Protein profile

KP13_03589

Cysteinyl-tRNA synthetase

Genome: KpKP13

Gene: AHE45932.1 cysS Structure source: AlphaFold + ColabFold UniProt A0A0H3GT08
Amino acids 461
Annotations 10
Features 30
PDB binders 1
Druggability 0.222

Overview

Basic information about this protein and its source genome.

Accession
KP13_03589
Gene
AHE45932.1 cysS
Status
annotated
Amino acids
461
Structure source
AlphaFold + ColabFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
55.952
Human E-value
1.66e-25
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
95.879
DEG E-value
0.0
Localization
Cytoplasmic
ColabFold pLDDT
93.57

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 0.222
Structure A0A0H3GT08
Pocket Pocket 1
P2Rank 0.925
Structure A0A0H3GT08
Pocket Pocket 1
ColabFold model
FPocket 0.488 · Pocket 4
P2Rank 0.944 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 307 / 4744 genomes with a hit
Normalized 0.065

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 9 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

9
  • GO:0006423 The process of coupling cysteine to cysteinyl-tRNA, catalyzed by cysteinyl-tRNA synthetase. A cysteinyl-tRNA synthetase is a class-I synthetase. The activated amino acid is transferred to the 2'-OH group of a cysteine-accetping tRNA. The 2'-O-aminoacyl-tRNA will ultimately migrate to the 3' position via transesterification.
  • GO:0004812 Catalysis of the formation of aminoacyl-tRNA from ATP, amino acid, and tRNA with the release of diphosphate and AMP.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • 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: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.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0004817 Catalysis of the reaction: ATP + L-cysteine + tRNA(Cys) = AMP + diphosphate + L-cysteinyl-tRNA(Cys).
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0008270 Binding to a zinc ion (Zn).

Sequence Features

Domain/signature hits from InterPro and related databases.

30 records
Show feature table
Start End DB Term Name
3 305 CDD cd00672 CysRS_core
3 305 InterPro IPR032678 tRNA synthetases class I, catalytic domain
1 303 FunFam G3DSA:3.40.50.620:FF:000009 Cysteine--tRNA ligase
2 460 PANTHER PTHR10890 CYSTEINYL-TRNA SYNTHETASE
2 460 InterPro IPR024909 Cysteinyl-tRNA synthetase/mycothiol ligase
15 313 Pfam PF01406 tRNA synthetases class I (C) catalytic domain
15 313 InterPro IPR032678 tRNA synthetases class I, catalytic domain
1 313 SUPERFAMILY SSF52374 Nucleotidylyl transferase
341 402 SMART SM00840 dalr_2_4
341 402 InterPro IPR015273 Cysteinyl-tRNA synthetase, class Ia, DALR
306 460 CDD cd07963 Anticodon_Ia_Cys
2 461 Hamap MF_00041 Cysteine--tRNA ligase [cysS].
2 461 InterPro IPR015803 Cysteine-tRNA ligase
222 243 PRINTS PR00983 Cysteinyl-tRNA synthetase signature
222 243 InterPro IPR024909 Cysteinyl-tRNA synthetase/mycothiol ligase
25 36 PRINTS PR00983 Cysteinyl-tRNA synthetase signature
25 36 InterPro IPR024909 Cysteinyl-tRNA synthetase/mycothiol ligase
61 70 PRINTS PR00983 Cysteinyl-tRNA synthetase signature
61 70 InterPro IPR024909 Cysteinyl-tRNA synthetase/mycothiol ligase
191 209 PRINTS PR00983 Cysteinyl-tRNA synthetase signature
191 209 InterPro IPR024909 Cysteinyl-tRNA synthetase/mycothiol ligase
303 461 FunFam G3DSA:1.20.120.1910:FF:000001 Cysteine--tRNA ligase
1 302 Gene3D G3DSA:3.40.50.620 HUPs
1 302 InterPro IPR014729 Rossmann-like alpha/beta/alpha sandwich fold
341 402 Pfam PF09190 DALR domain
303 461 Gene3D G3DSA:1.20.120.1910 -
316 460 SUPERFAMILY SSF47323 Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
316 460 InterPro IPR009080 Aminoacyl-tRNA synthetase, class Ia, anticodon-binding
2 460 NCBIfam TIGR00435 cysteine--tRNA ligase
2 460 InterPro IPR015803 Cysteine-tRNA ligase

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_A0A0H3GT08
AlphaFold full sequence Viewing
ColabFold KP13_03589
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 0.222

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 20.55 0.857
2 2.48 0.068
3 2.13 0.049
4 1.82 0.035
5 1.59 0.025

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.

79 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
PG5 A0A1T3F4R2 178.2 Da LogP 0.31 TPSA 36.9 ✓ Ro5 ✓ Clean COCCOCCOCCOC

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.