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Protein

Probable dual-specificity RNA methyltransferase RlmN

Gene

rlmN

Organism
Chloroherpeton thalassium (strain ATCC 35110 / GB-78)
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)LengthDescriptionGraphical viewFeature identifierActions
Active sitei98 – 981Proton acceptorUniRule annotation
Metal bindingi120 – 1201Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation
Metal bindingi124 – 1241Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation
Metal bindingi127 – 1271Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation
Binding sitei204 – 2041S-adenosyl-L-methionineUniRule annotation
Binding sitei303 – 3031S-adenosyl-L-methionine; via amide nitrogen and carbonyl oxygenUniRule annotation
Active sitei346 – 3461S-methylcysteine intermediateUniRule annotation

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

Enzyme and pathway databases

BioCyciCTHA517418:GHTO-1561-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:Ctha_1529
OrganismiChloroherpeton thalassium (strain ATCC 35110 / GB-78)
Taxonomic identifieri517418 [NCBI]
Taxonomic lineageiBacteriaChlorobiChlorobiaChlorobialesChlorobiaceaeChloroherpeton
ProteomesiUP000001208 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 369369Probable dual-specificity RNA methyltransferase RlmNPRO_1000188560Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi113 ↔ 346(transient)UniRule annotation

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi517418.Ctha_1529.

Structurei

3D structure databases

ProteinModelPortaliB3QS43.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni171 – 1722S-adenosyl-L-methionine bindingUniRule annotation
Regioni227 – 2293S-adenosyl-L-methionine bindingUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0820.
HOGENOMiHOG000217992.
KOiK06941.
OMAiKWDASPK.
OrthoDBiEOG6DJZ2N.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01849. RNA_methyltr_RlmN.
InterProiIPR013785. Aldolase_TIM.
IPR006638. Elp3/MiaB/NifB.
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.
SMARTiSM00729. Elp3. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00048. rRNA_mod_RlmN. 1 hit.

Sequencei

Sequence statusi: Complete.

B3QS43-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNEVKHDIKA LSLEALMALI NSYGQPAFRA KQIFHWIYAH GVTDFAQMKN
60 70 80 90 100
LSASFQTLLS QHFTVSSIQP HADTVSHEIT PEQTVKFLFR LSDEQSIESV
110 120 130 140 150
FIPSDSTSRN TLCISSQVGC AFACKFCATG YMGFIRNLTI GEILDQVLWV
160 170 180 190 200
NRWLGDQRGG KITNVVFMGM GEPLANFDNC LAAIRILTNP DYAFQISTRK
210 220 230 240 250
ITVSTVGFIP GIQRLIDTGI NCKLAISLHS AHQAIREELI PIAKEYSLAT
260 270 280 290 300
LKAILTRYNQ AYKQPITFEY SLIHKINDSE QDAILLSKFC KGINCKINLI
310 320 330 340 350
DYNSVDNIDY LPSPEGHKQA FIRKCIEHGL TVTVRKSRGA DIQAACGQLA
360
IQHVHGKKFS KIQTSRHST
Length:369
Mass (Da):41,258
Last modified:September 2, 2008 - v1
Checksum:i81EDE70188B3A8A1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001100 Genomic DNA. Translation: ACF13988.1.

Genome annotation databases

EnsemblBacteriaiACF13988; ACF13988; Ctha_1529.
KEGGicts:Ctha_1529.
PATRICi21431979. VBIChlTha99257_1791.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001100 Genomic DNA. Translation: ACF13988.1.

3D structure databases

ProteinModelPortaliB3QS43.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi517418.Ctha_1529.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACF13988; ACF13988; Ctha_1529.
KEGGicts:Ctha_1529.
PATRICi21431979. VBIChlTha99257_1791.

Phylogenomic databases

eggNOGiCOG0820.
HOGENOMiHOG000217992.
KOiK06941.
OMAiKWDASPK.
OrthoDBiEOG6DJZ2N.

Enzyme and pathway databases

BioCyciCTHA517418:GHTO-1561-MONOMER.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01849. RNA_methyltr_RlmN.
InterProiIPR013785. Aldolase_TIM.
IPR006638. Elp3/MiaB/NifB.
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.
SMARTiSM00729. Elp3. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00048. rRNA_mod_RlmN. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "Complete sequence of Chloroherpeton thalassium ATCC 35110."
    US DOE Joint Genome Institute
    Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N., Liu Z., Li T., Zhao F.
    , Overmann J., Bryant D.A., Richardson P.
    Submitted (JUN-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 35110 / GB-78.

Entry informationi

Entry nameiRLMN_CHLT3
AccessioniPrimary (citable) accession number: B3QS43
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: September 2, 2008
Last modified: July 22, 2015
This is version 49 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

External Data

Dasty 3

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 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.