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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Patskovsky, Y."

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Search Summary

This query matches 20 Structures.

Refinements

Structure Determination Methodology

experimental (20)

Scientific Name of Source Organism

	Homo sapiens (15)
	Rhodospirillum rubrum (4)
	Rhodospirillum rubrum ATCC 11170 (1)

Taxonomy

	Eukaryota (15)
	Bacteria (5)

Experimental Method

X-RAY DIFFRACTION (20)

Polymer Entity Type

Protein (20)

Refinement Resolution (Å)

	1.5 - 2.0 (6)
	2.0 - 2.5 (9)
	2.5 - 3.0 (4)
	3.0 - 3.5 (1)

Release Date

	2010 - 2014 (12)
	2015 - 2019 (5)
	2020 - 2024 (3)

Enzyme Classification Name

	Transferases (10)
	Oxidoreductases (5)
	Hydrolases (2)

Symmetry Type

	Asymmetric (12)
	Dihedral (5)
	Cyclic (3)

SCOP Classification

	All alpha proteins (8)
	Artifacts (10)
	Alpha and beta proteins (a/b) (2)
	Alpha and beta proteins (a+b) (6)

AllSelected

1 to 20 of 20 Structures

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4CBT \| pdb_00004cbt	Download File View File

Design, synthesis, and biological evaluation of potent and selective Class IIa HDAC inhibitors as a potential therapy for Huntington's disease

Burli, R.W., Luckhurst, C.A., Aziz, O., Matthews, K.L., Yates, D., Lyons, K.A., Beconi, M., McAllister, G., Breccia, P., Stott, A.J., Penrose, S.D., Wall, M., Lamers, M., Leonard, P., Mueller, I., Richardson, C.M., Jarvis, R., Stones, L., Hughes, S., Wishart, G., Haughan, A.F., O'Connell, C., Mead, T., McNeil, H., Vann, J., Mangette, J., Maillard, M., Beaumont, V., Munoz-Sanjuan, I., Dominguez, C.

(2013) J Med Chem 56: 9934-9954

Released	2013-12-11
Method	X-RAY DIFFRACTION 3.03 Å
Organisms	Homo sapiens
Macromolecule	HISTONE DEACETYLASE 4 (protein)
Unique Ligands	9F4, ZN

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4CBY \| pdb_00004cby	Download File View File

Design, synthesis, and biological evaluation of potent and selective Class IIa HDAC inhibitors as a potential therapy for Huntington's disease

(2013) J Med Chem 56: 9934-9954

Released	2013-12-11
Method	X-RAY DIFFRACTION 2.72 Å
Organisms	Homo sapiens
Macromolecule	HISTONE DEACETYLASE 4 (protein)
Unique Ligands	KEE, NA, ZN

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4F99 \| pdb_00004f99	Download File View File

Human CDC7 kinase in complex with DBF4 and nucleotide

Hughes, S., Cherepanov, P.

(2012) Nat Struct Mol Biol 19: 1101-1107

Released	2012-10-31
Method	X-RAY DIFFRACTION 2.33 Å
Organisms	Homo sapiens
Macromolecule	Cell division cycle 7-related protein kinase (protein) Protein DBF4 homolog A (protein)
Unique Ligands	ADP, MG, ZN

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4F9A \| pdb_00004f9a	Download File View File

Human CDC7 kinase in complex with DBF4 and nucleotide

Hughes, S., Cherepanov, P.

(2012) Nat Struct Mol Biol 19: 1101-1107

Released	2012-10-31
Method	X-RAY DIFFRACTION 2.17 Å
Organisms	Homo sapiens
Macromolecule	Cell division cycle 7-related protein kinase (protein) Protein DBF4 homolog A (protein)
Unique Ligands	ADP, MG, ZN

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4F9B \| pdb_00004f9b	Download File View File

Human CDC7 kinase in complex with DBF4 and PHA767491

Hughes, S., Cherepanov, P.

(2012) Nat Struct Mol Biol 19: 1101-1107

Released	2012-10-31
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Homo sapiens
Macromolecule	Cell division cycle 7-related protein kinase (protein) Protein DBF4 homolog A (protein)
Unique Ligands	0SY, ZN

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4F9C \| pdb_00004f9c	Download File View File

Human CDC7 kinase in complex with DBF4 and XL413

Hughes, S., Cherepanov, P.

(2012) Nat Struct Mol Biol 19: 1101-1107

Released	2012-10-31
Method	X-RAY DIFFRACTION 2.08 Å
Organisms	Homo sapiens
Macromolecule	Cell division cycle 7-related protein kinase (protein) Protein DBF4 homolog A (protein)
Unique Ligands	0SX, ZN

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4M0Y \| pdb_00004m0y	Download File View File

Crystal structure of ITK in complex with compound 1 [4-(carbamoylamino)-1-(naphthalen-1-yl)-1H-pyrazole-3-carboxamide]

Han, S., Caspers, N.L.

(2014) Biochem J 460: 211-222

Released	2014-04-02
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Homo sapiens
Macromolecule	Tyrosine-protein kinase ITK/TSK (protein)
Unique Ligands	M0Y

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4M0Z \| pdb_00004m0z	Download File View File

Crystal structure of ITK in complex with compound 5 {4-(carbamoylamino)-1-(7-methoxynaphthalen-1-yl)-1H-pyrazole-3-carboxamide}

Han, S., Caspers, N.L.

(2014) Biochem J 460: 211-222

Released	2014-04-02
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens
Macromolecule	Tyrosine-protein kinase ITK/TSK (protein)
Unique Ligands	M0Z

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4M12 \| pdb_00004m12	Download File View File

Crystal structure of ITK in complex with compound 7 [4-(carbamoylamino)-1-(7-ethoxynaphthalen-1-yl)-1H-pyrazole-3-carboxamide]

Han, S., Caspers, N.L.

(2014) Biochem J 460: 211-222

Released	2014-04-02
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Homo sapiens
Macromolecule	Tyrosine-protein kinase ITK/TSK (protein)
Unique Ligands	1YZ

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4M13 \| pdb_00004m13	Download File View File

Crystal structure of ITK in complex with compound 8 [4-(carbamoylamino)-1-(7-propoxynaphthalen-1-yl)-1H-pyrazole-3-carboxamide]

Han, S., Caspers, N.L.

(2014) Biochem J 460: 211-222

Released	2014-04-02
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Homo sapiens
Macromolecule	Tyrosine-protein kinase ITK/TSK (protein)
Unique Ligands	1E0

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4M14 \| pdb_00004m14	Download File View File

Crystal structure of ITK in complex with compound 9 [4-(carbamoylamino)-1-[7-(propan-2-yloxy)naphthalen-1-yl]-1H-pyrazole-3-carboxamide]

Han, S., Caspers, N.L.

(2014) Biochem J 460: 211-222

Released	2014-04-02
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Homo sapiens
Macromolecule	Tyrosine-protein kinase ITK/TSK (protein)
Unique Ligands	QWS

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4M15 \| pdb_00004m15	Download File View File

Crystal structure of ITK in complex with compound 9 [4-(carbamoylamino)-1-[7-(propan-2-yloxy)naphthalen-1-yl]-1H-pyrazole-3-carboxamide] and ADP

Han, S., Caspers, N.L.

(2014) Biochem J 460: 211-222

Released	2014-04-02
Method	X-RAY DIFFRACTION 1.52 Å
Organisms	Homo sapiens
Macromolecule	Tyrosine-protein kinase ITK/TSK (protein)
Unique Ligands	ADP, QWS

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5DA5 \| pdb_00005da5	Download File View File

Crystal structure of Rhodospirillum rubrum Rru_A0973

He, D., Vanden Hehier, S., Georgiev, A., Altenbach, K., Tarrant, E., Mackay, C.L., Waldron, K.J., Clarke, D.J., Marles-Wright, J.

(2016) Elife 5:

Released	2016-08-10
Method	X-RAY DIFFRACTION 2.064 Å
Organisms	Rhodospirillum rubrum
Macromolecule	Rru_A0973 (protein)
Unique Ligands	CA, FE, GOA

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5L89 \| pdb_00005l89	Download File View File

Crystal structure of Rhodospirillum rubrum Rru_A0973 mutant E32A

He, D., Hughes, S., Vanden-Hehir, S., Georgiev, A., Altenbach, K., Tarrant, E., Mackay, C.L., Waldron, K.J., Clarke, D.J., Marles-Wright, J.

(2016) Elife 5:

Released	2016-08-31
Method	X-RAY DIFFRACTION 2.59 Å
Organisms	Rhodospirillum rubrum
Macromolecule	Rru_A0973 (protein)
Unique Ligands	CA

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5L8B \| pdb_00005l8b	Download File View File

Crystal structure of Rhodospirillum rubrum Rru_A0973 mutant E62A

He, D., Hughes, S., Vanden-Hehir, S., Georgiev, A., Altenbach, K., Tarrant, E., Mackay, C.L., Waldron, K.J., Clarke, D.J., Marles-Wright, J.

(2016) Elife 5:

Released	2016-08-31
Method	X-RAY DIFFRACTION 2.21 Å
Organisms	Rhodospirillum rubrum
Macromolecule	Uncharacterized protein (protein)
Unique Ligands	CA

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5L8F \| pdb_00005l8f	Download File View File

Crystal structure of Rhodospirillum rubrum Rru_A0973 mutant E32A, E62A, H65A.

He, D., Hughes, S., Vanden-Hehir, S., Georgiev, A., Altenbach, K., Tarrant, E., Mackay, C.L., Waldron, K.J., Clarke, D.J., Marles-Wright, J.

To be published

Released	2017-06-21
Method	X-RAY DIFFRACTION 2.247 Å
Organisms	Rhodospirillum rubrum ATCC 11170
Macromolecule	Rru_A0973 (protein)
Unique Ligands	MG, PGE

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5L8G \| pdb_00005l8g	Download File View File

Crystal structure of Rhodospirillum rubrum Rru_A0973 mutant H65A

He, D., Hughes, S., Vanden-Hehir, S., Georgiev, A., Altenbach, K., Tarrant, E., Mackay, C.L., Waldron, K.J., Clarke, D.J., Marles-Wright, J.

(2016) Elife 5:

Released	2016-08-31
Method	X-RAY DIFFRACTION 2.974 Å
Organisms	Rhodospirillum rubrum
Macromolecule	Uncharacterized protein (protein)
Unique Ligands	CA

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6ZOQ \| pdb_00006zoq	Download File View File

Oestrogen receptor ligand binding domain in complex with compound 16

Breed, J.

(2020) J Med Chem 63: 14530-14559

Released	2021-01-20
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens
Macromolecule	Estrogen receptor (protein)
Unique Ligands	QNE

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6ZOR \| pdb_00006zor	Download File View File

Oestrogen receptor ligand binding domain in complex with compound 28

Breed, J.

(2020) J Med Chem 63: 14530-14559

Released	2021-01-20
Method	X-RAY DIFFRACTION 1.97 Å
Organisms	Homo sapiens
Macromolecule	Estrogen receptor (protein)
Unique Ligands	QNH

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6ZOS \| pdb_00006zos	Download File View File

Oestrogen receptor ligand binding domain in complex with compound 18

Breed, J.

(2020) J Med Chem 63: 14530-14559

Released	2021-01-20
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens
Macromolecule	Estrogen receptor (protein)
Unique Ligands	QNK

1 to 20 of 20 Structures

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

4CBT | pdb_00004cbt

Design, synthesis, and biological evaluation of potent and selective Class IIa HDAC inhibitors as a potential therapy for Huntington's disease

4CBY | pdb_00004cby

Design, synthesis, and biological evaluation of potent and selective Class IIa HDAC inhibitors as a potential therapy for Huntington's disease

4F99 | pdb_00004f99

Human CDC7 kinase in complex with DBF4 and nucleotide

4F9A | pdb_00004f9a

Human CDC7 kinase in complex with DBF4 and nucleotide

4F9B | pdb_00004f9b

Human CDC7 kinase in complex with DBF4 and PHA767491

4F9C | pdb_00004f9c

Human CDC7 kinase in complex with DBF4 and XL413

4M0Y | pdb_00004m0y

Crystal structure of ITK in complex with compound 1 [4-(carbamoylamino)-1-(naphthalen-1-yl)-1H-pyrazole-3-carboxamide]

4M0Z | pdb_00004m0z

Crystal structure of ITK in complex with compound 5 {4-(carbamoylamino)-1-(7-methoxynaphthalen-1-yl)-1H-pyrazole-3-carboxamide}

4M12 | pdb_00004m12

Crystal structure of ITK in complex with compound 7 [4-(carbamoylamino)-1-(7-ethoxynaphthalen-1-yl)-1H-pyrazole-3-carboxamide]

4M13 | pdb_00004m13

Crystal structure of ITK in complex with compound 8 [4-(carbamoylamino)-1-(7-propoxynaphthalen-1-yl)-1H-pyrazole-3-carboxamide]

4M14 | pdb_00004m14

Crystal structure of ITK in complex with compound 9 [4-(carbamoylamino)-1-[7-(propan-2-yloxy)naphthalen-1-yl]-1H-pyrazole-3-carboxamide]

4M15 | pdb_00004m15

Crystal structure of ITK in complex with compound 9 [4-(carbamoylamino)-1-[7-(propan-2-yloxy)naphthalen-1-yl]-1H-pyrazole-3-carboxamide] and ADP

5DA5 | pdb_00005da5

Crystal structure of Rhodospirillum rubrum Rru_A0973

5L89 | pdb_00005l89

Crystal structure of Rhodospirillum rubrum Rru_A0973 mutant E32A

5L8B | pdb_00005l8b

Crystal structure of Rhodospirillum rubrum Rru_A0973 mutant E62A

5L8F | pdb_00005l8f

Crystal structure of Rhodospirillum rubrum Rru_A0973 mutant E32A, E62A, H65A.

5L8G | pdb_00005l8g

Crystal structure of Rhodospirillum rubrum Rru_A0973 mutant H65A

6ZOQ | pdb_00006zoq

Oestrogen receptor ligand binding domain in complex with compound 16

6ZOR | pdb_00006zor

Oestrogen receptor ligand binding domain in complex with compound 28

6ZOS | pdb_00006zos

Oestrogen receptor ligand binding domain in complex with compound 18

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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

4CBT | pdb_00004cbt

4CBY | pdb_00004cby

4F99 | pdb_00004f99

4F9A | pdb_00004f9a

4F9B | pdb_00004f9b

4F9C | pdb_00004f9c

4M0Y | pdb_00004m0y

4M0Z | pdb_00004m0z

4M12 | pdb_00004m12

4M13 | pdb_00004m13

4M14 | pdb_00004m14

4M15 | pdb_00004m15

5DA5 | pdb_00005da5

5L89 | pdb_00005l89

5L8B | pdb_00005l8b

5L8F | pdb_00005l8f

5L8G | pdb_00005l8g

6ZOQ | pdb_00006zoq

6ZOR | pdb_00006zor

6ZOS | pdb_00006zos