Protein profile

PA5336

guanylate kinase

Genome: NC_002516.2

Gene: PA5336 gmk Structure source: Experimental + AlphaFold UniProt Q9HTM2
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Amino acids 203
Annotations 5
Features 21
PDB binders 4
Druggability 0.447

Overview

Basic information about this protein and its source genome.

Accession
PA5336
Assembly
Pseudomonas aeruginosa PAO1, complete genome
Gene
PA5336 gmk
Status
annotated
Amino acids
203
Structure source
Experimental + AlphaFold
EC
2.7.4.8
GO
GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes. GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator. GO:0004385 Catalysis of the reaction: ATP + GMP = ADP + GDP. GO:0006163 The chemical reactions and pathways involving a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
54.0
Human E-value
7.75e-06
Gut microbiome off-target
hit
Essential (DEG)
Y
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 0.447
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:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0004385 Catalysis of the reaction: ATP + GMP = ADP + GDP.
  • GO:0006163 The chemical reactions and pathways involving a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.

Sequence Features

Domain/signature hits from InterPro and related databases.

21 records
Show feature table
Start End DB Term Name
34 93 Gene3D G3DSA:3.30.63.10 Guanylate Kinase phosphate binding domain
5 191 PANTHER PTHR23117 GUANYLATE KINASE-RELATED
34 93 FunFam G3DSA:3.30.63.10:FF:000002 Guanylate kinase 1
81 180 FunFam G3DSA:3.40.50.300:FF:000084 Guanylate kinase
4 182 Pfam PF00625 Guanylate kinase
4 182 InterPro IPR008145 Guanylate kinase/L-type calcium channel beta subunit
2 184 SMART SM00072 gk_7
2 184 InterPro IPR008145 Guanylate kinase/L-type calcium channel beta subunit
3 186 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
3 186 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
3 181 NCBIfam TIGR03263 guanylate kinase
3 181 InterPro IPR017665 Guanylate kinase
37 54 ProSitePatterns PS00856 Guanylate kinase-like signature.
37 54 InterPro IPR020590 Guanylate kinase, conserved site
5 180 Gene3D G3DSA:3.40.50.300 -
5 180 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
3 181 ProSiteProfiles PS50052 Guanylate kinase-like domain profile.
3 181 InterPro IPR008144 Guanylate kinase-like domain
1 184 Hamap MF_00328 Guanylate kinase [gmk].
1 184 InterPro IPR017665 Guanylate kinase
5 177 CDD cd00071 GMPK

3D Structure

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

3D visualization script Full viewer

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Structural evidence

2 + 1

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

Entry Method Resolution Chain Coverage Links Status
PDB 7U5F
X-ray 2.00 Å A,B,C,D
100.0% 1-203
PDBe RCSB PDBj File
Viewing
PDB 8EGL
X-ray 2.35 Å A,B,C,D,E,F,G,H,I,J,K,L
100.0% 1-203
PDBe RCSB PDBj File
Loaded
AlphaFold PA5336
AlphaFold — — full sequence — Loaded
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
2 0.447
1 0.254

Pockets (P2RANK)

Showing top-ranked P2Rank candidates by probability. Probability is color-coded per P2Rank calibration: high (≥ 0.5), medium (0.2 – 0.49), low (< 0.2).

P2RANK Sticks Spheres Surfaces Score Probability Labels Zoom Positions
1 6.99 0.361
2 2.74 0.083
3 0.86 0.003

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.

55 records

Structural evidence inferred from similar proteins. The source crystal indicates where the ligand was observed; the UniProt column identifies the homologous protein carrying that ligand.

Show only:
Ligand Source crystal UniProt (homolog) MW · LogP · TPSA Lipinski PAINS SMILES
0O2
4QRH
A0A0J9X1Z9 683.1 Da LogP -2.10 TPSA 392.2 3 viol. ✓ Clean c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O…
5GP
6WCT
B2FT06 363.2 Da LogP -2.57 TPSA 206.0 1 viol. ✓ Clean c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O…
G5P
2F3R
P60546 932.4 Da LogP -3.04 TPSA 500.5 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
LGP
2F3T
P60546 335.2 Da LogP -1.85 TPSA 185.8 ✓ Ro5 ✓ Clean c1nc2c(n1CO[C@@H](CO)COP(=O)(O)O)N=C(NC2=O)N

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.