Protein profile

VK055_0469

short chain dehydrogenase family protein

Genome: KpATCC43816

Gene: AIK79095.1 Structure source: AlphaFold + ColabFold UniProt A0A485U5K2
Amino acids 246
Annotations 3
Features 23
PDB binders 14
Druggability 0.21

Overview

Basic information about this protein and its source genome.

Accession
VK055_0469
Gene
AIK79095.1
Status
annotated
Amino acids
246
Structure source
AlphaFold + ColabFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
38.0
Human E-value
3.94e-10
Gut microbiome off-target
hit
Essential (DEG)
N
DEG identity (%)
37.356
Localization
Cytoplasmic
ColabFold pLDDT
93.69

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 0.21
Structure A0A485U5K2
Pocket Pocket 9
P2Rank 0.959
Structure A0A485U5K2
Pocket Pocket 1
ColabFold model
FPocket 0.043 · Pocket 3
P2Rank 0.964 · Pocket 1
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 10 / 4744 genomes with a hit
Normalized 0.002

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

3 GO

Gene Ontology (GO)

3
  • GO:0016491 Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
  • GO:0008667 Catalysis of the reaction: (2S,3S)-2,3-dihydroxy-2,3-dihydrobenzoate + NAD+ = 2,3-dihydroxybenzoate + H+ + NADH.
  • GO:0019290 The chemical reactions and pathways resulting in the formation of siderophores, low molecular weight Fe(III)-chelating substances made by aerobic or facultatively anaerobic bacteria, especially when growing under iron deficient conditions. The complexes of Fe(3+)-siderophores have very high stability constants and are taken up by specific transport systems by microorganisms; the subsequent release of iron requires enzymatic action.

Sequence Features

Domain/signature hits from InterPro and related databases.

23 records
Show feature table
Start End DB Term Name
1 236 CDD cd05374 17beta-HSD-like_SDR_c
2 232 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains
2 232 InterPro IPR036291 NAD(P)-binding domain superfamily
1 243 PANTHER PTHR43976 SHORT CHAIN DEHYDROGENASE
1 179 Pfam PF00106 short chain dehydrogenase
1 179 InterPro IPR002347 Short-chain dehydrogenase/reductase SDR
151 174 PRINTS PR01397 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature
151 174 InterPro IPR003560 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
4 21 PRINTS PR01397 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature
4 21 InterPro IPR003560 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
86 106 PRINTS PR01397 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature
86 106 InterPro IPR003560 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
66 83 PRINTS PR01397 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature
66 83 InterPro IPR003560 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
136 155 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature
136 155 InterPro IPR002347 Short-chain dehydrogenase/reductase SDR
116 124 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature
116 124 InterPro IPR002347 Short-chain dehydrogenase/reductase SDR
63 74 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature
63 74 InterPro IPR002347 Short-chain dehydrogenase/reductase SDR
1 246 Gene3D G3DSA:3.40.50.720 -
123 151 ProSitePatterns PS00061 Short-chain dehydrogenases/reductases family signature.
123 151 InterPro IPR020904 Short-chain dehydrogenase/reductase, conserved site

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_A0A485U5K2
AlphaFold full sequence Viewing
ColabFold VK055_0469
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
9 0.21

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 31.2 0.938

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.

164 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
5SD P14061 288.4 Da LogP 4.17 TPSA 34.1 ✓ Ro5 ✓ Clean C[C@]12CCC(=O)C[C@@H]1CC[C@@H]3[C@@H]2CC[C@]4([…
AND P14061 288.4 Da LogP 3.88 TPSA 37.3 ✓ Ro5 ✓ Clean C[C@]12CC[C@H]3[C@H]([C@@H]1CCC2=O)CC=C4[C@@]3(…
AOM P14061 292.5 Da LogP 3.75 TPSA 40.5 ✓ Ro5 ✓ Clean C[C@]12CC[C@@H](C[C@@H]1CC[C@@H]3[C@@H]2CC[C@]4…
ASD P14061 286.4 Da LogP 4.09 TPSA 34.1 ✓ Ro5 ✓ Clean C[C@]12CCC(=O)C=C1CC[C@@H]3[C@@H]2CC[C@]4([C@H]…
DHT P14061 290.4 Da LogP 3.96 TPSA 37.3 ✓ Ro5 ✓ Clean C[C@]12CCC(=O)C[C@@H]1CC[C@@H]3[C@@H]2CC[C@]4([…
E2B P14061 405.5 Da LogP 4.18 TPSA 83.5 ✓ Ro5 ✓ Clean C[C@]12CC[C@@H]3c4ccc(cc4CC[C@H]3[C@@H]1C[C@@H]…
EM9 P14061 560.3 Da LogP 8.21 TPSA 60.8 2 viol. ✓ Clean CCCCN(C)C(=O)CCCCCCCCCC[C@@H]1Cc2cc(ccc2[C@@H]3…
EQI P14061 268.4 Da LogP 3.74 TPSA 37.3 ✓ Ro5 ✓ Clean C[C@]12CC[C@@H]3c4ccc(cc4CC=C3[C@@H]1CCC2=O)O
EST P14061 272.4 Da LogP 3.61 TPSA 40.5 ✓ Ro5 ✓ Clean C[C@]12CC[C@@H]3c4ccc(cc4CC[C@H]3[C@@H]1CC[C@@H…
F0A P14061 435.6 Da LogP 4.19 TPSA 92.8 ✓ Ro5 ✓ Clean C[C@]12CC[C@@H]3c4cc(c(cc4CC[C@H]3[C@@H]1C[C@@H…
F0D P14061 496.5 Da LogP 5.41 TPSA 63.3 1 viol. ✓ Clean C[C@]12CC[C@@H]3c4ccc(cc4CC[C@H]3[C@@H]1C[C@@H]…
HYC P14061 677.8 Da LogP 4.54 TPSA 186.1 2 viol. ✓ Clean C[C@]12CC[C@@H]3c4ccc(cc4CC[C@H]3[C@@H]1C[C@@H]…
J3Z P14061 270.4 Da LogP 3.82 TPSA 37.3 ✓ Ro5 ✓ Clean C[C@]12CC[C@@H]3c4ccc(cc4CC[C@H]3[C@@H]1CCC2=O)O
TES P14061 288.4 Da LogP 3.88 TPSA 37.3 ✓ Ro5 ✓ Clean C[C@]12CC[C@H]3[C@H]([C@@H]1CC[C@@H]2O)CCC4=CC(…

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.