Protein target profile

KP13_01853

Glutamyl-Q tRNA(Asp) synthetase

Genome: KpKP13 Gene: AHE46293.1 gluQ 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GRX7
Length 293
Pocket druggability 0.147
Direct ligand evidence 0 56 total records
Functional annotation 0 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 (%)
36.948 Lower values reduce human off-target concern.
Human E-value
4.51e-38
Gut microbiome similarity
2.6% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
N
DEG identity (%)
0.0 Higher values support similarity to known essential genes.

Localization

Localization
Cytoplasmic

Structure confidence

ColabFold pLDDT
93.87 0-100 confidence; >70 supports local structural interpretation.

Binding-site evidence

AlphaFold DB / UniProt model

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 0.147
Structure A0A0H3GRX7
Pocket Pocket 2
P2Rank 0.868
Structure A0A0H3GRX7
Pocket Pocket 1
ColabFold model
FPocket 0.207 · Pocket 1
P2Rank 0.883 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 123 / 4744 genomes with a hit
Prevalence 2.6%

Cross-references

External database identifiers for this protein, its structures, ligands, and metabolic reactions.

Sequence

Primary amino-acid sequence viewer.

MTDSRYIGRFAPSPSGELHFGSLIAALGSYLQARANQGIWRVRIEDIDPPREVPGAADTILRQLDHYGLHWDGDVLWQSQRHEAYREALTWLGEQGLSYYCTCTRARIHAVGGIYDGHCRDLGLGAENAALRLRQTRPVLQFSDRLRGTLIANEPLAREDFIIHRRDGLFAYNLAVVVDDHFQGITEIVRGADLIEPTVRQISLYQHFGWQAPDYLHLPLALNGDGNKLSKQNHAPALPEGDPRPEIVRALRFLNQAIPEEWQALSIDDLLVQAVANWQPAKIEHSQMAPAEL

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

7 GO

Gene Ontology (GO)

7
  • GO:0008270 Binding to a zinc ion (Zn).
  • GO:0004812 Catalysis of the formation of aminoacyl-tRNA from ATP, amino acid, and tRNA with the release of diphosphate and AMP.
  • 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:0006400 The covalent alteration of one or more nucleotides within a tRNA molecule to produce a tRNA molecule with a sequence that differs from that coded genetically.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0043039 The chemical reactions and pathways by which the various amino acids become bonded to their corresponding tRNAs. The most common route for synthesis of aminoacyl tRNA is 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, usually catalyzed by the cognate aminoacyl-tRNA ligase. A given aminoacyl-tRNA ligase aminoacylates all species of an isoaccepting group of tRNA molecules.
  • GO:0006424 The process of coupling glutamate to glutamyl-tRNA, catalyzed by glutamyl-tRNA synthetase. The glutamyl-tRNA synthetase is a class-I synthetase. The activated amino acid is transferred to the 2'-OH group of a glutamic acid-accetping tRNA. The 2'-O-aminoacyl-tRNA will ultimately migrate to the 3' position via transesterification.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

21 records
Show feature table
Start End DB Term Name
6 270 NCBIfam TIGR03838 tRNA glutamyl-Q(34) synthetase GluQRS
6 270 InterPro IPR022380 Glutamyl-Q tRNA(Asp) synthetase
1 290 Gene3D G3DSA:3.40.50.620 HUPs
1 290 InterPro IPR014729 Rossmann-like alpha/beta/alpha sandwich fold
4 270 PANTHER PTHR43311 GLUTAMATE--TRNA LIGASE
6 290 Hamap MF_01428 Glutamyl-Q tRNA(Asp) synthetase [gluQ].
6 290 InterPro IPR022380 Glutamyl-Q tRNA(Asp) synthetase
9 21 PRINTS PR00987 Glutamyl-tRNA synthetase signature
9 21 InterPro IPR000924 Glutamyl/glutaminyl-tRNA synthetase
38 51 PRINTS PR00987 Glutamyl-tRNA synthetase signature
38 51 InterPro IPR000924 Glutamyl/glutaminyl-tRNA synthetase
170 180 PRINTS PR00987 Glutamyl-tRNA synthetase signature
170 180 InterPro IPR000924 Glutamyl/glutaminyl-tRNA synthetase
186 194 PRINTS PR00987 Glutamyl-tRNA synthetase signature
186 194 InterPro IPR000924 Glutamyl/glutaminyl-tRNA synthetase
23 34 PRINTS PR00987 Glutamyl-tRNA synthetase signature
23 34 InterPro IPR000924 Glutamyl/glutaminyl-tRNA synthetase
9 235 Pfam PF00749 tRNA synthetases class I (E and Q), catalytic domain
9 235 InterPro IPR020058 Glutamyl/glutaminyl-tRNA synthetase, class Ib, catalytic domain
6 289 SUPERFAMILY SSF52374 Nucleotidylyl transferase
1 289 FunFam G3DSA:3.40.50.620:FF:000093 Glutamyl-Q tRNA(Asp) synthetase

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

Probability: high ≥ 0.5 · medium 0.2–0.49 · low < 0.2

Site 1 P2Rank #1
0.868
Show in viewer
Surrounding area
Site 2 P2Rank #2
0.052
Show in viewer
Surrounding area
Site 3 P2Rank #3
0.036
Show in viewer
Surrounding area
Site 4 P2Rank #4
0.003
Show in viewer
Surrounding area
Residue sets
UniProt: Binding site:101-101
UniProt: Binding site:103-103
UniProt: Binding site:115-115
UniProt: Binding site:119-119
UniProt: Binding site:172-172
UniProt: Binding site:190-190
UniProt: Binding site:231-231
UniProt: Binding site:45-45
UniProt: Binding site:9-13
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_A0A0H3GRX7
AlphaFold DB full sequence Viewing
ColabFold KP13_01853
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.

56 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 6 records from similar proteins
Structural ligands 5 0 loaded crystals
Measured bioactivity 1 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
DTT PDB via homolog 154.3 Da · LogP -0.43 · TPSA 40.5 Open detail RCSB PDB
GAU PDB via homolog Detail RCSB PDB
GOM PDB via homolog Detail RCSB PDB
GSU PDB via homolog Detail RCSB PDB
QSI 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
DTT RCSB PDB P13188 154.3 Da LogP -0.43 TPSA 40.5 ✓ Ro5 ✓ Clean C([C@@H]([C@H](CS)O)O)S
GAU RCSB PDB P27000 133.1 Da LogP -0.83 TPSA 83.5 ✓ Ro5 ✓ Clean C(CC(=O)O)[C@@H](CO)N
GOM RCSB PDB P27000 461.3 Da LogP -4.33 TPSA 245.7 1 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
GSU RCSB PDB P00962 475.4 Da LogP -3.40 TPSA 255.1 2 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
QSI RCSB PDB P00962 474.5 Da LogP -4.00 TPSA 260.9 2 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…

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.