Jumonji domain-containing protein 3D structures: Difference between revisions

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Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Michal Harel

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 *Jmjd2a (Lysine-specific demethylase 4A)
-**[[2gf7]], [[2qqr]], [[5d6w]], [[5d6x]] – hJmjd2a double TUDOR domain – human <br />
+**[[2gf7]], [[2qqr]], [[5d6w]], [[5d6x]], [[7d4a]] – hJmjd2a double TUDOR domain – human <br />
 **[[2gp3]] – hJmjd2a catalytic domain + Fe<br />
 **[[5fyc]], [[5tvs]] – hJmjd2a catalytic domain + Ni<br />
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 **[[5a7n]], [[5a7o]], [[5a7p]], [[5a7q]], [[5a7s]], [[5a7w]], [[5a80]] – hJmjd2a catalytic domain + Mn + inhibitor<br />
 **[[5f2s]], [[5f2w]], [[5f32]], [[5f37]], [[5f39]], [[5f3c]], [[5f3e]], [[5f3g]], [[5f3i]], [[6cg1]], [[6cg2]], [[5vmp]], [[5vgi]], [[5var]], [[6h4o]], [[6h4p]], [[6h4q]], [[6h4r]], [[6h4s]], [[6h4t]], [[6h4u]], [[6h4v]], [[6h4w]], [[6h4x]], [[6h4y]], [[6h4z]] – hJmjd2a catalytic domain + Zn + inhibitor<br />
-**[[6g5w]], [[6g5x]] – hJmjd2a catalytic domain + Zn + Ni + inhibitor<br />
+**[[6g5w]], [[6g5x]], [[7eqv]] – hJmjd2a catalytic domain + Zn + Ni + inhibitor<br />
 **[[5fy8]]  – hJmjd2a catalytic domain + Ni + threo-isocitrate<br />
 **[[5fyi]]  – hJmjd2a catalytic domain + Ni + pyruvate<br />
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 **[[5v9p]], [[5v9t]], [[5iwf]], [[5iw0]], [[5ivy]], [[5ivv]], [[5ivj]], [[5ivf]], [[5ive]], [[5ivc]], [[5ivb]], [[5isl]], [[6bh5]], [[6bh4]], [[6bh3]], [[6bh2]], [[6bh1]], [[6bh0]], [[6bgz]], [[6bgy]], [[6bgx]], [[6bgw]], [[6bgv]], [[6bgu]], [[6dq4]], [[6dq5]], [[6dq6]], [[6dq7]], [[6dq8]], [[6dq9]], [[6dqa]], [[6dqb]], [[6dqc]], [[6dqd]], [[6dqe]], [[6dqf]] – hJmj1a + inhibitor <br />
 **[[5k4l]], [[5ceh]] – hJmj1a + inhibitor + peptide<br />
+**[[7klo]] – hJmj1a PHD finger domain - NMR<br />
 **[[5c11]] – hJmj1a PHD finger domain +  H3 peptide<br />
+**[[7klr]] – hJmj1a PHD finger domain + H3 peptide - NMR<br />
 **[[5e6h]] – hJmj1a residues 1-87, 348-588 + Mn + oxoglutarate<br />
 **[[4tn7]] – mJmj1a residues 36-364 + NO + Fe + H3 peptide - mouse <br />
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 **[[4qxc]] – mJmj1a residues 36-364 + Ni + oxalylglycine + H3 peptide <br />
 **[[4qx8]], [[4qx7]], [[4qwn]] – mJmj1a residues 36-364 + Ni + oxoglutarate + H3 peptide <br />
+* Lysine-specific demethylase 3B; KDM3B; JMJD1B
+**[[5r7x]] – hKDM3b jmjc domain 1380-1728 + Mn <br />
+**[[4c8d]] – hKDM3b jmjc domain + Mn + oxalylglycine <br />
+**[[5raa]], [[5rab]], [[5rac]], [[5rad]], [[5rae]], [[5raf]], [[5rag]], [[5rah]], [[5rai]], [[5raj]], [[5rak]], [[5ral]], [[5ram]], [[5ran]], [[5rao]], [[5rap]], [[5raq]], [[5rar]], [[5ras]], [[5rau]], [[5rav]], [[5raw]], [[5rax]], [[5ray]], [[5raz]], [[5rb0]], [[5rb1]], [[5rb2]], [[5rb3]], [[5rb4]], [[5rb5]], [[5rb6]], [[5rb7]], [[6rbj]] – hKDM3b jmjc domain + Mn + inhibitor<br />
+* JMJD1C
+**[[5fzo]] – hJmj1c catalytic domain 2157-2500 + Mn <br />
 * Lysine-specific demethylase 5B; KDM5B see [[Lysine-specific histone demethylase 3D structures]]
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 **[[2yqe]] – hLSD5D ARID domain - NMR<br />
+* JARID2
+**[[6c23]], [[6c24]], [[7kso]] – hJarid2 in polycomb complex PRC2 – Cryo EM<br />
+**[[6wkr]] – hJarid2 in polycomb complex PRC2 + nucleosome – Cryo EM<br />
+**[[6nq3]] – hJarid2 + SUZ12 + RBBP4 + PHF19<br />
 * Lysine-specific demethylase REF6 or Jmjd12
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 **[[4o64]] – hJmj1b zinc finger domain + Zn <br />
-**[[4c8d]], [[5fv3]] – hJmj1b catalytic domain + Mn + oxalylglycine <br />
+**[[5fv3]] – hJmj1b catalytic domain 26-101+374-770 + Mn + oxalylglycine <br />
+**[[4c8d]] – hJmj1b jmjc domain 1380-1728 + Mn + oxalylglycine <br />
 **[[5fup]] – hJmj1b catalytic domain + Mn + Zn + oxoglutatate <br />
 **[[5lwb]], [[5lw9]], [[5fzm]], [[5fzl]], [[5fzk]], [[5fzi]], [[5fzh]], [[5fzg]], [[5fzf]], [[5fze]], [[5fzd]], [[5fzc]], [[5fzb]], [[5fza]], [[5fz9]], [[5fz8]], [[5fz7]], [[5fz6]], [[5fz4]], [[5fz3]], [[5fz1]], [[5fz0]], [[5fyz]], [[5fyy]], [[5fyv]], [[5fyu]], [[5fyt]], [[5fyb]], [[5fy9]], [[5fy5]], [[5fy4]], [[5fun]], [[5fpu]], [[5fpl]], [[5a3w]], [[5a3t]], [[5a3p]], [[5a3n]]  – hJmj1b catalytic domain + Mn + Zn + inhibitor <br />
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 **[[3dxu]] – hJmjd2d catalytic domain + Fe + oxalylglycine <br />
-**[[3dxt]], [[5pnw]], [[5pnv]], [[5pnu]], [[5pns]], [[5pnr]], [[5pnq]], [[5pnp]], [[5pno]], [[5pnn]], [[5pnm]], [[5pnl]], [[5pnk]], [[5pnj]], [[5pni]], [[5pnh]], [[5png]], [[5pnf]], [[5pne]], [[5pnd]], [[5pnc]], [[5pnb]], [[5pna]], [[5pn9]], [[5pn8]], [[5pn7]], [[5pn6]], [[5pn5]], [[5pn4]], [[5pn3]], [[5pn2]], [[5pn1]], [[5pn0]], [[5pmz]], [[5pmy]], [[5pmx]], [[5pmw]], [[5pmv]], [[5pmu]], [[5pmt]], [[5pms]], [[5pmr]], [[5pmq]], [[5pmp]], [[5pmo]], [[5pmn]], [[5pmm]], [[5pml]], [[5pmk]], [[5pmj]], [[5pmi]], [[5pmh]], [[5pmj]], [[5pmi]], [[5pmh]], [[5pmg]], [[5pmf]], [[5pme]], [[5pmd]], [[5pmc]], [[5pmb]], [[5pma]], [[5pm9]], [[5pm8]], [[5pm7]], [[5pm6]], [[5pm5]], [[5pm4]], [[5pm3]], [[5pm2]], [[5pm1]], [[5pm0]], [[5plz]], [[5ply]], [[5plx]], [[5plw]], [[5plv]], [[5plu]], [[5plt]], [[5pls]], [[5plr]], [[5plq]], [[5plp]], [[5plo]], [[5pln]], [[5plm]], [[5pll]], [[5plk]], [[5plj]], [[5pli]], [[5plh]], [[5plg]], [[5plf]], [[5ple]], [[5pld]], [[5plc]], [[5plb]], [[5pla]], [[5pl9]], [[5pl8]], [[5pl7]], [[5pl6]], [[5pl5]], [[5pl4]], [[5pl3]], [[5pl2]], [[5pl1]], [[5pl0]], [[5pkz]], [[5pky]], [[5pkx]], [[5pkw]], [[5pkv]], [[5pku]], [[5pkt]], [[5pks]], [[5pkr]], [[5pkq]], [[5pkp]], [[5pko]], [[5pkn]], [[5pkm]], [[5pkl]], [[5pkk]], [[5pkj]], [[5pki]], [[5pkh]], [[5pkg]], [[5pkf]], [[5pke]], [[5pkd]], [[5pkc]], [[5pkb]], [[5pka]], [[5pk9]], [[5pk8]], [[5pk7]], [[5pk6]], [[5pk5]], [[5pk4]], [[5pk3]], [[5pk2]], [[5pk1]], [[5pk0]], [[5pjz]], [[5pjy]], [[5pjx]], [[5pjw]], [[5pjv]], [[5pju]], [[5pjt]], [[5pjs]], [[5pjr]], [[5pjq]], [[5pjp]], [[5pjo]], [[5pjn]], [[5pjm]], [[5pjl]], [[5pjk]], [[5pjj]], [[5pji]], [[5pjh]], [[5pjg]], [[5pjf]], [[5pje]], [[5pjd]], [[5pjc]], [[5pjb]], [[5pja]], [[5pj9]], [[5pj8]], [[5pj7]], [[5pj6]], [[5pj5]], [[5pj4]], [[5pj3]], [[5pj2]], [[5pj1]], [[5pj0]], [[5piz]], [[5piy]], [[5pix]], [[5piw]], [[5piv]], [[5piu]], [[5pit]], [[5pis]], [[5pir]], [[5piq]], [[5pip]], [[5pio]], [[5pin]], [[5pim]], [[5pil]], [[5pik]], [[5pij]], [[5pii]], [[5pih]], [[5pig]], [[5pif]], [[5pie]], [[5pid]], [[5pic]], [[5pib]], [[5pia]], [[5pi9]], [[5pi8]], [[5pi7]], [[5pi6]], [[5pi5]], [[5pi4]], [[5pi3]], [[5pi2]], [[5pi1]], [[5pi0]], [[5phz]], [[5phy]], [[5phx]], [[5phw]], [[5phv]], [[5phu]], [[5pht]], [[5phs]], [[5phr]], [[5phq]], [[5php]], [[5pho]], [[5phn]], [[5phm]], [[5phl]], [[5phk]], [[5phj]], [[5phi]], [[5phh]], [[5phg]], [[5phf]], [[5phe]], [[5phd]], [[5phc]], [[5phb]], [[5pha]], [[5ph9]], [[5ph8]], [[5ph7]], [[5ph6]], [[5ph5]], [[5ph4]], [[5ph3]], [[5ph2]], [[5ph1]], [[5ph0]],
+**[[3dxt]], [[5pnw]], [[5pnv]], [[5pnu]], [[5pns]], [[5pnr]], [[5pnq]], [[5pnp]], [[5pno]], [[5pnn]], [[5pnm]], [[5pnl]], [[5pnk]], [[5pnj]], [[5pni]], [[5pnh]], [[5png]], [[5pnf]], [[5pne]], [[5pnd]], [[5pnc]], [[5pnb]], [[5pna]], [[5pn9]], [[5pn8]], [[5pn7]], [[5pn6]], [[5pn5]], [[5pn4]], [[5pn3]], [[5pn2]], [[5pn1]], [[5pn0]], [[5pmz]], [[5pmy]], [[5pmx]], [[5pmw]], [[5pmv]], [[5pmu]], [[5pmt]], [[5pms]], [[5pmr]], [[5pmq]], [[5pmp]], [[5pmo]], [[5pmn]], [[5pmm]], [[5pml]], [[5pmk]], [[5pmj]], [[5pmi]], [[5pmh]], [[5pmj]], [[5pmi]], [[5pmh]], [[5pmg]], [[5pmf]], [[5pme]], [[5pmd]], [[5pmc]], [[5pmb]], [[5pma]], [[5pm9]], [[5pm8]], [[5pm7]], [[5pm6]], [[5pm5]], [[5pm4]], [[5pm3]], [[5pm2]], [[5pm1]], [[5pm0]], [[5plz]], [[5ply]], [[5plx]], [[5plw]], [[5plv]], [[5plu]], [[5plt]], [[5pls]], [[5plr]], [[5plq]], [[5plp]], [[5plo]], [[5pln]], [[5plm]], [[5pll]], [[5plk]], [[5plj]], [[5pli]], [[5plh]], [[5plg]], [[5plf]], [[5ple]], [[5pld]], [[5plc]], [[5plb]], [[5pla]], [[5pl9]], [[5pl8]], [[5pl7]], [[5pl6]], [[5pl5]], [[5pl4]], [[5pl3]], [[5pl2]], [[5pl1]], [[5pl0]], [[5pkz]], [[5pky]], [[5pkx]], [[5pkw]], [[5pkv]], [[5pku]], [[5pkt]], [[5pks]], [[5pkr]], [[5pkq]], [[5pkp]], [[5pko]], [[5pkn]], [[5pkm]], [[5pkl]], [[5pkk]], [[5pkj]], [[5pki]], [[5pkh]], [[5pkg]], [[5pkf]], [[5pke]], [[5pkd]], [[5pkc]], [[5pkb]], [[5pka]], [[5pk9]], [[5pk8]], [[5pk7]], [[5pk6]], [[5pk5]], [[5pk4]], [[5pk3]], [[5pk2]], [[5pk1]], [[5pk0]], [[5pjz]], [[5pjy]], [[5pjx]], [[5pjw]], [[5pjv]], [[5pju]], [[5pjt]], [[5pjs]], [[5pjr]], [[5pjq]], [[5pjp]], [[5pjo]], [[5pjn]], [[5pjm]], [[5pjl]], [[5pjk]], [[5pjj]], [[5pji]], [[5pjh]], [[5pjg]], [[5pjf]], [[5pje]], [[5pjd]], [[5pjc]], [[5pjb]], [[5pja]], [[5pj9]], [[5pj8]], [[5pj7]], [[5pj6]], [[5pj5]], [[5pj4]], [[5pj3]], [[5pj2]], [[5pj1]], [[5pj0]], [[5piz]], [[5piy]], [[5pix]], [[5piw]], [[5piv]], [[5piu]], [[5pit]], [[5pis]], [[5pir]], [[5piq]], [[5pip]], [[5pio]], [[5pin]], [[5pim]], [[5pil]], [[5pik]], [[5pij]], [[5pii]], [[5pih]], [[5pig]], [[5pif]], [[5pie]], [[5pid]], [[5pic]], [[5pib]], [[5pia]], [[5pi9]], [[5pi8]], [[5pi7]], [[5pi6]], [[5pi5]], [[5pi4]], [[5pi3]], [[5pi2]], [[5pi1]], [[5pi0]], [[5phz]], [[5phy]], [[5phx]], [[5phw]], [[5phv]], [[5phu]], [[5pht]], [[5phs]], [[5phr]], [[5phq]], [[5php]], [[5pho]], [[5phn]], [[5phm]], [[5phl]], [[5phk]], [[5phj]], [[5phi]], [[5phh]], [[5phg]], [[5phf]], [[5phe]], [[5phd]], [[5phc]], [[5phb]], [[5pha]], [[5ph9]], [[5ph8]], [[5ph7]], [[5ph6]], [[5ph5]], [[5ph4]], [[5ph3]], [[5ph2]], [[5ph1]], [[5ph0]] – hJmjd2d catalytic domain + Zn<br />
-[[5pka]], [[5pk9]], [[5pk8]], [[5pk7]], [[5pk6]], [[5pk5]], [[5pk4]], [[5pk3]], [[5pk2]], [[5pk1]], [[5pk0]], [[5plj]], [[5pli]], [[5plh]], [[5plg]] – hJmjd2d catalytic domain + Zn<br />
 **[[4hoo]] – hJmjd2d catalytic domain (mutant) + Ni<br />
 **[[4d6q]], [[5f5a]], [[5f5c]], [[5f5i]] – hJmjd2d catalytic domain + Ni + inhibitor<br />
-**[[6ete]], [[6etg]], [[6ets]], [[6ett]], [[6etu]], [[6etv]], [[6etw]] – hJmjd2d catalytic domain + Ni + Zn + inhibitor<br />
+**[[6ete]], [[6etg]], [[6ets]], [[6ett]], [[6etu]], [[6etv]], [[6etw]], [[6f5q]], [[6f5r]], [[6f5s]], [[6f5t]], [[6h0w]], [[6h0x]], [[6h0y]], [[6h0z]], [[6h10]], [[6h11]] – hJmjd2d catalytic domain + Ni + Zn + inhibitor<br />
 **[[5fp4]], [[5fp8]], [[5fp9]], [[5fpa]], [[5fpb]], [[5fp7]] – hJmjd2d catalytic domain + Fe + inhibitor<br />
 **[[4d6r]], [[4d6s]] – hJmjd2d catalytic domain + Ni + inhibitor + oxalylglycine <br />
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 **[[6f4n]] – hJmjd5 catalytic domain + Mn + α-ketoglutarate <br />
 **[[6f4o]] – hJmjd5 catalytic domain + Mn + succinate <br />
+**[[6i9l]], [[6i9m]], [[6i9n]] – hJmjd5 catalytic domain + Mn + inhibitor <br />
 **[[4aap]] – hJmjd5 catalytic domain + Zn + oxalylglycine <br/ >
 **[[6avs]] – hJmjd5 catalytic domain + Zn + NMMA <br/ >
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 **[[3ld8]] – hJmjd6 catalytic domain + antibody + Fe <br />
+**[[6gdy]] – hJmjd6 catalytic domain + inhibitor + Fe + α-ketoglutarate <br />
+**[[6mev]] – hJmjd6 catalytic domain + L-MMMA + Fe + α-ketoglutarate <br />
 **[[3ldb]] – hJmjd6 catalytic domain + antibody + Fe + α-ketoglutarate <br />
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 **[[3u78]] – hJmjd7 catalytic domain + Ni + oxoglutarate + inhibitor<br/ >
 **[[5nfo]] – hJmjd7 catalytic domain (mutant) + Mn + oxoglutarate <br/ >
+**[[4qsz]] – mJmjd7 catalytic domain/MBP <br/ >
+*Jmj13
+**[[6ip0]] – AtJmj13 catalytic domain + Ni + oxoglutarate <br/ >
+**[[6ip4]] – AtJmj13 catalytic domain + Ni + oxalylglycine + histone 3.2 peptide <br/ >
+*Jmj14
+**[[5ykn]] – AtJmj13 catalytic domain (mutant) + Ni + Zn <br/ >
+**[[5yko]] – AtJmj13 catalytic domain (mutant) + Ni + Zn + oxalylglycine + histone 3.2 peptide <br/ >
 }}
 [[Category:Topic Page]]