DB code: D00511
| CATH domain | 1.10.1670.10 : Endonuclease Iii, domain 2 | |
|---|---|---|
| 1.10.340.30 : Endonuclease III; domain 1 | ||
| E.C. | 3.2.2.- 4.2.99.18 | |
| CSA | ||
| M-CSA | ||
| MACiE | ||
| CATH domain | Related DB codes (homologues) |
|---|---|
| 1.10.1670.10 : Endonuclease Iii, domain 2 | T00070 D00266 |
| 1.10.340.30 : Endonuclease III; domain 1 | S00749 T00070 D00266 |
| Uniprot Enzyme Name | UniprotKB | Protein name | Synonyms | RefSeq | Pfam |
|---|---|---|---|---|
| Q8U2D5 |
N-glycosylase/DNA lyase
|
8-oxoguanine DNA glycosylase
EC 3.2.2.- AGOG DNA-(apurinic or apyrimidinic site) lyase AP lyase EC 4.2.99.18 |
NP_578633.2
(Protein)
NC_003413.1 (DNA/RNA sequence) |
PF09171
(DUF1886)
[Graphical View] |
| Q8ZVK6 |
N-glycosylase/DNA lyase
|
8-oxoguanine DNA glycosylase
EC 3.2.2.- AGOG DNA-(apurinic or apyrimidinic site) lyase AP lyase EC 4.2.99.18 Pa-AGOG |
NP_559868.1
(Protein)
NC_003364.1 (DNA/RNA sequence) |
PF09171
(DUF1886)
[Graphical View] |
| KEGG enzyme name |
|---|
|
DNA-(apurinic or apyrimidinic site) lyase
(EC 4.2.99.18 ) AP lyase (EC 4.2.99.18 ) AP endonuclease class I (EC 4.2.99.18 ) endodeoxyribonuclease (apurinic or apyrimidinic) (EC 4.2.99.18 ) deoxyribonuclease (apurinic or apyrimidinic) (EC 4.2.99.18 ) E. coli endonuclease III (EC 4.2.99.18 ) phage-T4 UV endonuclease (EC 4.2.99.18 ) Micrococcus luteus UV endonuclease (EC 4.2.99.18 ) AP site-DNA 5'-phosphomonoester-lyase (EC 4.2.99.18 ) X-ray endonuclease III (EC 4.2.99.18 ) |
| UniprotKB: Accession Number | Entry name | Activity | Subunit | Subcellular location | Cofactor |
|---|---|---|---|---|---|
| Q8U2D5 | AGOG_PYRFU | The C-O-P bond 3'' to the apurinic or apyrimidinic site in DNA is broken by a beta-elimination reaction, leaving a 3''-terminal unsaturated sugar and a product with a terminal 5''-phosphate. | |||
| Q8ZVK6 | AGOG_PYRAE | The C-O-P bond 3'' to the apurinic or apyrimidinic site in DNA is broken by a beta-elimination reaction, leaving a 3''-terminal unsaturated sugar and a product with a terminal 5''-phosphate. |
| KEGG Pathways | Map code | Pathways | E.C. |
|---|
| Compound table | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Substrates | Products | Intermediates | ||||||||
| KEGG-id | C02270 | C03484 | C00578 | L00013 | ||||||
| E.C. |
4.2.99.18
|
4.2.99.18
|
4.2.99.18
|
4.2.99.18
|
||||||
| Compound | Base-removed DNA | Apyrimidinic site in DNA | DNA 5'-phosphate | DNA 3'-trans-alpha,beta unsaturated aldehyde | ||||||
| Type | carbohydrate,nucleic acids,phosphate group/phosphate ion | nucleic acids | nucleic acids,phosphate group/phosphate ion | nucleic acids,carbohydrate | ||||||
| ChEBI | ||||||||||
| PubChem | ||||||||||
| 1xg7A01 |
|
|
|
|
|
Unbound | Unbound | Unbound | Unbound | |
| 1xg7B01 |
|
|
|
|
|
Unbound | Unbound | Unbound | Unbound | |
| 1xqoA01 |
|
|
|
|
|
Unbound | Unbound | Unbound | Unbound | |
| 1xqpA01 |
|
|
|
|
|
Analogue:8HG_255 | Unbound | Unbound | Unbound | |
| 1xg7A02 |
|
|
|
|
|
Unbound | Unbound | Unbound | Unbound | |
| 1xg7B02 |
|
|
|
|
|
Unbound | Unbound | Unbound | Unbound | |
| 1xqoA02 |
|
|
|
|
|
Unbound | Unbound | Unbound | Unbound | |
| 1xqpA02 |
|
|
|
|
|
Unbound | Unbound | Unbound | Unbound | |
| Reference for Active-site residues | ||
|---|---|---|
| resource | references | E.C. |
| literature [2], [3] | ||
| Active-site residues | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| PDB | Catalytic residues | Cofactor-binding residues | Modified residues | Main-chain involved in catalysis | Comment | |||||
| 1xg7A01 |
|
|
|
|
|
ASP 176 | ||||
| 1xg7B01 |
|
|
|
|
|
ASP 176 | ||||
| 1xqoA01 |
|
|
|
|
|
ASP 172 | ||||
| 1xqpA01 |
|
|
|
|
|
ASP 172 | ||||
| 1xg7A02 |
|
|
|
|
|
LYS 144 | ||||
| 1xg7B02 |
|
|
|
|
|
LYS 144 | ||||
| 1xqoA02 |
|
|
|
|
|
LYS 140 | ||||
| 1xqpA02 |
|
|
|
|
|
LYS 140 | ||||
| References for Catalytic Mechanism | ||
|---|---|---|
| References | Sections | No. of steps in catalysis |
|
[2]
|
Fig.1, p.1646-1647 | |
|
[3]
|
p.96 | |
| References | |
|---|---|
| [1] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 15604455 |
| Journal | Nucleic Acids Res |
| Year | 2004 |
| Volume | 32 |
| Pages | 6531-9 |
| Authors | Sartori AA, Lingaraju GM, Hunziker P, Winkler FK, Jiricny J |
| Title |
Pa-AGOG, |
| Related PDB | |
| Related UniProtKB | Q8ZVK6 |
| [2] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 15610848 |
| Journal | Chem Biol |
| Year | 2004 |
| Volume | 11 |
| Pages | 1643-9 |
| Authors | Chung SJ, Verdine GL |
| Title | Structures of end products resulting from lesion processing by a DNA glycosylase/lyase. |
| Related PDB | |
| Related UniProtKB | |
| [3] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 15642264 |
| Journal | Structure |
| Year | 2005 |
| Volume | 13 |
| Pages | 87-98 |
| Authors | Lingaraju GM, Sartori AA, Kostrewa D, Prota AE, Jiricny J, Winkler FK |
| Title | A DNA glycosylase from Pyrobaculum aerophilum with an 8-oxoguanine binding mode and a noncanonical helix-hairpin-helix structure. |
| Related PDB | 1xqo 1xqp |
| Related UniProtKB | Q8ZVK6 |
| Comments |
|---|
|
E.C. This enzyme is homologous to hOgg1 (PDB; 1m3h, According to the literature [2] and [3], (A) Transfer of DNA deoxyribose from DNA base nitrogen atom to sidechain of Lysine residue: (B) Intramolecular elimination (Sugar opening) leading to Schiff-base formation on Lysine residue: (C) Isomerization (Shift of double-bond): (D) Elimination of 5'-phosphate of DNA leading to formation of alpha,beta-unsaturated Schiff base and DNA-5'-phosphate: (E) Deformation of Schiff-base from Lysine residue: However, |
| Created | Updated |
|---|---|
| 2004-07-21 | 2009-02-26 |