KpKP13 Protein target profile

Acetyl-coenzyme A carboxylase carboxyl transferase subunit beta

Accession: KP13_01024

Gene: accD AHE43448.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GT58
Length 327
Pocket druggability (P2Rank · AlphaFold DB model) 0.112
Direct ligand evidence 0 56 total records
Functional annotation 1 EC 8 GO
Target summary

Target candidate with partial support; inspect missing evidence before prioritizing.

Automated synthesis of the evidence currently loaded. Review the underlying records before prioritizing this protein.

Terms and data sources used on this page

PDB: experimentally determined structures from the Protein Data Bank. These are the strongest structural evidence, but may cover only part of the protein.

AlphaFold DB model: a precomputed predicted structure downloaded from AlphaFold Database/UniProt, not an experiment performed here.

ColabFold model: a predicted structure generated for this workspace; interpret it with coverage and confidence.

pLDDT: confidence score for predicted structures. High values support local geometry; low values mean the region should not drive pocket interpretation.

FPocket / P2Rank: software tools that predict possible ligand-binding pockets on a 3D structure. They are useful screening signals, not experimental validation.

Druggability: a pocket-based estimate of whether a small molecule could bind productively. It does not mean a drug already exists.

PDB ligand: a compound observed in an experimental structure. Direct same-protein records are stronger than homolog-transferred records.

ChEMBL: a public database of measured compound bioactivity. Direct entries are stronger than entries transferred from similar proteins.

ZINC: a purchasable-compound database. Here it marks proposed candidates from chemical similarity, not measured binders.

LigQ / LigQ_2: an internal Target pipeline step that gathers PDB, ChEMBL, and ZINC ligand evidence for each protein.

Off-target: sequence similarity to proteins we prefer not to hit, such as human proteins or beneficial gut microbiome proteins.

DEG: Database of Essential Genes. A match suggests the protein resembles genes known to be essential in other organisms.

Roary / CoreCruncher: pan-genome tools used to decide whether a gene is core across analyzed strains or accessory/strain-specific.

EC / GO: functional annotations: EC describes enzyme reactions; GO describes biological process, molecular function, or cellular component.

KEGG pathway: a curated metabolic route label used here to group reactions imported from the metabolic model.

Chokepoint: a metabolic reaction that is the only producer or consumer of a metabolite in the imported model.

Prioritization evidence

Selectivity, essentiality, structural confidence, conservation, and predicted binding-site evidence.

Off-target risk

Human off-target
Hit
Human identity (%)
29.091 Lower values reduce human off-target concern.
Human E-value
8.61e-06
Gut microbiome similarity
11.0% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
Y
DEG identity (%)
94.118 Higher values support similarity to known essential genes.
DEG E-value
0.0 Smaller values mean stronger essential-gene similarity.

Structure confidence

ColabFold pLDDT
87.26 0-100 confidence; >70 supports local structural interpretation.

Binding-site evidence

AlphaFold DB / UniProt model

P2Rank's binding-site probability is the primary druggability signal shown across the app; FPocket's druggability score is shown alongside it for comparison. Both estimate small-molecule pocket quality after applying the curated structure priority — neither is experimental binding evidence. The 3D viewer may show a different loaded structure, so visible pockets can differ.

Druggability (P2Rank) 0.112
Structure A0A0H3GT58
Pocket Pocket 1
Druggability (FPocket) 0.533
Structure A0A0H3GT58
Pocket Pocket 19
ColabFold model
P2Rank 0.077 · Pocket 1
FPocket 0.153 · Pocket 15
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 520 / 4744 genomes with a hit
Prevalence 11.0%

Sequence

Primary amino-acid sequence viewer.

MALCAPYDKTGIDQVQAERLSMSWIERIKSNITPTRKASIPEGVWTKCDSCGQVLYRAELERNLEVCPKCDHHMRMSARNRLHSLLDEGSLVELGSELEPKDVLKFRDSKKYKDRLASAQKETGEKDALVVMKGTLYAMPVVAAAFEFSFMGGSMGSVVGARFVRAVEQALEDNCPLICFSASGGARMQEALMSLMQMAKTSAALAKMQERGLPYISVLTDPTMGGVSASFAMLGDLNIAEPKALIGFAGPRVIEQTVREKLPPGFQRSEFLIEKGAIDMIVRRPEMRLKLASILAKLMNLPAPVAVSEAPHEGVVVPPAPDQEPEA

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 8 GO

Subcellular localization

Localization
Cytoplasmic

Enzyme Commission (EC)

1

Gene Ontology (GO)

8
  • GO:0003989 Catalysis of the reaction: ATP + acetyl-CoA + HCO3- = ADP + phosphate + malonyl-CoA.
  • GO:0009317 A protein complex that catalyzes the first step in long-chain fatty acid biosynthesis. For example, in E. coli the complex is heterohexameric and composed of biotin carbonyl carrier protein, biotin carboxylase and the acetate CoA-transferase complex.
  • GO:0006633 The chemical reactions and pathways resulting in the formation of a fatty acid, any of the aliphatic monocarboxylic acids that can be liberated by hydrolysis from naturally occurring fats and oils. Fatty acids are predominantly straight-chain acids of 4 to 24 carbon atoms, which may be saturated or unsaturated; branched fatty acids and hydroxy fatty acids also occur, and very long chain acids of over 30 carbons are found in waxes.
  • GO:0009329 A heterotetrameric enzyme complex made up of two alpha subunits and two beta subunits. Part of the acetyl-CoA carboxylase complex. Catalyzes the transfer of a carboxyl group to form malonyl-CoA.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0016743 Catalysis of the transfer of a carboxyl- or carbamoyl group from one compound (donor) to another (acceptor).
  • GO:0008270 Binding to a zinc ion (Zn).
  • GO:2001295 The chemical reactions and pathways resulting in the formation of malonyl-CoA, the S-malonyl derivative of coenzyme A.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

25 records
Show feature table
Start End DB Term Name
219 236 PRINTS PR01070 Acetyl-CoA carboxylase carboxyl transferase beta subunit signature
219 236 InterPro IPR000438 Acetyl-CoA carboxylase carboxyl transferase, beta subunit
248 259 PRINTS PR01070 Acetyl-CoA carboxylase carboxyl transferase beta subunit signature
248 259 InterPro IPR000438 Acetyl-CoA carboxylase carboxyl transferase, beta subunit
148 162 PRINTS PR01070 Acetyl-CoA carboxylase carboxyl transferase beta subunit signature
148 162 InterPro IPR000438 Acetyl-CoA carboxylase carboxyl transferase, beta subunit
270 279 PRINTS PR01070 Acetyl-CoA carboxylase carboxyl transferase beta subunit signature
270 279 InterPro IPR000438 Acetyl-CoA carboxylase carboxyl transferase, beta subunit
182 200 PRINTS PR01070 Acetyl-CoA carboxylase carboxyl transferase beta subunit signature
182 200 InterPro IPR000438 Acetyl-CoA carboxylase carboxyl transferase, beta subunit
44 301 SUPERFAMILY SSF52096 ClpP/crotonase
44 301 InterPro IPR029045 ClpP/crotonase-like domain superfamily
28 300 PANTHER PTHR42995 ACETYL-COENZYME A CARBOXYLASE CARBOXYL TRANSFERASE SUBUNIT BETA, CHLOROPLASTIC
44 313 ProSiteProfiles PS50980 Acetyl-coenzyme A (CoA) carboxyltransferase N-terminal domain profile.
44 313 InterPro IPR011762 Acetyl-coenzyme A carboxyltransferase, N-terminal
44 303 FunFam G3DSA:3.90.226.10:FF:000013 Acetyl-coenzyme A carboxylase carboxyl transferase subunit beta
45 70 Pfam PF17848 Acetyl-coA carboxylase zinc finger domain
45 70 InterPro IPR041010 Acetyl-coA carboxylase zinc finger domain
112 259 Pfam PF01039 Carboxyl transferase domain
112 259 InterPro IPR034733 Acetyl-CoA carboxylase
22 302 NCBIfam TIGR00515 acetyl-CoA carboxylase, carboxyltransferase subunit beta
22 302 InterPro IPR000438 Acetyl-CoA carboxylase carboxyl transferase, beta subunit
22 300 Hamap MF_01395 Acetyl-coenzyme A carboxylase carboxyl transferase subunit beta, chloroplastic [accD].
22 300 InterPro IPR000438 Acetyl-CoA carboxylase carboxyl transferase, beta subunit
44 302 Gene3D G3DSA:3.90.226.10 -

3D structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; AlphaFold DB and ColabFold models typically cover the full protein but remain computational predictions.

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Pocket score High Medium Low
How colors and pocket overlays are used
Uniform protein color marks the displayed model as a single molecular object.
Experimental PDB structures may be colored by chain to distinguish subunits or copies present in the file.
Pocket colors and alpha spheres are evidence overlays for predicted binding cavities; they are not alternative protein chains.
'Alpha spheres' is FPocket's own cavity-shape geometry, imported when available and aligned with the loaded structure.
'Pocket atoms'/'Predicted site atoms' show the pocket's residue atoms instead: P2Rank reports residues rather than alpha spheres, and FPocket falls back to this when alpha-sphere geometry is unavailable or doesn't align.
'No pocket geometry' means neither alpha spheres nor residue-position data could be found for that pocket; the layer just highlights the same residues as 'Nearby residues'.
Pocket details Inspect a specific pocket, or open the full viewer

Binding pockets · P2Rank

Druggability (P2Rank): high ≥ 0.5 · medium 0.2–0.49 · low < 0.2

Pocket 1 P2Rank #1
0.112
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Surrounding area
Pocket 2 P2Rank #2
0.037
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Surrounding area
Pocket 3 P2Rank #3
0.005
Show in viewer
Surrounding area

Binding pockets · FPocket

Druggability (FPocket): high ≥ 0.7 · medium 0.4–0.69 · low < 0.4

Pocket 1 FPocket #19
0.533
Show in viewer
Surrounding area
Pocket 2 FPocket #2
0.319
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Surrounding area
Residue sets
UniProt: Binding site:27-27
UniProt: Binding site:30-30
UniProt: Binding site:46-46
UniProt: Binding site:49-49
All structural evidence 0 experimental · 2 predicted

Structural evidence

0 + 2

Experimental PDB entries plus predicted AlphaFold DB or ColabFold models. Click Switch to display a different loaded structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
AlphaFold DB AF_A0A0H3GT58
AlphaFold DB full sequence Viewing
ColabFold KP13_01024
ColabFold full sequence Loaded

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.

56 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 6 records from similar proteins
Structural ligands 6 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
1VU PDB via homolog 823.6 Da · LogP -0.93 · TPSA 363.6 Open detail RCSB PDB
BTI PDB via homolog Detail RCSB PDB
DXX PDB via homolog Detail RCSB PDB
HXC PDB via homolog Detail RCSB PDB
MCA PDB via homolog Detail RCSB PDB

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
1VU RCSB PDB Q9X4K7 823.6 Da LogP -0.93 TPSA 363.6 3 viol. ✓ Clean CCC(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)COP(=O)(O…
BTI RCSB PDB Q168G2 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
DXX RCSB PDB Q8GBW6 118.1 Da LogP -0.21 TPSA 74.6 ✓ Ro5 ✓ Clean CC(C(=O)O)C(=O)O
HXC RCSB PDB A0ACI9 865.7 Da LogP 0.25 TPSA 363.6 3 viol. ✓ Clean CCCCCC(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)CO[P@@…
MCA RCSB PDB Q8GBW6 867.6 Da LogP -1.61 TPSA 400.9 3 viol. ✓ Clean C[C@H](C(=O)O)C(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)…
YT5 RCSB PDB Q2FXM6 453.5 Da LogP 1.98 TPSA 121.4 ✓ Ro5 ✓ Clean C/C=C/C=C/C(=O)N[C@@H](CC(=O)N[C@@H](C(C)C)C(=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.

Cross-references

External database identifiers for this protein, its structures, ligands, and metabolic reactions.