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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Griffiths, L.A."

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Search Summary

This query matches 18 Structures.

Refinements

Structure Determination Methodology

experimental (18)

Scientific Name of Source Organism

	Escherichia coli (8)
	Geobacter sulfurreducens (3)
	Staphylococcus aureus (3)
	Homo sapiens (2)
	Saccharomyces cerevisiae S288C (2)
	Escherichia coli K-12 (1)
	Klebsiella pneumoniae (1)

Taxonomy

	Bacteria (16)
	Eukaryota (2)

Experimental Method

	X-RAY DIFFRACTION (13)
	ELECTRON MICROSCOPY (5)

Polymer Entity Type

Protein (18)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (5)
	2.0 - 2.5 (5)
	2.5 - 3.0 (1)
	3.0 - 3.5 (2)
	3.5 - 4.0 (1)
	4.0 - 4.5 (3)

Release Date

	2015 - 2019 (3)
	2020 - 2024 (15)

Enzyme Classification Name

	Oxidoreductases (13)
	Transferases (2)

Symmetry Type

	Cyclic (9)
	Asymmetric (6)
	Helical (3)

SCOP Classification

Alpha and beta proteins (a/b) (3)

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1 to 18 of 18 Structures

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6ND2 \| pdb_00006nd2	Download File View File

Staphylococcus aureus Dihydrofolate Reductase complexed with NADPH and 6-ETHYL-5-[(3R)-3-[2-METHOXY-5-(PYRIDIN-4-YL)PHENYL]BUT-1-YN-1-YL]PYRIMIDINE-2,4-DIAMINE (UCP1063)

Reeve, S.M., Wright, D.L.

(2019) Drug Metab Dispos 47: 995-1003

Released	2019-09-25
Method	X-RAY DIFFRACTION 2.243 Å
Organisms	Staphylococcus aureus
Macromolecule	Dihydrofolate reductase (protein)
Unique Ligands	G8J, GOL, XNP

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6P9Z \| pdb_00006p9z	Download File View File

Staphylococcus aureus Dihydrofolate reductase in complex with NADPH and Methotrexate

Reeve, S.M., Wright, D.L.

(2019) ACS Infect Dis 5: 1896-1906

Released	2019-10-23
Method	X-RAY DIFFRACTION 1.86 Å
Organisms	Staphylococcus aureus
Macromolecule	Dihydrofolate reductase (protein)
Unique Ligands	GOL, MTX, NAP

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6PBO \| pdb_00006pbo	Download File View File

Staphylococcus aureus Dihydrofolate reductase in complex with NADPH and UCP1232

Reeve, S.M., Wright, D.L.

(2019) ACS Infect Dis 5: 1896-1906

Released	2019-10-23
Method	X-RAY DIFFRACTION 1.649 Å
Organisms	Staphylococcus aureus
Macromolecule	Dihydrofolate reductase (protein)
Unique Ligands	NAP, O71, XNP

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7MEX \| pdb_00007mex	Download File View File

Structure of yeast Ubr1 in complex with Ubc2 and N-degron

Pan, M., Zheng, Q., Wang, T., Liang, L., Yu, Y., Liu, L., Zhao, M.

(2021) Nature 600: 334-338

Released	2021-11-24
Method	ELECTRON MICROSCOPY 3.35 Å
Organisms	Homo sapiens Saccharomyces cerevisiae S288C
Macromolecule	E3 ubiquitin-protein ligase UBR1 (protein) N-degron (protein) Ubiquitin (protein) Ubiquitin-conjugating enzyme E2 2 (protein)
Unique Ligands	ZN

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7MEY \| pdb_00007mey	Download File View File

Structure of yeast Ubr1 in complex with Ubc2 and monoubiquitinated N-degron

Pan, M., Zheng, Q., Wang, T., Liang, L., Yu, Y., Liu, L., Zhao, M.

(2021) Nature 600: 334-338

Released	2021-11-24
Method	ELECTRON MICROSCOPY 3.67 Å
Organisms	Homo sapiens Saccharomyces cerevisiae S288C
Macromolecule	E3 ubiquitin-protein ligase UBR1 (protein) Monoubiquitinated N-degron (protein) Ubiquitin (protein) Ubiquitin-conjugating enzyme E2 2 (protein)
Unique Ligands	Z3V, ZN

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7MQP \| pdb_00007mqp	Download File View File

E. coli dihydrofolate reductase complexed with 4'-chloro-3'-(4-(2,4-diamino-6-ethylpyrimidin-5-yl)but-3-yn-2-yl)-[1,1'-biphenyl]-4-carboxamide (UCP1228)

Lombardo, M.N., Wright, D.L.

(2022) Commun Biol 5: 459-459

Released	2022-05-11
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Escherichia coli
Macromolecule	Dihydrofolate reductase (protein)
Unique Ligands	SO4, ZM4

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7MYL \| pdb_00007myl	Download File View File

Crystal structure of DfrA1 dihydrofolate reductase in complex with TRIMETHOPRIM

Erlandsen, H., Wright, D.

(2022) Commun Biol 5: 459-459

Released	2022-06-01
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Klebsiella pneumoniae
Macromolecule	Dihydrofolate reductase (protein)
Unique Ligands	TOP

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7MYM \| pdb_00007mym	Download File View File

Crystal structure of Escherichia coli dihydrofolate reductase in complex with TRIMETHOPRIM and NADPH

Erlandsen, H., Wright, D., Krucinska, J.

(2022) Commun Biol 5: 459-459

Released	2022-06-01
Method	X-RAY DIFFRACTION 3.04 Å
Organisms	Escherichia coli
Macromolecule	Dihydrofolate reductase (protein)
Unique Ligands	ARG, NAP, SO4, TOP

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7NAE \| pdb_00007nae	Download File View File

Crystal structure of Escherichia coli dihydrofolate reductase in complex with TRIMETHOPRIM

Estrada, A., Wright, D., Krucinska, J., Erlandsen, H.

(2022) Commun Biol 5: 459-459

Released	2022-06-29
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Escherichia coli K-12
Macromolecule	Dihydrofolate reductase (protein)
Unique Ligands	SO4, TOP

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7R6G \| pdb_00007r6g	Download File View File

Crystal structure of DfrA5 dihydrofolate reductase in complex with TRIMETHOPRIM and NADPH

Estrada, A., Wright, D., Krucinska, J., Erlandsen, H.

(2022) Commun Biol 5: 459-459

Released	2022-06-29
Method	X-RAY DIFFRACTION 2.61 Å
Organisms	Escherichia coli
Macromolecule	Dihydrofolate reductase type 5 (protein)
Unique Ligands	NDP, SO4, TOP

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7REB \| pdb_00007reb	Download File View File

E. coli dihydrofolate reductase complexed with 5-(3-(7-(4-(aminomethyl)phenyl)benzo[d][1,3]dioxol-5-yl)but-1-yn-1-yl)-6-ethylpyrimidine-2,4-diamine (UCP1223)

Lombardo, M.N., Wright, D.L.

(2022) Commun Biol 5: 459-459

Released	2022-07-27
Method	X-RAY DIFFRACTION 1.91 Å
Organisms	Escherichia coli
Macromolecule	Dihydrofolate reductase (protein)
Unique Ligands	560, SO4

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7REG \| pdb_00007reg	Download File View File

DfrA1 complexed with NADPH and 4'-chloro-3'-(4-(2,4-diamino-6-ethylpyrimidin-5-yl)but-3-yn-2-yl)-[1,1'-biphenyl]-4-carboxamide (UCP1228)

Lombardo, M.N., Wright, D.L.

(2022) Commun Biol 5: 459-459

Released	2022-07-27
Method	X-RAY DIFFRACTION 1.77 Å
Organisms	Escherichia coli
Macromolecule	Dihydrofolate reductase type 1 (protein)
Unique Ligands	4SI, CA, NAP

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7RGJ \| pdb_00007rgj	Download File View File

DfrA1 complexed with NADPH and 5-(3-(7-(4-(aminomethyl)phenyl)benzo[d][1,3]dioxol-5-yl)but-1-yn-1-yl)-6-ethylpyrimidine-2,4-diamine (UCP1223)

Lombardo, M.N., Wright, D.L.

(2022) Commun Biol 5: 459-459

Released	2022-05-25
Method	X-RAY DIFFRACTION 1.44 Å
Organisms	Escherichia coli
Macromolecule	Dihydrofolate reductase type 1 (protein)
Unique Ligands	560, 8MU, CA, NAP

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7RGK \| pdb_00007rgk	Download File View File

DfrA5 complexed with NADPH and 5-(3-(7-(4-(aminomethyl)phenyl)benzo[d][1,3]dioxol-5-yl)but-1-yn-1-yl)-6-ethylpyrimidine-2,4-diamine (UCP1223)

Lombardo, M.N., Wright, D.L.

(2022) Commun Biol 5: 459-459

Released	2022-05-25
Method	X-RAY DIFFRACTION 2.19 Å
Organisms	Escherichia coli
Macromolecule	Dihydrofolate reductase type 5 (protein)
Unique Ligands	560, NAP, SO4

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7RGO \| pdb_00007rgo	Download File View File

DfrA5 complexed with NADPH and 4'-chloro-3'-(4-(2,4-diamino-6-ethylpyrimidin-5-yl)but-3-yn-2-yl)-[1,1'-biphenyl]-4-carboxamide (UCP1228)

Lombardo, M.N., Wright, D.L.

(2022) Commun Biol 5: 459-459

Released	2022-05-25
Method	X-RAY DIFFRACTION 1.92 Å
Organisms	Escherichia coli
Macromolecule	Dihydrofolate reductase type 5 (protein)
Unique Ligands	4SI, GOL, NAP, SO4

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7TFS \| pdb_00007tfs	Download File View File

Cryo-EM of the OmcE nanowires from Geobacter sulfurreducens

Wang, F., Mustafa, K., Chan, C.H., Joshi, K., Hochbaum, A.I., Bond, D.R., Egelman, E.H.

(2022) Nat Microbiol 7: 1291-1300

Released	2022-05-04
Method	ELECTRON MICROSCOPY 4.3 Å
Organisms	Geobacter sulfurreducens
Macromolecule	Cytochrome c (protein)
Unique Ligands	HEC

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7TGG \| pdb_00007tgg	Download File View File

Cryo-EM structure of PilA-N and PilA-C from Geobacter sulfurreducens

Wang, F., Mustafa, K., Chan, C.H., Joshi, K., Bond, D.R., Hochbaum, A.I., Egelman, E.H.

(2022) Nat Microbiol 7: 1291-1300

Released	2022-02-23
Method	ELECTRON MICROSCOPY 4.1 Å
Organisms	Geobacter sulfurreducens
Macromolecule	Geopilin domain 1 protein (protein) Geopilin domain 2 protein (protein)

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8D9M \| pdb_00008d9m	Download File View File

Cryo-EM of the OmcZ nanowires from Geobacter sulfurreducens

Wang, F., Chan, C.H., Mustafa, K., Hochbaum, A.I., Bond, D.R., Egelman, E.H.

(2022) Elife 11:

Released	2022-09-14
Method	ELECTRON MICROSCOPY 4.2 Å
Organisms	Geobacter sulfurreducens
Macromolecule	Cytochrome c (protein)
Unique Ligands	HEC

1 to 18 of 18 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.

6ND2 | pdb_00006nd2

Staphylococcus aureus Dihydrofolate Reductase complexed with NADPH and 6-ETHYL-5-[(3R)-3-[2-METHOXY-5-(PYRIDIN-4-YL)PHENYL]BUT-1-YN-1-YL]PYRIMIDINE-2,4-DIAMINE (UCP1063)

6P9Z | pdb_00006p9z

Staphylococcus aureus Dihydrofolate reductase in complex with NADPH and Methotrexate

6PBO | pdb_00006pbo

Staphylococcus aureus Dihydrofolate reductase in complex with NADPH and UCP1232

7MEX | pdb_00007mex

Structure of yeast Ubr1 in complex with Ubc2 and N-degron

7MEY | pdb_00007mey

Structure of yeast Ubr1 in complex with Ubc2 and monoubiquitinated N-degron

7MQP | pdb_00007mqp

E. coli dihydrofolate reductase complexed with 4'-chloro-3'-(4-(2,4-diamino-6-ethylpyrimidin-5-yl)but-3-yn-2-yl)-[1,1'-biphenyl]-4-carboxamide (UCP1228)

7MYL | pdb_00007myl

Crystal structure of DfrA1 dihydrofolate reductase in complex with TRIMETHOPRIM

7MYM | pdb_00007mym

Crystal structure of Escherichia coli dihydrofolate reductase in complex with TRIMETHOPRIM and NADPH

7NAE | pdb_00007nae

Crystal structure of Escherichia coli dihydrofolate reductase in complex with TRIMETHOPRIM

7R6G | pdb_00007r6g

Crystal structure of DfrA5 dihydrofolate reductase in complex with TRIMETHOPRIM and NADPH

7REB | pdb_00007reb

E. coli dihydrofolate reductase complexed with 5-(3-(7-(4-(aminomethyl)phenyl)benzo[d][1,3]dioxol-5-yl)but-1-yn-1-yl)-6-ethylpyrimidine-2,4-diamine (UCP1223)

7REG | pdb_00007reg

DfrA1 complexed with NADPH and 4'-chloro-3'-(4-(2,4-diamino-6-ethylpyrimidin-5-yl)but-3-yn-2-yl)-[1,1'-biphenyl]-4-carboxamide (UCP1228)

7RGJ | pdb_00007rgj

DfrA1 complexed with NADPH and 5-(3-(7-(4-(aminomethyl)phenyl)benzo[d][1,3]dioxol-5-yl)but-1-yn-1-yl)-6-ethylpyrimidine-2,4-diamine (UCP1223)

7RGK | pdb_00007rgk

DfrA5 complexed with NADPH and 5-(3-(7-(4-(aminomethyl)phenyl)benzo[d][1,3]dioxol-5-yl)but-1-yn-1-yl)-6-ethylpyrimidine-2,4-diamine (UCP1223)

7RGO | pdb_00007rgo

DfrA5 complexed with NADPH and 4'-chloro-3'-(4-(2,4-diamino-6-ethylpyrimidin-5-yl)but-3-yn-2-yl)-[1,1'-biphenyl]-4-carboxamide (UCP1228)

7TFS | pdb_00007tfs

Cryo-EM of the OmcE nanowires from Geobacter sulfurreducens

7TGG | pdb_00007tgg

Cryo-EM structure of PilA-N and PilA-C from Geobacter sulfurreducens

8D9M | pdb_00008d9m

Cryo-EM of the OmcZ nanowires from Geobacter sulfurreducens

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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

6ND2 | pdb_00006nd2

6P9Z | pdb_00006p9z

6PBO | pdb_00006pbo

7MEX | pdb_00007mex

7MEY | pdb_00007mey

7MQP | pdb_00007mqp

7MYL | pdb_00007myl

7MYM | pdb_00007mym

7NAE | pdb_00007nae

7R6G | pdb_00007r6g

7REB | pdb_00007reb

7REG | pdb_00007reg

7RGJ | pdb_00007rgj

7RGK | pdb_00007rgk

7RGO | pdb_00007rgo

7TFS | pdb_00007tfs

7TGG | pdb_00007tgg

8D9M | pdb_00008d9m