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Protein

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

Gene

rlmC

Organism
Salmonella paratyphi A (strain AKU_12601)
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

BioCyciSENT554290:GJDA-1870-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:SSPA1750
OrganismiSalmonella paratyphi A (strain AKU_12601)
Taxonomic identifieri554290 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeSalmonella

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 37537523S rRNA (uracil(747)-C(5))-methyltransferase RlmCPRO_1000200876Add
BLAST

Structurei

3D structure databases

ProteinModelPortaliB5BBV5.
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.
OrthoDBiEOG6V4GKM.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
HAMAPiMF_01012. 23SrRNA_methyltr_RlmC.
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.

B5BBV5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQCALYDAGR CRSCQWITQS VNEQLSAKTA DLHRLLAGLP VEQWCAPTGG
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 LLCRQ
Length:375
Mass (Da):42,029
Last modified:September 23, 2008 - v1
Checksum:i6B8F0DE7354E95E2
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FM200053 Genomic DNA. Translation: CAR59944.1.
RefSeqiWP_001149793.1. NC_011147.1.

Genome annotation databases

EnsemblBacteriaiCAR59944; CAR59944; SSPA1750.
KEGGisek:SSPA1750.
PATRICi32343555. VBISalEnt134303_2008.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FM200053 Genomic DNA. Translation: CAR59944.1.
RefSeqiWP_001149793.1. NC_011147.1.

3D structure databases

ProteinModelPortaliB5BBV5.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAR59944; CAR59944; SSPA1750.
KEGGisek:SSPA1750.
PATRICi32343555. VBISalEnt134303_2008.

Phylogenomic databases

HOGENOMiHOG000218547.
KOiK03212.
OMAiNIQPIHM.
OrthoDBiEOG6V4GKM.

Enzyme and pathway databases

BioCyciSENT554290:GJDA-1870-MONOMER.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
HAMAPiMF_01012. 23SrRNA_methyltr_RlmC.
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...

Publicationsi

  1. "Pseudogene accumulation in the evolutionary histories of Salmonella enterica serovars Paratyphi A and Typhi."
    Holt K.E., Thomson N.R., Wain J., Langridge G.C., Hasan R., Bhutta Z.A., Quail M.A., Norbertczak H., Walker D., Simmonds M., White B., Bason N., Mungall K., Dougan G., Parkhill J.
    BMC Genomics 10:36-36(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: AKU_12601.

Entry informationi

Entry nameiRLMC_SALPK
AccessioniPrimary (citable) accession number: B5BBV5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: September 23, 2008
Last modified: November 11, 2015
This is version 48 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.