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Protein

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

Gene

rlmC

Organism
Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)
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

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:YE1490
OrganismiYersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)
Taxonomic identifieri393305 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia
Proteomesi
  • UP000000642 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 37537523S rRNA (uracil(747)-C(5))-methyltransferase RlmCPRO_1000063009Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi393305.YE1490.

Structurei

3D structure databases

ProteinModelPortaliA1JM74.
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.
InterProiIPR001566. 23S_rRNA_MeTrfase_RlmD.
IPR011825. 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.
TIGR00479. rumA. 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.

A1JM74-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQCAQYTASR CRSCQWLDKP YPQQLADKQN HLENLLSDHR VTQWLSPLFG
60 70 80 90 100
QESAFRNKAK MVVSGSVERP LLGMLHRDGT PVDLCECPLY PTSFAPVFAV
110 120 130 140 150
LKTFIARAGL TPYNVARKRG ELKFLLLTES TYSGELMLRF VLRSQTKLSQ
160 170 180 190 200
LQAALPWLQQ QLPQLAVISV NIQPVHMAIL EGEQEMPLTE QQALPEIFNQ
210 220 230 240 250
VPLFIRPQSF FQTNPQVAAS LYATARQWVR ELKIDSMWDL FCGVGGFGLH
260 270 280 290 300
CADTETRLTG IEISAEAIAC ARQSADQLGL KNVTFAALDS TQFATAETQV
310 320 330 340 350
PQLVLVNPPR RGIGAQLCEY LSQMAPQFIL YSSCNAETMA KDISLLADYR
360 370
IERVQLFDMF PHTAHYEVLS LLIKC
Length:375
Mass (Da):42,162
Last modified:February 6, 2007 - v1
Checksum:i951489137DEE6998
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM286415 Genomic DNA. Translation: CAL11576.1.
RefSeqiWP_011816017.1. NC_008800.1.
YP_001005793.1. NC_008800.1.

Genome annotation databases

EnsemblBacteriaiCAL11576; CAL11576; YE1490.
GeneIDi4713299.
KEGGiyen:YE1490.
PATRICi18562498. VBIYerEnt11519_1619.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM286415 Genomic DNA. Translation: CAL11576.1.
RefSeqiWP_011816017.1. NC_008800.1.
YP_001005793.1. NC_008800.1.

3D structure databases

ProteinModelPortaliA1JM74.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi393305.YE1490.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAL11576; CAL11576; YE1490.
GeneIDi4713299.
KEGGiyen:YE1490.
PATRICi18562498. VBIYerEnt11519_1619.

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.
InterProiIPR001566. 23S_rRNA_MeTrfase_RlmD.
IPR011825. 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.
TIGR00479. rumA. 1 hit.
PROSITEiPS51687. SAM_MT_RNA_M5U. 1 hit.
PS01230. TRMA_1. 1 hit.
PS01231. TRMA_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: NCTC 13174 / 8081.

Entry informationi

Entry nameiRLMC_YERE8
AccessioniPrimary (citable) accession number: A1JM74
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 5, 2008
Last sequence update: February 6, 2007
Last modified: November 11, 2015
This is version 62 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.