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Conserved domains on  [gi|2160701033|pdb|7DKN|A]
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Chain A, Methylated-DNA--protein-cysteine methyltransferase

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, ...
 1-152 3.19e-53

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


:

Pssm-ID: 440119 [Multi-domain]  Cd Length: 163  Bit Score: 165.82  E-value: 3.19e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DKN_A        1 MIVYGLYKSPFGPITVAKNEKGFVMLDFCDCAERSSL---------DNDYFTDFFYKLDLYFEGKKVDLTEPVDFKPfNE 71
Cdd:COG0350   1 TIRYAIFDTPLGPLLIAATDRGLCALSFGDDREEALLarfpaalreDPPLLAEAARQLDAYFAGERKDFDLPLDLRG-TP 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DKN_A       72 FRIRVFKEVMRIKWGEVRTYKQVADAV--KTSPRAVGTALSKNNVLLIIPCHRVIGEK-SLGGYSRGVELKRKLLELEGI 148
Cdd:COG0350  80 FQRRVWEALRKIPYGETVTYGELARAIgrPKAARAVGSACGANPIPIIIPCHRVIGADgSLGGYAGGLERKRALLELEGA 159


                ....
7DKN_A      149 DVAK 152
Cdd:COG0350 160 LAAA 163
 
Name Accession Description Interval E-value
AdaB COG0350
DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, ...
 1-152 3.19e-53

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


Pssm-ID: 440119 [Multi-domain]  Cd Length: 163  Bit Score: 165.82  E-value: 3.19e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DKN_A        1 MIVYGLYKSPFGPITVAKNEKGFVMLDFCDCAERSSL---------DNDYFTDFFYKLDLYFEGKKVDLTEPVDFKPfNE 71
Cdd:COG0350   1 TIRYAIFDTPLGPLLIAATDRGLCALSFGDDREEALLarfpaalreDPPLLAEAARQLDAYFAGERKDFDLPLDLRG-TP 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DKN_A       72 FRIRVFKEVMRIKWGEVRTYKQVADAV--KTSPRAVGTALSKNNVLLIIPCHRVIGEK-SLGGYSRGVELKRKLLELEGI 148
Cdd:COG0350  80 FQRRVWEALRKIPYGETVTYGELARAIgrPKAARAVGSACGANPIPIIIPCHRVIGADgSLGGYAGGLERKRALLELEGA 159


                ....
7DKN_A      149 DVAK 152
Cdd:COG0350 160 LAAA 163
DNA_binding_1 pfam01035
6-O-methylguanine DNA methyltransferase, DNA binding domain; This is the C-terminal ...
 71-148 6.70e-35

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: 116.69  E-value: 6.70e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DKN_A         71 EFRIRVFKEVMRIKWGEVRTYKQVADAV--KTSPRAVGTALSKNNVLLIIPCHRVIGEK-SLGGYSRGVELKRKLLELEG 147
Cdd:pfam01035   1 PFQRRVWEALRQIPYGKTTTYGEIAKLLgrPKAARAVGNALGANPIPIIVPCHRVVGSDgSLGGYAGGLERKRALLELEG 80


                  .
7DKN_A        148 I 148
Cdd:pfam01035  81 V 81
ATase cd06445
The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT ...
 72-147 2.18e-32

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: 110.26  E-value: 2.18e-32
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
7DKN_A       72 FRIRVFKEVMRIKWGEVRTYKQVADAVKT--SPRAVGTALSKNNVLLIIPCHRVIG-EKSLGGYSRGVELKRKLLELEG 147
Cdd:cd06445   1 FQRRVWEALRQIPYGEVTTYGQIAKLAGTpkAARAVGSALARNPIPILIPCHRVVRsDGGLGGYRGGLERKRELLELEG 79
PRK00901 PRK00901
methylated-DNA--protein-cysteine methyltransferase; Provisional
 1-147 6.49e-30

methylated-DNA--protein-cysteine methyltransferase; Provisional


Pssm-ID: 234860 [Multi-domain]  Cd Length: 155  Bit Score: 106.29  E-value: 6.49e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DKN_A         1 MIVYGLYKSPFGPITVAKNEKGFVMLDF--CDCAERSSLDNdyfTDFFYK----LDLYFEGKKVDLTEPVDFKPfNEFRI 74
Cdd:PRK00901   1 MNNIYFYETPIGKIGIAENGTAITHLCFgeDKIPKDVTILE---TDLLKEankqLEEYFEGKRKKFDLPLAPQG-TEFQK 76

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
7DKN_A        75 RVFKEVMRIKWGEVRTYKQVADAV--KTSPRAVGTALSKNNVLLIIPCHRVIGEK-SLGGYSRGVELKRKLLELEG 147
Cdd:PRK00901  77 KVWKALQEIPYGETRSYKEIAVNIgnPKACRAVGLANNKNPIPIFIPCHRVIGANgKLVGYAGGLDIKEKLLKLEK 152
ogt TIGR00589
O-6-methylguanine DNA methyltransferase; All proteins in this family for which functions are ...
 71-146 5.46e-27

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: 96.61  E-value: 5.46e-27
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
7DKN_A         71 EFRIRVFKEVMRIKWGEVRTYKQVADAV--KTSPRAVGTALSKNNVLLIIPCHRVIGEK-SLGGYSRGVELKRKLLELE 146
Cdd:TIGR00589   2 PFQQKVWKALRTIPYGETKSYGQLAKAIgnPKAARAVGGANGRNPLAILVPCHRVVGKNgTLTGYGGGLERKEFLLEHE 80
 
Name Accession Description Interval E-value
AdaB COG0350
DNA repair enzyme Ada (O6-methylguanine-DNA--protein-cysteine methyltransferase) [Replication, ...
 1-152 3.19e-53

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


Pssm-ID: 440119 [Multi-domain]  Cd Length: 163  Bit Score: 165.82  E-value: 3.19e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DKN_A        1 MIVYGLYKSPFGPITVAKNEKGFVMLDFCDCAERSSL---------DNDYFTDFFYKLDLYFEGKKVDLTEPVDFKPfNE 71
Cdd:COG0350   1 TIRYAIFDTPLGPLLIAATDRGLCALSFGDDREEALLarfpaalreDPPLLAEAARQLDAYFAGERKDFDLPLDLRG-TP 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DKN_A       72 FRIRVFKEVMRIKWGEVRTYKQVADAV--KTSPRAVGTALSKNNVLLIIPCHRVIGEK-SLGGYSRGVELKRKLLELEGI 148
Cdd:COG0350  80 FQRRVWEALRKIPYGETVTYGELARAIgrPKAARAVGSACGANPIPIIIPCHRVIGADgSLGGYAGGLERKRALLELEGA 159


                ....
7DKN_A      149 DVAK 152
Cdd:COG0350 160 LAAA 163
DNA_binding_1 pfam01035
6-O-methylguanine DNA methyltransferase, DNA binding domain; This is the C-terminal ...
 71-148 6.70e-35

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: 116.69  E-value: 6.70e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DKN_A         71 EFRIRVFKEVMRIKWGEVRTYKQVADAV--KTSPRAVGTALSKNNVLLIIPCHRVIGEK-SLGGYSRGVELKRKLLELEG 147
Cdd:pfam01035   1 PFQRRVWEALRQIPYGKTTTYGEIAKLLgrPKAARAVGNALGANPIPIIVPCHRVVGSDgSLGGYAGGLERKRALLELEG 80


                  .
7DKN_A        148 I 148
Cdd:pfam01035  81 V 81
ATase cd06445
The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT ...
 72-147 2.18e-32

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: 110.26  E-value: 2.18e-32
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
7DKN_A       72 FRIRVFKEVMRIKWGEVRTYKQVADAVKT--SPRAVGTALSKNNVLLIIPCHRVIG-EKSLGGYSRGVELKRKLLELEG 147
Cdd:cd06445   1 FQRRVWEALRQIPYGEVTTYGQIAKLAGTpkAARAVGSALARNPIPILIPCHRVVRsDGGLGGYRGGLERKRELLELEG 79
PRK00901 PRK00901
methylated-DNA--protein-cysteine methyltransferase; Provisional
 1-147 6.49e-30

methylated-DNA--protein-cysteine methyltransferase; Provisional


Pssm-ID: 234860 [Multi-domain]  Cd Length: 155  Bit Score: 106.29  E-value: 6.49e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DKN_A         1 MIVYGLYKSPFGPITVAKNEKGFVMLDF--CDCAERSSLDNdyfTDFFYK----LDLYFEGKKVDLTEPVDFKPfNEFRI 74
Cdd:PRK00901   1 MNNIYFYETPIGKIGIAENGTAITHLCFgeDKIPKDVTILE---TDLLKEankqLEEYFEGKRKKFDLPLAPQG-TEFQK 76

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
7DKN_A        75 RVFKEVMRIKWGEVRTYKQVADAV--KTSPRAVGTALSKNNVLLIIPCHRVIGEK-SLGGYSRGVELKRKLLELEG 147
Cdd:PRK00901  77 KVWKALQEIPYGETRSYKEIAVNIgnPKACRAVGLANNKNPIPIFIPCHRVIGANgKLVGYAGGLDIKEKLLKLEK 152
ogt TIGR00589
O-6-methylguanine DNA methyltransferase; All proteins in this family for which functions are ...
 71-146 5.46e-27

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: 96.61  E-value: 5.46e-27
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
7DKN_A         71 EFRIRVFKEVMRIKWGEVRTYKQVADAV--KTSPRAVGTALSKNNVLLIIPCHRVIGEK-SLGGYSRGVELKRKLLELE 146
Cdd:TIGR00589   2 PFQQKVWKALRTIPYGETKSYGQLAKAIgnPKAARAVGGANGRNPLAILVPCHRVVGKNgTLTGYGGGLERKEFLLEHE 80
PRK03887 PRK03887
methylated-DNA--protein-cysteine methyltransferase; Provisional
 59-148 3.49e-19

methylated-DNA--protein-cysteine methyltransferase; Provisional


Pssm-ID: 167628 [Multi-domain]  Cd Length: 175  Bit Score: 79.01  E-value: 3.49e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DKN_A        59 DLTEPVDFKPFNEFRIRVFKE-VMRIKWGEVRTYKQVADAVKTSPRAVGTALSKNNVLLIIPCHRVIGEKSLGGYSRGVE 137
Cdd:PRK03887  80 EGLEELSFEGLTPFERKVYEWlTKNVKRGEVITYGELAKALNTSPRAVGGAMKRNPYPIIVPCHRVVGRKNPGLYTPKPE 159

                         90
                 ....*....|.
7DKN_A       138 LKRKLLELEGI 148
Cdd:PRK03887 160 YKKFLLEVEGV 170
Atl1 COG3695
Alkylated DNA nucleotide flippase Atl1, participates in nucleotide excision repair, Ada-like ...
 70-150 5.75e-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: 66.36  E-value: 5.75e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DKN_A       70 NEFRIRVFKEVMRIKWGEVRTYKQVADAV--KTSPRAVGTALSKNNVLLIIPCHRVI---GEKSlGGYSRGVELKRKLLE 144
Cdd:COG3695   4 EEFYERVYEVVAQIPPGRVATYGDIAALAglPRGARQVGRALRALPEGSDLPWHRVVnadGRLS-PGHAGGAEEQRELLE 82


                ....*.
7DKN_A      145 LEGIDV 150
Cdd:COG3695  83 AEGVPV 88
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
32-146 2.20e-12

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 63.27  E-value: 2.20e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DKN_A        32 AERSSLDNDyFTDFFYKLDLYFEGKKVDLTEPVDFKPfNEFRIRVFKEVMRIKWGEVRTYKQVADAV--KTSPRAVGTAL 109
Cdd:PRK15435 233 ADNAPADLT-FQQHVREVIASLNQRDTPLTLPLDIRG-TAFQQQVWQALRTIPCGETVSYQQLANAIgkPKAVRAVASAC 310

                         90       100       110
                 ....*....|....*....|....*....|....*...
7DKN_A       110 SKNNVLLIIPCHRVI-GEKSLGGYSRGVELKRKLLELE 146
Cdd:PRK15435 311 AANKLAIVIPCHRVVrGDGALSGYRWGVSRKAQLLRRE 348
PRK10286 PRK10286
methylated-DNA--[protein]-cysteine S-methyltransferase;
48-147 7.17e-11

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


Pssm-ID: 182355 [Multi-domain]  Cd Length: 171  Bit Score: 57.19  E-value: 7.17e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DKN_A        48 KLDLYFEGKKV---DLTEPVDFKPFNEfriRVFKEVMRIKWGEVRTYKQVADAV--KTSPRAVGTALSKNNVLLIIPCHR 122
Cdd:PRK10286  65 KLRDYFAGNLSiidTLPTATGGTPFQR---EVWQTLRTIPCGQVMHYGQLAEQLgrPGAARAVGAANGSNPISIVVPCHR 141

                         90       100
                 ....*....|....*....|....*.
7DKN_A       123 VIGEK-SLGGYSRGVELKRKLLELEG 147
Cdd:PRK10286 142 VIGRNgTMTGYAGGVQRKEWLLRHEG 167
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 48-146 3.51e-08

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: 51.21  E-value: 3.51e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DKN_A       48 KLDLYFEGKKVDLTEPVDFkPFNEFRIRVFKEVMRIKWGEVRTYKQVADAVK--TSPRAVGTALSKNNVLLIIPCHRVIG 125
Cdd:COG2169 249 EVVGFVEGPLLGLDLPLDL-RGTAFQQRVWQALRAIPAGETASYAEIAARIGapKAVRAVAAACAANQLAVAIPCHRVVR 327

                        90       100
                ....*....|....*....|..
7DKN_A      126 EK-SLGGYSRGVELKRKLLELE 146
Cdd:COG2169 328 ADgALSGYRWGVERKRALLERE 349
 
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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