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Conserved domains on  [gi|578823519|ref|XP_006719382|]
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single-strand selective monofunctional uracil DNA glycosylase isoform X1 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
UDG-F3_SMUG1-like cd19374
Uracil DNA glycosylase family 3 subfamily, includes single-strand-selective monofunctional ...
 29-258 3.38e-147

Uracil DNA glycosylase family 3 subfamily, includes single-strand-selective monofunctional uracil-DNA glycosylase 1 and similar proteins; Uracil DNA glycosylase family 3 includes Human SMUG1 that can remove uracil and its oxidized pyrimidine derivatives from both, single-stranded DNA and double-stranded DNA, with a preference for single-stranded DNA substrates. The SMUG-targeted mismatched uracil derivatives include 5-hydroxyuracil, 5-hydroxymethyluracil and 5-formyluracil. Also included in this subfamily is Geobacter metallireducens SMUG1 which has dual substrate specificities for DNA with uracil or xanthine. UDG catalyzes the removal of uracil from DNA to initiate the DNA base excision repair pathway. Uracil in DNA can arise as a result of mis-incorporation of dUMP residues by DNA polymerase or deamination of cytosine. Uracil mispaired with guanine in DNA 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: 381689  Cd Length: 232  Bit Score: 411.12  E-value: 3.38e-147
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578823519  29 ESFLEEELRLNAELSQLQFSEPVGIIYNPVEYAWEPHRNYVTRYCQGPKEVLFLGMNPGPFGMAQTGVPFGEVSMVRDWL 108
Cdd:cd19374    1 EKLLEIARRLSEELDALRFSEPVAHVYNPLEYAWEPHEAYLRRYGNGGKKVLFLGMNPGPWGMAQTGVPFGEVAAVRDWL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578823519 109 GIVGPVLTPPQEHPKRPVLGLECPQSEVSGARFWGFFRNLCGQPEVFFHHCFVHNLCPLLFLAPSGRNLTPAELPAKQRE 188
Cdd:cd19374   81 GIEGPVGKPEKEHPKRPVEGFECPRSEVSGRRLWGLFRERFGTPEAFFARFFVHNYCPLVFMEESGRNITPDKLPAAERK 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578823519 189 QLLGICDAALCRQVQLLGVRLVVGVGRLAEQRARRALAGlMPEVQVEGLLHPSPRNPQANKGWEAVAKER 258
Cdd:cd19374  161 ALFEACDEALREVVELLQPEWVVGVGKFAEKRARAALKD-ASDVKVGRILHPSPASPAANRGWAEKAEAQ 229
 
Name Accession Description Interval E-value
UDG-F3_SMUG1-like cd19374
Uracil DNA glycosylase family 3 subfamily, includes single-strand-selective monofunctional ...
 29-258 3.38e-147

Uracil DNA glycosylase family 3 subfamily, includes single-strand-selective monofunctional uracil-DNA glycosylase 1 and similar proteins; Uracil DNA glycosylase family 3 includes Human SMUG1 that can remove uracil and its oxidized pyrimidine derivatives from both, single-stranded DNA and double-stranded DNA, with a preference for single-stranded DNA substrates. The SMUG-targeted mismatched uracil derivatives include 5-hydroxyuracil, 5-hydroxymethyluracil and 5-formyluracil. Also included in this subfamily is Geobacter metallireducens SMUG1 which has dual substrate specificities for DNA with uracil or xanthine. UDG catalyzes the removal of uracil from DNA to initiate the DNA base excision repair pathway. Uracil in DNA can arise as a result of mis-incorporation of dUMP residues by DNA polymerase or deamination of cytosine. Uracil mispaired with guanine in DNA 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: 381689  Cd Length: 232  Bit Score: 411.12  E-value: 3.38e-147
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578823519  29 ESFLEEELRLNAELSQLQFSEPVGIIYNPVEYAWEPHRNYVTRYCQGPKEVLFLGMNPGPFGMAQTGVPFGEVSMVRDWL 108
Cdd:cd19374    1 EKLLEIARRLSEELDALRFSEPVAHVYNPLEYAWEPHEAYLRRYGNGGKKVLFLGMNPGPWGMAQTGVPFGEVAAVRDWL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578823519 109 GIVGPVLTPPQEHPKRPVLGLECPQSEVSGARFWGFFRNLCGQPEVFFHHCFVHNLCPLLFLAPSGRNLTPAELPAKQRE 188
Cdd:cd19374   81 GIEGPVGKPEKEHPKRPVEGFECPRSEVSGRRLWGLFRERFGTPEAFFARFFVHNYCPLVFMEESGRNITPDKLPAAERK 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578823519 189 QLLGICDAALCRQVQLLGVRLVVGVGRLAEQRARRALAGlMPEVQVEGLLHPSPRNPQANKGWEAVAKER 258
Cdd:cd19374  161 ALFEACDEALREVVELLQPEWVVGVGKFAEKRARAALKD-ASDVKVGRILHPSPASPAANRGWAEKAEAQ 229
DUF4918 pfam16265
Domain of unknown function (DUF4918); This family consists of uncharacterized proteins around ...
 77-170 1.84e-05

Domain of unknown function (DUF4918); This family consists of uncharacterized proteins around 230 residues in length and is mainly found in various Listeria species. The function of this family is unknown.


Pssm-ID: 406630  Cd Length: 224  Bit Score: 44.61  E-value: 1.84e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578823519   77 KEVLFLGMNPGPFGMAQTGVPFGEVSMVRDWLGIvgpvltpPQEHPKrpvlglecpQSEVSgARFWGFFRNLCGQPEVFF 156
Cdd:pfam16265  52 PRKFILGINPGRFGAGVTGVPFTDPKRLKEECGI-------PNDLAK---------THELS-SVFVYDVITAYGGPKAFY 114

                          90
                  ....*....|....
gi 578823519  157 HHCFVHNLCPLLFL 170
Cdd:pfam16265 115 KDFYINSLCPLGFV 128
 
Name Accession Description Interval E-value
UDG-F3_SMUG1-like cd19374
Uracil DNA glycosylase family 3 subfamily, includes single-strand-selective monofunctional ...
 29-258 3.38e-147

Uracil DNA glycosylase family 3 subfamily, includes single-strand-selective monofunctional uracil-DNA glycosylase 1 and similar proteins; Uracil DNA glycosylase family 3 includes Human SMUG1 that can remove uracil and its oxidized pyrimidine derivatives from both, single-stranded DNA and double-stranded DNA, with a preference for single-stranded DNA substrates. The SMUG-targeted mismatched uracil derivatives include 5-hydroxyuracil, 5-hydroxymethyluracil and 5-formyluracil. Also included in this subfamily is Geobacter metallireducens SMUG1 which has dual substrate specificities for DNA with uracil or xanthine. UDG catalyzes the removal of uracil from DNA to initiate the DNA base excision repair pathway. Uracil in DNA can arise as a result of mis-incorporation of dUMP residues by DNA polymerase or deamination of cytosine. Uracil mispaired with guanine in DNA 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: 381689  Cd Length: 232  Bit Score: 411.12  E-value: 3.38e-147
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578823519  29 ESFLEEELRLNAELSQLQFSEPVGIIYNPVEYAWEPHRNYVTRYCQGPKEVLFLGMNPGPFGMAQTGVPFGEVSMVRDWL 108
Cdd:cd19374    1 EKLLEIARRLSEELDALRFSEPVAHVYNPLEYAWEPHEAYLRRYGNGGKKVLFLGMNPGPWGMAQTGVPFGEVAAVRDWL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578823519 109 GIVGPVLTPPQEHPKRPVLGLECPQSEVSGARFWGFFRNLCGQPEVFFHHCFVHNLCPLLFLAPSGRNLTPAELPAKQRE 188
Cdd:cd19374   81 GIEGPVGKPEKEHPKRPVEGFECPRSEVSGRRLWGLFRERFGTPEAFFARFFVHNYCPLVFMEESGRNITPDKLPAAERK 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578823519 189 QLLGICDAALCRQVQLLGVRLVVGVGRLAEQRARRALAGlMPEVQVEGLLHPSPRNPQANKGWEAVAKER 258
Cdd:cd19374  161 ALFEACDEALREVVELLQPEWVVGVGKFAEKRARAALKD-ASDVKVGRILHPSPASPAANRGWAEKAEAQ 229
UDG-like cd09593
uracil-DNA glycosylases (UDG) and related enzymes; Uracil-DNA glycosylases (UDGs) initiate ...
 79-245 3.76e-23

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: 91.29  E-value: 3.76e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578823519  79 VLFLGMNPGPFGMAQTGVPFGevsmvrdwlgivgpvltppqehpkrpvlglecpqseVSGARFWGFFRNLCGQPEVFFHH 158
Cdd:cd09593    1 VLIVGQNPGPHGARAGGVPPG------------------------------------PSGNRLWRLLAAAGGTPRLFRYG 44

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578823519 159 CFVHNLCPLLFLAPSGRNltpaelpakqREQLLGICDAALCRQVQLLGVRLVVGVGRLAEQRARRALAGLMP----EVQV 234
Cdd:cd09593   45 VGLTNTVPRGPPGAAAGS----------EKKELRFCGRWLRKLLELLNPRVVVLLGKKAQEAYLAVLTSSKGapgkGTEV 114

                        170
                 ....*....|.
gi 578823519 235 EGLLHPSPRNP 245
Cdd:cd09593  115 LVLPHPSPRNR 125
DUF4918 pfam16265
Domain of unknown function (DUF4918); This family consists of uncharacterized proteins around ...
 77-170 1.84e-05

Domain of unknown function (DUF4918); This family consists of uncharacterized proteins around 230 residues in length and is mainly found in various Listeria species. The function of this family is unknown.


Pssm-ID: 406630  Cd Length: 224  Bit Score: 44.61  E-value: 1.84e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578823519   77 KEVLFLGMNPGPFGMAQTGVPFGEVSMVRDWLGIvgpvltpPQEHPKrpvlglecpQSEVSgARFWGFFRNLCGQPEVFF 156
Cdd:pfam16265  52 PRKFILGINPGRFGAGVTGVPFTDPKRLKEECGI-------PNDLAK---------THELS-SVFVYDVITAYGGPKAFY 114

                          90
                  ....*....|....
gi 578823519  157 HHCFVHNLCPLLFL 170
Cdd:pfam16265 115 KDFYINSLCPLGFV 128
UDG-F3-like_SMUG2 cd19375
Uracil DNA glycosylase family 3-like subfamily, includes single-strand-selective ...
 77-177 8.43e-05

Uracil DNA glycosylase family 3-like subfamily, includes single-strand-selective monofunctional uracil-DNA glycosylase 2 and similar proteins; Uracil DNA glycosylase family 3-like, which includes Pedobacter heparinus SMUG2, displays catalytic activities towards DNA containing uracil or hypoxanthine/xanthine. UDG catalyzes the removal of uracil from DNA to initiate the DNA base excision repair pathway. Uracil in DNA can arise as a result of misincorporation of dUMP residues by DNA polymerase or deamination of cytosine. Uracil mispaired with guanine in DNA 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: 381690  Cd Length: 218  Bit Score: 42.44  E-value: 8.43e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578823519  77 KEVLFLGMNPGPFGMAQTGVPFGEVSMVRDWLGIvgpvltpPQEHPKRPvlglecpqsEVSgARFWGFFRNLCGQPEVFF 156
Cdd:cd19375   50 KRVLILGINPGRFGAGVTGIPFTDPKRLEEECGI-------PNDFPKRH---------ELS-SVFIYEVIEAYGGPEAFY 112

                         90       100
                 ....*....|....*....|.
gi 578823519 157 HHCFVHNLCPLLFLApSGRNL 177
Cdd:cd19375  113 SDFYITSVCPLGFVK-NGKNY 132
 
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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