Protein profile

PA4010

3-methyladenine DNA glycosylase

Genome: NC_002516.2

Gene: PA4010 Structure source: AlphaFold UniProt Q9HX17
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Amino acids 239
Annotations 5
Features 13
PDB binders 0
Druggability 0.821

Overview

Basic information about this protein and its source genome.

Accession
PA4010
Assembly
Pseudomonas aeruginosa PAO1, complete genome
Gene
PA4010
Status
annotated
Amino acids
239
Structure source
AlphaFold
EC
3.2.2.-
GO
GO:0003905 Catalysis of the reaction: DNA with alkylated base + H2O = DNA with abasic site + alkylated base. This reaction is the hydrolysis of DNA by cleavage of the N-C1' glycosidic bond between the target damaged DNA base and the deoxyribose sugar to remove an alkylated base, leaving an apyrimidinic or apurinic site. GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid). GO:0006284 In base excision repair, an altered base is removed by a DNA glycosylase enzyme, followed by excision of the resulting sugar phosphate. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase. GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Gut microbiome off-target
hit
Essential (DEG)
N
Localization
Cytoplasmic

Selected Druggability evidence

Selected Druggability is the FPocket score chosen for ranking using the curated structure priority. The 3D viewer may show a different loaded structure, so its visible pockets can differ.

FPocket 0.821
Structure –
Pocket –

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 4 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

4
  • GO:0003905 Catalysis of the reaction: DNA with alkylated base + H2O = DNA with abasic site + alkylated base. This reaction is the hydrolysis of DNA by cleavage of the N-C1' glycosidic bond between the target damaged DNA base and the deoxyribose sugar to remove an alkylated base, leaving an apyrimidinic or apurinic site.
  • GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
  • GO:0006284 In base excision repair, an altered base is removed by a DNA glycosylase enzyme, followed by excision of the resulting sugar phosphate. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase.
  • GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.

Sequence Features

Domain/signature hits from InterPro and related databases.

13 records
Show feature table
Start End DB Term Name
15 220 SUPERFAMILY SSF50486 FMT C-terminal domain-like
15 220 InterPro IPR011034 Formyl transferase-like, C-terminal domain superfamily
12 216 FunFam G3DSA:3.10.300.10:FF:000003 Putative 3-methyladenine DNA glycosylase
21 206 Pfam PF02245 Methylpurine-DNA glycosylase (MPG)
21 206 InterPro IPR003180 Methylpurine-DNA glycosylase
19 213 Hamap MF_00527 Putative 3-methyladenine DNA glycosylase.
19 213 InterPro IPR003180 Methylpurine-DNA glycosylase
21 213 CDD cd00540 AAG
21 213 InterPro IPR003180 Methylpurine-DNA glycosylase
12 216 Gene3D G3DSA:3.10.300.10 -
12 216 InterPro IPR036995 Methylpurine-DNA glycosylase superfamily
10 207 PANTHER PTHR10429 DNA-3-METHYLADENINE GLYCOSYLASE
10 207 InterPro IPR003180 Methylpurine-DNA glycosylase

3D Structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; predicted models typically cover the full protein.

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Structural evidence

0 + 1

Experimental PDB entries and predicted models. Click Switch to display a different structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
AlphaFold PA4010
AlphaFold — — full sequence — Viewing
Pocket details FPocket · P2Rank — toggle visibility and zoom from here, or open full viewer

Pockets (FPOCKET)

Showing top-ranked FPocket candidates by druggability. Druggability is color-coded: high (0.7 or higher), medium (0.4 to 0.69), low (below 0.4).

FPOCKET Sticks Spheres Surfaces Druggability Labels Zoom Positions
3 0.821
1 0.552

Ligand evidence

Ligands grouped by evidence source. PDB ligands keep the source crystal visible, and loaded crystals can be opened directly in the structure viewer.

56 records

Bioactivity inferred from similar proteins in ChEMBL. Score = pchembl (−log Ki/IC₅₀; higher = more potent).

Show only:
Ligand UniProt (homolog) pchembl MW · LogP · TPSA Lipinski PAINS SMILES
QU4 P29372 6.70 422.3 Da LogP 2.45 TPSA 169.4 ✓ Ro5 ✓ Clean c1cc(c(cc1C(=C2C=CC(=O)C(=C2)C(=O)O)c3ccc(c(c3)…
CHEMBL1512355 P29372 — 320.3 Da LogP 1.16 TPSA 162.9 ✓ Ro5 ✓ Clean O.O=c1c(O)c(-c2ccc(O)cc2O)oc2cc(O)cc(O)c12
CHEMBL4743212 P29372 — 208.3 Da LogP -0.13 TPSA 56.6 ✓ Ro5 ✓ Clean OC[C@H]1CN(Cc2cccnc2)C[C@@H]1O
CHEMBL4749057 P29372 — 208.3 Da LogP -0.13 TPSA 56.6 ✓ Ro5 ✓ Clean OC[C@H]1CN(Cc2ccccn2)C[C@@H]1O
CHEMBL4779175 P29372 — 197.2 Da LogP -0.81 TPSA 72.4 ✓ Ro5 ✓ Clean OC[C@H]1CN(Cc2ncc[nH]2)C[C@@H]1O
CHEMBL4786554 P29372 — 208.3 Da LogP -0.13 TPSA 56.6 ✓ Ro5 ✓ Clean OC[C@H]1CN(Cc2ccncc2)C[C@@H]1O

PDB and ChEMBL records on this protein are shown in full. ChEMBL records from similar proteins are capped at the top 100 per protein (by pchembl) and ZINC at the top 50 (Tanimoto ≥ 0.5). ADME columns are descriptor-based screening flags, not experimental toxicity results.