Ribosomal RNA large subunit methyltransferase I - Escherichia coli (strain K12)

Contribute

Send feedback

Read comments (?) or add your own

P75876 (RLMI_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 98. History...

Clusters with 100%, 90%, 50% identity |

Documents (4) |

Third-party data

text xml rdf/xml gff fasta

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

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 names

Name:	rlmI
Synonyms:	yccW
Ordered Locus Names:	b0967, JW5898

Organism

Escherichia coli (strain K12) [Reference proteome] [HAMAP]

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia ›

Protein attributes

Sequence length	396 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Specifically methylates the cytosine at position 1962 (m5C1962) of 23S rRNA. Methylation occurs before assembly of 23S rRNA into 50S subunits. Ref.4
Catalytic activity	S-adenosyl-L-methionine + cytosine(1962) in 23S rRNA = S-adenosyl-L-homocysteine + 5-methylcytosine(1962) in 23S rRNA. Ref.4
Subunit structure	Homodimer. Ref.5
Subcellular location	Cytoplasm Potential HAMAP-Rule MF_01857.
Sequence similarities	Belongs to the methyltransferase superfamily. RlmI family. Contains 1 PUA domain.
Sequence caution	The sequence BAA35732.2 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.

Ontologies

Keywords
Biological process	rRNA processing
Cellular component	Cytoplasm
Ligand	RNA-binding S-adenosyl-L-methionine
Molecular function	Methyltransferase Transferase
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	biofilm formation Inferred from mutant phenotype PubMed 16385049. Source: EcoCyc rRNA base methylation Inferred from mutant phenotype Ref.4. Source: EcoCyc
Cellular_component	cytoplasm Inferred by curator Ref.4. Source: UniProtKB
Molecular_function	RNA binding Inferred from electronic annotation. Source: UniProtKB-KW rRNA (cytosine-C5-)-methyltransferase activity Inferred from direct assay Ref.4. Source: EcoCyc
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 396

396

Ribosomal RNA large subunit methyltransferase I HAMAP-Rule MF_01857

PRO_0000213169

Regions

Domain

2 – 81

PUA

Secondary structure

396

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

P75876 [UniParc].

Last modified April 27, 2001. Version 2.
Checksum: 09C5ECEB62733D8B
Show »

FASTA

396

44,357

        10         20         30         40         50         60 
MSVRLVLAKG REKSLLRRHP WVFSGAVARM EGKASLGETI DIVDHQGKWL ARGAYSPASQ 

        70         80         90        100        110        120 
IRARVWTFDP SESIDIAFFS RRLQQAQKWR DWLAQKDGLD SYRLIAGESD GLPGITIDRF 

       130        140        150        160        170        180 
GNFLVLQLLS AGAEYQRAAL ISALQTLYPE CSIYDRSDVA VRKKEGMELT QGPVTGELPP 

       190        200        210        220        230        240 
ALLPIEEHGM KLLVDIQHGH KTGYYLDQRD SRLATRRYVE NKRVLNCFSY TGGFAVSALM 

       250        260        270        280        290        300 
GGCSQVVSVD TSQEALDIAR QNVELNKLDL SKAEFVRDDV FKLLRTYRDR GEKFDVIVMD 

       310        320        330        340        350        360 
PPKFVENKSQ LMGACRGYKD INMLAIQLLN EGGILLTFSC SGLMTSDLFQ KIIADAAIDA 

       370        380        390 
GRDVQFIEQF RQAADHPVIA TYPEGLYLKG FACRVM

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"A 718-kb DNA sequence of the Escherichia coli K-12 genome corresponding to the 12.7-28.0 min region on the linkage map." Oshima T., Aiba H., Baba T., Fujita K., Hayashi K., Honjo A., Ikemoto K., Inada T., Itoh T., Kajihara M., Kanai K., Kashimoto K., Kimura S., Kitagawa M., Makino K., Masuda S., Miki T., Mizobuchi K. Horiuchi T. DNA Res. 3:137-155(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[2]	"The complete genome sequence of Escherichia coli K-12." Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y. Science 277:1453-1474(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[3]	"Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110." Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T. Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[4]	"YccW is the m5C methyltransferase specific for 23S rRNA nucleotide 1962." Purta E., O'Connor M., Bujnicki J.M., Douthwaite S. J. Mol. Biol. 383:641-651(2008) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION AS A METHYLTRANSFERASE, CATALYTIC ACTIVITY. Strain: K12.
[5]	"Crystal structure of the Escherichia coli 23S rRNA:m5C methyltransferase RlmI (YccW) reveals evolutionary links between RNA modification enzymes." Sunita S., Tkaczuk K.L., Purta E., Kasprzak J.M., Douthwaite S., Bujnicki J.M., Sivaraman J. J. Mol. Biol. 383:652-666(2008) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS), SUBUNIT.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

U00096 Genomic DNA. Translation: AAC74053.2.
AP009048 Genomic DNA. Translation: BAA35732.2. Different initiation.

PIR

F64837.

RefSeq

NP_415487.4. NC_000913.2.
YP_489239.1. NC_007779.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
3C0K	X-ray	2.00	A/B	1-396	[»]

ProteinModelPortal

P75876.

SMR

P75876. Positions 2-396.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-11501N.

STRING

511145.b0967.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblBacteria

AAC74053; AAC74053; b0967.
BAA35732; BAA35732; BAA35732.

GeneID

12930469.
946691.

KEGG

ecj:Y75_p0939.
eco:b0967.

PATRIC

32117155. VBIEscCol129921_1002.

Organism-specific databases

EchoBASE

EB3489.

EcoGene

EG13725. rlmI.

Phylogenomic databases

eggNOG

COG1092.

HOGENOM

HOG000266009.

K06969.

OMA

CSGLMTT.

ProtClustDB

PRK15128.

Enzyme and pathway databases

BioCyc

EcoCyc:G6501-MONOMER.
ECOL316407:JW5898-MONOMER.
MetaCyc:G6501-MONOMER.

Gene expression databases

Genevestigator

P75876.

Family and domain databases

HAMAP

MF_01857. 23SrRNA_methyltr_I.

InterPro

IPR002478. PUA.
IPR015947. PUA-like_domain.
IPR023542. rRNA_lsu_MeTfrase_I.
IPR019614. SAM-dep_methyl-trfase.
[Graphical view]

Pfam

PF10672. Methyltrans_SAM. 1 hit.
[Graphical view]

SMART

SM00359. PUA. 1 hit.
[Graphical view]

SUPFAM

SSF88697. PUA-like. 1 hit.

PROSITE

PS50890. PUA. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P75876.

Entry information

Entry name

RLMI_ECOLI

Accession

Primary (citable) accession number: P75876
Secondary accession number(s): Q9R7Q2

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 15, 1998
Last sequence update:	April 27, 2001
Last modified:	May 1, 2013
This is version 98 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program

Relevant documents

Uncharacterized protein families (UPF)

List of uncharacterized protein family (UPF) entries

Escherichia coli

Escherichia coli (strain K12): entries and cross-references to EcoGene

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents