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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Sterk, G.J."

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Search Summary

This query matches 23 Structures.

Refinements

Structure Determination Methodology

experimental (23)

Scientific Name of Source Organism

	Trypanosoma brucei (11)
	Homo sapiens (4)
	Acinetobacter baumannii 1419130 (3)
	Pseudomonas aeruginosa PAO1 (3)
	Escherichia coli K-12 (2)

Taxonomy

	Eukaryota (15)
	Bacteria (8)

Experimental Method

X-RAY DIFFRACTION (23)

Polymer Entity Type

Protein (23)

Refinement Resolution (Å)

	1.0 - 1.5 (2)
	1.5 - 2.0 (11)
	2.0 - 2.5 (10)

Release Date

	2015 - 2019 (15)
	2020 - 2024 (8)

Enzyme Classification Name

	Hydrolases (15)
	Isomerases (8)

Symmetry Type

Asymmetric (23)

SCOP Classification

All alpha proteins (14)

AllSelected

1 to 23 of 23 Structures

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5G2B \| pdb_00005g2b	Download File View File

Crystal structure of T. brucei PDE-B1 catalytic domain with inhibitor NPD-008

Singh, A.K., Anthonyrajah, E.S., Brown, D.G.

(2018) J Med Chem 61: 3870-3888

Released	2017-11-29
Method	X-RAY DIFFRACTION 1.83 Å
Organisms	Trypanosoma brucei
Macromolecule	CLASS 1 PHOSPHODIESTERASE PDEB1 (protein)
Unique Ligands	FMT, GAI, GOL, LQY, MG, ZN

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5G57 \| pdb_00005g57	Download File View File

Crystal structure of T. brucei PDE-B1 catalytic domain with inhibitor NPD-001

Singh, A.K., Brown, D.G.

(2018) J Med Chem 61: 3870-3888

Released	2017-11-29
Method	X-RAY DIFFRACTION 1.73 Å
Organisms	Trypanosoma brucei
Macromolecule	PHOSPHODIESTERASE B1 (protein)
Unique Ligands	6M5, FMT, GAI, GOL, MG, PEG, ZN

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5G5V \| pdb_00005g5v	Download File View File

Crystal structure of T. brucei PDE-B1 catalytic domain with inhibitor NPD-038

Singh, A.K., Brown, D.G.

(2018) J Med Chem 61: 3870-3888

Released	2018-03-14
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Trypanosoma brucei
Macromolecule	PHOSPHODIESTERASE B1 (protein)
Unique Ligands	8Z4, EDO, FMT, GAI, MG, ZN

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5L8C \| pdb_00005l8c	Download File View File

Crystal structure of T. brucei PDE-B1 catalytic domain with inhibitor NPD-039

Singh, A.K., Anthonyrajah, E.S., Brown, D.G.

(2018) J Med Chem 61: 3870-3888

Released	2018-03-14
Method	X-RAY DIFFRACTION 2.01 Å
Organisms	Trypanosoma brucei
Macromolecule	Phosphodiesterase (protein)
Unique Ligands	908, FMT, GAI, GOL, MG, PEG, ZN

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5L8Y \| pdb_00005l8y	Download File View File

Crystal structure of T. brucei PDE-B1 catalytic domain with inhibitor NPD-937

Singh, A.K., Anthonyrajah, E.S., Brown, D.G.

(2018) J Med Chem 61: 3870-3888

Released	2018-03-14
Method	X-RAY DIFFRACTION 2.14 Å
Organisms	Trypanosoma brucei
Macromolecule	Phosphodiesterase (protein)
Unique Ligands	CVA, FMT, GAI, GOL, MG, ZN

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5L9H \| pdb_00005l9h	Download File View File

Crystal structure of T. brucei PDE-B1 catalytic domain with inhibitor NPD-340

Singh, A.K., Brown, D.G.

(2018) J Med Chem 61: 3870-3888

Released	2018-03-14
Method	X-RAY DIFFRACTION 2.25 Å
Organisms	Trypanosoma brucei
Macromolecule	Phosphodiesterase (protein)
Unique Ligands	CVL, FMT, GOL, MG, ZN

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5LAQ \| pdb_00005laq	Download File View File

Crystal structure of human phosphodiesterase 4B catalytic domain with inhibitor NPD-001

Singh, A.K., Brown, D.G.

(2018) J Med Chem 61: 3870-3888

Released	2018-03-14
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	cAMP-specific 3',5'-cyclic phosphodiesterase 4B,cAMP-specific 3',5'-cyclic phosphodiesterase 4B (protein)
Unique Ligands	6M5, ACT, MG, ZN

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5LBO \| pdb_00005lbo	Download File View File

Crystal structure of human phosphodiesterase 4D2 catalytic domain with inhibitor NPD-001

Singh, A.K., Brown, D.G.

(2018) J Med Chem 61: 3870-3888

Released	2018-03-14
Method	X-RAY DIFFRACTION 2.25 Å
Organisms	Homo sapiens
Macromolecule	cAMP-specific 3',5'-cyclic phosphodiesterase 4D (protein)
Unique Ligands	6M5, DTT, EDO, EPE, MG, PEG, ZN

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6GXQ \| pdb_00006gxq	Download File View File

Crystal structure of T. brucei PDE-B1 catalytic domain with inhibitor NPD-1335

Singh, A.K., Brown, D.G.

(2019) Bioorg Med Chem 27: 4013-4029

Released	2019-07-10
Method	X-RAY DIFFRACTION 1.96 Å
Organisms	Trypanosoma brucei
Macromolecule	Phosphodiesterase (protein)
Unique Ligands	FFZ, GAI, GOL, MG, ZN

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6HWO \| pdb_00006hwo	Download File View File

Crystal structure of human phosphodiesterase 4D2 catalytic domain with inhibitor NPD-1335

Singh, A.K., Brown, D.G.

(2019) Bioorg Med Chem 27: 4013-4029

Released	2019-07-24
Method	X-RAY DIFFRACTION 1.99 Å
Organisms	Homo sapiens
Macromolecule	cAMP-specific 3',5'-cyclic phosphodiesterase 4D (protein)
Unique Ligands	DMS, EDO, EPE, FFZ, MG, PEG, ZN

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6RB6 \| pdb_00006rb6	Download File View File

Crystal structure of T. brucei PDE-B1 catalytic domain with inhibitor NPD-053

Singh, A.K., Brown, D.G.

(2019) Bioorg Med Chem 27: 4013-4029

Released	2019-07-24
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Trypanosoma brucei
Macromolecule	Phosphodiesterase (protein)
Unique Ligands	EDO, FMT, GAI, JX2, MG, ZN

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6RCW \| pdb_00006rcw	Download File View File

Crystal structure of human phosphodiesterase 4D2 catalytic domain with inhibitor NPD-053

Singh, A.K., Brown, D.G.

(2019) Bioorg Med Chem 27: 4013-4029

Released	2019-07-24
Method	X-RAY DIFFRACTION 2.08 Å
Organisms	Homo sapiens
Macromolecule	cAMP-specific 3',5'-cyclic phosphodiesterase 4D (protein)
Unique Ligands	DTT, EDO, EPE, JX2, MG, PEG, ZN

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6RFN \| pdb_00006rfn	Download File View File

Crystal structure of T. brucei PDE-B1 catalytic domain with inhibitor NPD-1018

Singh, A.K., Brown, D.G.

(2019) Bioorg Med Chem 27: 4013-4029

Released	2019-07-24
Method	X-RAY DIFFRACTION 2.29 Å
Organisms	Trypanosoma brucei
Macromolecule	Phosphodiesterase (protein)
Unique Ligands	FMT, GAI, GOL, K3W, MG, ZN

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6RFW \| pdb_00006rfw	Download File View File

Crystal structure of T. brucei PDE-B1 catalytic domain with inhibitor NPD-1039

Singh, A.K., Brown, D.G.

(2019) Bioorg Med Chem 27: 4013-4029

Released	2019-07-24
Method	X-RAY DIFFRACTION 2.183 Å
Organisms	Trypanosoma brucei
Macromolecule	Phosphodiesterase (protein)
Unique Ligands	FMT, GAI, GOL, K1Q, MG, ZN

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6RGK \| pdb_00006rgk	Download File View File

Crystal structure of T. brucei PDE-B1 catalytic domain with inhibitor NPD-055

Singh, A.K., Brown, D.G.

(2019) Bioorg Med Chem 27: 4013-4029

Released	2019-07-24
Method	X-RAY DIFFRACTION 2.03 Å
Organisms	Trypanosoma brucei
Macromolecule	Phosphodiesterase (protein)
Unique Ligands	FMT, GAI, GOL, K3N, MG, ZN

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7P2M \| pdb_00007p2m	Download File View File

E.coli GyrB24 with inhibitor LMD43 (EBL2560)

Stevenson, C.E.M., Lawson, D.M., Maxwell, A.M., Henderson, S.R., Kikelj, D., Durcik, M., Zega, A., Zidar, N., Ilas, J., Tomasic, T., Masic, L.P.

(2023) J Med Chem 66: 1380-1425

Released	2022-07-20
Method	X-RAY DIFFRACTION 1.16 Å
Organisms	Escherichia coli K-12
Macromolecule	DNA gyrase subunit B (protein)
Unique Ligands	N1N, PO4

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7P2W \| pdb_00007p2w	Download File View File

E.coli GyrB24 with inhibitor LMD92 (EBL2682)

Stevenson, C.E.M., Lawson, D.M., Maxwell, A.M., Henderson, S.R., Kikelj, D., Durcik, M., Zega, A., Zidar, N., Ilas, J., Tomasic, T., Masic, L.P.

(2023) J Med Chem 66: 1380-1425

Released	2022-07-20
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Escherichia coli K-12
Macromolecule	DNA gyrase subunit B (protein)
Unique Ligands	4QR, MG, TRS

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7PQI \| pdb_00007pqi	Download File View File

Acinetobacter baumannii DNA gyrase B 23kDa ATPase subdomain complexed with novobiocin

Cotman, A.E., Zega, A., Zidar, N., Ilas, J., Tomasic, T., Masic, L.P., Mundy, J.E.A., Stevenson, C.E.M., Burton, N., Lawson, D.M., Maxwell, A., Kikelj, D.

(2023) J Med Chem 66: 1380-1425

Released	2022-09-28
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Acinetobacter baumannii 1419130
Macromolecule	DNA gyrase subunit B (protein)
Unique Ligands	EDO, NOV

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7PQL \| pdb_00007pql	Download File View File

Acinetobacter baumannii DNA gyrase B 23kDa ATPase subdomain complexed with EBL2704

Cotman, A.E., Zega, A., Zidar, N., Ilas, J., Tomasic, T., Masic, L.P., Mundy, J.E.A., Stevenson, C.E.M., Burton, N., Lawson, D.M., Maxwell, A., Kikelj, D.

(2023) J Med Chem 66: 1380-1425

Released	2022-09-28
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Acinetobacter baumannii 1419130
Macromolecule	DNA gyrase subunit B (protein)
Unique Ligands	80S, 81N

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7PQM \| pdb_00007pqm	Download File View File

Acinetobacter baumannii DNA gyrase B 23kDa ATPase subdomain complexed with EBL2888

Cotman, A.E., Zega, A., Zidar, N., Ilas, J., Tomasic, T., Masic, L.P., Mundy, J.E.A., Stevenson, C.E.M., Burton, N., Lawson, D.M., Maxwell, A., Kikelj, D.

(2023) J Med Chem 66: 1380-1425

Released	2022-09-28
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Acinetobacter baumannii 1419130
Macromolecule	DNA gyrase subunit B (protein)
Unique Ligands	80S, CA

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7PTF \| pdb_00007ptf	Download File View File

Pseudomonas aeruginosa DNA gyrase B 24kDa ATPase subdomain complexed with novobiocin

Cotman, A.E., Zega, A., Zidar, N., Ilas, J., Tomasic, T., Masic, L.P., Mundy, J.E.A., Stevenson, C.E.M., Burton, N., Lawson, D.M., Maxwell, A., Kikelj, D.

(2023) J Med Chem 66: 1380-1425

Released	2022-10-05
Method	X-RAY DIFFRACTION 1.32 Å
Organisms	Pseudomonas aeruginosa PAO1
Macromolecule	DNA gyrase subunit B (protein)
Unique Ligands	MES, MRD, NOV