Protein profile

PA3163

cytidylate kinase

Genome: NC_002516.2

Gene: PA3163 cmk Structure source: AlphaFold UniProt Q9HZ70
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Amino acids 229
Annotations 9
Features 14
PDB binders 3
Druggability 0.84

Overview

Basic information about this protein and its source genome.

Accession
PA3163
Assembly
Pseudomonas aeruginosa PAO1, complete genome
Gene
PA3163 cmk
Status
annotated
Amino acids
229
Structure source
AlphaFold
EC
2.7.4.25
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:0036430 Catalysis of the reaction: ATP + CMP = ADP + CDP. GO:0036431 Catalysis of the reaction: ATP + dCMP = ADP + dCDP. GO:0015949 The chemical reactions and pathways by which a nucleobase, nucleoside or nucleotide small molecule is synthesized from another nucleobase, nucleoside or nucleotide small molecule. GO:0006220 The chemical reactions and pathways involving a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine 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
No hit
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 0.84
Structure –
Pocket –

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 8 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

8
  • 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:0036430 Catalysis of the reaction: ATP + CMP = ADP + CDP.
  • GO:0036431 Catalysis of the reaction: ATP + dCMP = ADP + dCDP.
  • GO:0015949 The chemical reactions and pathways by which a nucleobase, nucleoside or nucleotide small molecule is synthesized from another nucleobase, nucleoside or nucleotide small molecule.
  • GO:0006220 The chemical reactions and pathways involving a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
  • GO:0006139 Any cellular metabolic process involving nucleobases, nucleosides, nucleotides and nucleic acids.
  • GO:0004127 OBSOLETE. Catalysis of the reaction: ATP + (d)CMP = ADP + (d)CDP.

Sequence Features

Domain/signature hits from InterPro and related databases.

14 records
Show feature table
Start End DB Term Name
1 228 FunFam G3DSA:3.40.50.300:FF:000262 Cytidylate kinase
41 218 PANTHER PTHR21299 CYTIDYLATE KINASE/PANTOATE-BETA-ALANINE LIGASE
3 226 Gene3D G3DSA:3.40.50.300 -
3 226 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
9 207 CDD cd02020 CMPK
9 207 InterPro IPR011994 Cytidylate kinase domain
6 220 NCBIfam TIGR00017 (d)CMP kinase
6 220 InterPro IPR003136 Cytidylate kinase
9 223 Pfam PF02224 Cytidylate kinase
9 223 InterPro IPR011994 Cytidylate kinase domain
7 223 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
7 223 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
6 226 Hamap MF_00238 Cytidylate kinase [cmk].
6 226 InterPro IPR003136 Cytidylate kinase

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

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 PA3163
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
2 0.84

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.

53 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
CAR
1KDR
P0A6I0 323.2 Da LogP -2.45 TPSA 177.4 ✓ Ro5 ✓ Clean C1=CN(C(=O)N=C1N)[C@H]2[C@H]([C@@H]([C@H](O2)CO…
DC
2FEO
P0A6I0 307.2 Da LogP -1.42 TPSA 157.1 ✓ Ro5 ✓ Clean C1[C@@H]([C@H](O[C@H]1N2C=CC(=NC2=O)N)COP(=O)(O…
DOC
1KDT
P0A6I0 291.2 Da LogP -0.39 TPSA 136.9 ✓ Ro5 ✓ Clean C1C[C@@H](O[C@@H]1COP(=O)(O)O)N2C=CC(=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.