Protein profile

KP13_02862

Autoinducer 2 kinase lsrK

Genome: KpKP13

Gene: lsrK AHE42569.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GTJ4
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Amino acids 532
Annotations 6
Features 17
PDB binders 13
Druggability 0.57

Overview

Basic information about this protein and its source genome.

Accession
KP13_02862
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
lsrK AHE42569.1
Status
annotated
Amino acids
532
Structure source
AlphaFold + ColabFold
EC
2.7.1.189
GO
GO:0005975 The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. GO:0016301 Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule. GO:0009372 The cell-cell signaling process in which single-celled organisms carry out coordinated responses by monitoring their own population density, and often also that of other microbes, by producing small, diffusible, signal molecules, detecting the concentration of these molecules, and triggering a signal transduction pathway when a certain threshold is reached. Quorum sensing can occur amongst microbial communities in the environment or within host organisms. GO:0071518 Catalysis of the reaction: (S)-4,5-dihydroxypentane-2,3-dione + ATP = (2S)-2-hydroxy-3,4-dioxopentyl phosphate + ADP + H+. GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
23.431
Human E-value
5.69e-06
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
77.799
DEG E-value
0.0
Localization
Cytoplasmic
ColabFold pLDDT
95.26

Selected Druggability evidence

AlphaFold / UniProt model

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 0.57
Structure A0A0H3GTJ4
Pocket Pocket 21
P2Rank 0.953
Structure A0A0H3GTJ4
Pocket Pocket 1
ColabFold model
FPocket 0.382 · Pocket 5
P2Rank 0.957 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 72 / 4744 genomes with a hit
Normalized 0.015

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 5 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

5
  • GO:0005975 The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y.
  • GO:0016301 Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
  • GO:0009372 The cell-cell signaling process in which single-celled organisms carry out coordinated responses by monitoring their own population density, and often also that of other microbes, by producing small, diffusible, signal molecules, detecting the concentration of these molecules, and triggering a signal transduction pathway when a certain threshold is reached. Quorum sensing can occur amongst microbial communities in the environment or within host organisms.
  • GO:0071518 Catalysis of the reaction: (S)-4,5-dihydroxypentane-2,3-dione + ATP = (2S)-2-hydroxy-3,4-dioxopentyl phosphate + ADP + H+.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Sequence Features

Domain/signature hits from InterPro and related databases.

17 records
Show feature table
Start End DB Term Name
292 456 Pfam PF02782 FGGY family of carbohydrate kinases, C-terminal domain
292 456 InterPro IPR018485 Carbohydrate kinase, FGGY, C-terminal
5 520 Hamap MF_02053 Autoinducer-2 kinase [lsrK].
5 520 InterPro IPR033676 Autoinducer-2 kinase
3 253 SUPERFAMILY SSF53067 Actin-like ATPase domain
3 253 InterPro IPR043129 ATPase, nucleotide binding domain
2 503 PANTHER PTHR43095 SUGAR KINASE
1 245 Gene3D G3DSA:3.30.420.40 -
252 502 SUPERFAMILY SSF53067 Actin-like ATPase domain
252 502 InterPro IPR043129 ATPase, nucleotide binding domain
246 508 Gene3D G3DSA:3.30.420.40 -
1 509 PIRSF PIRSF000538 GlpK
1 509 InterPro IPR000577 Carbohydrate kinase, FGGY
3 455 CDD cd07775 FGGY_AI-2K
3 455 InterPro IPR033676 Autoinducer-2 kinase
3 250 Pfam PF00370 FGGY family of carbohydrate kinases, N-terminal domain
3 250 InterPro IPR018484 Carbohydrate kinase, FGGY, N-terminal

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 + 2

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

Entry Method Resolution Chain Coverage Links Status
AlphaFold AF_A0A0H3GTJ4
AlphaFold — — full sequence — Viewing
ColabFold KP13_02862
ColabFold — — 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 0.275
5 0.001
27 0.001
34 0.0

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 42.86 0.953
2 10.53 0.486
3 4.05 0.132
4 2.92 0.075
5 2.49 0.056

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.

63 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
4NP
5AZI
D3KVM3 219.1 Da LogP 1.07 TPSA 109.9 ✓ Ro5 ✓ Clean c1cc(ccc1[N+](=O)[O-])OP(=O)(O)O
6XZ
5GN5
D3KVM3 382.4 Da LogP 2.54 TPSA 86.4 ✓ Ro5 Alert COc1ccc(cc1)N2CCN(CC2)CC3=CC(=O)Oc4c3ccc(c4O)O
6Y0
5GN6
D3KVM3 234.3 Da LogP 2.55 TPSA 70.7 ✓ Ro5 Alert CCCCC1=CC(=O)Oc2c1ccc(c2O)O
ACP
1GLL
P0A6F3 505.2 Da LogP -1.52 TPSA 269.9 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
ANP
6J9Q
D3KVM3 506.2 Da LogP -2.06 TPSA 281.9 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
ATF
1BWF
P0A6F3 541.2 Da LogP -0.93 TPSA 269.9 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
ATS
1GLJ
P0A6F3 549.2 Da LogP -2.76 TPSA 269.9 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
DXP
3LL3
Q5FM28 214.1 Da LogP -1.59 TPSA 124.3 ✓ Ro5 ✓ Clean CC(=O)[C@H]([C@@H](COP(=O)(O)O)O)O
G3H
1GLC
P0A6F3 170.1 Da LogP -1.34 TPSA 104.1 ✓ Ro5 ✓ Clean C([C@H](C=O)O)OP(=O)(O)O
G3P
3WXJ
D3KVM3 172.1 Da LogP -1.55 TPSA 107.2 ✓ Ro5 ✓ Clean C([C@H](COP(=O)(O)O)O)O
POP
6JAF
D3KVM3 176.0 Da LogP -2.08 TPSA 129.9 ✓ Ro5 ✓ Clean O[P@@](=O)([O-])O[P@@](=O)(O)[O-]
QDK
3QDK
Q9KBQ3 150.1 Da LogP -2.74 TPSA 98.0 ✓ Ro5 ✓ Clean C([C@@H]([C@@H](C(=O)CO)O)O)O
XUL
3LL3
Q5FM28 150.1 Da LogP -2.74 TPSA 98.0 ✓ Ro5 ✓ Clean C([C@H]([C@@H](C(=O)CO)O)O)O

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.