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234,440 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Arndt, J.W."

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Search Summary

This query matches 14 Structures.

Refinements

Structure Determination Methodology

experimental (14)

Scientific Name of Source Organism

	Mycobacterium tuberculosis (4)
	Streptomyces sp. (3)
	Trypanosoma brucei brucei TREU927 (3)
	Leishmania donovani (2)
	Mycobacterium tuberculosis H37Rv (2)
	Bos taurus (1)
	Escherichia coli (1)
	Leishmania tarentolae (1)
	Trypanosoma cruzi strain CL Brener (1)

Taxonomy

	Eukaryota (8)
	Bacteria (7)

Experimental Method

	X-RAY DIFFRACTION (10)
	ELECTRON MICROSCOPY (4)

Polymer Entity Type

	Protein (14)
	DNA (1)

Refinement Resolution (Å)

	1.0 - 1.5 (4)
	1.5 - 2.0 (2)
	2.5 - 3.0 (4)
	3.0 - 3.5 (3)
	3.5 - 4.0 (1)

Release Date

	2000 - 2004 (1)
	2010 - 2014 (4)
	2015 - 2019 (4)
	2020 - 2024 (5)

Enzyme Classification Name

	Hydrolases (4)
	Oxidoreductases (2)
	Isomerases (1)
	Transferases (1)

Symmetry Type

	Asymmetric (9)
	Cyclic (4)
	Dihedral (1)

SCOP Classification

	Low resolution protein structures (1)
	All alpha proteins (2)
	Alpha and beta proteins (a/b) (1)

AllSelected

1 to 14 of 14 Structures

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1DEQ \| pdb_00001deq	Download File View File

THE CRYSTAL STRUCTURE OF MODIFIED BOVINE FIBRINOGEN (AT ~4 ANGSTROM RESOLUTION)

Brown, J.H., Volkmann, N., Jun, G., Henschen-Edman, A.H., Cohen, C.

(2000) Proc Natl Acad Sci U S A 97: 85-90

Released	2000-02-02
Method	X-RAY DIFFRACTION 3.5 Å
Organisms	Bos taurus
Macromolecule	FIBRINOGEN (protein) FIBRINOGEN (ALPHA CHAIN) (protein) FIBRINOGEN (BETA CHAIN) (protein) FIBRINOGEN (GAMMA CHAIN) (protein)

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3WDB \| pdb_00003wdb	Download File View File

N-terminal domain of Mycobacterium tuberculosis ClpC1

Vasudevan, D., Noble, C.G.

(2013) J Biological Chem 288: 30883-30891

Released	2013-09-18
Method	X-RAY DIFFRACTION 1.37 Å
Organisms	Mycobacterium tuberculosis
Macromolecule	Probable ATP-dependent Clp protease ATP-binding subunit (protein)
Unique Ligands	FMT

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3WDC \| pdb_00003wdc	Download File View File

N-terminal domain of Mycobacterium tuberculosis ClpC1 bound to Cyclomarin A

Vasudevan, D., Noble, C.G.

(2013) J Biological Chem 288: 30883-30891

Released	2013-09-18
Method	X-RAY DIFFRACTION 1.18 Å
Organisms	Mycobacterium tuberculosis Streptomyces sp.
Macromolecule	Cyclomarin A (protein) Probable ATP-dependent Clp protease ATP-binding subunit (protein)
Unique Ligands	ACT

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3WDD \| pdb_00003wdd	Download File View File

Mutant N-terminal domain of Mycobacterium tuberculosis ClpC1, F2Y, bound to Cyclomarin A

Vasudevan, D., Noble, C.G.

(2013) J Biological Chem 288: 30883-30891

Released	2013-09-18
Method	X-RAY DIFFRACTION 1.18 Å
Organisms	Mycobacterium tuberculosis Streptomyces sp.
Macromolecule	Cyclomarin A (protein) Probable ATP-dependent Clp protease ATP-binding subunit (protein)
Unique Ligands	ACT

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3WDE \| pdb_00003wde	Download File View File

Mutant N-terminal domain of Mycobacterium tuberculosis ClpC1, F80Y, bound to Cyclomarin A

Vasudevan, D., Noble, C.G.

(2013) J Biological Chem 288: 30883-30891

Released	2013-09-18
Method	X-RAY DIFFRACTION 1.44 Å
Organisms	Mycobacterium tuberculosis Streptomyces sp.
Macromolecule	Cyclomarin A (protein) Probable ATP-dependent Clp protease ATP-binding subunit (protein)
Unique Ligands	ACT

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4R9R \| pdb_00004r9r	Download File View File

Mycobacterium tuberculosis InhA bound to NITD-564

Noble, C.G.

(2015) Sci Transl Med 7: 269ra3-269ra3

Released	2015-01-21
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	Enoyl-[acyl-carrier-protein] reductase [NADH] (protein)
Unique Ligands	3KX, NAD

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4R9S \| pdb_00004r9s	Download File View File

Mycobacterium tuberculosis InhA bound to NITD-916

Noble, C.G.

(2015) Sci Transl Med 7: 269ra3-269ra3

Released	2015-01-21
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	Enoyl-[acyl-carrier-protein] reductase [NADH] (protein)
Unique Ligands	3KY, NAD

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5H2Q \| pdb_00005h2q	Download File View File

Crystal structure of T brucei phosphodiesterase B2 bound to compound 13e

Noble, C.G.

To be published

Released	2017-11-01
Method	X-RAY DIFFRACTION 1.66 Å
Organisms	Trypanosoma brucei brucei TREU927
Macromolecule	Phosphodiesterase (protein)
Unique Ligands	LLI, MG, ZN

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5H2R \| pdb_00005h2r	Download File View File

Crystal structure of T brucei phosphodiesterase B2 bound to compound 15b

Noble, C.G.

To be published

Released	2017-11-01
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Trypanosoma brucei brucei TREU927
Macromolecule	Phosphodiesterase (protein)
Unique Ligands	LLN, MG, ZN

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6Q2A \| pdb_00006q2a	Download File View File

Trypanosoma brucei CLK1 kinase domain in complex with a covalent aminobenzimidazole inhibitor AB1

Ma, X., Ornelas, E.

(2020) Nat Microbiol 5: 1207-1216

Released	2020-06-17
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Trypanosoma brucei brucei TREU927
Macromolecule	Protein kinase, putative (protein)
Unique Ligands	5XH, SO4

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6TCZ \| pdb_00006tcz	Download File View File

Leishmania tarentolae proteasome 20S subunit complexed with LXE408

Srinivas, H.

(2020) J Med Chem 63: 10773-10781

Released	2020-08-26
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Leishmania donovani
Macromolecule	Unique protein chains: 14
Unique Ligands	N2E

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6TD5 \| pdb_00006td5	Download File View File

Leishmania tarentolae proteasome 20S subunit complexed with LXE408 and bortezomib

Srinivas, H.

(2020) J Med Chem 63: 10773-10781

Released	2020-08-26
Method	ELECTRON MICROSCOPY 3.2 Å
Organisms	Leishmania donovani
Macromolecule	Unique protein chains: 14
Unique Ligands	BO2, N2E

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7ZYJ \| pdb_00007zyj	Download File View File

Leishmania tarentolae proteasome 20S subunit in complex with compound 2

Srinivas, H.

(2022) J Med Chem 65: 11776-11787

Released	2022-09-28
Method	ELECTRON MICROSCOPY 2.7 Å
Organisms	Leishmania tarentolae
Macromolecule	Unique protein chains: 14
Unique Ligands	KFC

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8GCC \| pdb_00008gcc	Download File View File

T. cruzi topoisomerase II alpha bound to dsDNA and the covalent inhibitor CT1

Schenk, A., Deniston, C., Noeske, J.

(2023) Science 380: 1349-1356

Released	2023-07-12
Method	ELECTRON MICROSCOPY 2.94 Å
Organisms	Escherichia coli Trypanosoma cruzi strain CL Brener
Macromolecule	DNA topoisomerase 2 (protein) DNA (28-MER) (nucleic acid)
Unique Ligands	YWX

1 to 14 of 14 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.

1DEQ | pdb_00001deq

THE CRYSTAL STRUCTURE OF MODIFIED BOVINE FIBRINOGEN (AT ~4 ANGSTROM RESOLUTION)

3WDB | pdb_00003wdb

N-terminal domain of Mycobacterium tuberculosis ClpC1

3WDC | pdb_00003wdc

N-terminal domain of Mycobacterium tuberculosis ClpC1 bound to Cyclomarin A

3WDD | pdb_00003wdd

Mutant N-terminal domain of Mycobacterium tuberculosis ClpC1, F2Y, bound to Cyclomarin A

3WDE | pdb_00003wde

Mutant N-terminal domain of Mycobacterium tuberculosis ClpC1, F80Y, bound to Cyclomarin A

4R9R | pdb_00004r9r

Mycobacterium tuberculosis InhA bound to NITD-564

4R9S | pdb_00004r9s

Mycobacterium tuberculosis InhA bound to NITD-916

5H2Q | pdb_00005h2q

Crystal structure of T brucei phosphodiesterase B2 bound to compound 13e

5H2R | pdb_00005h2r

Crystal structure of T brucei phosphodiesterase B2 bound to compound 15b

6Q2A | pdb_00006q2a

Trypanosoma brucei CLK1 kinase domain in complex with a covalent aminobenzimidazole inhibitor AB1

6TCZ | pdb_00006tcz

Leishmania tarentolae proteasome 20S subunit complexed with LXE408

6TD5 | pdb_00006td5

Leishmania tarentolae proteasome 20S subunit complexed with LXE408 and bortezomib

7ZYJ | pdb_00007zyj

Leishmania tarentolae proteasome 20S subunit in complex with compound 2

8GCC | pdb_00008gcc

T. cruzi topoisomerase II alpha bound to dsDNA and the covalent inhibitor CT1

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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

1DEQ | pdb_00001deq

3WDB | pdb_00003wdb

3WDC | pdb_00003wdc

3WDD | pdb_00003wdd

3WDE | pdb_00003wde

4R9R | pdb_00004r9r

4R9S | pdb_00004r9s

5H2Q | pdb_00005h2q

5H2R | pdb_00005h2r

6Q2A | pdb_00006q2a

6TCZ | pdb_00006tcz

6TD5 | pdb_00006td5

7ZYJ | pdb_00007zyj

8GCC | pdb_00008gcc