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Protein

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

Gene

rlmC

Organism
Vibrio vulnificus (strain YJ016)
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 bindingi88 – 881Iron-sulfur (4Fe-4S)UniRule annotation
Binding sitei213 – 2131S-adenosyl-L-methionineUniRule annotation
Binding sitei242 – 2421S-adenosyl-L-methionine; via carbonyl oxygenUniRule annotation
Binding sitei263 – 2631S-adenosyl-L-methionineUniRule annotation
Binding sitei308 – 3081S-adenosyl-L-methionineUniRule annotation
Active sitei335 – 3351NucleophileUniRule 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

BioCyciVVUL196600:GJ9W-3616-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:VVA0229
OrganismiVibrio vulnificus (strain YJ016)
Taxonomic identifieri196600 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
Proteomesi
  • UP000002675 Componenti: Chromosome II

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 37637623S rRNA (uracil(747)-C(5))-methyltransferase RlmCPRO_0000161940Add
BLAST

Structurei

3D structure databases

ProteinModelPortaliQ7MFU0.
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.
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.
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.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q7MFU0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSCPYFEQKS CTSCTHMNTP YSQQLETKDN ALRTLFSDVA QSAWLAPVQS
60 70 80 90 100
DSMHCRNKAK MVALGAAHQP TLGIESVQDG TPISLVHCPL YTQDSQALLA
110 120 130 140 150
YLQEWIRTSG IPPYNKVKKK GELKFVLLTR SQARGEFMLR FVVRSEAALE
160 170 180 190 200
RIRHNLPRLQ QAFPAVRVIS ANIQPIHMAR LEGEQEIFLT DAHYLLEEFN
210 220 230 240 250
GVPMVVRPKS FFQTNPHVAA QLYATARDWV AELKPRQMWD LFCGVGGFAL
260 270 280 290 300
HCAPHAEQVI GIEIEEEAIN SAKLSAQQLG IGNLRFSALD SAAYSQAQTQ
310 320 330 340 350
AADLILVNPP RRGLGQALSE QLEQLAPQYL IYSSCNPVTM QQDLAHLPSY
360 370
QVERAQWFDM FPHTDHAEVM MLLVRQ
Length:376
Mass (Da):42,276
Last modified:July 19, 2004 - v2
Checksum:i05750DEE8C5EADD3
GO

Sequence cautioni

The sequence BAC96255.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000038 Genomic DNA. Translation: BAC96255.1. Different initiation.
RefSeqiWP_011151650.1. NC_005140.1.

Genome annotation databases

EnsemblBacteriaiBAC96255; BAC96255; BAC96255.
GeneIDi2621440.
KEGGivvy:VVA0229.
PATRICi20173854. VBIVibVul40472_3442.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000038 Genomic DNA. Translation: BAC96255.1. Different initiation.
RefSeqiWP_011151650.1. NC_005140.1.

3D structure databases

ProteinModelPortaliQ7MFU0.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAC96255; BAC96255; BAC96255.
GeneIDi2621440.
KEGGivvy:VVA0229.
PATRICi20173854. VBIVibVul40472_3442.

Phylogenomic databases

HOGENOMiHOG000218547.
KOiK03212.
OMAiNIQPIHM.
OrthoDBiEOG6V4GKM.

Enzyme and pathway databases

BioCyciVVUL196600:GJ9W-3616-MONOMER.

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.
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.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: YJ016.

Entry informationi

Entry nameiRLMC_VIBVY
AccessioniPrimary (citable) accession number: Q7MFU0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 19, 2004
Last sequence update: July 19, 2004
Last modified: November 11, 2015
This is version 78 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

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.