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Q87B36

- RLMN_XYLFT

UniProt

Q87B36 - RLMN_XYLFT

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Protein

Dual-specificity RNA methyltransferase RlmN

Gene
rlmN, PD_1624
Organism
Xylella fastidiosa (strain Temecula1 / ATCC 700964)
Status
Reviewed - Annotation score: 4 out of 5 - Protein inferred from homologyi

Functioni

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.UniRule annotation

Catalytic activityi

2 S-adenosyl-L-methionine + adenine(2503) in 23S rRNA = S-adenosyl-L-homocysteine + L-methionine + 5'-deoxyadenosine + 2-methyladenine(2503) in 23S rRNA.UniRule annotation
2 S-adenosyl-L-methionine + adenine(37) in tRNA = S-adenosyl-L-homocysteine + L-methionine + 5'-deoxyadenosine + 2-methyladenine(37) in tRNA.UniRule annotation

Cofactori

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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei119 – 1191Proton acceptor Reviewed prediction
Metal bindingi139 – 1391Iron-sulfur (4Fe-4S-S-AdoMet) By similarity
Metal bindingi143 – 1431Iron-sulfur (4Fe-4S-S-AdoMet) By similarity
Metal bindingi146 – 1461Iron-sulfur (4Fe-4S-S-AdoMet) By similarity
Binding sitei224 – 2241S-adenosyl-L-methionine By similarity
Binding sitei332 – 3321S-adenosyl-L-methionine; via amide nitrogen and carbonyl oxygen By similarity
Active sitei375 – 3751S-methylcysteine intermediate By similarity

GO - Molecular functioni

  1. 4 iron, 4 sulfur cluster binding Source: UniProtKB-HAMAP
  2. metal ion binding Source: UniProtKB-KW
  3. rRNA (adenine-C2-)-methyltransferase activity Source: UniProtKB-HAMAP
  4. rRNA binding Source: UniProtKB-HAMAP
  5. tRNA (adenine-C2-)-methyltransferase activity Source: UniProtKB-HAMAP
  6. tRNA binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. rRNA base methylation Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

rRNA processing, tRNA processing

Keywords - Ligandi

4Fe-4S, Iron, Iron-sulfur, Metal-binding, S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyciXFAS183190:GIX4-1624-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended 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 namesi
Name:rlmN
Ordered Locus Names:PD_1624
OrganismiXylella fastidiosa (strain Temecula1 / ATCC 700964)
Taxonomic identifieri183190 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXylella
ProteomesiUP000002516: Chromosome

Subcellular locationi

Cytoplasm Reviewed prediction UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 406406Dual-specificity RNA methyltransferase RlmNUniRule annotationPRO_0000350536Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi132 ↔ 375(transient) By similarity

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi183190.PD1624.

Structurei

3D structure databases

ProteinModelPortaliQ87B36.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni192 – 1932S-adenosyl-L-methionine binding By similarity
Regioni246 – 2483S-adenosyl-L-methionine binding By similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0820.
KOiK06941.
OMAiPEAPYAK.
OrthoDBiEOG6DJZ2N.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01849. RNA_methyltr_RlmN.
InterProiIPR013785. Aldolase_TIM.
IPR006638. Elp3/MiaB/NifB.
IPR027492. RNA_MTrfase_RlmN.
IPR004383. rRNA_lsu_MTrfase_RlmN/Cfr.
IPR007197. rSAM.
[Graphical view]
PANTHERiPTHR30544. PTHR30544. 1 hit.
PfamiPF04055. Radical_SAM. 1 hit.
[Graphical view]
PIRSFiPIRSF006004. CHP00048. 1 hit.
SMARTiSM00729. Elp3. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00048. TIGR00048. 1 hit.

Sequencei

Sequence statusi: Complete.

Q87B36-1 [UniParc]FASTAAdd to Basket

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MNGFAVIPSV TTTTTSGEPI ASDVARKQNL LELDREGLER FFEDVLGEKR    50
YRAHQVMKWI HHRYVADFEQ MTDVGKALRT RLQACAEVRV PRVVFDKHSA 100
DGTHKWLLAM GTDRKNAIET VYIPDKGRGT LCVSSQIGCG LNCTFCSTAT 150
QGFNRNLTTA EIIGQVWVAA RHLGNVPHQQ RRLTNVVMMG MGEPLMNFDN 200
VVRAMSVMRD DLGYGLSNKR VTLSTSGLVP MIDRLSTESD VSLAVSLHAP 250
NDKLREQLVP LNKKYPIVEL MASCERYLSV NRKRDSVTFE YTLMKGVNDK 300
QEHAHELAKL MRQFDCAMQV KGAAKVNLIP FNPFPGTCYE RSTEVDIRAF 350
QKILLDAQIL AMVRRTRGDD IDAACGQLKG QVVDRTRRQA EFRRTIEDRV 400
GRDVAA 406
Length:406
Mass (Da):45,706
Last modified:June 1, 2003 - v1
Checksum:iAA90F341DC96A7C2
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE009442 Genomic DNA. Translation: AAO29464.1.
RefSeqiNP_779815.1. NC_004556.1.

Genome annotation databases

EnsemblBacteriaiAAO29464; AAO29464; PD_1624.
GeneIDi1142966.
KEGGixft:PD1624.
PATRICi24151562. VBIXylFas71109_2084.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE009442 Genomic DNA. Translation: AAO29464.1 .
RefSeqi NP_779815.1. NC_004556.1.

3D structure databases

ProteinModelPortali Q87B36.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 183190.PD1624.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAO29464 ; AAO29464 ; PD_1624 .
GeneIDi 1142966.
KEGGi xft:PD1624.
PATRICi 24151562. VBIXylFas71109_2084.

Phylogenomic databases

eggNOGi COG0820.
KOi K06941.
OMAi PEAPYAK.
OrthoDBi EOG6DJZ2N.

Enzyme and pathway databases

BioCyci XFAS183190:GIX4-1624-MONOMER.

Family and domain databases

Gene3Di 3.20.20.70. 1 hit.
HAMAPi MF_01849. RNA_methyltr_RlmN.
InterProi IPR013785. Aldolase_TIM.
IPR006638. Elp3/MiaB/NifB.
IPR027492. RNA_MTrfase_RlmN.
IPR004383. rRNA_lsu_MTrfase_RlmN/Cfr.
IPR007197. rSAM.
[Graphical view ]
PANTHERi PTHR30544. PTHR30544. 1 hit.
Pfami PF04055. Radical_SAM. 1 hit.
[Graphical view ]
PIRSFi PIRSF006004. CHP00048. 1 hit.
SMARTi SM00729. Elp3. 1 hit.
[Graphical view ]
TIGRFAMsi TIGR00048. TIGR00048. 1 hit.
ProtoNeti Search...

Publicationsi

  1. "Comparative analyses of the complete genome sequences of Pierce's disease and citrus variegated chlorosis strains of Xylella fastidiosa."
    Van Sluys M.A., de Oliveira M.C., Monteiro-Vitorello C.B., Miyaki C.Y., Furlan L.R., Camargo L.E.A., da Silva A.C.R., Moon D.H., Takita M.A., Lemos E.G.M., Machado M.A., Ferro M.I.T., da Silva F.R., Goldman M.H.S., Goldman G.H., Lemos M.V.F., El-Dorry H., Tsai S.M.
    , Carrer H., Carraro D.M., de Oliveira R.C., Nunes L.R., Siqueira W.J., Coutinho L.L., Kimura E.T., Ferro E.S., Harakava R., Kuramae E.E., Marino C.L., Giglioti E., Abreu I.L., Alves L.M.C., do Amaral A.M., Baia G.S., Blanco S.R., Brito M.S., Cannavan F.S., Celestino A.V., da Cunha A.F., Fenille R.C., Ferro J.A., Formighieri E.F., Kishi L.T., Leoni S.G., Oliveira A.R., Rosa V.E. Jr., Sassaki F.T., Sena J.A.D., de Souza A.A., Truffi D., Tsukumo F., Yanai G.M., Zaros L.G., Civerolo E.L., Simpson A.J.G., Almeida N.F. Jr., Setubal J.C., Kitajima J.P.
    J. Bacteriol. 185:1018-1026(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Temecula1 / ATCC 700964.

Entry informationi

Entry nameiRLMN_XYLFT
AccessioniPrimary (citable) accession number: Q87B36
Entry historyi
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 statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

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

Keywords - Technical termi

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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