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Protein

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

Gene

rlmC

Organism
Shewanella sp. (strain W3-18-1)
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)DescriptionActionsGraphical viewLength
Metal bindingi12Iron-sulfur (4Fe-4S)UniRule annotation1
Metal bindingi20Iron-sulfur (4Fe-4S)UniRule annotation1
Metal bindingi23Iron-sulfur (4Fe-4S)UniRule annotation1
Metal bindingi99Iron-sulfur (4Fe-4S)UniRule annotation1
Binding sitei224S-adenosyl-L-methionineUniRule annotation1
Binding sitei253S-adenosyl-L-methionine; via carbonyl oxygenUniRule annotation1
Binding sitei274S-adenosyl-L-methionineUniRule annotation1
Binding sitei321S-adenosyl-L-methionineUniRule annotation1
Active sitei348NucleophileUniRule annotation1

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:Sputw3181_0891
OrganismiShewanella sp. (strain W3-18-1)
Taxonomic identifieri351745 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAlteromonadalesShewanellaceaeShewanella

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002820171 – 38923S rRNA (uracil(747)-C(5))-methyltransferase RlmCAdd BLAST389

Structurei

3D structure databases

ProteinModelPortaliA1RGE6.
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.
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.

A1RGE6-1 [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 ILEGDEEIFL
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 RAILYSSCNP
360 370 380
KTLAKDLEHI QGYHLTKVQL FDLFPHTDHF EVLAMLVKD
Length:389
Mass (Da):43,299
Last modified:February 6, 2007 - v1
Checksum:i0CC8DA73C741487B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000503 Genomic DNA. Translation: ABM23741.1.
RefSeqiWP_011788268.1. NC_008750.1.

Genome annotation databases

EnsemblBacteriaiABM23741; ABM23741; Sputw3181_0891.
KEGGishw:Sputw3181_0891.
PATRICi23595244. VBISheSp103602_0926.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000503 Genomic DNA. Translation: ABM23741.1.
RefSeqiWP_011788268.1. NC_008750.1.

3D structure databases

ProteinModelPortaliA1RGE6.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABM23741; ABM23741; Sputw3181_0891.
KEGGishw:Sputw3181_0891.
PATRICi23595244. VBISheSp103602_0926.

Phylogenomic databases

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]
ProtoNetiSearch...

Entry informationi

Entry nameiRLMC_SHESW
AccessioniPrimary (citable) accession number: A1RGE6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 3, 2007
Last sequence update: February 6, 2007
Last modified: November 2, 2016
This is version 53 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.