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Protein

23S rRNA (uridine(2479)-2'-O)-methyltransferase

Gene

aviRb

Organism
Streptomyces viridochromogenes
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Specifically methylates the 2'-O-ribose position of uridine-2479 in 23S ribosomal RNA. Confers resistance to antibiotic avilamycin, an orthosomycin antibiotic.2 Publications

Catalytic activityi

S-adenosyl-L-methionine + uridine(2479) in 23S rRNA = S-adenosyl-L-homocysteine + 2'-O-methyluridine(2479) in 23S rRNA.1 Publication

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei232 – 2321S-adenosyl-L-methionine; via amide nitrogen1 Publication

GO - Molecular functioni

  • RNA binding Source: InterPro
  • rRNA (uridine-2'-O-)-methyltransferase activity Source: UniProtKB

GO - Biological processi

  • methylation Source: UniProtKB
  • response to antibiotic Source: UniProtKB
  • rRNA methylation Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

Antibiotic resistance

Keywords - Ligandi

S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-16328.
BRENDAi2.1.1.208. 6116.

Names & Taxonomyi

Protein namesi
Recommended name:
23S rRNA (uridine(2479)-2'-O)-methyltransferase (EC:2.1.1.208)
Alternative name(s):
Avilamycin resistance protein B
Gene namesi
Name:aviRb
OrganismiStreptomyces viridochromogenes
Taxonomic identifieri1938 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaStreptomycetalesStreptomycetaceaeStreptomyces

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi135 – 1351T → V: Slightly increases catalytic activity. 1 Publication
Mutagenesisi139 – 1391N → A: Almost abolishes catalytic activity. 1 Publication
Mutagenesisi145 – 1451R → A: Almost abolishes catalytic activity. 1 Publication
Mutagenesisi234 – 2341E → A: Strongly impairs catalytic activity. 1 Publication
Mutagenesisi234 – 2341E → Q: Slightly impairs catalytic activity. 1 Publication
Mutagenesisi262 – 2621N → A: Almost abolishes catalytic activity. 1 Publication
Mutagenesisi262 – 2621N → Q: Slightly impairs catalytic activity. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 28728723S rRNA (uridine(2479)-2'-O)-methyltransferasePRO_0000418461Add
BLAST

Interactioni

Subunit structurei

Homodimer.1 Publication

Structurei

Secondary structure

1
287
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi20 – 278Combined sources
Helixi32 – 387Combined sources
Beta strandi40 – 456Combined sources
Helixi46 – 549Combined sources
Beta strandi59 – 679Combined sources
Helixi72 – 809Combined sources
Beta strandi83 – 886Combined sources
Helixi90 – 934Combined sources
Beta strandi95 – 973Combined sources
Beta strandi99 – 1013Combined sources
Beta strandi105 – 1117Combined sources
Helixi117 – 1193Combined sources
Beta strandi127 – 1337Combined sources
Helixi137 – 14913Combined sources
Beta strandi154 – 1629Combined sources
Helixi167 – 1726Combined sources
Turni173 – 1753Combined sources
Helixi176 – 1783Combined sources
Beta strandi182 – 1876Combined sources
Helixi188 – 20114Combined sources
Beta strandi206 – 2105Combined sources
Beta strandi215 – 2173Combined sources
Helixi218 – 2203Combined sources
Beta strandi227 – 2315Combined sources
Turni234 – 2363Combined sources
Helixi240 – 2456Combined sources
Beta strandi247 – 2515Combined sources
Beta strandi255 – 2584Combined sources
Helixi263 – 27816Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1X7OX-ray2.37A/B1-287[»]
1X7PX-ray2.55A/B1-287[»]
ProteinModelPortaliQ9F5K6.
SMRiQ9F5K6. Positions 18-284.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9F5K6.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni210 – 2112S-adenosyl-L-methionine binding
Regioni252 – 2543S-adenosyl-L-methionine binding

Sequence similaritiesi

Family and domain databases

Gene3Di3.30.1330.30. 1 hit.
3.40.1280.10. 1 hit.
InterProiIPR029028. Alpha/beta_knot_MTases.
IPR029064. L30e-like.
IPR001537. SpoU_MeTrfase.
IPR029026. tRNA_m1G_MTases_N.
[Graphical view]
PfamiPF00588. SpoU_methylase. 1 hit.
[Graphical view]
SUPFAMiSSF55315. SSF55315. 1 hit.
SSF75217. SSF75217. 1 hit.

Sequencei

Sequence statusi: Complete.

Q9F5K6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MARSRGERTP AARRITSRNA RFQQWQALLG NRNKRTRAGE FLVMGVRPIS
60 70 80 90 100
LAVEHGWPVR TLLYDGQREL SKWARELLRT VRTEQIAMAP DLLMELGEKN
110 120 130 140 150
EAPPEVVAVV EMPADDLDRI PVREDFLGVL FDRPTSPGNI GSIIRSADAL
160 170 180 190 200
GAHGLIVAGH AADVYDPKSV RSSTGSLFSL PAVRVPSPGE VMDWVEARRA
210 220 230 240 250
AGTPIVLVGT DEHGDCDVFD FDFTQPTLLL IGNETAGLSN AWRTLCDYTV
260 270 280
SIPMAGSASS LNAANAATAI LYEAVRQRIS GRTATTP
Length:287
Mass (Da):31,215
Last modified:March 1, 2001 - v1
Checksum:i27E742DB22E19DBE
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF333038 Genomic DNA. Translation: AAG32066.1.

Genome annotation databases

KEGGiag:AAG32066.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF333038 Genomic DNA. Translation: AAG32066.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1X7OX-ray2.37A/B1-287[»]
1X7PX-ray2.55A/B1-287[»]
ProteinModelPortaliQ9F5K6.
SMRiQ9F5K6. Positions 18-284.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

KEGGiag:AAG32066.

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-16328.
BRENDAi2.1.1.208. 6116.

Miscellaneous databases

EvolutionaryTraceiQ9F5K6.

Family and domain databases

Gene3Di3.30.1330.30. 1 hit.
3.40.1280.10. 1 hit.
InterProiIPR029028. Alpha/beta_knot_MTases.
IPR029064. L30e-like.
IPR001537. SpoU_MeTrfase.
IPR029026. tRNA_m1G_MTases_N.
[Graphical view]
PfamiPF00588. SpoU_methylase. 1 hit.
[Graphical view]
SUPFAMiSSF55315. SSF55315. 1 hit.
SSF75217. SSF75217. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "An ATP-binding cassette transporter and two rRNA methyltransferases are involved in resistance to avilamycin in the producer organism Streptomyces viridochromogenes Tu57."
    Weitnauer G., Gaisser S., Trefzer A., Stockert S., Westrich L., Quiros L.M., Mendez C., Salas J.A., Bechthold A.
    Antimicrob. Agents Chemother. 45:690-695(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION.
    Strain: Tu57.
  2. "The avilamycin resistance determinants AviRa and AviRb methylate 23S rRNA at the guanosine 2535 base and the uridine 2479 ribose."
    Treede I., Jakobsen L., Kirpekar F., Vester B., Weitnauer G., Bechthold A., Douthwaite S.
    Mol. Microbiol. 49:309-318(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, CATALYTIC ACTIVITY.
    Strain: Tu57.
  3. "Structure and function of the antibiotic resistance-mediating methyltransferase AviRb from Streptomyces viridochromogenes."
    Mosbacher T.G., Bechthold A., Schulz G.E.
    J. Mol. Biol. 345:535-545(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.37 ANGSTROMS) IN COMPLEX WITH S-ADENOSYL-L-METHIONINE, SUBUNIT, MUTAGENESIS OF THR-135; ASN-139; ARG-145; GLU-234 AND ASN-262.
    Strain: Tu57.

Entry informationi

Entry nameiAVRB_STRVR
AccessioniPrimary (citable) accession number: Q9F5K6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 5, 2012
Last sequence update: March 1, 2001
Last modified: May 11, 2016
This is version 56 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

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. 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.