UniProtKB - P41229 (KDM5C_HUMAN)
Protein
Lysine-specific demethylase 5C
Gene
KDM5C
Organism
Homo sapiens (Human)
Status
Functioni
Histone demethylase that specifically demethylates 'Lys-4' of histone H3, thereby playing a central role in histone code (PubMed:28262558). 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. Represses the CLOCK-ARNTL/BMAL1 heterodimer-mediated transcriptional activation of the core clock component PER2 (By similarity).By similarity5 Publications
Miscellaneous
Escapes X-inactivation.
Catalytic activityi
- 3 2-oxoglutarate + N6,N6,N6-trimethyl-L-lysyl4-[histone H3] + 3 O2 = 3 CO2 + 3 formaldehyde + L-lysyl4-[histone H3] + 3 succinate1 PublicationEC:1.14.11.671 Publication
Cofactori
Fe2+1 PublicationNote: Binds 1 Fe2+ ion per subunit.1 Publication
Activity regulationi
The inhibitor KDOAM-25 and others inhibit its demethylase activity, resulting to cell cycle arrest in myeloma cells.1 Publication
Kineticsi
Kcat are 1.92 min(-1) and 2.71 min(-1) for 2-oxoglutarate and histone H3K4me3, respectively.1 Publication
- KM=6 µM for 2-oxoglutarate1 Publication
- KM=3.3 µM for histone H3K4me31 Publication
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Binding sitei | 440 | 2-oxoglutarateBy similarity | 1 | |
Metal bindingi | 514 | Iron; catalytic1 Publication | 1 | |
Metal bindingi | 516 | Iron; catalytic1 Publication | 1 | |
Binding sitei | 522 | 2-oxoglutarateBy similarity | 1 | |
Binding sitei | 524 | 2-oxoglutarateBy similarity | 1 | |
Binding sitei | 532 | 2-oxoglutarateBy similarity | 1 | |
Metal bindingi | 602 | Iron; catalytic1 Publication | 1 |
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 326 – 372 | PHD-type 1PROSITE-ProRule annotationAdd BLAST | 47 | |
Zinc fingeri | 707 – 759 | C5HC21 PublicationAdd BLAST | 53 | |
Zinc fingeri | 1187 – 1248 | PHD-type 2PROSITE-ProRule annotationAdd BLAST | 62 |
GO - Molecular functioni
- dioxygenase activity Source: UniProtKB-KW
- DNA binding Source: InterPro
- histone demethylase activity Source: GO_Central
- histone demethylase activity (H3-K4 specific) Source: MGI
- histone demethylase activity (H3-trimethyl-K4 specific) Source: GO_Central
- zinc ion binding Source: UniProtKB
GO - Biological processi
- chromatin remodeling Source: GO_Central
- histone H3-K4 demethylation Source: MGI
- negative regulation of transcription, DNA-templated Source: UniProtKB
- response to toxic substance Source: Ensembl
- rhythmic process Source: UniProtKB-KW
Keywordsi
Molecular function | Chromatin regulator, Dioxygenase, Oxidoreductase, Repressor |
Biological process | Biological rhythms, Transcription, Transcription regulation |
Ligand | Iron, Metal-binding, Zinc |
Enzyme and pathway databases
BioCyci | MetaCyc:ENSG00000126012-MONOMER |
BRENDAi | 1.14.11.B2, 2681 |
PathwayCommonsi | P41229 |
Reactomei | R-HSA-3214842, HDMs demethylate histones |
Names & Taxonomyi
Protein namesi | Recommended name: Lysine-specific demethylase 5C (EC:1.14.11.671 Publication)Alternative name(s): Histone demethylase JARID1C Jumonji/ARID domain-containing protein 1C1 Publication Protein SmcX1 Publication Protein Xe169 [histone H3]-trimethyl-L-lysine(4) demethylase 5CCurated |
Gene namesi | |
Organismi | Homo sapiens (Human) |
Taxonomic identifieri | 9606 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Proteomesi |
|
Organism-specific databases
HGNCi | HGNC:11114, KDM5C |
MIMi | 314690, gene |
neXtProti | NX_P41229 |
VEuPathDBi | HostDB:ENSG00000126012.11 |
Subcellular locationi
Nucleus
- Nucleus PROSITE-ProRule annotation1 Publication
Cytosol
- cytosol Source: HPA
Nucleus
- histone methyltransferase complex Source: GO_Central
- nucleoplasm Source: HPA
- nucleus Source: MGI
Keywords - Cellular componenti
NucleusPathology & Biotechi
Involvement in diseasei
Mental retardation, X-linked, syndromic, Claes-Jensen type (MRXSCJ)7 Publications
The disease is caused by variants affecting the gene represented in this entry.
Disease descriptionA disorder characterized by significantly below average general intellectual functioning associated with impairments in adaptive behavior and manifested during the developmental period. MRXSCJ patients manifest mental retardation associated with variable features such as slowly progressive spastic paraplegia, seizures, facial dysmorphism.
Related information in OMIMFeature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural variantiVAR_032986 | 87 | D → G in MRXSCJ; no effect on subcellular location and enzymatic activity. 2 Publications | 1 | |
Natural variantiVAR_022730 | 388 | A → P in MRXSCJ; impairs enzymatic activity and binding to H3-K9Me3. 2 PublicationsCorresponds to variant dbSNP:rs199422235EnsemblClinVar. | 1 | |
Natural variantiVAR_022731 | 402 | D → Y in MRXSCJ; decreases enzymatic activity. 3 Publications | 1 | |
Natural variantiVAR_032987 | 451 | S → R in MRXSCJ. 1 PublicationCorresponds to variant dbSNP:rs199422237EnsemblClinVar. | 1 | |
Natural variantiVAR_074308 | 480 | P → L in MRXSCJ; patient fibroblasts show decreased enzymatic activity. 2 PublicationsCorresponds to variant dbSNP:rs1057518697EnsemblClinVar. | 1 | |
Natural variantiVAR_032988 | 642 | F → L in MRXSCJ; impairs enzymatic activity. 2 Publications | 1 | |
Natural variantiVAR_022732 | 698 | E → K in MRXSCJ. 1 PublicationCorresponds to variant dbSNP:rs1057517955EnsemblClinVar. | 1 | |
Natural variantiVAR_022733 | 731 | L → F in MRXSCJ; impairs enzymatic activity. 2 PublicationsCorresponds to variant dbSNP:rs199422234EnsemblClinVar. | 1 | |
Natural variantiVAR_032989 | 750 | R → W in MRXSCJ. 1 Publication | 1 | |
Natural variantiVAR_032990 | 751 | Y → C in MRXSCJ; impairs enzymatic activity. 3 Publications | 1 |
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 514 – 516 | HIE → AIA: Abolishes lysine-specific histone demethylase activity. 1 Publication | 3 | |
Mutagenesisi | 514 | H → A: Abolishes lysine-specific histone demethylase activity. 2 Publications | 1 |
Keywords - Diseasei
Disease variant, Mental retardationOrganism-specific databases
DisGeNETi | 8242 |
MalaCardsi | KDM5C |
MIMi | 300534, phenotype |
OpenTargetsi | ENSG00000126012 |
Orphaneti | 85279, Syndromic X-linked intellectual disability due to JARID1C mutation |
PharmGKBi | PA35964 |
Miscellaneous databases
Pharosi | P41229, Tchem |
Chemistry databases
ChEMBLi | CHEMBL2163176 |
GuidetoPHARMACOLOGYi | 2682 |
Genetic variation databases
BioMutai | KDM5C |
DMDMi | 117949812 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000200586 | 1 – 1560 | Lysine-specific demethylase 5CAdd BLAST | 1560 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Cross-linki | 205 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources | ||
Cross-linki | 229 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources | ||
Cross-linki | 244 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources | ||
Cross-linki | 274 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources | ||
Modified residuei | 287 | PhosphoserineCombined sources | 1 | |
Cross-linki | 295 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources | ||
Modified residuei | 301 | PhosphoserineCombined sources | 1 | |
Modified residuei | 317 | PhosphoserineCombined sources | 1 | |
Modified residuei | 893 | PhosphoserineBy similarity | 1 | |
Modified residuei | 897 | PhosphoserineCombined sources | 1 | |
Cross-linki | 1127 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources | ||
Modified residuei | 1359 | PhosphoserineCombined sources | 1 |
Keywords - PTMi
Isopeptide bond, Phosphoprotein, Ubl conjugationProteomic databases
EPDi | P41229 |
jPOSTi | P41229 |
MassIVEi | P41229 |
MaxQBi | P41229 |
PaxDbi | P41229 |
PeptideAtlasi | P41229 |
PRIDEi | P41229 |
ProteomicsDBi | 2727 55436 [P41229-1] 55437 [P41229-2] 55438 [P41229-3] 55439 [P41229-4] |
PTM databases
iPTMneti | P41229 |
PhosphoSitePlusi | P41229 |
Expressioni
Tissue specificityi
Expressed in all tissues examined. Highest levels found in brain and skeletal muscle.1 Publication
Gene expression databases
Bgeei | ENSG00000126012, Expressed in sural nerve and 231 other tissues |
ExpressionAtlasi | P41229, baseline and differential |
Genevisiblei | P41229, HS |
Organism-specific databases
HPAi | ENSG00000126012, Low tissue specificity |
Interactioni
Subunit structurei
Part of two distinct complexes, one containing E2F6, and the other containing REST.
1 PublicationBinary interactionsi
Hide detailsP41229
With | #Exp. | IntAct |
---|---|---|
REST [Q13127] | 3 | EBI-1246541,EBI-926706 |
E2 [P03122] from Bovine papillomavirus type 1. | 2 | EBI-1246541,EBI-7028618 |
Protein-protein interaction databases
BioGRIDi | 113870, 73 interactors |
DIPi | DIP-39663N |
IntActi | P41229, 50 interactors |
MINTi | P41229 |
STRINGi | 9606.ENSP00000364550 |
Chemistry databases
BindingDBi | P41229 |
Miscellaneous databases
RNActi | P41229, protein |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
BMRBi | P41229 |
SMRi | P41229 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P41229 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 14 – 55 | JmjNPROSITE-ProRule annotationAdd BLAST | 42 | |
Domaini | 79 – 169 | ARIDPROSITE-ProRule annotationAdd BLAST | 91 | |
Domaini | 468 – 634 | JmjCPROSITE-ProRule annotationAdd BLAST | 167 |
Domaini
The first PHD-type zinc finger domain recognizes and binds H3-K9Me3.
Both the JmjC domain and the JmjN domain are required for enzymatic activity.
Sequence similaritiesi
Belongs to the JARID1 histone demethylase family.Curated
Zinc finger
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 326 – 372 | PHD-type 1PROSITE-ProRule annotationAdd BLAST | 47 | |
Zinc fingeri | 707 – 759 | C5HC21 PublicationAdd BLAST | 53 | |
Zinc fingeri | 1187 – 1248 | PHD-type 2PROSITE-ProRule annotationAdd BLAST | 62 |
Keywords - Domaini
Repeat, Zinc-fingerPhylogenomic databases
eggNOGi | KOG1246, Eukaryota |
GeneTreei | ENSGT00940000161236 |
HOGENOMi | CLU_000991_2_2_1 |
InParanoidi | P41229 |
OMAi | FHGGCVS |
OrthoDBi | 664180at2759 |
PhylomeDBi | P41229 |
TreeFami | TF106476 |
Family and domain databases
Gene3Di | 1.10.150.60, 1 hit 3.30.40.10, 1 hit |
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 |
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 |
SMARTi | View protein in SMART SM00501, BRIGHT, 1 hit SM00558, JmjC, 1 hit SM00545, JmjN, 1 hit SM00249, PHD, 2 hits |
SUPFAMi | SSF46774, SSF46774, 1 hit SSF57903, SSF57903, 2 hits |
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 |
s (5+)i Sequence
Sequence statusi: Complete.
This entry describes 5 produced by isoformsialternative splicing. AlignAdd to basketThis entry has 5 described isoforms and 3 potential isoforms that are computationally mapped.Show allAlign All
Isoform 1 (identifier: P41229-1) [UniParc]FASTAAdd to basket
This isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
10 20 30 40 50
MEPGSDDFLP PPECPVFEPS WAEFRDPLGY IAKIRPIAEK SGICKIRPPA
60 70 80 90 100
DWQPPFAVEV DNFRFTPRIQ RLNELEAQTR VKLNYLDQIA KFWEIQGSSL
110 120 130 140 150
KIPNVERRIL DLYSLSKIVV EEGGYEAICK 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 VKVESTSPKT FLESKEELSH
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 LLQQLKNCLS EAEACVSRAL GLVSGQEAGP HRVAGLQMTL
860 870 880 890 900
TELRAFLDQM NNLPCAMHQI GDVKGVLEQV EAYQAEAREA LASLPSSPGL
910 920 930 940 950
LQSLLERGRQ LGVEVPEAQQ LQRQVEQARW LDEVKRTLAP SARRGTLAVM
960 970 980 990 1000
RGLLVAGASV APSPAVDKAQ AELQELLTIA ERWEEKAHLC LEARQKHPPA
1010 1020 1030 1040 1050
TLEAIIREAE NIPVHLPNIQ ALKEALAKAR 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 KPSPLASSST ASSTTSICVC GQVLAGAGAL
1210 1220 1230 1240 1250
QCDLCQDWFH GRCVSVPRLL SSPRPNPTSS PLLAWWEWDT KFLCPLCMRS
1260 1270 1280 1290 1300
RRPRLETILA LLVALQRLPV RLPEGEALQC LTERAISWQG RARQALASED
1310 1320 1330 1340 1350
VTALLGRLAE LRQRLQAEPR PEEPPNYPAA PASDPLREGS GKDMPKVQGL
1360 1370 1380 1390 1400
LENGDSVTSP EKVAPEEGSG KRDLELLSSL LPQLTGPVLE LPEATRAPLE
1410 1420 1430 1440 1450
ELMMEGDLLE VTLDENHSIW QLLQAGQPPD LERIRTLLEL EKAERHGSRA
1460 1470 1480 1490 1500
RGRALERRRR RKVDRGGEGD DPAREELEPK RVRSSGPEAE EVQEEEELEE
1510 1520 1530 1540 1550
ETGGEGPPAP IPTTGSPSTQ ENQNGLEPAE GTTSGPSAPF STLTPRLHLP
1560
CPQQPPQQQL
Computationally mapped potential isoform sequencesi
There are 3 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basketF8WF56 | F8WF56_HUMAN | Lysine-specific demethylase 5C | KDM5C | 99 | Annotation score: | ||
F8W7H7 | F8W7H7_HUMAN | Lysine-specific demethylase 5C | KDM5C | 74 | Annotation score: | ||
F8WDK1 | F8WDK1_HUMAN | Lysine-specific demethylase 5C | KDM5C | 53 | Annotation score: |
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 16 | V → L in BAG65494 (PubMed:14702039).Curated | 1 | |
Sequence conflicti | 23 | E → G in BAG65494 (PubMed:14702039).Curated | 1 | |
Sequence conflicti | 342 | C → Y in CAA82758 (PubMed:7951230).Curated | 1 | |
Sequence conflicti | 1199 | A → R in AAA61302 (PubMed:8162017).Curated | 1 | |
Sequence conflicti | 1419 | I → T in BAG65494 (PubMed:14702039).Curated | 1 |
Natural variant
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural variantiVAR_032986 | 87 | D → G in MRXSCJ; no effect on subcellular location and enzymatic activity. 2 Publications | 1 | |
Natural variantiVAR_022730 | 388 | A → P in MRXSCJ; impairs enzymatic activity and binding to H3-K9Me3. 2 PublicationsCorresponds to variant dbSNP:rs199422235EnsemblClinVar. | 1 | |
Natural variantiVAR_022731 | 402 | D → Y in MRXSCJ; decreases enzymatic activity. 3 Publications | 1 | |
Natural variantiVAR_032987 | 451 | S → R in MRXSCJ. 1 PublicationCorresponds to variant dbSNP:rs199422237EnsemblClinVar. | 1 | |
Natural variantiVAR_074308 | 480 | P → L in MRXSCJ; patient fibroblasts show decreased enzymatic activity. 2 PublicationsCorresponds to variant dbSNP:rs1057518697EnsemblClinVar. | 1 | |
Natural variantiVAR_065091 | 640 | C → Y De novo mutation found in a patient with mental retardation. 1 Publication | 1 | |
Natural variantiVAR_032988 | 642 | F → L in MRXSCJ; impairs enzymatic activity. 2 Publications | 1 | |
Natural variantiVAR_022732 | 698 | E → K in MRXSCJ. 1 PublicationCorresponds to variant dbSNP:rs1057517955EnsemblClinVar. | 1 | |
Natural variantiVAR_022733 | 731 | L → F in MRXSCJ; impairs enzymatic activity. 2 PublicationsCorresponds to variant dbSNP:rs199422234EnsemblClinVar. | 1 | |
Natural variantiVAR_032989 | 750 | R → W in MRXSCJ. 1 Publication | 1 | |
Natural variantiVAR_032990 | 751 | Y → C in MRXSCJ; impairs enzymatic activity. 3 Publications | 1 |
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_043752 | 51 – 76 | Missing in isoform 4. 1 PublicationAdd BLAST | 26 | |
Alternative sequenceiVSP_026410 | 77 – 117 | Missing in isoform 3 and isoform 4. 1 PublicationAdd BLAST | 41 | |
Alternative sequenceiVSP_053420 | 175 | Missing in isoform 5. 1 Publication | 1 | |
Alternative sequenceiVSP_000315 | 1370 – 1372 | Missing in isoform 2, isoform 3 and isoform 4. 1 Publication | 3 | |
Alternative sequenceiVSP_043753 | 1420 – 1560 | WQLLQ…PQQQL → PESLDFCILTPRYCSDLSSW GPAPGVFPPW in isoform 4. 1 PublicationAdd BLAST | 141 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | L25270 mRNA Translation: AAA61302.1 AK304732 mRNA Translation: BAG65494.1 AL139396 Genomic DNA No translation available. CH471154 Genomic DNA Translation: EAW93145.1 BC054499 mRNA Translation: AAH54499.1 Z29650 mRNA Translation: CAA82758.1 |
CCDSi | CCDS14351.1 [P41229-1] CCDS55417.1 [P41229-4] CCDS65269.1 [P41229-5] CCDS87747.1 [P41229-2] |
PIRi | I54361 |
RefSeqi | NP_001140174.1, NM_001146702.1 [P41229-4] NP_001269551.1, NM_001282622.1 [P41229-5] NP_004178.2, NM_004187.3 [P41229-1] XP_005262092.1, XM_005262035.4 XP_011529128.1, XM_011530826.2 |
Genome annotation databases
Ensembli | ENST00000375379; ENSP00000364528; ENSG00000126012 [P41229-2] ENST00000375383; ENSP00000364532; ENSG00000126012 [P41229-3] ENST00000375401; ENSP00000364550; ENSG00000126012 [P41229-1] ENST00000404049; ENSP00000385394; ENSG00000126012 [P41229-5] ENST00000452825; ENSP00000445176; ENSG00000126012 [P41229-4] |
GeneIDi | 8242 |
KEGGi | hsa:8242 |
UCSCi | uc004drz.4, human [P41229-1] |
Keywords - Coding sequence diversityi
Alternative splicingSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | L25270 mRNA Translation: AAA61302.1 AK304732 mRNA Translation: BAG65494.1 AL139396 Genomic DNA No translation available. CH471154 Genomic DNA Translation: EAW93145.1 BC054499 mRNA Translation: AAH54499.1 Z29650 mRNA Translation: CAA82758.1 |
CCDSi | CCDS14351.1 [P41229-1] CCDS55417.1 [P41229-4] CCDS65269.1 [P41229-5] CCDS87747.1 [P41229-2] |
PIRi | I54361 |
RefSeqi | NP_001140174.1, NM_001146702.1 [P41229-4] NP_001269551.1, NM_001282622.1 [P41229-5] NP_004178.2, NM_004187.3 [P41229-1] XP_005262092.1, XM_005262035.4 XP_011529128.1, XM_011530826.2 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
2JRZ | NMR | - | A | 73-188 | [»] | |
5FWJ | X-ray | 2.10 | A/B | 8-83 | [»] | |
A/B | 384-772 | [»] | ||||
BMRBi | P41229 | |||||
SMRi | P41229 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 113870, 73 interactors |
DIPi | DIP-39663N |
IntActi | P41229, 50 interactors |
MINTi | P41229 |
STRINGi | 9606.ENSP00000364550 |
Chemistry databases
BindingDBi | P41229 |
ChEMBLi | CHEMBL2163176 |
GuidetoPHARMACOLOGYi | 2682 |
PTM databases
iPTMneti | P41229 |
PhosphoSitePlusi | P41229 |
Genetic variation databases
BioMutai | KDM5C |
DMDMi | 117949812 |
Proteomic databases
EPDi | P41229 |
jPOSTi | P41229 |
MassIVEi | P41229 |
MaxQBi | P41229 |
PaxDbi | P41229 |
PeptideAtlasi | P41229 |
PRIDEi | P41229 |
ProteomicsDBi | 2727 55436 [P41229-1] 55437 [P41229-2] 55438 [P41229-3] 55439 [P41229-4] |
Protocols and materials databases
ABCDi | P41229, 1 sequenced antibody |
Antibodypediai | 26540, 195 antibodies |
DNASUi | 8242 |
Genome annotation databases
Ensembli | ENST00000375379; ENSP00000364528; ENSG00000126012 [P41229-2] ENST00000375383; ENSP00000364532; ENSG00000126012 [P41229-3] ENST00000375401; ENSP00000364550; ENSG00000126012 [P41229-1] ENST00000404049; ENSP00000385394; ENSG00000126012 [P41229-5] ENST00000452825; ENSP00000445176; ENSG00000126012 [P41229-4] |
GeneIDi | 8242 |
KEGGi | hsa:8242 |
UCSCi | uc004drz.4, human [P41229-1] |
Organism-specific databases
CTDi | 8242 |
DisGeNETi | 8242 |
GeneCardsi | KDM5C |
HGNCi | HGNC:11114, KDM5C |
HPAi | ENSG00000126012, Low tissue specificity |
MalaCardsi | KDM5C |
MIMi | 300534, phenotype 314690, gene |
neXtProti | NX_P41229 |
OpenTargetsi | ENSG00000126012 |
Orphaneti | 85279, Syndromic X-linked intellectual disability due to JARID1C mutation |
PharmGKBi | PA35964 |
VEuPathDBi | HostDB:ENSG00000126012.11 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG1246, Eukaryota |
GeneTreei | ENSGT00940000161236 |
HOGENOMi | CLU_000991_2_2_1 |
InParanoidi | P41229 |
OMAi | FHGGCVS |
OrthoDBi | 664180at2759 |
PhylomeDBi | P41229 |
TreeFami | TF106476 |
Enzyme and pathway databases
BioCyci | MetaCyc:ENSG00000126012-MONOMER |
BRENDAi | 1.14.11.B2, 2681 |
PathwayCommonsi | P41229 |
Reactomei | R-HSA-3214842, HDMs demethylate histones |
Miscellaneous databases
BioGRID-ORCSi | 8242, 52 hits in 531 CRISPR screens |
ChiTaRSi | KDM5C, human |
EvolutionaryTracei | P41229 |
GeneWikii | JARID1C |
GenomeRNAii | 8242 |
Pharosi | P41229, Tchem |
PROi | PR:P41229 |
RNActi | P41229, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000126012, Expressed in sural nerve and 231 other tissues |
ExpressionAtlasi | P41229, baseline and differential |
Genevisiblei | P41229, HS |
Family and domain databases
Gene3Di | 1.10.150.60, 1 hit 3.30.40.10, 1 hit |
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 |
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 |
SMARTi | View protein in SMART SM00501, BRIGHT, 1 hit SM00558, JmjC, 1 hit SM00545, JmjN, 1 hit SM00249, PHD, 2 hits |
SUPFAMi | SSF46774, SSF46774, 1 hit SSF57903, SSF57903, 2 hits |
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 |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | KDM5C_HUMAN | |
Accessioni | P41229Primary (citable) accession number: P41229 Secondary accession number(s): B0QZ44 Q7Z5S5 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | February 1, 1995 |
Last sequence update: | November 14, 2006 | |
Last modified: | February 10, 2021 | |
This is version 205 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program | |
Disclaimer | Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care. |
Miscellaneousi
Keywords - Technical termi
3D-structure, Reference proteomeDocuments
- Human variants curated from literature reports
Index of human variants curated from literature reports - MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families - Human chromosome X
Human chromosome X: entries, gene names and cross-references to MIM - Human entries with genetic variants
List of human entries with genetic variants