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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 lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
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)DescriptionActionsGraphical viewLength
ChainiPRO_00002131691 – 396Ribosomal RNA large subunit methyltransferase IAdd BLAST396

Proteomic databases

PaxDbiP75876.
PRIDEiP75876.

Interactioni

Subunit structurei

Homodimer.1 Publication

Protein-protein interaction databases

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

Structurei

Secondary structure

1396
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi4 – 7Combined sources4
Helixi13 – 16Combined sources4
Beta strandi20 – 23Combined sources4
Helixi24 – 26Combined sources3
Beta strandi27 – 32Combined sources6
Beta strandi39 – 43Combined sources5
Beta strandi49 – 55Combined sources7
Beta strandi59 – 68Combined sources10
Helixi76 – 97Combined sources22
Beta strandi100 – 106Combined sources7
Helixi107 – 110Combined sources4
Beta strandi115 – 120Combined sources6
Beta strandi123 – 128Combined sources6
Helixi131 – 135Combined sources5
Helixi137 – 147Combined sources11
Beta strandi151 – 157Combined sources7
Helixi161 – 164Combined sources4
Beta strandi170 – 176Combined sources7
Beta strandi181 – 187Combined sources7
Beta strandi190 – 194Combined sources5
Turni196 – 198Combined sources3
Helixi206 – 208Combined sources3
Helixi209 – 218Combined sources10
Beta strandi223 – 228Combined sources6
Helixi234 – 240Combined sources7
Beta strandi244 – 251Combined sources8
Helixi253 – 265Combined sources13
Helixi270 – 272Combined sources3
Beta strandi273 – 278Combined sources6
Helixi280 – 289Combined sources10
Beta strandi294 – 299Combined sources6
Turni304 – 306Combined sources3
Beta strandi308 – 312Combined sources5
Helixi317 – 327Combined sources11
Beta strandi329 – 339Combined sources11
Helixi346 – 360Combined sources15
Beta strandi364 – 371Combined sources8
Helixi383 – 385Combined sources3
Beta strandi389 – 395Combined sources7

3D structure databases

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

Miscellaneous databases

EvolutionaryTraceiP75876.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini2 – 81PUAAdd BLAST80

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
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3C0KX-ray2.00A/B1-396[»]
ProteinModelPortaliP75876.
SMRiP75876.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

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

Proteomic databases

PaxDbiP75876.
PRIDEiP75876.

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: November 2, 2016
This is version 123 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.