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Protein

Probable dual-specificity RNA methyltransferase RlmN

Gene

rlmN

Organism
Streptococcus suis (strain 98HAH33)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-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

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 sitei91Proton acceptorUniRule annotation1
Metal bindingi111Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Metal bindingi115Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Metal bindingi118Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Binding sitei195S-adenosyl-L-methionineUniRule annotation1
Binding sitei296S-adenosyl-L-methionine; via amide nitrogen and carbonyl oxygenUniRule annotation1
Active sitei340S-methylcysteine intermediateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

rRNA processing, tRNA processing

Keywords - Ligandi

4Fe-4S, Iron, Iron-sulfur, Metal-binding, S-adenosyl-L-methionine

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:SSU98_1686
OrganismiStreptococcus suis (strain 98HAH33)
Taxonomic identifieri391296 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesStreptococcaceaeStreptococcus

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003504691 – 370Probable dual-specificity RNA methyltransferase RlmNAdd BLAST370

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi104 ↔ 340(transient)UniRule annotation

Keywords - PTMi

Disulfide bond

Structurei

3D structure databases

ProteinModelPortaliA4W3A5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni163 – 164S-adenosyl-L-methionine bindingUniRule annotation2
Regioni218 – 220S-adenosyl-L-methionine bindingUniRule annotation3

Sequence similaritiesi

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

Phylogenomic databases

HOGENOMiHOG000217991.
KOiK06941.
OMAiVNNRWSV.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01849. RNA_methyltr_RlmN. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR027492. RNA_MTrfase_RlmN.
IPR004383. rRNA_lsu_MTrfase_RlmN/Cfr.
IPR007197. rSAM.
[Graphical view]
PANTHERiPTHR30544. PTHR30544. 1 hit.
PfamiPF04055. Radical_SAM. 1 hit.
[Graphical view]
PIRSFiPIRSF006004. CHP00048. 1 hit.
TIGRFAMsiTIGR00048. rRNA_mod_RlmN. 1 hit.

Sequencei

Sequence statusi: Complete.

A4W3A5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKPSIYAFSQ ANLVDWILEN GEKKFRATQI WEWLYRSRVQ SFAEMTNLPK
60 70 80 90 100
SLIEKLEEHF VVNPLKQRIV QESKDGTIKY LFELPDGMLI ETVLMHQHYG
110 120 130 140 150
LSVCVTTQVG CNIGCTFCAS GLIPKQRDLT SGEIVAQIML VQKYLDERNQ
160 170 180 190 200
NERVSHIVVM GIGEPLDNYD NVMTFLRVVN DDKGLAIGAR HITVSTSGLA
210 220 230 240 250
PKIREFAREG VQVNLAVSLH APNNDLRSSI MRINRKFPIE VLFEAIEDYI
260 270 280 290 300
KVTNRRVTFE YIMLNEVNDG VEQAQELADL TKNIRKLSYI NLIPYNPVSE
310 320 330 340 350
HDQYSRSTKE RTLAFFDVLK KNGVNCVVRQ EHGTDIDAAC GQLRSNTLKK
360 370
DREKARARIA AAKAKAGIRA
Length:370
Mass (Da):42,060
Last modified:May 29, 2007 - v1
Checksum:iE90BAF008866B358
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000408 Genomic DNA. Translation: ABP92844.1.

Genome annotation databases

EnsemblBacteriaiABP92844; ABP92844; SSU98_1686.
KEGGissv:SSU98_1686.
PATRICi19779594. VBIStrSui72275_1654.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000408 Genomic DNA. Translation: ABP92844.1.

3D structure databases

ProteinModelPortaliA4W3A5.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABP92844; ABP92844; SSU98_1686.
KEGGissv:SSU98_1686.
PATRICi19779594. VBIStrSui72275_1654.

Phylogenomic databases

HOGENOMiHOG000217991.
KOiK06941.
OMAiVNNRWSV.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01849. RNA_methyltr_RlmN. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR027492. RNA_MTrfase_RlmN.
IPR004383. rRNA_lsu_MTrfase_RlmN/Cfr.
IPR007197. rSAM.
[Graphical view]
PANTHERiPTHR30544. PTHR30544. 1 hit.
PfamiPF04055. Radical_SAM. 1 hit.
[Graphical view]
PIRSFiPIRSF006004. CHP00048. 1 hit.
TIGRFAMsiTIGR00048. rRNA_mod_RlmN. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiRLMN_STRS2
AccessioniPrimary (citable) accession number: A4W3A5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 2, 2008
Last sequence update: May 29, 2007
Last modified: November 2, 2016
This is version 67 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

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

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.