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Protein

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

Gene

rlmC

Organism
Shewanella putrefaciens (strain CN-32 / ATCC BAA-453)
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 bindingi12 – 121Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi20 – 201Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi23 – 231Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi99 – 991Iron-sulfur (4Fe-4S)UniRule annotation
Binding sitei224 – 2241S-adenosyl-L-methionineUniRule annotation
Binding sitei253 – 2531S-adenosyl-L-methionine; via carbonyl oxygenUniRule annotation
Binding sitei274 – 2741S-adenosyl-L-methionineUniRule annotation
Binding sitei321 – 3211S-adenosyl-L-methionineUniRule annotation
Active sitei348 – 3481NucleophileUniRule 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

BioCyciSPUT319224:GHAP-3159-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:Sputcn32_3054
OrganismiShewanella putrefaciens (strain CN-32 / ATCC BAA-453)
Taxonomic identifieri319224 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAlteromonadalesShewanellaceaeShewanella
Proteomesi
  • UP000006699 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 38938923S rRNA (uracil(747)-C(5))-methyltransferase RlmCPRO_1000063008Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi319224.Sputcn32_3054.

Structurei

3D structure databases

ProteinModelPortaliA4Y9Y4.
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.
OrthoDBiPOG091H00VG.

Family and domain databases

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

A4Y9Y4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSAVIVNTVE QCGYFNRGQC QSCRHIQVPM AQQLMAKSLE LQQLLKPFVA
60 70 80 90 100
PSAAIFYPPV TGEATAFRNK AKMVVLGAAH APVLGIVSPS GEAVSLCDCL
110 120 130 140 150
LYPSDMQKLL HRLTQFVQQA GIPPYRVDKA KGELKFILLT RSQVRGEYLL
160 170 180 190 200
RFVLRSHNSI ERIERALPTL LAEYPQINVV SVNIQPIHMA ILEGGEEIFL
210 220 230 240 250
TENTRLEERF NDVPLFIRPK SFFQTNPQVA AQLYQTAREW VAEFAPKSLW
260 270 280 290 300
DLFCGVGGFG LHCATKDIAL TGIEIEAEAI SCAQISANLM GLEKVQFMAL
310 320 330 340 350
DSTDFAQGKN AADKPDLIIV NPPRRGIGEA LCQSLSEFAP KAILYSSCNP
360 370 380
KTLAKDLEHI QGYHLTKVQL FDLFPHTDHF EVLAMLVKD
Length:389
Mass (Da):43,213
Last modified:May 29, 2007 - v1
Checksum:iB056A2A6E65D8666
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000681 Genomic DNA. Translation: ABP76767.1.
RefSeqiWP_011919892.1. NC_009438.1.

Genome annotation databases

EnsemblBacteriaiABP76767; ABP76767; Sputcn32_3054.
KEGGispc:Sputcn32_3054.
PATRICi23555122. VBIShePut135485_3194.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000681 Genomic DNA. Translation: ABP76767.1.
RefSeqiWP_011919892.1. NC_009438.1.

3D structure databases

ProteinModelPortaliA4Y9Y4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi319224.Sputcn32_3054.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABP76767; ABP76767; Sputcn32_3054.
KEGGispc:Sputcn32_3054.
PATRICi23555122. VBIShePut135485_3194.

Phylogenomic databases

eggNOGiENOG4107SFS. Bacteria.
COG2265. LUCA.
HOGENOMiHOG000218547.
KOiK03212.
OMAiNIQPIHM.
OrthoDBiPOG091H00VG.

Enzyme and pathway databases

BioCyciSPUT319224:GHAP-3159-MONOMER.

Family and domain databases

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

Entry informationi

Entry nameiRLMC_SHEPC
AccessioniPrimary (citable) accession number: A4Y9Y4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 5, 2008
Last sequence update: May 29, 2007
Last modified: September 7, 2016
This is version 60 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.