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Protein

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

Gene

rlmC

Organism
Escherichia coli (strain K12 / DH10B)
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

BioCyciECOL316385:GJ8B-912-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:ECDH10B_0929
OrganismiEscherichia coli (strain K12 / DH10B)
Taxonomic identifieri316385 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 37537523S rRNA (uracil(747)-C(5))-methyltransferase RlmCPRO_1000200863Add
BLAST

Proteomic databases

PRIDEiB1X800.

Interactioni

Protein-protein interaction databases

STRINGi316385.ECDH10B_0929.

Structurei

3D structure databases

ProteinModelPortaliB1X800.
SMRiB1X800. Positions 209-375.
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

eggNOGiENOG4107SFS. Bacteria.
COG2265. LUCA.
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.

B1X800-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQCALYDAGR CRSCQWIMQP IPEQLSAKTA DLKNLLADFP VEEWCAPVSG
60 70 80 90 100
PEQGFRNKAK MVVSGSVEKP LLGMLHRDGT PEDLCDCPLY PASFAPVFAA
110 120 130 140 150
LKPFIARAGL TPYNVARKRG ELKYILLTES QSDGGMMLRF VLRSDTKLAQ
160 170 180 190 200
LRKALPWLHE QLPQLKVITV NIQPVHMAIM EGETEIYLTE QQALAERFND
210 220 230 240 250
VPLWIRPQSF FQTNPAVASQ LYATARDWVR QLPVKHMWDL FCGVGGFGLH
260 270 280 290 300
CATPDMQLTG IEIASEAIAC AKQSAAELGL TRLQFQALDS TQFATAQGDV
310 320 330 340 350
PELVLVNPPR RGIGKPLCDY LSTMAPRFII YSSCNAQTMA KDIRELPGFR
360 370
IERVQLFDMF PHTAHYEVLT LLVKQ
Length:375
Mass (Da):41,956
Last modified:May 20, 2008 - v1
Checksum:iEDFE591BE2B9DE7D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000948 Genomic DNA. Translation: ACB02060.1.
RefSeqiWP_001149682.1. NC_010473.1.

Genome annotation databases

EnsemblBacteriaiACB02060; ACB02060; ECDH10B_0929.
KEGGiecd:ECDH10B_0929.
PATRICi18461670. VBIEscCol59506_0937.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000948 Genomic DNA. Translation: ACB02060.1.
RefSeqiWP_001149682.1. NC_010473.1.

3D structure databases

ProteinModelPortaliB1X800.
SMRiB1X800. Positions 209-375.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi316385.ECDH10B_0929.

Proteomic databases

PRIDEiB1X800.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACB02060; ACB02060; ECDH10B_0929.
KEGGiecd:ECDH10B_0929.
PATRICi18461670. VBIEscCol59506_0937.

Phylogenomic databases

eggNOGiENOG4107SFS. Bacteria.
COG2265. LUCA.
HOGENOMiHOG000218547.
KOiK03212.
OMAiNIQPIHM.
OrthoDBiEOG6V4GKM.

Enzyme and pathway databases

BioCyciECOL316385:GJ8B-912-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. "The complete genome sequence of Escherichia coli DH10B: insights into the biology of a laboratory workhorse."
    Durfee T., Nelson R., Baldwin S., Plunkett G. III, Burland V., Mau B., Petrosino J.F., Qin X., Muzny D.M., Ayele M., Gibbs R.A., Csorgo B., Posfai G., Weinstock G.M., Blattner F.R.
    J. Bacteriol. 190:2597-2606(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / DH10B.

Entry informationi

Entry nameiRLMC_ECODH
AccessioniPrimary (citable) accession number: B1X800
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: May 20, 2008
Last modified: November 11, 2015
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.