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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Keywords HAS EXACT PHRASE "GENE REGULATION/INHIBITOR"

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Search Summary

This query matches 40 Structures.

Refinements

Structure Determination Methodology

experimental (40)

Scientific Name of Source Organism

	Homo sapiens (40)
	Mus musculus (1)

Taxonomy

Eukaryota (40)

Experimental Method

X-RAY DIFFRACTION (40)

Polymer Entity Type

Protein (40)

Refinement Resolution (Å)

	1.0 - 1.5 (16)
	1.5 - 2.0 (15)
	2.0 - 2.5 (6)
	2.5 - 3.0 (2)
	3.0 - 3.5 (1)

Release Date

	2015 - 2019 (7)
	2020 - 2024 (33)

Enzyme Classification Name

Transferases (3)

Symmetry Type

	Asymmetric (38)
	Cyclic (2)

SCOP Classification

	All alpha proteins (14)
	Artifacts (10)
	All beta proteins (4)

AllSelected

1 to 25 of 40 Structures

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6CKR \| pdb_00006ckr	Download File View File

Crystal Structure of BRD4 with QC4956

Hosfield, D.J.

(2018) Bioorg Med Chem Lett 28: 1811-1816

Released	2018-05-02
Method	X-RAY DIFFRACTION 1.62 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	F5V

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6CKS \| pdb_00006cks	Download File View File

Crystal Structure of BRD4 with QC4956

Hosfield, D.J.

(2018) Bioorg Med Chem Lett 28: 1811-1816

Released	2018-05-02
Method	X-RAY DIFFRACTION 1.72 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	F5Y

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6E1Y \| pdb_00006e1y	Download File View File

Discovery of Potent 2-Aryl-6,7-Dihydro-5HPyrrolo[ 1,2-a]imidazoles as WDR5 WIN-site Inhibitors Using Fragment-Based Methods and Structure-Based Design

Phan, J., Fesik, S.W.

(2019) Cell Rep 26: 2916-2928.e13

Released	2019-03-13
Method	X-RAY DIFFRACTION 1.219 Å
Organisms	Homo sapiens
Macromolecule	WD repeat-containing protein 5 (protein)
Unique Ligands	HLM

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6E1Z \| pdb_00006e1z	Download File View File

Displacement of WDR5 from chromatin by a pharmacological WIN site inhibitor with picomolar affinity

Phan, J., Fesik, S.W.

(2019) Cell Rep 26: 2916-2928.e13

Released	2019-03-13
Method	X-RAY DIFFRACTION 1.1 Å
Organisms	Homo sapiens
Macromolecule	WD repeat-containing protein 5 (protein)
Unique Ligands	HLP

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6E22 \| pdb_00006e22	Download File View File

Displacement of WDR5 from chromatin by a pharmacological WIN site inhibitor with picomolar affinity

Phan, J., Fesik, S.W.

(2019) Cell Rep 26: 2916-2928.e13

Released	2019-03-13
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Homo sapiens
Macromolecule	WD repeat-containing protein 5 (protein)
Unique Ligands	HLS, SO4

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6E23 \| pdb_00006e23	Download File View File

Displacement of WDR5 from chromatin by a pharmacological WIN site inhibitor with picomolar affinity

Phan, J., Fesik, S.W.

(2019) Cell Rep 26: 2916-2928.e13

Released	2019-03-13
Method	X-RAY DIFFRACTION 1.66 Å
Organisms	Homo sapiens
Macromolecule	WD repeat-containing protein 5 (protein)
Unique Ligands	EPE, HLJ

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6NM4 \| pdb_00006nm4	Download File View File

Crystal structure of SAM-bound PRDM9 in complex with MRK-740 inhibitor

Ivanochko, D., Halabelian, L., Fischer, C., Sanders, J.M., Kattar, S.D., Brown, P.J., Edwards, A.M., Bountra, C., Arrowsmith, C.H., Structural Genomics Consortium (SGC)

(2019) Nat Commun 10: 5759-5759

Released	2019-02-13
Method	X-RAY DIFFRACTION 2.58 Å
Organisms	Homo sapiens
Macromolecule	Histone-lysine N-methyltransferase PRDM9 (protein)
Unique Ligands	KS7, SAM, UNX, ZN

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6UFX \| pdb_00006ufx	Download File View File

WD repeat-containing protein 5 complexed with N-[(3,5-dimethoxyphenyl)methyl]-4'-fluoro-5-{[(2E)-2-imino-3-methyl-2,3-dihydro-1H-imidazol-1-yl]methyl}-2'-methyl[1,1'-biphenyl]-3-carboxamide (compound 13)

Rietz, T.A., Fesik, S.W., Zhao, B.

(2020) J Med Chem 63: 656-675

Released	2020-01-01
Method	X-RAY DIFFRACTION 2.015 Å
Organisms	Homo sapiens
Macromolecule	WD repeat-containing protein 5 (protein)
Unique Ligands	Q6S

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6UVJ \| pdb_00006uvj	Download File View File

Cocrystal of BRD4(D1) with a methyl carbamate thiazepane inhibitor

Johnson, J.A., Pomerantz, W.C.K.

(2019) ACS Med Chem Lett 10: 1648-1654

Released	2020-01-01
Method	X-RAY DIFFRACTION 1.38 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	DMS, EDO, QJ1

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6UVM \| pdb_00006uvm	Download File View File

Cocrystal of BRD4(D1) with a methyl carbamate thiazepane inhibitor

Johnson, J.A., Pomerantz, W.C.K.

(2019) ACS Med Chem Lett 10: 1648-1654

Released	2020-01-01
Method	X-RAY DIFFRACTION 1.51 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	EDO, QJA

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6UWX \| pdb_00006uwx	Download File View File

Cocrystal of BRD4(D1) with a ethyl carbamate thiazepane inhibitor

Johnson, J.A., Pomerantz, W.C.K.

(2019) ACS Med Chem Lett 10: 1648-1654

Released	2020-01-01
Method	X-RAY DIFFRACTION 1.307 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	EDO, QKD

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6WGX \| pdb_00006wgx	Download File View File

Cocrystal of BRD4(D1) with a selective inhibitor

Johnson, J.A., Cui, H., Shi, K., Aihara, H., Pomerantz, W.C.K.

(2021) Angew Chem Int Ed Engl 60: 1220-1226

Released	2020-10-07
Method	X-RAY DIFFRACTION 1.53 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	EDO, U0D

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6WVX \| pdb_00006wvx	Download File View File

Crystal structure of the first bromodomain of human BRD4 with benzodiazepine inhibitor

Eron, S.J.

(2021) ACS Chem Biol 16: 2228-2243

Released	2021-09-01
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	UDV

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7C9N \| pdb_00007c9n	Download File View File

Crystal structure of SETDB1 tudor domain in complexed with Compound 1.

Guo, Y., Xiong, L., Mao, X., Yang, S.

(2021) Angew Chem Int Ed Engl 60: 8760-8765

Released	2021-04-07
Method	X-RAY DIFFRACTION 2.472 Å
Organisms	Homo sapiens
Macromolecule	Histone-lysine N-methyltransferase SETDB1 (protein)
Unique Ligands	FN9

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7LAK \| pdb_00007lak	Download File View File

Crystal structure of the first bromodomain (BD1) of human BRD2 bound to volasertib

Karim, M.R., Bikowitz, M., Chan, A., Schonbrunn, E.

(2021) J Med Chem 64: 15772-15786

Released	2021-07-14
Method	X-RAY DIFFRACTION 1.831 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 2 (protein)
Unique Ligands	IBI

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7LAY \| pdb_00007lay	Download File View File

Crystal structure of the first bromodomain (BD1) of human BRD3 bound to SG3-179

Karim, M.R., Bikowitz, M.J., Schonbrunn, E.

(2021) J Med Chem 64: 15772-15786

Released	2021-07-14
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 3 (protein)
Unique Ligands	5W2, DMS, EDO

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7LAZ \| pdb_00007laz	Download File View File

Crystal structure of the first bromodomain (BD1) of human BRD3 bound to ERK5-IN-1

Karim, M.R., Bikowitz, M.J., Schonbrunn, E.

(2021) J Med Chem 64: 15772-15786

Released	2021-07-14
Method	X-RAY DIFFRACTION 2.302 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 3 (protein)
Unique Ligands	VYJ

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7LB4 \| pdb_00007lb4	Download File View File

Crystal structure of the second bromodomain (BD2) of human BRD3 bound to bromosporine

Karim, M.R., Bikowitz, M.J., Schonbrunn, E.

(2021) J Med Chem 64: 15772-15786

Released	2021-07-14
Method	X-RAY DIFFRACTION 2.004 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 3 (protein)
Unique Ligands	BMF

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7LBT \| pdb_00007lbt	Download File View File

Crystal structure of the second bromodomain (BD2) of human BRD3 bound to ERK5-IN-1

Karim, M.R., Bikowitz, M.J., Schonbrunn, E.

(2021) J Med Chem 64: 15772-15786

Released	2021-07-14
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 3 (protein)
Unique Ligands	VYJ

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7LP0 \| pdb_00007lp0	Download File View File

Crystal structure of BPTF bromodomain in complex with inhibitor Pdy-3-077

Chan, A., Schonbrunn, E.

(2021) J Med Chem 64: 13902-13917

Released	2022-08-10
Method	X-RAY DIFFRACTION 1.66 Å
Organisms	Homo sapiens
Macromolecule	Nucleosome-remodeling factor subunit BPTF (protein)
Unique Ligands	DMS, EDO, P2L

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7LPK \| pdb_00007lpk	Download File View File

Crystal structure of BPTF bromodomain in complex with inhibitor HZ-03-112

Chan, A., Schonbrunn, E.

(2021) J Med Chem 64: 13902-13917

Released	2022-08-10
Method	X-RAY DIFFRACTION 1.39 Å
Organisms	Homo sapiens
Macromolecule	Nucleosome-remodeling factor subunit BPTF (protein)
Unique Ligands	EDO, Y9P

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7LRK \| pdb_00007lrk	Download File View File

Crystal structure of BPTF bromodomain in complex with inhibitor Pdy-3-093

Chan, A., Schonbrunn, E.

(2021) J Med Chem 64: 13902-13917

Released	2022-08-10
Method	X-RAY DIFFRACTION 1.44 Å
Organisms	Homo sapiens
Macromolecule	Nucleosome-remodeling factor subunit BPTF (protein)
Unique Ligands	EDO, YC4

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7LRO \| pdb_00007lro	Download File View File

Crystal structure of BPTF bromodomain in complex with inhibitor HZ-01-105

Chan, A., Schonbrunn, E.

(2021) J Med Chem 64: 13902-13917

Released	2022-08-10
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Homo sapiens
Macromolecule	Nucleosome-remodeling factor subunit BPTF (protein)
Unique Ligands	DMS, EDO, YBV

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7MLQ \| pdb_00007mlq	Download File View File

X-ray crystal structure of human BRD4(D1) in complex with 2-(4-{5-[6-(2,5-dibromophenoxy)pyridin-2-yl]-4-methyl-1H-1,2,3-triazol-1-yl}piperidin-1-yl)-N,N-dimethylethan-1-amine (compound 26)

Cui, H., Johnson, J.A., Vail, N.R., Shi, K., Aihara, H., Pomerantz, W.C.K.

(2021) J Med Chem 64: 10497-10511

Released	2021-07-28
Method	X-RAY DIFFRACTION 1.32 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	CL, EDO, ZHV

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7MLR \| pdb_00007mlr	Download File View File

X-ray crystal structure of human BRD4(D1) in complex with 2-(4-{5-[6-(3,5-dimethylphenoxy)pyridin-2-yl]-4-methyl-1H-1,2,3-triazol-1- yl}piperidin-1-yl)-N,N-dimethylethan-1-amine (DW34)

Cui, H., Shi, K., Aihara, H., Pomerantz, W.C.K.

(2021) J Med Chem 64: 10497-10511

Released	2021-07-28
Method	X-RAY DIFFRACTION 1.2 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	EDO, NA, ZHS

1 to 25 of 40 Structures

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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

6CKR | pdb_00006ckr

6CKS | pdb_00006cks

6E1Y | pdb_00006e1y

6E1Z | pdb_00006e1z

6E22 | pdb_00006e22

6E23 | pdb_00006e23

6NM4 | pdb_00006nm4

6UFX | pdb_00006ufx

6UVJ | pdb_00006uvj

6UVM | pdb_00006uvm

6UWX | pdb_00006uwx

6WGX | pdb_00006wgx

6WVX | pdb_00006wvx

7C9N | pdb_00007c9n

7LAK | pdb_00007lak

7LAY | pdb_00007lay

7LAZ | pdb_00007laz

7LB4 | pdb_00007lb4

7LBT | pdb_00007lbt

7LP0 | pdb_00007lp0

7LPK | pdb_00007lpk

7LRK | pdb_00007lrk

7LRO | pdb_00007lro

7MLQ | pdb_00007mlq

7MLR | pdb_00007mlr