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Protein

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

Gene

rlmC

Organism
Shewanella oneidensis (strain MR-1)
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 bindingi7 – 71Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi15 – 151Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi18 – 181Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi94 – 941Iron-sulfur (4Fe-4S)UniRule annotation
Binding sitei219 – 2191S-adenosyl-L-methionineUniRule annotation
Binding sitei248 – 2481S-adenosyl-L-methionine; via carbonyl oxygenUniRule annotation
Binding sitei269 – 2691S-adenosyl-L-methionineUniRule annotation
Binding sitei316 – 3161S-adenosyl-L-methionineUniRule annotation
Active sitei343 – 3431NucleophileUniRule annotation

GO - Molecular functioni

  1. 4 iron, 4 sulfur cluster binding Source: UniProtKB-KW
  2. iron ion binding Source: UniProtKB-HAMAP
  3. RNA binding Source: InterPro
  4. rRNA (uridine-C5-)-methyltransferase activity Source: UniProtKB-HAMAP
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:SO_0980
OrganismiShewanella oneidensis (strain MR-1)
Taxonomic identifieri211586 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAlteromonadalesShewanellaceaeShewanella
ProteomesiUP000008186: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 38638623S rRNA (uracil(747)-C(5))-methyltransferase RlmCPRO_0000161936Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi211586.SO_0980.

Structurei

3D structure databases

ProteinModelPortaliQ8EI67.
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

eggNOGiCOG2265.
HOGENOMiHOG000218547.
KOiK03212.
OMAiVVYSSCN.
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.

Q8EI67-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSTLVQCGYF ERGQCQSCRH IKLPMVQQLA AKTQELQQLL APFVVSTNTQ
60 70 80 90 100
FLPPVVGEDS GFRNKAKMVV LGAAHAPVLG IVSPNGEAVS LCDCLLYPAD
110 120 130 140 150
MQALLYRLER FVQQAGIPPY RIDKAKGELK YILLTRSQVR GEYMLRFVLR
160 170 180 190 200
SPDAIARIER ELPALMAEYP QINVVSVNIQ PIHMAILEGD EEIFLTENTR
210 220 230 240 250
LEERFNDVPL FIRPKSFFQT NPHVAAKLYQ TAREWVGEFA PKSLWDLFCG
260 270 280 290 300
VGGFGLHCAS KDIPLTGIEI EAEAIACAKM SAQMMGLDNV QFMALDSTDF
310 320 330 340 350
AKGDAAATKP DLIIVNPPRR GIGESLCDAL SEFAPRAILY SSCNPKTLAK
360 370 380
DLVHIRGYQL TRVQLFDLFP HSDHFEVLAM LVKDSR
Length:386
Mass (Da):43,033
Last modified:April 3, 2007 - v2
Checksum:iC4B5C92D7421C64C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE014299 Genomic DNA. Translation: AAN54054.2.
RefSeqiNP_716609.2. NC_004347.2.

Genome annotation databases

EnsemblBacteriaiAAN54054; AAN54054; SO_0980.
GeneIDi1168823.
KEGGison:SO_0980.
PATRICi23521611. VBISheOne101494_0939.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE014299 Genomic DNA. Translation: AAN54054.2.
RefSeqiNP_716609.2. NC_004347.2.

3D structure databases

ProteinModelPortaliQ8EI67.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi211586.SO_0980.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAN54054; AAN54054; SO_0980.
GeneIDi1168823.
KEGGison:SO_0980.
PATRICi23521611. VBISheOne101494_0939.

Phylogenomic databases

eggNOGiCOG2265.
HOGENOMiHOG000218547.
KOiK03212.
OMAiVVYSSCN.
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: MR-1.

Entry informationi

Entry nameiRLMC_SHEON
AccessioniPrimary (citable) accession number: Q8EI67
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 19, 2004
Last sequence update: April 3, 2007
Last modified: January 7, 2015
This is version 76 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.