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Protein

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

Gene

rlmC

Organism
Salmonella dublin (strain CT_02021853)
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)DescriptionActionsGraphical viewLength
Metal bindingi3Iron-sulfur (4Fe-4S)UniRule annotation1
Metal bindingi11Iron-sulfur (4Fe-4S)UniRule annotation1
Metal bindingi14Iron-sulfur (4Fe-4S)UniRule annotation1
Metal bindingi87Iron-sulfur (4Fe-4S)UniRule annotation1
Binding sitei212S-adenosyl-L-methionineUniRule annotation1
Binding sitei241S-adenosyl-L-methionine; via carbonyl oxygenUniRule annotation1
Binding sitei262S-adenosyl-L-methionineUniRule annotation1
Binding sitei307S-adenosyl-L-methionineUniRule annotation1
Active sitei334NucleophileUniRule annotation1

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

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:SeD_A0987
OrganismiSalmonella dublin (strain CT_02021853)
Taxonomic identifieri439851 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeSalmonella

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10002008731 – 37523S rRNA (uracil(747)-C(5))-methyltransferase RlmCAdd BLAST375

Structurei

3D structure databases

ProteinModelPortaliB5FPZ6.
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.
IPR030391. MeTrfase_TrmA_CS.
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.
PS01231. TRMA_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

B5FPZ6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQCALYDAGR CRSCQWITQS VNEQLSAKTA DLHRLLAGLP VEQWCSPIGG
60 70 80 90 100
PEQHFRNKAK MVVSGSVEKP LFGMLHRDGT PVDLCGCPLY PASFAPVFSA
110 120 130 140 150
LKPFIARAGL TPYNVARKRG ELKYLLLTES QFDGGMMLRF VLRSETKLTQ
160 170 180 190 200
LRAALPWLRA QLPQLRVITA NIQPVHMAIM EGETEIYLTD QQALAERFND
210 220 230 240 250
VPLWIRPQSF FQTNPTVASR LYATARDWVG QLPVRHMWDL FCGVGGFGLH
260 270 280 290 300
CATPQMQLTG IEIAPEAIAC AKQSAAELGL TRLHFQALDS TQFATAQGET
310 320 330 340 350
PDLVLVNPPR RGIGKPLCDY LAQMAPRFII YSSCNAQTMA QDIRHLPNYR
360 370
IQRVQLFDMF PHTAHYEVLT LLCRL
Length:375
Mass (Da):42,042
Last modified:October 14, 2008 - v1
Checksum:i7D9FCA0DCBB6B013
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001144 Genomic DNA. Translation: ACH74450.1.
RefSeqiWP_001149796.1. NC_011205.1.

Genome annotation databases

EnsemblBacteriaiACH74450; ACH74450; SeD_A0987.
KEGGised:SeD_A0987.
PATRICi18490169. VBISalEnt111443_1039.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001144 Genomic DNA. Translation: ACH74450.1.
RefSeqiWP_001149796.1. NC_011205.1.

3D structure databases

ProteinModelPortaliB5FPZ6.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACH74450; ACH74450; SeD_A0987.
KEGGised:SeD_A0987.
PATRICi18490169. VBISalEnt111443_1039.

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.
IPR030391. MeTrfase_TrmA_CS.
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.
PS01231. TRMA_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRLMC_SALDC
AccessioniPrimary (citable) accession number: B5FPZ6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: October 14, 2008
Last modified: November 2, 2016
This is version 55 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

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.