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Protein

Ribosomal RNA small subunit methyltransferase D

Gene

rsmD

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Specifically methylates the guanine in position 966 of 16S rRNA in the assembled 30S particle.1 Publication

Catalytic activityi

S-adenosyl-L-methionine + guanine(966) in 16S rRNA = S-adenosyl-L-homocysteine + N(2)-methylguanine(966) in 16S rRNA.

GO - Molecular functioni

GO - Biological processi

  • rRNA base methylation Source: EcoCyc
Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

rRNA processing

Keywords - Ligandi

S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyciEcoCyc:EG10343-MONOMER.
ECOL316407:JW3430-MONOMER.
MetaCyc:EG10343-MONOMER.
BRENDAi2.1.1.171. 2026.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribosomal RNA small subunit methyltransferase D (EC:2.1.1.171)
Alternative name(s):
16S rRNA m2G966 methyltransferase
rRNA (guanine-N(2)-)-methyltransferase
Gene namesi
Name:rsmD
Synonyms:yhhF
Ordered Locus Names:b3465, JW3430
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG10343. rsmD.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001695481 – 198Ribosomal RNA small subunit methyltransferase DAdd BLAST198

Proteomic databases

PaxDbiP0ADX9.
PRIDEiP0ADX9.

2D gel databases

SWISS-2DPAGEP0ADX9.

Interactioni

Protein-protein interaction databases

BioGridi4262500. 46 interactors.
DIPiDIP-48275N.
IntActiP0ADX9. 6 interactors.
MINTiMINT-1267285.
STRINGi511145.b3465.

Structurei

Secondary structure

1198
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi11 – 13Combined sources3
Helixi17 – 19Combined sources3
Beta strandi23 – 25Combined sources3
Helixi37 – 51Combined sources15
Beta strandi55 – 58Combined sources4
Helixi65 – 72Combined sources8
Beta strandi76 – 81Combined sources6
Helixi85 – 97Combined sources13
Beta strandi102 – 106Combined sources5
Helixi110 – 114Combined sources5
Beta strandi121 – 126Combined sources6
Beta strandi129 – 131Combined sources3
Turni132 – 134Combined sources3
Helixi135 – 144Combined sources10
Beta strandi148 – 159Combined sources12
Helixi160 – 162Combined sources3
Beta strandi171 – 179Combined sources9
Beta strandi182 – 189Combined sources8

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2FPOX-ray2.05A/B/C/D/E/F1-198[»]
ProteinModelPortaliP0ADX9.
SMRiP0ADX9.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0ADX9.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4106H78. Bacteria.
COG0742. LUCA.
HOGENOMiHOG000050676.
InParanoidiP0ADX9.
KOiK08316.
OMAiMVDARCL.
PhylomeDBiP0ADX9.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
InterProiIPR002052. DNA_methylase_N6_adenine_CS.
IPR004398. RNA_MeTrfase_RsmD.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PIRSFiPIRSF004553. CHP00095. 1 hit.
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR00095. TIGR00095. 1 hit.
PROSITEiPS00092. N6_MTASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P0ADX9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKKPNHSGSG QIRIIGGQWR GRKLPVPDSP GLRPTTDRVR ETLFNWLAPV
60 70 80 90 100
IVDAQCLDCF AGSGALGLEA LSRYAAGATL IEMDRAVSQQ LIKNLATLKA
110 120 130 140 150
GNARVVNSNA MSFLAQKGTP HNIVFVDPPF RRGLLEETIN LLEDNGWLAD
160 170 180 190
EALIYVESEV ENGLPTVPAN WSLHREKVAG QVAYRLYQRE AQGESDAD
Length:198
Mass (Da):21,678
Last modified:December 6, 2005 - v1
Checksum:i04FB9D9DAF972605
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X04398 Genomic DNA. Translation: CAA27983.1.
U00039 Genomic DNA. Translation: AAB18440.1.
U00096 Genomic DNA. Translation: AAC76490.1.
AP009048 Genomic DNA. Translation: BAE77828.1.
PIRiS03129. QQECX3.
RefSeqiNP_417922.1. NC_000913.3.
WP_000743193.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC76490; AAC76490; b3465.
BAE77828; BAE77828; BAE77828.
GeneIDi947977.
KEGGiecj:JW3430.
eco:b3465.
PATRICi32122374. VBIEscCol129921_3564.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X04398 Genomic DNA. Translation: CAA27983.1.
U00039 Genomic DNA. Translation: AAB18440.1.
U00096 Genomic DNA. Translation: AAC76490.1.
AP009048 Genomic DNA. Translation: BAE77828.1.
PIRiS03129. QQECX3.
RefSeqiNP_417922.1. NC_000913.3.
WP_000743193.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2FPOX-ray2.05A/B/C/D/E/F1-198[»]
ProteinModelPortaliP0ADX9.
SMRiP0ADX9.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4262500. 46 interactors.
DIPiDIP-48275N.
IntActiP0ADX9. 6 interactors.
MINTiMINT-1267285.
STRINGi511145.b3465.

2D gel databases

SWISS-2DPAGEP0ADX9.

Proteomic databases

PaxDbiP0ADX9.
PRIDEiP0ADX9.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC76490; AAC76490; b3465.
BAE77828; BAE77828; BAE77828.
GeneIDi947977.
KEGGiecj:JW3430.
eco:b3465.
PATRICi32122374. VBIEscCol129921_3564.

Organism-specific databases

EchoBASEiEB0339.
EcoGeneiEG10343. rsmD.

Phylogenomic databases

eggNOGiENOG4106H78. Bacteria.
COG0742. LUCA.
HOGENOMiHOG000050676.
InParanoidiP0ADX9.
KOiK08316.
OMAiMVDARCL.
PhylomeDBiP0ADX9.

Enzyme and pathway databases

BioCyciEcoCyc:EG10343-MONOMER.
ECOL316407:JW3430-MONOMER.
MetaCyc:EG10343-MONOMER.
BRENDAi2.1.1.171. 2026.

Miscellaneous databases

EvolutionaryTraceiP0ADX9.
PROiP0ADX9.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
InterProiIPR002052. DNA_methylase_N6_adenine_CS.
IPR004398. RNA_MeTrfase_RsmD.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PIRSFiPIRSF004553. CHP00095. 1 hit.
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR00095. TIGR00095. 1 hit.
PROSITEiPS00092. N6_MTASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRSMD_ECOLI
AccessioniPrimary (citable) accession number: P0ADX9
Secondary accession number(s): P10120, Q2M7C8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 6, 2005
Last sequence update: December 6, 2005
Last modified: November 2, 2016
This is version 91 of the entry and version 1 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

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.