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Protein

Dual-specificity RNA methyltransferase RlmN

Gene

rlmN

Organism
Coxiella burnetii (strain RSA 493 / Nine Mile phase I)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

Specifically methylates position 2 of adenine 2503 in 23S rRNA and position 2 of adenine 37 in tRNAs. m2A2503 modification seems to play a crucial role in the proofreading step occurring at the peptidyl transferase center and thus would serve to optimize ribosomal fidelity.UniRule annotation

Miscellaneous

Reaction proceeds by a ping-pong mechanism involving intermediate methylation of a conserved cysteine residue.UniRule annotation

Catalytic activityi

2 S-adenosyl-L-methionine + adenine(2503) in 23S rRNA + 2 reduced [2Fe-2S] ferredoxin = S-adenosyl-L-homocysteine + L-methionine + 5'-deoxyadenosine + 2-methyladenine(2503) in 23S rRNA + 2 oxidized [2Fe-2S] ferredoxin.UniRule annotation
2 S-adenosyl-L-methionine + adenine(37) in tRNA + 2 reduced [2Fe-2S] ferredoxin = S-adenosyl-L-homocysteine + L-methionine + 5'-deoxyadenosine + 2-methyladenine(37) in tRNA + 2 oxidized [2Fe-2S] ferredoxin.UniRule annotation

Cofactori

[4Fe-4S] clusterUniRule annotationNote: Binds 1 [4Fe-4S] cluster. The cluster is coordinated with 3 cysteines and an exchangeable S-adenosyl-L-methionine.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei93Proton acceptorUniRule annotation1
Metal bindingi113Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Metal bindingi117Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Metal bindingi120Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Binding sitei194S-adenosyl-L-methionineUniRule annotation1
Binding sitei293S-adenosyl-L-methionine; via amide nitrogen and carbonyl oxygenUniRule annotation1
Active sitei336S-methylcysteine intermediateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionMethyltransferase, Transferase
Biological processrRNA processing, tRNA processing
Ligand4Fe-4S, Iron, Iron-sulfur, Metal-binding, S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyciCBUR227377:G1G0B-1235-MONOMER

Names & Taxonomyi

Protein namesi
Recommended name:
Dual-specificity RNA methyltransferase RlmNUniRule annotation (EC:2.1.1.192UniRule annotation)
Alternative name(s):
23S rRNA (adenine(2503)-C(2))-methyltransferaseUniRule annotation
23S rRNA m2A2503 methyltransferaseUniRule annotation
Ribosomal RNA large subunit methyltransferase NUniRule annotation
tRNA (adenine(37)-C(2))-methyltransferaseUniRule annotation
tRNA m2A37 methyltransferaseUniRule annotation
Gene namesi
Name:rlmNUniRule annotation
Ordered Locus Names:CBU_1252
OrganismiCoxiella burnetii (strain RSA 493 / Nine Mile phase I)
Taxonomic identifieri227377 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaLegionellalesCoxiellaceaeCoxiella
Proteomesi
  • UP000002671 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003501391 – 370Dual-specificity RNA methyltransferase RlmNAdd BLAST370

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi106 ↔ 336(transient)UniRule annotation

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi227377.CBU_1252

Structurei

3D structure databases

ProteinModelPortaliQ83C77
SMRiQ83C77
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni162 – 163S-adenosyl-L-methionine bindingUniRule annotation2
Regioni216 – 218S-adenosyl-L-methionine bindingUniRule annotation3

Sequence similaritiesi

Belongs to the radical SAM superfamily. RlmN family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105C55 Bacteria
COG0820 LUCA
HOGENOMiHOG000217992
KOiK06941
OMAiCGQLANK

Family and domain databases

Gene3Di3.20.20.70, 1 hit
HAMAPiMF_01849 RNA_methyltr_RlmN, 1 hit
InterProiView protein in InterPro
IPR013785 Aldolase_TIM
IPR027492 RNA_MTrfase_RlmN
IPR004383 rRNA_lsu_MTrfase_RlmN/Cfr
IPR007197 rSAM
PANTHERiPTHR30544 PTHR30544, 1 hit
PfamiView protein in Pfam
PF04055 Radical_SAM, 1 hit
PIRSFiPIRSF006004 CHP00048, 1 hit
SFLDiSFLDF00275 adenosine_C2_methyltransferase, 1 hit
SFLDS00029 Radical_SAM, 1 hit
TIGRFAMsiTIGR00048 rRNA_mod_RlmN, 1 hit

Sequencei

Sequence statusi: Complete.

Q83C77-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTEKINLLNL SEPELQGFIA SQGQPLYRAT QLLQWIHQRG VTDFSLMTDL
60 70 80 90 100
SKPFRQQLSE ASFVRVPELA LERVSADGTH KWLFRLADNN KIETVFIPDR
110 120 130 140 150
KRGTLCVSSQ VGCALNCSFC ATGKEGFNRN LTLAEIIGQV WLAARLLKSP
160 170 180 190 200
YKITNVVMMG MGEPLLNYEA VVAAMHLMMH DHAYGLSKYR VTLSTSGVIP
210 220 230 240 250
AMRRLREESP VSLAVSLHAP NDALRNVLIP LNKKYSLDQL IPLCRDYYSR
260 270 280 290 300
GSKRCVTFEY VMIEGMNDRL IDAKQLIRLL ADVPCKINLI PFNSFQGTAY
310 320 330 340 350
RCSTESAISV FQKCLMDAGF NTRVRRTRGD DIAGACGQLA GQFHDRTGRH
360 370
QRWVQKQGHD FNRPIPAIDH
Length:370
Mass (Da):41,733
Last modified:June 1, 2003 - v1
Checksum:i0558478862C5536C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE016828 Genomic DNA Translation: AAO90760.1
RefSeqiNP_820246.1, NC_002971.3
WP_010958104.1, NC_002971.4

Genome annotation databases

EnsemblBacteriaiAAO90760; AAO90760; CBU_1252
GeneIDi1209157
31483951
KEGGicbu:CBU_1252
PATRICifig|227377.7.peg.1243

Similar proteinsi

Entry informationi

Entry nameiRLMN_COXBU
AccessioniPrimary (citable) accession number: Q83C77
Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 2, 2008
Last sequence update: June 1, 2003
Last modified: February 28, 2018
This is version 99 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Coxiella burnetii
    Coxiella burnetii (strain RSA 493): entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

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