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Conserved domains on  [gi|651990684|ref|WP_026698313|]
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methylated-DNA--[protein]-cysteine S-methyltransferase [Alkalicoccus chagannorensis]

Protein Classification

methylated-DNA--[protein]-cysteine S-methyltransferase( domain architecture ID 11417447)

methylated-DNA--[protein]-cysteine S-methyltransferase is involved in the cellular defense against the biological effects of O6-methylguanine (O6-MeG) and O4-methylthymine (O4-MeT) in DNA; it repairs the methylated nucleobase in DNA by stoichiometrically transferring the methyl group to a cysteine residue in the enzyme, and prefers double-stranded DNA over single-stranded DNA as substrate

EC:  2.1.1.63
Gene Ontology:  GO:0003677|GO:0003908

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AdaB COG0350
DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, ...
 14-167 1.30e-71

DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, recombination and repair];


:

Pssm-ID: 440119 [Multi-domain]  Cd Length: 163  Bit Score: 212.81  E-value: 1.30e-71
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651990684  14 GPITIAATDQGIVRAAYSDiaSWKQSLRYEKYEVLEESHPYLTQAEQELQEYFRGTRRSFETPLPLKGTTFQKLVWNQLQ 93
Cdd:COG0350   12 GPLLIAATDRGLCALSFGD--DREEALLARFPAALREDPPLLAEAARQLDAYFAGERKDFDLPLDLRGTPFQRRVWEALR 89

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 651990684  94 LIPYGELRSYKEIAAAMGVPKAVRAVGGANNKNPVPILVPCHRVVGANGSLVGYAGGLDIKERLIRLEAEHVSS 167
Cdd:COG0350   90 KIPYGETVTYGELARAIGRPKAARAVGSACGANPIPIIIPCHRVIGADGSLGGYAGGLERKRALLELEGALAAA 163
 
Name Accession Description Interval E-value
AdaB COG0350
DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, ...
 14-167 1.30e-71

DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, recombination and repair];


Pssm-ID: 440119 [Multi-domain]  Cd Length: 163  Bit Score: 212.81  E-value: 1.30e-71
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651990684  14 GPITIAATDQGIVRAAYSDiaSWKQSLRYEKYEVLEESHPYLTQAEQELQEYFRGTRRSFETPLPLKGTTFQKLVWNQLQ 93
Cdd:COG0350   12 GPLLIAATDRGLCALSFGD--DREEALLARFPAALREDPPLLAEAARQLDAYFAGERKDFDLPLDLRGTPFQRRVWEALR 89

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 651990684  94 LIPYGELRSYKEIAAAMGVPKAVRAVGGANNKNPVPILVPCHRVVGANGSLVGYAGGLDIKERLIRLEAEHVSS 167
Cdd:COG0350   90 KIPYGETVTYGELARAIGRPKAARAVGSACGANPIPIIIPCHRVIGADGSLGGYAGGLERKRALLELEGALAAA 163
PRK00901 PRK00901
methylated-DNA--protein-cysteine methyltransferase; Provisional
 14-163 3.29e-61

methylated-DNA--protein-cysteine methyltransferase; Provisional


Pssm-ID: 234860 [Multi-domain]  Cd Length: 155  Bit Score: 186.41  E-value: 3.29e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651990684  14 GPITIAATDQGIVRAAYsdiaswKQSLRYEKYEVLEEShpYLTQAEQELQEYFRGTRRSFETPLPLKGTTFQKLVWNQLQ 93
Cdd:PRK00901  12 GKIGIAENGTAITHLCF------GEDKIPKDVTILETD--LLKEANKQLEEYFEGKRKKFDLPLAPQGTEFQKKVWKALQ 83

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651990684  94 LIPYGELRSYKEIAAAMGVPKAVRAVGGANNKNPVPILVPCHRVVGANGSLVGYAGGLDIKERLIRLEAE 163
Cdd:PRK00901  84 EIPYGETRSYKEIAVNIGNPKACRAVGLANNKNPIPIFIPCHRVIGANGKLVGYAGGLDIKEKLLKLEKE 153
DNA_binding_1 pfam01035
6-O-methylguanine DNA methyltransferase, DNA binding domain; This is the C-terminal ...
 84-162 2.48e-44

6-O-methylguanine DNA methyltransferase, DNA binding domain; This is the C-terminal DNA-binding domain of 6-O-methylguanine-DNA methyltransferases.


Pssm-ID: 460036  Cd Length: 81  Bit Score: 140.96  E-value: 2.48e-44
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 651990684   84 FQKLVWNQLQLIPYGELRSYKEIAAAMGVPKAVRAVGGANNKNPVPILVPCHRVVGANGSLVGYAGGLDIKERLIRLEA 162
Cdd:pfam01035   2 FQRRVWEALRQIPYGKTTTYGEIAKLLGRPKAARAVGNALGANPIPIIVPCHRVVGSDGSLGGYAGGLERKRALLELEG 80
ogt TIGR00589
O-6-methylguanine DNA methyltransferase; All proteins in this family for which functions are ...
 82-161 6.68e-41

O-6-methylguanine DNA methyltransferase; All proteins in this family for which functions are known are involved alkyl-DNA transferases which remove alkyl groups from DNA as part of alkylation DNA repair. Some of the proteins in this family are also transcription regulators and have a distinct transcription regulatory domain. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273157  Cd Length: 80  Bit Score: 132.44  E-value: 6.68e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651990684   82 TTFQKLVWNQLQLIPYGELRSYKEIAAAMGVPKAVRAVGGANNKNPVPILVPCHRVVGANGSLVGYAGGLDIKERLIRLE 161
Cdd:TIGR00589   1 TPFQQKVWKALRTIPYGETKSYGQLAKAIGNPKAARAVGGANGRNPLAILVPCHRVVGKNGTLTGYGGGLERKEFLLEHE 80
ATase cd06445
The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT ...
 84-161 1.11e-39

The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases are specific for repair of guanines with O6-alkyl adducts, however human ATase is not limited to O6-methylguanine, repairing many other adducts at the O6-position of guanine as well. ATase is widely distributed among species. Most ATases have N- and C-terminal domains. The C-terminal domain contains the conserved active-site cysteine motif (PCHR), the O6-alkylguanine binding channel, and the helix-turn-helix (HTH) DNA-binding motif. The active site is located near the recognition helix of the HTH motif. While the C-terminal domain of ATase contains residues that are necessary for DNA binding and alkyl transfer, the function of the N-terminal domain is still unknown. Removal of the N-terminal domain abolishes the activity of the C-terminal domain, suggesting an important structural role for the N-terminal domain in orienting the C-terminal domain for proper catalysis. Some ATase C-terminal domain homologs are either single-domain proteins that lack an N-terminal domain, or have a tryptophan substituted in place of the acceptor cysteine (i.e. the motif PCHR is replaced by PWHR). ATase null mutant mice are viable, fertile, and have a normal lifespan.


Pssm-ID: 119438 [Multi-domain]  Cd Length: 79  Bit Score: 129.14  E-value: 1.11e-39
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 651990684  84 FQKLVWNQLQLIPYGELRSYKEIAAAMGVPKAVRAVGGANNKNPVPILVPCHRVVGANGSLVGYAGGLDIKERLIRLE 161
Cdd:cd06445    1 FQRRVWEALRQIPYGEVTTYGQIAKLAGTPKAARAVGSALARNPIPILIPCHRVVRSDGGLGGYRGGLERKRELLELE 78
 
Name Accession Description Interval E-value
AdaB COG0350
DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, ...
 14-167 1.30e-71

DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, recombination and repair];


Pssm-ID: 440119 [Multi-domain]  Cd Length: 163  Bit Score: 212.81  E-value: 1.30e-71
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651990684  14 GPITIAATDQGIVRAAYSDiaSWKQSLRYEKYEVLEESHPYLTQAEQELQEYFRGTRRSFETPLPLKGTTFQKLVWNQLQ 93
Cdd:COG0350   12 GPLLIAATDRGLCALSFGD--DREEALLARFPAALREDPPLLAEAARQLDAYFAGERKDFDLPLDLRGTPFQRRVWEALR 89

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 651990684  94 LIPYGELRSYKEIAAAMGVPKAVRAVGGANNKNPVPILVPCHRVVGANGSLVGYAGGLDIKERLIRLEAEHVSS 167
Cdd:COG0350   90 KIPYGETVTYGELARAIGRPKAARAVGSACGANPIPIIIPCHRVIGADGSLGGYAGGLERKRALLELEGALAAA 163
PRK00901 PRK00901
methylated-DNA--protein-cysteine methyltransferase; Provisional
 14-163 3.29e-61

methylated-DNA--protein-cysteine methyltransferase; Provisional


Pssm-ID: 234860 [Multi-domain]  Cd Length: 155  Bit Score: 186.41  E-value: 3.29e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651990684  14 GPITIAATDQGIVRAAYsdiaswKQSLRYEKYEVLEEShpYLTQAEQELQEYFRGTRRSFETPLPLKGTTFQKLVWNQLQ 93
Cdd:PRK00901  12 GKIGIAENGTAITHLCF------GEDKIPKDVTILETD--LLKEANKQLEEYFEGKRKKFDLPLAPQGTEFQKKVWKALQ 83

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651990684  94 LIPYGELRSYKEIAAAMGVPKAVRAVGGANNKNPVPILVPCHRVVGANGSLVGYAGGLDIKERLIRLEAE 163
Cdd:PRK00901  84 EIPYGETRSYKEIAVNIGNPKACRAVGLANNKNPIPIFIPCHRVIGANGKLVGYAGGLDIKEKLLKLEKE 153
DNA_binding_1 pfam01035
6-O-methylguanine DNA methyltransferase, DNA binding domain; This is the C-terminal ...
 84-162 2.48e-44

6-O-methylguanine DNA methyltransferase, DNA binding domain; This is the C-terminal DNA-binding domain of 6-O-methylguanine-DNA methyltransferases.


Pssm-ID: 460036  Cd Length: 81  Bit Score: 140.96  E-value: 2.48e-44
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 651990684   84 FQKLVWNQLQLIPYGELRSYKEIAAAMGVPKAVRAVGGANNKNPVPILVPCHRVVGANGSLVGYAGGLDIKERLIRLEA 162
Cdd:pfam01035   2 FQRRVWEALRQIPYGKTTTYGEIAKLLGRPKAARAVGNALGANPIPIIVPCHRVVGSDGSLGGYAGGLERKRALLELEG 80
ogt TIGR00589
O-6-methylguanine DNA methyltransferase; All proteins in this family for which functions are ...
 82-161 6.68e-41

O-6-methylguanine DNA methyltransferase; All proteins in this family for which functions are known are involved alkyl-DNA transferases which remove alkyl groups from DNA as part of alkylation DNA repair. Some of the proteins in this family are also transcription regulators and have a distinct transcription regulatory domain. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273157  Cd Length: 80  Bit Score: 132.44  E-value: 6.68e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651990684   82 TTFQKLVWNQLQLIPYGELRSYKEIAAAMGVPKAVRAVGGANNKNPVPILVPCHRVVGANGSLVGYAGGLDIKERLIRLE 161
Cdd:TIGR00589   1 TPFQQKVWKALRTIPYGETKSYGQLAKAIGNPKAARAVGGANGRNPLAILVPCHRVVGKNGTLTGYGGGLERKEFLLEHE 80
ATase cd06445
The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT ...
 84-161 1.11e-39

The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases are specific for repair of guanines with O6-alkyl adducts, however human ATase is not limited to O6-methylguanine, repairing many other adducts at the O6-position of guanine as well. ATase is widely distributed among species. Most ATases have N- and C-terminal domains. The C-terminal domain contains the conserved active-site cysteine motif (PCHR), the O6-alkylguanine binding channel, and the helix-turn-helix (HTH) DNA-binding motif. The active site is located near the recognition helix of the HTH motif. While the C-terminal domain of ATase contains residues that are necessary for DNA binding and alkyl transfer, the function of the N-terminal domain is still unknown. Removal of the N-terminal domain abolishes the activity of the C-terminal domain, suggesting an important structural role for the N-terminal domain in orienting the C-terminal domain for proper catalysis. Some ATase C-terminal domain homologs are either single-domain proteins that lack an N-terminal domain, or have a tryptophan substituted in place of the acceptor cysteine (i.e. the motif PCHR is replaced by PWHR). ATase null mutant mice are viable, fertile, and have a normal lifespan.


Pssm-ID: 119438 [Multi-domain]  Cd Length: 79  Bit Score: 129.14  E-value: 1.11e-39
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 651990684  84 FQKLVWNQLQLIPYGELRSYKEIAAAMGVPKAVRAVGGANNKNPVPILVPCHRVVGANGSLVGYAGGLDIKERLIRLE 161
Cdd:cd06445    1 FQRRVWEALRQIPYGEVTTYGQIAKLAGTPKAARAVGSALARNPIPILIPCHRVVRSDGGLGGYRGGLERKRELLELE 78
PRK10286 PRK10286
methylated-DNA--[protein]-cysteine S-methyltransferase;
1-161 4.84e-33

methylated-DNA--[protein]-cysteine S-methyltransferase;


Pssm-ID: 182355 [Multi-domain]  Cd Length: 171  Bit Score: 115.35  E-value: 4.84e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651990684   1 MIHLFARELDMETGPITIAATDQGIVRAA----YSDiaSWKQSL----RYEKYEVLEESHPylTQAEQELQEYFRGTRRS 72
Cdd:PRK10286   1 MLRLLEEKIATPLGPLWVICDEQFRLRAVeweeYSE--RMVQLLdihyRKEGYERISATNP--GGLSDKLRDYFAGNLSI 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651990684  73 FET-PLPLKGTTFQKLVWNQLQLIPYGELRSYKEIAAAMGVPKAVRAVGGANNKNPVPILVPCHRVVGANGSLVGYAGGL 151
Cdd:PRK10286  77 IDTlPTATGGTPFQREVWQTLRTIPCGQVMHYGQLAEQLGRPGAARAVGAANGSNPISIVVPCHRVIGRNGTMTGYAGGV 156

                        170
                 ....*....|
gi 651990684 152 DIKERLIRLE 161
Cdd:PRK10286 157 QRKEWLLRHE 166
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
76-164 8.59e-29

bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 108.73  E-value: 8.59e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651990684  76 PLPLKGTTFQKLVWNQLQLIPYGELRSYKEIAAAMGVPKAVRAVGGANNKNPVPILVPCHRVVGANGSLVGYAGGLDIKE 155
Cdd:PRK15435 263 PLDIRGTAFQQQVWQALRTIPCGETVSYQQLANAIGKPKAVRAVASACAANKLAIVIPCHRVVRGDGALSGYRWGVSRKA 342


                 ....*....
gi 651990684 156 RLIRLEAEH 164
Cdd:PRK15435 343 QLLRREAEN 351
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 47-164 2.54e-28

Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), contains Zn-binding and two AraC-type DNA-binding domains [Replication, recombination and repair];


Pssm-ID: 441772 [Multi-domain]  Cd Length: 358  Bit Score: 107.45  E-value: 2.54e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651990684  47 VLEESHPYLTQAEQELQEYFRGTRRSFETPLPLKGTTFQKLVWNQLQLIPYGELRSYKEIAAAMGVPKAVRAVGGANNKN 126
Cdd:COG2169  235 ELIGGDAAFEQLVAEVVGFVEGPLLGLDLPLDLRGTAFQQRVWQALRAIPAGETASYAEIAARIGAPKAVRAVAAACAAN 314

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 651990684 127 PVPILVPCHRVVGANGSLVGYAGGLDIKERLIRLEAEH 164
Cdd:COG2169  315 QLAVAIPCHRVVRADGALSGYRWGVERKRALLEREAAA 352
Atl1 COG3695
Alkylated DNA nucleotide flippase Atl1, participates in nucleotide excision repair, Ada-like ...
 82-165 1.58e-15

Alkylated DNA nucleotide flippase Atl1, participates in nucleotide excision repair, Ada-like DNA-binding domain [Transcription];


Pssm-ID: 442910  Cd Length: 104  Bit Score: 68.29  E-value: 1.58e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651990684  82 TTFQKLVWNQLQLIPYGELRSYKEIAAAMGVPKAVRAVGGANNKNPVPILVPCHRVVGANGSLVGYAGGlDIKERLIRLE 161
Cdd:COG3695    4 EEFYERVYEVVAQIPPGRVATYGDIAALAGLPRGARQVGRALRALPEGSDLPWHRVVNADGRLSPGHAG-GAEEQRELLE 82


                 ....
gi 651990684 162 AEHV 165
Cdd:COG3695   83 AEGV 86
PRK03887 PRK03887
methylated-DNA--protein-cysteine methyltransferase; Provisional
 77-161 1.07e-10

methylated-DNA--protein-cysteine methyltransferase; Provisional


Pssm-ID: 167628 [Multi-domain]  Cd Length: 175  Bit Score: 57.05  E-value: 1.07e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 651990684  77 LPLKGTT-FQKLVWNQL-QLIPYGELRSYKEIAAAMGVpkAVRAVGGANNKNPVPILVPCHRVVGANGSLVgYAGGLDIK 154
Cdd:PRK03887  85 LSFEGLTpFERKVYEWLtKNVKRGEVITYGELAKALNT--SPRAVGGAMKRNPYPIIVPCHRVVGRKNPGL-YTPKPEYK 161


                 ....*..
gi 651990684 155 ERLIRLE 161
Cdd:PRK03887 162 KFLLEVE 168
 
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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