Protein profile

PA4560

isoleucine--tRNA ligase

Genome: NC_002516.2

Gene: PA4560 ileS Structure source: AlphaFold UniProt Q9HVM4
Amino acids 943
Annotations 11
Features 40
PDB binders 3
Druggability 0.652

Overview

Basic information about this protein and its source genome.

Accession
PA4560
Gene
PA4560 ileS
Status
annotated
Amino acids
943
Structure source
AlphaFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
35.7
Human E-value
0.0
Gut microbiome off-target
hit
Essential (DEG)
Y
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 0.652
Structure
Pocket

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 10 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

10
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0002161 The hydrolysis of an incorrectly aminoacylated tRNA.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0004822 Catalysis of the reaction: L-isoleucine + ATP + tRNA(Ile) = L-isoleucyl-tRNA(Ile) + AMP + diphosphate + 2 H+.
  • GO:0000049 Binding to a transfer RNA.
  • GO:0008270 Binding to a zinc ion (Zn).
  • GO:0006428 The process of coupling isoleucine to isoleucyl-tRNA, catalyzed by isoleucyl-tRNA synthetase. The isoleucyl-tRNA synthetase is a class-I synthetase. The activated amino acid is transferred to the 2'-OH group of a isoleucine-accetping tRNA. The 2'-O-aminoacyl-tRNA will ultimately migrate to the 3' position via transesterification.
  • GO:0000166 Binding to a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
  • GO:0004812 Catalysis of the formation of aminoacyl-tRNA from ATP, amino acid, and tRNA with the release of diphosphate and AMP.
  • GO:0006418 The synthesis of aminoacyl tRNA by the formation of an ester bond between the 3'-hydroxyl group of the most 3' adenosine of the tRNA and the alpha carboxylic acid group of an amino acid, to be used in ribosome-mediated polypeptide synthesis.

Sequence Features

Domain/signature hits from InterPro and related databases.

40 records
Show feature table
Start End DB Term Name
16 210 Gene3D G3DSA:3.40.50.620 HUPs
16 210 InterPro IPR014729 Rossmann-like alpha/beta/alpha sandwich fold
3 937 PANTHER PTHR42765 SOLEUCYL-TRNA SYNTHETASE
647 935 FunFam G3DSA:1.10.730.20:FF:000001 Isoleucine--tRNA ligase
658 934 SUPERFAMILY SSF47323 Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
658 934 InterPro IPR009080 Aminoacyl-tRNA synthetase, class Ia, anticodon-binding
58 69 ProSitePatterns PS00178 Aminoacyl-transfer RNA synthetases class-I signature.
58 69 InterPro IPR001412 Aminoacyl-tRNA synthetase, class I, conserved site
28 646 Pfam PF00133 tRNA synthetases class I (I, L, M and V)
28 646 InterPro IPR002300 Aminoacyl-tRNA synthetase, class Ia
15 849 NCBIfam TIGR00392 isoleucine--tRNA ligase
15 849 InterPro IPR002301 Isoleucine-tRNA ligase
691 847 Pfam PF08264 Anticodon-binding domain of tRNA ligase
691 847 InterPro IPR013155 Methionyl/Valyl/Leucyl/Isoleucyl-tRNA synthetase, anticodon-binding
647 935 Gene3D G3DSA:1.10.730.20 -
377 644 FunFam G3DSA:3.40.50.620:FF:000048 Isoleucine--tRNA ligase
18 211 FunFam G3DSA:3.40.50.620:FF:000042 Isoleucine--tRNA ligase
905 931 Pfam PF06827 Zinc finger found in FPG and IleRS
905 931 InterPro IPR010663 Zinc finger, FPG/IleRS-type
399 414 PRINTS PR00984 Isoleucyl-tRNA synthetase signature
399 414 InterPro IPR002301 Isoleucine-tRNA ligase
51 62 PRINTS PR00984 Isoleucyl-tRNA synthetase signature
51 62 InterPro IPR002301 Isoleucine-tRNA ligase
567 576 PRINTS PR00984 Isoleucyl-tRNA synthetase signature
567 576 InterPro IPR002301 Isoleucine-tRNA ligase
235 258 PRINTS PR00984 Isoleucyl-tRNA synthetase signature
235 258 InterPro IPR002301 Isoleucine-tRNA ligase
529 542 PRINTS PR00984 Isoleucyl-tRNA synthetase signature
529 542 InterPro IPR002301 Isoleucine-tRNA ligase
49 643 CDD cd00818 IleRS_core
3 652 SUPERFAMILY SSF52374 Nucleotidylyl transferase
646 826 CDD cd07960 Anticodon_Ia_Ile_BEm
646 826 InterPro IPR033708 Isoleucyl tRNA synthetase type 1, anticodon-binding domain
2 934 Hamap MF_02002 Isoleucine--tRNA ligase [ileS].
2 934 InterPro IPR023585 Isoleucine-tRNA ligase, type 1
201 401 SUPERFAMILY SSF50677 ValRS/IleRS/LeuRS editing domain
201 401 InterPro IPR009008 Valyl/Leucyl/Isoleucyl-tRNA synthetase, editing domain
377 646 Gene3D G3DSA:3.40.50.620 HUPs
377 646 InterPro IPR014729 Rossmann-like alpha/beta/alpha sandwich fold
480 532 Gene3D G3DSA:1.10.10.830 -

3D Structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; predicted models typically cover the full protein.

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Structural evidence

0 + 1

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

Entry Method Resolution Chain Coverage Links Status
AlphaFold PA4560
AlphaFold full sequence Viewing
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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 0.373
4 0.251

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.

84 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
GV6 P09436 460.4 Da LogP -0.94 TPSA 218.2 1 viol. ✓ Clean CC[C@H](C)[C@@H](C(=O)OP(=O)(O)OC[C@@H]1[C@H]([…
GVU P09436 660.8 Da LogP 6.13 TPSA 176.9 2 viol. ✓ Clean CCCC[C@]1(CC[C@]2(CC[C@@H]([C@H](O2)C/C=C(\C)/C…
ILA P56690 458.5 Da LogP -2.65 TPSA 220.6 2 viol. ✓ Clean CC[C@H](C)[C@@H](C(=O)NS(=O)(=O)NC[C@@H]1[C@H](…

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.