Protein profile

KP13_00247

Glycyl-tRNA synthetase beta subunit

Genome: KpKP13

Gene: AHE42159.1 glyS Structure source: AlphaFold + ColabFold UniProt A0A0H3H4E2
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Amino acids 689
Annotations 9
Features 24
PDB binders 0
Druggability 0.918

Overview

Basic information about this protein and its source genome.

Accession
KP13_00247
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
AHE42159.1 glyS
Status
annotated
Amino acids
689
Structure source
AlphaFold + ColabFold
EC
6.1.1.14
GO
GO:0004814 Catalysis of the reaction: ATP + L-arginine + tRNA(Arg) = AMP + diphosphate + L-arginyl-tRNA(Arg). GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures. GO:0004820 Catalysis of the reaction: ATP + glycine + tRNA(Gly) = AMP + diphosphate + glycyl-tRNA(Gly). GO:0006426 The process of coupling glycine to glycyl-tRNA, catalyzed by glycyl-tRNA synthetase. The glycyll-tRNA synthetase is a class-II synthetase. The activated amino acid is transferred to the 3'-OH group of a glycine-accepting tRNA. GO:0006420 The process of coupling arginine to arginyl-tRNA, catalyzed by arginyl-tRNA synthetase. The arginyl-tRNA synthetase is a class-I synthetase. The activated amino acid is transferred to the 2'-OH group of an alanine accetping tRNA. The 2'-O-aminoacyl-tRNA will ultimately migrate to the 3' position via transesterification. GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
94.34
DEG E-value
0.0
Localization
Cytoplasmic
ColabFold pLDDT
94.37

Selected Druggability evidence

AlphaFold / UniProt model

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 0.918
Structure A0A0H3H4E2
Pocket Pocket 1
P2Rank 0.19
Structure A0A0H3H4E2
Pocket Pocket 1
ColabFold model
FPocket 0.89 · Pocket 26
P2Rank 0.272 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 165 / 4744 genomes with a hit
Normalized 0.035

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 8 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

8
  • GO:0004814 Catalysis of the reaction: ATP + L-arginine + tRNA(Arg) = AMP + diphosphate + L-arginyl-tRNA(Arg).
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0004820 Catalysis of the reaction: ATP + glycine + tRNA(Gly) = AMP + diphosphate + glycyl-tRNA(Gly).
  • GO:0006426 The process of coupling glycine to glycyl-tRNA, catalyzed by glycyl-tRNA synthetase. The glycyll-tRNA synthetase is a class-II synthetase. The activated amino acid is transferred to the 3'-OH group of a glycine-accepting tRNA.
  • GO:0006420 The process of coupling arginine to arginyl-tRNA, catalyzed by arginyl-tRNA synthetase. The arginyl-tRNA synthetase is a class-I synthetase. The activated amino acid is transferred to the 2'-OH group of an alanine accetping tRNA. The 2'-O-aminoacyl-tRNA will ultimately migrate to the 3' position via transesterification.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • 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:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

Sequence Features

Domain/signature hits from InterPro and related databases.

24 records
Show feature table
Start End DB Term Name
339 511 SUPERFAMILY SSF109604 HD-domain/PDEase-like
3 688 PANTHER PTHR30075 GLYCYL-TRNA SYNTHETASE
3 688 InterPro IPR006194 Glycine-tRNA synthetase, heterodimeric
582 679 Pfam PF05746 DALR anticodon binding domain
582 679 InterPro IPR008909 DALR anticodon binding
363 653 ProSiteProfiles PS50861 Heterodimeric glycyl-transfer RNA synthetases family profile.
363 653 InterPro IPR006194 Glycine-tRNA synthetase, heterodimeric
216 236 Coils Coil Coil
6 551 Pfam PF02092 Glycyl-tRNA synthetase beta subunit
6 551 InterPro IPR015944 Glycine-tRNA ligase, beta subunit
318 334 PRINTS PR01045 Glycyl-tRNA synthetase beta subunit signature
318 334 InterPro IPR015944 Glycine-tRNA ligase, beta subunit
394 413 PRINTS PR01045 Glycyl-tRNA synthetase beta subunit signature
394 413 InterPro IPR015944 Glycine-tRNA ligase, beta subunit
50 62 PRINTS PR01045 Glycyl-tRNA synthetase beta subunit signature
50 62 InterPro IPR015944 Glycine-tRNA ligase, beta subunit
246 261 PRINTS PR01045 Glycyl-tRNA synthetase beta subunit signature
246 261 InterPro IPR015944 Glycine-tRNA ligase, beta subunit
7 20 PRINTS PR01045 Glycyl-tRNA synthetase beta subunit signature
7 20 InterPro IPR015944 Glycine-tRNA ligase, beta subunit
3 688 Hamap MF_00255 Glycine--tRNA ligase beta subunit [glyS].
3 688 InterPro IPR015944 Glycine-tRNA ligase, beta subunit
5 688 NCBIfam TIGR00211 glycine--tRNA ligase subunit beta
5 688 InterPro IPR015944 Glycine-tRNA ligase, beta subunit

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

0 + 2

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

Entry Method Resolution Chain Coverage Links Status
AlphaFold AF_A0A0H3H4E2
AlphaFold — — full sequence — Viewing
ColabFold KP13_00247
ColabFold — — 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 0.918

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 3.25 0.113
2 0.61 0.0