Protein profile

VK055_1491

23S rRNA m5C1962 methyltransferase monomer

Genome: KpATCC43816

Gene: rlmI AIK80111.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GQU0
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Amino acids 367
Annotations 5
Features 20
PDB binders 0
Druggability 0.372

Overview

Basic information about this protein and its source genome.

Accession
VK055_1491
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
rlmI AIK80111.1
Status
annotated
Amino acids
367
Structure source
AlphaFold + ColabFold
EC
2.1.1.191
GO
GO:0008168 Catalysis of the transfer of a methyl group to an acceptor molecule. GO:0003723 Binding to an RNA molecule or a portion thereof. 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
96.64

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 0.752 · Pocket 2
P2Rank 0.666 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 113 / 4744 genomes with a hit
Normalized 0.024

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 4 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

4
  • GO:0008168 Catalysis of the transfer of a methyl group to an acceptor molecule.
  • GO:0003723 Binding to an RNA molecule or a portion thereof.
  • 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.

20 records
Show feature table
Start End DB Term Name
1 42 Gene3D G3DSA:2.30.130.10 PUA domain
1 42 InterPro IPR036974 PUA domain superfamily
44 152 Gene3D G3DSA:3.30.750.80 RNA methyltransferase domain (HRMD) like
1 51 ProSiteProfiles PS50890 PUA domain profile.
3 367 PANTHER PTHR42873 RIBOSOMAL RNA LARGE SUBUNIT METHYLTRANSFERASE
153 367 FunFam G3DSA:3.40.50.150:FF:000044 Ribosomal RNA large subunit methyltransferase I
48 147 CDD cd11572 RlmI_M_like
50 363 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases
50 363 InterPro IPR029063 S-adenosyl-L-methionine-dependent methyltransferase superfamily
194 308 CDD cd02440 AdoMet_MTases
4 39 Pfam PF17785 PUA-like domain
4 39 InterPro IPR041532 RlmI-like, PUA domain
153 367 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39
153 367 InterPro IPR029063 S-adenosyl-L-methionine-dependent methyltransferase superfamily
1 43 CDD cd21153 PUA_RlmI
1 43 InterPro IPR041532 RlmI-like, PUA domain
153 342 Pfam PF10672 S-adenosylmethionine-dependent methyltransferase
153 342 InterPro IPR019614 S-adenosylmethionine-dependent methyltransferase
2 43 SUPERFAMILY SSF88697 PUA domain-like
2 43 InterPro IPR015947 PUA-like 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 VK055_1491
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
2 0.146
8 0.003
1 0.002

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 19.45 0.775
2 5.25 0.202
3 3.61 0.108
4 2.7 0.065
5 1.65 0.023