Protein profile

KP13_03881

Ribosomal RNA large subunit methyltransferase I

Genome: KpKP13

Gene: rlmI AHE45372.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GQU0
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Amino acids 391
Annotations 6
Features 24
PDB binders 0
Druggability 0.372

Overview

Basic information about this protein and its source genome.

Accession
KP13_03881
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
rlmI AHE45372.1
Status
annotated
Amino acids
391
Structure source
AlphaFold + ColabFold
EC
2.1.1.191
GO
GO:0003723 Binding to an RNA molecule or a portion thereof. GO:0008649 Catalysis of the transfer of a methyl group from S-adenosyl-L-methionine to a nucleoside residue in an rRNA molecule. The methyl group can be transfered to the nucleobase or to the ribose group of the nucleoside. 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. GO:0016434 Catalysis of the reaction: S-adenosyl-L-methionine + rRNA = S-adenosyl-L-homocysteine + rRNA containing methylcytosine.

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
96.88

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 0.372
Structure A0A0H3GQU0
Pocket Pocket 4
P2Rank 0.775
Structure A0A0H3GQU0
Pocket Pocket 1
ColabFold model
FPocket 0.7 · Pocket 1
P2Rank 0.817 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 118 / 4744 genomes with a hit
Normalized 0.025

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 5 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

5
  • GO:0003723 Binding to an RNA molecule or a portion thereof.
  • GO:0008649 Catalysis of the transfer of a methyl group from S-adenosyl-L-methionine to a nucleoside residue in an rRNA molecule. The methyl group can be transfered to the nucleobase or to the ribose group of the nucleoside.
  • 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.
  • GO:0016434 Catalysis of the reaction: S-adenosyl-L-methionine + rRNA = S-adenosyl-L-homocysteine + rRNA containing methylcytosine.

Sequence Features

Domain/signature hits from InterPro and related databases.

24 records
Show feature table
Start End DB Term Name
72 171 CDD cd11572 RlmI_M_like
2 67 SUPERFAMILY SSF88697 PUA domain-like
2 67 InterPro IPR015947 PUA-like superfamily
2 391 PANTHER PTHR42873 RIBOSOMAL RNA LARGE SUBUNIT METHYLTRANSFERASE
4 75 ProSiteProfiles PS50890 PUA domain profile.
1 391 Hamap MF_01857 Ribosomal RNA large subunit methyltransferase I [rlmI].
1 391 InterPro IPR023542 Ribosomal RNA large subunit methyltransferase I
2 67 CDD cd21153 PUA_RlmI
2 67 InterPro IPR041532 RlmI-like, PUA domain
218 332 CDD cd02440 AdoMet_MTases
2 63 Pfam PF17785 PUA-like domain
2 63 InterPro IPR041532 RlmI-like, PUA domain
177 391 FunFam G3DSA:3.40.50.150:FF:000044 Ribosomal RNA large subunit methyltransferase I
74 387 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases
74 387 InterPro IPR029063 S-adenosyl-L-methionine-dependent methyltransferase superfamily
177 366 Pfam PF10672 S-adenosylmethionine-dependent methyltransferase
177 366 InterPro IPR019614 S-adenosylmethionine-dependent methyltransferase
177 391 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39
177 391 InterPro IPR029063 S-adenosyl-L-methionine-dependent methyltransferase superfamily
2 83 SMART SM00359 pua_5
2 83 InterPro IPR002478 PUA domain
68 176 Gene3D G3DSA:3.30.750.80 RNA methyltransferase domain (HRMD) like
1 67 Gene3D G3DSA:2.30.130.10 PUA domain
1 67 InterPro IPR036974 PUA 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_A0A0H3GQU0
AlphaFold — — full sequence — Viewing
ColabFold KP13_03881
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
4 0.372

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 13.88 0.702
2 3.32 0.117
3 2.27 0.056
4 1.45 0.019