Protein profile

KP13_02901

Dihydrolipoamide dehydrogenase

Genome: KpKP13

Gene: acoD AHE46177.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GJZ7
Amino acids 465
Annotations 8
Features 36
PDB binders 5
Druggability 0.926

Overview

Basic information about this protein and its source genome.

Accession
KP13_02901
Gene
acoD AHE46177.1
Status
annotated
Amino acids
465
Structure source
AlphaFold + ColabFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
63.158
Human E-value
2.81e-16
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
54.054
DEG E-value
0.0
Localization
Cytoplasmic
ColabFold pLDDT
96.34

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 0.926
Structure A0A0H3GJZ7
Pocket Pocket 27
P2Rank 0.987
Structure A0A0H3GJZ7
Pocket Pocket 1
ColabFold model
FPocket 0.946 · Pocket 1
P2Rank 0.979 · Pocket 1
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 22 / 4744 genomes with a hit
Normalized 0.005

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 7 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

7
  • 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:0050660 Binding to FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
  • GO:0016668 Catalysis of an oxidation-reduction (redox) reaction in which a sulfur-containing group acts as a hydrogen or electron donor and reduces NAD or NADP.
  • GO:0004148 Catalysis of the reaction: N(6)-[(R)-dihydrolipoyl]-L-lysyl-[protein] + NAD+ = N(6)-[(R)-lipoyl]-L-lysyl-[protein] + NADH + H+.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0006103 The chemical reactions and pathways involving oxoglutarate, the dianion of 2-oxoglutaric acid. It is a key constituent of the TCA cycle and a key intermediate in amino-acid metabolism.
  • GO:0006979 Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.

Sequence Features

Domain/signature hits from InterPro and related databases.

36 records
Show feature table
Start End DB Term Name
39 49 ProSitePatterns PS00076 Pyridine nucleotide-disulphide oxidoreductases class-I active site.
39 49 InterPro IPR012999 Pyridine nucleotide-disulphide oxidoreductase, class I, active site
345 465 FunFam G3DSA:3.30.390.30:FF:000001 Dihydrolipoyl dehydrogenase
346 454 Pfam PF02852 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain
346 454 InterPro IPR004099 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain
2 335 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain
2 335 InterPro IPR036188 FAD/NAD(P)-binding domain superfamily
5 325 Pfam PF07992 Pyridine nucleotide-disulphide oxidoreductase
5 325 InterPro IPR023753 FAD/NAD(P)-binding domain
1 459 PIRSF PIRSF000350 Hg-II_reductase_MerA
1 459 InterPro IPR001100 Pyridine nucleotide-disulphide oxidoreductase, class I
6 28 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
342 363 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
429 449 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
139 148 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
38 53 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
175 200 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
305 312 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
263 277 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
407 422 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
342 464 SUPERFAMILY SSF55424 FAD/NAD-linked reductases, dimerisation (C-terminal) domain
342 464 InterPro IPR016156 FAD/NAD-linked reductase, dimerisation domain superfamily
5 331 Gene3D G3DSA:3.50.50.60 -
5 331 InterPro IPR036188 FAD/NAD(P)-binding domain superfamily
148 269 Gene3D G3DSA:3.50.50.60 -
148 269 InterPro IPR036188 FAD/NAD(P)-binding domain superfamily
4 457 PANTHER PTHR22912 DISULFIDE OXIDOREDUCTASE
345 465 Gene3D G3DSA:3.30.390.30 -
345 465 InterPro IPR016156 FAD/NAD-linked reductase, dimerisation domain superfamily
4 464 NCBIfam TIGR01350 dihydrolipoyl dehydrogenase
4 464 InterPro IPR006258 Dihydrolipoamide dehydrogenase
175 193 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature
262 278 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature
7 26 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature
136 154 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature
290 312 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature

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_A0A0H3GJZ7
AlphaFold full sequence Viewing
ColabFold KP13_02901
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
27 0.926

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 30.19 0.934
2 6.9 0.355
3 6.82 0.35
4 1.52 0.022
5 1.42 0.018

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.

60 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
3II P9WHH9 625.6 Da LogP 4.65 TPSA 91.4 1 viol. ✓ Clean COc1ccc(c(c1)OC)C(=O)N2CCC3(CC2)C(=O)N(CN3c4ccc…
BTB P09622-2 209.2 Da LogP -3.01 TPSA 104.4 ✓ Ro5 ✓ Clean C(CO)N(CCO)C(CO)(CO)CO
MLT B4EEF2 134.1 Da LogP -1.09 TPSA 94.8 ✓ Ro5 ✓ Clean C([C@H](C(=O)O)O)C(=O)O
NHE P09622-2 207.3 Da LogP 0.80 TPSA 66.4 ✓ Ro5 ✓ Clean C1CCC(CC1)NCCS(=O)(=O)O
RBF Q9A0E2 376.4 Da LogP -1.72 TPSA 161.6 ✓ Ro5 ✓ Clean Cc1cc2c(cc1C)N(C3=NC(=O)NC(=O)C3=N2)C[C@@H]([C@…

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.