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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Berry, C."

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Search Summary

This query matches 23 Structures.

Refinements

Structure Determination Methodology

experimental (23)

Scientific Name of Source Organism

	Bacillus thuringiensis (8)
	Solanum tuberosum (6)
	Lysinibacillus sphaericus (4)
	Aequorea victoria (1)
	Bacillus cereus (1)
	Homo sapiens (1)
	Plasmodium falciparum (1)
	Plasmodium falciparum 3D7 (1)

Taxonomy

	Bacteria (13)
	Eukaryota (10)

Experimental Method

	X-RAY DIFFRACTION (20)
	ELECTRON MICROSCOPY (3)

Polymer Entity Type

Protein (23)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (7)
	2.0 - 2.5 (7)
	2.5 - 3.0 (5)
	3.5 - 4.0 (1)
	> 4.5 (2)

Release Date

	1995 - 1999 (1)
	2005 - 2009 (1)
	2010 - 2014 (2)
	2015 - 2019 (8)
	2020 - 2024 (10)
	2025 - 2029 (1)

Enzyme Classification Name

	Transferases (1)
	Hydrolases (2)

Membrane Protein Annotation

mpstruc (2)

Symmetry Type

	Cyclic (15)
	Asymmetric (9)

SCOP Classification

	All beta proteins (8)
	Alpha and beta proteins (a+b) (1)

AllSelected

1 to 23 of 23 Structures

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1PFZ \| pdb_00001pfz	Download File View File

PROPLASMEPSIN II FROM PLASMODIUM FALCIPARUM

Bernstein, N.K., Cherney, M.M., Loetscher, H., Ridley, R.G., James, M.N.G.

(1999) Nat Struct Biol 6: 32-37

Released	1999-01-13
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Plasmodium falciparum
Macromolecule	PROPLASMEPSIN II (protein)
Unique Ligands	GOL

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1VYQ \| pdb_00001vyq	Download File View File

Novel inhibitors of Plasmodium Falciparum dUTPase provide a platform for anti-malarial drug design

Whittingham, J.L., Leal, I., Kasinathan, G., Nguyen, C., Bell, E., Jones, A.F., Berry, C., Benito, A., Turkenburg, J.P., Dodson, E.J., Ruiz Perez, L.M., Wilkinson, A.J., Johansson, N.G., Brun, R., Gilbert, I.H., Gonzalez Pacanowska, D., Wilson, K.S.

(2005) Structure 13: 329

Released	2005-05-26
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Plasmodium falciparum 3D7
Macromolecule	DEOXYURIDINE 5'-TRIPHOSPHATE NUCLEOTIDOHYDROLASE (protein)
Unique Ligands	DUX

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4JOX \| pdb_00004jox	Download File View File

Crystal structure of cry34Ab1 protein at 2.15 A resolution

Yang, C., Pflugrath, J.W., Kelker, M.S., Evan, S.L., Narva, K.E.

To be published

Released	2014-04-23
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Bacillus thuringiensis
Macromolecule	13.6 kDa insecticidal crystal protein (protein)

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4JP0 \| pdb_00004jp0	Download File View File

Crystal structure of Cry35Ab1

Yang, C., Pflugrath, J.W., Kelker, M.S., Evan, S.L., Narva, K.E.

To be published

Released	2014-04-23
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Bacillus thuringiensis
Macromolecule	43.8 kDa insecticidal crystal protein (protein)

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5FNW \| pdb_00005fnw	Download File View File

Crystal structure at pH 7.0 of a potato STI-Kunitz bi-functional inhibitor of serine and aspartic proteases in space group p4322 and ph 9.0

Guerra, Y., Rudino-Pinera, E.

(2016) J Struct Biol 195: 259-271

Released	2016-07-06
Method	X-RAY DIFFRACTION 2.45 Å
Organisms	Solanum tuberosum
Macromolecule	POTATO STI-KUNITZ BI-FUNCTIONAL INHIBITOR E3AD_N19D (protein)

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5FNX \| pdb_00005fnx	Download File View File

Crystal structure at pH 9.0 of a potato STI-Kunitz bi-functional inhibitor of serine and aspartic proteases in space group p4322 and ph 9.0

Guerra, Y., Rudino-Pinera, E.

(2016) J Struct Biol 195: 259-271

Released	2016-07-06
Method	X-RAY DIFFRACTION 2.65 Å
Organisms	Solanum tuberosum
Macromolecule	POTATO STI-KUNITZ BI-FUNCTIONAL INHIBITOR E3AD_N19D (protein)

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5FZU \| pdb_00005fzu	Download File View File

CRYSTAL STRUCTURE OF N19D POTATO STI-KUNITZ BI-FUNCTIONAL INHIBITOR OF SERINE AND ASPARTIC PROTEASES IN SPACE GROUP P4322 AND PH 7.2

Guerra, Y., Rudino-Pinero, E.

(2016) J Struct Biol 195: 259-271

Released	2016-07-06
Method	X-RAY DIFFRACTION 2.43 Å
Organisms	Solanum tuberosum
Macromolecule	KTI-A PROTEIN (protein)

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5FZY \| pdb_00005fzy	Download File View File

CRYSTAL STRUCTURE OF N19D POTATO STI-KUNITZ BI-FUNCTIONAL INHIBITOR OF SERINE AND ASPARTIC PROTEASES IN SPACE GROUP C2221 AND PH 3.5

Guerra, Y., Rudino-Pinera, E.

(2016) J Struct Biol 195: 259-271

Released	2016-07-06
Method	X-RAY DIFFRACTION 2.47 Å
Organisms	Solanum tuberosum
Macromolecule	KTI-A PROTEIN (protein)

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5FZZ \| pdb_00005fzz	Download File View File

CRYSTAL STRUCTURE OF POTATO STI-KUNITZ BI-FUNCTIONAL INHIBITOR OF SERINE AND ASPARTIC PROTEASES IN SPACE GROUP P22121 AND PH 7.0

Guerra, Y., Rudino-Pinera, E.

(2016) J Struct Biol 195: 259-271

Released	2016-07-06
Method	X-RAY DIFFRACTION 2.55 Å
Organisms	Solanum tuberosum
Macromolecule	KTI-A PROTEIN (protein)

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5G00 \| pdb_00005g00	Download File View File

CRYSTAL STRUCTURE OF A POTATO STI-KUNITZ BIFUNCTIONAL INHIBITOR OF SERINE AND ASPARTIC PROTEASES IN SPACE GROUP P4322 AND PH 7.4

Guerra, Y., Rudino-Pinera, E.

(2016) J Struct Biol 195: 259-271

Released	2016-07-06
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Solanum tuberosum
Macromolecule	KTI-A PROTEIN (protein)
Unique Ligands	NAG

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5KUC \| pdb_00005kuc	Download File View File

Crystal structure of trypsin activated Cry6Aa

Kelker, M.S., Xu, X., Lee, M., Chan, M., Hung, S., Dementiev, K., Hey, T., Chikwana, V.M., Narva, K.E.

(2016) BMC Biol 14: 71-71

Released	2016-08-03
Method	X-RAY DIFFRACTION 2 Å
Organisms	Bacillus thuringiensis
Macromolecule	Pesticidal crystal protein Cry6Aa (protein)

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5KUD \| pdb_00005kud	Download File View File

Crystal structure of full length Cry6Aa

Kelker, M.S., Xu, X., Lee, M., Chan, M., Hung, S., Dementiev, K., Chikwana, V.M., Hey, T., Narva, K.

(2016) BMC Biol 14: 71-71

Released	2016-08-03
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Bacillus thuringiensis
Macromolecule	Pesticidal crystal protein Cry6Aa (protein)

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6SM0 \| pdb_00006sm0	Download File View File

Venus 66 p-Azido-L-Phenylalanin (azF) variant, dark grown

Rizkallah, P.J., Al Maslookhi, H.S., Jones, D.D.

(2021) Chem Sci 12: 7735-7745

Released	2021-02-17
Method	X-RAY DIFFRACTION 1.91 Å
Organisms	Aequorea victoria
Macromolecule	Green fluorescent protein (protein)
Unique Ligands	OXY, SO4, ZN

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6YRF \| pdb_00006yrf	Download File View File

Vip3Bc1 tetramer

Thompson, R.F., Byrne, M.J., Iadanza, M.I., Arribas Perez, M., Maskell, D.P., George, R.M., Hesketh, E.L., Beales, P.A., Zack, M.D., Berry, C.

(2021) Nat Commun 12: 2791-2791

Released	2021-03-17
Method	ELECTRON MICROSCOPY 3.9 Å
Organisms	Bacillus thuringiensis
Macromolecule	Vegetative insecticidal protein (protein)

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6YRG \| pdb_00006yrg	Download File View File

Vip3Bc1 tetramer in processed, activated state

Thompson, R.F., Byrne, M.J., Iadanza, M.I.

(2021) Nat Commun 12: 2791-2791

Released	2021-03-17
Method	ELECTRON MICROSCOPY 4.8 Å
Organisms	Bacillus thuringiensis
Macromolecule	Vegetative insecticidal protein (protein)

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7NMQ \| pdb_00007nmq	Download File View File

Bacillus cereus HblL1 toxin component

Rizkallah, P.J., Berry, C.

(2021) Toxins (Basel) 13:

Released	2021-04-07
Method	X-RAY DIFFRACTION 1.36 Å
Organisms	Bacillus cereus
Macromolecule	Hemolysin BL lytic component L1 (protein)
Unique Ligands	EDO, PEG

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7NTX \| pdb_00007ntx	Download File View File

Vip3Bc1 tetramer in processed, activated state

Thompson, R.F., Byrne, M.J., Iadanza, M.I.

(2021) Nat Commun 12: 2791-2791

Released	2021-04-14
Method	ELECTRON MICROSCOPY 4.75 Å
Organisms	Bacillus thuringiensis
Macromolecule	Vegetative insecticidal protein (protein)

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7QA1 \| pdb_00007qa1	Download File View File

The structure of natural crystals of the Lysinibacillus sphaericus Tpp49Aa1 pesticidal protein elucidated using serial femtosecond crystallography at an X-ray free electron laser

Williamson, L.J., Rizkallah, P.J., Berry, C., Oberthur, D., Galchenkova, M., Yefanov, O., Bean, R., Best, H.L.

(2023) Proc Natl Acad Sci U S A 120: e2203241120-e2203241120

Released	2023-05-17
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Lysinibacillus sphaericus
Macromolecule	Toxin-10 pesticidal protein (Tpp) 49Aa1 (protein)

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8BAD \| pdb_00008bad	Download File View File

Tpp80Aa1

Best, H.L., Williamson, L.J., Rizkallah, P.J., Berry, C., Lloyd-Evans, E.

(2022) Toxins (Basel) 14:

Released	2022-12-14
Method	X-RAY DIFFRACTION 1.81 Å
Organisms	Bacillus thuringiensis
Macromolecule	Binary toxin A-like protein (protein)
Unique Ligands	B3P, CA, CIT

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8BEX \| pdb_00008bex	Download File View File

Structure of the Lysinibacillus sphaericus Tpp49Aa1 pesticidal protein at pH 3

Williamson, L.J., Rizkallah, P.J., Berry, C., Oberthur, D., Galchenkova, M., Yefanov, O., Bean, R.

(2023) Proc Natl Acad Sci U S A 120: e2203241120-e2203241120

Released	2023-11-01
Method	X-RAY DIFFRACTION 1.78 Å
Organisms	Lysinibacillus sphaericus
Macromolecule	Cry49Aa protein (protein)

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8BEY \| pdb_00008bey	Download File View File

Structure of the Lysinibacillus sphaericus Tpp49Aa1 pesticidal protein at pH 7

Williamson, L.J., Rizkallah, P.J., Berry, C., Oberthur, D., Galchenkova, M., Yefanov, O., Bean, R.

(2023) Proc Natl Acad Sci U S A 120: e2203241120-e2203241120

Released	2023-11-01
Method	X-RAY DIFFRACTION 1.62 Å
Organisms	Lysinibacillus sphaericus
Macromolecule	Cry49Aa protein (protein)

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8BEZ \| pdb_00008bez	Download File View File

Structure of the Lysinibacillus sphaericus Tpp49Aa1 pesticidal protein at pH 11

Williamson, L.J., Rizkallah, P.J., Berry, C., Oberthur, D., Galchenkova, M., Yefanov, O., Bean, R.

(2023) Proc Natl Acad Sci U S A 120: e2203241120-e2203241120

Released	2023-11-01
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Lysinibacillus sphaericus
Macromolecule	Cry49Aa protein (protein)

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9E8M \| pdb_00009e8m	Download File View File

Covalent inhibitor VVD-442 bound to the RAS binding domain (RBD) of PI3Ka

Bernard, S.M., Tamiya, J.

(2024) bioRxiv

Released	2025-01-01
Method	X-RAY DIFFRACTION 2.827 Å
Organisms	Homo sapiens
Macromolecule	Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit alpha isoform (protein)
Unique Ligands	A1BF9

1 to 23 of 23 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

Membrane Protein Annotation

Symmetry Type

SCOP Classification

1PFZ | pdb_00001pfz

1VYQ | pdb_00001vyq

4JOX | pdb_00004jox

4JP0 | pdb_00004jp0

5FNW | pdb_00005fnw

5FNX | pdb_00005fnx

5FZU | pdb_00005fzu

5FZY | pdb_00005fzy

5FZZ | pdb_00005fzz

5G00 | pdb_00005g00

5KUC | pdb_00005kuc

5KUD | pdb_00005kud

6SM0 | pdb_00006sm0

6YRF | pdb_00006yrf

6YRG | pdb_00006yrg

7NMQ | pdb_00007nmq

7NTX | pdb_00007ntx

7QA1 | pdb_00007qa1

8BAD | pdb_00008bad

8BEX | pdb_00008bex

8BEY | pdb_00008bey

8BEZ | pdb_00008bez

9E8M | pdb_00009e8m