rmtD

UniProt ID: B0F9V0
Organism: Klebsiella pneumoniae
Review Status: DRAFT
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Gene Description

rmtD encodes a 16S rRNA G1405 N7 methyltransferase in Klebsiella pneumoniae. UniProt/CARD identify this entry as an acquired aminoglycoside-resistance methyltransferase; methylation of 16S rRNA protects the ribosomal A site from clinically important aminoglycosides. UniProt names the protein '16S rRNA (guanine(1405)-N(7))-methyltransferase' (accession B0F9V0).

Existing Annotations Review

GO Term Evidence Action Reason
GO:0008649 rRNA methyltransferase activity
IEA
GO_REF:0000120 		MODIFY
Summary: The existing MF term is directionally correct but less informative than the family-specific AMR activity rRNA (guanine-N7-)-methyltransferase activity.
Reason: Replace the less-specific existing term 'rRNA methyltransferase activity' with rRNA (guanine-N7-)-methyltransferase activity based on UniProt/CARD determinant identity and the curated ARO->GO mapping.
Supporting Evidence:
file:genes/KLEPN/rmtD/rmtD-uniprot.txt
CC -!- FUNCTION: Specifically methylates the N7 position of guanine 1405 in CC 16S rRNA. Confers resistance to various aminoglycosides. CC {ECO:0000256|PIRNR:PIRNR015852}.
GO:0046677 response to antibiotic
IEA
GO_REF:0000120 		ACCEPT
Summary: The gene product is an antimicrobial-resistance determinant, so the antibiotic-response annotation is retained.
Reason: The CARD/ARO determinant identity supports an antibiotic-resistance biological role.
Supporting Evidence:
file:genes/KLEPN/rmtD/rmtD-uniprot.txt
CC -!- FUNCTION: Specifically methylates the N7 position of guanine 1405 in CC 16S rRNA. Confers resistance to various aminoglycosides. CC {ECO:0000256|PIRNR:PIRNR015852}.
GO:0046677 response to antibiotic
TAS
Reactome:R-HSA-9913143 		ACCEPT
Summary: The gene product is an antimicrobial-resistance determinant, so the antibiotic-response annotation is retained.
Reason: The CARD/ARO determinant identity supports an antibiotic-resistance biological role.
Supporting Evidence:
file:genes/KLEPN/rmtD/rmtD-uniprot.txt
CC -!- FUNCTION: Specifically methylates the N7 position of guanine 1405 in CC 16S rRNA. Confers resistance to various aminoglycosides. CC {ECO:0000256|PIRNR:PIRNR015852}.
GO:0005829 cytosol
TAS
Reactome:R-HSA-9911509 		ACCEPT
Summary: The cellular location is compatible with the encoded AMR enzyme and is retained.
Reason: The location is consistent with the protein type and existing UniProt/GOA evidence.
GO:0008649 rRNA methyltransferase activity
TAS
Reactome:R-HSA-9911509 		MODIFY
Summary: The existing MF term is directionally correct but less informative than the family-specific AMR activity rRNA (guanine-N7-)-methyltransferase activity.
Reason: Replace the less-specific TAS-supported term 'rRNA methyltransferase activity' with rRNA (guanine-N7-)-methyltransferase activity based on UniProt/CARD determinant identity and the curated ARO->GO mapping.
Supporting Evidence:
file:genes/KLEPN/rmtD/rmtD-uniprot.txt
CC -!- FUNCTION: Specifically methylates the N7 position of guanine 1405 in CC 16S rRNA. Confers resistance to various aminoglycosides. CC {ECO:0000256|PIRNR:PIRNR015852}.
GO:0070043 rRNA (guanine-N7-)-methyltransferase activity
RCA
file:projects/ANTIMICROBIAL_RESISTANCE/aro2go.sssom.yaml 		NEW
Summary: NEW candidate annotation from the curated ARO->GO mapping: rRNA (guanine-N7-)-methyltransferase activity.
Reason: The UniProt record cross-references a CARD/ARO AMR determinant, and the curated ARO->GO mapping projects the family-specific molecular function rRNA (guanine-N7-)-methyltransferase activity. This focused draft accepts the candidate as a curator lead for this AMR determinant.
Supporting Evidence:
file:projects/ANTIMICROBIAL_RESISTANCE/data/candidate_new_annotations.tsv
B0F9V0 ARO:3002667 ARO:3004271 narrower skos:relatedMatch GO:0070043 rRNA (guanine-N7-)-methyltransferase activity
file:genes/KLEPN/rmtD/rmtD-uniprot.txt
CC -!- FUNCTION: Specifically methylates the N7 position of guanine 1405 in CC 16S rRNA. Confers resistance to various aminoglycosides. CC {ECO:0000256|PIRNR:PIRNR015852}.

Core Functions

rmtD methylates 16S rRNA at guanine N7 in the ribosome, protecting the aminoglycoside binding site and contributing to antibiotic resistance.

Molecular Function:
rRNA (guanine-N7-)-methyltransferase activity
Directly Involved In:
response to antibiotic
Cellular Locations:
cytosol
Supporting Evidence:
  • file:genes/KLEPN/rmtD/rmtD-uniprot.txt
    CC -!- FUNCTION: Specifically methylates the N7 position of guanine 1405 in CC 16S rRNA. Confers resistance to various aminoglycosides. CC {ECO:0000256|PIRNR:PIRNR015852}.

References

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Suggested Questions for Experts

Q: Is the ARO-derived rRNA (guanine-N7-)-methyltransferase activity annotation sufficiently specific for rmtD, or is a narrower substrate/site-specific GO term warranted?

Suggested Experiments

Experiment: Biochemically assay purified rmtD against representative antibiotic substrates for the inferred AMR family and measure loss of drug activity or target modification.

Type: in vitro enzyme assay

📚 Additional Documentation

Notes

(rmtD-notes.md)

Notes: rmtD

Focused AMR batch review. UniProt accession: B0F9V0. Source organism: Klebsiella pneumoniae.

  • UniProt/CARD provenance: DR CARD; ARO:3002667; rmtD; ARO:0001001; antibiotic target alteration.
  • ARO-to-GO candidate: GO:0070043 (rRNA (guanine-N7-)-methyltransferase activity) from projects/ANTIMICROBIAL_RESISTANCE/data/candidate_new_annotations.tsv and projects/ANTIMICROBIAL_RESISTANCE/aro2go.sssom.yaml.
  • This is a DRAFT focused review intended to cover the AMR annotation gap; it has not had a gene-specific deep-research pass.

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