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Protein

Probable RNA methyltransferase RPD_2859

Gene

RPD_2859

Organism
Rhodopseudomonas palustris (strain BisB5)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Protein inferred from homologyi

Functioni

Cofactori

[4Fe-4S] clusterBy similarityNote: 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 sitei99 – 991Proton acceptorSequence Analysis
Metal bindingi119 – 1191Iron-sulfur (4Fe-4S-S-AdoMet)By similarity
Metal bindingi123 – 1231Iron-sulfur (4Fe-4S-S-AdoMet)By similarity
Metal bindingi126 – 1261Iron-sulfur (4Fe-4S-S-AdoMet)By similarity
Binding sitei194 – 1941S-adenosyl-L-methionineBy similarity
Binding sitei293 – 2931S-adenosyl-L-methionine; via amide nitrogen and carbonyl oxygenBy similarity
Active sitei336 – 3361S-methylcysteine intermediateBy similarity

GO - Molecular functioni

  1. 4 iron, 4 sulfur cluster binding Source: UniProtKB-KW
  2. metal ion binding Source: UniProtKB-KW
  3. RNA methyltransferase activity Source: InterPro

GO - Biological processi

  1. rRNA processing Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Ligandi

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

Enzyme and pathway databases

BioCyciRPAL316057:GHDC-2903-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable RNA methyltransferase RPD_2859 (EC:2.1.1.-)
Gene namesi
Ordered Locus Names:RPD_2859
OrganismiRhodopseudomonas palustris (strain BisB5)
Taxonomic identifieri316057 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeRhodopseudomonas
ProteomesiUP000001818 Componenti: Chromosome

Subcellular locationi

  1. Cytoplasm Curated

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 – 359359Probable RNA methyltransferase RPD_2859PRO_0000350372Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi112 ↔ 336(transient)By similarity

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi316057.RPD_2859.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni162 – 1632S-adenosyl-L-methionine bindingBy similarity
Regioni217 – 2193S-adenosyl-L-methionine bindingBy similarity

Sequence similaritiesi

Belongs to the radical SAM superfamily. RlmN family.Curated

Phylogenomic databases

eggNOGiCOG0820.
HOGENOMiHOG000217991.
KOiK06941.
OMAiCAFACRF.
OrthoDBiEOG6DJZ2N.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR006638. Elp3/MiaB/NifB.
IPR004383. rRNA_lsu_MTrfase_RlmN/Cfr.
IPR007197. rSAM.
[Graphical view]
PANTHERiPTHR30544. PTHR30544. 1 hit.
PfamiPF04055. Radical_SAM. 1 hit.
[Graphical view]
SMARTiSM00729. Elp3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q136A2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MASAQRHSTP DLVRQRDPAG VSGLSLGLTS SEFAGLHEGA VPDVTYRELF
60 70 80 90 100
FPHADPPRRL QNWARSRGVR LRTLTRIGRD QGGRSEKMLF GLHDGYAVES
110 120 130 140 150
VLIRRFDGHT ACISSQVGCA FACRFCASGQ AGLMRNLEAG EIVEQVVRLG
160 170 180 190 200
PKVNRIVFMG IGEPLNNYQQ VLKAIRILRD RQGMNFPTTG ITLSTIGIPK
210 220 230 240 250
ALKQLREEHL AINLTISLHA TTQEVRDRLI PGARKHPLGE VVERACAWAR
260 270 280 290 300
RHNRPVTFAY LVLPGINDSI ADARRLAAML RDSPARVNLM RWNPVDGVGL
310 320 330 340 350
QRTPDRSLAH FRTTLENALV PVVVRDTQGR DISAACGQLW LRDLKGLPVG

NRPRQGRMT
Length:359
Mass (Da):39,815
Last modified:October 31, 2006 - v1
Checksum:iCBEDC1DC5F019B71
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000283 Genomic DNA. Translation: ABE40087.1.
RefSeqiWP_011503264.1. NC_007958.1.
YP_569988.1. NC_007958.1.

Genome annotation databases

EnsemblBacteriaiABE40087; ABE40087; RPD_2859.
KEGGirpd:RPD_2859.
PATRICi23280771. VBIRhoPal120395_2951.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000283 Genomic DNA. Translation: ABE40087.1.
RefSeqiWP_011503264.1. NC_007958.1.
YP_569988.1. NC_007958.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi316057.RPD_2859.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABE40087; ABE40087; RPD_2859.
KEGGirpd:RPD_2859.
PATRICi23280771. VBIRhoPal120395_2951.

Phylogenomic databases

eggNOGiCOG0820.
HOGENOMiHOG000217991.
KOiK06941.
OMAiCAFACRF.
OrthoDBiEOG6DJZ2N.

Enzyme and pathway databases

BioCyciRPAL316057:GHDC-2903-MONOMER.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR006638. Elp3/MiaB/NifB.
IPR004383. rRNA_lsu_MTrfase_RlmN/Cfr.
IPR007197. rSAM.
[Graphical view]
PANTHERiPTHR30544. PTHR30544. 1 hit.
PfamiPF04055. Radical_SAM. 1 hit.
[Graphical view]
SMARTiSM00729. Elp3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: BisB5.

Entry informationi

Entry nameiY2859_RHOPS
AccessioniPrimary (citable) accession number: Q136A2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 2, 2008
Last sequence update: October 31, 2006
Last modified: April 29, 2015
This is version 63 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

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.