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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Gene Name = "EIK95_05630"

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Search Summary

This query matches 39 Structures.

Refinements

Structure Determination Methodology

experimental (39)

Scientific Name of Source Organism

Homo sapiens (39)

Taxonomy

Eukaryota (39)

Experimental Method

	X-RAY DIFFRACTION (29)
	ELECTRON MICROSCOPY (10)

Polymer Entity Type

Protein (39)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (4)
	2.0 - 2.5 (3)
	2.5 - 3.0 (4)
	3.0 - 3.5 (15)
	3.5 - 4.0 (9)
	4.0 - 4.5 (2)
	> 4.5 (1)

Release Date

	2010 - 2014 (2)
	2015 - 2019 (9)
	2020 - 2024 (27)
	2025 - 2029 (1)

Enzyme Classification Name

	Hydrolases (2)
	Transferases (1)

Symmetry Type

	Asymmetric (37)
	Cyclic (2)

AllSelected

1 to 25 of 39 Structures

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4M91 \| pdb_00004m91	Download File View File

crystal structure of hN33/Tusc3-peptide 1

Mohorko, E., Owen, R.L., Malojcic, G., Brozzo, M.S., Aebi, M., Glockshuber, R.

(2014) Structure 22: 590-601

Released	2014-03-26
Method	X-RAY DIFFRACTION 1.1 Å
Organisms	Homo sapiens
Macromolecule	Protein cereblon (protein) Tumor suppressor candidate 3 (protein)

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4TZ4 \| pdb_00004tz4	Download File View File

Crystal Structure of Human Cereblon in Complex with DDB1 and Lenalidomide

Chamberlain, P.P., Pagarigan, B., Delker, S., Leon, B., Riley, M.

To be published

Released	2014-08-06
Method	X-RAY DIFFRACTION 3.01 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1 (protein) Protein cereblon (protein)
Unique Ligands	LVY, ZN

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5HXB \| pdb_00005hxb	Download File View File

Cereblon in complex with DDB1, CC-885, and GSPT1

Chamberlain, P.P., Matyskiela, M., Pagarigan, B.

(2016) Nature 535: 252-257

Released	2016-06-29
Method	X-RAY DIFFRACTION 3.6 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1 (protein) Eukaryotic peptide chain release factor GTP-binding subunit ERF3A (protein) Protein cereblon (protein)
Unique Ligands	85C, ZN

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5V3O \| pdb_00005v3o	Download File View File

Cereblon in complex with DDB1 and CC-220

Matyskiela, M., Pagarigan, B., Chamberlain, P.

(2018) J Med Chem 61: 535-542

Released	2017-05-03
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1 (protein) Protein cereblon (protein)
Unique Ligands	8W7, ZN

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6BN7 \| pdb_00006bn7	Download File View File

Crystal structure of DDB1-CRBN-BRD4(BD1) complex bound to dBET23 PROTAC.

Nowak, R.P., DeAngelo, S.L., Buckley, D., Bradner, J.E., Fischer, E.S.

(2018) Nat Chem Biol 14: 706-714

Released	2018-05-30
Method	X-RAY DIFFRACTION 3.501 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein) DNA damage-binding protein 1 (protein) Protein cereblon (protein)
Unique Ligands	RN3, ZN

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6BN8 \| pdb_00006bn8	Download File View File

Crystal structure of DDB1-CRBN-BRD4(BD1) complex bound to dBET55 PROTAC.

Nowak, R.P., DeAngelo, S.L., Buckley, D., Bradner, J.E., Fischer, E.S.

(2018) Nat Chem Biol 14: 706-714

Released	2018-06-06
Method	X-RAY DIFFRACTION 3.99003499985 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein) DNA damage-binding protein 1,DNA damage-binding protein 1 (protein) Protein cereblon (protein)
Unique Ligands	ZN

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6BN9 \| pdb_00006bn9	Download File View File

Crystal structure of DDB1-CRBN-BRD4(BD1) complex bound to dBET70 PROTAC

Nowak, R.P., DeAngelo, S.L., Buckley, D., Bradner, J.E., Fischer, E.S.

(2018) Nat Chem Biol 14: 706-714

Released	2018-05-30
Method	X-RAY DIFFRACTION 4.382 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein) DNA damage-binding protein 1,DNA damage-binding protein 1 (protein) Protein cereblon (protein)
Unique Ligands	ZN

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6BNB \| pdb_00006bnb	Download File View File

Crystal structure of DDB1-CRBN-BRD4(BD1) complex bound to dBET57 PROTAC

Nowak, R.P., DeAngelo, S.L., Buckley, D., Ishoey, M., He, Z., Zhang, T., Bradner, J.E., Fischer, E.S.

(2018) Nat Chem Biol 14: 706-714

Released	2018-05-30
Method	X-RAY DIFFRACTION 6.343 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein) DNA damage-binding protein 1 (protein) Protein cereblon (protein)
Unique Ligands	ZN

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6BOY \| pdb_00006boy	Download File View File

Crystal structure of DDB1-CRBN-BRD4(BD1) complex bound to dBET6 PROTAC.

Nowak, R.P., DeAngelo, S.L., Buckley, D., Bradner, J.E., Fischer, E.S.

(2018) Nat Chem Biol 14: 706-714

Released	2018-05-30
Method	X-RAY DIFFRACTION 3.33 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein) DNA damage-binding protein 1 (protein) Protein cereblon (protein)
Unique Ligands	RN6, ZN

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6H0F \| pdb_00006h0f	Download File View File

Structure of DDB1-CRBN-pomalidomide complex bound to IKZF1(ZF2)

Petzold, G., Bunker, R.D., Thoma, N.H.

(2018) Science 362: eaat0572

Released	2018-11-07
Method	X-RAY DIFFRACTION 3.25 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1,DNA damage-binding protein 1,DNA damage-binding protein 1,DNA damage-binding protein 1 (protein) DNA-binding protein Ikaros (protein) Protein cereblon (protein)
Unique Ligands	Y70, ZN

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6H0G \| pdb_00006h0g	Download File View File

Structure of the DDB1-CRBN-pomalidomide complex bound to ZNF692(ZF4)

Bunker, R.D., Petzold, G., Thoma, N.H.

(2018) Science 362:

Released	2018-11-07
Method	X-RAY DIFFRACTION 4.25 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1,DNA damage-binding protein 1,DNA damage-binding protein 1,DDB1 (DNA damage binding protein 1),DNA damage-binding protein 1,DNA damage-binding protein 1,DNA damage-binding protein 1 (protein) Protein cereblon (protein) Zinc finger protein 692 (protein)
Unique Ligands	Y70, ZN

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6UML \| pdb_00006uml	Download File View File

Structural Basis for Thalidomide Teratogenicity Revealed by the Cereblon-DDB1-SALL4-Pomalidomide Complex

Clayton, T.L., Matyskiela, M.E., Pagarigan, B.E., Tran, E.T., Chamberlain, P.P.

(2020) Nat Struct Mol Biol 27: 319-322

Released	2020-04-15
Method	X-RAY DIFFRACTION 3.58 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1 (protein) Protein cereblon (protein) Sal-like protein 4 (protein)
Unique Ligands	Y70, ZN

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6XK9 \| pdb_00006xk9	Download File View File

Cereblon in complex with DDB1, CC-90009, and GSPT1

Clayton, T.L., Tran, E.T., Zhu, J., Pagarigan, B.E., Matyskiela, M.E., Chamberlain, P.P.

(2021) Blood 137: 661-677

Released	2020-12-02
Method	X-RAY DIFFRACTION 3.64 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1 (protein) Eukaryotic peptide chain release factor GTP-binding subunit ERF3A (protein) Protein cereblon (protein)
Unique Ligands	V4M, ZN

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7BQU \| pdb_00007bqu	Download File View File

Cereblon in complex with SALL4 and (S)-thalidomide

Furihata, H., Miyauchi, Y., Asano, A., Tanokura, M., Miyakawa, T.

(2020) Nat Commun 11: 4578-4578

Released	2020-08-26
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Homo sapiens
Macromolecule	Protein cereblon (protein) Sal-like protein 4 (protein)
Unique Ligands	EF2, ZN

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7BQV \| pdb_00007bqv	Download File View File

Cereblon in complex with SALL4 and (S)-5-hydroxythalidomide

Furihata, H., Miyauchi, Y., Asano, A., Tanokura, M., Miyakawa, T.

(2020) Nat Commun 11: 4578-4578

Released	2020-08-26
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens
Macromolecule	Protein cereblon (protein) Sal-like protein 4 (protein)
Unique Ligands	F4U, SO4, ZN

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7LPS \| pdb_00007lps	Download File View File

Crystal structure of DDB1-CRBN-ALV1 complex bound to Helios (IKZF2 ZF2)

Nowak, R.P., Fischer, E.S.

(2021) Nat Chem Biol 17: 711-717

Released	2021-06-02
Method	X-RAY DIFFRACTION 3.78 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1 (protein) Protein cereblon (protein) Zinc finger protein Helios (protein)
Unique Ligands	RN9, ZN

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7U8F \| pdb_00007u8f	Download File View File

Ternary complex structure of Cereblon-DDB1 bound to IKZF2(ZF2) and the molecular glue DKY709

Ma, X., Ornelas, E., Clifton, M.C.

(2023) Cell Chem Biol 30: 235-247.e12

Released	2023-03-08
Method	X-RAY DIFFRACTION 3.15 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1 (protein) IKZF2 (protein) Protein cereblon (protein)
Unique Ligands	EPE, LWK, SO4, ZN

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8CVP \| pdb_00008cvp	Download File View File

Cereblon-DDB1 in the Apo form

Watson, E.R., Lander, G.C.

(2022) Science 378: 549-553

Released	2022-07-20
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1 (protein) Protein cereblon (protein)
Unique Ligands	ZN

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8D7U \| pdb_00008d7u	Download File View File

Cereblon~DDB1 bound to CC-92480 with DDB1 in the linear conformation

Watson, E.R., Lander, G.C.

(2022) Science 378: 549-553

Released	2022-07-20
Method	ELECTRON MICROSCOPY 3.1 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1 (protein) Protein cereblon (protein)
Unique Ligands	QFC, ZN

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8D7V \| pdb_00008d7v	Download File View File

Cereblon~DDB1 bound to CC-92480 with DDB1 in the twisted conformation

Watson, E.R., Lander, G.C.

(2022) Science 378: 549-553

Released	2022-07-20
Method	ELECTRON MICROSCOPY 3.2 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1 (protein) Protein cereblon (protein)
Unique Ligands	QFC, ZN

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8D7W \| pdb_00008d7w	Download File View File

Cereblon~DDB1 bound to CC-92480 with DDB1 in the hinged conformation

Watson, E.R., Lander, G.C.

(2022) Science 378: 549-553

Released	2022-07-20
Method	ELECTRON MICROSCOPY 3.1 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1 (protein) Protein cereblon (protein)
Unique Ligands	QFC, ZN

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8D7X \| pdb_00008d7x	Download File View File

Cereblon~DDB1 in the Apo form with DDB1 in the hinged conformation

Watson, E.R., Lander, G.C.

(2022) Science 378: 549-553

Released	2022-07-20
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1 (protein) Protein cereblon (protein)
Unique Ligands	ZN

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8D7Y \| pdb_00008d7y	Download File View File

Cereblon-DDB1 in the Apo form with DDB1 in the twisted conformation

Watson, E.R., Lander, G.C.

(2022) Science 378: 549-553

Released	2022-07-20
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1 (protein) Protein cereblon (protein)
Unique Ligands	ZN

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8D7Z \| pdb_00008d7z	Download File View File

Cereblon-DDB1 bound to CC-92480 and Ikaros ZF1-2-3

Watson, E.R., Lander, G.C.

(2022) Science 378: 549-553

Released	2022-07-20
Method	ELECTRON MICROSCOPY 3.1 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1 (protein) DNA-binding protein Ikaros (protein) Protein cereblon (protein)
Unique Ligands	QFC, ZN

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8D80 \| pdb_00008d80	Download File View File

Cereblon~DDB1 bound to Iberdomide and Ikaros ZF1-2-3

Watson, E.R., Lander, G.C.

(2022) Science 378: 549-553

Released	2022-07-20
Method	ELECTRON MICROSCOPY 3.6 Å
Organisms	Homo sapiens
Macromolecule	DNA damage-binding protein 1 (protein) DNA-binding protein Ikaros (protein) Protein cereblon (protein)
Unique Ligands	8W7, ZN

1 to 25 of 39 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

4M91 | pdb_00004m91

4TZ4 | pdb_00004tz4

5HXB | pdb_00005hxb

5V3O | pdb_00005v3o

6BN7 | pdb_00006bn7

6BN8 | pdb_00006bn8

6BN9 | pdb_00006bn9

6BNB | pdb_00006bnb

6BOY | pdb_00006boy

6H0F | pdb_00006h0f

6H0G | pdb_00006h0g

6UML | pdb_00006uml

6XK9 | pdb_00006xk9

7BQU | pdb_00007bqu

7BQV | pdb_00007bqv

7LPS | pdb_00007lps

7U8F | pdb_00007u8f

8CVP | pdb_00008cvp

8D7U | pdb_00008d7u

8D7V | pdb_00008d7v

8D7W | pdb_00008d7w

8D7X | pdb_00008d7x

8D7Y | pdb_00008d7y

8D7Z | pdb_00008d7z

8D80 | pdb_00008d80