1OE6,1OE4,5H9I


Conserved Protein Domain Family
UDG-F3_SMUG1-like

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cd19374: UDG-F3_SMUG1-like 
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.
Statistics
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PSSM-Id: 381689
Aligned: 110 rows
Threshold Bit Score: 307.5
Created: 15-May-2018
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 10 residues -Click on image for an interactive view with Cn3D
Feature 1:ligand binding site [chemical binding site]
Evidence:
  • Comment: glycosidic bond cleavage follows a "pinch-push-pull" mechanism
  • Structure:5H9I: Geobacter metallireducens SMUG1 binds xanthine, contacts at 4A
  • Structure:1OE6; Xenopus laevis SMUG binds 5-hydroxymethyluracil, contacts at 4A

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                #####         ##     
1OE6_A      6 DSFLKVELELNLKLSNLVFqdp-----vqyVYNPLVYAWAPHENYVQTYCKSKKEVLFLGMNPGPFGMAQTGVPFGEVNH 80  African clawed frog
5H9I_A      5 TGLAAISDALAADLAGLSFssp-----vahVYNPLLYAREPHVAYLSRFGSPPKEVLFVGMNPGPWGMAQTGVPFGEVAV 79  Geobacter metallir...
EME26727    9 ERLLEWESTLVKDLRSLRFppp-----vsyQYSPLEYAWPLHQEYVRRYFLPTARILFVGMNPGPFGMVQSGIPFGDVTT 83  Galdieria sulphuraria
PNR45780  134 EALLKVMDDMASALDPLSFnss-----vafVYNPLHYARKPHEEYVRKYGGKEVECLLVGMNPGPFGMAQTGVPFGDSVL 208 Physcomitrella patens
GAQ80190  112 KVLLEVAQDLVKQLQPLKFkap-----vthVYNPLEYAMKSYMQYVTRYGGRSGIVLLVGLNPGPWGMAQTGVPFGDTSM 186 Klebsormidium nitens
OUV69210    5 ERLIEAAKRLSDFCDKAIPvlekk-tivahATNPLDYAWPHHEQYLSKWGSYGSKTLLLGMNPGPWGMAQTGIPFGSTEV 83  Euryarchaeota arch...
CDF36711   99 ERVLAAERRMSHRLSHDLWyedp----iacTYNPLVYASEAHEWYTKKFANSRKEILLVGLNPEPLGMGQTGIPFGDISV 174 carragheen
OUW56810    4 DMLIEAAIRLRDDCDAYADrived-glvdyVYNPLRYAWDIHEVYLRMAACGAAGTVLLGMNPGPHGMGQMGIPFAATSM 82  Euryarchaeota arch...
OUX25758    5 HALLEAAERLRDLTEQLTPklldecdnidwIYNPLIYAWAPHSEYIRRHGTQGAHTILVGMNPGHGMGNTGVPFGCPKMV 84  Euryarchaeota arch...
OUV00211   16 INANEIIPRLIKNSSKIEF-----------AYNPLEYAWSPHSEYIRRHGGMGAKILLVGMNPGHGMGNTGIPFGCPKMV 84  Euryarchaeota arch...
Feature 1                                         #                             #             
1OE6_A     81 VRDWL--QIEGPVSKPEv---EHPKRRIRGFECPQSEVSGARFWSLFKSLCGQPEt--FFKHCFVHNHCPLIFMN-HSGK 152 African clawed frog
5H9I_A     80 VTEWL--GINGTVTRPAg---EHPKKRVDGFACRRSEVSGRRLWGFIRERFGTPEr--FFARFFVANYCPLLFLT-AEGG 151 Geobacter metallir...
EME26727   84 VKDWF--HIRGELRKEAlpkqVHPKRPILGLLCPRKEVSGQRFWGWARQGWTTSEn--FFSWAFVYNYCPLSFMS-SSGK 158 Galdieria sulphuraria
PNR45780  209 VREFL--HISSEVDPPEi---MHPKRPIIGLNCPRREVSGQRLWGWAQARFGTASa--FLDQFWIHNYCPLLFME-SSGK 280 Physcomitrella patens
GAQ80190  187 VKDFL--GIMAPVEQPPk---VHPKRLVYGFSCPYKEVSGQRIWGWARDRYKDPEa--FFNKFYVMNYCPLAFMEgPNGK 259 Klebsormidium nitens
OUV69210   84 ARTSLe-IKPHELVTPSn---AHPKRPIIGLGMERQEISGQRLWGLLFEHYGSAEs--VFSNVFVLNHCPLLLLG-ETGK 156 Euryarchaeota arch...
CDF36711  175 VRDWMglPETVSIKKPEn---EHPKRPVTGLEEPLTDTSGHRLWNEWARATHGENpeaFFERFFVYTYCPLMFLR-KSGK 250 carragheen
OUW56810   83 VRDVLg-ISSIPVDQPRr---VHPRRPVEGLEWKREEVSGTRLWGLLAQKYGDSSr--ILSKVFLVNHCPLMLLQgERGT 156 Euryarchaeota arch...
OUX25758   85 REVLG--IVDLPVDQPPl---IHPKRPIYGLEHPKPEVSGTRIWSALSEAFGTGNa--PGKHVYIVNHCPLWMFN-EKGT 156 Euryarchaeota arch...
OUV00211   85 RETLK--ITGLEVRSPMn---THPKRPVIGLEHPKPEVSGTRIWGLLSEIYGPENa--AGAEVFIVNHCPLWMFD-EKGR 156 Euryarchaeota arch...
Feature 1                                                                             #       
1OE6_A    153 NLTPTDLPKaqrdtLLEICDEALCQAVRVLGVKLVIGVGRFSEQRARKALmae---------gidVTVKGIMHPSPRNPq 223 African clawed frog
5H9I_A    152 NITPDKLRRgeqepLFAACDLALRRTVVLLRPRVVIGVGAFAEARCHEALeg-----------fdVEVGRIIHPSPASPa 220 Geobacter metallir...
EME26727  159 NITPDQLRGksqseLLDRCNICLLQLVDWMRPVFVFGLGKFSYQVCCDVIgh------------iCAVGMLPHPSPANPk 226 Galdieria sulphuraria
PNR45780  281 NRTPDKLSKaerasIADVCNVALRAVIDMTKPRLIVGIGKYAGERIKQCApp------------gIQVGDILHPSPANPk 348 Physcomitrella patens
GAQ80190  260 LRTPDKLPAaerdaVVRICDEALTKTIEVLKPKLVIGIGQYTSERVRRCAg-------------dIKTGTVMHPSPANPa 326 Klebsormidium nitens
OUV69210  157 NLTPDNLPAnimkpILEACDNHLMKIIEILQIERIIGVGKYAEKRARLALnadksgpgttksgreIEITSCWHPSPASPl 236 Euryarchaeota arch...
CDF36711  251 LISPNMIHPyerlkVSEICDEALRAVVAALRPRMVVGIGGWPMERSRFALkdfv--------kkgMVIGSLMHPNPSSSl 322 carragheen
OUW56810  157 NVTPDKIVGdtmrdLLLRCDEHLREVVEILGVKRVIGVGAFATKRARAALld-----------edMVIDSCWHPSPASPl 225 Euryarchaeota arch...
OUX25758  157 NITPDKLRGptadrLRNVCDEHLREVANILNSNVIIGVGRYAQRRVETIFqg-----------seTEVRNVPHPSPANPf 225 Euryarchaeota arch...
OUV00211  157 NITPDKLTGgvstqLAEICDKHLRNVVEILQIKRVIGVGRYAQKRINEIFitg----------dgPELDGIPHPSPANPf 226 Euryarchaeota arch...
Feature 1                        
1OE6_A    224 ----ANKGWEGIVRGQLLE 238 African clawed frog
5H9I_A    221 ----ANRDWAGTALRQLAE 235 Geobacter metallireducens GS-15
EME26727  227 ----SSRYWSQWSTVANDI 241 Galdieria sulphuraria
PNR45780  349 ----ANKDWDKQIEAQLRA 363 Physcomitrella patens
GAQ80190  327 ----TNAGWAGIAEKQLQD 341 Klebsormidium nitens
OUV69210  237 snrnGGADWRNNVKNCLNN 255 Euryarchaeota archaeon TMED132
CDF36711  323 ----ANPGWAEKTKKRVQE 337 carragheen
OUW56810  226 anrnGGADWRDNVGAVLPD 244 Euryarchaeota archaeon TMED192
OUX25758  226 ----ANRNGGADWRVAFRT 240 Euryarchaeota archaeon TMED255
OUV00211  227 anrnGGEDWREAFKHALDR 245 Euryarchaeota archaeon TMED85

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