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Conserved domains on  [gi|1040493497|ref|WP_065116184|]
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MULTISPECIES: methylated-DNA--[protein]-cysteine S-methyltransferase [Rhizobium/Agrobacterium group]

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

CATH:  3.30.160.70|1.10.10.10
EC:  2.1.1.63
Gene Ontology:  GO:0003908|GO:0003677|GO:0046872|GO:0006281|GO:0032259
PubMed:  17500045|17485252
SCOP:  4000565|4000678

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, ...
 7-176 1.70e-47

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


:

Pssm-ID: 440119 [Multi-domain]  Cd Length: 163  Bit Score: 152.33  E-value: 1.70e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497   7 YIVFPTALGHCGLAWAGRGIARLQLPGADAGETEKLLLKRLPSSTiavpeTRTREVIAMITRYFSGEPIDFaTVELDLAG 86
Cdd:COG0350     4 YAIFDTPLGPLLIAATDRGLCALSFGDDREEALLARFPAALREDP-----PLLAEAARQLDAYFAGERKDF-DLPLDLRG 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  87 QDrFFLDVYAVARQIGWGRTTTYGGIVKDLGlgMEKA-RDVGQAMAKNPVPLIIPCHRVLAAGGRLGGFSapGGTTTKLR 165
Cdd:COG0350    78 TP-FQRRVWEALRKIPYGETVTYGELARAIG--RPKAaRAVGSACGANPIPIIIPCHRVIGADGSLGGYA--GGLERKRA 152

                         170
                  ....*....|.
gi 1040493497 166 MLDLENAGRSR 176
Cdd:COG0350   153 LLELEGALAAA 163
 
Name Accession Description Interval E-value
AdaB COG0350
DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, ...
 7-176 1.70e-47

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


Pssm-ID: 440119 [Multi-domain]  Cd Length: 163  Bit Score: 152.33  E-value: 1.70e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497   7 YIVFPTALGHCGLAWAGRGIARLQLPGADAGETEKLLLKRLPSSTiavpeTRTREVIAMITRYFSGEPIDFaTVELDLAG 86
Cdd:COG0350     4 YAIFDTPLGPLLIAATDRGLCALSFGDDREEALLARFPAALREDP-----PLLAEAARQLDAYFAGERKDF-DLPLDLRG 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  87 QDrFFLDVYAVARQIGWGRTTTYGGIVKDLGlgMEKA-RDVGQAMAKNPVPLIIPCHRVLAAGGRLGGFSapGGTTTKLR 165
Cdd:COG0350    78 TP-FQRRVWEALRKIPYGETVTYGELARAIG--RPKAaRAVGSACGANPIPIIIPCHRVIGADGSLGGYA--GGLERKRA 152

                         170
                  ....*....|.
gi 1040493497 166 MLDLENAGRSR 176
Cdd:COG0350   153 LLELEGALAAA 163
DNA_binding_1 pfam01035
6-O-methylguanine DNA methyltransferase, DNA binding domain; This is the C-terminal ...
 90-172 4.96e-28

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: 100.13  E-value: 4.96e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  90 FFLDVYAVARQIGWGRTTTYGGIVKDLGLGMeKARDVGQAMAKNPVPLIIPCHRVLAAGGRLGGFSapGGTTTKLRMLDL 169
Cdd:pfam01035   2 FQRRVWEALRQIPYGKTTTYGEIAKLLGRPK-AARAVGNALGANPIPIIVPCHRVVGSDGSLGGYA--GGLERKRALLEL 78


                  ...
gi 1040493497 170 ENA 172
Cdd:pfam01035  79 EGV 81
ATase cd06445
The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT ...
 90-171 2.69e-25

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: 92.93  E-value: 2.69e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  90 FFLDVYAVARQIGWGRTTTYGGIVKDLGLGMeKARDVGQAMAKNPVPLIIPCHRVLAAGGRLGGFSapGGTTTKLRMLDL 169
Cdd:cd06445     1 FQRRVWEALRQIPYGEVTTYGQIAKLAGTPK-AARAVGSALARNPIPILIPCHRVVRSDGGLGGYR--GGLERKRELLEL 77


                  ..
gi 1040493497 170 EN 171
Cdd:cd06445    78 EG 79
PRK00901 PRK00901
methylated-DNA--protein-cysteine methyltransferase; Provisional
 60-170 5.65e-19

methylated-DNA--protein-cysteine methyltransferase; Provisional


Pssm-ID: 234860 [Multi-domain]  Cd Length: 155  Bit Score: 78.94  E-value: 5.65e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  60 REVIAMITRYFSGEPIDFaTVELDLAGQDrFFLDVYAVARQIGWGRTTTYGGIVKDLGlgMEKA-RDVGQAMAKNPVPLI 138
Cdd:PRK00901   46 KEANKQLEEYFEGKRKKF-DLPLAPQGTE-FQKKVWKALQEIPYGETRSYKEIAVNIG--NPKAcRAVGLANNKNPIPIF 121

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1040493497 139 IPCHRVLAAGGRLGGFSapGGTTTKLRMLDLE 170
Cdd:PRK00901  122 IPCHRVIGANGKLVGYA--GGLDIKEKLLKLE 151
ogt TIGR00589
O-6-methylguanine DNA methyltransferase; All proteins in this family for which functions are ...
 90-170 5.21e-17

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: 71.96  E-value: 5.21e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  90 FFLDVYAVARQIGWGRTTTYGGIVKDLGlGMEKARDVGQAMAKNPVPLIIPCHRVLAAGGRLGGFSapGGTTTKLRMLDL 169
Cdd:TIGR00589   3 FQQKVWKALRTIPYGETKSYGQLAKAIG-NPKAARAVGGANGRNPLAILVPCHRVVGKNGTLTGYG--GGLERKEFLLEH 79


                  .
gi 1040493497 170 E 170
Cdd:TIGR00589  80 E 80
 
Name Accession Description Interval E-value
AdaB COG0350
DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, ...
 7-176 1.70e-47

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


Pssm-ID: 440119 [Multi-domain]  Cd Length: 163  Bit Score: 152.33  E-value: 1.70e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497   7 YIVFPTALGHCGLAWAGRGIARLQLPGADAGETEKLLLKRLPSSTiavpeTRTREVIAMITRYFSGEPIDFaTVELDLAG 86
Cdd:COG0350     4 YAIFDTPLGPLLIAATDRGLCALSFGDDREEALLARFPAALREDP-----PLLAEAARQLDAYFAGERKDF-DLPLDLRG 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  87 QDrFFLDVYAVARQIGWGRTTTYGGIVKDLGlgMEKA-RDVGQAMAKNPVPLIIPCHRVLAAGGRLGGFSapGGTTTKLR 165
Cdd:COG0350    78 TP-FQRRVWEALRKIPYGETVTYGELARAIG--RPKAaRAVGSACGANPIPIIIPCHRVIGADGSLGGYA--GGLERKRA 152

                         170
                  ....*....|.
gi 1040493497 166 MLDLENAGRSR 176
Cdd:COG0350   153 LLELEGALAAA 163
DNA_binding_1 pfam01035
6-O-methylguanine DNA methyltransferase, DNA binding domain; This is the C-terminal ...
 90-172 4.96e-28

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: 100.13  E-value: 4.96e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  90 FFLDVYAVARQIGWGRTTTYGGIVKDLGLGMeKARDVGQAMAKNPVPLIIPCHRVLAAGGRLGGFSapGGTTTKLRMLDL 169
Cdd:pfam01035   2 FQRRVWEALRQIPYGKTTTYGEIAKLLGRPK-AARAVGNALGANPIPIIVPCHRVVGSDGSLGGYA--GGLERKRALLEL 78


                  ...
gi 1040493497 170 ENA 172
Cdd:pfam01035  79 EGV 81
ATase cd06445
The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT ...
 90-171 2.69e-25

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: 92.93  E-value: 2.69e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  90 FFLDVYAVARQIGWGRTTTYGGIVKDLGLGMeKARDVGQAMAKNPVPLIIPCHRVLAAGGRLGGFSapGGTTTKLRMLDL 169
Cdd:cd06445     1 FQRRVWEALRQIPYGEVTTYGQIAKLAGTPK-AARAVGSALARNPIPILIPCHRVVRSDGGLGGYR--GGLERKRELLEL 77


                  ..
gi 1040493497 170 EN 171
Cdd:cd06445    78 EG 79
PRK00901 PRK00901
methylated-DNA--protein-cysteine methyltransferase; Provisional
 60-170 5.65e-19

methylated-DNA--protein-cysteine methyltransferase; Provisional


Pssm-ID: 234860 [Multi-domain]  Cd Length: 155  Bit Score: 78.94  E-value: 5.65e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  60 REVIAMITRYFSGEPIDFaTVELDLAGQDrFFLDVYAVARQIGWGRTTTYGGIVKDLGlgMEKA-RDVGQAMAKNPVPLI 138
Cdd:PRK00901   46 KEANKQLEEYFEGKRKKF-DLPLAPQGTE-FQKKVWKALQEIPYGETRSYKEIAVNIG--NPKAcRAVGLANNKNPIPIF 121

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1040493497 139 IPCHRVLAAGGRLGGFSapGGTTTKLRMLDLE 170
Cdd:PRK00901  122 IPCHRVIGANGKLVGYA--GGLDIKEKLLKLE 151
ogt TIGR00589
O-6-methylguanine DNA methyltransferase; All proteins in this family for which functions are ...
 90-170 5.21e-17

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: 71.96  E-value: 5.21e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  90 FFLDVYAVARQIGWGRTTTYGGIVKDLGlGMEKARDVGQAMAKNPVPLIIPCHRVLAAGGRLGGFSapGGTTTKLRMLDL 169
Cdd:TIGR00589   3 FQQKVWKALRTIPYGETKSYGQLAKAIG-NPKAARAVGGANGRNPLAILVPCHRVVGKNGTLTGYG--GGLERKEFLLEH 79


                  .
gi 1040493497 170 E 170
Cdd:TIGR00589  80 E 80
Atl1 COG3695
Alkylated DNA nucleotide flippase Atl1, participates in nucleotide excision repair, Ada-like ...
 87-170 1.97e-14

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


Pssm-ID: 442910  Cd Length: 104  Bit Score: 65.59  E-value: 1.97e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  87 QDRFFLDVYAVARQIGWGRTTTYGGIVKDLGLGmEKARDVGQAMAKNPVPLIIPCHRVLAAGGRLgGFSAPGGTTTKLRM 166
Cdd:COG3695     3 MEEFYERVYEVVAQIPPGRVATYGDIAALAGLP-RGARQVGRALRALPEGSDLPWHRVVNADGRL-SPGHAGGAEEQREL 80


                  ....
gi 1040493497 167 LDLE 170
Cdd:COG3695    81 LEAE 84
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 4-170 4.87e-14

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: 68.93  E-value: 4.87e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497   4 HYGYIVFPTALGHCGLAWAGRGIARLQLpGADAGETEKLLLKRLPSSTIAVPETRTREVIAMITRYFSGEPIDFATVeLD 83
Cdd:COG2169   189 AIRFAPTPCSLGLLLVAASARGVCAILL-GDDPEALLRDLQDRFPAAELIGGDAAFEQLVAEVVGFVEGPLLGLDLP-LD 266

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  84 LAGqDRFFLDVYAVARQIGWGRTTTYGGIVKDLGLGmEKARDVGQAMAKNPVPLIIPCHRVLAAGGRLGGfsAPGGTTTK 163
Cdd:COG2169   267 LRG-TAFQQRVWQALRAIPAGETASYAEIAARIGAP-KAVRAVAAACAANQLAVAIPCHRVVRADGALSG--YRWGVERK 342


                  ....*..
gi 1040493497 164 LRMLDLE 170
Cdd:COG2169   343 RALLERE 349
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
7-170 8.52e-12

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 62.50  E-value: 8.52e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497   7 YIVFPTALGHCGLAWAGRGIARLqLPGADAGETEKLLLKRLPSSTIAVPE----TRTREVIAMITRyfSGEPIdfaTVEL 82
Cdd:PRK15435  191 YALADCELGRCLVAESERGICAI-LLGDDDAALISELQQMFPAADNAPADltfqQHVREVIASLNQ--RDTPL---TLPL 264

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  83 DLAGQdRFFLDVYAVARQIGWGRTTTYGGIVKDLGLGmEKARDVGQAMAKNPVPLIIPCHRVLAAGGRLGGFSapGGTTT 162
Cdd:PRK15435  265 DIRGT-AFQQQVWQALRTIPCGETVSYQQLANAIGKP-KAVRAVASACAANKLAIVIPCHRVVRGDGALSGYR--WGVSR 340


                  ....*...
gi 1040493497 163 KLRMLDLE 170
Cdd:PRK15435  341 KAQLLRRE 348
PRK03887 PRK03887
methylated-DNA--protein-cysteine methyltransferase; Provisional
 81-149 8.96e-09

methylated-DNA--protein-cysteine methyltransferase; Provisional


Pssm-ID: 167628 [Multi-domain]  Cd Length: 175  Bit Score: 52.43  E-value: 8.96e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  81 ELDLAGQDRFFLDVYA-VARQIGWGRTTTYGGIVKDLGlgmEKARDVGQAMAKNPVPLIIPCHRVLAAGG 149
Cdd:PRK03887   84 ELSFEGLTPFERKVYEwLTKNVKRGEVITYGELAKALN---TSPRAVGGAMKRNPYPIIVPCHRVVGRKN 150
PRK10286 PRK10286
methylated-DNA--[protein]-cysteine S-methyltransferase;
66-170 3.64e-08

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


Pssm-ID: 182355 [Multi-domain]  Cd Length: 171  Bit Score: 50.64  E-value: 3.64e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040493497  66 ITRYFSGEPIDFATVELDLAGQDrFFLDVYAVARQIGWGRTTTYGGIVKDLGLGmEKARDVGQAMAKNPVPLIIPCHRVL 145
Cdd:PRK10286   66 LRDYFAGNLSIIDTLPTATGGTP-FQREVWQTLRTIPCGQVMHYGQLAEQLGRP-GAARAVGAANGSNPISIVVPCHRVI 143

                          90       100
                  ....*....|....*....|....*
gi 1040493497 146 AAGGRLGGFSapGGTTTKLRMLDLE 170
Cdd:PRK10286  144 GRNGTMTGYA--GGVQRKEWLLRHE 166
 
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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