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Conserved domains on  [gi|1009349958|gb|KYM75464|]
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G/T mismatch-specific thymine DNA glycosylase [Atta colombica]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
UDG-F2_TDG_MUG cd10028
Uracil DNA glycosylase family 2, includes thymine DNA glycosylase, mismatch-specific uracil ...
 42-205 1.95e-75

Uracil DNA glycosylase family 2, includes thymine DNA glycosylase, mismatch-specific uracil DNA glycosylase and similar proteins; Uracil DNA glycosylase family 2 consists of thymine DNA glycosylase (TDG), which removes uracil and thymine from G:U and G:T mismatches in double-stranded DNA. It includes mismatch-specific uracil DNA glycosylase (MUG), the prokaryotic homolog of TDG. Escherichia coli MUG is highly specific to G:U mismatches but also repairs G:T mismatches at high enzyme concentration. Uracil-DNA glycosylases (UDGs) initiate repair of uracils in DNA. Uracil in DNA can arise as a result of misincorporation of dUMP residues by DNA polymerase or via deamination of cytosine. Uracil in DNA mispaired with guanine is one of the major pro-mutagenic events, causing G:C->A:T mutations. Thus, UDG is an essential enzyme for maintaining the integrity of genetic information. UDGs have been classified into various families on the basis of their substrate specificity, conserved motifs, and structural similarities. Although these families demonstrate different substrate specificities, often the function of one enzyme can be complemented by the other..


:

Pssm-ID: 381679  Cd Length: 163  Bit Score: 235.45  E-value: 1.95e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958  42 LQDYLEMNLDLVFVGINPSLMAAHRGRYYAGPGNHFYKLLHESGLTPRFISFEEDYKLLQYSIGLTNIVERPTRSAADLK 121
Cdd:cd10028     1 LPDLLAPGLDVLFCGINPGLRSAAVGHHYAHPGNRFWPLLHESGLTPRLLTPEEDRRLPEYGIGLTNLVKRPTASAAELS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958 122 RTELKEGSKVVEEKLKLYKPKIAVFNGKCIYEVFA-HITTKFKfyFGLQPER-IGDTAIWVTPSSSARCANFPRmVDKLH 199
Cdd:cd10028    81 KAELRAGVPRLLAKIARYRPRVVAFVGKGAYRAFFgRLKKKAA--YGLQPETgIGGTRVFVLPSTSGLNAHYSL-EDKLE 157


                  ....*.
gi 1009349958 200 FYIGLK 205
Cdd:cd10028   158 PWRELA 163
Ribosomal_S30 pfam04758
Ribosomal protein S30;
473-530 3.25e-32

Ribosomal protein S30;


:

Pssm-ID: 398432  Cd Length: 58  Bit Score: 117.75  E-value: 3.25e-32
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1009349958 473 KVHGSLARAGKVKAQTPKVEKQEKSKKKTGRAKRRIQYNRRFVNVVQTFGRRRGPNAN 530
Cdd:pfam04758   1 KVHGSLARAGKVRNQTPKVEKQEKKKKPTGRAKKRLQYNRRFVNVVPGGGRKKGPNSQ 58
 
Name Accession Description Interval E-value
UDG-F2_TDG_MUG cd10028
Uracil DNA glycosylase family 2, includes thymine DNA glycosylase, mismatch-specific uracil ...
 42-205 1.95e-75

Uracil DNA glycosylase family 2, includes thymine DNA glycosylase, mismatch-specific uracil DNA glycosylase and similar proteins; Uracil DNA glycosylase family 2 consists of thymine DNA glycosylase (TDG), which removes uracil and thymine from G:U and G:T mismatches in double-stranded DNA. It includes mismatch-specific uracil DNA glycosylase (MUG), the prokaryotic homolog of TDG. Escherichia coli MUG is highly specific to G:U mismatches but also repairs G:T mismatches at high enzyme concentration. Uracil-DNA glycosylases (UDGs) initiate repair of uracils in DNA. Uracil in DNA can arise as a result of misincorporation of dUMP residues by DNA polymerase or via deamination of cytosine. Uracil in DNA mispaired with guanine is one of the major pro-mutagenic events, causing G:C->A:T mutations. Thus, UDG is an essential enzyme for maintaining the integrity of genetic information. UDGs have been classified into various families on the basis of their substrate specificity, conserved motifs, and structural similarities. Although these families demonstrate different substrate specificities, often the function of one enzyme can be complemented by the other..


Pssm-ID: 381679  Cd Length: 163  Bit Score: 235.45  E-value: 1.95e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958  42 LQDYLEMNLDLVFVGINPSLMAAHRGRYYAGPGNHFYKLLHESGLTPRFISFEEDYKLLQYSIGLTNIVERPTRSAADLK 121
Cdd:cd10028     1 LPDLLAPGLDVLFCGINPGLRSAAVGHHYAHPGNRFWPLLHESGLTPRLLTPEEDRRLPEYGIGLTNLVKRPTASAAELS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958 122 RTELKEGSKVVEEKLKLYKPKIAVFNGKCIYEVFA-HITTKFKfyFGLQPER-IGDTAIWVTPSSSARCANFPRmVDKLH 199
Cdd:cd10028    81 KAELRAGVPRLLAKIARYRPRVVAFVGKGAYRAFFgRLKKKAA--YGLQPETgIGGTRVFVLPSTSGLNAHYSL-EDKLE 157


                  ....*.
gi 1009349958 200 FYIGLK 205
Cdd:cd10028   158 PWRELA 163
mug TIGR00584
mismatch-specific thymine-DNA glycosylate (mug); All proteins in this family for whcih ...
 3-222 3.00e-64

mismatch-specific thymine-DNA glycosylate (mug); All proteins in this family for whcih functions are known are G-T or G-U mismatch glycosylases that function in base excision repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Used 2pf model. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273154  Cd Length: 328  Bit Score: 212.61  E-value: 3.00e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958   3 PLDLNKLKKRPLTKEILEQ------SKKKVDRFDGLSEEEVQKYTLQDYLEMNLDLVFVGINPSLMAAHRGRYYAGPGNH 76
Cdd:TIGR00584  78 PSDSKKSGKSTKSKEKQEKitdkfkVKRKVDRFNGVSEAELLTKTLPDILTFNLDIVIIGINPGLMAAYKGHHYPGPGNH 157

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958  77 FYKLLHESGLTPRFISFEEDYKL-LQYSIGLTNIVERPTRSAADLKRTELKEGSKVVEEKLKLYKPKIAVFNGKCIYEVF 155
Cdd:TIGR00584 158 FWKCLFMSGLSEVQLNHMDDHTLpGKYGIGFTNMVERTTPGSKDLSSKEFREGGRILVQKLQKYQPRIAVFNGKCIYEIF 237

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1009349958 156 AHITTKFK---FYFGLQPERIGD--TAIWVTPSSSARCANFPRMVDKLHFYIGLKKYLHFLKGEITNVDLKE 222
Cdd:TIGR00584 238 SKEVFGVKvknLEFGLQPHKIPDteTLCYVMPSSSARCAQFPRAQDKVHYYIKLKDLRDQLKGIERNLDVQE 309
Mug COG3663
G:T/U-mismatch repair DNA glycosylase [Replication, recombination and repair];
42-192 3.10e-35

G:T/U-mismatch repair DNA glycosylase [Replication, recombination and repair];


Pssm-ID: 442880  Cd Length: 157  Bit Score: 129.13  E-value: 3.10e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958  42 LQDYLEMNLDLVFVGINPSLMAAHRGRYYAGPGNHFYKLLHESGLT-PRFISFEEDYKLLQYSIGLTNIVERPTRSAADL 120
Cdd:COG3663     1 LPPVLAPGLRVLILGSNPGLASLAAGFYYAHPRNRFWPILGAAGGTdPRLDYPERKAFLLEHGIGLWDVVARCTRRAGSL 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1009349958 121 KRTELKEGSKVVEEkLKLYKPKIA--VFNGKCIYEVFahittkFKfYFGLQPERIGDTAIWVTPSSSARCANFP 192
Cdd:COG3663    81 DSAIRNAGPNDLAA-LLRYRPRIKtvAFNGKTAYRLF------FK-LVAPQPETIGGIELWVLPSPSPANARFS 146
Ribosomal_S30 pfam04758
Ribosomal protein S30;
473-530 3.25e-32

Ribosomal protein S30;


Pssm-ID: 398432  Cd Length: 58  Bit Score: 117.75  E-value: 3.25e-32
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1009349958 473 KVHGSLARAGKVKAQTPKVEKQEKSKKKTGRAKRRIQYNRRFVNVVQTFGRRRGPNAN 530
Cdd:pfam04758   1 KVHGSLARAGKVRNQTPKVEKQEKKKKPTGRAKKRLQYNRRFVNVVPGGGRKKGPNSQ 58
PRK10201 PRK10201
G/U mismatch-specific DNA glycosylase;
44-185 5.14e-31

G/U mismatch-specific DNA glycosylase;


Pssm-ID: 182301  Cd Length: 168  Bit Score: 118.30  E-value: 5.14e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958  44 DYLEMNLDLVFVGINPSLMAAHRGRYYAGPGNHFYKLLHESGLTPRFISFEEDYKLLQYSIGLTNIVERPTRSAADLKRT 123
Cdd:PRK10201    4 DILAPGLRVVFCGINPGLSSAHTGFPFAHPANRFWKVIHQAGFTDRQLKPEEAQHLLDTRCGVTKLVDRPTVQANEVSKQ 83

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1009349958 124 ELKEGSKVVEEKLKLYKPKIAVFNGKCIYEVFAHITtkfKFYFGLQPERIGDTAIWVTPSSS 185
Cdd:PRK10201   84 ELRSGGRKLIEKIEDYQPQALAVLGKQAYEQGFSQR---GAQWGKQTLTIGSTQVWVLPNPS 142
UDG pfam03167
Uracil DNA glycosylase superfamily;
49-205 3.56e-22

Uracil DNA glycosylase superfamily;


Pssm-ID: 397331  Cd Length: 154  Bit Score: 92.79  E-value: 3.56e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958  49 NLDLVFVGINPSLMAAHRGRYYAGP-GNHFYKLLHESGLTPRFISFEEdykllqysIGLTNIVERPTRSAADLKRTELKE 127
Cdd:pfam03167   7 NAKVLIVGEAPGADEDATGLPFVGRaGNLLWKLLNAAGLTRDLFSPQG--------VYITNVVKCRPGNRRKPTSHEIDA 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958 128 GSKVVEEKLKLYKPKIAVFNGKCIYEVFahitTKFKFYFGLQPERIGDTA--IWVTPSSSARCANFPRMVDKLHFYIGLK 205
Cdd:pfam03167  79 CWPYLEAEIELLRPRVIVLLGKTAAKAL----LGLKKITKLRGKLIDLKGipVLPTPHPSPLLRNKLNPFLKANAWEDLK 154
PTZ00467 PTZ00467
40S ribosomal protein S30; Provisional
 472-515 2.44e-14

40S ribosomal protein S30; Provisional


Pssm-ID: 185646  Cd Length: 66  Bit Score: 67.87  E-value: 2.44e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1009349958 472 GKVHGSLARAGKVKAQTPKVEKQEKSKKKTGRAKRRIQYNRRFV 515
Cdd:PTZ00467    2 GKIHGSLARAGKVKNQTPKVAKQEKPKQPRGRALKRLKYTRRFL 45
UDG smart00986
Uracil DNA glycosylase superfamily;
49-191 2.92e-12

Uracil DNA glycosylase superfamily;


Pssm-ID: 214956  Cd Length: 156  Bit Score: 64.72  E-value: 2.92e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958   49 NLDLVFVGINPSLMAAHRGR-YYAGPGNHFYKLLHESGLTPRFISfeedykllqysigLTNIV-ERPTRSAA-DLKRTEL 125
Cdd:smart00986   7 NAKVLIVGQAPGASEEDRGGpFVGAAGLLLSVMLGVAGLPRLPPY-------------LTNIVkCRPPDAGNrRPTSWEL 73

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1009349958  126 KEGSK-VVEEKLKLYKPKIAVFNGKCIYEVFAHITTKFKFyFGLQPE----RIGDTAIWVTPSSSARCANF 191
Cdd:smart00986  74 QGCLLpWLTVELALARPHLILLLGKFAAQALLGLLRRPLV-FGLRGRvaqlKGKGHRVLPLPHPSPLNRNF 143
RPS30 COG4919
Ribosomal protein S30 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S30 ...
 475-519 3.19e-09

Ribosomal protein S30 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S30 is part of the Pathway/BioSystem: Archaeal ribosomal proteins


Pssm-ID: 443947  Cd Length: 52  Bit Score: 52.70  E-value: 3.19e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1009349958 475 HGSLARAGKVKAQTPKVEKQEKsKKKTGRAKRRIQYNRRFVNVVQ 519
Cdd:COG4919     4 HGSLTKAGKVRSQTPKIPAKPR-KNPPPRVRNRREYRKRFVKARQ 47
 
Name Accession Description Interval E-value
UDG-F2_TDG_MUG cd10028
Uracil DNA glycosylase family 2, includes thymine DNA glycosylase, mismatch-specific uracil ...
 42-205 1.95e-75

Uracil DNA glycosylase family 2, includes thymine DNA glycosylase, mismatch-specific uracil DNA glycosylase and similar proteins; Uracil DNA glycosylase family 2 consists of thymine DNA glycosylase (TDG), which removes uracil and thymine from G:U and G:T mismatches in double-stranded DNA. It includes mismatch-specific uracil DNA glycosylase (MUG), the prokaryotic homolog of TDG. Escherichia coli MUG is highly specific to G:U mismatches but also repairs G:T mismatches at high enzyme concentration. Uracil-DNA glycosylases (UDGs) initiate repair of uracils in DNA. Uracil in DNA can arise as a result of misincorporation of dUMP residues by DNA polymerase or via deamination of cytosine. Uracil in DNA mispaired with guanine is one of the major pro-mutagenic events, causing G:C->A:T mutations. Thus, UDG is an essential enzyme for maintaining the integrity of genetic information. UDGs have been classified into various families on the basis of their substrate specificity, conserved motifs, and structural similarities. Although these families demonstrate different substrate specificities, often the function of one enzyme can be complemented by the other..


Pssm-ID: 381679  Cd Length: 163  Bit Score: 235.45  E-value: 1.95e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958  42 LQDYLEMNLDLVFVGINPSLMAAHRGRYYAGPGNHFYKLLHESGLTPRFISFEEDYKLLQYSIGLTNIVERPTRSAADLK 121
Cdd:cd10028     1 LPDLLAPGLDVLFCGINPGLRSAAVGHHYAHPGNRFWPLLHESGLTPRLLTPEEDRRLPEYGIGLTNLVKRPTASAAELS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958 122 RTELKEGSKVVEEKLKLYKPKIAVFNGKCIYEVFA-HITTKFKfyFGLQPER-IGDTAIWVTPSSSARCANFPRmVDKLH 199
Cdd:cd10028    81 KAELRAGVPRLLAKIARYRPRVVAFVGKGAYRAFFgRLKKKAA--YGLQPETgIGGTRVFVLPSTSGLNAHYSL-EDKLE 157


                  ....*.
gi 1009349958 200 FYIGLK 205
Cdd:cd10028   158 PWRELA 163
mug TIGR00584
mismatch-specific thymine-DNA glycosylate (mug); All proteins in this family for whcih ...
 3-222 3.00e-64

mismatch-specific thymine-DNA glycosylate (mug); All proteins in this family for whcih functions are known are G-T or G-U mismatch glycosylases that function in base excision repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Used 2pf model. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273154  Cd Length: 328  Bit Score: 212.61  E-value: 3.00e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958   3 PLDLNKLKKRPLTKEILEQ------SKKKVDRFDGLSEEEVQKYTLQDYLEMNLDLVFVGINPSLMAAHRGRYYAGPGNH 76
Cdd:TIGR00584  78 PSDSKKSGKSTKSKEKQEKitdkfkVKRKVDRFNGVSEAELLTKTLPDILTFNLDIVIIGINPGLMAAYKGHHYPGPGNH 157

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958  77 FYKLLHESGLTPRFISFEEDYKL-LQYSIGLTNIVERPTRSAADLKRTELKEGSKVVEEKLKLYKPKIAVFNGKCIYEVF 155
Cdd:TIGR00584 158 FWKCLFMSGLSEVQLNHMDDHTLpGKYGIGFTNMVERTTPGSKDLSSKEFREGGRILVQKLQKYQPRIAVFNGKCIYEIF 237

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1009349958 156 AHITTKFK---FYFGLQPERIGD--TAIWVTPSSSARCANFPRMVDKLHFYIGLKKYLHFLKGEITNVDLKE 222
Cdd:TIGR00584 238 SKEVFGVKvknLEFGLQPHKIPDteTLCYVMPSSSARCAQFPRAQDKVHYYIKLKDLRDQLKGIERNLDVQE 309
Mug COG3663
G:T/U-mismatch repair DNA glycosylase [Replication, recombination and repair];
42-192 3.10e-35

G:T/U-mismatch repair DNA glycosylase [Replication, recombination and repair];


Pssm-ID: 442880  Cd Length: 157  Bit Score: 129.13  E-value: 3.10e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958  42 LQDYLEMNLDLVFVGINPSLMAAHRGRYYAGPGNHFYKLLHESGLT-PRFISFEEDYKLLQYSIGLTNIVERPTRSAADL 120
Cdd:COG3663     1 LPPVLAPGLRVLILGSNPGLASLAAGFYYAHPRNRFWPILGAAGGTdPRLDYPERKAFLLEHGIGLWDVVARCTRRAGSL 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1009349958 121 KRTELKEGSKVVEEkLKLYKPKIA--VFNGKCIYEVFahittkFKfYFGLQPERIGDTAIWVTPSSSARCANFP 192
Cdd:COG3663    81 DSAIRNAGPNDLAA-LLRYRPRIKtvAFNGKTAYRLF------FK-LVAPQPETIGGIELWVLPSPSPANARFS 146
Ribosomal_S30 pfam04758
Ribosomal protein S30;
473-530 3.25e-32

Ribosomal protein S30;


Pssm-ID: 398432  Cd Length: 58  Bit Score: 117.75  E-value: 3.25e-32
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1009349958 473 KVHGSLARAGKVKAQTPKVEKQEKSKKKTGRAKRRIQYNRRFVNVVQTFGRRRGPNAN 530
Cdd:pfam04758   1 KVHGSLARAGKVRNQTPKVEKQEKKKKPTGRAKKRLQYNRRFVNVVPGGGRKKGPNSQ 58
PRK10201 PRK10201
G/U mismatch-specific DNA glycosylase;
44-185 5.14e-31

G/U mismatch-specific DNA glycosylase;


Pssm-ID: 182301  Cd Length: 168  Bit Score: 118.30  E-value: 5.14e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958  44 DYLEMNLDLVFVGINPSLMAAHRGRYYAGPGNHFYKLLHESGLTPRFISFEEDYKLLQYSIGLTNIVERPTRSAADLKRT 123
Cdd:PRK10201    4 DILAPGLRVVFCGINPGLSSAHTGFPFAHPANRFWKVIHQAGFTDRQLKPEEAQHLLDTRCGVTKLVDRPTVQANEVSKQ 83

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1009349958 124 ELKEGSKVVEEKLKLYKPKIAVFNGKCIYEVFAHITtkfKFYFGLQPERIGDTAIWVTPSSS 185
Cdd:PRK10201   84 ELRSGGRKLIEKIEDYQPQALAVLGKQAYEQGFSQR---GAQWGKQTLTIGSTQVWVLPNPS 142
UDG-like cd09593
uracil-DNA glycosylases (UDG) and related enzymes; Uracil-DNA glycosylases (UDGs) initiate ...
 52-189 3.57e-26

uracil-DNA glycosylases (UDG) and related enzymes; Uracil-DNA glycosylases (UDGs) initiate repair of uracils in DNA. Uracil may arise from misincorporation of dUMP residues by DNA polymerase or via deamination of cytosine. Uracil in DNA mispaired with guanine is one of the major pro-mutagenic events, causing G:C->A:T mutations; thus, UDG is an essential enzyme for maintaining the integrity of genetic information. UDGs have been classified into various families on the basis of their substrate specificity, conserved motifs, and structural similarities. Although these families demonstrate different substrate specificities, often the function of one enzyme can be complemented by the other. UDG family 1 is the most efficient uracil-DNA glycosylase (UDG, also known as UNG) and shows a specificity for uracil in DNA. UDG family 2 includes thymine DNA glycosylase which removes uracil and thymine from G:U and G:T mismatches, and mismatch-specific uracil DNA glycosylase (MUG) which in Escherichia coli is highly specific to G:U mismatches, but also repairs G:T mismatches at high enzyme concentration. UDG family 3 includes Human SMUG1 which can remove uracil and its oxidized pyrimidine derivatives from, single-stranded DNA and double-stranded DNA with a preference for single-stranded DNA. Pedobacter heparinus SMUG2, which is UDG family 3 SMUG1-like, displays catalytic activities towards DNA containing uracil or hypoxanthine/xanthine. UDG family 4 includes Thermotoga maritima TTUDGA, a robust UDG which like family 1, acts on double-stranded and single-stranded uracil-containing DNA. UDG family 5 (UDGb) includes Thermus thermophilus HB8 TTUDGB which acts on double-stranded uracil-containing DNA; it is a hypoxanthine DNA glycosylase acting on double-stranded hypoxanthine-containing DNA except for the C/I base pair, as well as a xanthine DNA glycosylase which acts on both double-stranded and single-stranded xanthine-containing DNA. UDG family 6 hypoxanthine-DNA glycosylase lacks any detectable UDG activity; it excises hypoxanthine. Other UDG families include one represented by Bradyrhizobium diazoefficiens Blr0248 which prefers single-stranded DNA and removes uracil, 5-hydroxymethyl-uracil or xanthine from it.


Pssm-ID: 381677  Cd Length: 125  Bit Score: 103.24  E-value: 3.57e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958  52 LVFVGINPSLMAAH-RGRYYAGPGNHFYKLLHESGLTPRfisfeedykLLQYSIGLTNIVERPTRSAADL-KRTELKEGS 129
Cdd:cd09593     1 VLIVGQNPGPHGARaGGVPPGPSGNRLWRLLAAAGGTPR---------LFRYGVGLTNTVPRGPPGAAAGsEKKELRFCG 71

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958 130 KVVEEKLKLYKPKIAVFNGKCIYEVFAHITTKFKFYFGlqperiGDTAIWVTPSSSARCA 189
Cdd:cd09593    72 RWLRKLLELLNPRVVVLLGKKAQEAYLAVLTSSKGAPG------KGTEVLVLPHPSPRNR 125
UDG pfam03167
Uracil DNA glycosylase superfamily;
49-205 3.56e-22

Uracil DNA glycosylase superfamily;


Pssm-ID: 397331  Cd Length: 154  Bit Score: 92.79  E-value: 3.56e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958  49 NLDLVFVGINPSLMAAHRGRYYAGP-GNHFYKLLHESGLTPRFISFEEdykllqysIGLTNIVERPTRSAADLKRTELKE 127
Cdd:pfam03167   7 NAKVLIVGEAPGADEDATGLPFVGRaGNLLWKLLNAAGLTRDLFSPQG--------VYITNVVKCRPGNRRKPTSHEIDA 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958 128 GSKVVEEKLKLYKPKIAVFNGKCIYEVFahitTKFKFYFGLQPERIGDTA--IWVTPSSSARCANFPRMVDKLHFYIGLK 205
Cdd:pfam03167  79 CWPYLEAEIELLRPRVIVLLGKTAAKAL----LGLKKITKLRGKLIDLKGipVLPTPHPSPLLRNKLNPFLKANAWEDLK 154
PTZ00467 PTZ00467
40S ribosomal protein S30; Provisional
 472-515 2.44e-14

40S ribosomal protein S30; Provisional


Pssm-ID: 185646  Cd Length: 66  Bit Score: 67.87  E-value: 2.44e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1009349958 472 GKVHGSLARAGKVKAQTPKVEKQEKSKKKTGRAKRRIQYNRRFV 515
Cdd:PTZ00467    2 GKIHGSLARAGKVKNQTPKVAKQEKPKQPRGRALKRLKYTRRFL 45
UDG smart00986
Uracil DNA glycosylase superfamily;
49-191 2.92e-12

Uracil DNA glycosylase superfamily;


Pssm-ID: 214956  Cd Length: 156  Bit Score: 64.72  E-value: 2.92e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1009349958   49 NLDLVFVGINPSLMAAHRGR-YYAGPGNHFYKLLHESGLTPRFISfeedykllqysigLTNIV-ERPTRSAA-DLKRTEL 125
Cdd:smart00986   7 NAKVLIVGQAPGASEEDRGGpFVGAAGLLLSVMLGVAGLPRLPPY-------------LTNIVkCRPPDAGNrRPTSWEL 73

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1009349958  126 KEGSK-VVEEKLKLYKPKIAVFNGKCIYEVFAHITTKFKFyFGLQPE----RIGDTAIWVTPSSSARCANF 191
Cdd:smart00986  74 QGCLLpWLTVELALARPHLILLLGKFAAQALLGLLRRPLV-FGLRGRvaqlKGKGHRVLPLPHPSPLNRNF 143
PRK09336 PRK09336
30S ribosomal protein S30e; Provisional
 475-519 2.39e-09

30S ribosomal protein S30e; Provisional


Pssm-ID: 181786  Cd Length: 50  Bit Score: 53.25  E-value: 2.39e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1009349958 475 HGSLARAGKVKAQTPKVEKQEKsKKKTGRAKRRIQYNRRFVNVVQ 519
Cdd:PRK09336    4 HGSLTKAGKVRSQTPKIPPKPK-KNEVPRVRNRREYERRVLKARQ 47
RPS30 COG4919
Ribosomal protein S30 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S30 ...
 475-519 3.19e-09

Ribosomal protein S30 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S30 is part of the Pathway/BioSystem: Archaeal ribosomal proteins


Pssm-ID: 443947  Cd Length: 52  Bit Score: 52.70  E-value: 3.19e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1009349958 475 HGSLARAGKVKAQTPKVEKQEKsKKKTGRAKRRIQYNRRFVNVVQ 519
Cdd:COG4919     4 HGSLTKAGKVRSQTPKIPAKPR-KNPPPRVRNRREYRKRFVKARQ 47
 
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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