Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Dual-specificity RNA methyltransferase RlmN

Gene

rlmN

Organism
Desulfotalea psychrophila (strain LSv54 / DSM 12343)
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. 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

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 sitei100Proton acceptorUniRule annotation1
Metal bindingi120Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Metal bindingi124Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Metal bindingi127Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Binding sitei209S-adenosyl-L-methionineUniRule annotation1
Binding sitei307S-adenosyl-L-methionine; via amide nitrogen and carbonyl oxygenUniRule annotation1
Active sitei350S-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:
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:DP1935
OrganismiDesulfotalea psychrophila (strain LSv54 / DSM 12343)
Taxonomic identifieri177439 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfobacteralesDesulfobulbaceaeDesulfotalea
Proteomesi
  • UP000000602 Componenti: Chromosome

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_00003501521 – 362Dual-specificity RNA methyltransferase RlmNAdd BLAST362

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi113 ↔ 350(transient)UniRule annotation

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi177439.DP1935.

Structurei

3D structure databases

ProteinModelPortaliQ6ALW1.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni177 – 178S-adenosyl-L-methionine bindingUniRule annotation2
Regioni231 – 233S-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.
OMAiIYHFGVS.
OrthoDBiPOG091H02LT.

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.

Q6ALW1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQEEITTNRE KIDLKNLSQD QLVEFAEKLG QPAFRGRQIM SWLYRPEVRD
60 70 80 90 100
FEQMTDLAKV FRKLLAENSF FSHFDDPIIE RAKDGCVKFG FRLHDGHVIE
110 120 130 140 150
TVLIPEPDRN TLCISSQVGC AMKCTFCMTG GMGFTRNLTP SEIVNQVCAA
160 170 180 190 200
RDFLANEPAD KLIGPDRVTN VVYMGMGEPL NNLENVLTSI SILTEQKGLD
210 220 230 240 250
LTGRRITVST CGIVANMARL GQEAPVNLAI SLHAVDDKTR DMLMPVNNRY
260 270 280 290 300
PLDELLEACR TYPMGKRRRI MFEYIMLAGI NDSDTEARTL ARKLQEIPCK
310 320 330 340 350
INLIPYNESP GLPYKSPGMK RILSFQNILR EANYSVFIRN SRGEDIAAAC
360
GQLATDETTK QS
Length:362
Mass (Da):40,799
Last modified:September 13, 2004 - v1
Checksum:i880175EADC019D11
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CR522870 Genomic DNA. Translation: CAG36664.1.
RefSeqiWP_011189176.1. NC_006138.1.

Genome annotation databases

EnsemblBacteriaiCAG36664; CAG36664; DP1935.
KEGGidps:DP1935.
PATRICi21713820. VBIDesPsy67261_2103.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CR522870 Genomic DNA. Translation: CAG36664.1.
RefSeqiWP_011189176.1. NC_006138.1.

3D structure databases

ProteinModelPortaliQ6ALW1.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi177439.DP1935.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAG36664; CAG36664; DP1935.
KEGGidps:DP1935.
PATRICi21713820. VBIDesPsy67261_2103.

Phylogenomic databases

eggNOGiENOG4105C55. Bacteria.
COG0820. LUCA.
HOGENOMiHOG000217992.
KOiK06941.
OMAiIYHFGVS.
OrthoDBiPOG091H02LT.

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_DESPS
AccessioniPrimary (citable) accession number: Q6ALW1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 2, 2008
Last sequence update: September 13, 2004
Last modified: November 2, 2016
This is version 80 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

Keywords - Technical termi

Complete proteome, Reference proteome

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.