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Entry version 124 (02 Jun 2021)
Sequence version 1 (07 Dec 2004)
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Protein

Histone-lysine N-methyltransferase CLF

Gene

CLF

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Polycomb group (PcG) protein. Catalytic subunit of some PcG multiprotein complex, which methylates 'Lys-27' of histone H3, leading to transcriptional repression of the affected target genes. PcG proteins act by forming multiprotein complexes, which are required to maintain the transcriptionally repressive state of homeotic genes throughout development. PcG proteins are not required to initiate repression, but to maintain it during later stages of development (Probable). Involved in the regulation of flowering. Represses flowering under long day (LD) conditions. Regulates the trimethylation on histone H3 'Lys-27' (H3K27me3) of the flowering regulators MADS14, MADS15, RFT1, EHD1, HD3A and LF (PubMed:25400654).

1 Publication1 Publication

Miscellaneous

Over-expression and down-regulation of CLF respectively, represses and promotes flowering in long day (LD), but has no effect in short day (SD).1 Publication

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei861S-adenosyl-L-methioninePROSITE-ProRule annotation1

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionChromatin regulator, Developmental protein, Methyltransferase, Transferase
Biological processDifferentiation, Flowering, Transcription, Transcription regulation
LigandS-adenosyl-L-methionine

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Histone-lysine N-methyltransferase CLFCurated (EC:2.1.1.356PROSITE-ProRule annotation)
Short name:
OsCLF1 Publication
Alternative name(s):
Protein SET DOMAIN GROUP 711Curated
SET family protein 24Curated
Short name:
OsSET241 Publication
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:CLF1 Publication
Synonyms:SDG7111 Publication
Ordered Locus Names:Os06g0275500Imported, LOC_Os06g16390Curated
ORF Names:P0038C05.29Imported, P0676F10.40Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiOryza sativa subsp. japonica (Rice)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri39947 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliopsidaLiliopsidaPoalesPoaceaeBOP cladeOryzoideaeOryzeaeOryzinaeOryzaOryza sativa
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000059680 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 6
  • UP000000763 Componenti: Chromosome 6

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00004444651 – 896Histone-lysine N-methyltransferase CLFAdd BLAST896

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
Q5VN06

PRoteomics IDEntifications database

More...
PRIDEi
Q5VN06

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the 'Expression' section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms. By default, the information is derived from experiments at the mRNA level, unless specified 'at protein level'.<br></br>Examples: <a href="http://www.uniprot.org/uniprot/P92958#expression">P92958</a>, <a href="http://www.uniprot.org/uniprot/Q8TDN4#expression">Q8TDN4</a>, <a href="http://www.uniprot.org/uniprot/O14734#expression">O14734</a><p><a href='/help/tissue_specificity' target='_top'>More...</a></p>Tissue specificityi

Widely expressed (PubMed:19825651). Highly expressed in young panicle (PubMed:23762371).2 Publications

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Interacts with FIE1 (PubMed:23150632).

Component of the polycomb repressive complex 2 (PRC2), composed of the core PRC2 components FIE2, EMF2B and EZ1. PRC2 methylates 'Lys-27' residues of histone H3 (H3K27me3), leading to transcriptional repression of the affected target gene (PubMed:23505380).

2 Publications

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
4530.OS06T0275500-01

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini633 – 732CXCPROSITE-ProRule annotationAdd BLAST100
Domaini747 – 862SETPROSITE-ProRule annotationAdd BLAST116

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni344 – 419DisorderedSequence analysisAdd BLAST76
Regioni459 – 514DisorderedSequence analysisAdd BLAST56
Regioni869 – 896DisorderedSequence analysisAdd BLAST28

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes the position of regions of compositional bias within the protein and the particular type of amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi345 – 400Polar residuesSequence analysisAdd BLAST56
Compositional biasi460 – 499Polar residuesSequence analysisAdd BLAST40
Compositional biasi500 – 514Basic and acidic residuesSequence analysisAdd BLAST15

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG1079, Eukaryota

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_011060_0_0_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q5VN06

Identification of Orthologs from Complete Genome Data

More...
OMAi
DESICRQ

Database of Orthologous Groups

More...
OrthoDBi
875190at2759

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR026489, CXC_dom
IPR025778, Hist-Lys_N-MeTrfase
IPR041355, Pre-SET_CXC
IPR001214, SET_dom
IPR033467, Tesmin/TSO1-like_CXC

The PANTHER Classification System

More...
PANTHERi
PTHR45747:SF15, PTHR45747:SF15, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF18264, preSET_CXC, 1 hit
PF00856, SET, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM01114, CXC, 1 hit
SM00317, SET, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51633, CXC, 1 hit
PS51576, SAM_MT43_EZ, 1 hit
PS50280, SET, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

Q5VN06-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MAGDSRNEPM FCEEGSSESG YVLCVIDSLK KKITSDRFVY IQKRVEENSI
60 70 80 90 100
KLSPITLHSH NLSKNRQTST SNSTDLVSNL LTKRKEDALC AVNSRESSPD
110 120 130 140 150
ESEGANCQDE CSSTVIVGGN LSARNSVRPI RLPEVATLPP YTTWIFLDRN
160 170 180 190 200
QRMQEDQSVL GRRRIYYDTN CGEALICSDS EDEAVEDEEE KKEFKDSEDC
210 220 230 240 250
IIRMTIQECG MSDAVLETLA RDIERAPDDI KARYEILQGE KPEGSSKKVS
260 270 280 290 300
ELNVKMEDVY GDKDLDAALD SFDNLFCRRC LVFDCKLHGC SQDLVFPTEK
310 320 330 340 350
QAPLCSSDEG TPCGIHCYKL VSKPDAIMEI DSHLLVDVEE PTSDNLKDQI
360 370 380 390 400
GSNKKKLGSS GQKTKSQQSE SSSTARVSSE SSESEVQLLS NKSPQHSPGL
410 420 430 440 450
SKNKLGAKGG IKKSTNRRIA ERILMSVKKG QQEMSPDSNS IVNGCHWPRD
460 470 480 490 500
MKLRSDTRSG IKDSVVSSQC NSPSTRSFRK KGTLQMENNS SFVDAQSDSM
510 520 530 540 550
EDTNNEHSAT DGCDSSRKEE CVDESICRQE AHGRSWKVIE QGLLLKGLEI
560 570 580 590 600
FGKNSCLIAR NLLGGMKTCT DVFQYMNYIE NSSASGALSG VDSLVKGYMK
610 620 630 640 650
GNELRTRSRF VRRRGRVRRL KYTWKTAGYH FIRKRITERK DQPCRQYTPC
660 670 680 690 700
GCQSACGKQC PCLTNGTCCE KYCGCPKMCK NRFRGCHCAK SQCRSRQCPC
710 720 730 740 750
FAADRECDPD VCRNCWVGCG DGTLGVPNQR GDNYECRNMK LLLKQQQRVL
760 770 780 790 800
LGRSDVSGWG AFLKNSVGKH EYLGEYTGEL ISHKEADKRG KIYDRENSSF
810 820 830 840 850
LFNLNNEYVL DAYRMGDKLK FANHSPDPNC YAKVIMVAGD HRVGIFAKER
860 870 880 890
ISAGEELFYD YRYEPDRAPA WARKPEGPGA KDDAQPSTGR AKKLAH
Length:896
Mass (Da):100,296
Last modified:December 7, 2004 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i7DCE38E04E7505DF
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AP003044 Genomic DNA Translation: BAD68028.1
AP005813 Genomic DNA Translation: BAD69169.1
AP008212 Genomic DNA Translation: BAF19293.1
AP014962 Genomic DNA Translation: BAS97226.1

NCBI Reference Sequences

More...
RefSeqi
XP_015644234.1, XM_015788748.1

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
Os06t0275500-01; Os06t0275500-01; Os06g0275500

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
4340748

Gramene; a comparative resource for plants

More...
Gramenei
Os06t0275500-01; Os06t0275500-01; Os06g0275500

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
osa:4340748

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP003044 Genomic DNA Translation: BAD68028.1
AP005813 Genomic DNA Translation: BAD69169.1
AP008212 Genomic DNA Translation: BAF19293.1
AP014962 Genomic DNA Translation: BAS97226.1
RefSeqiXP_015644234.1, XM_015788748.1

3D structure databases

Database of comparative protein structure models

More...
ModBasei
Search...

SWISS-MODEL Interactive Workspace

More...
SWISS-MODEL-Workspacei
Submit a new modelling project...

Protein-protein interaction databases

STRINGi4530.OS06T0275500-01

Proteomic databases

PaxDbiQ5VN06
PRIDEiQ5VN06

Genome annotation databases

EnsemblPlantsiOs06t0275500-01; Os06t0275500-01; Os06g0275500
GeneIDi4340748
GrameneiOs06t0275500-01; Os06t0275500-01; Os06g0275500
KEGGiosa:4340748

Phylogenomic databases

eggNOGiKOG1079, Eukaryota
HOGENOMiCLU_011060_0_0_1
InParanoidiQ5VN06
OMAiDESICRQ
OrthoDBi875190at2759

Family and domain databases

InterProiView protein in InterPro
IPR026489, CXC_dom
IPR025778, Hist-Lys_N-MeTrfase
IPR041355, Pre-SET_CXC
IPR001214, SET_dom
IPR033467, Tesmin/TSO1-like_CXC
PANTHERiPTHR45747:SF15, PTHR45747:SF15, 1 hit
PfamiView protein in Pfam
PF18264, preSET_CXC, 1 hit
PF00856, SET, 1 hit
SMARTiView protein in SMART
SM01114, CXC, 1 hit
SM00317, SET, 1 hit
PROSITEiView protein in PROSITE
PS51633, CXC, 1 hit
PS51576, SAM_MT43_EZ, 1 hit
PS50280, SET, 1 hit

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiCLF_ORYSJ
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q5VN06
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 20, 2018
Last sequence update: December 7, 2004
Last modified: June 2, 2021
This is version 124 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Reference proteome

Documents

  1. Oryza sativa (rice)
    Index of Oryza sativa entries and their corresponding gene designations
  2. SIMILARITY comments
    Index of protein domains and families
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