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Protein

Ribosomal RNA small subunit methyltransferase F

Gene

rsmF

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

Functioni

Specifically methylates the cytosine at position 1407 (m5C1407) of 16S rRNA.1 Publication

Catalytic activityi

S-adenosyl-L-methionine + cytosine(1407) in 16S rRNA = S-adenosyl-L-homocysteine + 5-methylcytosine(1407) in 16S rRNA.2 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei149S-adenosyl-L-methionineBy similarity1
Binding sitei176S-adenosyl-L-methionineBy similarity1
Binding sitei194S-adenosyl-L-methionineBy similarity1
Active sitei247NucleophileBy similarity1

GO - Molecular functioni

  • RNA binding Source: UniProtKB-KW
  • rRNA (cytosine-C5-)-methyltransferase activity Source: EcoCyc

GO - Biological processi

  • rRNA base methylation 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:G7008-MONOMER.
ECOL316407:JW5301-MONOMER.
MetaCyc:G7008-MONOMER.
BRENDAi2.1.1.178. 2026.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribosomal RNA small subunit methyltransferase F (EC:2.1.1.178)
Alternative name(s):
16S rRNA m5C1407 methyltransferase
rRNA (cytosine-C(5)-)-methyltransferase RsmF
Gene namesi
Name:rsmF
Synonyms:yebU
Ordered Locus Names:b1835, JW5301
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG14023. rsmF.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002118221 – 479Ribosomal RNA small subunit methyltransferase FAdd BLAST479

Proteomic databases

PaxDbiP76273.
PRIDEiP76273.

Interactioni

Protein-protein interaction databases

BioGridi4259158. 9 interactors.
STRINGi511145.b1835.

Structurei

Secondary structure

1479
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi10 – 16Combined sources7
Helixi17 – 19Combined sources3
Helixi27 – 33Combined sources7
Beta strandi41 – 43Combined sources3
Turni45 – 47Combined sources3
Helixi50 – 57Combined sources8
Helixi58 – 60Combined sources3
Beta strandi70 – 74Combined sources5
Helixi86 – 88Combined sources3
Helixi90 – 93Combined sources4
Beta strandi96 – 99Combined sources4
Helixi102 – 111Combined sources10
Turni112 – 115Combined sources4
Beta strandi119 – 125Combined sources7
Helixi130 – 138Combined sources9
Turni139 – 141Combined sources3
Beta strandi143 – 148Combined sources6
Helixi152 – 165Combined sources14
Beta strandi169 – 173Combined sources5
Helixi180 – 183Combined sources4
Beta strandi188 – 194Combined sources7
Helixi200 – 204Combined sources5
Beta strandi209 – 212Combined sources4
Helixi215 – 235Combined sources21
Beta strandi236 – 247Combined sources12
Turni252 – 254Combined sources3
Helixi255 – 264Combined sources10
Turni266 – 268Combined sources3
Beta strandi269 – 271Combined sources3
Helixi281 – 284Combined sources4
Beta strandi291 – 293Combined sources3
Turni295 – 299Combined sources5
Beta strandi303 – 310Combined sources8
Helixi334 – 345Combined sources12
Turni346 – 348Combined sources3
Beta strandi355 – 368Combined sources14
Helixi369 – 374Combined sources6
Beta strandi381 – 391Combined sources11
Beta strandi394 – 397Combined sources4
Helixi399 – 405Combined sources7
Beta strandi408 – 415Combined sources8
Helixi418 – 425Combined sources8
Beta strandi439 – 445Combined sources7
Beta strandi448 – 454Combined sources7
Turni456 – 459Combined sources4
Helixi466 – 468Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2FRXX-ray2.90A/B/C/D1-479[»]
ProteinModelPortaliP76273.
SMRiP76273.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP76273.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni125 – 131S-adenosyl-L-methionine bindingBy similarity7

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4105CYJ. Bacteria.
COG0144. LUCA.
COG3270. LUCA.
HOGENOMiHOG000218115.
InParanoidiP76273.
KOiK11392.
OMAiWCAEGFW.
PhylomeDBiP76273.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
HAMAPiMF_01579. 16SrRNA_methyltr_F. 1 hit.
InterProiIPR018314. Fmu/NOL1/Nop2p_CS.
IPR031341. Methyltr_RsmF_N.
IPR001678. MeTrfase_RsmB/NOP2.
IPR027391. Nol1_Nop2_Fmu_2.
IPR011023. Nop2p.
IPR023267. RCMT.
IPR023545. rRNA_ssu_MeTfrase_F.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF01189. Methyltr_RsmB-F. 1 hit.
PF17125. Methyltr_RsmF_N. 1 hit.
PF13636. Methyltranf_PUA. 1 hit.
[Graphical view]
PRINTSiPR02008. RCMTFAMILY.
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR00446. nop2p. 1 hit.
PROSITEiPS01153. NOL1_NOP2_SUN. 1 hit.
PS51686. SAM_MT_RSMB_NOP. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P76273-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAQHTVYFPD AFLTQMREAM PSTLSFDDFL AACQRPLRRS IRVNTLKISV
60 70 80 90 100
ADFLQLTAPY GWTLTPIPWC EEGFWIERDN EDALPLGSTA EHLSGLFYIQ
110 120 130 140 150
EASSMLPVAA LFADGNAPQR VMDVAAAPGS KTTQISARMN NEGAILANEF
160 170 180 190 200
SASRVKVLHA NISRCGISNV ALTHFDGRVF GAAVPEMFDA ILLDAPCSGE
210 220 230 240 250
GVVRKDPDAL KNWSPESNQE IAATQRELID SAFHALRPGG TLVYSTCTLN
260 270 280 290 300
QEENEAVCLW LKETYPDAVE FLPLGDLFPG ANKALTEEGF LHVFPQIYDC
310 320 330 340 350
EGFFVARLRK TQAIPALPAP KYKVGNFPFS PVKDREAGQI RQAATGVGLN
360 370 380 390 400
WDENLRLWQR DKELWLFPVG IEALIGKVRF SRLGIKLAET HNKGYRWQHE
410 420 430 440 450
AVIALASPDN MNAFELTPQE AEEWYRGRDV YPQAAPVADD VLVTFQHQPI
460 470
GLAKRIGSRL KNSYPRELVR DGKLFTGNA
Length:479
Mass (Da):53,228
Last modified:December 15, 1998 - v2
Checksum:i30D2B6AD01FCFF3E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC74905.2.
AP009048 Genomic DNA. Translation: BAA15648.2.
PIRiC64945.
RefSeqiNP_416349.2. NC_000913.3.
WP_001352260.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC74905; AAC74905; b1835.
BAA15648; BAA15648; BAA15648.
GeneIDi946348.
KEGGiecj:JW5301.
eco:b1835.
PATRICi32118991. VBIEscCol129921_1913.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC74905.2.
AP009048 Genomic DNA. Translation: BAA15648.2.
PIRiC64945.
RefSeqiNP_416349.2. NC_000913.3.
WP_001352260.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2FRXX-ray2.90A/B/C/D1-479[»]
ProteinModelPortaliP76273.
SMRiP76273.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4259158. 9 interactors.
STRINGi511145.b1835.

Proteomic databases

PaxDbiP76273.
PRIDEiP76273.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC74905; AAC74905; b1835.
BAA15648; BAA15648; BAA15648.
GeneIDi946348.
KEGGiecj:JW5301.
eco:b1835.
PATRICi32118991. VBIEscCol129921_1913.

Organism-specific databases

EchoBASEiEB3777.
EcoGeneiEG14023. rsmF.

Phylogenomic databases

eggNOGiENOG4105CYJ. Bacteria.
COG0144. LUCA.
COG3270. LUCA.
HOGENOMiHOG000218115.
InParanoidiP76273.
KOiK11392.
OMAiWCAEGFW.
PhylomeDBiP76273.

Enzyme and pathway databases

BioCyciEcoCyc:G7008-MONOMER.
ECOL316407:JW5301-MONOMER.
MetaCyc:G7008-MONOMER.
BRENDAi2.1.1.178. 2026.

Miscellaneous databases

EvolutionaryTraceiP76273.
PROiP76273.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
HAMAPiMF_01579. 16SrRNA_methyltr_F. 1 hit.
InterProiIPR018314. Fmu/NOL1/Nop2p_CS.
IPR031341. Methyltr_RsmF_N.
IPR001678. MeTrfase_RsmB/NOP2.
IPR027391. Nol1_Nop2_Fmu_2.
IPR011023. Nop2p.
IPR023267. RCMT.
IPR023545. rRNA_ssu_MeTfrase_F.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF01189. Methyltr_RsmB-F. 1 hit.
PF17125. Methyltr_RsmF_N. 1 hit.
PF13636. Methyltranf_PUA. 1 hit.
[Graphical view]
PRINTSiPR02008. RCMTFAMILY.
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR00446. nop2p. 1 hit.
PROSITEiPS01153. NOL1_NOP2_SUN. 1 hit.
PS51686. SAM_MT_RSMB_NOP. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRSMF_ECOLI
AccessioniPrimary (citable) accession number: P76273
Secondary accession number(s): O07980
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: December 15, 1998
Last modified: November 2, 2016
This is version 124 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

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.