Protein profile

KP13_04314

Ribosomal RNA large subunit methyltransferase F

Genome: KpKP13

Gene: rlmF AHE45548.1 Structure source: AlphaFold + ColabFold UniProt W8UXY1
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Amino acids 341
Annotations 7
Features 14
PDB binders 0
Druggability 0.798

Overview

Basic information about this protein and its source genome.

Accession
KP13_04314
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
rlmF AHE45548.1
Status
annotated
Amino acids
341
Structure source
AlphaFold + ColabFold
EC
2.1.1.181
GO
GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures. GO:0008988 Catalysis of the reaction: adenosine in rRNA + S-adenosyl-L-methionine = H+ + N(6)-methyladenosine in rRNA + S-adenosyl-L-homocysteine. GO:0006364 Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules. GO:0008168 Catalysis of the transfer of a methyl group to an acceptor molecule. GO:0052907 Catalysis of the reaction: S-adenosyl-L-methionine + adenine(1618) in 23S rRNA = S-adenosyl-L-homocysteine + rRNA containing N(6)-methyladenine(1618) in 23S rRNA. GO:0070475 The addition of a methyl group to an atom in the nucleoside base portion of a nucleotide residue in an rRNA molecule.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
34.409
Human E-value
2.8e-09
Gut microbiome off-target
hit
Essential (DEG)
N
DEG identity (%)
0.0
Localization
Cytoplasmic
ColabFold pLDDT
81.13

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 0.798
Structure W8UXY1
Pocket Pocket 1
P2Rank 0.822
Structure W8UXY1
Pocket Pocket 1
ColabFold model
FPocket 0.933 · Pocket 1
P2Rank 0.799 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 122 / 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.

1 EC 6 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

6
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0008988 Catalysis of the reaction: adenosine in rRNA + S-adenosyl-L-methionine = H+ + N(6)-methyladenosine in rRNA + S-adenosyl-L-homocysteine.
  • GO:0006364 Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.
  • GO:0008168 Catalysis of the transfer of a methyl group to an acceptor molecule.
  • GO:0052907 Catalysis of the reaction: S-adenosyl-L-methionine + adenine(1618) in 23S rRNA = S-adenosyl-L-homocysteine + rRNA containing N(6)-methyladenine(1618) in 23S rRNA.
  • GO:0070475 The addition of a methyl group to an atom in the nucleoside base portion of a nucleotide residue in an rRNA molecule.

Sequence Features

Domain/signature hits from InterPro and related databases.

14 records
Show feature table
Start End DB Term Name
32 341 PIRSF PIRSF029038 Mtase_YbiN
32 341 InterPro IPR016909 Ribosomal RNA large subunit methyltransferase F
45 336 PANTHER PTHR13393 SAM-DEPENDENT METHYLTRANSFERASE
45 336 InterPro IPR010286 METTL16/RlmF family
40 333 Pfam PF05971 RNA methyltransferase
40 333 InterPro IPR010286 METTL16/RlmF family
42 335 Hamap MF_01848 Ribosomal RNA large subunit methyltransferase F [rlmF].
42 335 InterPro IPR016909 Ribosomal RNA large subunit methyltransferase F
75 333 FunFam G3DSA:3.40.50.150:FF:000045 Ribosomal RNA large subunit methyltransferase F
81 332 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases
81 332 InterPro IPR029063 S-adenosyl-L-methionine-dependent methyltransferase superfamily
143 247 CDD cd02440 AdoMet_MTases
76 333 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39
76 333 InterPro IPR029063 S-adenosyl-L-methionine-dependent methyltransferase 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_W8UXY1
AlphaFold — — full sequence — Viewing
ColabFold KP13_04314
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
1 0.798
8 0.283

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 10.77 0.578
2 5.87 0.287
3 5.33 0.251
4 2.75 0.083
5 2.63 0.076