Jumonji domain-containing protein 3D structures

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*Jmjd2a (Lysine-specific demethylase 4A)
*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 />
 +
**[[9gii]], [[9gp4]] – hJmjd2a double TUDOR domain (mutant)<br />
**[[2gp3]] – hJmjd2a catalytic domain + Fe<br />
**[[2gp3]] – hJmjd2a catalytic domain + Fe<br />
**[[5fyc]], [[5tvs]] – hJmjd2a catalytic domain + Ni<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 />
**[[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 />
**[[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 />
**[[5fy8]] – hJmjd2a catalytic domain + Ni + threo-isocitrate<br />
**[[5fyi]] – hJmjd2a catalytic domain + Ni + pyruvate<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 />
**[[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 />
**[[5k4l]], [[5ceh]] – hJmj1a + inhibitor + peptide<br />
 +
**[[7klo]] – hJmj1a PHD finger domain - NMR<br />
**[[5c11]] – hJmj1a PHD finger domain + H3 peptide<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 />
**[[5e6h]] – hJmj1a residues 1-87, 348-588 + Mn + oxoglutarate<br />
**[[4tn7]] – mJmj1a residues 36-364 + NO + Fe + H3 peptide - mouse <br />
**[[4tn7]] – mJmj1a residues 36-364 + NO + Fe + H3 peptide - mouse <br />
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**[[4qx8]], [[4qx7]], [[4qwn]] – mJmj1a residues 36-364 + Ni + oxoglutarate + H3 peptide <br />
**[[4qx8]], [[4qx7]], [[4qwn]] – mJmj1a residues 36-364 + Ni + oxoglutarate + H3 peptide <br />
-
* Lysine-specific demethylase 3B; KDM3B; JMJD1B
+
* Lysine-specific demethylase 3B; KDM3B; Jmjd1B
**[[5r7x]] – hKDM3b jmjc domain 1380-1728 + Mn <br />
**[[5r7x]] – hKDM3b jmjc domain 1380-1728 + Mn <br />
**[[4c8d]] – hKDM3b jmjc domain + Mn + oxalylglycine <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 />
**[[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]]
* Lysine-specific demethylase 5B; KDM5B see [[Lysine-specific histone demethylase 3D structures]]
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* JARID2
* JARID2
-
**[[6c23]], [[6c24]] – hJarid2 in polycomb complex PRC2 – Cryo EM<br />
+
**[[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 />
**[[6nq3]] – hJarid2 + SUZ12 + RBBP4 + PHF19<br />
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**[[6bva]] – hJmj1b + S-phase kinase-associated protein + polyubiquitin <br />
**[[6bva]] – hJmj1b + S-phase kinase-associated protein + polyubiquitin <br />
**[[5jh5]] – hJmj1b + S-phase kinase-associated protein + polycomb protein + BCOR-like protein <br />
**[[5jh5]] – hJmj1b + S-phase kinase-associated protein + polycomb protein + BCOR-like protein <br />
 +
 +
*Jmjd2a (Lysine-specific demethylase 4A)
 +
 +
**[[9gle]], [[9gp1]] – hJmjd2a catalytic domain (mutant) + Ni + Zn<br />
*Jmjd2b (Lysine-specific demethylase 4B)
*Jmjd2b (Lysine-specific demethylase 4B)
**[[4lxl]] – hJmjd2b catalytic domain + Ni + histone H3 peptide with trimethyllysine <br />
**[[4lxl]] – hJmjd2b catalytic domain + Ni + histone H3 peptide with trimethyllysine <br />
 +
**[[7jm5]] – hJmjd2b catalytic domain + Ni + Zn + inhibitor<br />
**[[4uc4]] – hJmjd2b tudor domain <br />
**[[4uc4]] – hJmjd2b tudor domain <br />
 +
**[[9h44]] – hJmjd2b tudor domain (mutant) <br />
*Jmjd2c (Lysine-specific demethylase 4C)
*Jmjd2c (Lysine-specific demethylase 4C)
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**[[5kr7]] – hJmjd2c catalytic domain + Fe + Zn + inhibitor<br />
**[[5kr7]] – hJmjd2c catalytic domain + Fe + Zn + inhibitor<br />
-
*Jmjd2d (Lysine-specific demethylase 4D)
+
*Jmjd2d (Lysine-specific demethylase 4D, KDM4D)
**[[3dxu]] – hJmjd2d catalytic domain + Fe + oxalylglycine <br />
**[[3dxu]] – hJmjd2d catalytic domain + Fe + oxalylglycine <br />
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**[[4d6q]], [[5f5a]], [[5f5c]], [[5f5i]] – hJmjd2d catalytic domain + Ni + inhibitor<br />
**[[4d6q]], [[5f5a]], [[5f5c]], [[5f5i]] – hJmjd2d catalytic domain + Ni + 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 />
**[[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 />
+
**[[5fp4]], [[5fp8]], [[5fp9]], [[5fpa]], [[5fpb]], [[5fp7]], [[7dyg]], [[7dyq]] – hJmjd2d catalytic domain + Fe + inhibitor<br />
**[[4d6r]], [[4d6s]] – hJmjd2d catalytic domain + Ni + inhibitor + oxalylglycine <br />
**[[4d6r]], [[4d6s]] – hJmjd2d catalytic domain + Ni + inhibitor + oxalylglycine <br />
**[[4hon]] – hJmjd2d catalytic domain + Ni + histone H3 peptide with trimethyllysine + α-ketoglutarate <br />
**[[4hon]] – hJmjd2d catalytic domain + Ni + histone H3 peptide with trimethyllysine + α-ketoglutarate <br />
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**[[2xue]] – hJmjd3 catalytic domain + Fe + α-ketoglutarate <br />
**[[2xue]] – hJmjd3 catalytic domain + Fe + α-ketoglutarate <br />
**[[6f6d]], [[5oy3]] – hJmjd3 catalytic domain + Fe + Zn + α-ketoglutarate + histone peptide<br />
**[[6f6d]], [[5oy3]] – hJmjd3 catalytic domain + Fe + Zn + α-ketoglutarate + histone peptide<br />
 +
**[[9nqu]] – hJmjd3 catalytic domain + Fe + Zn in nucleosome – Cryo EM<br />
**[[4ask]] – hJmjd3 catalytic and Zinc finger domains + Co + inhibitor <br />
**[[4ask]] – hJmjd3 catalytic and Zinc finger domains + Co + inhibitor <br />
**[[4eyu]], [[4ez4]] – mJmjd3 C terminal + Ni + oxalylglycine - mouse <br />
**[[4eyu]], [[4ez4]] – mJmjd3 C terminal + Ni + oxalylglycine - mouse <br />
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**[[3u78]] – hJmjd7 catalytic domain + Ni + oxoglutarate + inhibitor<br/ >
**[[3u78]] – hJmjd7 catalytic domain + Ni + oxoglutarate + inhibitor<br/ >
**[[5nfo]] – hJmjd7 catalytic domain (mutant) + Mn + oxoglutarate <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]]
[[Category:Topic Page]]

Current revision

3D structures of jumonji domain-containing protein

Updated on 09-October-2025

Proteopedia Page Contributors and Editors (what is this?)

Michal Harel

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