Protein profile

VK055_5155

exonuclease, RdgC family protein

Genome: KpATCC43816

Gene: AIK83676.1 Structure source: AlphaFold + ColabFold UniProt A0A486V8Y0
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Amino acids 305
Annotations 4
Features 5
PDB binders 0
Druggability 0.347

Overview

Basic information about this protein and its source genome.

Accession
VK055_5155
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK83676.1
Status
annotated
Amino acids
305
Structure source
AlphaFold + ColabFold
GO
GO:0006310 Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction. GO:0043590 The region of a bacterial cell to which the DNA is confined. GO:0003690 Binding to double-stranded DNA. GO:0000018 Any process that modulates the frequency, rate or extent of DNA recombination, a DNA metabolic process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
N
DEG identity (%)
25.294
Localization
Cytoplasmic
ColabFold pLDDT
91.59

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 0.347
Structure A0A486V8Y0
Pocket Pocket 11
P2Rank 0.066
Structure A0A486V8Y0
Pocket Pocket 1
ColabFold model
FPocket 0.482 · Pocket 23
P2Rank 0.031 · Pocket 1
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 6 / 4744 genomes with a hit
Normalized 0.001

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

4 GO

Gene Ontology (GO)

4
  • GO:0006310 Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.
  • GO:0043590 The region of a bacterial cell to which the DNA is confined.
  • GO:0003690 Binding to double-stranded DNA.
  • GO:0000018 Any process that modulates the frequency, rate or extent of DNA recombination, a DNA metabolic process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents.

Sequence Features

Domain/signature hits from InterPro and related databases.

5 records
Show feature table
Start End DB Term Name
7 289 PANTHER PTHR38103 RECOMBINATION-ASSOCIATED PROTEIN RDGC
7 289 InterPro IPR007476 Putative exonuclease, RdgC
6 290 Pfam PF04381 Putative exonuclease, RdgC
6 290 InterPro IPR007476 Putative exonuclease, RdgC
78 98 Coils Coil Coil

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_A0A486V8Y0
AlphaFold — — full sequence — Viewing
ColabFold VK055_5155
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
18 0.125
4 0.061
1 0.005
5 0.0

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 2.71 0.066
2 1.83 0.029