P63177 (RLMB_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
23S rRNA (guanosine-2'-O-)-methyltransferase RlmB
EC=2.1.1.185

Alternative name(s):
23S rRNA (guanosine2251 2'-O)-methyltransferase
23S rRNA Gm2251 2'-O-methyltransferase

Gene names

Name:	rlmB
Synonyms:	yjfH
Ordered Locus Names:	b4180, JW4138

Organism

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

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia › Escherichia coli

Protein attributes

Sequence length	243 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Specifically methylates the ribose of guanosine 2251 in 23S rRNA. Ref.4
Catalytic activity	S-adenosyl-L-methionine + guanosine(2251) in 23S rRNA = S-adenosyl-L-homocysteine + 2'-O-methylguanosine(2251) in 23S rRNA. Ref.4
Subunit structure	Homodimer. Ref.5
Subcellular location	Cytoplasm Potential HAMAP-Rule MF_01887.
Sequence similarities	Belongs to the RNA methyltransferase TrmH family. RlmB subfamily.

Ontologies

Keywords
Biological process	rRNA processing
Cellular component	Cytoplasm
Ligand	S-adenosyl-L-methionine
Molecular function	Methyltransferase Transferase
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	enzyme-directed rRNA 2'-O-methylation Inferred from mutant phenotype Ref.4. Source: EcoCyc
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	RNA binding Inferred from electronic annotation. Source: InterPro rRNA (guanosine-2'-O-)-methyltransferase activity Inferred from mutant phenotype Ref.4. Source: EcoCyc
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 243

243

23S rRNA (guanosine-2'-O-)-methyltransferase RlmB HAMAP-Rule MF_01887

PRO_0000159785

Sites

Binding site

196

1

S-adenosyl-L-methionine; via carbonyl oxygen By similarity

Binding site

216

1

S-adenosyl-L-methionine; via amide nitrogen and carbonyl oxygen By similarity

Binding site

225

1

S-adenosyl-L-methionine; via amide nitrogen By similarity

Secondary structure

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243

Helix Strand Turn

Details...

Beta strand

3 – 7

5

Helix

8 – 16

9

Helix

19 – 21

3

Beta strand

22 – 30

9

Turn

34 – 36

3

Helix

37 – 46

10

Beta strand

49 – 53

5

Helix

56 – 60

5

Turn

61 – 63

3

Beta strand

70 – 74

5

Helix

82 – 84

3

Helix

85 – 90

6

Beta strand

96 – 102

7

Helix

106 – 119

14

Beta strand

122 – 131

10

Helix

136 – 142

7

Helix

145 – 148

4

Beta strand

151 – 155

5

Helix

157 – 166

10

Beta strand

170 – 174

5

Beta strand

179 – 181

3

Helix

182 – 184

3

Beta strand

189 – 197

9

Turn

198 – 200

3

Helix

204 – 208

5

Beta strand

211 – 215

5

Beta strand

219 – 222

4

Helix

227 – 241

15

Sequences

	Sequence		Length	Mass (Da)
	P63177 [UniParc]. Last modified September 27, 2004. Version 1. Checksum: 6D6C4170580341D6	FASTA	243	26,557
	10 20 30 40 50 60 MSEMIYGIHA VQALLERAPE RFQEVFILKG REDKRLLPLI HALESQGVVI QLANRQYLDE 70 80 90 100 110 120 KSDGAVHQGI IARVKPGRQY QENDLPDLIA SLDQPFLLIL DGVTDPHNLG ACLRSADAAG 130 140 150 160 170 180 VHAVIVPKDR SAQLNATAKK VACGAAESVP LIRVTNLART MRMLQEENIW IVGTAGEADH 190 200 210 220 230 240 TLYQSKMTGR LALVMGAEGE GMRRLTREHC DELISIPMAG SVSSLNVSVA TGICLFEAVR QRS

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Analysis of the Escherichia coli genome VI: DNA sequence of the region from 92.8 through 100 minutes." Burland V.D., Plunkett G. III, Sofia H.J., Daniels D.L., Blattner F.R. Nucleic Acids Res. 23:2105-2119(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[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]	"The rlmB gene is essential for formation of Gm2251 in 23S rRNA but not for ribosome maturation in Escherichia coli." Loevgren J.M., Wikstroem P.M. J. Bacteriol. 183:6957-6960(2001) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, CATALYTIC ACTIVITY.
[5]	"The structure of the RlmB 23S rRNA methyltransferase reveals a new methyltransferase fold with a unique knot." Michel G., Sauve V., Larocque R., Li Y., Matte A., Cygler M. Structure 10:1303-1315(2002) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS), SUBUNIT. Strain: K12 / MC1061 / ATCC 53338 / DSM 7140.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

U14003 Genomic DNA. Translation: AAA97076.1.
U00096 Genomic DNA. Translation: AAC77137.1.
AP009048 Genomic DNA. Translation: BAE78181.1.

PIR

S56405.

RefSeq

NP_418601.1. NC_000913.2.
YP_492322.1. NC_007779.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1GZ0	X-ray	2.50	A/B/C/D/E/F/G/H	1-243	[»]

ProteinModelPortal

P63177.

SMR

P63177. Positions 1-243.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-47866N.

IntAct

P63177. 18 interactions.

STRING

511145.b4180.

Proteomic databases

PaxDb

P63177.

PRIDE

P63177.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblBacteria

AAC77137; AAC77137; b4180.
BAE78181; BAE78181; BAE78181.

GeneID

12932817.
948694.

KEGG

ecj:Y75_p4066.
eco:b4180.

PATRIC

32123935. VBIEscCol129921_4312.

Organism-specific databases

EchoBASE

EB2376.

EcoGene

EG12483. rlmB.

Phylogenomic databases

eggNOG

COG0566.

HOGENOM

HOG000218798.

KO

K03218.

OMA

IMGAEGK.

ProtClustDB

PRK11181.

Enzyme and pathway databases

BioCyc

EcoCyc:G7845-MONOMER.
ECOL316407:JW4138-MONOMER.
MetaCyc:G7845-MONOMER.

Gene expression databases

Genevestigator

P63177.

Family and domain databases

HAMAP

MF_01887. 23SrRNA_methyltr_B.

InterPro

IPR024915. 23S_rRNA_MeTrfase_RlmB.
IPR004441. rRNA_MeTrfase_TrmH.
IPR001537. SpoU_MeTrfase.
IPR013123. SpoU_subst-bd.
[Graphical view]

Pfam

PF00588. SpoU_methylase. 1 hit.
PF08032. SpoU_sub_bind. 1 hit.
[Graphical view]

SMART

SM00967. SpoU_sub_bind. 1 hit.
[Graphical view]

TIGRFAMs

TIGR00186. rRNA_methyl_3. 1 hit.

ProtoNet

Search...

Other

EvolutionaryTrace

P63177.

Entry information

Entry name

RLMB_ECOLI

Accession

Primary (citable) accession number: P63177
Secondary accession number(s): P39290, Q2M6C5

Entry history

Integrated into UniProtKB/Swiss-Prot:	September 27, 2004
Last sequence update:	September 27, 2004
Last modified:	May 1, 2013
This is version 84 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program