Protein: O60341

UniprotKB AC UniprotKB ID Gene name Full name Species Curated set
O60341 (Uniprot) KDM1A_HUMAN KDM1A Lysine-specific histone demethylase 1A human No
Uniprot: Histone demethylase that demethylates both 'Lys-4' (H3K4me) and 'Lys-9' (H3K9me) of histone H3, thereby acting as a coactivator or a corepressor, depending on the context. Acts by oxidizing the substrate by FAD to generate the corresponding imine that is subsequently hydrolyzed. Acts as a corepressor by mediating demethylation of H3K4me, a specific tag for epigenetic transcriptional activation. Demethylates both mono- (H3K4me1) and di-methylated (H3K4me2) H3K4me. May play a role in the repression of neuronal genes. Alone, it is unable to demethylate H3K4me on nucleosomes and requires the presence of RCOR1/CoREST to achieve such activity. Also acts as a coactivator of androgen receptor (ANDR)-dependent transcription, by being recruited to ANDR target genes and mediating demethylation of H3K9me, a specific tag for epigenetic transcriptional repression. The presence of PRKCB in ANDR-containing complexes, which mediates phosphorylation of 'Thr-6' of histone H3 (H3T6ph), a specific tag that prevents demethylation H3K4me, prevents H3K4me demethylase activity of KDM1A. Demethylates di-methylated 'Lys-370' of p53/TP53 which prevents interaction of p53/TP53 with TP53BP1 and represses p53/TP53-mediated transcriptional activation. Demethylates and stabilizes the DNA methylase DNMT1. Required for gastrulation during embryogenesis. Component of a RCOR/GFI/KDM1A/HDAC complex that suppresses, via histone deacetylase (HDAC) recruitment, a number of genes implicated in multilineage blood cell development. Effector of SNAI1-mediated transcription repression of E-cadherin/CDH1, CDN7 and KRT8. Required for the maintenance of the silenced state of the SNAI1 target genes E-cadherin/CDH1 and CDN7. more..
MoonDB Dissimilar Functions
GO ID 1 Function 1 Module ID 1 GO ID 2 Function 2 Module ID 2 Association Probability (PrOnto) Interaction Probability (PrOnto)
GO:0006725 cellular aromatic compound metabolic process 103, 494 GO:0051641 cellular localization 872 2.74e-17 6.15e-158
GO:0044260 cellular macromolecule metabolic process 591, 714, 787 GO:0051641 cellular localization 872 4.50e-03 3.02e-89
GO:0034641 cellular nitrogen compound metabolic process 595 GO:0051641 cellular localization 872 1.90e-19 2.28e-136
GO:0006139 nucleobase-containing compound metabolic process 632 GO:0051641 cellular localization 872 4.17e-16 1.54e-157
GO:0016070 RNA metabolic process 644 GO:0051641 cellular localization 872 1.19e-11 3.64e-209
GO:0009059 macromolecule biosynthetic process 662, 672 GO:0051641 cellular localization 872 1.95e-13 6.68e-127
GO:0019219 regulation of nucleobase-containing compound metabolic process 834 GO:0051641 cellular localization 872 2.96e-08 1.52e-84
Biological Processes
Module ID (MoonGO) GO ID (BP) GO Name
26 GO:0006464 cellular protein modification process
26 GO:0090304 nucleic acid metabolic process
26 GO:0010468 regulation of gene expression
37 GO:0007165 signal transduction
49 GO:0006464 cellular protein modification process
49 GO:0031324 negative regulation of cellular metabolic process
49 GO:0010629 negative regulation of gene expression
49 GO:0051172 negative regulation of nitrogen compound metabolic process
49 GO:0006357 regulation of transcription from RNA polymerase II promoter
49 GO:0007165 signal transduction
103 GO:0006139 nucleobase-containing compound metabolic process
145 GO:0060255 regulation of macromolecule metabolic process
177 GO:0044267 cellular protein metabolic process
242 GO:0022607 cellular component assembly
242 GO:0010605 negative regulation of macromolecule metabolic process
242 GO:0045934 negative regulation of nucleobase-containing compound metabolic process
242 GO:0009893 positive regulation of metabolic process
242 GO:2000112 regulation of cellular macromolecule biosynthetic process
242 GO:0010468 regulation of gene expression
242 GO:1903506 regulation of nucleic acid-templated transcription
242 GO:0007165 signal transduction
383 GO:0044267 cellular protein metabolic process
383 GO:0006355 regulation of transcription, DNA-templated
419 GO:0022607 cellular component assembly
459 GO:0007165 signal transduction
478 GO:0060255 regulation of macromolecule metabolic process
494 GO:0006139 nucleobase-containing compound metabolic process
583 GO:0060255 regulation of macromolecule metabolic process
591 GO:0016070 RNA metabolic process
591 GO:0010467 gene expression
591 GO:0060255 regulation of macromolecule metabolic process
595 GO:0044271 cellular nitrogen compound biosynthetic process
595 GO:0006464 cellular protein modification process
595 GO:0035556 intracellular signal transduction
595 GO:0006139 nucleobase-containing compound metabolic process
595 GO:0031325 positive regulation of cellular metabolic process
595 GO:0010604 positive regulation of macromolecule metabolic process
595 GO:0051173 positive regulation of nitrogen compound metabolic process
595 GO:0031326 regulation of cellular biosynthetic process
595 GO:0010468 regulation of gene expression
608 GO:0060255 regulation of macromolecule metabolic process
632 GO:0010467 gene expression
632 GO:0090304 nucleic acid metabolic process
632 GO:0060255 regulation of macromolecule metabolic process
632 GO:0007165 signal transduction
644 GO:0032774 RNA biosynthetic process
644 GO:0034645 cellular macromolecule biosynthetic process
644 GO:0006464 cellular protein modification process
644 GO:0060255 regulation of macromolecule metabolic process
644 GO:0007165 signal transduction
662 GO:0034645 cellular macromolecule biosynthetic process
662 GO:0044271 cellular nitrogen compound biosynthetic process
662 GO:0090304 nucleic acid metabolic process
665 GO:0044267 cellular protein metabolic process
672 GO:0034645 cellular macromolecule biosynthetic process
672 GO:0006139 nucleobase-containing compound metabolic process
672 GO:1901362 organic cyclic compound biosynthetic process
672 GO:0009889 regulation of biosynthetic process
672 GO:0010468 regulation of gene expression
714 GO:0016070 RNA metabolic process
714 GO:0010468 regulation of gene expression
723 GO:0006464 cellular protein modification process
723 GO:0048585 negative regulation of response to stimulus
723 GO:0007165 signal transduction
757 GO:0045944 positive regulation of transcription from RNA polymerase II promoter
787 GO:0016070 RNA metabolic process
787 GO:0010467 gene expression
787 GO:0060255 regulation of macromolecule metabolic process
787 GO:0007165 signal transduction
834 GO:0051252 regulation of RNA metabolic process
834 GO:2000112 regulation of cellular macromolecule biosynthetic process
834 GO:0010468 regulation of gene expression
834 GO:0006351 transcription, DNA-templated
872 GO:0051649 establishment of localization in cell
Cellular Components
Module ID (MoonGO) GO ID (CC) GO Name
26 GO:0005654 nucleoplasm
37 GO:0005829 cytosol
49 GO:0043232 intracellular non-membrane-bounded organelle
49 GO:0005654 nucleoplasm
92 GO:0005634 nucleus
103 GO:0070013 intracellular organelle lumen
103 GO:0005634 nucleus
140 GO:0043232 intracellular non-membrane-bounded organelle
145 GO:0070013 intracellular organelle lumen
145 GO:0044428 nuclear part
177 GO:0005634 nucleus
224 GO:0070013 intracellular organelle lumen
224 GO:0005634 nucleus
242 GO:0043232 intracellular non-membrane-bounded organelle
242 GO:0070013 intracellular organelle lumen
242 GO:0005634 nucleus
329 GO:0005829 cytosol
329 GO:0005634 nucleus
383 GO:0070013 intracellular organelle lumen
383 GO:0044428 nuclear part
386 GO:0005634 nucleus
419 GO:0044430 cytoskeletal part
419 GO:0005829 cytosol
422 GO:0005634 nucleus
459 GO:0005829 cytosol
459 GO:0043232 intracellular non-membrane-bounded organelle
459 GO:0005634 nucleus
478 GO:0005634 nucleus
494 GO:0005634 nucleus
548 GO:0070013 intracellular organelle lumen
548 GO:0005634 nucleus
567 GO:0005634 nucleus
583 GO:0043232 intracellular non-membrane-bounded organelle
583 GO:0005634 nucleus
591 GO:0031981 nuclear lumen
595 GO:0005654 nucleoplasm
600 GO:0005634 nucleus
608 GO:0043232 intracellular non-membrane-bounded organelle
608 GO:0005634 nucleus
632 GO:0031981 nuclear lumen
635 GO:0043232 intracellular non-membrane-bounded organelle
635 GO:0031981 nuclear lumen
644 GO:0031981 nuclear lumen
647 GO:0005829 cytosol
662 GO:0043232 intracellular non-membrane-bounded organelle
662 GO:0005634 nucleus
665 GO:0043232 intracellular non-membrane-bounded organelle
665 GO:0005634 nucleus
666 GO:0016021 integral component of membrane
672 GO:0031981 nuclear lumen
714 GO:0031981 nuclear lumen
723 GO:0044428 nuclear part
757 GO:0070013 intracellular organelle lumen
757 GO:0005634 nucleus
773 GO:0005829 cytosol
773 GO:0031981 nuclear lumen
787 GO:0005634 nucleus
834 GO:0005634 nucleus
872 GO:0005829 cytosol
GO ID (BP) GO Name Evidence Code (GO EC)
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IMP
GO:0000380 alternative mRNA splicing, via spliceosome IEA
GO:0006351 transcription, DNA-templated IEA
GO:0006357 regulation of transcription from RNA polymerase II promoter IMP
GO:0006482 protein demethylation IMP
GO:0007596 blood coagulation TAS
GO:0010569 regulation of double-strand break repair via homologous recombination IMP
GO:0010976 positive regulation of neuron projection development IEA
GO:0016575 histone deacetylation IEA
GO:0021987 cerebral cortex development IEA
GO:0032091 negative regulation of protein binding IMP
GO:0033169 histone H3-K9 demethylation IDA
GO:0033184 positive regulation of histone ubiquitination IMP
GO:0034644 cellular response to UV IDA
GO:0034720 histone H3-K4 demethylation IDA
GO:0035563 positive regulation of chromatin binding IEA
GO:0042551 neuron maturation IEA
GO:0043392 negative regulation of DNA binding IC
GO:0043433 negative regulation of DNA binding transcription factor activity IDA
GO:0043518 negative regulation of DNA damage response, signal transduction by p53 class mediator IMP
GO:0045793 positive regulation of cell size IEA
GO:0045892 negative regulation of transcription, DNA-templated IDA
GO:0045944 positive regulation of transcription from RNA polymerase II promoter IDA
GO:0046098 guanine metabolic process IEA
GO:0051091 positive regulation of DNA binding transcription factor activity IDA
GO:0055001 muscle cell development ISS
GO:0055114 oxidation-reduction process IEA
GO:0060992 response to fungicide IEA
GO:0071320 cellular response to cAMP IEA
GO:0071480 cellular response to gamma radiation IMP
GO:1902166 negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator IMP
GO:1903827 regulation of cellular protein localization IMP
GO ID (CC) GO Name Evidence Code (GO EC)
GO:0000784 nuclear chromosome, telomeric region IDA
GO:0000790 nuclear chromatin ISS
GO:0005634 nucleus IDA
GO:0005654 nucleoplasm TAS
GO:0005667 transcription factor complex ISS
GO:0043234 protein complex IDA
GO:1990391 DNA repair complex IDA
No pairs of PrOnto dissimilar CC GO terms found.
Interactor Also a MoonDB EMF protein
TFP11_HUMAN No
ASPP2_HUMAN No
FAM9A_HUMAN No
CEP70_HUMAN No
ZBED1_HUMAN No
NFL_HUMAN No
K1C15_HUMAN No
COIL_HUMAN No
GLYR1_HUMAN No
NECA2_HUMAN No
KRT35_HUMAN No
KIFC3_HUMAN No
TRI54_HUMAN No
HAUS1_HUMAN No
HXA1_HUMAN No
BIRC2_HUMAN No
ZN581_HUMAN No
CEP76_HUMAN No
MNS1_HUMAN No
GOGA2_HUMAN Yes: Q08379 (MoonDB)
ZBT24_HUMAN No
SMN_HUMAN No
IN35_HUMAN No
K1H1_HUMAN No
K1C39_HUMAN No
SMAD9_HUMAN No
NO40_HUMAN No
K1C40_HUMAN No
K2C6A_HUMAN No
K2C6B_HUMAN No
KLC3_HUMAN No
FTM_HUMAN No
HOME3_HUMAN No
EXOC7_HUMAN No
MS18B_HUMAN No
F161A_HUMAN No
KANL1_HUMAN No
MCRS1_HUMAN No
RCOR3_HUMAN No
KLF3_HUMAN No
TRAF4_HUMAN No
TRI39_HUMAN No
CE162_HUMAN No
SPICE_HUMAN Yes: Q8N0Z3 (MoonDB)
SCLT1_HUMAN No
PFD5_HUMAN No
CDC23_HUMAN No
KT33B_HUMAN No
TSC1_HUMAN No
MET27_HUMAN No
CC151_HUMAN No
SUV91_HUMAN No
ADIP_HUMAN Yes: Q9Y2D8 (MoonDB)
AKAP9_HUMAN No
ANKE1_HUMAN No
AP1G2_HUMAN No
ASB10_HUMAN No
ASB3_HUMAN No
ASCC2_HUMAN No
ATPK_HUMAN No
B9D2_HUMAN No
BACD2_HUMAN No
BAHD1_HUMAN No
BAIP2_HUMAN No
BATF_HUMAN No
BCAT1_HUMAN No
BMP3_HUMAN No
BRCA1_HUMAN No
CAGE1_HUMAN No
CAR10_HUMAN No
CC121_HUMAN No
CC172_HUMAN No
CC74A_HUMAN No
CC74B_HUMAN No
CC90B_HUMAN No
CCD14_HUMAN No
CD017_HUMAN No
CDC5L_HUMAN No
CDCA4_HUMAN No
CDCA5_HUMAN No
CENPQ_HUMAN No
CENPR_HUMAN No
CH048_HUMAN No
CH074_HUMAN No
CP059_HUMAN No
CP100_HUMAN No
CQ082_HUMAN No
CRBN_HUMAN No
CRLF3_HUMAN No
DAAF4_HUMAN No
DBF4B_HUMAN No
DNJA3_HUMAN No
ECI2_HUMAN No
ELOF1_HUMAN No
EXOC1_HUMAN No
EZH2_HUMAN No
FIGL1_HUMAN No
FYCO1_HUMAN No
FYN_HUMAN Yes: P06241 (MoonDB)
GABP2_HUMAN No
GAS8_HUMAN No
GCC1_HUMAN No
GDF9_HUMAN No
GO45_HUMAN No
GOG6A_HUMAN No
GPT2L_HUMAN No
GSTCD_HUMAN No
GTPB2_HUMAN No
H32_HUMAN No
H3C_HUMAN No
HAUS3_HUMAN No
HAUS6_HUMAN No
HDAC1_HUMAN No
HESX1_HUMAN No
IBP4_HUMAN No
ID2_HUMAN No
IKIP_HUMAN No
IL16_HUMAN No
INT2_HUMAN No
ISL1_HUMAN No
ITSN2_HUMAN No
K0408_HUMAN No
K1C17_HUMAN No
K1C19_HUMAN No
K2C7_HUMAN No
KASH5_HUMAN No
KLDC4_HUMAN No
KRT38_HUMAN No
KT222_HUMAN No
LAS2_HUMAN No
LENG8_HUMAN No
LMBL3_HUMAN No
LOXL4_HUMAN No
LZTS1_HUMAN No
MALT1_HUMAN No
MBD3_HUMAN No
MBD4_HUMAN No
MCPH1_HUMAN No
MERL_HUMAN No
MIC60_HUMAN No
MLC1_HUMAN No
MTF2_HUMAN No
MTMR9_HUMAN No
MTO1_HUMAN No
MYC_HUMAN No
MYLIP_HUMAN No
MYOME_HUMAN No
NBPF1_HUMAN No
NBPF7_HUMAN No
NBPFF_HUMAN No
NDUA8_HUMAN No
NDUS1_HUMAN No
NF2L2_HUMAN No
NMI_HUMAN No
NOSTN_HUMAN No
NR1H2_HUMAN Yes: P55055 (MoonDB)
NR1H3_HUMAN No
NR2C2_HUMAN No
NRBF2_HUMAN No
OFCC1_HUMAN No
OPA3_HUMAN No
OTUB1_HUMAN No
P20L1_HUMAN No
PDCD5_HUMAN No
PEX7_HUMAN No
PHC2_HUMAN Yes: Q8IXK0 (MoonDB)
PHF19_HUMAN No
PMF1_HUMAN No
PNKP_HUMAN No
PPARD_HUMAN No
PRI2_HUMAN No
PRS4_HUMAN No
PRS6A_HUMAN No
Q86XJ5_HUMAN No
RASF1_HUMAN No
RASF2_HUMAN No
RASF3_HUMAN No
RASF8_HUMAN No
RCOR1_HUMAN No
RED_HUMAN No
RHG15_HUMAN No
RHG29_HUMAN No
RNF10_HUMAN No
RPR1A_HUMAN No
SAMD3_HUMAN No
SEPT6_HUMAN No
SETB1_HUMAN No
SF3B2_HUMAN No
SHLB2_HUMAN No
SLU7_HUMAN No
SMRD1_HUMAN No
SNAI1_HUMAN No
SNF8_HUMAN No
SNX15_HUMAN No
SOCS6_HUMAN No
SPA24_HUMAN No
SPSB1_HUMAN No
SPT22_HUMAN No
SPY2_HUMAN No
SPZ1_HUMAN No
SRGEF_HUMAN No
SRGP3_HUMAN No
STX11_HUMAN No
STX19_HUMAN No
T23O_HUMAN No
TACC1_HUMAN No
TADA3_HUMAN No
TCTE1_HUMAN No
TDIF1_HUMAN No
TERF1_HUMAN No
TEX35_HUMAN No
TEX9_HUMAN No
TM266_HUMAN No
TNNT2_HUMAN No
TSACC_HUMAN No
TTC33_HUMAN No
U119A_HUMAN No
UBA3_HUMAN Yes: Q8TBC4 (MoonDB)
UCHL5_HUMAN No
UNKL_HUMAN No
VATB1_HUMAN No
VP37A_HUMAN No
VP37B_HUMAN No
VPS11_HUMAN No
WASC3_HUMAN No
WDR83_HUMAN No
YETS4_HUMAN No
Z280A_HUMAN No
ZBT39_HUMAN No
ZFP28_HUMAN No
ZN333_HUMAN No
ZN436_HUMAN No
ZN451_HUMAN No
ZN480_HUMAN No
ZN641_HUMAN No
ZN829_HUMAN No
ZNF71_HUMAN No
PMID Article Title
9628581 Prediction of the coding sequences of unidentified human genes. IX. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro.
11102443 Stable histone deacetylase complexes distinguished by the presence of SANT domain proteins CoREST/kiaa0071 and Mta-L1.
12032298 A core-BRAF35 complex containing histone deacetylase mediates repression of neuronal-specific genes.
12493763 A candidate X-linked mental retardation gene is a component of a new family of histone deacetylase-containing complexes.
15489334 The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).
15620353 Histone demethylation mediated by the nuclear amine oxidase homolog LSD1.
15811342 Histone demethylation catalysed by LSD1 is a flavin-dependent oxidative process.
16079794 An essential role for CoREST in nucleosomal histone 3 lysine 4 demethylation.
16079795 LSD1 demethylates repressive histone marks to promote androgen-receptor-dependent transcription.
16140033 Regulation of LSD1 histone demethylase activity by its associated factors.
16223729 Human histone demethylase LSD1 reads the histone code.
16531230 Solution structure of the SWIRM domain of human histone demethylase LSD1.
16710414 The DNA sequence and biological annotation of human chromosome 1.
16885027 Structural basis for CoREST-dependent demethylation of nucleosomes by the human LSD1 histone demethylase.
16956976 Crystal structure of human histone lysine-specific demethylase 1 (LSD1).
17081983 Global, in vivo, and site-specific phosphorylation dynamics in signaling networks.
17805299 p53 is regulated by the lysine demethylase LSD1.
17974005 The full-ORF clone resource of the German cDNA consortium.
18220336 Combining protein-based IMAC, peptide-based IMAC, and MudPIT for efficient phosphoproteomic analysis.
18669648 A quantitative atlas of mitotic phosphorylation.
18691976 Kinase-selective enrichment enables quantitative phosphoproteomics of the kinome across the cell cycle.
19369195 Large-scale proteomics analysis of the human kinome.
19413330 Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach.
19690332 Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions.
19880879 ASXL1 represses retinoic acid receptor-mediated transcription through associating with HP1 and LSD1.
20068231 Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis.
20228790 Phosphorylation of histone H3T6 by PKCbeta(I) controls demethylation at histone H3K4.
20562920 Requirement of the histone demethylase LSD1 in Snai1-mediated transcriptional repression during epithelial-mesenchymal transition.
21269460 Initial characterization of the human central proteome.
21406692 System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation.
23020937 Range of genetic mutations associated with severe non-syndromic sporadic intellectual disability: an exome sequencing study.
23186163 Toward a comprehensive characterization of a human cancer cell phosphoproteome.
24275569 An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome.
24838796 De novo ANKRD11 and KDM1A gene mutations in a male with features of KBG syndrome and Kabuki syndrome.
25018020 Destabilizing LSD1 by Jade-2 promotes neurogenesis: an antibraking system in neural development.
26656649 Gene discovery for Mendelian conditions via social networking: de novo variants in KDM1A cause developmental delay and distinctive facial features.
28112733 Site-specific mapping of the human SUMO proteome reveals co-modification with phosphorylation.
OMIM ID Disease Name
616728 Cleft palate, psychomotor retardation, and distinctive facial features
Domain Name Domain ID Source
Amino_oxidase IPR002937 InterPro
SWIRM IPR007526 InterPro
Homeobox-like_sf IPR009057 InterPro
Hist_Lys-spec_deMease IPR017366 InterPro
FAD/NAD-bd_sf IPR036188 InterPro
WH-like_DNA-bd_sf IPR036388 InterPro
Amino_oxidase PF01593 Pfam
SWIRM PF04433 Pfam
Histone_Lys-demethylase PIRSF038051 PIRSF
SWIRM PS50934 PROSITE
SSF46689 SSF46689 SUPFAM
SSF51905 SSF51905 SUPFAM