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Protein

Ribosomal RNA small subunit methyltransferase A

Gene

rsmA

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

Functioni

Specifically dimethylates two adjacent adenosines (A1518 and A1519) in the loop of a conserved hairpin near the 3'-end of 16S rRNA in the 30S particle. May play a critical role in biogenesis of 30S subunits. Has also a DNA glycosylase/AP lyase activity that removes C mispaired with oxidized T from DNA, and may play a role in protection of DNA against oxidative stress.3 Publications

Catalytic activityi

4 S-adenosyl-L-methionine + adenine(1518)/adenine(1519) in 16S rRNA = 4 S-adenosyl-L-homocysteine + N(6)-dimethyladenine(1518)/N(6)-dimethyladenine(1519) in 16S rRNA.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei18S-adenosyl-L-methionine; via carbonyl oxygenBy similarity1
Binding sitei20S-adenosyl-L-methionine; via amide nitrogenBy similarity1
Binding sitei45S-adenosyl-L-methionine; via carbonyl oxygenBy similarity1
Binding sitei66S-adenosyl-L-methionineBy similarity1
Binding sitei91S-adenosyl-L-methionineBy similarity1
Binding sitei113S-adenosyl-L-methionineBy similarity1

GO - Molecular functioni

  • 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity Source: UniProtKB-EC
  • double-stranded DNA binding Source: EcoCyc
  • mRNA binding Source: EcoCyc
  • rRNA (adenine-N6,N6-)-dimethyltransferase activity Source: EcoCyc
  • rRNA binding Source: EcoCyc

GO - Biological processi

  • response to antibiotic Source: UniProtKB-KW
  • ribosomal small subunit assembly Source: EcoCyc
  • rRNA base methylation Source: EcoCyc
  • rRNA processing Source: EcoCyc
Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

Antibiotic resistance, rRNA processing

Keywords - Ligandi

RNA-binding, S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyciEcoCyc:EG10523-MONOMER.
ECOL316407:JW0050-MONOMER.
MetaCyc:EG10523-MONOMER.
BRENDAi2.1.1.182. 2026.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribosomal RNA small subunit methyltransferase A (EC:2.1.1.182)
Alternative name(s):
16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase
16S rRNA dimethyladenosine transferase
16S rRNA dimethylase
High level kasugamycin resistance protein KsgA
Kasugamycin dimethyltransferase
S-adenosylmethionine-6-N', N'-adenosyl(rRNA) dimethyltransferase
Gene namesi
Name:rsmA
Synonyms:ksgA
Ordered Locus Names:b0051, JW0050
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG10523. rsmA.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: EcoCyc
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Disruption phenotypei

Inactivation leads to kasugamycin resistance. Cells lacking this gene show cold-sensitivity phenotype, altered ribosome profiles, and small subunit rRNA-processing defects.2 Publications

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi66E → A: Loss of activity. Overexpression of the mutant has a negative effect on cell growth, probably because it sequesters the small subunits in the free form and limits their participation in the translation cycle. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved1 Publication
ChainiPRO_00001015242 – 273Ribosomal RNA small subunit methyltransferase AAdd BLAST272

Proteomic databases

PaxDbiP06992.
PRIDEiP06992.

Interactioni

Protein-protein interaction databases

BioGridi4261012. 23 interactors.
IntActiP06992. 4 interactors.
MINTiMINT-1246440.
STRINGi511145.b0051.

Structurei

Secondary structure

1273
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi9 – 11Combined sources3
Helixi23 – 33Combined sources11
Beta strandi41 – 44Combined sources4
Turni47 – 51Combined sources5
Helixi52 – 56Combined sources5
Beta strandi62 – 65Combined sources4
Helixi69 – 76Combined sources8
Turni79 – 81Combined sources3
Helixi82 – 84Combined sources3
Beta strandi85 – 88Combined sources4
Helixi92 – 94Combined sources3
Helixi97 – 104Combined sources8
Beta strandi108 – 113Combined sources6
Turni116 – 118Combined sources3
Helixi119 – 127Combined sources9
Helixi128 – 132Combined sources5
Beta strandi133 – 141Combined sources9
Helixi142 – 149Combined sources8
Beta strandi152 – 156Combined sources5
Helixi159 – 167Combined sources9
Beta strandi168 – 176Combined sources9
Helixi178 – 180Combined sources3
Beta strandi181 – 183Combined sources3
Beta strandi189 – 196Combined sources8
Helixi207 – 219Combined sources13
Turni220 – 222Combined sources3
Helixi225 – 228Combined sources4
Turni229 – 232Combined sources4
Helixi235 – 240Combined sources6
Helixi249 – 251Combined sources3
Helixi254 – 267Combined sources14

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1QYRX-ray2.10A/B17-268[»]
3TPZX-ray2.10A/B1-273[»]
4ADVelectron microscopy13.50V17-268[»]
ProteinModelPortaliP06992.
SMRiP06992.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP06992.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4105D1X. Bacteria.
COG0030. LUCA.
HOGENOMiHOG000227962.
InParanoidiP06992.
KOiK02528.
OMAiVKANWYA.
PhylomeDBiP06992.

Family and domain databases

Gene3Di1.10.8.100. 1 hit.
3.40.50.150. 1 hit.
HAMAPiMF_00607. 16SrRNA_methyltr_A. 1 hit.
InterProiIPR001737. KsgA/Erm.
IPR023165. rRNA_Ade_diMease-like.
IPR020596. rRNA_Ade_Mease_Trfase_CS.
IPR020598. rRNA_Ade_methylase_Trfase_N.
IPR011530. rRNA_adenine_dimethylase.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PANTHERiPTHR11727. PTHR11727. 1 hit.
PfamiPF00398. RrnaAD. 1 hit.
[Graphical view]
SMARTiSM00650. rADc. 1 hit.
[Graphical view]
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR00755. ksgA. 1 hit.
PROSITEiPS01131. RRNA_A_DIMETH. 1 hit.
PS51689. SAM_RNA_A_N6_MT. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P06992-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNNRVHQGHL ARKRFGQNFL NDQFVIDSIV SAINPQKGQA MVEIGPGLAA
60 70 80 90 100
LTEPVGERLD QLTVIELDRD LAARLQTHPF LGPKLTIYQQ DAMTFNFGEL
110 120 130 140 150
AEKMGQPLRV FGNLPYNIST PLMFHLFSYT DAIADMHFML QKEVVNRLVA
160 170 180 190 200
GPNSKAYGRL SVMAQYYCNV IPVLEVPPSA FTPPPKVDSA VVRLVPHATM
210 220 230 240 250
PHPVKDVRVL SRITTEAFNQ RRKTIRNSLG NLFSVEVLTG MGIDPAMRAE
260 270
NISVAQYCQM ANYLAENAPL QES
Length:273
Mass (Da):30,420
Last modified:April 1, 1988 - v1
Checksum:iBBB163A0F4011C9D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M11054 Genomic DNA. Translation: AAA24049.1.
X04711 Genomic DNA. Translation: CAA28417.1.
U00096 Genomic DNA. Translation: AAC73162.1.
AP009048 Genomic DNA. Translation: BAE76038.1.
M68521 Genomic DNA. Translation: AAA24306.1.
X06536 Genomic DNA. Translation: CAA29786.1.
PIRiA24527. XYECRO.
RefSeqiNP_414593.1. NC_000913.3.
WP_001065381.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC73162; AAC73162; b0051.
BAE76038; BAE76038; BAE76038.
GeneIDi944939.
KEGGiecj:JW0050.
eco:b0051.
PATRICi32115201. VBIEscCol129921_0052.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M11054 Genomic DNA. Translation: AAA24049.1.
X04711 Genomic DNA. Translation: CAA28417.1.
U00096 Genomic DNA. Translation: AAC73162.1.
AP009048 Genomic DNA. Translation: BAE76038.1.
M68521 Genomic DNA. Translation: AAA24306.1.
X06536 Genomic DNA. Translation: CAA29786.1.
PIRiA24527. XYECRO.
RefSeqiNP_414593.1. NC_000913.3.
WP_001065381.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1QYRX-ray2.10A/B17-268[»]
3TPZX-ray2.10A/B1-273[»]
4ADVelectron microscopy13.50V17-268[»]
ProteinModelPortaliP06992.
SMRiP06992.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4261012. 23 interactors.
IntActiP06992. 4 interactors.
MINTiMINT-1246440.
STRINGi511145.b0051.

Proteomic databases

PaxDbiP06992.
PRIDEiP06992.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73162; AAC73162; b0051.
BAE76038; BAE76038; BAE76038.
GeneIDi944939.
KEGGiecj:JW0050.
eco:b0051.
PATRICi32115201. VBIEscCol129921_0052.

Organism-specific databases

EchoBASEiEB0518.
EcoGeneiEG10523. rsmA.

Phylogenomic databases

eggNOGiENOG4105D1X. Bacteria.
COG0030. LUCA.
HOGENOMiHOG000227962.
InParanoidiP06992.
KOiK02528.
OMAiVKANWYA.
PhylomeDBiP06992.

Enzyme and pathway databases

BioCyciEcoCyc:EG10523-MONOMER.
ECOL316407:JW0050-MONOMER.
MetaCyc:EG10523-MONOMER.
BRENDAi2.1.1.182. 2026.

Miscellaneous databases

EvolutionaryTraceiP06992.
PROiP06992.

Family and domain databases

Gene3Di1.10.8.100. 1 hit.
3.40.50.150. 1 hit.
HAMAPiMF_00607. 16SrRNA_methyltr_A. 1 hit.
InterProiIPR001737. KsgA/Erm.
IPR023165. rRNA_Ade_diMease-like.
IPR020596. rRNA_Ade_Mease_Trfase_CS.
IPR020598. rRNA_Ade_methylase_Trfase_N.
IPR011530. rRNA_adenine_dimethylase.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PANTHERiPTHR11727. PTHR11727. 1 hit.
PfamiPF00398. RrnaAD. 1 hit.
[Graphical view]
SMARTiSM00650. rADc. 1 hit.
[Graphical view]
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR00755. ksgA. 1 hit.
PROSITEiPS01131. RRNA_A_DIMETH. 1 hit.
PS51689. SAM_RNA_A_N6_MT. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRSMA_ECOLI
AccessioniPrimary (citable) accession number: P06992
Secondary accession number(s): Q2MCG8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1988
Last sequence update: April 1, 1988
Last modified: November 2, 2016
This is version 148 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

When overexpressed partially suppresses the slow growth and decreased 70S ribosome phenotype of an rsgA knockout; RsgA may be involved in 30S ribosomal subunit biogenesis. Upon overexpression also restores cold-sensitive growth of a missense mutation in Era.

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, 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.