Protein profile

KP13_01111

Ribosomal RNA large subunit methyltransferase E

Genome: KpKP13

Gene: AHE42495.1 rlmE Structure source: AlphaFold + ColabFold UniProt A0A0H3GYY9
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Amino acids 209
Annotations 8
Features 15
PDB binders 0
Druggability 0.115

Overview

Basic information about this protein and its source genome.

Accession
KP13_01111
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
AHE42495.1 rlmE
Status
annotated
Amino acids
209
Structure source
AlphaFold + ColabFold
EC
2.1.1.166
GO
GO:0001510 Posttranscriptional addition of a methyl group to either a nucleotide or 2'-O ribose in a polyribonucleotide. Usually uses S-adenosylmethionine as a cofactor. GO:0008168 Catalysis of the transfer of a methyl group to an acceptor molecule. GO:0006364 Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules. GO:0016436 Catalysis of the reaction: S-adenosyl-L-methionine + rRNA = S-adenosyl-L-homocysteine + rRNA containing methyluridine. GO:0032259 The process in which a methyl group is covalently attached to a 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 (%)
40.541
Human E-value
1.45e-15
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
96.651
DEG E-value
2.96e-149
Localization
Cytoplasmic
ColabFold pLDDT
94.28

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 0.115
Structure A0A0H3GYY9
Pocket Pocket 4
P2Rank 0.412
Structure A0A0H3GYY9
Pocket Pocket 1
ColabFold model
FPocket 0.147 · Pocket 2
P2Rank 0.513 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 196 / 4744 genomes with a hit
Normalized 0.041

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 7 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

7
  • GO:0001510 Posttranscriptional addition of a methyl group to either a nucleotide or 2'-O ribose in a polyribonucleotide. Usually uses S-adenosylmethionine as a cofactor.
  • GO:0008168 Catalysis of the transfer of a methyl group to an acceptor molecule.
  • GO:0006364 Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.
  • GO:0016436 Catalysis of the reaction: S-adenosyl-L-methionine + rRNA = S-adenosyl-L-homocysteine + rRNA containing methyluridine.
  • GO:0032259 The process in which a methyl group is covalently attached to a molecule.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0008650 Catalysis of the reaction: a uridine in rRNA + S-adenosyl-L-methionine = a 2'-O-methyluridine in rRNA + S-adenosyl-L-homocysteine + H+.

Sequence Features

Domain/signature hits from InterPro and related databases.

15 records
Show feature table
Start End DB Term Name
54 166 CDD cd02440 AdoMet_MTases
15 208 Hamap MF_01547 Ribosomal RNA large subunit methyltransferase E [rlmE].
15 208 InterPro IPR015507 Ribosomal RNA large subunit methyltransferase E
1 209 PIRSF PIRSF005461 23S_rRNA_mtase
1 209 InterPro IPR015507 Ribosomal RNA large subunit methyltransferase E
31 206 Pfam PF01728 FtsJ-like methyltransferase
31 206 InterPro IPR002877 Ribosomal RNA methyltransferase, FtsJ domain
20 206 NCBIfam TIGR00438 23S rRNA (uridine(2552)-2'-O)-methyltransferase
20 206 InterPro IPR004512 Ribosomal RNA methyltransferase E, gammaproteobacteria
31 208 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases
31 208 InterPro IPR029063 S-adenosyl-L-methionine-dependent methyltransferase superfamily
28 209 FunFam G3DSA:3.40.50.150:FF:000005 Ribosomal RNA large subunit methyltransferase E
30 209 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39
30 209 InterPro IPR029063 S-adenosyl-L-methionine-dependent methyltransferase superfamily
13 208 PANTHER PTHR10920 RIBOSOMAL RNA METHYLTRANSFERASE

3D Structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; predicted models typically cover the full protein.

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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_A0A0H3GYY9
AlphaFold — — full sequence — Viewing
ColabFold KP13_01111
ColabFold — — full sequence — Loaded
Pocket details FPocket · P2Rank — toggle visibility and zoom from here, or open full viewer

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 4.61 0.2
2 2.47 0.068
3 1.26 0.013