RCSB PDB: Search

4C8D \| pdb_00004c8d	Download File View File

Crystal structure of JmjC domain of human histone 3 Lysine-specific demethylase 3B (KDM3B)

Vollmar, M., Johansson, C., Gileadi, C., Goubin, S., Szykowska, A., Krojer, T., Crawley, L., von Delft, F., Arrowsmith, C.H., Bountra, C., Edwards, A., Oppermann, U.

To be published

Released	2013-10-16
Method	X-RAY DIFFRACTION 2.18 Å
Organisms	Homo sapiens
Macromolecule	LYSINE-SPECIFIC DEMETHYLASE 3B (protein)
Unique Ligands	ACT, CL, GOL, MN, OGA

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4D6Q \| pdb_00004d6q	Download File View File

crystal structure of human JMJD2D in complex with 2,4-PDCA

Krojer, T., Vollmar, M., Bradley, A., Crawley, L., Szykowska, A., Burgess-Brown, N., Gileadi, C., Johansson, C., Oppermann, U., Bountra, C., Arrowsmith, C.H., Edwards, A., von Delft, F.

To be published

Released	2014-12-24
Method	X-RAY DIFFRACTION 1.292 Å
Organisms	Homo sapiens
Macromolecule	LYSINE-SPECIFIC DEMETHYLASE 4D (protein)
Unique Ligands	EDO, NI, PD2, SO4, ZN

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4D6R \| pdb_00004d6r	Download File View File

crystal structure of human JMJD2D in complex with N-OXALYLGLYCINE and bound o-toluenesulfonamide

Krojer, T., Vollmar, M., Bradley, A., Crawley, L., Szykowska, A., Burgess-Brown, N., Gileadi, C., Johansson, C., Oppermann, U., Bountra, C., Arrowsmith, C.H., Edwards, A., von Delft, F.

To be published

Released	2014-12-24
Method	X-RAY DIFFRACTION 1.398 Å
Organisms	Homo sapiens
Macromolecule	LYSINE-SPECIFIC DEMETHYLASE 4D (protein)
Unique Ligands	EDO, IEJ, NI, OGA, ZN

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4D6S \| pdb_00004d6s	Download File View File

crystal structure of human JMJD2D in complex with N-OXALYLGLYCINE and bound 5,6-Dimethylbenzimidazole

Krojer, T., Vollmar, M., Bradley, A., Crawley, L., Szykowska, A., Burgess-Brown, N., Gileadi, C., Johansson, C., Oppermann, U., Bountra, C., Arrowsmith, C.H., Edwards, A., von Delft, F.

To be published

Released	2014-12-24
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Homo sapiens
Macromolecule	LYSINE-SPECIFIC DEMETHYLASE 4D (protein)
Unique Ligands	DMD, DMS, EDO, NI, OGA, SO4, ZN

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4PTB \| pdb_00004ptb	Download File View File

Crystal structure of human SP100 PHD-Bromodomain in the free state

Tallant, C., Nunez-Alonso, G., Savitsky, P., Newman, J., Krojer, T., Szykowska, A., Burgess-Brown, N., Filippakopoulos, P., von Delft, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Knapp, S.

To be published

Released	2014-04-30
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Homo sapiens
Macromolecule	Nuclear autoantigen Sp-100 (protein)
Unique Ligands	EDO, MES, ZN

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4UF0 \| pdb_00004uf0	Download File View File

Crystal structure of JmjC domain of human histone demethylase UTY in complex with epitherapuetic compound 2-(((2-((2-(dimethylamino)ethyl) (ethyl)amino)-2-oxoethyl)amino)methyl)isonicotinic acid.

Srikannathasan, V., Johansson, C., Gileadi, C., Tobias, K., Kopec, J., von Delft, F., Arrowsmith, C.H., Bountra, C., Edwards, A., Oppermann, U.

(2016) Nat Chem Biol 12: 539

Released	2015-01-14
Method	X-RAY DIFFRACTION 1.78 Å
Organisms	Homo sapiens
Macromolecule	HISTONE DEMETHYLASE UTY (protein)
Unique Ligands	EDO, FE2, MMK, ZN

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4URA \| pdb_00004ura	Download File View File

Crystal structure of human JMJD2A in complex with compound 14a

Krojer, T., England, K.S., Vollmar, M., Crawley, L., Williams, E., Riesebos, E., Szykowska, A., Burgess-Brown, N., Oppermann, U., Brennan, P.E., Bountra, C., Arrowsmith, C.H., Edwards, A., von Delft, F.

(2014) Medchemcomm 5: 1879-1886

Released	2015-06-17
Method	X-RAY DIFFRACTION 2.23 Å
Organisms	Homo sapiens
Macromolecule	LYSINE-SPECIFIC DEMETHYLASE 4A (protein)
Unique Ligands	EDO, LEL, NI, SO4, ZN

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5A1F \| pdb_00005a1f	Download File View File

Crystal structure of the catalytic domain of PLU1 in complex with N-oxalylglycine.

Srikannathasan, V., Johansson, C., Strain-Damerell, C., Gileadi, C., Szykowska, A., Kupinska, K., Kopec, J., Krojer, T., Steuber, H., von Delft, F., Burgess-Brown, N.A., Arrowsmith, C.H., Bountra, C., Edwards, A.M., Oppermann, U.

(2016) Nat Chem Biol 12: 539

Released	2015-05-06
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	LYSINE-SPECIFIC DEMETHYLASE 5B, LYSINE-SPECIFIC DEMETHYLASE 5B (protein)
Unique Ligands	EDO, EPE, MN, OGA, PO4, ZN

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5A3N \| pdb_00005a3n	Download File View File

Crystal structure of human PLU-1 (JARID1B) in complex with KDOAM25a

Srikannathasan, V., Johansson, C., Gileadi, C., Nuzzi, A., Ruda, G.F., Kopec, J., von Delft, F., Arrowsmith, C.H., Bountra, C., Edwards, A., Brennan, P., Oppermann, U.

(2017) Cell Chem Biol 24: 371-380

Released	2015-07-08
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens
Macromolecule	LYSINE-SPECIFIC DEMETHYLASE 5B (protein)
Unique Ligands	DMS, EDO, EPE, LQT, MN, PO4, ZN

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5A3P \| pdb_00005a3p	Download File View File

Crystal structure of the catalytic domain of human PLU1 (JARID1B).

Nowak, R., Srikannathasan, V., Johansson, C., Gileadi, C., Tallant, C., Kupinska, K., Strain-Damerell, C., Szykowska, A., von Delft, F., Burgess-Brown, N.A., Arrowsmith, C.H., Bountra, C., Edwards, A.M., Oppermann, U.

(2016) Nat Chem Biol 12: 539

Released	2015-06-10
Method	X-RAY DIFFRACTION 2.008 Å
Organisms	Homo sapiens
Macromolecule	LYSINE-SPECIFIC DEMETHYLASE 5B (protein)
Unique Ligands	EDO, EPE, MN, ZN

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5A3T \| pdb_00005a3t	Download File View File

Crystal structure of human PLU-1 (JARID1B) in complex with KDM5-C49 (2-(((2-((2-(dimethylamino)ethyl)(ethyl)amino)-2-oxoethyl)amino)methyl) isonicotinic acid).

Srikannathasan, V., Johansson, C., Gileadi, C., Kopec, J., Strain-Damerell, C., Kupinska, K., BurgessBrown, N.A., von Delft, F., Arrowsmith, C.H., Bountra, C., Edwards, A.M., Oppermann, U.

(2016) Nat Chem Biol 12: 539

Released	2015-06-17
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Homo sapiens
Macromolecule	LYSINE-SPECIFIC DEMETHYLASE 5B (protein)
Unique Ligands	EDO, EPE, MMK, MN, NI, ZN

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5A3W \| pdb_00005a3w	Download File View File

Crystal structure of human PLU-1 (JARID1B) in complex with Pyridine-2, 6-dicarboxylic Acid (PDCA)

Srikannathasan, V., Johansson, C., Gileadi, C., Kopec, J., Strain-Damerell, C., Kupinska, K., Burgess-Brown, N.A., von Delft, F., Arrowsmith, C.H., Bountra, C., Edwards, A.M., Oppermann, U.

(2016) Nat Chem Biol 12: 539

Released	2015-06-17
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens
Macromolecule	LYSINE-SPECIFIC DEMETHYLASE 5B (protein)
Unique Ligands	EDO, EPE, MN, NA, PD2, PO4, ZN

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5F2S \| pdb_00005f2s	Download File View File

Crystal structure of human KDM4A in complex with compound 15

Le Bihan, Y.-V., Dempster, S., Westwood, I.M., van Montfort, R.L.M.

(2016) J Med Chem 59: 1388-1409

Released	2016-01-20
Method	X-RAY DIFFRACTION 2.08 Å
Organisms	Homo sapiens
Macromolecule	Lysine-specific demethylase 4A (protein)
Unique Ligands	5TZ, CL, DMS, EDO, ZN

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5F2W \| pdb_00005f2w	Download File View File

Crystal structure of human KDM4A in complex with compound 16

Le Bihan, Y.-V., Dempster, S., Westwood, I.M., van Montfort, R.L.M.

(2016) J Med Chem 59: 1388-1409

Released	2016-01-20
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Homo sapiens
Macromolecule	Lysine-specific demethylase 4A (protein)
Unique Ligands	5UP, DMS, EDO, ZN

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5F32 \| pdb_00005f32	Download File View File

Crystal structure of human KDM4A in complex with compound 40

Le Bihan, Y.-V., Dempster, S., Westwood, I.M., van Montfort, R.L.M.

(2016) J Med Chem 59: 1388-1409

Released	2016-01-20
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Homo sapiens
Macromolecule	Lysine-specific demethylase 4A (protein)
Unique Ligands	5V7, DMS, EDO, GOL, ZN

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5F37 \| pdb_00005f37	Download File View File

Crystal structure of human KDM4A in complex with compound 58

Le Bihan, Y.-V., Dempster, S., Westwood, I.M., van Montfort, R.L.M.

(2016) J Med Chem 59: 1388-1409

Released	2016-01-20
Method	X-RAY DIFFRACTION 2.22 Å
Organisms	Homo sapiens
Macromolecule	Lysine-specific demethylase 4A (protein)
Unique Ligands	DMS, EDO, N5J, ZN

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5F39 \| pdb_00005f39	Download File View File

Crystal structure of human KDM4A in complex with compound 37

Le Bihan, Y.-V., Dempster, S., Westwood, I.M., van Montfort, R.L.M.

(2016) J Med Chem 59: 1388-1409

Released	2016-01-20
Method	X-RAY DIFFRACTION 2.65 Å
Organisms	Homo sapiens
Macromolecule	Lysine-specific demethylase 4A (protein)
Unique Ligands	5UB, DMS, ZN

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5F3C \| pdb_00005f3c	Download File View File

Crystal structure of human KDM4A in complex with compound 52d

Le Bihan, Y.-V., Westwood, I.M., van Montfort, R.L.M.

(2016) J Med Chem 59: 1388-1409

Released	2016-01-20
Method	X-RAY DIFFRACTION 2.06 Å
Organisms	Homo sapiens
Macromolecule	Lysine-specific demethylase 4A (protein)
Unique Ligands	5U8, CL, DMS, GOL, ZN

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5F3E \| pdb_00005f3e	Download File View File

Crystal structure of human KDM4A in complex with compound 54a

Le Bihan, Y.-V., Westwood, I.M., van Montfort, R.L.M.

(2016) J Med Chem 59: 1388-1409

Released	2016-01-20
Method	X-RAY DIFFRACTION 2.16 Å
Organisms	Homo sapiens
Macromolecule	Lysine-specific demethylase 4A (protein)
Unique Ligands	5UO, DMS, GOL, ZN

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5F3G \| pdb_00005f3g	Download File View File

Crystal structure of human KDM4A in complex with compound 53a

Le Bihan, Y.-V., Westwood, I.M., van Montfort, R.L.M.

(2016) J Med Chem 59: 1388-1409

Released	2016-01-20
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Homo sapiens
Macromolecule	Lysine-specific demethylase 4A (protein)
Unique Ligands	5UL, CL, DMS, ZN

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5F3I \| pdb_00005f3i	Download File View File

Crystal structure of human KDM4A in complex with compound 54j

Le Bihan, Y.-V., Dempster, S., Westwood, I.M., van Montfort, R.L.M.

(2016) J Med Chem 59: 1388-1409

Released	2016-01-20
Method	X-RAY DIFFRACTION 2.24 Å
Organisms	Homo sapiens
Macromolecule	Lysine-specific demethylase 4A (protein)
Unique Ligands	5UJ, CL, DMS, GOL, ZN

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5F5A \| pdb_00005f5a	Download File View File

Crystal Structure of human JMJD2D complexed with KDOAM16

Krojer, T., Vollmar, M., Crawley, L., Bradley, A.R., Szykowska, A., Ruda, G.F., Yang, H., Burgess-Brown, N., Brennan, P., Bountra, C., Arrowsmith, C.H., Edwards, A., Oppermann, U., von Delft, F., Structural Genomics Consortium (SGC)

(2016) J Med Chem 59: 1388-1409

Released	2015-12-16
Method	X-RAY DIFFRACTION 1.41 Å
Organisms	Homo sapiens
Macromolecule	Lysine-specific demethylase 4D (protein)
Unique Ligands	5V0, EDO, NI, SO4, ZN

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5F5C \| pdb_00005f5c	Download File View File

Crystal Structure of human JMJD2D complexed with KDOPP7

Krojer, T., Vollmar, M., Crawley, L., Bradley, A.R., Szykowska, A., Ruda, G.F., Yang, H., Burgess-Brown, N., Brennan, P., Bountra, C., Arrowsmith, C.H., Edwards, A., Oppermann, U., von Delft, F., Structural Genomics Consortium (SGC)

(2016) J Med Chem 59: 1388-1409

Released	2015-12-30
Method	X-RAY DIFFRACTION 1.88 Å
Organisms	Homo sapiens
Macromolecule	Lysine-specific demethylase 4D (protein)
Unique Ligands	5V3, EDO, NI, SO4, ZN

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5F5I \| pdb_00005f5i	Download File View File

Crystal Structure of human JMJD2A complexed with KDOOA011340

Krojer, T., Vollmar, M., Crawley, L., Szykowska, A., Gileadi, C., Johansson, C., England, K., Yang, H., Burgess-Brown, N., Brennan, P., Bountra, C., Arrowsmith, C.H., Edwards, A., Oppermann, U., von Delft, F., Structural Genomics Consortium (SGC)

(2016) J Med Chem 59: 1388-1409

Released	2015-12-30
Method	X-RAY DIFFRACTION 2.63 Å
Organisms	Homo sapiens
Macromolecule	Lysine-specific demethylase 4A (protein)
Unique Ligands	5V1, NI, SO4, ZN

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5FPL \| pdb_00005fpl	Download File View File

Crystal structure of human JARID1B in complex with CCT363901

Srikannathasan, V., Yann-Vai, L.B., Nowak, R., Johansson, C., Gileadi, C., von Delft, F., Arrowsmith, C.H., Bountra, C., Edwards, A., Brennan, P., Huber, K., Oppermann, U.

(2016) J Med Chem 59: 1388

Released	2016-01-20
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Homo sapiens
Macromolecule	LYSINE-SPECIFIC DEMETHYLASE 5B, LYSINE-SPECIFIC DEMETHYLASE 5B (protein)
Unique Ligands	DMS, EDO, MN, QAY, ZN

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Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Symmetry Type

SCOP Classification

4C8D | pdb_00004c8d

4D6Q | pdb_00004d6q

4D6R | pdb_00004d6r

4D6S | pdb_00004d6s

4PTB | pdb_00004ptb

4UF0 | pdb_00004uf0

4URA | pdb_00004ura

5A1F | pdb_00005a1f

5A3N | pdb_00005a3n

5A3P | pdb_00005a3p

5A3T | pdb_00005a3t

5A3W | pdb_00005a3w

5F2S | pdb_00005f2s

5F2W | pdb_00005f2w

5F32 | pdb_00005f32

5F37 | pdb_00005f37

5F39 | pdb_00005f39

5F3C | pdb_00005f3c

5F3E | pdb_00005f3e

5F3G | pdb_00005f3g

5F3I | pdb_00005f3i

5F5A | pdb_00005f5a

5F5C | pdb_00005f5c

5F5I | pdb_00005f5i

5FPL | pdb_00005fpl