KpKP13 Protein target profile

Acetyl-coenzyme A synthetase

Accession: KP13_00433

Gene: acs AHE46832.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GL37
Length 652
Pocket druggability (P2Rank · AlphaFold DB model) 0.951
Direct ligand evidence 0 55 total records
Functional annotation 1 EC 7 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 (%)
52.174 Lower values reduce human off-target concern.
Human E-value
1.61e-25
Gut microbiome similarity
4.1% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
95.35 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) 0.951
Structure A0A0H3GL37
Pocket Pocket 1
Druggability (FPocket) 0.32
Structure A0A0H3GL37
Pocket Pocket 37
ColabFold model
P2Rank 0.94 · Pocket 1
FPocket 0.402 · Pocket 33
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 195 / 4744 genomes with a hit
Prevalence 4.1%

Sequence

Primary amino-acid sequence viewer.

MSQIHKHPIPANIAERCLINPDQYKAQYQQSITDPDTFWGEQGKILDWMRPYTRVKNTSFAPGNISIKWYEDGTLNLAANCLDRHLAERGDQTAIIWEGDDASQSKHITYRELHADVCRFANVLLDLGIKKGDVVAIYMPMVPEAAVAMLACARIGAIHSVIFGGFSPEAVAGRIIDSSSRLVITADEGLRAGRAIPLKKNVDDALKNPNVKSIEHVVVLKRTGGNIDWQEGRDLWWSDLIANASAEHRPVEMNAEDPLFILYTSGSTGKPKGVLHTTGGYLVYAATTFKYVFDYHPGDIYWCTADVGWVTGHSYLLYGPLACGATTLMFEGVPNWPTPARMCQVVDKHKVSILYTAPTAIRALMAEGDKAIEGTDRSSLRILGSVGEPINPEAWEWYWKKIGNEKCPVMDTWWQTETGGFMITPLPGAIELKAGSATRPFFGVQPVLVDNEGLPLDGATEGNLAIADSWPGQARTLFGDHERFEQTYFSTFKNMYFSGDGARRDEDGYYWITGRVDDVLNVSGHRLGTAEIESALVSHPKIAEAAVVGIPHNIKGQAIYAYVTLNHGEEPTPELYAEVRNWVRKEIGPLATPDVLHWTDSLPKTRSGKIMRRILRKIAAGDTSNLGDTSTLADPGVVEKLLEEKQAITMPS

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 7 GO

Subcellular localization

Localization
Cytoplasmic

Enzyme Commission (EC)

1

Gene Ontology (GO)

7
  • GO:0019427 OBSOLETE. The chemical reactions and pathways resulting in the formation of acetyl-CoA from acetate, either directly or via acetylphosphate.
  • GO:0016208 Binding to AMP, adenosine monophosphate.
  • GO:0003987 Catalysis of the reaction: acetate + ATP + CoA = acetyl-CoA + AMP + diphosphate.
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0046872 Binding to a metal ion.
  • GO:0006935 The directed movement of a motile cell or organism, or the directed growth of a cell guided by a specific chemical concentration gradient. Movement may be towards a higher concentration (positive chemotaxis) or towards a lower concentration (negative chemotaxis).

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

21 records
Show feature table
Start End DB Term Name
518 649 FunFam G3DSA:3.30.300.30:FF:000004 Acetyl-coenzyme A synthetase
24 81 Pfam PF16177 Acetyl-coenzyme A synthetase N-terminus
24 81 InterPro IPR032387 Acetyl-coenzyme A synthetase, N-terminal domain
518 652 Gene3D G3DSA:3.30.300.30 -
518 652 InterPro IPR045851 AMP-binding enzyme, C-terminal domain superfamily
5 517 FunFam G3DSA:3.40.50.12780:FF:000001 Acetyl-coenzyme A synthetase
22 634 CDD cd05966 ACS
2 645 Hamap MF_01123 Acetyl-coenzyme A synthetase [acs].
2 645 InterPro IPR011904 Acetate-CoA ligase
19 646 PANTHER PTHR24095 ACETYL-COENZYME A SYNTHETASE
1 517 Gene3D G3DSA:3.40.50.12780 -
1 517 InterPro IPR042099 ANL, N-terminal domain
20 643 NCBIfam TIGR02188 acetate--CoA ligase
20 643 InterPro IPR011904 Acetate-CoA ligase
10 643 SUPERFAMILY SSF56801 Acetyl-CoA synthetase-like
261 272 ProSitePatterns PS00455 Putative AMP-binding domain signature.
261 272 InterPro IPR020845 AMP-binding, conserved site
531 609 Pfam PF13193 AMP-binding enzyme C-terminal domain
531 609 InterPro IPR025110 AMP-binding enzyme, C-terminal domain
83 522 Pfam PF00501 AMP-binding enzyme
83 522 InterPro IPR000873 AMP-dependent synthetase/ligase domain

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
0.951
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Surrounding area
Pocket 2 P2Rank #2
0.47
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Surrounding area
Pocket 3 P2Rank #3
0.253
Likely same site as FPocket 37 2.0 Å 14 shared residues 100% of smaller site
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Surrounding area
Pocket 4 P2Rank #4
0.052
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Surrounding area
Pocket 5 P2Rank #5
0.023
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Surrounding area

Binding pockets · FPocket

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

Pocket 1 FPocket #37
0.32 Unusual size
Likely same site as P2Rank 3 2.0 Å 14 shared residues 100% of smaller site
Show in viewer
Surrounding area
Residue sets
UniProt: Binding site:191-194
UniProt: Binding site:311-311
UniProt: Binding site:335-335
UniProt: Binding site:387-389
UniProt: Binding site:411-416
UniProt: Binding site:500-500
UniProt: Binding site:515-515
UniProt: Binding site:523-523
UniProt: Binding site:526-526
UniProt: Binding site:537-537
UniProt: Binding site:539-539
UniProt: Binding site:542-542
UniProt: Binding site:584-584
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_A0A0H3GL37
AlphaFold DB full sequence Viewing
ColabFold KP13_00433
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.

55 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 5 records from similar proteins
Structural ligands 5 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
7RM PDB via homolog 388.4 Da · LogP -2.57 · TPSA 191.8 Open detail RCSB PDB
BU3 PDB via homolog Detail RCSB PDB
PRX PDB via homolog Detail RCSB PDB
WT7 PDB via homolog Detail RCSB PDB
WTA 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
7RM RCSB PDB J9VFT1 388.4 Da LogP -2.57 TPSA 191.8 1 viol. ✓ Clean CC(=O)NS(=O)(=O)OC[C@@H]1[C@H]([C@H]([C@@H](O1)…
BU3 RCSB PDB Q8ZKF6 90.1 Da LogP -0.25 TPSA 40.5 ✓ Ro5 ✓ Clean C[C@H]([C@@H](C)O)O
PRX RCSB PDB Q8ZKF6 389.3 Da LogP -0.43 TPSA 175.1 1 viol. ✓ Clean CCCO[P@@](=O)(O)OC[C@@H]1[C@H]([C@H]([C@@H](O1)…
WT7 RCSB PDB J9VFT1 403.3 Da LogP -0.04 TPSA 175.1 1 viol. ✓ Clean CCCCOP(=O)(O)OC[C@@H]1[C@H]([C@H]([C@@H](O1)n2c…
WTA RCSB PDB J3KJC6 375.3 Da LogP -0.82 TPSA 175.1 1 viol. ✓ Clean CCOP(=O)(O)OC[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc…

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.