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Protein

23S rRNA (uracil(747)-C(5))-methyltransferase RlmC

Gene

rlmC

Organism
Vibrio cholerae serotype O1 (strain M66-2)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the formation of 5-methyl-uridine at position 747 (m5U747) in 23S rRNA.UniRule annotation

Catalytic activityi

S-adenosyl-L-methionine + uracil(747) in 23S rRNA = S-adenosyl-L-homocysteine + 5-methyluracil(747) in 23S rRNA.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi3 – 31Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi11 – 111Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi14 – 141Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi87 – 871Iron-sulfur (4Fe-4S)UniRule annotation
Binding sitei212 – 2121S-adenosyl-L-methionineUniRule annotation
Binding sitei241 – 2411S-adenosyl-L-methionine; via carbonyl oxygenUniRule annotation
Binding sitei262 – 2621S-adenosyl-L-methionineUniRule annotation
Binding sitei307 – 3071S-adenosyl-L-methionineUniRule annotation
Active sitei334 – 3341NucleophileUniRule annotation

GO - Molecular functioni

Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

rRNA processing

Keywords - Ligandi

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

Enzyme and pathway databases

BioCyciVCHO579112:GJAW-3657-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
23S rRNA (uracil(747)-C(5))-methyltransferase RlmCUniRule annotation (EC:2.1.1.189UniRule annotation)
Alternative name(s):
23S rRNA(m5U747)-methyltransferaseUniRule annotation
Gene namesi
Name:rlmCUniRule annotation
Synonyms:rumB
Ordered Locus Names:VCM66_A0889
OrganismiVibrio cholerae serotype O1 (strain M66-2)
Taxonomic identifieri579112 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
Proteomesi
  • UP000001217 Componenti: Chromosome II

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 37537523S rRNA (uracil(747)-C(5))-methyltransferase RlmCPRO_1000148898Add
BLAST

Structurei

3D structure databases

ProteinModelPortaliC3LWJ3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. RlmC subfamily.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000218547.
KOiK03212.
OMAiNIQPIHM.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
HAMAPiMF_01012. 23SrRNA_methyltr_RlmC. 1 hit.
InterProiIPR011825. 23SrRNA_MeTrfase_RlmC.
IPR030390. MeTrfase_TrmA_AS.
IPR029063. SAM-dependent_MTases.
IPR010280. U5_MeTrfase_fam.
[Graphical view]
PfamiPF05958. tRNA_U5-meth_tr. 1 hit.
[Graphical view]
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR02085. meth_trns_rumB. 1 hit.
PROSITEiPS51687. SAM_MT_RNA_M5U. 1 hit.
PS01230. TRMA_1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

C3LWJ3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQCEFFIQKR CTSCHQCAQP YSQQVENKDQ QLRELIAPAM DVQWLPPVTS
60 70 80 90 100
ADTAFRNKAK MVVLGAAHAP ILGIEDAQGQ PLSLVTCPLY PQPMQELLAY
110 120 130 140 150
LENWIRIAGI PPYNKLKKKG ELKFILLTRS ENSGQFMLRF VARSHAVLER
160 170 180 190 200
IERNLPTLIA AFPTIEVVSV NIQPVHMARL EGEEEIFLTE TQSLLEQFND
210 220 230 240 250
VPMVIRPKSF FQTNPQVAEQ LYATARAWVR EIAPTQMWDL FCGVGGFALH
260 270 280 290 300
CAAPNTAVTG IEIEPEAIAS AQRSAQMMGI DNLSFAALDS AKFSQSQMSA
310 320 330 340 350
PELVLVNPPR RGLGSELTAQ LEALAPQHIL YSSCNPQTMV KDIAELASYQ
360 370
MSRVQWFDMF PHTDHAEVLT LLVRK
Length:375
Mass (Da):41,981
Last modified:June 16, 2009 - v1
Checksum:iBA5072091D5C1E4A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001234 Genomic DNA. Translation: ACP07848.1.
RefSeqiWP_001149825.1. NC_012580.1.

Genome annotation databases

EnsemblBacteriaiACP07848; ACP07848; VCM66_A0889.
KEGGivcm:VCM66_A0889.
PATRICi20070807. VBIVibCho108967_3409.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001234 Genomic DNA. Translation: ACP07848.1.
RefSeqiWP_001149825.1. NC_012580.1.

3D structure databases

ProteinModelPortaliC3LWJ3.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACP07848; ACP07848; VCM66_A0889.
KEGGivcm:VCM66_A0889.
PATRICi20070807. VBIVibCho108967_3409.

Phylogenomic databases

HOGENOMiHOG000218547.
KOiK03212.
OMAiNIQPIHM.

Enzyme and pathway databases

BioCyciVCHO579112:GJAW-3657-MONOMER.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
HAMAPiMF_01012. 23SrRNA_methyltr_RlmC. 1 hit.
InterProiIPR011825. 23SrRNA_MeTrfase_RlmC.
IPR030390. MeTrfase_TrmA_AS.
IPR029063. SAM-dependent_MTases.
IPR010280. U5_MeTrfase_fam.
[Graphical view]
PfamiPF05958. tRNA_U5-meth_tr. 1 hit.
[Graphical view]
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR02085. meth_trns_rumB. 1 hit.
PROSITEiPS51687. SAM_MT_RNA_M5U. 1 hit.
PS01230. TRMA_1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRLMC_VIBCM
AccessioniPrimary (citable) accession number: C3LWJ3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: June 16, 2009
Last modified: September 7, 2016
This is version 46 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete 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.