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Protein

Probable dual-specificity RNA methyltransferase RlmN

Gene

rlmN

Organism
Frankia casuarinae (strain DSM 45818 / CECT 9043 / CcI3)
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.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 sitei127Proton acceptorUniRule annotation1
Metal bindingi147Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Metal bindingi151Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Metal bindingi154Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Binding sitei236S-adenosyl-L-methionineUniRule annotation1
Binding sitei335S-adenosyl-L-methionine; via amide nitrogen and carbonyl oxygenUniRule annotation1
Active sitei378S-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

BioCyciFSP106370:G1G5U-3707-MONOMER

Names & Taxonomyi

Protein namesi
Recommended name:
Probable 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:Francci3_3577
OrganismiFrankia casuarinae (strain DSM 45818 / CECT 9043 / CcI3)
Taxonomic identifieri106370 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaFrankialesFrankiaceaeFrankia
Proteomesi

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003501891 – 421Probable dual-specificity RNA methyltransferase RlmNAdd BLAST421

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi140 ↔ 378(transient)UniRule annotation

Keywords - PTMi

Disulfide bond

Proteomic databases

PRIDEiQ2J713

Interactioni

Protein-protein interaction databases

STRINGi106370.Francci3_3577

Structurei

3D structure databases

ProteinModelPortaliQ2J713
SMRiQ2J713
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni202 – 203S-adenosyl-L-methionine bindingUniRule annotation2
Regioni259 – 261S-adenosyl-L-methionine bindingUniRule annotation3

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105C55 Bacteria
COG0820 LUCA
HOGENOMiHOG000217991
KOiK06941
OMAiCGQLANK
OrthoDBiPOG091H02LT

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.

Q2J713-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTATTAESGR PDQPPTAEAG RPVRLTLTRR AGRAPRHLAD LTRQERRDVA
60 70 80 90 100
VSLGQPAFRA DQVARHYYAR LIAADEPEAM TDLPERDRQP LLDALLPRLL
110 120 130 140 150
VPVRTLSCDD GLTRKTAWRT VDGASLESVI MRYPDRATVC VSSQAGCGMG
160 170 180 190 200
CPFCATGQGG LTRNLSTAEI VEQVVHAARV LRRRELAGGE TRLSNVVFMG
210 220 230 240 250
MGEPLANYAA VIAALRRLTA HPPEGLGLSA RGLTVSTVGL VPAIRRLAGE
260 270 280 290 300
GLPVTLAVSL HAPDDVLRNE LVPINTRWPV VEVLAAAWEY AEVTGRRVSV
310 320 330 340 350
EYALIDGVND DVGRADALAD LLVGRLAHVN LIPLNPTGGS SWRASAPAGQ
360 370 380 390 400
RAFVRRLRDR GIVTTVRDTR GREIAAACGQ LAAEPAGKPE RTDRPEQVGS
410 420
DRLVEFGAVG STTPDGDRVL R
Length:421
Mass (Da):45,196
Last modified:March 7, 2006 - v1
Checksum:i9CEE0102341EFD7D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000249 Genomic DNA Translation: ABD12929.1
RefSeqiWP_011437953.1, NC_007777.1

Genome annotation databases

EnsemblBacteriaiABD12929; ABD12929; Francci3_3577
GeneIDi32158424
KEGGifra:Francci3_3577

Entry informationi

Entry nameiRLMN_FRACC
AccessioniPrimary (citable) accession number: Q2J713
Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 2, 2008
Last sequence update: March 7, 2006
Last modified: May 23, 2018
This is version 84 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. SIMILARITY comments
    Index of protein domains and families

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