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Protein

Probable histone-lysine N-methyltransferase set-23

Gene

set-23

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Protein inferred from homologyi

Functioni

Probable histone methyltransferase (By similarity). Required for embryonic development.By similarity1 Publication

Catalytic activityi

S-adenosyl-L-methionine + L-lysine-[histone] = S-adenosyl-L-homocysteine + N(6)-methyl-L-lysine-[histone].

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi27 – 271Zinc 1By similarity
Metal bindingi27 – 271Zinc 2By similarity
Metal bindingi29 – 291Zinc 1By similarity
Metal bindingi33 – 331Zinc 1By similarity
Metal bindingi33 – 331Zinc 3By similarity
Metal bindingi39 – 391Zinc 1By similarity
Metal bindingi41 – 411Zinc 2By similarity
Metal bindingi65 – 651Zinc 2By similarity
Metal bindingi65 – 651Zinc 3By similarity
Metal bindingi69 – 691Zinc 2By similarity
Metal bindingi71 – 711Zinc 3By similarity
Metal bindingi78 – 781Zinc 3By similarity
Binding sitei141 – 1411S-adenosyl-L-methioninePROSITE-ProRule annotation
Binding sitei143 – 1431S-adenosyl-L-methioninePROSITE-ProRule annotation
Binding sitei170 – 1701S-adenosyl-L-methioninePROSITE-ProRule annotation
Metal bindingi176 – 1761Zinc 4By similarity
Metal bindingi225 – 2251Zinc 4By similarity
Metal bindingi227 – 2271Zinc 4By similarity
Metal bindingi232 – 2321Zinc 4By similarity

GO - Molecular functioni

  1. histone-lysine N-methyltransferase activity Source: UniProtKB-EC
  2. zinc ion binding Source: InterPro

GO - Biological processi

  1. multicellular organismal development Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator, Developmental protein, Methyltransferase, Transferase

Keywords - Ligandi

Metal-binding, S-adenosyl-L-methionine, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Probable histone-lysine N-methyltransferase set-23 (EC:2.1.1.43)
Alternative name(s):
SET-domain containing protein 23
Gene namesi
Name:set-23
ORF Names:Y41D4B.12
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
ProteomesiUP000001940: Chromosome IV

Organism-specific databases

WormBaseiY41D4B.12a; CE27623; WBGene00021515; set-23.
Y41D4B.12b; CE31647; WBGene00021515; set-23.

Subcellular locationi

Nucleus By similarity. Chromosome By similarity

GO - Cellular componenti

  1. chromosome Source: UniProtKB-SubCell
  2. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Nucleus

Pathology & Biotechi

Disruption phenotypei

Embryonic lethal.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 244244Probable histone-lysine N-methyltransferase set-23PRO_0000287565Add
BLAST

Proteomic databases

PRIDEiQ95Y12.

Interactioni

Protein-protein interaction databases

IntActiQ95Y12. 1 interaction.

Structurei

3D structure databases

ProteinModelPortaliQ95Y12.
SMRiQ95Y12. Positions 10-241.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini25 – 8662Pre-SETPROSITE-ProRule annotationAdd
BLAST
Domaini89 – 213125SETPROSITE-ProRule annotationAdd
BLAST
Domaini221 – 23717Post-SETPROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni101 – 1033S-adenosyl-L-methionine bindingBy similarity
Regioni173 – 1742S-adenosyl-L-methionine bindingBy similarity

Domaini

In the pre-SET domain, Cys residues bind 3 zinc ions that are arranged in a triangular cluster; some of these Cys residues contribute to the binding of two zinc ions within the cluster.By similarity

Sequence similaritiesi

Belongs to the class V-like SAM-binding methyltransferase superfamily. Histone-lysine methyltransferase family. Suvar3-9 subfamily.PROSITE-ProRule annotation
Contains 1 post-SET domain.PROSITE-ProRule annotation
Contains 1 pre-SET domain.PROSITE-ProRule annotation
Contains 1 SET domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiCOG2940.
GeneTreeiENSGT00780000121845.
InParanoidiQ95Y12.
KOiK11433.
OMAiYDSSLYC.
OrthoDBiEOG744T8D.
PhylomeDBiQ95Y12.

Family and domain databases

InterProiIPR003616. Post-SET_dom.
IPR007728. Pre-SET_dom.
IPR001214. SET_dom.
[Graphical view]
PfamiPF05033. Pre-SET. 1 hit.
PF00856. SET. 1 hit.
[Graphical view]
SMARTiSM00508. PostSET. 1 hit.
SM00317. SET. 1 hit.
[Graphical view]
PROSITEiPS50868. POST_SET. 1 hit.
PS50867. PRE_SET. 1 hit.
PS50280. SET. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform a (identifier: Q95Y12-1) [UniParc]FASTAAdd to Basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MNYEKIDSTI PGPGISETDW NDVFEGCNCE AECSSAAGCS CLINKIDNYT
60 70 80 90 100
VDGKINKSSE LLIECSDQCA CILLPTSCRN RVVQCGPQKK LEIFSTCEMA
110 120 130 140 150
KGFGVRAGEQ IAAGEFVCEY AGECIGEQEV ERRCREFRGD DNYTLTLKEF
160 170 180 190 200
FGGKPVKTFV DPRLRGNIGR FLNHSCEPNC EIILARLGRM IPAAGIFAKR
210 220 230 240
DIVRGEELCY DYGHSAIEGE NRKLCLCKSE KCRKYLPMSA TPIE
Length:244
Mass (Da):27,108
Last modified:December 1, 2001 - v1
Checksum:iAB291915D129C2A3
GO
Isoform b (identifier: Q95Y12-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-85: Missing.
     86-95: GPQKKLEIFS → MCLHTAPNFI

Note: No experimental confirmation available.

Show »
Length:159
Mass (Da):17,895
Checksum:iAF09BB931CC5CA44
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 8585Missing in isoform b. CuratedVSP_025564Add
BLAST
Alternative sequencei86 – 9510GPQKKLEIFS → MCLHTAPNFI in isoform b. CuratedVSP_025565

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FO080782 Genomic DNA. Translation: CCD66712.1.
FO080782 Genomic DNA. Translation: CCD66713.1.
RefSeqiNP_741320.1. NM_171270.1. [Q95Y12-1]
NP_741321.1. NM_171271.3. [Q95Y12-2]
UniGeneiCel.32662.

Genome annotation databases

EnsemblMetazoaiY41D4B.12a; Y41D4B.12a; WBGene00021515. [Q95Y12-1]
GeneIDi176969.
KEGGicel:CELE_Y41D4B.12.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FO080782 Genomic DNA. Translation: CCD66712.1.
FO080782 Genomic DNA. Translation: CCD66713.1.
RefSeqiNP_741320.1. NM_171270.1. [Q95Y12-1]
NP_741321.1. NM_171271.3. [Q95Y12-2]
UniGeneiCel.32662.

3D structure databases

ProteinModelPortaliQ95Y12.
SMRiQ95Y12. Positions 10-241.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ95Y12. 1 interaction.

Proteomic databases

PRIDEiQ95Y12.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiY41D4B.12a; Y41D4B.12a; WBGene00021515. [Q95Y12-1]
GeneIDi176969.
KEGGicel:CELE_Y41D4B.12.

Organism-specific databases

CTDi176969.
WormBaseiY41D4B.12a; CE27623; WBGene00021515; set-23.
Y41D4B.12b; CE31647; WBGene00021515; set-23.

Phylogenomic databases

eggNOGiCOG2940.
GeneTreeiENSGT00780000121845.
InParanoidiQ95Y12.
KOiK11433.
OMAiYDSSLYC.
OrthoDBiEOG744T8D.
PhylomeDBiQ95Y12.

Miscellaneous databases

NextBioi894788.
PROiQ95Y12.

Family and domain databases

InterProiIPR003616. Post-SET_dom.
IPR007728. Pre-SET_dom.
IPR001214. SET_dom.
[Graphical view]
PfamiPF05033. Pre-SET. 1 hit.
PF00856. SET. 1 hit.
[Graphical view]
SMARTiSM00508. PostSET. 1 hit.
SM00317. SET. 1 hit.
[Graphical view]
PROSITEiPS50868. POST_SET. 1 hit.
PS50867. PRE_SET. 1 hit.
PS50280. SET. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Genome sequence of the nematode C. elegans: a platform for investigating biology."
    The C. elegans sequencing consortium
    Science 282:2012-2018(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], ALTERNATIVE SPLICING.
    Strain: Bristol N2.
  2. "Two C. elegans histone methyltransferases repress lin-3 EGF transcription to inhibit vulval development."
    Andersen E.C., Horvitz H.R.
    Development 134:2991-2999(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DISRUPTION PHENOTYPE.

Entry informationi

Entry nameiSET23_CAEEL
AccessioniPrimary (citable) accession number: Q95Y12
Secondary accession number(s): Q8MXT0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 15, 2007
Last sequence update: December 1, 2001
Last modified: February 4, 2015
This is version 88 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. 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.