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Protein

Ribosomal lysine N-methyltransferase 3

Gene

RKM3

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

S-adenosyl-L-methionine-dependent protein-lysine N-methyltransferase that monomethylates 60S ribosomal protein L42 (RPL42A and RPL42B) at 'Lys-40'.2 Publications

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei334 – 3341S-adenosyl-L-methioninePROSITE-ProRule annotation

GO - Molecular functioni

  • protein-lysine N-methyltransferase activity Source: SGD

GO - Biological processi

  • peptidyl-lysine monomethylation Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Ligandi

S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyciYEAST:G3O-29008-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribosomal lysine N-methyltransferase 31 Publication (EC:2.1.1.-2 Publications)
Gene namesi
Name:RKM31 Publication
Ordered Locus Names:YBR030WImported
ORF Names:YBR0314
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome II

Organism-specific databases

EuPathDBiFungiDB:YBR030W.
SGDiS000000234. RKM3.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: SGD
  • nucleus Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 552552Ribosomal lysine N-methyltransferase 3PRO_0000202472Add
BLAST

Proteomic databases

MaxQBiP38222.
PeptideAtlasiP38222.
PRIDEiP38222.

Interactioni

Protein-protein interaction databases

BioGridi32732. 28 interactions.
IntActiP38222. 4 interactions.
MINTiMINT-626337.

Structurei

3D structure databases

ProteinModelPortaliP38222.
SMRiP38222. Positions 26-54, 315-341.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini26 – 335310SETPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi418 – 42710Poly-Glu

Sequence similaritiesi

Belongs to the class V-like SAM-binding methyltransferase superfamily.PROSITE-ProRule annotation
Contains 1 SET domain.PROSITE-ProRule annotation

Phylogenomic databases

HOGENOMiHOG000142026.
InParanoidiP38222.
OMAiEASTELF.
OrthoDBiEOG7TF7MD.

Family and domain databases

InterProiIPR001214. SET_dom.
[Graphical view]
PfamiPF00856. SET. 1 hit.
[Graphical view]
PROSITEiPS50280. SET. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P38222-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSVTFKDDVH RILKFVANCN GRFEDSKCDI RESPLGGLGV FAKTDIAEGE
60 70 80 90 100
SILTLNKSSI FSASNSSIAN LLCDSSIDGM LALNIAFIYE TTVFRNSSHW
110 120 130 140 150
YPFLRTIRIR DDEGHLNLPP SFWHADAKRL LKGTSFDTLF DSLAPEEEIM
160 170 180 190 200
EGFEIAVDLA HKWNDEFGLE IPKGFLDVSE ENHEEDYNLK LEKFISVAYT
210 220 230 240 250
LSSRGFEIDA YHETALVPIA DLFNHHVSDP DLKFVSLYDV CDKCGEPDMC
260 270 280 290 300
KHLIAEEYLE AENLDKNMPK VASMETRVID EDLIKSLEND LEKEYSNVTA
310 320 330 340 350
NIEDDDGGIE NPDECVDLVL KNDVAQGQEI FNSYGELSNV FLLARYGFTV
360 370 380 390 400
PENQYDIVHL GPDFMKILKK EEKYQEKVKW WSQVGHGLFS AWYAQMRQED
410 420 430 440 450
EEDEDGQAKS DNLSDDIESE EEEEEEEGDD SLESWLSQLY IDSSGEPSPS
460 470 480 490 500
TWALANLLTL TAVQWESLFS KKATPHISDS IVNEEKLPFL AKKDNPHSKK
510 520 530 540 550
LLSNLLKEKQ LPCIKGDNSS KITSATKSML QNARTLVQSE HNILDRCLKR

LS
Length:552
Mass (Da):62,594
Last modified:October 1, 1994 - v1
Checksum:iE7460154E683D7B0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z35899 Genomic DNA. Translation: CAA84972.1.
X76078 Genomic DNA. Translation: CAA53686.1.
BK006936 Genomic DNA. Translation: DAA07151.1.
PIRiS45886.
RefSeqiNP_009586.1. NM_001178378.1.

Genome annotation databases

EnsemblFungiiYBR030W; YBR030W; YBR030W.
GeneIDi852318.
KEGGisce:YBR030W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z35899 Genomic DNA. Translation: CAA84972.1.
X76078 Genomic DNA. Translation: CAA53686.1.
BK006936 Genomic DNA. Translation: DAA07151.1.
PIRiS45886.
RefSeqiNP_009586.1. NM_001178378.1.

3D structure databases

ProteinModelPortaliP38222.
SMRiP38222. Positions 26-54, 315-341.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi32732. 28 interactions.
IntActiP38222. 4 interactions.
MINTiMINT-626337.

Proteomic databases

MaxQBiP38222.
PeptideAtlasiP38222.
PRIDEiP38222.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYBR030W; YBR030W; YBR030W.
GeneIDi852318.
KEGGisce:YBR030W.

Organism-specific databases

EuPathDBiFungiDB:YBR030W.
SGDiS000000234. RKM3.

Phylogenomic databases

HOGENOMiHOG000142026.
InParanoidiP38222.
OMAiEASTELF.
OrthoDBiEOG7TF7MD.

Enzyme and pathway databases

BioCyciYEAST:G3O-29008-MONOMER.

Miscellaneous databases

PROiP38222.

Family and domain databases

InterProiIPR001214. SET_dom.
[Graphical view]
PfamiPF00856. SET. 1 hit.
[Graphical view]
PROSITEiPS50280. SET. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The complete sequence of a 33 kb fragment on the right arm of chromosome II from Saccharomyces cerevisiae reveals 16 open reading frames, including ten new open reading frames, five previously identified genes and a homologue of the SCO1 gene."
    Smits P.H.M., de Haan M., Maat C., Grivell L.A.
    Yeast 10:S75-S80(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. "Complete DNA sequence of yeast chromosome II."
    Feldmann H., Aigle M., Aljinovic G., Andre B., Baclet M.C., Barthe C., Baur A., Becam A.-M., Biteau N., Boles E., Brandt T., Brendel M., Brueckner M., Bussereau F., Christiansen C., Contreras R., Crouzet M., Cziepluch C.
    , Demolis N., Delaveau T., Doignon F., Domdey H., Duesterhus S., Dubois E., Dujon B., El Bakkoury M., Entian K.-D., Feuermann M., Fiers W., Fobo G.M., Fritz C., Gassenhuber J., Glansdorff N., Goffeau A., Grivell L.A., de Haan M., Hein C., Herbert C.J., Hollenberg C.P., Holmstroem K., Jacq C., Jacquet M., Jauniaux J.-C., Jonniaux J.-L., Kallesoee T., Kiesau P., Kirchrath L., Koetter P., Korol S., Liebl S., Logghe M., Lohan A.J.E., Louis E.J., Li Z.Y., Maat M.J., Mallet L., Mannhaupt G., Messenguy F., Miosga T., Molemans F., Mueller S., Nasr F., Obermaier B., Perea J., Pierard A., Piravandi E., Pohl F.M., Pohl T.M., Potier S., Proft M., Purnelle B., Ramezani Rad M., Rieger M., Rose M., Schaaff-Gerstenschlaeger I., Scherens B., Schwarzlose C., Skala J., Slonimski P.P., Smits P.H.M., Souciet J.-L., Steensma H.Y., Stucka R., Urrestarazu L.A., van der Aart Q.J.M., Van Dyck L., Vassarotti A., Vetter I., Vierendeels F., Vissers S., Wagner G., de Wergifosse P., Wolfe K.H., Zagulski M., Zimmermann F.K., Mewes H.-W., Kleine K.
    EMBO J. 13:5795-5809(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  4. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  5. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  6. "Identification of two SET domain proteins required for methylation of lysine residues in yeast ribosomal protein Rpl42ab."
    Webb K.J., Laganowsky A., Whitelegge J.P., Clarke S.G.
    J. Biol. Chem. 283:35561-35568(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  7. "Stoichiometry of Saccharomyces cerevisiae lysine methylation: insights into non-histone protein lysine methyltransferase activity."
    Hart-Smith G., Chia S.Z., Low J.K., McKay M.J., Molloy M.P., Wilkins M.R.
    J. Proteome Res. 13:1744-1756(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.

Entry informationi

Entry nameiRKM3_YEAST
AccessioniPrimary (citable) accession number: P38222
Secondary accession number(s): D6VQ31
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1994
Last sequence update: October 1, 1994
Last modified: June 8, 2016
This is version 115 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 7880 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome II
    Yeast (Saccharomyces cerevisiae) chromosome II: entries and gene names

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.