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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Freimuth, P."

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Search Summary

This query matches 39 Structures.

Refinements

Structure Determination Methodology

experimental (39)

Scientific Name of Source Organism

	Homo sapiens (19)
	Escherichia coli K-12 (13)
	Bos taurus (6)
	synthetic construct (6)
	Saccharomyces cerevisiae S288C (4)
	Escherichia coli (3)
	Leishmania infantum (2)
	unidentified (2)
	Saccharomyces cerevisiae (1)

Taxonomy

	Eukaryota (29)
	Bacteria (13)
	other sequences (6)
	unclassified sequences (2)

Experimental Method

ELECTRON MICROSCOPY (39)

Polymer Entity Type

Protein (39)

Refinement Resolution (Å)

	2.5 - 3.0 (7)
	3.0 - 3.5 (19)
	3.5 - 4.0 (5)
	4.0 - 4.5 (5)
	> 4.5 (3)

Release Date

	2015 - 2019 (12)
	2020 - 2024 (27)

Enzyme Classification Name

	Hydrolases (15)
	Isomerases (8)
	Oxidoreductases (2)

Symmetry Type

	Asymmetric (28)
	Cyclic (5)
	Dihedral (4)
	Helical (2)

SCOP Classification

Alpha and beta proteins (a/b) (4)

AllSelected

1 to 25 of 39 Structures

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5KNE \| pdb_00005kne	Download File View File

CryoEM Reconstruction of Hsp104 Hexamer

Yokom, A.L., Gates, S.N., Jackrel, M.E., Mack, K.L., Su, M., Shorter, J., Southworth, D.R.

(2016) Nat Struct Mol Biol 23: 830-837

Released	2016-07-27
Method	ELECTRON MICROSCOPY 5.64 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Heat shock protein 104 (protein)
Unique Ligands	ANP

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5VJH \| pdb_00005vjh	Download File View File

Closed State CryoEM Reconstruction of Hsp104:ATPyS and FITC casein

Gates, S.N., Yokom, A.L., Lin, J.-B., Jackrel, M.E., Rizo, A.N., Kendsersky, N.M., Buell, C.E., Sweeny, E.A., Chuang, E., Torrente, M.P., Mack, K.L., Su, M., Shorter, J., Southworth, D.R.

(2017) Science 357: 273-279

Released	2017-07-05
Method	ELECTRON MICROSCOPY 4 Å
Organisms	Bos taurus Saccharomyces cerevisiae S288C
Macromolecule	FITC casein (protein) Heat shock protein 104 (protein)
Unique Ligands	AGS

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5VY8 \| pdb_00005vy8	Download File View File

S. cerevisiae Hsp104-ADP complex

Gates, S.N., Yokom, A.L., Lin, J.-B., Jackrel, M.E., Rizo, A.N., Kendsersky, N.M., Buell, C.E., Sweeny, E.A., Chuang, E., Torrente, M.P., Mack, K.L., Su, M., Shorter, J., Southworth, D.R.

(2017) Science 357: 273-279

Released	2017-07-05
Method	ELECTRON MICROSCOPY 5.6 Å
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	Heat shock protein 104 (protein)
Unique Ligands	ADP

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5VY9 \| pdb_00005vy9	Download File View File

S. cerevisiae Hsp104:casein complex, Middle Domain Conformation

Gates, S.N., Yokom, A.L., Lin, J.-B., Jackrel, M.E., Rizo, A.N., Kendsersky, N.M., Buell, C.E., Sweeny, E.A., Chuang, E., Torrente, M.P., Mack, K.L., Su, M., Shorter, J., Southworth, D.R.

(2017) Science 357: 273-279

Released	2017-07-19
Method	ELECTRON MICROSCOPY 6.7 Å
Organisms	Bos taurus Saccharomyces cerevisiae S288C
Macromolecule	Alpha-S1-casein (protein) Heat shock protein 104 (protein)
Unique Ligands	AGS

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5VYA \| pdb_00005vya	Download File View File

S. cerevisiae Hsp104:casein complex, Extended Conformation

Gates, S.N., Yokom, A.L., Lin, J.-B., Jackrel, M.E., Rizo, A.N., Kendsersky, N.M., Buell, C.E., Sweeny, E.A., Chuang, E., Torrente, M.P., Mack, K.L., Su, M., Shorter, J., Southworth, D.R.

(2017) Science 357: 273-279

Released	2017-07-05
Method	ELECTRON MICROSCOPY 4 Å
Organisms	Bos taurus Saccharomyces cerevisiae S288C
Macromolecule	Alpha-S1-casein (protein) Heat shock protein 104 (protein)
Unique Ligands	AGS

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6E0F \| pdb_00006e0f	Download File View File

Mitochondrial peroxiredoxin from Leishmania infantum in complex with unfolding client protein after heat stress

Teixeira, F., Tse, E., Makepeace, K.A.T., Borchers, C.H., Castro, H., Tomas, A.M., Poole, L.B., Southworth, D.R., Jakob, U.

(2019) Nat Commun 10: 659-659

Released	2019-02-20
Method	ELECTRON MICROSCOPY 3.7 Å
Organisms	Leishmania infantum
Macromolecule	mitochondrial 2-cys-peroxiredoxin (protein)

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6E0G \| pdb_00006e0g	Download File View File

Mitochondrial peroxiredoxin from Leishmania infantum after heat stress without unfolding client protein

Teixeira, F., Tse, E., Makepeace, K.A.T., Borchers, C.H., Castro, H., Tomas, A.M., Poole, L.B., Southworth, D.R., Jakob, U.

(2019) Nat Commun 10: 659-659

Released	2019-02-20
Method	ELECTRON MICROSCOPY 2.9 Å
Organisms	Leishmania infantum
Macromolecule	mitochondrial 2-cys-peroxiredoxin (protein)

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6OAX \| pdb_00006oax	Download File View File

Structure of the hyperactive ClpB mutant K476C, bound to casein, pre-state

Rizo, A.R., Lin, J.-B., Gates, S.N., Tse, E., Bart, S.M., Castellano, L.M., Dimaio, F., Shorter, J., Southworth, D.R.

(2019) Nat Commun 10: 2393-2393

Released	2019-06-12
Method	ELECTRON MICROSCOPY 2.9 Å
Organisms	Bos taurus Escherichia coli K-12
Macromolecule	Alpha-S1-casein (protein) Hyperactive disaggregase ClpB (protein)
Unique Ligands	ADP, AGS

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6OAY \| pdb_00006oay	Download File View File

Structure of the hyperactive ClpB mutant K476C, bound to casein, post-state

Rizo, A.R., Lin, J.-B., Gates, S.N., Tse, E., Bart, S.M., Castellano, L.M., Dimaio, F., Shorter, J., Southworth, D.R.

(2019) Nat Commun 10: 2393-2393

Released	2019-06-12
Method	ELECTRON MICROSCOPY 3.3 Å
Organisms	Bos taurus Escherichia coli K-12
Macromolecule	Alpha-S1-casein (protein) Hyperactive disaggregase ClpB (protein)
Unique Ligands	ADP, AGS

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6OG1 \| pdb_00006og1	Download File View File

Focus classification structure of the hyperactive ClpB mutant K476C, bound to casein, pre-state

Rizo, A.R., Lin, J.-B., Gates, S.N., Tse, E., Bart, S.M., Castellano, L.M., Dimaio, F., Shorter, J., Southworth, D.R.

(2019) Nat Commun 10: 2393-2393

Released	2019-06-12
Method	ELECTRON MICROSCOPY 3.3 Å
Organisms	Escherichia coli K-12
Macromolecule	Hyperactive disaggregase ClpB (protein)
Unique Ligands	ADP, AGS

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6OG2 \| pdb_00006og2	Download File View File

Focus classification structure of the hyperactive ClpB mutant K476C, bound to casein, post-state

Rizo, A.R., Lin, J.-B., Gates, S.N., Tse, E., Bart, S.M., Castellano, L.M., Dimaio, F., Shorter, J., Southworth, D.R.

(2019) Nat Commun 10: 2393-2393

Released	2019-06-12
Method	ELECTRON MICROSCOPY 4.1 Å
Organisms	Escherichia coli K-12
Macromolecule	Hyperactive disaggregase ClpB (protein)
Unique Ligands	ADP

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6OG3 \| pdb_00006og3	Download File View File

Focus classification structure of the hyperactive ClpB mutant K476C, bound to casein, NTD-trimer

Rizo, A.R., Lin, J.-B., Gates, S.N., Tse, E., Bart, S.M., Castellano, L.M., Dimaio, F., Shorter, J., Southworth, D.R.

(2019) Nat Commun 10: 2393-2393

Released	2019-06-12
Method	ELECTRON MICROSCOPY 4.1 Å
Organisms	Bos taurus Escherichia coli K-12
Macromolecule	Alpha S1-casein (protein) Hyperactive disaggregase ClpB (protein)

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6UQE \| pdb_00006uqe	Download File View File

ClpA/ClpP Disengaged State bound to RepA-GFP

Lopez, K.L., Rizo, A.R., Southworth, D.R.

(2020) Nat Struct Mol Biol 27: 406-416

Released	2020-04-22
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Escherichia coli K-12 unidentified
Macromolecule	ATP-dependent Clp protease ATP-binding subunit ClpA (protein) ATP-dependent Clp protease proteolytic subunit (protein) RepA-GFP (protein)
Unique Ligands	ADP, AGS

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6UQO \| pdb_00006uqo	Download File View File

ClpA/ClpP Engaged State bound to RepA-GFP

Lopez, K.L., Rizo, A.N., Southworth, D.R.

(2020) Nat Struct Mol Biol 27: 406-416

Released	2020-04-22
Method	ELECTRON MICROSCOPY 3.1 Å
Organisms	Escherichia coli K-12 unidentified
Macromolecule	ATP-dependent Clp endopeptidase proteolytic subunit ClpP (protein) ATP-dependent Clp protease ATP-binding subunit ClpA (protein) RepA-GFP (protein)
Unique Ligands	ADP, AGS

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6W1Z \| pdb_00006w1z	Download File View File

ClpAP Engaged1 State bound to RepA-GFP

Lopez, K.L., Rizo, A.N., Tse, E., Lin, J., Scull, N.W., Thwin, A.C., Lucius, A.L., Shorter, J., Southworth, D.R.

(2020) Nat Struct Mol Biol 27: 406-416

Released	2020-05-06
Method	ELECTRON MICROSCOPY 2.7 Å
Organisms	Escherichia coli Escherichia coli K-12 synthetic construct
Macromolecule	ATP-dependent Clp protease ATP-binding subunit ClpA (protein) ATP-dependent Clp protease proteolytic subunit (protein) RepA, green fluorescent protein fusion (protein)
Unique Ligands	ADP, ATP

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6W20 \| pdb_00006w20	Download File View File

ClpAP Disengaged State bound to RepA-GFP

Lopez, K.L., Rizo, A.N., Tse, E., Lin, J., Scull, N.W., Thwin, A.C., Lucius, A.L., Shorter, J., Southworth, D.R.

(2020) Nat Struct Mol Biol 27: 406-416

Released	2020-05-06
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Escherichia coli Escherichia coli K-12 synthetic construct
Macromolecule	ATP-dependent Clp protease ATP-binding subunit ClpA (protein) ATP-dependent Clp protease proteolytic subunit (protein) RepA, green fluorescent protein fusion (protein)
Unique Ligands	ADP, ATP

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6W21 \| pdb_00006w21	Download File View File

ClpAP Engaged2 State bound to RepA-GFP

Lopez, K.L., Rizo, A.N., Tse, E., Lin, J., Scull, N.W., Thwin, A.C., Lucius, A.L., Shorter, J., Southworth, D.R.

(2020) Nat Struct Mol Biol 27: 406-416

Released	2020-05-13
Method	ELECTRON MICROSCOPY 3.3 Å
Organisms	Escherichia coli Escherichia coli K-12 synthetic construct
Macromolecule	ATP-dependent Clp protease ATP-binding subunit ClpA (protein) ATP-dependent Clp protease proteolytic subunit (protein) RepA, green fluorescent protein fusion (protein)
Unique Ligands	ADP, ATP

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6W22 \| pdb_00006w22	Download File View File

ClpA Engaged1 State bound to RepA-GFP (ClpA Focused Refinement)

Lopez, K.L., Rizo, A.N., Tse, E., Lin, J., Scull, N.W., Thwin, A.C., Lucius, A.L., Shorter, J., Southworth, D.R.

(2020) Nat Struct Mol Biol 27: 406-416

Released	2020-04-29
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Escherichia coli K-12 synthetic construct
Macromolecule	ATP-dependent Clp protease ATP-binding subunit ClpA (protein) RepA, green fluorescent protein fusion (protein)
Unique Ligands	ADP, ATP

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6W23 \| pdb_00006w23	Download File View File

ClpA Disengaged State bound to RepA-GFP (Focused Classification)

Lopez, K.L., Rizo, A.N., Tse, E., Lin, J., Scull, N.W., Thwin, A.C., Lucius, A.L., Shorter, J., Southworth, D.R.

(2020) Nat Struct Mol Biol 27: 406-416

Released	2020-05-06
Method	ELECTRON MICROSCOPY 3.1 Å
Organisms	Escherichia coli K-12 synthetic construct
Macromolecule	ATP-dependent Clp protease ATP-binding subunit ClpA (protein) RepA, green fluorescent protein fusion (protein)
Unique Ligands	ADP, ATP

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6W24 \| pdb_00006w24	Download File View File

ClpA Engaged2 State bound to RepA-GFP (Focused Classification)

Lopez, K.L., Rizo, A.N., Tse, E., Lin, J., Scull, N.W., Thwin, A.C., Lucius, A.L., Shorter, J., Southworth, D.R.

(2020) Nat Struct Mol Biol 27: 406-416

Released	2020-05-06
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Escherichia coli K-12 synthetic construct
Macromolecule	ATP-dependent Clp protease ATP-binding subunit ClpA (protein) RepA, green fluorescent protein fusion (protein)
Unique Ligands	ADP, ATP

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7L7I \| pdb_00007l7i	Download File View File

Cryo-EM structure of Hsp90:FKBP51:p23 closed-state complex

Lee, K., Thwin, A.C., Tse, E., Gates, S.N., Southworth, D.R.

(2021) Mol Cell 81: 3496

Released	2021-08-25
Method	ELECTRON MICROSCOPY 3.3 Å
Organisms	Homo sapiens
Macromolecule	Heat shock protein HSP 90-alpha (protein) Peptidyl-prolyl cis-trans isomerase FKBP5 (protein) Prostaglandin E synthase 3 (protein)
Unique Ligands	ANP

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7L7J \| pdb_00007l7j	Download File View File

Cryo-EM structure of Hsp90:p23 closed-state complex

Lee, K., Thwin, A.C., Tse, E., Gates, S.N., Southworth, D.R.

(2021) Mol Cell 81: 3496

Released	2021-08-25
Method	ELECTRON MICROSCOPY 3.1 Å
Organisms	Homo sapiens
Macromolecule	Heat shock protein HSP 90-alpha (protein) Prostaglandin E synthase 3 (protein)
Unique Ligands	ANP

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8FCL \| pdb_00008fcl	Download File View File

Cryo-EM structure of p97:UBXD1 closed state

Braxton, J.R., Tucker, M.R., Tse, E., Southworth, D.R.

(2023) Nat Struct Mol Biol 30: 2009-2019

Released	2023-06-21
Method	ELECTRON MICROSCOPY 3.51 Å
Organisms	Homo sapiens
Macromolecule	Transitional endoplasmic reticulum ATPase (protein) UBX domain-containing protein 6 (protein)
Unique Ligands	ADP

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8FCM \| pdb_00008fcm	Download File View File

Cryo-EM structure of p97:UBXD1 open state

Braxton, J.R., Tucker, M.R., Tse, E., Southworth, D.R.

(2023) Nat Struct Mol Biol 30: 2009-2019

Released	2023-06-21
Method	ELECTRON MICROSCOPY 3.27 Å
Organisms	Homo sapiens
Macromolecule	Transitional endoplasmic reticulum ATPase (protein) UBX domain-containing protein 6 (protein)
Unique Ligands	ADP

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8FCN \| pdb_00008fcn	Download File View File

Cryo-EM structure of p97:UBXD1 VIM-only state

Braxton, J.R., Tucker, M.R., Tse, E., Southworth, D.R.

(2023) Nat Struct Mol Biol 30: 2009-2019

Released	2023-06-21
Method	ELECTRON MICROSCOPY 2.95 Å
Organisms	Homo sapiens
Macromolecule	Transitional endoplasmic reticulum ATPase (protein) UBX domain-containing protein 6 (protein)
Unique Ligands	ADP

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

SCOP Classification

5KNE | pdb_00005kne

5VJH | pdb_00005vjh

5VY8 | pdb_00005vy8

5VY9 | pdb_00005vy9

5VYA | pdb_00005vya

6E0F | pdb_00006e0f

6E0G | pdb_00006e0g

6OAX | pdb_00006oax

6OAY | pdb_00006oay

6OG1 | pdb_00006og1

6OG2 | pdb_00006og2

6OG3 | pdb_00006og3

6UQE | pdb_00006uqe

6UQO | pdb_00006uqo

6W1Z | pdb_00006w1z

6W20 | pdb_00006w20

6W21 | pdb_00006w21

6W22 | pdb_00006w22

6W23 | pdb_00006w23

6W24 | pdb_00006w24

7L7I | pdb_00007l7i

7L7J | pdb_00007l7j

8FCL | pdb_00008fcl

8FCM | pdb_00008fcm

8FCN | pdb_00008fcn