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Protein

Ribosomal RNA large subunit methyltransferase I

Gene

rlmI

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Specifically methylates the cytosine at position 1962 (m5C1962) of 23S rRNA. Methylation occurs before assembly of 23S rRNA into 50S subunits.1 Publication

Catalytic activityi

S-adenosyl-L-methionine + cytosine(1962) in 23S rRNA = S-adenosyl-L-homocysteine + 5-methylcytosine(1962) in 23S rRNA.1 Publication

GO - Molecular functioni

  • RNA binding Source: UniProtKB-KW
  • rRNA (cytosine) methyltransferase activity Source: UniProtKB
  • rRNA (cytosine-C5-)-methyltransferase activity Source: EcoCyc

GO - Biological processi

  • rRNA base methylation Source: EcoCyc
  • rRNA methylation Source: UniProtKB
  • single-species biofilm formation Source: EcoCyc
Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

rRNA processing

Keywords - Ligandi

RNA-binding, S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyciEcoCyc:G6501-MONOMER.
ECOL316407:JW5898-MONOMER.
MetaCyc:G6501-MONOMER.
BRENDAi2.1.1.191. 2026.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribosomal RNA large subunit methyltransferase I (EC:2.1.1.191)
Alternative name(s):
23S rRNA m5C1962 methyltransferase
rRNA (cytosine-C(5)-)-methyltransferase RlmI
Gene namesi
Name:rlmI
Synonyms:yccW
Ordered Locus Names:b0967, JW5898
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13725. rlmI.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: UniProtKB
  • cytosol Source: EcoCyc
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 396396Ribosomal RNA large subunit methyltransferase IPRO_0000213169Add
BLAST

Proteomic databases

PaxDbiP75876.

Interactioni

Subunit structurei

Homodimer.1 Publication

Protein-protein interaction databases

BioGridi4259463. 11 interactions.
DIPiDIP-11501N.
STRINGi511145.b0967.

Structurei

Secondary structure

1
396
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi4 – 74Combined sources
Helixi13 – 164Combined sources
Beta strandi20 – 234Combined sources
Helixi24 – 263Combined sources
Beta strandi27 – 326Combined sources
Beta strandi39 – 435Combined sources
Beta strandi49 – 557Combined sources
Beta strandi59 – 6810Combined sources
Helixi76 – 9722Combined sources
Beta strandi100 – 1067Combined sources
Helixi107 – 1104Combined sources
Beta strandi115 – 1206Combined sources
Beta strandi123 – 1286Combined sources
Helixi131 – 1355Combined sources
Helixi137 – 14711Combined sources
Beta strandi151 – 1577Combined sources
Helixi161 – 1644Combined sources
Beta strandi170 – 1767Combined sources
Beta strandi181 – 1877Combined sources
Beta strandi190 – 1945Combined sources
Turni196 – 1983Combined sources
Helixi206 – 2083Combined sources
Helixi209 – 21810Combined sources
Beta strandi223 – 2286Combined sources
Helixi234 – 2407Combined sources
Beta strandi244 – 2518Combined sources
Helixi253 – 26513Combined sources
Helixi270 – 2723Combined sources
Beta strandi273 – 2786Combined sources
Helixi280 – 28910Combined sources
Beta strandi294 – 2996Combined sources
Turni304 – 3063Combined sources
Beta strandi308 – 3125Combined sources
Helixi317 – 32711Combined sources
Beta strandi329 – 33911Combined sources
Helixi346 – 36015Combined sources
Beta strandi364 – 3718Combined sources
Helixi383 – 3853Combined sources
Beta strandi389 – 3957Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3C0KX-ray2.00A/B1-396[»]
ProteinModelPortaliP75876.
SMRiP75876. Positions 2-396.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP75876.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini2 – 8180PUAAdd
BLAST

Sequence similaritiesi

Contains 1 PUA domain.Curated

Phylogenomic databases

eggNOGiENOG4105DR4. Bacteria.
COG1092. LUCA.
HOGENOMiHOG000266009.
InParanoidiP75876.
KOiK06969.
OMAiTCSCSHF.
PhylomeDBiP75876.

Family and domain databases

Gene3Di2.30.130.10. 1 hit.
3.40.50.150. 1 hit.
HAMAPiMF_01857. 23SrRNA_methyltr_I. 1 hit.
InterProiIPR002478. PUA.
IPR015947. PUA-like_domain.
IPR023542. rRNA_lsu_MeTfrase_I.
IPR019614. SAM-dep_methyl-trfase.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF10672. Methyltrans_SAM. 1 hit.
[Graphical view]
SMARTiSM00359. PUA. 1 hit.
[Graphical view]
SUPFAMiSSF53335. SSF53335. 1 hit.
SSF88697. SSF88697. 1 hit.
PROSITEiPS50890. PUA. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P75876-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSVRLVLAKG REKSLLRRHP WVFSGAVARM EGKASLGETI DIVDHQGKWL
60 70 80 90 100
ARGAYSPASQ IRARVWTFDP SESIDIAFFS RRLQQAQKWR DWLAQKDGLD
110 120 130 140 150
SYRLIAGESD GLPGITIDRF GNFLVLQLLS AGAEYQRAAL ISALQTLYPE
160 170 180 190 200
CSIYDRSDVA VRKKEGMELT QGPVTGELPP ALLPIEEHGM KLLVDIQHGH
210 220 230 240 250
KTGYYLDQRD SRLATRRYVE NKRVLNCFSY TGGFAVSALM GGCSQVVSVD
260 270 280 290 300
TSQEALDIAR QNVELNKLDL SKAEFVRDDV FKLLRTYRDR GEKFDVIVMD
310 320 330 340 350
PPKFVENKSQ LMGACRGYKD INMLAIQLLN EGGILLTFSC SGLMTSDLFQ
360 370 380 390
KIIADAAIDA GRDVQFIEQF RQAADHPVIA TYPEGLYLKG FACRVM
Length:396
Mass (Da):44,357
Last modified:April 27, 2001 - v2
Checksum:i09C5ECEB62733D8B
GO

Sequence cautioni

The sequence BAA35732 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC74053.2.
AP009048 Genomic DNA. Translation: BAA35732.2. Different initiation.
PIRiF64837.
RefSeqiNP_415487.4. NC_000913.3.
WP_000116297.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC74053; AAC74053; b0967.
BAA35732; BAA35732; BAA35732.
GeneIDi946691.
KEGGiecj:JW5898.
eco:b0967.
PATRICi32117155. VBIEscCol129921_1002.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC74053.2.
AP009048 Genomic DNA. Translation: BAA35732.2. Different initiation.
PIRiF64837.
RefSeqiNP_415487.4. NC_000913.3.
WP_000116297.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3C0KX-ray2.00A/B1-396[»]
ProteinModelPortaliP75876.
SMRiP75876. Positions 2-396.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4259463. 11 interactions.
DIPiDIP-11501N.
STRINGi511145.b0967.

Proteomic databases

PaxDbiP75876.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC74053; AAC74053; b0967.
BAA35732; BAA35732; BAA35732.
GeneIDi946691.
KEGGiecj:JW5898.
eco:b0967.
PATRICi32117155. VBIEscCol129921_1002.

Organism-specific databases

EchoBASEiEB3489.
EcoGeneiEG13725. rlmI.

Phylogenomic databases

eggNOGiENOG4105DR4. Bacteria.
COG1092. LUCA.
HOGENOMiHOG000266009.
InParanoidiP75876.
KOiK06969.
OMAiTCSCSHF.
PhylomeDBiP75876.

Enzyme and pathway databases

BioCyciEcoCyc:G6501-MONOMER.
ECOL316407:JW5898-MONOMER.
MetaCyc:G6501-MONOMER.
BRENDAi2.1.1.191. 2026.

Miscellaneous databases

EvolutionaryTraceiP75876.
PROiP75876.

Family and domain databases

Gene3Di2.30.130.10. 1 hit.
3.40.50.150. 1 hit.
HAMAPiMF_01857. 23SrRNA_methyltr_I. 1 hit.
InterProiIPR002478. PUA.
IPR015947. PUA-like_domain.
IPR023542. rRNA_lsu_MeTfrase_I.
IPR019614. SAM-dep_methyl-trfase.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF10672. Methyltrans_SAM. 1 hit.
[Graphical view]
SMARTiSM00359. PUA. 1 hit.
[Graphical view]
SUPFAMiSSF53335. SSF53335. 1 hit.
SSF88697. SSF88697. 1 hit.
PROSITEiPS50890. PUA. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRLMI_ECOLI
AccessioniPrimary (citable) accession number: P75876
Secondary accession number(s): Q9R7Q2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: April 27, 2001
Last modified: September 7, 2016
This is version 121 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families
  4. Uncharacterized protein families (UPF)
    List of uncharacterized protein family (UPF) entries

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.