Protein profile

KP13_01879

Dihydrolipoamide acetyltransferase

Genome: KpKP13

Gene: AHE46319.1 aceF Structure source: AlphaFold + ColabFold UniProt A0A0H3GNC0
Amino acids 632
Annotations 8
Features 51
PDB binders 7
Druggability 0.84

Overview

Basic information about this protein and its source genome.

Accession
KP13_01879
Gene
AHE46319.1 aceF
Status
annotated
Amino acids
632
Structure source
AlphaFold + ColabFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
36.022
Human E-value
1.91e-26
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
89.258
DEG E-value
0.0
Localization
Cytoplasmic
ColabFold pLDDT
77.76

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 0.84
Structure A0A0H3GNC0
Pocket Pocket 5
P2Rank 0.302
Structure A0A0H3GNC0
Pocket Pocket 1
ColabFold model
FPocket 0.684 · Pocket 18
P2Rank 0.284 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 156 / 4744 genomes with a hit
Normalized 0.033

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:0045254 A multi-enzyme complex that catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA. The complex comprises multiple copies of three enzymes referred to as E1, E2 and E3: pyruvate dehydrogenase (E1, which may be a homodimer or a heterotetramer of two alpha and two beta subunits, depending on species), dihydrolipoamide S-acetyltransferase (E2), and dihydrolipoamide dehydrogenase (E3). Additional proteins may also be present.
  • GO:0016746 Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
  • GO:0004742 Catalysis of the reaction: N(6)-[(R)-dihydrolipoyl]-L-lysyl-[protein] + acetyl-CoA = N(6)-[(R)-S(8)-acetyldihydrolipoyl]-L-lysyl-[protein] + CoA.
  • GO:0006096 The chemical reactions and pathways resulting in the breakdown of a carbohydrate into pyruvate, with the concomitant production of a small amount of ATP and the reduction of NAD(P) to NAD(P)H. Glycolysis begins with the metabolism of a carbohydrate to generate products that can enter the pathway and ends with the production of pyruvate. Pyruvate may be converted to acetyl-coenzyme A, ethanol, lactate, or other small molecules.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0031405 Binding to lipoic acid, 1,2-dithiolane-3-pentanoic acid.
  • GO:0006086 The chemical reactions and pathways resulting in the formation of acetyl-CoA from pyruvate. In most organisms, this pathway links glycolysis to the TCA cycle, by a series of three reactions carried out by a multisubunit complex called the 'pyruvate dehydrogenase complex', even though pyruvate dehydrogenase activity describes only one of those reactions. The combination of the three reactions can be summarized as: pyruvate + coenzyme A + NAD+ -> acetyl-CoA + CO2 + NADH.

Sequence Features

Domain/signature hits from InterPro and related databases.

51 records
Show feature table
Start End DB Term Name
25 54 ProSitePatterns PS00189 2-oxo acid dehydrogenases acyltransferase component lipoyl binding site.
25 54 InterPro IPR003016 2-oxo acid dehydrogenase, lipoyl-binding site
109 178 CDD cd06849 lipoyl_domain
4 73 Pfam PF00364 Biotin-requiring enzyme
4 73 InterPro IPR000089 Biotin/lipoyl attachment
107 177 Pfam PF00364 Biotin-requiring enzyme
107 177 InterPro IPR000089 Biotin/lipoyl attachment
208 277 Pfam PF00364 Biotin-requiring enzyme
208 277 InterPro IPR000089 Biotin/lipoyl attachment
384 632 FunFam G3DSA:3.30.559.10:FF:000004 Acetyltransferase component of pyruvate dehydrogenase complex
206 298 SUPERFAMILY SSF51230 Single hybrid motif
206 298 InterPro IPR011053 Single hybrid motif
229 258 ProSitePatterns PS00189 2-oxo acid dehydrogenases acyltransferase component lipoyl binding site.
229 258 InterPro IPR003016 2-oxo acid dehydrogenase, lipoyl-binding site
328 363 Pfam PF02817 e3 binding domain
328 363 InterPro IPR004167 Peripheral subunit-binding domain
401 631 Pfam PF00198 2-oxoacid dehydrogenases acyltransferase (catalytic domain)
401 631 InterPro IPR001078 2-oxoacid dehydrogenase acyltransferase, catalytic domain
206 279 ProSiteProfiles PS50968 Biotinyl/lipoyl domain profile.
206 279 InterPro IPR000089 Biotin/lipoyl attachment
329 366 ProSiteProfiles PS51826 Peripheral subunit-binding (PSBD) domain profile.
329 366 InterPro IPR004167 Peripheral subunit-binding domain
2 75 ProSiteProfiles PS50968 Biotinyl/lipoyl domain profile.
2 75 InterPro IPR000089 Biotin/lipoyl attachment
384 632 Gene3D G3DSA:3.30.559.10 -
384 632 InterPro IPR023213 Chloramphenicol acetyltransferase-like domain superfamily
328 373 FunFam G3DSA:4.10.320.10:FF:000003 Acetyltransferase component of pyruvate dehydrogenase complex
205 284 FunFam G3DSA:2.40.50.100:FF:000009 Acetyltransferase component of pyruvate dehydrogenase complex
1 93 SUPERFAMILY SSF51230 Single hybrid motif
1 93 InterPro IPR011053 Single hybrid motif
1 78 Gene3D G3DSA:2.40.50.100 -
105 184 Gene3D G3DSA:2.40.50.100 -
206 284 Gene3D G3DSA:2.40.50.100 -
390 631 SUPERFAMILY SSF52777 CoA-dependent acyltransferases
3 103 PANTHER PTHR43178 DIHYDROLIPOAMIDE ACETYLTRANSFERASE COMPONENT OF PYRUVATE DEHYDROGENASE COMPLEX
3 74 CDD cd06849 lipoyl_domain
190 632 NCBIfam TIGR01348 dihydrolipoyllysine-residue acetyltransferase
190 632 InterPro IPR006256 Dihydrolipoamide acetyltransferase pyruvate dehydrogenase complex
129 158 ProSitePatterns PS00189 2-oxo acid dehydrogenases acyltransferase component lipoyl binding site.
129 158 InterPro IPR003016 2-oxo acid dehydrogenase, lipoyl-binding site
1 80 FunFam G3DSA:2.40.50.100:FF:000009 Acetyltransferase component of pyruvate dehydrogenase complex
322 367 SUPERFAMILY SSF47005 Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex
322 367 InterPro IPR036625 E3-binding domain superfamily
106 198 SUPERFAMILY SSF51230 Single hybrid motif
106 198 InterPro IPR011053 Single hybrid motif
106 179 ProSiteProfiles PS50968 Biotinyl/lipoyl domain profile.
106 179 InterPro IPR000089 Biotin/lipoyl attachment
328 373 Gene3D G3DSA:4.10.320.10 -
328 373 InterPro IPR036625 E3-binding domain superfamily
207 278 CDD cd06849 lipoyl_domain
105 184 FunFam G3DSA:2.40.50.100:FF:000009 Acetyltransferase component of pyruvate dehydrogenase complex

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_A0A0H3GNC0
AlphaFold full sequence Viewing
ColabFold KP13_01879
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
5 0.84

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 2.02 0.044
2 1.24 0.012

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.

57 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
BTI A0A0H3JRU9 228.3 Da LogP 0.91 TPSA 58.2 ✓ Ro5 ✓ Clean C1[C@H]2[C@@H]([C@@H](S1)CCCCC=O)NC(=O)N2
CAO P10802 783.5 Da LogP -1.39 TPSA 366.8 3 viol. ✓ Clean CC(C)(CO[P@](=O)(O)O[P@](=O)(O)OC[C@@H]1[C@H]([…
DTT P10802 154.3 Da LogP -0.43 TPSA 40.5 ✓ Ro5 ✓ Clean C([C@@H]([C@H](CS)O)O)S
LPM P10802 207.4 Da LogP 1.65 TPSA 43.1 ✓ Ro5 ✓ Clean C(CCC(=O)N)C[C@H](CCS)S
PYR A0A0H3JRU9 88.1 Da LogP -0.34 TPSA 54.4 ✓ Ro5 ✓ Clean CC(=O)C(=O)O
RDC P10515 364.8 Da LogP 2.69 TPSA 96.4 ✓ Ro5 ✓ Clean C[C@@H]1C[C@@H]2[C@H](O2)\C=C/C=C/C(=O)Cc3c(c(c…
RED P10515 208.3 Da LogP 2.25 TPSA 37.3 ✓ Ro5 ✓ Clean C(CCC(=O)O)C[C@H](CCS)S

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.