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Entry version 164 (16 Oct 2019)
Sequence version 4 (26 Jun 2007)
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Protein

Lysine-specific demethylase 5C

Gene

Kdm5c

Organism
Mus musculus (Mouse)
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

Histone demethylase that specifically demethylates 'Lys-4' of histone H3, thereby playing a central role in histone code. Does not demethylate histone H3 'Lys-9', H3 'Lys-27', H3 'Lys-36', H3 'Lys-79' or H4 'Lys-20'. Demethylates trimethylated and dimethylated but not monomethylated H3 'Lys-4'. Participates in transcriptional repression of neuronal genes by recruiting histone deacetylases and REST at neuron-restrictive silencer elements (By similarity). Represses the CLOCK-ARNTL/BMAL1 heterodimer-mediated transcriptional activation of the core clock component PER2.By similarity1 Publication

Miscellaneous

Escapes X-inactivation.

<p>This subsection of the ‘Function’ section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

Protein has several cofactor binding sites:

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the ‘Description’ field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi514Iron; catalyticPROSITE-ProRule annotation1
Metal bindingi517Iron; catalyticPROSITE-ProRule annotation1
Metal bindingi602Iron; catalyticPROSITE-ProRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section specifies the position(s) and type(s) of zinc fingers within the protein.<p><a href='/help/zn_fing' target='_top'>More...</a></p>Zinc fingeri326 – 372PHD-type 1PROSITE-ProRule annotationAdd BLAST47
Zinc fingeri1187 – 1248PHD-type 2PROSITE-ProRule annotationAdd BLAST62

<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, Dioxygenase, Oxidoreductase, Repressor
Biological processBiological rhythms, Transcription, Transcription regulation
LigandIron, Metal-binding, Zinc

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-MMU-3214842 HDMs demethylate histones

<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_and_taxonomy_section">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:
Lysine-specific demethylase 5C (EC:1.14.11.-)
Alternative name(s):
Histone demethylase JARID1C
Jumonji/ARID domain-containing protein 1C
Protein SmcX
Protein Xe169
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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:Kdm5c
Synonyms:Jarid1c, Kiaa0234, Smcx, Xe169
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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>OrganismiMus musculus (Mouse)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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 identifieri10090 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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
  • UP000000589 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">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 X

Organism-specific databases

Mouse genome database (MGD) from Mouse Genome Informatics (MGI)

More...
MGIi
MGI:99781 Kdm5c

<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

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

<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.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00002005871 – 1554Lysine-specific demethylase 5CAdd BLAST1554

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/ptm_processing_section">PTM / Processing</a> section describes <strong>covalent linkages</strong> of various types formed <strong>between two proteins (interchain cross-links)</strong> or <strong>between two parts of the same protein (intrachain cross-links)</strong>, except the disulfide bonds that are annotated in the <a href="http://www.uniprot.org/manual/disulfid">'Disulfide bond'</a> subsection.<p><a href='/help/crosslnk' target='_top'>More...</a></p>Cross-linki205Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linki229Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linki244Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linki274Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
<p>This subsection of the ‘PTM / Processing’ section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei287PhosphoserineBy similarity1
Cross-linki295Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Modified residuei301PhosphoserineBy similarity1
Modified residuei317PhosphoserineCombined sources1
Modified residuei893PhosphoserineCombined sources1
Modified residuei897PhosphoserineBy similarity1
Cross-linki1127Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Modified residuei1353PhosphoserineBy similarity1

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

jPOST - Japan Proteome Standard Repository/Database

More...
jPOSTi
P41230

MaxQB - The MaxQuant DataBase

More...
MaxQBi
P41230

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

More...
PaxDbi
P41230

PeptideAtlas

More...
PeptideAtlasi
P41230

PRoteomics IDEntifications database

More...
PRIDEi
P41230

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
P41230

Comprehensive resource for the study of protein post-translational modifications (PTMs) in human, mouse and rat.

More...
PhosphoSitePlusi
P41230

<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

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
ENSMUSG00000025332 Expressed in 267 organ(s), highest expression level in cardiac ventricle

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
P41230 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
P41230 MM

<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_section">'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_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Part of two distinct complexes, one containing E2F6, and the other containing REST.

By similarity

GO - Molecular functioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...
BioGridi
203341, 2 interactors

STRING: functional protein association networks

More...
STRINGi
10090.ENSMUSP00000108203

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
P41230

Database of comparative protein structure models

More...
ModBasei
Search...

<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_and_domains_section">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>Domaini14 – 55JmjNPROSITE-ProRule annotationAdd BLAST42
Domaini79 – 169ARIDPROSITE-ProRule annotationAdd BLAST91
Domaini468 – 634JmjCPROSITE-ProRule annotationAdd BLAST167

<p>This subsection of the ‘Family and domains’ section provides general information on the biological role of a domain. The term ‘domain’ is intended here in its wide acceptation, it may be a structural domain, a transmembrane region or a functional domain. Several domains are described in this subsection.<p><a href='/help/domain_cc' target='_top'>More...</a></p>Domaini

The first PHD-type zinc finger domain recognizes and binds H3-K9Me3.By similarity
Both the JmjC domain and the JmjN domain are required for enzymatic activity.By similarity

<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

Belongs to the JARID1 histone demethylase family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri326 – 372PHD-type 1PROSITE-ProRule annotationAdd BLAST47
Zinc fingeri1187 – 1248PHD-type 2PROSITE-ProRule annotationAdd BLAST62

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG1246 Eukaryota
ENOG410XR9J LUCA

Ensembl GeneTree

More...
GeneTreei
ENSGT00940000161236

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P41230

KEGG Orthology (KO)

More...
KOi
K11446

Identification of Orthologs from Complete Genome Data

More...
OMAi
GDMKVES

Database of Orthologous Groups

More...
OrthoDBi
664180at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
P41230

TreeFam database of animal gene trees

More...
TreeFami
TF106476

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.150.60, 1 hit
3.30.40.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR001606 ARID_dom
IPR036431 ARID_dom_sf
IPR003347 JmjC_dom
IPR003349 JmjN
IPR013637 Lys_sp_deMease-like_dom
IPR019786 Zinc_finger_PHD-type_CS
IPR004198 Znf_C5HC2
IPR011011 Znf_FYVE_PHD
IPR001965 Znf_PHD
IPR019787 Znf_PHD-finger
IPR013083 Znf_RING/FYVE/PHD

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01388 ARID, 1 hit
PF02373 JmjC, 1 hit
PF02375 JmjN, 1 hit
PF00628 PHD, 1 hit
PF08429 PLU-1, 1 hit
PF02928 zf-C5HC2, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00501 BRIGHT, 1 hit
SM00558 JmjC, 1 hit
SM00545 JmjN, 1 hit
SM00249 PHD, 2 hits

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF46774 SSF46774, 1 hit
SSF57903 SSF57903, 2 hits

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51011 ARID, 1 hit
PS51184 JMJC, 1 hit
PS51183 JMJN, 1 hit
PS01359 ZF_PHD_1, 2 hits
PS50016 ZF_PHD_2, 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_length">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>Sequences (3+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">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.

This entry describes 3 <p>This subsection of the ‘Sequence’ section lists the alternative protein sequences (isoforms) that can be generated from the same gene by a single or by the combination of up to four biological events (alternative promoter usage, alternative splicing, alternative initiation and ribosomal frameshifting). Additionally, this section gives relevant information on each alternative protein isoform.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 3 described isoforms and 2 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: P41230-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the <div> <p><b>What is the canonical sequence?</b><p><a href='/help/canonical_and_isoforms' target='_top'>More...</a></p>canonicali 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
MELGSDDFLP PPECPVFEPS WAEFRDPLGY IAKIRPIAEK SGICKIRPPA
60 70 80 90 100
DWQPPFAVEV DNFRFTPRIQ RLNELEAQTR VKLNYLDQIA KFWEIQGSSL
110 120 130 140 150
KIPNVERRIL DLYSLSKIVV EEGGYETICK DRRWARVAQR LNYPPGKNIG
160 170 180 190 200
SLLRSHYERI VYPYEMYQSG ANLVQCNTRP FDNEEKDKEY KPHSIPLRQS
210 220 230 240 250
VQPSKFNSYG RRAKRLQPDP EPTEEDIEKN PELKKLQIYG AGPKMMGLGL
260 270 280 290 300
MAKDKTLRKK DKEGPECPPT VVVKEELGGD VKMESTSPKT FLEGKEELSH
310 320 330 340 350
SPEPCTKMTM RLRRNHSNAQ FIESYVCRMC SRGDEDDKLL LCDGCDDNYH
360 370 380 390 400
IFCLLPPLPE IPKGVWRCPK CVMAECKRPP EAFGFEQATR EYTLQSFGEM
410 420 430 440 450
ADSFKADYFN MPVHMVPTEL VEKEFWRLVN SIEEDVTVEY GADIHSKEFG
460 470 480 490 500
SGFPVSDSKR HLTPEEEEYA TSGWNLNVMP VLEQSVLCHI NADISGMKVP
510 520 530 540 550
WLYVGMVFSA FCWHIEDHWS YSINYLHWGE PKTWYGVPSL AAEHLEEVMK
560 570 580 590 600
KLTPELFDSQ PDLLHQLVTL MNPNTLMSHG VPVVRTNQCA GEFVITFPRA
610 620 630 640 650
YHSGFNQGYN FAEAVNFCTA DWLPAGRQCI EHYRRLRRYC VFSHEELICK
660 670 680 690 700
MAACPEKLDL NLAAAVHKEM FIMVQEERRL RKALLEKGIT EAEREAFELL
710 720 730 740 750
PDDERQCIKC KTTCFLSALA CYDCPDGLVC LSHINDLCKC SSSRQYLRYR
760 770 780 790 800
YTLDELPAML HKLKVRAESF DTWANKVRVA LEVEDGRKRS LEELRALESE
810 820 830 840 850
ARERRFPNSE LLQRLKNCLS EAEACVSRAL GLVSGQEAGP DRVAGLQMTL
860 870 880 890 900
AELRDFLGQM NNLPCAMHQI GDVKGILEQV EAYQTEAREA LVSQPSSPGL
910 920 930 940 950
LQSLLERGQQ LGVEVPEAQQ LQRQVEQARW LDEVKRTLAP SARRGTLAIM
960 970 980 990 1000
RGLLVAGASV APSPAVDKAQ AELQELLTIA ERWEEKAHLC LEARQKHPPA
1010 1020 1030 1040 1050
TLEAIIHEAE NIPVHLPNIQ SLKEALAKAR AWIADVDEIQ NGDHYPCLDD
1060 1070 1080 1090 1100
LEGLVAVGRD LPVGLEELRQ LELQVLTAHS WREKASKTFL KKNSCYTLLE
1110 1120 1130 1140 1150
VLCPCADAGS DSTKRSRWME KELGLYKSDT ELLGLSAQDL RDPGSVIVAF
1160 1170 1180 1190 1200
KEGEQKEKEG ILQLRRTNSA KPSPLALLTT ASSTASICVC GQVPAGVGAL
1210 1220 1230 1240 1250
QCDLCQDWFH GRCVTVPRLL SSQRSSLPSS PLLAWWEWDT KFLCPLCMRS
1260 1270 1280 1290 1300
RRPRLETILA LLVALQRLPV RLPEGEALQC LTERAISWQG RARQVLASEE
1310 1320 1330 1340 1350
VTALLGRLAE LRQRLQAESK PEESLAYPSD GGEGTGNMPK VQGLLENGDS
1360 1370 1380 1390 1400
VTSPEKVATE EGSGKRDLEL LSSILPQLSG PVLELPEATR APLEELMMEG
1410 1420 1430 1440 1450
DLLEVTLDEN HSIWQLLQAG QPPDLKRVQT LLELEKAERH GSRTRGRALE
1460 1470 1480 1490 1500
RRRRRKVDRG GEPDDPAREE LEPKRVRSSG PEAEEVQEEE ELEEETGGEV
1510 1520 1530 1540 1550
PPVPFPNSGS PSIQEDQDGL EPVLEAGSDT SAPFSTLTSR LLMSCPQQPS

LQQL
Length:1,554
Mass (Da):175,313
Last modified:June 26, 2007 - v4
<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:i585EA9F890B0D9A0
GO
Isoform 2 (identifier: P41230-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1364-1366: Missing.

Show »
Length:1,551
Mass (Da):174,972
Checksum:iC2061676EA2DC238
GO
Isoform 3 (identifier: P41230-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     77-117: Missing.
     1364-1366: Missing.

Show »
Length:1,510
Mass (Da):170,154
Checksum:iBAA3698F0A0A1E24
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
F6WXI0F6WXI0_MOUSE
Lysine-specific demethylase 5C
Kdm5c
177Annotation score:

Annotation score:1 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>
F7BXT3F7BXT3_MOUSE
Lysine-specific demethylase 5C
Kdm5c
257Annotation score:

Annotation score:1 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 Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti3L → M in AAB96762 (PubMed:9723615).Curated1
Sequence conflicti26D → G in AAB96762 (PubMed:9723615).Curated1
Sequence conflicti123G → S in BAE33161 (PubMed:16141072).Curated1
Sequence conflicti123G → S in BAE33260 (PubMed:16141072).Curated1
Sequence conflicti249G → D in BAE34464 (PubMed:16141072).Curated1
Sequence conflicti726D → N in BAC97906 (PubMed:14621295).Curated1
Sequence conflicti865C → L in AAD53049 (PubMed:10441747).Curated1
Sequence conflicti865C → L in CAA82759 (PubMed:7951230).Curated1
Sequence conflicti1068L → P in CAA82759 (PubMed:7951230).Curated1
Sequence conflicti1126Y → C in BAE33367 (PubMed:16141072).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section describes the sequence of naturally occurring alternative protein isoform(s). The changes in the amino acid sequence may be due to alternative splicing, alternative promoter usage, alternative initiation, or ribosomal frameshifting.<p><a href='/help/var_seq' target='_top'>More...</a></p>Alternative sequenceiVSP_02641177 – 117Missing in isoform 3. 1 PublicationAdd BLAST41
Alternative sequenceiVSP_0003161364 – 1366Missing in isoform 2 and isoform 3. 3 Publications3

Sequence databases

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EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

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DDBJi
Links Updated
AF127245 mRNA Translation: AAD53049.1
AK008105 mRNA Translation: BAB25462.1
AK155279 mRNA Translation: BAE33161.1
AK155427 mRNA Translation: BAE33260.1
AK155651 mRNA Translation: BAE33367.1
AK158340 mRNA Translation: BAE34464.1
AK011577 mRNA No translation available.
BC043096 mRNA Translation: AAH43096.1
BC054550 mRNA Translation: AAH54550.1
Z29651 mRNA Translation: CAA82759.1
AK129096 mRNA Translation: BAC97906.1
L29563 mRNA Translation: AAA62384.1
AF039894 mRNA Translation: AAB96762.1

The Consensus CDS (CCDS) project

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CCDSi
CCDS41178.1 [P41230-2]

Protein sequence database of the Protein Information Resource

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PIRi
I48775
I84689

NCBI Reference Sequences

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RefSeqi
NP_038696.2, NM_013668.4 [P41230-2]
XP_006528832.1, XM_006528769.3 [P41230-1]
XP_006528835.1, XM_006528772.3 [P41230-3]

Genome annotation databases

Ensembl eukaryotic genome annotation project

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Ensembli
ENSMUST00000082177; ENSMUSP00000080814; ENSMUSG00000025332 [P41230-3]
ENSMUST00000112584; ENSMUSP00000108203; ENSMUSG00000025332 [P41230-1]
ENSMUST00000112588; ENSMUSP00000108207; ENSMUSG00000025332 [P41230-2]

Database of genes from NCBI RefSeq genomes

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GeneIDi
20591

KEGG: Kyoto Encyclopedia of Genes and Genomes

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KEGGi
mmu:20591

UCSC genome browser

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UCSCi
uc009uqc.3 mouse [P41230-2]
uc009uqd.3 mouse [P41230-3]
uc009uqe.3 mouse [P41230-1]

Keywords - Coding sequence diversityi

Alternative splicing

<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
AF127245 mRNA Translation: AAD53049.1
AK008105 mRNA Translation: BAB25462.1
AK155279 mRNA Translation: BAE33161.1
AK155427 mRNA Translation: BAE33260.1
AK155651 mRNA Translation: BAE33367.1
AK158340 mRNA Translation: BAE34464.1
AK011577 mRNA No translation available.
BC043096 mRNA Translation: AAH43096.1
BC054550 mRNA Translation: AAH54550.1
Z29651 mRNA Translation: CAA82759.1
AK129096 mRNA Translation: BAC97906.1
L29563 mRNA Translation: AAA62384.1
AF039894 mRNA Translation: AAB96762.1
CCDSiCCDS41178.1 [P41230-2]
PIRiI48775
I84689
RefSeqiNP_038696.2, NM_013668.4 [P41230-2]
XP_006528832.1, XM_006528769.3 [P41230-1]
XP_006528835.1, XM_006528772.3 [P41230-3]

3D structure databases

SMRiP41230
ModBaseiSearch...

Protein-protein interaction databases

BioGridi203341, 2 interactors
STRINGi10090.ENSMUSP00000108203

PTM databases

iPTMnetiP41230
PhosphoSitePlusiP41230

Proteomic databases

jPOSTiP41230
MaxQBiP41230
PaxDbiP41230
PeptideAtlasiP41230
PRIDEiP41230

Genome annotation databases

EnsembliENSMUST00000082177; ENSMUSP00000080814; ENSMUSG00000025332 [P41230-3]
ENSMUST00000112584; ENSMUSP00000108203; ENSMUSG00000025332 [P41230-1]
ENSMUST00000112588; ENSMUSP00000108207; ENSMUSG00000025332 [P41230-2]
GeneIDi20591
KEGGimmu:20591
UCSCiuc009uqc.3 mouse [P41230-2]
uc009uqd.3 mouse [P41230-3]
uc009uqe.3 mouse [P41230-1]

Organism-specific databases

Comparative Toxicogenomics Database

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CTDi
8242
MGIiMGI:99781 Kdm5c

Rodent Unidentified Gene-Encoded large proteins database

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Rougei
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Phylogenomic databases

eggNOGiKOG1246 Eukaryota
ENOG410XR9J LUCA
GeneTreeiENSGT00940000161236
InParanoidiP41230
KOiK11446
OMAiGDMKVES
OrthoDBi664180at2759
PhylomeDBiP41230
TreeFamiTF106476

Enzyme and pathway databases

ReactomeiR-MMU-3214842 HDMs demethylate histones

Miscellaneous databases

ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data

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ChiTaRSi
Kdm5c mouse

Protein Ontology

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PROi
PR:P41230

The Stanford Online Universal Resource for Clones and ESTs

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SOURCEi
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Gene expression databases

BgeeiENSMUSG00000025332 Expressed in 267 organ(s), highest expression level in cardiac ventricle
ExpressionAtlasiP41230 baseline and differential
GenevisibleiP41230 MM

Family and domain databases

Gene3Di1.10.150.60, 1 hit
3.30.40.10, 1 hit
InterProiView protein in InterPro
IPR001606 ARID_dom
IPR036431 ARID_dom_sf
IPR003347 JmjC_dom
IPR003349 JmjN
IPR013637 Lys_sp_deMease-like_dom
IPR019786 Zinc_finger_PHD-type_CS
IPR004198 Znf_C5HC2
IPR011011 Znf_FYVE_PHD
IPR001965 Znf_PHD
IPR019787 Znf_PHD-finger
IPR013083 Znf_RING/FYVE/PHD
PfamiView protein in Pfam
PF01388 ARID, 1 hit
PF02373 JmjC, 1 hit
PF02375 JmjN, 1 hit
PF00628 PHD, 1 hit
PF08429 PLU-1, 1 hit
PF02928 zf-C5HC2, 1 hit
SMARTiView protein in SMART
SM00501 BRIGHT, 1 hit
SM00558 JmjC, 1 hit
SM00545 JmjN, 1 hit
SM00249 PHD, 2 hits
SUPFAMiSSF46774 SSF46774, 1 hit
SSF57903 SSF57903, 2 hits
PROSITEiView protein in PROSITE
PS51011 ARID, 1 hit
PS51184 JMJC, 1 hit
PS51183 JMJN, 1 hit
PS01359 ZF_PHD_1, 2 hits
PS50016 ZF_PHD_2, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

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ProtoNeti
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MobiDB: a database of protein disorder and mobility annotations

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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 nameiKDM5C_MOUSE
<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: P41230
Secondary accession number(s): O54995
, Q3TYU8, Q3U1X6, Q3U282, Q6ZQF8, Q80XQ9, Q9CVI4, Q9D0C3, Q9QVR8, Q9R039
<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_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: June 26, 2007
Last modified: October 16, 2019
This is version 164 of the entry and version 4 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 programChordata 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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
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