KpKP13 Protein target profile
3-hydroxydecanoyl-[acyl-carrier-protein] dehydratase
Accession: KP13_03868
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.
Main supporting evidence
Risks to review
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
- No hit
- Gut microbiome similarity
- 3.9% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.
Essentiality
- Essential (DEG)
- Y
- DEG identity (%)
- 98.324 Higher values support similarity to known essential genes.
- DEG E-value
- 1.74e-130 Smaller values mean stronger essential-gene similarity.
Structure confidence
- ColabFold pLDDT
- 92.6 0-100 confidence; >70 supports local structural interpretation.
Binding-site evidence
AlphaFold DB / UniProt modelP2Rank'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.
Sequence
Primary amino-acid sequence viewer.
MLAILRPELKIRLTENMVDKRESYTKEDLLASGRGELFGAKGPQLPAPNMLMMDRVIKMTETGGNYDKGYVEAELDINPDLWFFGCHFIGDPVMPGCLGLDAMWQLVGFYLGWLGGEGKGRALGVGEVKFTGQVLPTAKKVTYRIHFKRIVNRRLIMGLADGEVLVDDRLIYTANDLKVGLFQDTSAF
Functional annotations
Enzyme classification and Gene Ontology terms linked to this protein.
Subcellular localization
- Localization
- Cytoplasmic
Gene Ontology (GO)
6- GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
- 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:0008693 OBSOLETE. Catalysis of the reaction: (3R)-3-hydroxydecanoyl-[acyl-carrier protein] = 2,3-decenoyl-[acyl-carrier protein] or 3,4-decenoyl-[acyl-carrier protein] + H2O.
- GO:0019171 Catalysis of the reaction: a (3R)-hydroxyacyl-[acyl-carrier-protein] = a (2E)-enoyl-[acyl-carrier-protein] + H2O.
- GO:0034017 Catalysis of the reaction: trans-dec-2-enoyl-[acyl-carrier protein] = cis-dec-3-enoyl-[acyl-carrier protein].
- GO:0006636 The chemical reactions and pathways resulting in the formation of an unsaturated fatty acid, any fatty acid containing one or more double bonds between carbon atoms.
Sequence domains and features
Domain and signature matches imported from InterPro and related databases.
Show feature table
| Start | End | DB | Term | Name |
|---|---|---|---|---|
| 45 | 177 | PANTHER | PTHR30272 | 3-HYDROXYACYL-[ACYL-CARRIER-PROTEIN] DEHYDRATASE |
| 45 | 177 | InterPro | IPR013114 | Beta-hydroxydecanoyl thiol ester dehydrase, FabA/FabZ |
| 45 | 174 | Pfam | PF07977 | FabA-like domain |
| 45 | 174 | InterPro | IPR013114 | Beta-hydroxydecanoyl thiol ester dehydrase, FabA/FabZ |
| 17 | 188 | FunFam | G3DSA:3.10.129.10:FF:000003 | 3-hydroxydecanoyl-[acyl-carrier-protein] dehydratase |
| 18 | 188 | Hamap | MF_00405 | 3-hydroxydecanoyl-[acyl-carrier-protein] dehydratase [fabA]. |
| 18 | 188 | InterPro | IPR010083 | Beta-hydroxyacyl-(acyl-carrier-protein) dehydratase FabA |
| 19 | 185 | SUPERFAMILY | SSF54637 | Thioesterase/thiol ester dehydrase-isomerase |
| 19 | 185 | InterPro | IPR029069 | HotDog domain superfamily |
| 43 | 184 | CDD | cd01287 | FabA |
| 43 | 184 | InterPro | IPR010083 | Beta-hydroxyacyl-(acyl-carrier-protein) dehydratase FabA |
| 15 | 188 | Gene3D | G3DSA:3.10.129.10 | Hotdog Thioesterase |
| 20 | 188 | NCBIfam | TIGR01749 | 3-hydroxyacyl-[acyl-carrier-protein] dehydratase FabA |
| 20 | 188 | InterPro | IPR010083 | Beta-hydroxyacyl-(acyl-carrier-protein) dehydratase FabA |
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.
How colors and pocket overlays are used
Pocket details Inspect a specific pocket, or open the full viewer
- Method
- -
- Score
- -
- Visible layer
- -
- Residues
- -
- Pocket properties
- -
Selecting a pocket opens its details and centers the viewer without clearing other active layers. Use Focus this pocket when you want to hide the rest; use Surface for the wider residue environment.
Binding pockets · P2Rank
Druggability (P2Rank): high ≥ 0.5 · medium 0.2–0.49 · low < 0.2
Binding pockets · FPocket
Druggability (FPocket): high ≥ 0.7 · medium 0.4–0.69 · low < 0.4
Residue sets
Binding pockets · P2Rank
Druggability (P2Rank): high ≥ 0.5 · medium 0.2–0.49 · low < 0.2
Binding pockets · FPocket
Druggability (FPocket): high ≥ 0.7 · medium 0.4–0.69 · low < 0.4
All structural evidence
Structural evidence
0 + 2Experimental 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_A0A0H3GL47
|
AlphaFold DB | — | — | full sequence | — | Viewing |
|
ColabFold
KP13_03868
|
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.
Structural ligand evidence is available for this target.
Highest-confidence structural evidence: ligands co-crystallized with this exact protein. If the source PDB is loaded in Target, use Open crystal to inspect it in the structure viewer.
No PDB structure with a co-crystallized ligand found for this exact protein.
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.
| Ligand | Source crystal | UniProt (homolog) | MW · LogP · TPSA | Lipinski | PAINS | SMILES |
|---|---|---|---|---|---|---|
| 1R3 RCSB PDB | P0A6Q3 | 532.6 Da LogP 3.00 TPSA 185.6 | 2 viol. | ✓ Clean |
CCCCCCCCCS(CCCNC(=O)CCNC(=O)[C@@H](C(C)(C)COP(=…
|
|
| 3MQ RCSB PDB | O33877 | 181.2 Da LogP 1.90 TPSA 46.3 | ✓ Ro5 | ✓ Clean |
c1cc(sc1)c2cc(no2)CO
|
|
| 4JC RCSB PDB | O33877 | 185.2 Da LogP 0.90 TPSA 60.2 | ✓ Ro5 | ✓ Clean |
CCc1ccc(cc1)S(=O)(=O)N
|
|
| 54F RCSB PDB | O33877 | 186.2 Da LogP 2.46 TPSA 48.1 | ✓ Ro5 | ✓ Clean |
c1ccnc(c1)Oc2cccc(c2)N
|
|
| 5VO RCSB PDB | Q8ZG80 | 206.2 Da LogP 2.51 TPSA 54.4 | ✓ Ro5 | ✓ Clean |
c1ccc(cc1)C(=O)CCCCC(=O)O
|
|
| 7SB RCSB PDB | O33877 | 274.7 Da LogP 3.33 TPSA 66.7 | ✓ Ro5 | ✓ Clean |
c1cc(oc1)c2[nH]nc(n2)NCc3ccc(cc3)Cl
|
|
| C9H RCSB PDB | O33877 | 171.3 Da LogP 2.09 TPSA 41.6 | ✓ Ro5 | ✓ Clean |
CCCCCSc1[nH]ncn1
|
|
| DAC RCSB PDB | P0A6Q3 | 271.4 Da LogP 3.30 TPSA 46.2 | ✓ Ro5 | ✓ Clean |
CCCCCCC\C=C/C(=O)SCCNC(=O)C
|
|
| IBK RCSB PDB | O33877 | 294.4 Da LogP 2.69 TPSA 64.4 | ✓ Ro5 | ✓ Clean |
CC(C)CNC(=O)COCc1cc(on1)c2cccs2
|
|
| KBP RCSB PDB | O33877 | 289.4 Da LogP 2.49 TPSA 66.4 | ✓ Ro5 | ✓ Clean |
CCCCCCC[C@H](CC(=O)SCCNC(=O)C)O
|
|
| TQH RCSB PDB | O33877 | 260.3 Da LogP 3.05 TPSA 66.7 | ✓ Ro5 | ✓ Clean |
Cc1ccc(o1)CNc2[nH]c(nn2)c3cccs3
|
|
| TZQ RCSB PDB | O33877 | 270.6 Da LogP 3.35 TPSA 59.7 | ✓ Ro5 | ✓ Clean |
c1cc(c(cc1OCc2ccc(o2)C(=O)O)Cl)F
|
|
| U0W RCSB PDB | O33877 | 258.3 Da LogP 3.05 TPSA 59.7 | ✓ Ro5 | ✓ Clean |
c1cc2c(cc1OCc3ccc(o3)C(=O)O)CCC2
|
Experimental bioactivity from ChEMBL measured directly on this protein. Score = pchembl (−log Ki/IC₅₀; higher = more potent).
No ChEMBL bioactivity data found for this exact protein.
Bioactivity inferred from similar proteins in ChEMBL. Score = pchembl (−log Ki/IC₅₀; higher = more potent).
No ChEMBL hits found through similar proteins.
Proposed virtual-screening candidates from ZINC. Score = Tanimoto similarity to a known binder (0–1; higher = more similar).
| Ligand | Tanimoto | MW · LogP · TPSA | Lipinski | PAINS | SMILES |
|---|---|---|---|---|---|
| ZINC133424 ZINC | 1.000 | 258.3 Da LogP 3.05 TPSA 59.7 | ✓ Ro5 | ✓ Clean |
O=C(O)c1ccc(COc2ccc3c(c2)CCC3)o1
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| ZINC1712905 ZINC | 1.000 | 206.2 Da LogP 2.51 TPSA 54.4 | ✓ Ro5 | ✓ Clean |
O=C(O)CCCCC(=O)c1ccccc1
|
| ZINC2521382 ZINC | 1.000 | 270.6 Da LogP 3.35 TPSA 59.7 | ✓ Ro5 | ✓ Clean |
O=C(O)c1ccc(COc2ccc(F)c(Cl)c2)o1
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| ZINC1560276 ZINC | 0.957 | 248.3 Da LogP 3.68 TPSA 54.4 | ✓ Ro5 | ✓ Clean |
O=C(O)CCCCCCCC(=O)c1ccccc1
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| ZINC1594493 ZINC | 0.957 | 220.3 Da LogP 2.90 TPSA 54.4 | ✓ Ro5 | ✓ Clean |
O=C(O)CCCCCC(=O)c1ccccc1
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| ZINC2168376 ZINC | 0.957 | 234.3 Da LogP 3.29 TPSA 54.4 | ✓ Ro5 | ✓ Clean |
O=C(O)CCCCCCC(=O)c1ccccc1
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| ZINC2168378 ZINC | 0.957 | 262.3 Da LogP 4.07 TPSA 54.4 | ✓ Ro5 | ✓ Clean |
O=C(O)CCCCCCCCC(=O)c1ccccc1
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| ZINC1587894 ZINC | 0.864 | 266.3 Da LogP 4.31 TPSA 34.1 | ✓ Ro5 | ✓ Clean |
O=C(CCCCC(=O)c1ccccc1)c1ccccc1
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| ZINC2508114 ZINC | 0.826 | 280.4 Da LogP 4.70 TPSA 34.1 | ✓ Ro5 | ✓ Clean |
O=C(CCCCCC(=O)c1ccccc1)c1ccccc1
|
| ZINC6492881 ZINC | 0.815 | 256.4 Da LogP 1.59 TPSA 83.1 | ✓ Ro5 | ✓ Clean |
c1n[nH]c(SCCCCSc2ncn[nH]2)n1
|
| ZINC87591 ZINC | 0.783 | 252.3 Da LogP 3.92 TPSA 34.1 | ✓ Ro5 | ✓ Clean |
O=C(CCCC(=O)c1ccccc1)c1ccccc1
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| ZINC2378750 ZINC | 0.778 | 282.3 Da LogP 4.18 TPSA 54.4 | ✓ Ro5 | ✓ Clean |
O=C(O)CCCCC(=O)c1ccc(-c2ccccc2)cc1
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| ZINC6876527 ZINC | 0.765 | 280.3 Da LogP 2.44 TPSA 64.4 | ✓ Ro5 | ✓ Clean |
CC(C)NC(=O)COCc1cc(-c2cccs2)on1
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| ZINC2487633 ZINC | 0.756 | 272.3 Da LogP 3.13 TPSA 48.7 | ✓ Ro5 | ✓ Clean |
COC(=O)c1ccc(COc2ccc3c(c2)CCC3)o1
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| ZINC373453 ZINC | 0.756 | 284.7 Da LogP 3.44 TPSA 48.7 | ✓ Ro5 | ✓ Clean |
COC(=O)c1ccc(COc2ccc(F)c(Cl)c2)o1
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| ZINC133437 ZINC | 0.750 | 252.7 Da LogP 3.21 TPSA 59.7 | ✓ Ro5 | ✓ Clean |
O=C(O)c1ccc(COc2ccc(Cl)cc2)o1
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| ZINC2243653 ZINC | 0.750 | 310.4 Da LogP 4.96 TPSA 54.4 | ✓ Ro5 | ✓ Clean |
O=C(O)CCCCCCC(=O)c1ccc(-c2ccccc2)cc1
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| ZINC2345057 ZINC | 0.750 | 242.3 Da LogP 1.20 TPSA 83.1 | ✓ Ro5 | ✓ Clean |
c1n[nH]c(SCCCSc2ncn[nH]2)n1
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| ZINC2378751 ZINC | 0.750 | 296.4 Da LogP 4.57 TPSA 54.4 | ✓ Ro5 | ✓ Clean |
O=C(O)CCCCCC(=O)c1ccc(-c2ccccc2)cc1
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| ZINC12868751 ZINC | 0.740 | 264.3 Da LogP 2.72 TPSA 55.1 | ✓ Ro5 | ✓ Clean |
CC(C)CNC(=O)Cc1cc(-c2cccs2)on1
|
| ZINC20479845 ZINC | 0.731 | 334.4 Da LogP 3.30 TPSA 64.4 | ✓ Ro5 | ✓ Clean |
O=C(COCc1cc(-c2cccs2)on1)NCc1cccs1
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| ZINC6876501 ZINC | 0.727 | 342.4 Da LogP 3.80 TPSA 64.4 | ✓ Ro5 | ✓ Clean |
C[C@H](NC(=O)COCc1cc(-c2cccs2)on1)c1ccccc1
|
| ZINC6876502 ZINC | 0.727 | 342.4 Da LogP 3.80 TPSA 64.4 | ✓ Ro5 | ✓ Clean |
C[C@@H](NC(=O)COCc1cc(-c2cccs2)on1)c1ccccc1
|
| ZINC6876578 ZINC | 0.717 | 348.4 Da LogP 3.34 TPSA 64.4 | ✓ Ro5 | ✓ Clean |
O=C(COCc1cc(-c2cccs2)on1)NCCc1cccs1
|
| ZINC2378749 ZINC | 0.714 | 268.3 Da LogP 3.79 TPSA 54.4 | ✓ Ro5 | ✓ Clean |
O=C(O)CCCC(=O)c1ccc(-c2ccccc2)cc1
|
| ZINC20550797 ZINC | 0.709 | 310.4 Da LogP 2.07 TPSA 73.6 | ✓ Ro5 | ✓ Clean |
COC[C@@H](C)NC(=O)COCc1cc(-c2cccs2)on1
|
| ZINC20550799 ZINC | 0.709 | 310.4 Da LogP 2.07 TPSA 73.6 | ✓ Ro5 | ✓ Clean |
COC[C@H](C)NC(=O)COCc1cc(-c2cccs2)on1
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| ZINC34484858 ZINC | 0.704 | 204.3 Da LogP 3.02 TPSA 34.1 | ✓ Ro5 | ✓ Clean |
CC(=O)CCCCC(=O)c1ccccc1
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| ZINC6876482 ZINC | 0.704 | 328.4 Da LogP 3.24 TPSA 64.4 | ✓ Ro5 | ✓ Clean |
O=C(COCc1cc(-c2cccs2)on1)NCc1ccccc1
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| ZINC6876493 ZINC | 0.704 | 278.3 Da LogP 2.22 TPSA 64.4 | ✓ Ro5 | ✓ Clean |
C=CCNC(=O)COCc1cc(-c2cccs2)on1
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| ZINC28229734 ZINC | 0.700 | 347.4 Da LogP 4.28 TPSA 51.5 | ✓ Ro5 | ✓ Clean |
O=C(NCc1ccccc1)c1ccc(COc2ccc3c(c2)CCC3)o1
|
| ZINC360330 ZINC | 0.700 | 290.4 Da LogP 2.51 TPSA 72.2 | ✓ Ro5 | ✓ Clean |
CCc1ccc(CNc2ccc(S(N)(=O)=O)cc2)cc1
|
| ZINC6876552 ZINC | 0.696 | 342.4 Da LogP 3.54 TPSA 64.4 | ✓ Ro5 | ✓ Clean |
Cc1ccc(CNC(=O)COCc2cc(-c3cccs3)on2)cc1
|
| ZINC161099 ZINC | 0.696 | 238.3 Da LogP 3.53 TPSA 34.1 | ✓ Ro5 | ✓ Clean |
O=C(CCC(=O)c1ccccc1)c1ccccc1
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| ZINC2764004 ZINC | 0.694 | 297.4 Da LogP 3.24 TPSA 51.5 | ✓ Ro5 | ✓ Clean |
O=C(NC1CC1)c1ccc(COc2ccc3c(c2)CCC3)o1
|
| ZINC6876525 ZINC | 0.691 | 342.4 Da LogP 3.28 TPSA 64.4 | ✓ Ro5 | ✓ Clean |
O=C(COCc1cc(-c2cccs2)on1)NCCc1ccccc1
|
| ZINC15679212 ZINC | 0.690 | 370.5 Da LogP 4.06 TPSA 64.4 | ✓ Ro5 | ✓ Clean |
C[C@@H](CCc1ccccc1)NC(=O)COCc1cc(-c2cccs2)on1
|
| ZINC15679213 ZINC | 0.690 | 370.5 Da LogP 4.06 TPSA 64.4 | ✓ Ro5 | ✓ Clean |
C[C@H](CCc1ccccc1)NC(=O)COCc1cc(-c2cccs2)on1
|
| ZINC133376 ZINC | 0.689 | 266.7 Da LogP 3.52 TPSA 59.7 | ✓ Ro5 | ✓ Clean |
Cc1cc(OCc2ccc(C(=O)O)o2)ccc1Cl
|
| ZINC2791325 ZINC | 0.686 | 363.4 Da LogP 4.21 TPSA 60.7 | ✓ Ro5 | ✓ Clean |
O=C(NOCc1ccccc1)c1ccc(COc2ccc3c(c2)CCC3)o1
|
| ZINC28229297 ZINC | 0.686 | 313.4 Da LogP 3.88 TPSA 51.5 | ✓ Ro5 | ✓ Clean |
CC[C@@H](C)NC(=O)c1ccc(COc2ccc3c(c2)CCC3)o1
|
| ZINC28229299 ZINC | 0.686 | 313.4 Da LogP 3.88 TPSA 51.5 | ✓ Ro5 | ✓ Clean |
CC[C@H](C)NC(=O)c1ccc(COc2ccc3c(c2)CCC3)o1
|
| ZINC6876569 ZINC | 0.684 | 356.4 Da LogP 4.68 TPSA 64.4 | ✓ Ro5 | ✓ Clean |
CC(C)c1ccc(NC(=O)COCc2cc(-c3cccs3)on2)cc1
|
| ZINC133381 ZINC | 0.682 | 252.7 Da LogP 3.21 TPSA 59.7 | ✓ Ro5 | ✓ Clean |
O=C(O)c1ccc(COc2cccc(Cl)c2)o1
|
| ZINC2759866 ZINC | 0.680 | 339.4 Da LogP 4.41 TPSA 51.5 | ✓ Ro5 | ✓ Clean |
O=C(NC1CCCCC1)c1ccc(COc2ccc3c(c2)CCC3)o1
|
| ZINC1049561 ZINC | 0.679 | 402.5 Da LogP 4.31 TPSA 45.9 | ✓ Ro5 | ✓ Clean |
O=C(c1ccc(COc2ccc3c(c2)CCC3)o1)N1CCN(c2ccccc2)C…
|
| ZINC1695218 ZINC | 0.679 | 238.3 Da LogP 4.28 TPSA 17.1 | ✓ Ro5 | ✓ Clean |
O=C(CCCCc1ccccc1)c1ccccc1
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| ZINC2242949 ZINC | 0.679 | 224.2 Da LogP 2.65 TPSA 54.4 | ✓ Ro5 | ✓ Clean |
O=C(O)CCCCC(=O)c1ccc(F)cc1
|
| ZINC2243769 ZINC | 0.679 | 228.3 Da LogP 0.81 TPSA 83.1 | ✓ Ro5 | ✓ Clean |
c1n[nH]c(SCCSc2ncn[nH]2)n1
|
| ZINC6876534 ZINC | 0.679 | 329.4 Da LogP 2.63 TPSA 77.2 | ✓ Ro5 | ✓ Clean |
O=C(COCc1cc(-c2cccs2)on1)NCc1ccccn1
|
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.