Protein profile

VK055_2743

restriction endonuclease family protein

Genome: KpATCC43816

Gene: AIK81333.1 Structure source: AlphaFold + ColabFold UniProt A0A483I463
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Amino acids 329
Annotations 6
Features 9
PDB binders 0
Druggability 0.802

Overview

Basic information about this protein and its source genome.

Accession
VK055_2743
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK81333.1
Status
annotated
Amino acids
329
Structure source
AlphaFold + ColabFold
GO
GO:0004519 Catalysis of the cleavage of ester linkages within nucleic acids by creating internal breaks. GO:0003676 Binding to a nucleic acid. GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid). GO:0009307 A defense process found in many bacteria and archaea that protects the organism from invading foreign DNA by cleaving it with a restriction endonuclease. The organism's own DNA is protected by methylation of a specific nucleotide, which occurs immediately following replication, in the same target site as the restriction enzyme. GO:0043590 The region of a bacterial cell to which the DNA is confined. GO:0015666 Catalysis of endonucleolytic cleavage of DNA in a site-specific manner, resulting in double-strand breaks.

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 (%)
0.0
Localization
Cytoplasmic
ColabFold pLDDT
91.47

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 0.802
Structure A0A483I463
Pocket Pocket 18
P2Rank 0.468
Structure A0A483I463
Pocket Pocket 1
ColabFold model
FPocket 0.517 · Pocket 8
P2Rank 0.427 · Pocket 1
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 9 / 4744 genomes with a hit
Normalized 0.002

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

6 GO

Gene Ontology (GO)

6
  • GO:0004519 Catalysis of the cleavage of ester linkages within nucleic acids by creating internal breaks.
  • GO:0003676 Binding to a nucleic acid.
  • GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
  • GO:0009307 A defense process found in many bacteria and archaea that protects the organism from invading foreign DNA by cleaving it with a restriction endonuclease. The organism's own DNA is protected by methylation of a specific nucleotide, which occurs immediately following replication, in the same target site as the restriction enzyme.
  • GO:0043590 The region of a bacterial cell to which the DNA is confined.
  • GO:0015666 Catalysis of endonucleolytic cleavage of DNA in a site-specific manner, resulting in double-strand breaks.

Sequence Features

Domain/signature hits from InterPro and related databases.

9 records
Show feature table
Start End DB Term Name
1 329 PIRSF PIRSF031853 UCP031853
1 329 InterPro IPR016984 Uncharacterised conserved protein UCP031853
192 304 Pfam PF04471 Restriction endonuclease
192 304 InterPro IPR007560 Restriction endonuclease type IV, Mrr
175 320 Gene3D G3DSA:3.40.1350.10 -
175 320 InterPro IPR011856 tRNA endonuclease-like domain superfamily
2 325 PANTHER PTHR30015 MRR RESTRICTION SYSTEM PROTEIN
195 307 SUPERFAMILY SSF52980 Restriction endonuclease-like
195 307 InterPro IPR011335 Restriction endonuclease type II-like

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_A0A483I463
AlphaFold — — full sequence — Viewing
ColabFold VK055_2743
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 0.802

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 5.61 0.269
2 2.67 0.079
3 2.28 0.057
4 1.77 0.032