Protein profile

PA2302

protein AmbE

Genome: NC_002516.2

Gene: ambE PA2302 Structure source: Experimental + AlphaFold UniProt Q9I1H3
Amino acids 2124
Annotations 7
Features 65
PDB binders 7
Druggability 0.871

Overview

Basic information about this protein and its source genome.

Accession
PA2302
Gene
ambE PA2302
Status
annotated
Amino acids
2124
Structure source
Experimental + AlphaFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
46.429
Human E-value
1.76e-07
Gut microbiome off-target
hit
Essential (DEG)
N
Localization
Cytoplasmic

Selected Druggability evidence

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 0.871
Structure
Pocket

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 6 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

6
  • GO:0016405 Catalysis of the reaction: substrate + ATP + CoASH = AMP + diphosphate + substrate-CoA.
  • GO:0031177 Binding to phosphopantetheine, the vitamin pantetheine 4'-(dihydrogen phosphate).
  • GO:0006631 The chemical reactions and pathways involving fatty acids, aliphatic monocarboxylic acids liberated from naturally occurring fats and oils by hydrolysis.
  • GO:0044550 The chemical reactions and pathways resulting in the formation of secondary metabolites, the compounds that are not necessarily required for growth and maintenance of cells, and are often unique to a taxon.
  • GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
  • GO:0009058 A cellular process consisting of the biochemical pathways by which a living organism synthesizes chemical substances. This typically represents the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.

Sequence Features

Domain/signature hits from InterPro and related databases.

65 records
Show feature table
Start End DB Term Name
593 604 ProSitePatterns PS00455 Putative AMP-binding domain signature.
593 604 InterPro IPR020845 AMP-binding, conserved site
1359 1780 Pfam PF00668 Condensation domain
1359 1780 InterPro IPR001242 Condensation domain
1355 1561 SUPERFAMILY SSF52777 CoA-dependent acyltransferases
52 1641 PANTHER PTHR43767 LONG-CHAIN-FATTY-ACID--COA LIGASE
1781 1860 Gene3D G3DSA:1.10.1200.10 -
1781 1860 InterPro IPR036736 ACP-like superfamily
1241 1326 Gene3D G3DSA:1.10.1200.10 -
1241 1326 InterPro IPR036736 ACP-like superfamily
203 438 Gene3D G3DSA:3.30.559.30 Nonribosomal peptide synthetase, condensation domain
1360 1776 CDD cd19536 DCL_NRPS-like
448 841 Gene3D G3DSA:3.40.50.12780 -
448 841 InterPro IPR042099 ANL, N-terminal domain
1791 1842 SMART SM00823 Phosphopantetheine attachment site
1791 1842 InterPro IPR020806 Polyketide synthase, phosphopantetheine-binding domain
1257 1325 SMART SM00823 Phosphopantetheine attachment site
1257 1325 InterPro IPR020806 Polyketide synthase, phosphopantetheine-binding domain
1248 1323 FunFam G3DSA:1.10.1200.10:FF:000005 Nonribosomal peptide synthetase 1
1259 1321 Pfam PF00550 Phosphopantetheine attachment site
1259 1321 InterPro IPR009081 Phosphopantetheine binding ACP domain
1793 1854 Pfam PF00550 Phosphopantetheine attachment site
1793 1854 InterPro IPR009081 Phosphopantetheine binding ACP domain
414 1269 SUPERFAMILY SSF56801 Acetyl-CoA synthetase-like
1888 2110 SMART SM00824 Thioesterase
1888 2110 InterPro IPR020802 Polyketide synthase, thioesterase domain
930 1153 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39
930 1153 InterPro IPR029063 S-adenosyl-L-methionine-dependent methyltransferase superfamily
1814 1829 ProSitePatterns PS00012 Phosphopantetheine attachment site.
1814 1829 InterPro IPR006162 Phosphopantetheine attachment site
456 847 Pfam PF00501 AMP-binding enzyme
456 847 InterPro IPR000873 AMP-dependent synthetase/ligase domain
201 418 SUPERFAMILY SSF52777 CoA-dependent acyltransferases
1250 1321 SUPERFAMILY SSF47336 ACP-like
1250 1321 InterPro IPR036736 ACP-like superfamily
1873 2111 Gene3D G3DSA:3.40.50.1820 alpha/beta hydrolase
1873 2111 InterPro IPR029058 Alpha/Beta hydrolase fold
1873 2110 SUPERFAMILY SSF53474 alpha/beta-Hydrolases
1873 2110 InterPro IPR029058 Alpha/Beta hydrolase fold
1553 1780 Gene3D G3DSA:3.30.559.30 Nonribosomal peptide synthetase, condensation domain
17 202 Gene3D G3DSA:3.30.559.10 -
17 202 InterPro IPR023213 Chloramphenicol acetyltransferase-like domain superfamily
462 910 CDD cd05930 A_NRPS
1886 2107 Pfam PF00975 Thioesterase domain
1886 2107 InterPro IPR001031 Thioesterase
1251 1325 ProSiteProfiles PS50075 Carrier protein (CP) domain profile.
1251 1325 InterPro IPR009081 Phosphopantetheine binding ACP domain
947 1122 NCBIfam TIGR01444 FkbM family methyltransferase
947 1122 InterPro IPR006342 Methyltransferase FkbM
1158 1239 Gene3D G3DSA:3.30.300.30 -
1158 1239 InterPro IPR045851 AMP-binding enzyme, C-terminal domain superfamily
950 1147 Pfam PF05050 Methyltransferase FkbM domain
950 1147 InterPro IPR006342 Methyltransferase FkbM
917 1152 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases
917 1152 InterPro IPR029063 S-adenosyl-L-methionine-dependent methyltransferase superfamily
1791 1853 SUPERFAMILY SSF47336 ACP-like
1791 1853 InterPro IPR036736 ACP-like superfamily
842 922 Gene3D G3DSA:3.30.300.30 -
842 922 InterPro IPR045851 AMP-binding enzyme, C-terminal domain superfamily
21 192 SUPERFAMILY SSF52777 CoA-dependent acyltransferases
477 872 NCBIfam TIGR01733 amino acid adenylation domain
477 872 InterPro IPR010071 Amino acid adenylation domain
1354 1552 Gene3D G3DSA:3.30.559.10 -
1354 1552 InterPro IPR023213 Chloramphenicol acetyltransferase-like domain superfamily
1550 1778 SUPERFAMILY SSF52777 CoA-dependent acyltransferases

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

1 + 1

Experimental PDB entries and predicted models. Click Switch to display a different structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
PDB 7R9X
X-ray 2.14 Å A,B
20.5% 1353-1787
Viewing
AlphaFold PA2302
AlphaFold 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
1 0.871
3 0.421
2 0.315

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 42.2 0.968
2 6.98 0.361
3 0.99 0.005

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
5FQ Q9Z4X6 158.2 Da LogP 0.64 TPSA 55.1 ✓ Ro5 ✓ Clean CCCCCNC(=O)[C@H](C)N
CO8 E5ATN9 893.7 Da LogP 1.03 TPSA 363.6 3 viol. ✓ Clean CCCCCCCC(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)CO[P…
FGU E5ATN9 232.3 Da LogP 0.76 TPSA 72.2 ✓ Ro5 ✓ Clean CC(C)C[C@@H](C(=O)SCCNC(=O)C)N
FLC A0A0B5H0S3 189.1 Da LogP -5.25 TPSA 140.6 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(CC(=O)[O-])(C(=O)[O-])O
KH4 F2YRY5 452.4 Da LogP -0.60 TPSA 190.9 1 viol. ✓ Clean CC(C)(COP(=O)(O)O)[C@H](C(=O)NCCC(=O)NCCSC(=O)c…
SRP Q47NS0 434.3 Da LogP -2.99 TPSA 238.4 2 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
UM2 Q9Z4X6 144.2 Da LogP 0.25 TPSA 55.1 ✓ Ro5 ✓ Clean CCCCNC(=O)[C@H](C)N

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.