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Conserved domains on  [gi|392894670|ref|NP_001254909|]
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Endonuclease III homolog [Caenorhabditis elegans]

Protein Classification

endonuclease III domain-containing protein( domain architecture ID 11415064)

endonuclease III domain-containing protein such as endonuclease III, a DNA repair enzyme that has both DNA N-glycosylase and AP-lyase activities

CATH:  1.10.1670.10
Gene Ontology:  GO:0016798|GO:0006284|GO:0051539
PubMed:  10908318|1411536
SCOP:  4001141

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Nth COG0177
Endonuclease III [Replication, recombination and repair];
1-86 4.31e-34

Endonuclease III [Replication, recombination and repair];


:

Pssm-ID: 439947 [Multi-domain]  Cd Length: 198  Bit Score: 117.50  E-value: 4.31e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392894670   1 MANLVMQIAWGEcVGIAVDTHVHRISNRLGWIKTSTPEKTQKALEILLPKSEWQPINHLLVGFGQMQCQPVRPKCGTCLC 80
Cdd:COG0177  112 TANVVLNFAFGK-PAIAVDTHVHRVSNRLGLVPGKDPEEVEKDLMKLIPKEYWGDLHHLLILHGRYICKARKPKCEECPL 190


                 ....*.
gi 392894670  81 RFTCPS 86
Cdd:COG0177  191 ADLCPY 196
 
Name Accession Description Interval E-value
Nth COG0177
Endonuclease III [Replication, recombination and repair];
1-86 4.31e-34

Endonuclease III [Replication, recombination and repair];


Pssm-ID: 439947 [Multi-domain]  Cd Length: 198  Bit Score: 117.50  E-value: 4.31e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392894670   1 MANLVMQIAWGEcVGIAVDTHVHRISNRLGWIKTSTPEKTQKALEILLPKSEWQPINHLLVGFGQMQCQPVRPKCGTCLC 80
Cdd:COG0177  112 TANVVLNFAFGK-PAIAVDTHVHRVSNRLGLVPGKDPEEVEKDLMKLIPKEYWGDLHHLLILHGRYICKARKPKCEECPL 190


                 ....*.
gi 392894670  81 RFTCPS 86
Cdd:COG0177  191 ADLCPY 196
nth TIGR01083
endonuclease III; This equivalog model identifes nth members of the pfam00730 superfamily ...
 2-75 1.69e-22

endonuclease III; This equivalog model identifes nth members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273434 [Multi-domain]  Cd Length: 192  Bit Score: 87.82  E-value: 1.69e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 392894670    2 ANLVMQIAWGEcVGIAVDTHVHRISNRLGWIKTSTPEKTQKALEILLPKSEWQPINHLLVGFGQMQCQPVRPKC 75
Cdd:TIGR01083 120 ANVVLNVAFGI-PAIAVDTHVFRVSNRLGLSKGKDPIKVEEDLMKLVPREFWVKLHHWLILHGRYTCKARKPLC 192
ENDO3c smart00478
endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), ...
 1-66 2.96e-21

endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases


Pssm-ID: 214684 [Multi-domain]  Cd Length: 149  Bit Score: 83.08  E-value: 2.96e-21
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 392894670     1 MANLVMQIAWGEcVGIAVDTHVHRISNRLGWI-KTSTPEKTQKALEILLPKSEWQPINHLLVGFGQM 66
Cdd:smart00478  84 TANAVLSFALGK-PFIPVDTHVLRIAKRLGLVdKKSTPEEVEKLLEKLLPEEDWRELNLLLIDFGRT 149
ENDO3c cd00056
endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), ...
 1-64 3.49e-18

endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases


Pssm-ID: 238013 [Multi-domain]  Cd Length: 158  Bit Score: 75.74  E-value: 3.49e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 392894670   1 MANLVMQIAWGEcVGIAVDTHVHRISNRLGWI-KTSTPEKTQKALEILLPKSEWQPINHLLVGFG 64
Cdd:cd00056   95 TANVVLLFALGP-DAFPVDTHVRRVLKRLGLIpKKKTPEELEELLEELLPKPYWGEANQALMDLG 158
HhH-GPD pfam00730
HhH-GPD superfamily base excision DNA repair protein; This family contains a diverse range of ...
 1-50 8.17e-11

HhH-GPD superfamily base excision DNA repair protein; This family contains a diverse range of structurally related DNA repair proteins. The superfamily is called the HhH-GPD family after its hallmark Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate. This includes endonuclease III, EC:4.2.99.18 and MutY an A/G-specific adenine glycosylase, both have a C terminal 4Fe-4S cluster. The family also includes 8-oxoguanine DNA glycosylases. The methyl-CPG binding protein MBD4 also contains a related domain that is a thymine DNA glycosylase. The family also includes DNA-3-methyladenine glycosylase II EC:3.2.2.21 and other members of the AlkA family.


Pssm-ID: 425841 [Multi-domain]  Cd Length: 141  Bit Score: 56.14  E-value: 8.17e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 392894670    1 MANLVMQIAWGEC-VGIAVDTHVHRISNRLGWIKT-STPEKTQKALEILLPK 50
Cdd:pfam00730  90 TAEAVLIFALGRPdPLPVVDTHVRRVLKRLGLIKEkPTPKEVERELEELWPP 141
PRK10702 PRK10702
endonuclease III; Provisional
 2-82 6.44e-09

endonuclease III; Provisional


Pssm-ID: 182661 [Multi-domain]  Cd Length: 211  Bit Score: 51.94  E-value: 6.44e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392894670   2 ANLVMQIAWGECVgIAVDTHVHRISNRLGWIKTSTPEKTQKALEILLPKSEWQPINHLLVGFGQMQCQPVRPKCGTC--- 78
Cdd:PRK10702 122 ANVVLNTAFGWPT-IAVDTHIFRVCNRTQFAPGKNVEQVEEKLLKVVPAEFKVDCHHWLILHGRYTCIARKPRCGSCiie 200


                 ....*
gi 392894670  79 -LCRF 82
Cdd:PRK10702 201 dLCEY 205
 
Name Accession Description Interval E-value
Nth COG0177
Endonuclease III [Replication, recombination and repair];
1-86 4.31e-34

Endonuclease III [Replication, recombination and repair];


Pssm-ID: 439947 [Multi-domain]  Cd Length: 198  Bit Score: 117.50  E-value: 4.31e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392894670   1 MANLVMQIAWGEcVGIAVDTHVHRISNRLGWIKTSTPEKTQKALEILLPKSEWQPINHLLVGFGQMQCQPVRPKCGTCLC 80
Cdd:COG0177  112 TANVVLNFAFGK-PAIAVDTHVHRVSNRLGLVPGKDPEEVEKDLMKLIPKEYWGDLHHLLILHGRYICKARKPKCEECPL 190


                 ....*.
gi 392894670  81 RFTCPS 86
Cdd:COG0177  191 ADLCPY 196
nth TIGR01083
endonuclease III; This equivalog model identifes nth members of the pfam00730 superfamily ...
 2-75 1.69e-22

endonuclease III; This equivalog model identifes nth members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273434 [Multi-domain]  Cd Length: 192  Bit Score: 87.82  E-value: 1.69e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 392894670    2 ANLVMQIAWGEcVGIAVDTHVHRISNRLGWIKTSTPEKTQKALEILLPKSEWQPINHLLVGFGQMQCQPVRPKC 75
Cdd:TIGR01083 120 ANVVLNVAFGI-PAIAVDTHVFRVSNRLGLSKGKDPIKVEEDLMKLVPREFWVKLHHWLILHGRYTCKARKPLC 192
ENDO3c smart00478
endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), ...
 1-66 2.96e-21

endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases


Pssm-ID: 214684 [Multi-domain]  Cd Length: 149  Bit Score: 83.08  E-value: 2.96e-21
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 392894670     1 MANLVMQIAWGEcVGIAVDTHVHRISNRLGWI-KTSTPEKTQKALEILLPKSEWQPINHLLVGFGQM 66
Cdd:smart00478  84 TANAVLSFALGK-PFIPVDTHVLRIAKRLGLVdKKSTPEEVEKLLEKLLPEEDWRELNLLLIDFGRT 149
ENDO3c cd00056
endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), ...
 1-64 3.49e-18

endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases


Pssm-ID: 238013 [Multi-domain]  Cd Length: 158  Bit Score: 75.74  E-value: 3.49e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 392894670   1 MANLVMQIAWGEcVGIAVDTHVHRISNRLGWI-KTSTPEKTQKALEILLPKSEWQPINHLLVGFG 64
Cdd:cd00056   95 TANVVLLFALGP-DAFPVDTHVRRVLKRLGLIpKKKTPEELEELLEELLPKPYWGEANQALMDLG 158
HhH-GPD pfam00730
HhH-GPD superfamily base excision DNA repair protein; This family contains a diverse range of ...
 1-50 8.17e-11

HhH-GPD superfamily base excision DNA repair protein; This family contains a diverse range of structurally related DNA repair proteins. The superfamily is called the HhH-GPD family after its hallmark Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate. This includes endonuclease III, EC:4.2.99.18 and MutY an A/G-specific adenine glycosylase, both have a C terminal 4Fe-4S cluster. The family also includes 8-oxoguanine DNA glycosylases. The methyl-CPG binding protein MBD4 also contains a related domain that is a thymine DNA glycosylase. The family also includes DNA-3-methyladenine glycosylase II EC:3.2.2.21 and other members of the AlkA family.


Pssm-ID: 425841 [Multi-domain]  Cd Length: 141  Bit Score: 56.14  E-value: 8.17e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 392894670    1 MANLVMQIAWGEC-VGIAVDTHVHRISNRLGWIKT-STPEKTQKALEILLPK 50
Cdd:pfam00730  90 TAEAVLIFALGRPdPLPVVDTHVRRVLKRLGLIKEkPTPKEVERELEELWPP 141
PRK10702 PRK10702
endonuclease III; Provisional
 2-82 6.44e-09

endonuclease III; Provisional


Pssm-ID: 182661 [Multi-domain]  Cd Length: 211  Bit Score: 51.94  E-value: 6.44e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392894670   2 ANLVMQIAWGECVgIAVDTHVHRISNRLGWIKTSTPEKTQKALEILLPKSEWQPINHLLVGFGQMQCQPVRPKCGTC--- 78
Cdd:PRK10702 122 ANVVLNTAFGWPT-IAVDTHIFRVCNRTQFAPGKNVEQVEEKLLKVVPAEFKVDCHHWLILHGRYTCIARKPRCGSCiie 200


                 ....*
gi 392894670  79 -LCRF 82
Cdd:PRK10702 201 dLCEY 205
FES smart00525
iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); ...
 68-86 6.30e-03

iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3);


Pssm-ID: 197771 [Multi-domain]  Cd Length: 21  Bit Score: 32.52  E-value: 6.30e-03
                           10
                   ....*....|....*....
gi 392894670    68 CQPVRPKCGTCLCRFTCPS 86
Cdd:smart00525   2 CTARKPRCDECPLKDLCPA 20
 
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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