Protein profile

KP13_31584

Type-2 restriction enzyme EcoRII

Genome: KpKP13

Gene: ecoRIIR AHE47379.1 Structure source: AlphaFold + ColabFold UniProt A0A1S9BPS6
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Amino acids 400
Annotations 3
Features 12
PDB binders 0
Druggability 0.771

Overview

Basic information about this protein and its source genome.

Accession
KP13_31584
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
ecoRIIR AHE47379.1
Status
annotated
Amino acids
400
Structure source
AlphaFold + ColabFold
GO
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:0009036 Catalysis of the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates and 3' hydroxyls. Cleavage is dependent on the presence in the DNA of a specific recognition site; cleavage occurs at or very near this recognition site. GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).

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
91.0

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 0.771
Structure A0A1S9BPS6
Pocket Pocket 7
P2Rank 0.106
Structure A0A1S9BPS6
Pocket Pocket 1
ColabFold model
FPocket 0.95 · Pocket 2
P2Rank 0.11 · 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.

3 GO

Gene Ontology (GO)

3
  • 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:0009036 Catalysis of the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates and 3' hydroxyls. Cleavage is dependent on the presence in the DNA of a specific recognition site; cleavage occurs at or very near this recognition site.
  • GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).

Sequence Features

Domain/signature hits from InterPro and related databases.

12 records
Show feature table
Start End DB Term Name
178 400 Gene3D G3DSA:3.40.91.80 -
178 400 InterPro IPR038365 EcoRII, C-terminal domain superfamily
183 397 SUPERFAMILY SSF52980 Restriction endonuclease-like
183 397 InterPro IPR011335 Restriction endonuclease type II-like
1 171 Gene3D G3DSA:2.40.330.10 -
1 171 InterPro IPR015300 DNA-binding pseudobarrel domain superfamily
15 161 Pfam PF09217 Restriction endonuclease EcoRII, N-terminal
15 161 InterPro IPR023372 Restriction endonuclease, type II, EcoRII, N-terminal
228 392 Pfam PF09019 EcoRII C terminal
228 392 InterPro IPR015109 Restriction endonuclease, type II, EcoRII, C-terminal
4 173 SUPERFAMILY SSF101936 DNA-binding pseudobarrel domain
4 173 InterPro IPR015300 DNA-binding pseudobarrel domain superfamily

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_A0A1S9BPS6
AlphaFold — — full sequence — Viewing
ColabFold KP13_31584
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
7 0.771
19 0.428

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 2.57 0.073
2 2.51 0.07
3 0.78 0.002