Lysine-specific histone demethylase 3D structures

3D structures of lysine-specific histone demethylase3D structures of lysine-specific histone demethylase

Updated on 19-June-2023

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• lysine-specific histone demethylase 1A
  • 2com, 2l3d - hLSD1 SWIRM domain 174-273 – human – NMR
    
  • 5it3, 6e1f - hLSD1 SWIRM domain
    
  • 2h94, 2dw4, 2z3y, 2z5u, 4fwe, 4fwj, 4gu1, 6nqm – hLSD1 170-833
    
  • 2hko – hLSD1 (mutant)
    
  • 2ejr, 3abt, 3abu – hLSD1 + tranylcypromine derivative
    
  • 4gut, 4guu – hLSD1 + oxidoreductase
    
  • 6nqu, 6kgo, 6kgp, 6kgq, 6kgr, 7vqs, 7vqt, 7vqu, 7w3l – hLSD1 + inhibitor
    
  • 6nr5 – hLSD1 + phenelzine sulfate
    
  • 7xw8 – hLSD1 + pteridine derivative
    
• LSD1 complex with histone H3 peptide
  • 4fwf – hLSD1 + histone 3.1 peptide
    
• LSD1 complex with CoREST
  • 4czz - hLSD1 + CoREST
    
  • 5l3b, 5l3c, 5l3d - hLSD1 (mutant) + CoREST
    
  • 7zry – hLSD1 + CoREST SANT1 and SANT2 domains 305-482
    
  • 2iw5, 2uxn, 2uxx - hLSD1 SWIRM + amine oxidase domains + CoREST SANT1 and SANT2 domains
    
  • 2v1d, 5x60, 5h6r, 5h6q - hLSD1 residues 123-852 + CoREST SANT1 and SANT2 domains + histone H3 residues 2-22 (mutant)
    
  • 2x0l - hLSD1 residues 123-852 + CoREST SANT1 and SANT2 domains + histone H3 residues 1-16
    
  • 2xaf, 2xag, 2xah, 2xaj, 2xaq, 2xas - hLSD1 residues 123-852 + CoREST SANT1 and SANT2 domains + tranylcypromine derivative
    
  • 2y48 - hLSD1 residues 123-852 + CoREST SANT1 and SANT2 domains + zinc finger protein SNAIL N terminal
    
  • 3zms, 3zmt, 3zmu, 3zmv, 3zmz, 3zn0, 3zn1 - hLSD1 residues 123-852 + CoREST SANT1 and SANT2 domains + zinc finger protein IA-1 peptide
    
  • 4bay - hLSD1 residues 192-876 + CoREST residues 308-440
    
  • 4kum - hLSD1 SWIRM + FAD domains + CoREST residues 289-485
    
  • 6kgk - hLSD1 172-833 + CoREST
    
  • 4uv8, 4uv9, 4uva, 4uvb, 4uvc - hLSD1 + CoREST + irreversible inhibitor
    
  • 5l3e, 5lbq, 5lgn, 5lgt, 5lgu, 5lhg, 5lhh, 5lhi - hLSD1 + CoREST + reversible inhibitor
    
  • 5l3f, 5l3g - hLSD1 + CoREST + polmyxin peptide
    
  • 4xbf - hLSD1 + CoREST + RNA
    
  • 4uxn, 5yjb, 6k3e, 6kgl, 6kgm, 6kgn, 6te1, 6tuy, 6w4k, 7e0g - hLSD1 + CoREST + pyrrolydine inhibitor
    
  • 6s35, 7cdc, 7cdd, 7cde, 7cdf, 7cdg - hLSD1 + CoREST + peptide inhibitor
    
  • 6vyp - hLSD1 + CoREST + histones + DNA
    
• lysine-specific histone demethylase 1B
  • 4gu1 – hLSD2
    
  • 4gur, 4gus, 4hsu – hLSD2 + NPAC + histone 3.3 peptide
    
  • 4gut – hLSD2 + NPAC
    
  • 4guu – hLSD2 + NPAC + tranylcypromine
    
  • 4gu0 – hLSD2 + histone 3.3 peptide
    
  • 7xe1, 7xe2, 7xe3 – hLSD2 + inhibitor
    
  • 6r25, 6r1t, 6r1u – hLSD2 + NPAC + histones 3,4,2A,2B + DNA – Cryo EM
    
• lysine-specific histone demethylase 5A or JARID1A or KDM5A. Domains: Jmj 1-87 + 348-588, ARID 85-175; PHD1 287-344; PHD 1609-1659
  • 5e6h – hLSD5A jmj domain
    
  • 5isl, 5ivb, 5ivc, 5ive, 5ivf, 5ivj, 5ivv, 5ivy, 5iw0, 5iwf, 5k4l, 5v9p, 5v9t, 6bgu, 6bgv, 6bgw, 6bgx, 6bgy, 6bgz, 6bh0, 6bh1, 6bh2, 6bh3, 6bh4, 6bh5,6dq4, 6dq5, 6dq6, 6dq7, 6dq8, 6dq9, 6dqa, 6dqb, 6dqc, 6dqd, 6dqe, 6dqf – hLSD5A jmj domain + inhibitor
    
  • 2kgg, 7klo – hLSD5A PHD domain - NMR
    
  • 7klo – hLSD5A PHD1 domain - NMR
    
  • 7klr – hLSD5A PHD1 domain + H3 peptide
    
  • 3gl6 – hLSD5A PHD domain + H3 peptide
    
  • 5c11 – hLSD5A PHD domain + H3 peptide
    
  • 2kgi – hLSD5A PHD domain + H3 peptide - NMR
    
  • 2jxj – hLSD5A ARID domain - NMR
    
• lysine-specific histone demethylase 5B or JARID1B or KDM5B. Domains: zinc finger 1 306-360; PHD-type zinc finger 1487-1544; ARID 94-208; JmjC 26-101 + 374-772
  • 2ma5 – hLSD5B zinc finger domain 3 - NMR
    
  • 2mny – hLSD5B zinc finger domain 1 - NMR
    
  • 2mnz – hLSD5B zinc finger domain 1 + histone 3 peptide - NMR
    
  • 2eqy – hLSD5B ARID domain - NMR
    
  • 5a3p – hLSD5B JmjC domain
    
  • 5lwb, 5lw9, 5fun, 5fz0, 5fzk, 5fzl, 5fz9, 5fza, 5fzb, 5fzc, 5fyt, 5fyu, 5fyy, 5fyz, 5fz3, 5fz4, 5fz6, 5fz7, 5fpl, 5fpu, 5a3n, 5a3t, 5a3w, 6ein, 6eiu, 6eiy, 6ej0, 6ej1, 6ek6, 5fzm, 5fzi, 5fzg, 5fzf, 5fze, 5fzd, 5fz8, 5fyb, 6rbi, 6h4z, 6h50, 6h51, 6h52 – hLSD5B JmjC domain + inhibitor
    
  • 5fzh, 5fz1 – hLSD5B JmjC domain + ligand
    
  • 5fup, 5fys – hLSD5B JmjC domain + oxoglutarate
    
  • 5fyv – hLSD5B JmjC domain + oxaloacetate
    
  • 5fy9 – hLSD5B JmjC domain + pyruvate
    
  • 5fy5 – hLSD5B JmjC domain + fumarate
    
  • 5fy4 – hLSD5B JmjC domain + succinate
    
  • 5fv3, 5a1f – hLSD5B JmjC domain + oxalyl glycine
    
  • 6h4z, 6h50, 6h51, 6h52 – hLSD5B JmjC domain + inhibitor
    
• lysine-specific histone demethylase 2A or KDM2A
  • 4bbq – hKDM2A residues 567-681
    
  • 6c16, 6byh – hKDM2A residues 888-932 + SKP1 + polyubiquitin
    
  • 4tn7, 4qxh, 4qxc, 4qxb, 4qx8, 4qx7, 4qwn – hKDM2A residues 36-364 + histone peptide
    
• lysine-specific histone demethylase 2B or KDM2Bsee Jumonji domain-containing protein 3D structures
• lysine-specific histone demethylase 4A or KDM4A see Jumonji domain-containing protein 3D structures
• lysine-specific histone demethylase 4D see Jumonji domain-containing protein 3D structures
• lysine-specific histone demethylase 5A or KDM5A see Retinoblastoma-binding protein 3D structures
• lysine-specific histone demethylase 6A
  • 6g8f, 6fuk, 6ful, 6ete – hKDM6A + inhibitor
    
  • 3avr, 3avs – hKDM6A 880-1401 + H3 peptide + oxalylglycine
    
• lysine-specific histone demethylase Ref6 see Jumonji domain-containing protein 3D structures