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Protein

Ribosomal lysine N-methyltransferase 4

Gene

RKM4

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 3 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-55'.2 Publications

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei264 – 2641S-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-29828-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribosomal lysine N-methyltransferase 41 Publication (EC:2.1.1.-2 Publications)
Alternative name(s):
SET domain-containing protein 71 Publication
Gene namesi
Name:RKM41 Publication
Synonyms:RMS1Imported, SET71 Publication
Ordered Locus Names:YDR257CImported
ORF Names:YD9320A.07C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome IV

Organism-specific databases

EuPathDBiFungiDB:YDR257C.
SGDiS000002665. RKM4.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 494494Ribosomal lysine N-methyltransferase 4PRO_0000097367Add
BLAST

Proteomic databases

MaxQBiQ12504.

Interactioni

Protein-protein interaction databases

BioGridi32307. 44 interactions.
IntActiQ12504. 4 interactions.
MINTiMINT-4481677.

Structurei

3D structure databases

ProteinModelPortaliQ12504.
SMRiQ12504. Positions 4-359.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini25 – 265241SETPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi201 – 2066Poly-Glu

Sequence similaritiesi

Belongs to the class V-like SAM-binding methyltransferase superfamily. Histone-lysine methyltransferase family. SETD6 subfamily.PROSITE-ProRule annotationCurated
Contains 1 SET domain.PROSITE-ProRule annotation

Phylogenomic databases

GeneTreeiENSGT00730000111144.
HOGENOMiHOG000247886.
InParanoidiQ12504.
KOiK05302.
OMAiYNTYSDH.
OrthoDBiEOG092C1XN4.

Family and domain databases

InterProiIPR011383. N-lys_methylase_SETD6.
IPR001214. SET_dom.
[Graphical view]
PfamiPF00856. SET. 1 hit.
[Graphical view]
PIRSFiPIRSF011771. RMS1_SET. 1 hit.
PROSITEiPS50280. SET. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q12504-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDDFSRDTEN FVCWLKTTAE IEVSPKIEIK DLCCDNQGRA VVATQKIKKD
60 70 80 90 100
ETLFKIPRSS VLSVTTSQLI KDYPSLKDKF LNETGSWEGL IICILYEMEV
110 120 130 140 150
LQERSRWAPY FKVWNKPSDM NALIFWDDNE LQLLKPSLVL ERIGKKEAKE
160 170 180 190 200
MHERIIKSIK QIGGEFSRVA TSFEFDNFAY IASIILSYSF DLEMQDSSVN
210 220 230 240 250
ENEEEETSEE ELENERYLKS MIPLADMLNA DTSKCNANLT YDSNCLKMVA
260 270 280 290 300
LRDIEKNEQV YNIYGEHPNS ELLRRYGYVE WDGSKYDFGE VLLENIVEAL
310 320 330 340 350
KETFETNTEF LDRCIDILRN NANIQEFLEG EEIVLDSYDC YNNGELLPQL
360 370 380 390 400
ILLVQILTIL CQIPGLCKLD IKAMERQVER IVKKCLQLIE GARATTNCSA
410 420 430 440 450
TWKRCIMKRL ADYPIKKCVS IEKPSKGNSL TREELRDVMA RRVLKSEIDS
460 470 480 490
LQVCEETIDK NYKVIPDEKL LTNILKRKLT EEEKSSVKRP CVKK
Length:494
Mass (Da):57,289
Last modified:November 1, 1996 - v1
Checksum:i22034EB9DFB2440D
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti10 – 134NFVC → KLCF in L16533 (PubMed:8413229).Curated
Sequence conflicti168 – 1747RVATSFE → TCVANCPSK in CAA86307 (Ref. 1) Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z46237 Genomic DNA. Translation: CAA86307.1.
Z70202 Genomic DNA. Translation: CAA94096.1.
Z68329 Genomic DNA. Translation: CAA92714.1.
AY723787 Genomic DNA. Translation: AAU09704.1.
L16533 Unassigned DNA. No translation available.
BK006938 Genomic DNA. Translation: DAA12097.1.
PIRiS67314.
RefSeqiNP_010543.1. NM_001180565.1.

Genome annotation databases

EnsemblFungiiYDR257C; YDR257C; YDR257C.
GeneIDi851844.
KEGGisce:YDR257C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z46237 Genomic DNA. Translation: CAA86307.1.
Z70202 Genomic DNA. Translation: CAA94096.1.
Z68329 Genomic DNA. Translation: CAA92714.1.
AY723787 Genomic DNA. Translation: AAU09704.1.
L16533 Unassigned DNA. No translation available.
BK006938 Genomic DNA. Translation: DAA12097.1.
PIRiS67314.
RefSeqiNP_010543.1. NM_001180565.1.

3D structure databases

ProteinModelPortaliQ12504.
SMRiQ12504. Positions 4-359.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi32307. 44 interactions.
IntActiQ12504. 4 interactions.
MINTiMINT-4481677.

Proteomic databases

MaxQBiQ12504.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYDR257C; YDR257C; YDR257C.
GeneIDi851844.
KEGGisce:YDR257C.

Organism-specific databases

EuPathDBiFungiDB:YDR257C.
SGDiS000002665. RKM4.

Phylogenomic databases

GeneTreeiENSGT00730000111144.
HOGENOMiHOG000247886.
InParanoidiQ12504.
KOiK05302.
OMAiYNTYSDH.
OrthoDBiEOG092C1XN4.

Enzyme and pathway databases

BioCyciYEAST:G3O-29828-MONOMER.

Miscellaneous databases

ChiTaRSiRKM4. yeast.
PROiQ12504.

Family and domain databases

InterProiIPR011383. N-lys_methylase_SETD6.
IPR001214. SET_dom.
[Graphical view]
PfamiPF00856. SET. 1 hit.
[Graphical view]
PIRSFiPIRSF011771. RMS1_SET. 1 hit.
PROSITEiPS50280. SET. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRKM4_YEAST
AccessioniPrimary (citable) accession number: Q12504
Secondary accession number(s): D6VSN7, Q07015
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 26, 2004
Last sequence update: November 1, 1996
Last modified: September 7, 2016
This is version 118 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 4010 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 IV
    Yeast (Saccharomyces cerevisiae) chromosome IV: 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.