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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

8VOJ

The Cryo-EM structure of LSD1-CoREST-HDAC1 in complex with KBTBD4 enhanced by UM171 and IP6

This is a non-PDB format compatible entry.
Functional Information from GO Data
ChainGOidnamespacecontents
C0000118cellular_componenthistone deacetylase complex
C0000122biological_processnegative regulation of transcription by RNA polymerase II
C0000785cellular_componentchromatin
C0000792cellular_componentheterochromatin
C0000976molecular_functiontranscription cis-regulatory region binding
C0000978molecular_functionRNA polymerase II cis-regulatory region sequence-specific DNA binding
C0000979molecular_functionRNA polymerase II core promoter sequence-specific DNA binding
C0001046molecular_functioncore promoter sequence-specific DNA binding
C0001222molecular_functiontranscription corepressor binding
C0002039molecular_functionp53 binding
C0003677molecular_functionDNA binding
C0003682molecular_functionchromatin binding
C0003714molecular_functiontranscription corepressor activity
C0004407molecular_functionhistone deacetylase activity
C0005515molecular_functionprotein binding
C0005634cellular_componentnucleus
C0005654cellular_componentnucleoplasm
C0005667cellular_componenttranscription regulator complex
C0005737cellular_componentcytoplasm
C0005829cellular_componentcytosol
C0006325biological_processchromatin organization
C0006338biological_processchromatin remodeling
C0006346biological_processDNA methylation-dependent constitutive heterochromatin formation
C0006357biological_processregulation of transcription by RNA polymerase II
C0006476biological_processprotein deacetylation
C0007492biological_processendoderm development
C0007623biological_processcircadian rhythm
C0008284biological_processpositive regulation of cell population proliferation
C0009913biological_processepidermal cell differentiation
C0010628biological_processpositive regulation of gene expression
C0010629biological_processnegative regulation of gene expression
C0010832biological_processnegative regulation of myotube differentiation
C0016581cellular_componentNuRD complex
C0016787molecular_functionhydrolase activity
C0016811molecular_functionhydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides
C0017053cellular_componenttranscription repressor complex
C0019899molecular_functionenzyme binding
C0021766biological_processhippocampus development
C0030182biological_processneuron differentiation
C0030336biological_processnegative regulation of cell migration
C0030512biological_processnegative regulation of transforming growth factor beta receptor signaling pathway
C0031492molecular_functionnucleosomal DNA binding
C0031507biological_processheterochromatin formation
C0032922biological_processcircadian regulation of gene expression
C0032991cellular_componentprotein-containing complex
C0033148biological_processpositive regulation of intracellular estrogen receptor signaling pathway
C0033558molecular_functionprotein lysine deacetylase activity
C0035851molecular_functionKrueppel-associated box domain binding
C0036120biological_processcellular response to platelet-derived growth factor stimulus
C0042475biological_processodontogenesis of dentin-containing tooth
C0042659biological_processregulation of cell fate specification
C0042733biological_processembryonic digit morphogenesis
C0042826molecular_functionhistone deacetylase binding
C0043025cellular_componentneuronal cell body
C0043066biological_processnegative regulation of apoptotic process
C0043124biological_processnegative regulation of canonical NF-kappaB signal transduction
C0043922biological_processnegative regulation by host of viral transcription
C0045814biological_processnegative regulation of gene expression, epigenetic
C0045892biological_processnegative regulation of DNA-templated transcription
C0045893biological_processpositive regulation of DNA-templated transcription
C0045944biological_processpositive regulation of transcription by RNA polymerase II
C0046872molecular_functionmetal ion binding
C0048511biological_processrhythmic process
C0048661biological_processpositive regulation of smooth muscle cell proliferation
C0048709biological_processoligodendrocyte differentiation
C0048714biological_processpositive regulation of oligodendrocyte differentiation
C0051059molecular_functionNF-kappaB binding
C0060766biological_processnegative regulation of androgen receptor signaling pathway
C0060789biological_processhair follicle placode formation
C0061029biological_processeyelid development in camera-type eye
C0061198biological_processfungiform papilla formation
C0061629molecular_functionRNA polymerase II-specific DNA-binding transcription factor binding
C0070822cellular_componentSin3-type complex
C0070888molecular_functionE-box binding
C0090090biological_processnegative regulation of canonical Wnt signaling pathway
C0140297molecular_functionDNA-binding transcription factor binding
C0141221molecular_functionhistone deacetylase activity, hydrolytic mechanism
C0160008molecular_functionprotein decrotonylase activity
C0160009molecular_functionhistone decrotonylase activity
C0160216molecular_functionprotein lysine delactylase activity
C1902455biological_processnegative regulation of stem cell population maintenance
C1902459biological_processpositive regulation of stem cell population maintenance
C1990841molecular_functionpromoter-specific chromatin binding
C2000736biological_processregulation of stem cell differentiation
C2001243biological_processnegative regulation of intrinsic apoptotic signaling pathway
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues184
DetailsDomain: {"description":"BACK"}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues92
DetailsRepeat: {"description":"Kelch 1","evidences":[{"evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues84
DetailsRepeat: {"description":"Kelch 2","evidences":[{"evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues94
DetailsRepeat: {"description":"Kelch 3","evidences":[{"evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI5
Number of Residues100
DetailsRepeat: {"description":"Kelch 4","evidences":[{"evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI6
Number of Residues67
DetailsDomain: {"description":"BTB","evidences":[{"source":"PROSITE-ProRule","id":"PRU00037","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI7
Number of Residues312
DetailsRegion: {"description":"Histone deacetylase"}
ChainResidueDetails
site_idSWS_FT_FI8
Number of Residues1
DetailsActive site: {"evidences":[{"source":"PubMed","id":"19182791","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28497810","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI9
Number of Residues6
DetailsBinding site: {"evidences":[{"source":"UniProtKB","id":"O15379","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI10
Number of Residues1
DetailsModified residue: {"description":"N6-acetyllysine; alternate","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI11
Number of Residues1
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI12
Number of Residues2
DetailsModified residue: {"description":"S-nitrosocysteine","evidences":[{"source":"UniProtKB","id":"P70288","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI13
Number of Residues2
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate","evidences":[{"source":"UniProtKB","id":"Q92769","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI14
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"18669648","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"19690332","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"20068231","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI15
Number of Residues2
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)","evidences":[{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

238895

PDB entries from 2025-07-16

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