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232,418 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Cavadini, S."

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Search Summary

This query matches 30 Structures.

Refinements

Structure Determination Methodology

experimental (30)

Scientific Name of Source Organism

	Homo sapiens (28)
	synthetic construct (7)
	Mus musculus (4)
	Aequorea victoria (3)
	Caenorhabditis elegans (1)
	Escherichia coli K-12 (1)
	Saccharomyces cerevisiae S288C (1)

Taxonomy

	Eukaryota (30)
	other sequences (7)
	Bacteria (1)

Experimental Method

ELECTRON MICROSCOPY (30)

Polymer Entity Type

	Protein (30)
	DNA (17)
	RNA (3)

Refinement Resolution (Å)

	2.5 - 3.0 (2)
	3.0 - 3.5 (12)
	3.5 - 4.0 (5)
	4.0 - 4.5 (4)
	> 4.5 (6)

Release Date

	2015 - 2019 (7)
	2020 - 2024 (23)

Enzyme Classification Name

	Transferases (8)
	Lyases (3)

Symmetry Type

	Asymmetric (22)
	Cyclic (6)
	Dihedral (2)

AllSelected

1 to 25 of 30 Structures

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6R8Y	Download File View File

Cryo-EM structure of NCP-6-4PP(-1)-UV-DDB

Matsumoto, S., Cavadini, S., Bunker, R.D., Thoma, N.H.

(2019) Nature 571: 79-84

Released	2019-06-12
Method	ELECTRON MICROSCOPY 4.3 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 7 Unique nucleic acid chains: 2

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6R8Z	Download File View File

Cryo-EM structure of NCP_THF2(-1)-UV-DDB

Matsumoto, S., Cavadini, S., Bunker, R.D., Thoma, N.H.

(2019) Nature 571: 79-84

Released	2019-06-12
Method	ELECTRON MICROSCOPY 3.9 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 6 Unique nucleic acid chains: 2

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6R90	Download File View File

Cryo-EM structure of NCP-THF2(+1)-UV-DDB class A

Matsumoto, S., Cavadini, S., Bunker, R.D., Thoma, N.H.

(2019) Nature 571: 79-84

Released	2019-06-12
Method	ELECTRON MICROSCOPY 4.5 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 6 Unique nucleic acid chains: 2

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6R91	Download File View File

Cryo-EM structure of NCP_THF2(-3)-UV-DDB

Matsumoto, S., Cavadini, S., Bunker, R.D., Thoma, N.H.

(2019) Nature 571: 79-84

Released	2019-06-12
Method	ELECTRON MICROSCOPY 4.1 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 6 Unique nucleic acid chains: 2

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6R92	Download File View File

Cryo-EM structure of NCP-THF2(+1)-UV-DDB class B

Matsumoto, S., Cavadini, S., Bunker, R.D., Thoma, N.H.

(2019) Nature 571: 79-84

Released	2019-06-12
Method	ELECTRON MICROSCOPY 4.8 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 6 Unique nucleic acid chains: 2

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6R93	Download File View File

Cryo-EM structure of NCP-6-4PP

Matsumoto, S., Cavadini, S., Bunker, R.D., Thoma, N.H.

(2019) Nature 571: 79-84

Released	2019-06-12
Method	ELECTRON MICROSCOPY 4 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 2

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6R94	Download File View File

Cryo-EM structure of NCP_THF2(-3)

Matsumoto, S., Cavadini, S., Bunker, R.D., Thoma, N.H.

(2019) Nature 571: 79-84

Released	2019-06-12
Method	ELECTRON MICROSCOPY 3.5 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 2

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6T90	Download File View File

OCT4-SOX2-bound nucleosome - SHL-6

Michael, A.K., Kempf, G., Cavadini, S., Bunker, R.D., Thoma, N.H.

(2020) Science 368: 1460-1465

Released	2020-05-06
Method	ELECTRON MICROSCOPY 3.05 Å
Organisms	Aequorea victoria Homo sapiens synthetic construct
Macromolecule	Unique protein chains: 7 Unique nucleic acid chains: 2
Unique Ligands	PTD

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6T93	Download File View File

Nucleosome with OCT4-SOX2 motif at SHL-6

Michael, A.K., Kempf, G., Cavadini, S., Bunker, R.D., Thoma, N.H.

(2020) Science 368: 1460-1465

Released	2020-05-06
Method	ELECTRON MICROSCOPY 3.49 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 2

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6Y0G	Download File View File

Structure of human ribosome in classical-PRE state

Bhaskar, V., Schenk, A.D., Cavadini, S., von Loeffelholz, O., Natchiar, S.K., Klaholz, B.P., Chao, J.A.

(2020) Cell Rep 31: 107473-107473

Released	2020-04-15
Method	ELECTRON MICROSCOPY 3.2 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 76 Unique nucleic acid chains: 6
Unique Ligands	3HE, MG, ZN

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6Y2L	Download File View File

Structure of human ribosome in POST state

Bhaskar, V., Schenk, A.D., Cavadini, S., von Loeffelholz, O., Natchiar, S.K., Klaholz, B.P., Chao, J.A.

(2020) Cell Rep 31: 107473-107473

Released	2020-04-15
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 74 Unique nucleic acid chains: 6
Unique Ligands	3HE, MG, ZN

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6Y57	Download File View File

Structure of human ribosome in hybrid-PRE state

Bhaskar, V., Schenk, A.D., Cavadini, S., von Loeffelholz, O., Natchiar, S.K., Klaholz, B.P., Chao, J.A.

(2020) Cell Rep 31: 107473-107473

Released	2020-04-15
Method	ELECTRON MICROSCOPY 3.5 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 75 Unique nucleic acid chains: 7
Unique Ligands	MG, ZN

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6Y5D	Download File View File

Structure of human cGAS (K394E) bound to the nucleosome

Pathare, G.R., Cavadini, S., Kempf, G., Thoma, N.H.

(2020) Nature 587: 668-672

Released	2020-09-23
Method	ELECTRON MICROSCOPY 4.1 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 2
Unique Ligands	PTD, ZN

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6Y5E	Download File View File

Structure of human cGAS (K394E) bound to the nucleosome (focused refinement of cGAS-NCP subcomplex)

Pathare, G.R., Cavadini, S., Kempf, G., Thoma, N.H.

(2020) Nature 587: 668-672

Released	2020-09-23
Method	ELECTRON MICROSCOPY 3.15 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 8 Unique nucleic acid chains: 2
Unique Ligands	PTD, ZN

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6YOV	Download File View File

OCT4-SOX2-bound nucleosome - SHL+6

Michael, A.K., Kempf, G., Cavadini, S., Bunker, R.D., Thoma, N.H.

(2020) Science 368: 1460-1465

Released	2020-05-06
Method	ELECTRON MICROSCOPY 3.42 Å
Organisms	Aequorea victoria Homo sapiens synthetic construct
Macromolecule	Unique protein chains: 8 Unique nucleic acid chains: 1
Unique Ligands	PTD

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7O2W	Download File View File

Structure of the C9orf72-SMCR8 complex

Noerpel, J., Cavadini, S., Schenk, A.D., Graff-Meyer, A., Chao, J., Bhaskar, V.

(2021) PLoS Biol 19: e3001344-e3001344

Released	2021-07-21
Method	ELECTRON MICROSCOPY
Organisms	Escherichia coli K-12 Homo sapiens Saccharomyces cerevisiae S288C
Macromolecule	Guanine nucleotide exchange protein SMCR8,Guanine nucleotide exchange protein SMCR8,Maltose/maltodextrin-binding periplasmic protein (protein) Ubiquitin-like protein SMT3,Guanine nucleotide exchange C9orf72 (protein)

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7OKQ	Download File View File

Cryo-EM Structure of the DDB1-DCAF1-CUL4A-RBX1 Complex

Mohamed, W.I., Schenk, A.D., Kempf, G., Cavadini, S., Thoma, N.H.

(2021) EMBO J 40: e108008-e108008

Released	2021-10-13
Method	ELECTRON MICROSCOPY 8.4 Å
Organisms	Homo sapiens
Macromolecule	Cullin-4A (protein) DDB1- and CUL4-associated factor 1 (protein) DNA damage-binding protein 1 (protein) E3 ubiquitin-protein ligase RBX1 (protein)

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7Q3D	Download File View File

Structure of the human CPLANE complex

Langousis, G., Cavadini, S., Kempf, G., Matthias, P.

(2022) Sci Adv 8: eabn0832-eabn0832

Released	2022-04-06
Method	ELECTRON MICROSCOPY 3.35 Å
Organisms	Homo sapiens
Macromolecule	Protein fuzzy homolog (protein) Protein inturned (protein) WD repeat-containing and planar cell polarity effector protein fritz homolog (protein)

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7Q3E	Download File View File

Structure of the mouse CPLANE-RSG1 complex

Langousis, G., Cavadini, S., Kempf, G., Matthias, P.

(2022) Sci Adv 8: eabn0832-eabn0832

Released	2022-04-06
Method	ELECTRON MICROSCOPY 3.35 Å
Organisms	Mus musculus
Macromolecule	Ciliogenesis and planar polarity effector 2 (protein) Protein fuzzy homolog (protein) Protein inturned (protein) WD repeat-containing and planar cell polarity effector protein fritz homolog (protein)
Unique Ligands	GTP

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8AJM	Download File View File

Structure of human DDB1-DCAF12 in complex with the C-terminus of CCT5

Pla-Prats, C., Cavadini, S., Kempf, G., Thoma, N.H.

(2023) EMBO J 42: e112253-e112253

Released	2022-11-09
Method	ELECTRON MICROSCOPY 2.83 Å
Organisms	Homo sapiens
Macromolecule	DDB1- and CUL4-associated factor 12 (protein) DNA damage-binding protein 1 (protein) T-complex protein 1 subunit epsilon (protein)

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8AJN	Download File View File

Structure of the human DDB1-DCAF12 complex

Pla-Prats, C., Cavadini, S., Kempf, G., Thoma, N.H.

(2023) EMBO J 42: e112253-e112253

Released	2022-11-09
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Homo sapiens
Macromolecule	DDB1- and CUL4-associated factor 12 (protein) DNA damage-binding protein 1 (protein)

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8AJO	Download File View File

Negative-stain electron microscopy structure of DDB1-DCAF12-CCT5

Pla-Prats, C., Cavadini, S., Kempf, G., Thoma, N.H.

(2023) EMBO J 42: e112253-e112253

Released	2022-11-09
Method	ELECTRON MICROSCOPY 30.6 Å
Organisms	Homo sapiens
Macromolecule	DDB1- and CUL4-associated factor 12 (protein) DNA damage-binding protein 1 (protein) T-complex protein 1 subunit epsilon (protein)

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8OSJ	Download File View File

Cryo-EM structure of CLOCK-BMAL1 bound to a nucleosomal E-box at position SHL-6.2 (DNA conformation 1)

Michael, A.K., Stoos, L., Kempf, G., Cavadini, S., Thoma, N.H.

(2023) Nature 619: 385-393

Released	2023-05-24
Method	ELECTRON MICROSCOPY 6.2 Å
Organisms	Homo sapiens Mus musculus synthetic construct
Macromolecule	Unique protein chains: 6 Unique nucleic acid chains: 2

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8OSK	Download File View File

Cryo-EM structure of CLOCK-BMAL1 bound to a nucleosomal E-box at position SHL+5.8 (composite map)

Stoos, L., Michael, A.K., Kempf, G., Cavadini, S., Thoma, N.H.

(2023) Nature 619: 385-393

Released	2023-05-24
Method	ELECTRON MICROSCOPY 3.6 Å
Organisms	Homo sapiens Mus musculus synthetic construct
Macromolecule	Unique protein chains: 6 Unique nucleic acid chains: 2

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8OSL	Download File View File

Cryo-EM structure of CLOCK-BMAL1 bound to the native Por enhancer nucleosome (map 2, additional 3D classification and flexible refinement)

Michael, A.K., Stoos, L., Kempf, G., Cavadini, S., Thoma, N.

(2023) Nature 619: 385-393

Released	2023-05-24
Method	ELECTRON MICROSCOPY 4.9 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Unique protein chains: 6 Unique nucleic acid chains: 2

1 to 25 of 30 Structures

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