Protein profile

VK055_1693

23S rRNA m6A1618 methyltransferase

Genome: KpATCC43816

Gene: rlmF AIK80313.1 Structure source: AlphaFold + ColabFold UniProt A6T6Q1
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Amino acids 304
Annotations 4
Features 14
PDB binders 0
Druggability 0.886

Overview

Basic information about this protein and its source genome.

Accession
VK055_1693
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
rlmF AIK80313.1
Status
annotated
Amino acids
304
Structure source
AlphaFold + ColabFold
GO
GO:0006364 Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules. GO:0008988 Catalysis of the reaction: adenosine in rRNA + S-adenosyl-L-methionine = H+ + N(6)-methyladenosine in rRNA + S-adenosyl-L-homocysteine. GO:0008168 Catalysis of the transfer of a methyl group to an acceptor molecule. GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
34.409
Human E-value
4.71e-09
Gut microbiome off-target
hit
Essential (DEG)
N
DEG identity (%)
0.0
Localization
Cytoplasmic
ColabFold pLDDT
87.56

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 0.886
Structure A6T6Q1
Pocket Pocket 6
P2Rank 0.811
Structure A6T6Q1
Pocket Pocket 1
ColabFold model
FPocket 0.874 · Pocket 2
P2Rank 0.753 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 123 / 4744 genomes with a hit
Normalized 0.026

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:0006364 Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.
  • GO:0008988 Catalysis of the reaction: adenosine in rRNA + S-adenosyl-L-methionine = H+ + N(6)-methyladenosine in rRNA + S-adenosyl-L-homocysteine.
  • GO:0008168 Catalysis of the transfer of a methyl group to an acceptor molecule.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Sequence Features

Domain/signature hits from InterPro and related databases.

14 records
Show feature table
Start End DB Term Name
44 295 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases
44 295 InterPro IPR029063 S-adenosyl-L-methionine-dependent methyltransferase superfamily
1 304 PIRSF PIRSF029038 Mtase_YbiN
1 304 InterPro IPR016909 Ribosomal RNA large subunit methyltransferase F
5 298 Hamap MF_01848 Ribosomal RNA large subunit methyltransferase F [rlmF].
5 298 InterPro IPR016909 Ribosomal RNA large subunit methyltransferase F
38 296 FunFam G3DSA:3.40.50.150:FF:000045 Ribosomal RNA large subunit methyltransferase F
3 296 Pfam PF05971 RNA methyltransferase
3 296 InterPro IPR010286 METTL16/RlmF family
106 210 CDD cd02440 AdoMet_MTases
39 296 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39
39 296 InterPro IPR029063 S-adenosyl-L-methionine-dependent methyltransferase superfamily
8 299 PANTHER PTHR13393 SAM-DEPENDENT METHYLTRANSFERASE
8 299 InterPro IPR010286 METTL16/RlmF family

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

Loading 3D structure...

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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_A6T6Q1
AlphaFold — — full sequence — Viewing
ColabFold VK055_1693
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
6 0.886

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 12.87 0.665
2 9.63 0.518
3 2.97 0.096
4 2.21 0.054
5 1.43 0.019