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232,059 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Wu, Y.M."

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Search Summary

This query matches 24 Structures.

Refinements

Structure Determination Methodology

experimental (24)

Scientific Name of Source Organism

	Homo sapiens (13)
	Severe acute respiratory syndrome coronavirus 2 (9)
	Porcine epidemic diarrhea virus (6)
	synthetic construct (3)
	Escherichia coli DH5[alpha] (2)
	Mus musculus (1)
	Saccharomyces cerevisiae S288C (1)

Taxonomy

	Eukaryota (15)
	Riboviria (15)
	other sequences (3)
	Bacteria (2)

Experimental Method

	ELECTRON MICROSCOPY (18)
	X-RAY DIFFRACTION (6)

Polymer Entity Type

	Protein (24)
	DNA (4)

Refinement Resolution (Å)

	1.5 - 2.0 (1)
	2.0 - 2.5 (1)
	2.5 - 3.0 (4)
	3.0 - 3.5 (10)
	3.5 - 4.0 (1)
	4.0 - 4.5 (3)
	> 4.5 (4)

Release Date

2020 - 2024 (24)

Enzyme Classification Name

Transferases (2)

Symmetry Type

	Asymmetric (15)
	Helical (5)
	Cyclic (4)

AllSelected

1 to 24 of 24 Structures

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7C98	Download File View File

Human DMC1 post-synaptic complexes

Luo, S.C., Yeh, H.Y., Chi, P., Ho, M.C., Tsai, M.D.

(2021) Nat Commun 12: 115-115

Released	2020-11-18
Method	ELECTRON MICROSCOPY 3.47 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Meiotic recombination protein DMC1/LIM15 homolog (protein) DNA (5'-D(PAPAPAPAPAPAPAPAPA)-3') (nucleic acid) DNA (5'-D(PTPTPTPTPTPTPTPTPT)-3') (nucleic acid)
Unique Ligands	ANP, CA

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7C99	Download File View File

Human DMC1 post-synaptic complexes with mismatched dsDNA

Luo, S.C., Yeh, H.Y., Chi, P., Ho, M.C., Tsai, M.D.

(2021) Nat Commun 12: 115-115

Released	2020-11-18
Method	ELECTRON MICROSCOPY 3.36 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Meiotic recombination protein DMC1/LIM15 homolog (protein) DNA (5'-D(PAPAPAPAPAPAPAPAPA)-3') (nucleic acid) DNA (5'-D(PTPTPTPTPTPTPTPTPT)-3') (nucleic acid)
Unique Ligands	ANP, CA

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7C9A	Download File View File

Human RAD51 post-synaptic complexes mutant (V273P, D274G)

Chi, H.Y., Ho, M.C., Tsai, M.D., Luo, S.C., Yeh, H.Y.

(2021) Nat Commun 12: 115-115

Released	2020-11-18
Method	ELECTRON MICROSCOPY 3.43 Å
Organisms	Homo sapiens
Macromolecule	DNA repair protein RAD51 homolog 1 (protein) DNA (5'-D(PAPAPAPAPAPAPAPAPA)-3') (nucleic acid) DNA (5'-D(PTPTPTPTPTPTPTPTPT)-3') (nucleic acid)
Unique Ligands	ANP, CA

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7C9C	Download File View File

Human DMC1 pre-synaptic complexes

Luo, S.C., Yeh, H.Y., Chi, P., Ho, M.C., Tsai, M.D.

(2021) Nat Commun 12: 115-115

Released	2020-11-25
Method	ELECTRON MICROSCOPY 3.33 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Meiotic recombination protein DMC1/LIM15 homolog (protein) DNA (5'-D(PTPTPTPTPTPTPTPTP*T)-3') (nucleic acid)
Unique Ligands	ANP, CA

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7CGY	Download File View File

Human DMC1 Q244M mutant of the post-synaptic complexes

Chi, H.Y., Ho, M.C., Tsai, M.D., Luo, S.C., Yeh, H.Y.

(2021) Nat Commun 12: 115-115

Released	2020-11-18
Method	ELECTRON MICROSCOPY 3.2 Å
Organisms	Homo sapiens
Macromolecule	Meiotic recombination protein DMC1/LIM15 homolog (protein)
Unique Ligands	ANP, CA

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7CN9	Download File View File

Cryo-EM structure of SARS-CoV-2 Spike ectodomain

Ho, M., Chang, Y., Wang, C., Wu, Y., Huang, H., Chen, T., Lo, J.M., Chen, X., Ma, C.

(2020) Cell Rep 32: 108016-108016

Released	2020-08-26
Method	ELECTRON MICROSCOPY 4.7 Å
Organisms	Severe acute respiratory syndrome coronavirus 2
Macromolecule	Spike glycoprotein (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, FUC, MAN, NAG

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7QU8	Download File View File

ADGRG3/GPR97 Extracellular Region

Zheng-Gerard, C., Chu, T.Y., El Omari, K., Lin, H.H., Seiradake, E.

(2022) Nat Commun

Released	2022-09-28
Method	X-RAY DIFFRACTION 3.37 Å
Organisms	Homo sapiens
Macromolecule	Adhesion G protein-coupled receptor G3 (protein)

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7W6M	Download File View File

Cryo-EM map of PEDV (Pintung 52) S protein with all three protomers in the D0-down conformation determined in situ on intact viral particles.

Hsu, S.T.D., Draczkowski, P., Wang, Y.S.

(2022) Nat Commun 13: 4877-4877

Released	2022-08-03
Method	ELECTRON MICROSCOPY 4.7 Å
Organisms	Porcine epidemic diarrhea virus
Macromolecule	Spike glycoprotein (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, FUC, MAN, NAG

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7W73	Download File View File

Cryo-EM map of PEDV S protein with one protomer in the D0-up conformation while the other two in the D0-down conformation

Hsu, S.T.D., Draczkowski, P., Wang, Y.S.

(2022) Nat Commun 13: 4877-4877

Released	2022-08-03
Method	ELECTRON MICROSCOPY 6.4 Å
Organisms	Porcine epidemic diarrhea virus
Macromolecule	Spike glycoprotein (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, FUC, MAN, NAG

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7WUE	Download File View File

Crystal structure of SARS-CoV-2 Receptor Binding Domain in complex with the monoclonal antibody m31A7

Mohapatra, A.

(2022) Sci Transl Med 14: eabm0899-eabm0899

Released	2022-03-16
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Mus musculus Severe acute respiratory syndrome coronavirus 2
Macromolecule	Spike protein S1 (protein) m31A7 Fab HEAVY CHAIN (protein) m31A7 Fab LIGHT CHAIN (protein)
Unique branched monosaccharides	BMA, FUC, NAG

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7WUH	Download File View File

SARS-CoV-2 Spike in complex with Fab of m31A7

Chen, X., Wu, Y.-M.

(2022) Sci Transl Med 14: eabm0899-eabm0899

Released	2022-03-23
Method	ELECTRON MICROSCOPY 4.7 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	Spike glycoprotein (protein) m31A7 Fab heavy chain (protein) m31A7 Fab light chain (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, FUC, MAN, NAG

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7Y6S	Download File View File

Cryo-EM map of IPEC-J2 cell-derived PEDV PT52 S protein with three D0-up

Hsu, S.T.D., Draczkowski, P., Wang, Y.S.

(2022) Nat Commun 13: 4877-4877

Released	2022-08-03
Method	ELECTRON MICROSCOPY 3.1 Å
Organisms	Porcine epidemic diarrhea virus
Macromolecule	Spike glycoprotein (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, FUC, MAN, NAG

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7Y6T	Download File View File

Cryo-EM map of IPEC-J2 cell-derived PEDV PT52 S protein one D0-down and two D0-up

Hsu, S.T.D., Draczkowski, P., Wang, Y.S.

(2022) Nat Commun 13: 4877-4877

Released	2022-08-03
Method	ELECTRON MICROSCOPY 4.2 Å
Organisms	Porcine epidemic diarrhea virus
Macromolecule	Spike glycoprotein (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, FUC, MAN, NAG

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7Y6U	Download File View File

Symmetry-expanded and locally refined protomer structure of IPEC-J2 cell-derived PEDV PT52 S with a CTD-close conformation

Hsu, S.T.D., Draczkowski, P., Wang, Y.S.

(2022) Nat Commun 13: 4877-4877

Released	2022-08-03
Method	ELECTRON MICROSCOPY 3.2 Å
Organisms	Porcine epidemic diarrhea virus
Macromolecule	Spike glycoprotein (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, FUC, MAN, NAG

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7Y6V	Download File View File

Symmetry-expanded and locally refined protomer structure of IPEC-J2 cell-derived PEDV PT52 S with a CTD-open conformation

Hsu, S.T.D., Draczkowski, P., Wang, Y.S.

(2022) Nat Commun 13: 4877-4877

Released	2022-08-03
Method	ELECTRON MICROSCOPY 3.3 Å
Organisms	Porcine epidemic diarrhea virus
Macromolecule	Spike glycoprotein (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, FUC, MAN, NAG

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7YCK	Download File View File

Crystal structure of SARS-CoV-2 Spike RBD in complex with FP-12A Fab

Nguyen, V.H.T., Chen, X.

(2023) Nat Commun 14: 311-311

Released	2023-02-01
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	FP-12A Fab heavy chain (protein) FP-12A Fab light chain (protein) Spike protein S1 (protein)
Unique branched monosaccharides	BMA, FUC, NAG

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7YCL	Download File View File

Crystal structure of SARS-CoV-2 Spike RBD in complex with IS-9A Fab

Mohapatra, A., Chen, X.

(2023) Nat Commun 14: 311-311

Released	2023-02-01
Method	X-RAY DIFFRACTION 2.13 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	IS-9A Fab heavy chain (protein) IS-9A Fab light chain (protein) Spike protein S1 (protein)
Unique branched monosaccharides	FUC, NAG

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7YCN	Download File View File

Crystal structure of SARS-CoV-2 Spike RBD in complex with IY-2A Fab

Mohapatra, A., Chen, X.

(2023) Nat Commun 14: 311-311

Released	2023-02-01
Method	X-RAY DIFFRACTION 2.85 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	IY-2A Fab heavy chain (protein) IY-2A Fab light chain (protein) Spike protein S1 (protein)
Unique Ligands	NAG

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7YQM	Download File View File

2.9-angstrom cryo-EM structure of Ecoli malate synthase G

Wu, K.-P., Wu, Y.-M., Lu, Y.-C.

(2023) J Struct Biol 215: 107958-107958

Released	2023-03-29
Method	ELECTRON MICROSCOPY 2.89 Å
Organisms	Escherichia coli DH5[alpha]
Macromolecule	Malate synthase G (protein)

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7YQN	Download File View File

Crystal structure of Ecoli malate synthase G

Wu, K.-P., Lu, Y.-C., Ko, T.-P.

(2023) J Struct Biol 215: 107958-107958

Released	2023-03-29
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Escherichia coli DH5[alpha]
Macromolecule	Malate synthase G (protein)
Unique Ligands	BME, CL, GOL, NA

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8H5B	Download File View File

The cryo-EM structure of nuclear transport receptor Kap114p complex with yeast TATA-box binding protein

Hsia, K.C., Liao, C.C., Wang, C.H., Wu, Y.M.

(2023) Nat Commun 14: 5518-5518

Released	2023-09-20
Method	ELECTRON MICROSCOPY 4.03 Å
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	Importin subunit beta-5 (protein) TATA-box-binding protein (protein)

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8HHX	Download File View File

SARS-CoV-2 Delta Spike in complex with FP-12A

Chen, X., Wu, Y.-M.

(2023) Nat Commun 14: 311-311

Released	2023-02-01
Method	ELECTRON MICROSCOPY 3.62 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	FP-12A Fab heavy chain (protein) FP-12A Fab light chain (protein) Spike glycoprotein (protein)
Unique Ligands	NAG
Unique branched monosaccharides	NAG

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8HHY	Download File View File

SARS-CoV-2 Delta Spike in complex with IS-9A

Mohapatra, A., Wu, Y.-M.

(2023) Nat Commun 14: 311-311

Released	2023-02-01
Method	ELECTRON MICROSCOPY 2.77 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	IS-9A Fab heavy chain (protein) IS-9A Fab light chain (protein) Spike glycoprotein (protein)
Unique Ligands	NAG
Unique branched monosaccharides	NAG

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8HHZ	Download File View File

SARS-CoV-2 Omicron BA.1 Spike in complex with IY-2A

Chen, X., Mohapatra, A., Wu, Y.-M.

(2023) Nat Commun 14: 311-311

Released	2023-02-01
Method	ELECTRON MICROSCOPY 4.28 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	IY-2A Fab heavy chain (protein) IY-2A Fab light chain (protein) Spike glycoprotein (protein)

1 to 24 of 24 Structures

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