Protein profile

VK055_3300

ribosome biogenesis GTP-binding protein YsxC

Genome: KpATCC43816

Gene: ysxC AIK81861.1 Structure source: Experimental + ColabFold UniProt A6TG68
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Amino acids 210
Annotations 1
Features 16
PDB binders 0
Druggability 0.319

Overview

Basic information about this protein and its source genome.

Accession
VK055_3300
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
ysxC AIK81861.1
Status
annotated
Amino acids
210
Structure source
Experimental + ColabFold
GO
GO:0005525 Binding to GTP, guanosine triphosphate.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
35.135
Human E-value
5.93e-19
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
88.095
DEG E-value
1.73e-137
Localization
Cytoplasmic
ColabFold pLDDT
89.81

Selected Druggability evidence

PDB experimental structure

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 0.319
Structure 7SZS
Pocket Pocket 1
P2Rank 0.42
Structure 7SZS
Pocket Pocket 1
ColabFold model
FPocket 0.396 · Pocket 6
P2Rank 0.371 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 189 / 4744 genomes with a hit
Normalized 0.04

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 GO

Gene Ontology (GO)

1
  • GO:0005525 Binding to GTP, guanosine triphosphate.

Sequence Features

Domain/signature hits from InterPro and related databases.

16 records
Show feature table
Start End DB Term Name
1 209 FunFam G3DSA:3.40.50.300:FF:000098 Probable GTP-binding protein EngB
25 199 ProSiteProfiles PS51706 EngB-type guanine nucleotide-binding (G) domain profile.
25 199 InterPro IPR030393 EngB-type guanine nucleotide-binding (G) domain
9 199 PANTHER PTHR11649 MSS1/TRME-RELATED GTP-BINDING PROTEIN
28 146 Pfam PF01926 50S ribosome-binding GTPase
28 146 InterPro IPR006073 GTP binding domain
10 193 NCBIfam TIGR03598 ribosome biogenesis GTP-binding protein YihA/YsxC
10 193 InterPro IPR019987 GTP-binding protein, ribosome biogenesis, YsxC
28 197 CDD cd01876 YihA_EngB
28 197 InterPro IPR030393 EngB-type guanine nucleotide-binding (G) domain
10 199 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
10 199 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
14 197 Hamap MF_00321 Probable GTP-binding protein EngB [engB].
14 197 InterPro IPR019987 GTP-binding protein, ribosome biogenesis, YsxC
1 209 Gene3D G3DSA:3.40.50.300 -
1 209 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase

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 7SZS
X-ray 20.00 Å - —
PDBe RCSB PDBj File
Viewing
ColabFold VK055_3300
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
21 0.524

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 10.03 0.54
2 7.92 0.42
3 5.52 0.264
4 2.98 0.097
5 2.38 0.063