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232,418 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Ji, Y."

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Search Summary

This query matches 32 Structures.

Refinements

Structure Determination Methodology

experimental (32)

Scientific Name of Source Organism

	Homo sapiens (18)
	Yersinia frederiksenii (7)
	Mus musculus (4)
	synthetic construct (4)
	Bos taurus (3)
	Lama glama (2)
	Toxoplasma gondii (2)
	Trichomonas vaginalis (2)
	Cricetulus griseus (1)
	Mammalian orthoreovirus 1 Lang (1)

More...

Taxonomy

	Eukaryota (24)
	Bacteria (7)
	other sequences (4)
	Riboviria (1)

Experimental Method

	ELECTRON MICROSCOPY (19)
	X-RAY DIFFRACTION (7)
	SOLUTION NMR (6)

Polymer Entity Type

	Protein (32)
	RNA (4)

Refinement Resolution (Å)

	1.5 - 2.0 (1)
	2.0 - 2.5 (2)
	2.5 - 3.0 (9)
	3.0 - 3.5 (10)
	3.5 - 4.0 (1)
	> 4.5 (3)

Release Date

	2000 - 2004 (1)
	2005 - 2009 (1)
	2010 - 2014 (1)
	2015 - 2019 (4)
	2020 - 2024 (22)
	2025 - 2029 (3)

Enzyme Classification Name

	Hydrolases (7)
	Transferases (5)
	Oxidoreductases (4)

Membrane Protein Annotation

	PDBTM (18)
	mpstruc (17)
	OPM (11)
	MemProtMD (9)

Symmetry Type

	Asymmetric (30)
	Cyclic (1)
	Icosahedral (1)

SCOP Classification

	Alpha and beta proteins (a+b) (1)
	Low resolution protein structures (1)
	Small proteins (1)

AllSelected

1 to 25 of 32 Structures

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1DU9	Download File View File

SOLUTION STRUCTURE OF BMP02, A NATURAL SCORPION TOXIN WHICH BLOCKS APAMIN-SENSITIVE CALCIUM-ACTIVATED POTASSIUM CHANNELS, 25 STRUCTURES

Xu, Y., Wu, J., Pei, J., Shi, Y., Ji, Y., Tong, Q.

(2000) Biochemistry 39: 13669-13675

Released	2000-02-04
Method	SOLUTION NMR
Organisms	Olivierus martensii
Macromolecule	BMP02 NEUROTOXIN (protein)

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2CSE	Download File View File

Features of Reovirus Outer-Capsid Protein mu1 Revealed by Electron and Image Reconstruction of the virion at 7.0-A Resolution

Zhang, X., Ji, Y., Zhang, L., Harrison, S.C., Marinescu, D.C., Nibert, M.L., Baker, T.S.

(2005) Structure 13: 1545-1557

Released	2005-10-18
Method	ELECTRON MICROSCOPY 7 Å
Organisms	Mammalian orthoreovirus 1 Lang Mammalian orthoreovirus 3 Dearing
Macromolecule	Unique protein chains: 6

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2M86	Download File View File

Solution structure of Hdm2 with engineered cyclotide

Majumder, S., Ji, Y., Millard, M., Borra, R., Bi, T., Elnagar, A.Y., Neamati, N., Camarero, J.A.

(2013) J Am Chem Soc 135: 11623-11633

Released	2013-07-31
Method	SOLUTION NMR
Organisms	Homo sapiens synthetic construct
Macromolecule	E3 ubiquitin-protein ligase Mdm2 (protein) MCo-PMI (protein)

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5XXB	Download File View File

Large subunit of Toxoplasma gondii ribosome

Li, Z., Guo, Q., Zheng, L., Ji, Y., Xie, Y., Lai, D., Lun, Z., Suo, X., Gao, N.

(2017) Cell Res 27: 1275-1288

Released	2017-08-30
Method	ELECTRON MICROSCOPY 3.17 Å
Organisms	Toxoplasma gondii
Macromolecule	Unique protein chains: 41 Unique nucleic acid chains: 3

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5XXU	Download File View File

Small subunit of Toxoplasma gondii ribosome

LI, Z., Guo, Q., Zheng, L., Ji, Y., Xie, Y., Lai, D., Lun, Z., Suo, X., Gao, N.

(2017) Cell Res 27: 1275-1288

Released	2017-08-30
Method	ELECTRON MICROSCOPY 3.35 Å
Organisms	Toxoplasma gondii
Macromolecule	Unique protein chains: 33 Unique nucleic acid chains: 1

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5XY3	Download File View File

Large subunit of Trichomonas vaginalis ribosome

Li, Z., Guo, Q., Zheng, L., Ji, Y., Xie, Y., Lai, D., Lun, Z., Suo, X., Gao, N.

(2017) Cell Res 27: 1275-1288

Released	2017-08-30
Method	ELECTRON MICROSCOPY 3.2 Å
Organisms	Trichomonas vaginalis
Macromolecule	Unique protein chains: 40 Unique nucleic acid chains: 3

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5XYI	Download File View File

Small subunit of Trichomonas vaginalis ribosome

Li, Z., Guo, Q., Zheng, L., Ji, Y., Xie, Y., Lai, D., Lun, Z., Suo, X., Gao, N.

(2017) Cell Res 27: 1275-1288

Released	2017-08-30
Method	ELECTRON MICROSCOPY 3.35 Å
Organisms	Trichomonas vaginalis
Macromolecule	Unique protein chains: 33 Unique nucleic acid chains: 1

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6LGV	Download File View File

Crystal structure of a cysteine-pair mutant (P10C-S291C) of a bacterial bile acid transporter in an inward-facing state complexed with citrate

Wang, X., Lyu, Y., Ji, Y., Sun, Z., Zhou, X.

(2021) Acta Crystallogr D Struct Biol 77: 117-125

Released	2020-12-09
Method	X-RAY DIFFRACTION 1.847 Å
Organisms	Yersinia frederiksenii
Macromolecule	Transporter, sodium/bile acid symporter family (protein)
Unique Ligands	A6L, CIT

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6LGY	Download File View File

Crystal structure of a cysteine-pair mutant (P10C-S291C) of a bacterial bile acid transporter in an inward-facing state complexed with glycine and sodium

Wang, X., Lyu, Y., Ji, Y., Sun, Z., Zhou, X.

(2021) Acta Crystallogr D Struct Biol 77: 117-125

Released	2020-12-09
Method	X-RAY DIFFRACTION 2.247 Å
Organisms	Yersinia frederiksenii
Macromolecule	Transporter, sodium/bile acid symporter family (protein)
Unique Ligands	2PE, A6L, GLY, NA

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6LGZ	Download File View File

Crystal structure of a cysteine-pair mutant (P10C-S291C) of a bacterial bile acid transporter in an inward-facing state complexed with sulfate

Wang, X., Lyu, Y., Ji, Y., Sun, Z., Zhou, X.

(2021) Acta Crystallogr D Struct Biol 77: 117-125

Released	2020-12-09
Method	X-RAY DIFFRACTION 2.428 Å
Organisms	Yersinia frederiksenii
Macromolecule	Transporter, sodium/bile acid symporter family (protein)
Unique Ligands	A6L, SO4

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6LH0	Download File View File

Crystal structure of a cysteine-pair mutant (P10C-S291C) of a bacterial bile acid transporter in an inward-facing apo-state

Wang, X., Lyu, Y., Ji, Y., Sun, Z., Zhou, X.

(2021) Acta Crystallogr D Struct Biol 77: 117-125

Released	2020-12-09
Method	X-RAY DIFFRACTION 2.812 Å
Organisms	Yersinia frederiksenii
Macromolecule	Transporter, sodium/bile acid symporter family (protein)
Unique Ligands	A6L

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6LH1	Download File View File

Crystal structure of a cysteine-pair mutant (Y113C-P190C) of a bacterial bile acid transporter trapped in an outward-facing conformation

Wang, X., Lyu, Y., Ji, Y., Sun, Z., Zhou, X.

(2021) Acta Crystallogr D Struct Biol 77: 108-116

Released	2020-12-09
Method	X-RAY DIFFRACTION 2.861 Å
Organisms	Yersinia frederiksenii
Macromolecule	Transporter, sodium/bile acid symporter family (protein)
Unique Ligands	A6L, CIT

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7CYG	Download File View File

Crystal structure of a cysteine-pair mutant (Y113C-P190C) of a bacterial bile acid transporter before disulfide bond formation

Wang, X., Lyu, Y., Ji, Y., Sun, Z., Zhou, X.

(2021) Acta Crystallogr D Struct Biol 77: 108-116

Released	2021-01-13
Method	X-RAY DIFFRACTION 3.198 Å
Organisms	Yersinia frederiksenii
Macromolecule	Transporter, sodium/bile acid symporter family (protein)

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7CYK	Download File View File

Crystal structure of a second cysteine-pair mutant (V110C-I197C) of a bacterial bile acid transporter before disulfide bond formation

Wang, X., Lyu, Y., Ji, Y., Sun, Z., Zhou, X.

(2021) Acta Crystallogr D Struct Biol 77: 108-116

Released	2021-01-13
Method	X-RAY DIFFRACTION 2.785 Å
Organisms	Yersinia frederiksenii
Macromolecule	Transporter, sodium/bile acid symporter family (protein)
Unique Ligands	HG

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7XW5	Download File View File

TSHR-thyroid stimulating hormone-Gs-ML109 complex

Duan, J., Xu, P., Luan, X., Ji, Y., Yuan, Q., He, X., Ye, J., Cheng, X., Jiang, H., Zhang, S., Jiang, Y., Xu, H.E.

(2022) Nature 609: 854-859

Released	2022-08-24
Method	ELECTRON MICROSCOPY 2.96 Å
Organisms	Homo sapiens Lama glama
Macromolecule	Unique protein chains: 7
Unique Ligands	CLR, HOI, NAG, PLM

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7XW6	Download File View File

TSHR-Gs-M22 antibody-ML109 complex

Duan, J., Xu, P., Luan, X., Ji, Y., Yuan, Q., He, X., Ye, J., Cheng, X., Jiang, H., Zhang, S., Jiang, Y., Xu, H.E.

(2022) Nature 609: 854-859

Released	2022-08-17
Method	ELECTRON MICROSCOPY 2.78 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Unique protein chains: 7
Unique Ligands	CLR, HOI, NAG, PLM

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7XW7	Download File View File

TSHR-K1-70 complex

Duan, J., Xu, P., Luan, X., Ji, Y., Yuan, Q., He, X., Ye, J., Cheng, X., Jiang, H., Zhang, S., Jiang, Y., Xu, H.E.

(2022) Nature 609: 854-859

Released	2022-08-17
Method	ELECTRON MICROSCOPY 5.5 Å
Organisms	Homo sapiens
Macromolecule	K1-70 scFv (protein) Thyrotropin receptor (protein)

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8GV3	Download File View File

The cryo-EM structure of GSNOR with NYY001

Xia, Y., Zhang, Q., Yao, D., Zhao, S., Xie, L., Ji, Y., Cao, Y.

To be published

Released	2023-09-20
Method	ELECTRON MICROSCOPY 3.05 Å
Organisms	Homo sapiens
Macromolecule	Alcohol dehydrogenase class-3 (protein)
Unique Ligands	NAD, WKZ, ZN

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8HBD	Download File View File

Cryo-EM structure of IRL1620-bound ETBR-Gi complex

Yuan, Q., Ji, Y., Jiang, Y., Duan, J., Xu, H.E.

(2023) Nat Commun 14: 1268-1268

Released	2023-03-22
Method	ELECTRON MICROSCOPY 2.99 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Unique protein chains: 6

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8HCQ	Download File View File

Cryo-EM structure of endothelin1-bound ETAR-Gq complex

Yuan, Q., Jiang, Y., Xu, H.E., Ji, Y., Duan, J.

(2023) Nat Commun 14: 1268-1268

Released	2023-03-22
Method	ELECTRON MICROSCOPY 3.01 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Unique protein chains: 6

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8HCX	Download File View File

Cryo-EM structure of Endothelin1-bound ETBR-Gq complex

Yuan, Q., Jiang, Y., Xu, H.E., Ji, Y., Duan, J.

(2023) Nat Commun 14: 1268-1268

Released	2023-03-22
Method	ELECTRON MICROSCOPY 3.5 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Unique protein chains: 6

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8I2G	Download File View File

FSHR-Follicle stimulating hormone-compound 716340-Gs complex

Duan, J., Xu, P., Yang, J., Ji, Y., Zhang, H., Mao, C., Luan, X., Jiang, Y., Zhang, Y., Zhang, S., Xu, H.E.

(2023) Nat Commun 14: 519-519

Released	2023-03-29
Method	ELECTRON MICROSCOPY 2.8 Å
Organisms	Cricetulus griseus Homo sapiens Lama glama
Macromolecule	Unique protein chains: 7
Unique Ligands	CLR, MYR, NAG, O6F, PLM
Unique branched monosaccharides	NAG

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8I2H	Download File View File

Follicle stimulating hormone receptor

Duan, J., Xu, P., Yang, J., Ji, Y., Zhang, H., Mao, C., Luan, X., Jiang, Y., Zhang, Y., Zhang, S., Xu, H.E.

(2023) Nat Commun 14: 519-519

Released	2023-03-22
Method	ELECTRON MICROSCOPY 6 Å
Organisms	Homo sapiens
Macromolecule	Follicle-stimulating hormone receptor (protein)

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8JPB	Download File View File

cryo-EM structure of NTSR1-GRK2-Galpha(q) complexes 1

Duan, J., Liu, H., Zhao, F., Yuan, Q., Ji, Y., Xu, H.E.

(2023) Nature 620: 676-681

Released	2023-08-09
Method	ELECTRON MICROSCOPY 3.07 Å
Organisms	Bos taurus Homo sapiens synthetic construct
Macromolecule	Beta-adrenergic receptor kinase 1 (protein) Guanine nucleotide-binding protein G(q) subunit alpha (protein) NTS(8-13) (protein) Neurotensin receptor type 1 (protein)
Unique Ligands	ALF, GDP, MG, SRW, STU

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8JPC	Download File View File

cryo-EM structure of NTSR1-GRK2-Galpha(q) complexes 2

Duan, J., Liu, H., Zhao, F., Yuan, Q., Ji, Y., Xu, H.E.

(2023) Nature 620: 676-681

Released	2023-08-09
Method	ELECTRON MICROSCOPY 3.07 Å
Organisms	Bos taurus Homo sapiens synthetic construct
Macromolecule	Beta-adrenergic receptor kinase 1 (protein) Guanine nucleotide-binding protein G(q) subunit alpha (protein) NTS(8-13) (protein) Neurotensin receptor type 1 (protein)
Unique Ligands	ALF, GDP, MG, SRW, STU

1 to 25 of 32 Structures

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