDPEDWDAWLDPRTTDPdeLLELLRPYPGEELEAYPV 206
 
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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