Protein target profile

PA2893

long-chain-acyl-CoA synthetase

Genome: NC_002516.2

Gene: atuH PA2893 3D evidence: AlphaFold DB model UniProt Q9HZV4
Length 608
Pocket druggability 0.729
Ligand records 62
EC / GO 0 / 6
Target summary

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

4 signals
How to read 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 TPW 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.

Overview

Basic information about this protein and its source genome.

Accession
PA2893
Gene
atuH PA2893
Status
annotated
Amino acids
608
3D evidence
AlphaFold DB model

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
48.921
Human E-value
3.61e-33
Gut microbiome off-target
hit
Essential (DEG)
N
Localization
Cytoplasmic

Selected pocket evidence

The selected pocket score is the FPocket value used for ranking after applying the curated structure priority. It estimates small-molecule pocket quality; it is not experimental binding evidence. The 3D viewer may show a different loaded structure, so visible pockets can differ.

FPocket 0.729
Structure
Pocket

Sequence

Primary amino-acid sequence viewer.

MTHADLITFNRFVARLPATFGRVPRMLRGLYYTAIRNREKSLSLGWALERAARLYPDNPAVLDGQRRISYALFNGWANRLARAFKAEGVGHGSVVAVMLENRVELLAILAALAKLGAIGALVNTTQRGKVLVHSLNLVKPGHFVVGEELREVFEEVRHEVLGNAGHCYWVDDGDTLGDPGSPPMGWRNLMRLAQGQTSENLEDTGRVRLKDSCFYIYTSGTTGLPKASIMSHGKWIKAYGGFGHSGLGLGRDDVLYLTLPCYHNNAVTVCWSAALAGGAAMALRRKFSASGFWKDVQHYRATCFGYIGELCRYLLNQPPCAEERGNSLTCMIGNGLRPSIWAEFKQRFEIQRITEFYASSEGNIGFTNVFNFDNTVGFSPATYAIVRYDLENDRPVRDAKGFMEKVGKGEVGLLISEISAKWPFDGYTDPAKSEAVILRDVFKKGDAWFNTGDLMRDIGFKHTQFVDRLGDTFRWKGENVSTTEVENALGAFDGVEDAVVYGVEIPGTNGRCGMAALRLADGVELDRDALAAHLDRELPAYATPVFLRLLREVETTGTFKYKKTDLKRDAYDPARVSDKLFVRLPGSAGYQPLDAELYQALQEQRYRF

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

6 GO

Gene Ontology (GO)

6
  • GO:0005886 The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0005324 Enables the transfer of a long-chain fatty acid from one side of a membrane to the other. A long-chain fatty acid has an aliphatic tail containing 13 to 22 carbons.
  • GO:0004467 Catalysis of the reaction: a long-chain fatty acid + ATP + CoA = a long-chain fatty acyl-CoA + AMP + diphosphate. A long-chain fatty acid has an aliphatic tail containing 13 to 22 carbons.
  • GO:0044539 The directed movement of a long-chain fatty acid from outside of a cell into a cell. This may occur via transport across the plasma membrane or via endocytosis. A long-chain fatty acid has an aliphatic tail containing 13 to 22 carbons.
  • GO:0001676 The chemical reactions and pathways involving a long-chain fatty acid. A long-chain fatty acid has an aliphatic tail containing 13 to 22 carbons.

Sequence Features

Domain/signature hits from InterPro and related databases.

14 records
Show feature table
Start End DB Term Name
38 607 PANTHER PTHR43107 LONG-CHAIN FATTY ACID TRANSPORT PROTEIN
40 468 Gene3D G3DSA:3.40.50.12780 -
40 468 InterPro IPR042099 ANL, N-terminal domain
42 468 FunFam G3DSA:3.40.50.12780:FF:000019 Long-chain fatty acid transporter
215 226 ProSitePatterns PS00455 Putative AMP-binding domain signature.
215 226 InterPro IPR020845 AMP-binding, conserved site
470 572 Gene3D G3DSA:3.30.300.30 -
470 572 InterPro IPR045851 AMP-binding enzyme, C-terminal domain superfamily
48 475 Pfam PF00501 AMP-binding enzyme
48 475 InterPro IPR000873 AMP-dependent synthetase/ligase domain
18 572 SUPERFAMILY SSF56801 Acetyl-CoA synthetase-like
471 570 FunFam G3DSA:3.30.300.30:FF:000002 Long-chain fatty acid transport protein 1
484 560 Pfam PF13193 AMP-binding enzyme C-terminal domain
484 560 InterPro IPR025110 AMP-binding enzyme, C-terminal 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.

3D visualization script Full viewer

Loading 3D structure...

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Structural evidence

0 + 1

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 PA2893
AlphaFold DB full sequence Viewing
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
1 0.729

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.

62 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 62 via homologs
Structural ligands 12 0 loaded crystals
Bioactive compounds 0 50 ZINC proposed compounds
Drug-like & clean 38 4 PAINS alerts
Best available ligand signal
00A PDB via homolog 485.8 Da · LogP 0.66 · TPSA 192.1 Open detail RCSB PDB
Detail RCSB PDB 00A PDB via homolog
Detail RCSB PDB 01A PDB via homolog
Detail RCSB PDB 174 PDB via homolog
Detail RCSB PDB 34Z PDB via homolog

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
00A RCSB PDB Q8GN86 485.8 Da LogP 0.66 TPSA 192.1 1 viol. ✓ Clean c1cc(ccc1C(=O)O[P@@](=O)(O)OC[C@@H]2[C@H]([C@H]…
01A RCSB PDB Q8GN86 920.1 Da LogP 0.67 TPSA 363.6 3 viol. ✓ Clean CC(C)(CO[P@@](=O)(O)O[P@@](=O)(O)OC[C@@H]1[C@H]…
174 RCSB PDB Q8GN86 156.6 Da LogP 2.04 TPSA 37.3 ✓ Ro5 ✓ Clean c1cc(ccc1C(=O)O)Cl
34Z RCSB PDB Q8GN86 191.0 Da LogP 2.69 TPSA 37.3 ✓ Ro5 ✓ Clean c1cc(c(cc1C(=O)O)Cl)Cl
3BZ RCSB PDB Q8GN86 156.6 Da LogP 2.04 TPSA 37.3 ✓ Ro5 ✓ Clean c1cc(cc(c1)Cl)C(=O)O
8PZ RCSB PDB P09095 493.5 Da LogP -1.50 TPSA 217.8 1 viol. ✓ Clean c1ccc(cc1)[C@H](CC(=O)NS(=O)(=O)OC[C@@H]2[C@H](…
8Q2 RCSB PDB P09095 547.6 Da LogP -1.49 TPSA 227.0 2 viol. ✓ Clean C#CCOc1ccc(cc1)C(CC(=O)NS(=O)(=O)OCC2C(C(C(O2)n…
ANP RCSB PDB Q5SKN9 506.2 Da LogP -2.06 TPSA 281.9 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
BTB RCSB PDB P09095 209.2 Da LogP -3.01 TPSA 104.4 ✓ Ro5 ✓ Clean C(CO)N(CCO)C(CO)(CO)CO
J2J RCSB PDB Q47NR5 483.3 Da LogP -0.59 TPSA 232.6 2 viol. Alert c1cc(c(c(c1)O)O)C(=O)OP(=O)(O)OC[C@@H]2[C@H]([C…
JSA RCSB PDB P9WQ37 530.6 Da LogP 1.12 TPSA 194.9 2 viol. ✓ Clean CCCCCCCCCCC[C@H](NS(=O)(=O)OC[C@@H]1[C@H]([C@H]…
MLI RCSB PDB P9WQ37 102.0 Da LogP -3.12 TPSA 80.3 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(=O)[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.