Jumonji domain-containing protein

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**[[2gf7]], [[2qqr]], [[5d6w]], [[5d6x]] – hJmjd2a double TUDOR domain – human <br />
**[[2gf7]], [[2qqr]], [[5d6w]], [[5d6x]] – hJmjd2a double TUDOR domain – human <br />
**[[2gp3]] – hJmjd2a catalytic domain + Fe<br />
**[[2gp3]] – hJmjd2a catalytic domain + Fe<br />
-
**[[5fyc]] – hJmjd2a catalytic domain + Ni<br />
+
**[[5fyc]], [[5tvs]] – hJmjd2a catalytic domain + Ni<br />
*Jmjd2a binary complex with peptide
*Jmjd2a binary complex with peptide
Line 35: Line 35:
**[[2pxj]] – hJmjd2a catalytic domain + Fe + histone H3 peptide with methyllysine <br />
**[[2pxj]] – hJmjd2a catalytic domain + Fe + histone H3 peptide with methyllysine <br />
**[[2ox0]] – hJmjd2a catalytic domain + Ni + histone H3 peptide with dimethyllysine <br />
**[[2ox0]] – hJmjd2a catalytic domain + Ni + histone H3 peptide with dimethyllysine <br />
 +
**[[5ly2]], [[5ly1]] – hJmjd2a catalytic domain + Ni + peptide inhibitor <br />
 +
**[[5fwe]] – hJmjd2a catalytic domain + Ni + Zn + oxalylglycine + peptide <br />
*Jmjd2a binary complex with other molecules
*Jmjd2a binary complex with other molecules
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**[[2vd7]], [[2wwj]], [[3njy]], [[3pdq]], [[3rvh]], [[4gd4]], [[4ai9]], [[4bis]] – hJmjd2a catalytic domain + Ni + inhibitor <br />
**[[2vd7]], [[2wwj]], [[3njy]], [[3pdq]], [[3rvh]], [[4gd4]], [[4ai9]], [[4bis]] – hJmjd2a catalytic domain + Ni + inhibitor <br />
**[[2gp5]] – hJmjd2a catalytic domain + Fe + α-ketoglutarate <br />
**[[2gp5]] – hJmjd2a catalytic domain + Fe + α-ketoglutarate <br />
-
**[[2ybk]] – hJmjd2a catalytic domain + Ni + α-ketoglutarate derivative<br />
+
**[[2ybk]], [[5tvr]] – hJmjd2a catalytic domain + Ni + α-ketoglutarate derivative<br />
**[[4ura]], [[5fpv]] – hJmjd2a catalytic domain + Ni + inhibitor<br />
**[[4ura]], [[5fpv]] – hJmjd2a catalytic domain + Ni + inhibitor<br />
**[[5anq]] – hJmjd2a catalytic domain + Fe + inhibitor<br />
**[[5anq]] – hJmjd2a catalytic domain + Fe + inhibitor<br />
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**[[3u4s]] – hJmjd2a catalytic domain + Ni + histone H3 peptide with trimethyllysine + oxalylcysteine <br />
**[[3u4s]] – hJmjd2a catalytic domain + Ni + histone H3 peptide with trimethyllysine + oxalylcysteine <br />
-
*Jmjd1b (Lysine-specific demethylase 3B)
+
*Jmjd1a (Lysine-specific demethylase 5A; KDM5A)
-
**[[4c8d]] – hJmj1b catalytic domain + Mn + oxalylglycine <br />
+
**[[5v9p]], [[5v9t]], [[5iwf]], [[5iw0]], [[5ivy]], [[5ivv]], [[5ivj]], [[5ivf]], [[5ive]], [[5ivc]], [[5ivb]], [[5isl]] – hJmj1a + inhibitor <br />
 +
**[[5k4l]], [[5ceh]] – hJmj1a + inhibitor + peptide<br />
 +
**[[5c11]] – hJmj1a PHD finger domain + H3 peptide<br />
 +
**[[5e6h]] – hJmj1a residues 1-87, 348-588 + Mn + oxoglutarate<br />
 +
**[[4tn7]] – mJmj1a residues 36-364 + NO + Fe + H3 peptide - mouse <br />
 +
**[[4qxh]], [[4qxb]] – mJmj1a residues 36-364 + Ni + oxalylglycine <br />
 +
**[[4qxc]] – mJmj1a residues 36-364 + Ni + oxalylglycine + H3 peptide <br />
 +
**[[4qx8]], [[4qx7]], [[4qwn]] – mJmj1a residues 36-364 + Ni + oxoglutarate + H3 peptide <br />
 +
 
 +
*Jmjd1b (Lysine-specific demethylase 2B; KDM2B)
 +
 
 +
**[[4o64]] – hJmj1b zinc finger domain + Zn <br />
 +
**[[4c8d]], [[5fv3]] – hJmj1b catalytic domain + 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 />
 +
**[[5jh5]] – hJmj1b + S-phase kinase-associated protein + polycomb protein + BCOR-like protein <br />
*Jmjd2b (Lysine-specific demethylase 4B)
*Jmjd2b (Lysine-specific demethylase 4B)
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**[[4xdp]] – hJmjd2c catalytic domain + Fe <br />
**[[4xdp]] – hJmjd2c catalytic domain + Fe <br />
**[[5fjh]], [[5fjk]] – hJmjd2c catalytic domain + Ni + inhibitor<br />
**[[5fjh]], [[5fjk]] – hJmjd2c catalytic domain + Ni + inhibitor<br />
 +
**[[5kr7]] – hJmjd2c catalytic domain + Fe + Zn + inhibitor<br />
*Jmjd2d (Lysine-specific demethylase 4D)
*Jmjd2d (Lysine-specific demethylase 4D)
**[[3dxu]] – hJmjd2d catalytic domain + Fe + oxalylglycine <br />
**[[3dxu]] – hJmjd2d catalytic domain + Fe + oxalylglycine <br />
-
**[[3dxt]] – hJmjd2d catalytic domain + Zn<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]],
 +
[[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 />
**[[4hoo]] – hJmjd2d catalytic domain (mutant) + Ni<br />
**[[4d6q]], [[5f5a]], [[5f5c]], [[5f5i]] – hJmjd2d catalytic domain + Ni + inhibitor<br />
**[[4d6q]], [[5f5a]], [[5f5c]], [[5f5i]] – hJmjd2d catalytic domain + Ni + inhibitor<br />
-
**[[5fp4]], [[5fp8]], [[5fp9]], [[5fpa]], [[5fpb]] – hJmjd2d catalytic domain + Fe + inhibitor<br />
+
**[[5fp4]], [[5fp8]], [[5fp9]], [[5fpa]], [[5fpb]], [[5fp7]] – 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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**[[4eyu]], [[4ez4]] – mJmjd3 C terminal + Ni + oxalylglycine - mouse <br />
**[[4eyu]], [[4ez4]] – mJmjd3 C terminal + Ni + oxalylglycine - mouse <br />
**[[4ezh]] – mJmjd3 C terminal + Ni + histone H3 peptide with trimethyllysine + oxalylglycine <br />
**[[4ezh]] – mJmjd3 C terminal + Ni + histone H3 peptide with trimethyllysine + oxalylglycine <br />
 +
**[[5fp3]] – hJmjd3 catalytic domain + inhibitor<br />
*Jmjd5 (Lysine-specific demethylase 8)
*Jmjd5 (Lysine-specific demethylase 8)
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**[[3uyj]], [[4qu1]] – hJmjd5 catalytic domain + Ni + α-ketoglutarate <br />
**[[3uyj]], [[4qu1]] – hJmjd5 catalytic domain + Ni + α-ketoglutarate <br />
**[[4gjz]] – hJmjd5 catalytic domain + Co + α-ketoglutarate <br />
**[[4gjz]] – hJmjd5 catalytic domain + Co + α-ketoglutarate <br />
-
**[[4aap]] – hJmjd5 catalytic domain + Zn + oxalylglycine <br/ > **[[4gjy]] – hJmjd5 catalytic domain + Co + oxalylglycine <br />
+
**[[4aap]] – hJmjd5 catalytic domain + Zn + oxalylglycine <br/ >
 +
**[[5fbj]] – hJmjd5 catalytic domain + Zn + oxoglutarate <br/ >
 +
**[[4gjy]] – hJmjd5 catalytic domain + Co + oxalylglycine <br />
**[[4gaz]] – hJmjd5 catalytic domain + Ni + oxalylglycine <br />
**[[4gaz]] – hJmjd5 catalytic domain + Ni + oxalylglycine <br />

Revision as of 09:36, 27 June 2017

Structure of human Jumonji domain-containing protein 2a catalytic domain complex with oxalylglycine, Fe+2 ion, Zn+2 ion (grey) and histone H3 peptide (aqua) with trimethyllysine (magenta) (PDB code 2p5b).

Drag the structure with the mouse to rotate

3D structures of jumonji domain-containing protein

Updated on 27-June-2017

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, 5pka, 5pk9, 5pk8, 5pk7, 5pk6, 5pk5, 5pk4, 5pk3, 5pk2, 5pk1, 5pk0, 5plj, 5pli, 5plh, 5plg – hJmjd2d catalytic domain + Zn

References

  1. ↑ Chen Z, Zang J, Whetstine J, Hong X, Davrazou F, Kutateladze TG, Simpson M, Mao Q, Pan CH, Dai S, Hagman J, Hansen K, Shi Y, Zhang G. Structural insights into histone demethylation by JMJD2 family members. Cell. 2006 May 19;125(4):691-702. Epub 2006 May 4. PMID:16677698 doi:http://dx.doi.org/10.1016/j.cell.2006.04.024
  2. ↑ Canovas S, Cibelli JB, Ross PJ. Jumonji domain-containing protein 3 regulates histone 3 lysine 27 methylation during bovine preimplantation development. Proc Natl Acad Sci U S A. 2012 Feb 14;109(7):2400-5. doi:, 10.1073/pnas.1119112109. Epub 2012 Jan 30. PMID:22308433 doi:http://dx.doi.org/10.1073/pnas.1119112109
  3. ↑ Lawrence P, Rai D, Conderino JS, Uddowla S, Rieder E. Role of Jumonji C-domain containing protein 6 (JMJD6) in infectivity of foot-and-mouth disease virus. Virology. 2016 Feb 18;492:38-52. doi: 10.1016/j.virol.2016.02.005. PMID:26896934 doi:http://dx.doi.org/10.1016/j.virol.2016.02.005
  4. ↑ Chen Z, Zang J, Kappler J, Hong X, Crawford F, Wang Q, Lan F, Jiang C, Whetstine J, Dai S, Hansen K, Shi Y, Zhang G. Structural basis of the recognition of a methylated histone tail by JMJD2A. Proc Natl Acad Sci U S A. 2007 Jun 26;104(26):10818-23. Epub 2007 Jun 13. PMID:17567753

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