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Q87B36 (RLMN_XYLFT) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 79. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
Dual-specificity RNA methyltransferase RlmN

EC=2.1.1.-
EC=2.1.1.192
Alternative name(s):
23S rRNA (adenine(2503)-C(2))-methyltransferase
23S rRNA m2A2503 methyltransferase
Ribosomal RNA large subunit methyltransferase N
tRNA (adenine(37)-C(2))-methyltransferase
tRNA m2A37 methyltransferase
Gene names
Name:rlmN
Ordered Locus Names:PD_1624
OrganismXylella fastidiosa (strain Temecula1 / ATCC 700964) [Complete proteome] [HAMAP]
Taxonomic identifier183190 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXylella

Protein attributes

Sequence length406 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

Specifically methylates position 2 of adenine 2503 in 23S rRNA and position 2 of adenine 37 in tRNAs. m2A2503 modification seems to play a crucial role in the proofreading step occurring at the peptidyl transferase center and thus would serve to optimize ribosomal fidelity By similarity. HAMAP-Rule MF_01849

Catalytic activity

2 S-adenosyl-L-methionine + adenine(2503) in 23S rRNA = S-adenosyl-L-homocysteine + L-methionine + 5'-deoxyadenosine + 2-methyladenine(2503) in 23S rRNA. HAMAP-Rule MF_01849

2 S-adenosyl-L-methionine + adenine37 in tRNA = S-adenosyl-L-homocysteine + L-methionine + 5'-deoxyadenosine + 2-methyladenine37 in tRNA. HAMAP-Rule MF_01849

Cofactor

Binds 1 4Fe-4S cluster. The cluster is coordinated with 3 cysteines and an exchangeable S-adenosyl-L-methionine By similarity.

Subcellular location

Cytoplasm Potential HAMAP-Rule MF_01849.

Miscellaneous

Reaction proceeds by a ping-pong mechanism involving intermediate methylation of a conserved cysteine residue By similarity.

Sequence similarities

Belongs to the radical SAM superfamily. RlmN family.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 406406Dual-specificity RNA methyltransferase RlmN HAMAP-Rule MF_01849
PRO_0000350536

Regions

Region192 – 1932S-adenosyl-L-methionine binding By similarity
Region246 – 2483S-adenosyl-L-methionine binding By similarity

Sites

Active site1191Proton acceptor Potential
Active site3751S-methylcysteine intermediate By similarity
Metal binding1391Iron-sulfur (4Fe-4S-S-AdoMet) By similarity
Metal binding1431Iron-sulfur (4Fe-4S-S-AdoMet) By similarity
Metal binding1461Iron-sulfur (4Fe-4S-S-AdoMet) By similarity
Binding site2241S-adenosyl-L-methionine By similarity
Binding site3321S-adenosyl-L-methionine; via amide nitrogen and carbonyl oxygen By similarity

Amino acid modifications

Disulfide bond132 ↔ 375(transient) By similarity

Sequences

Sequence LengthMass (Da)Tools
Q87B36 [UniParc].

Last modified June 1, 2003. Version 1.
Checksum: AA90F341DC96A7C2

FASTA40645,706
        10         20         30         40         50         60 
MNGFAVIPSV TTTTTSGEPI ASDVARKQNL LELDREGLER FFEDVLGEKR YRAHQVMKWI 

        70         80         90        100        110        120 
HHRYVADFEQ MTDVGKALRT RLQACAEVRV PRVVFDKHSA DGTHKWLLAM GTDRKNAIET 

       130        140        150        160        170        180 
VYIPDKGRGT LCVSSQIGCG LNCTFCSTAT QGFNRNLTTA EIIGQVWVAA RHLGNVPHQQ 

       190        200        210        220        230        240 
RRLTNVVMMG MGEPLMNFDN VVRAMSVMRD DLGYGLSNKR VTLSTSGLVP MIDRLSTESD 

       250        260        270        280        290        300 
VSLAVSLHAP NDKLREQLVP LNKKYPIVEL MASCERYLSV NRKRDSVTFE YTLMKGVNDK 

       310        320        330        340        350        360 
QEHAHELAKL MRQFDCAMQV KGAAKVNLIP FNPFPGTCYE RSTEVDIRAF QKILLDAQIL 

       370        380        390        400 
AMVRRTRGDD IDAACGQLKG QVVDRTRRQA EFRRTIEDRV GRDVAA 

« Hide

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AE009442 Genomic DNA. Translation: AAO29464.1.
RefSeqNP_779815.1. NC_004556.1.

3D structure databases

ProteinModelPortalQ87B36.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING183190.PD1624.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAO29464; AAO29464; PD_1624.
GeneID1142966.
KEGGxft:PD1624.
PATRIC24151562. VBIXylFas71109_2084.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0820.
KOK06941.
OMAPEAPYAK.
OrthoDBEOG6DJZ2N.

Enzyme and pathway databases

BioCycXFAS183190:GIX4-1624-MONOMER.

Family and domain databases

Gene3D3.20.20.70. 1 hit.
HAMAPMF_01849. RNA_methyltr_RlmN.
InterProIPR013785. Aldolase_TIM.
IPR006638. Elp3/MiaB/NifB.
IPR027492. RNA_MTrfase_RlmN.
IPR004383. rRNA_lsu_MTrfase_RlmN/Cfr.
IPR007197. rSAM.
[Graphical view]
PANTHERPTHR30544. PTHR30544. 1 hit.
PfamPF04055. Radical_SAM. 1 hit.
[Graphical view]
PIRSFPIRSF006004. CHP00048. 1 hit.
SMARTSM00729. Elp3. 1 hit.
[Graphical view]
TIGRFAMsTIGR00048. TIGR00048. 1 hit.
ProtoNetSearch...

Entry information

Entry nameRLMN_XYLFT
AccessionPrimary (citable) accession number: Q87B36
Entry history
Integrated into UniProtKB/Swiss-Prot: September 2, 2008
Last sequence update: June 1, 2003
Last modified: May 14, 2014
This is version 79 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families