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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Ni, X."

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Search Summary

This query matches 831 Structures.

Refinements

Structure Determination Methodology

experimental (831)

Scientific Name of Source Organism

	Coxsackievirus A16 (284)
	Chikungunya virus (133)
	Zika virus (123)
	Severe acute respiratory syndrome coronavirus 2 (112)
	enterovirus D68 (104)
	Homo sapiens (57)
	Mus musculus (12)
	Thermothelomyces thermophilus (6)
	Bacillus subtilis (3)
	Arabidopsis thaliana (2)

More...

Taxonomy

	Riboviria (759)
	Eukaryota (72)
	Bacteria (4)
	Varidnaviria (2)
	Duplodnaviria (1)
	other sequences (1)

Experimental Method

	X-RAY DIFFRACTION (801)
	ELECTRON MICROSCOPY (30)

Polymer Entity Type

	Protein (831)
	DNA (5)
	RNA (3)

Refinement Resolution (Å)

	1.0 - 1.5 (453)
	1.5 - 2.0 (289)
	2.0 - 2.5 (45)
	2.5 - 3.0 (17)
	3.0 - 3.5 (20)
	3.5 - 4.0 (5)
	4.0 - 4.5 (1)
	> 4.5 (1)

Release Date

	2010 - 2014 (7)
	2015 - 2019 (15)
	2020 - 2024 (569)
	2025 - 2029 (240)

Enzyme Classification Name

	Hydrolases (753)
	Transferases (7)

Membrane Protein Annotation

	PDBTM (15)
	mpstruc (13)
	OPM (11)
	MemProtMD (3)

Symmetry Type

	Asymmetric (803)
	Cyclic (28)

SCOP Classification

	Artifacts (16)
	All beta proteins (13)
	Alpha and beta proteins (a/b) (7)
	All alpha proteins (7)
	Alpha and beta proteins (a+b) (3)

AllSelected

1 to 25 of 831 Structures

Page 1 of 34

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4JBJ \| pdb_00004jbj	Download File View File

Structural mimicry for functional antagonism

Ru, H., Ni, X., Ma, F., Zhao, L., Ding, W., Hung, L.-W., Shaw, N., Cheng, G., Liu, Z.-J.

(2013) Cell Res 23: 855-858

Released	2013-06-26
Method	X-RAY DIFFRACTION 2.692 Å
Organisms	Mus musculus
Macromolecule	Interferon-activable protein 202 (protein)

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4JBK \| pdb_00004jbk	Download File View File

Molecular basis for abrogation of activation of pro-inflammatory cytokines

Ru, H., Ni, X., Crowley, C., Zhao, L., Ding, W., Hung, L.-W., Shaw, N., Cheng, G., Liu, Z.-J.

(2013) Cell Res 23: 855-858

Released	2013-06-26
Method	X-RAY DIFFRACTION 2.963 Å
Organisms	Mus musculus
Macromolecule	Interferon-activable protein 202 (protein) DNA (5'-D(PGPGPAPAPTPTPAPTPAPAPTPTPCPC)-3') (nucleic acid)

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4JBM \| pdb_00004jbm	Download File View File

Structure of murine DNA binding protein bound with ds DNA

Ru, H., Ni, X., Crowley, C., Zhao, L., Ding, W., Hung, L.-W., Shaw, N., Cheng, G., Liu, Z.-J.

(2013) Cell Res 23: 855-858

Released	2013-06-26
Method	X-RAY DIFFRACTION 2.218 Å
Organisms	Mus musculus
Macromolecule	Interferon-inducible protein AIM2 (protein) DNA (5'-D(GPGPCPGPCPGPCPGPCPGPCPC)-3') (nucleic acid)

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4NOJ \| pdb_00004noj	Download File View File

Crystal structure of the mature form of asparaginyl endopeptidase (AEP)/Legumain activated at pH 3.5

Zhao, L., Hua, T., Ru, H., Ni, X., Shaw, N., Jiao, L., Ding, W., Qu, L., Ouyang, S., Liu, Z.J.

(2014) Cell Res 24: 344-358

Released	2014-02-19
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Mus musculus
Macromolecule	Legumain (protein)

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4NOK \| pdb_00004nok	Download File View File

Crystal structure of proenzyme asparaginyl endopeptidase (AEP)/Legumain at pH 7.5

Zhao, L., Hua, T., Ru, H., Ni, X., Shaw, N., Jiao, L., Ding, W., Qu, L., Ouyang, S., Liu, Z.J.

(2014) Cell Res 24: 344-358

Released	2014-02-19
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Mus musculus
Macromolecule	Legumain (protein)

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4NOL \| pdb_00004nol	Download File View File

Crystal structure of proenzyme asparaginyl endopeptidase (AEP)/Legumain mutant D233A at pH 7.5

Zhao, L., Hua, T., Ru, H., Ni, X., Shaw, N., Jiao, L., Ding, W., Qu, L., Ouyang, S., Liu, Z.J.

(2014) Cell Res 24: 344-358

Released	2014-02-19
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Mus musculus
Macromolecule	Legumain (protein)

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4NOM \| pdb_00004nom	Download File View File

Crystal structure of asparaginyl endopeptidase (AEP)/Legumain activated at pH 4.5

Zhao, L., Hua, T., Ru, H., Ni, X., Shaw, N., Jiao, L., Ding, W., Qu, L., Ouyang, S., Liu, Z.J.

(2014) Cell Res 24: 344-358

Released	2014-02-19
Method	X-RAY DIFFRACTION 2.006 Å
Organisms	Mus musculus
Macromolecule	Legumain (protein)

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4QGU \| pdb_00004qgu	Download File View File

protein domain complex with ssDNA

Ni, X., Ru, H., Zhao, L., Shaw, N., Ding, W., Songying, O., Liu, Z.-J.

(2016) J Mol Cell Biol 8: 51-61

Released	2015-06-17
Method	X-RAY DIFFRACTION 2.545 Å
Organisms	Homo sapiens
Macromolecule	Gamma-interferon-inducible protein 16 (protein) DNA (5'-D(PAPGPGPCPCPGPGPCPGPTPGPA)-3') (nucleic acid)

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6OSJ \| pdb_00006osj	Download File View File

Cryo-EM structure of the N-terminally acetylated full length alpha-synuclein fibrils (Ac1-140)

Xiaodan, N., Ryan, P.M., Jiansen, J., Jennifer, C.L.

(2019) J Mol Biology 431: 3913-3919

Released	2019-09-25
Method	ELECTRON MICROSCOPY 2.8 Å
Organisms	Homo sapiens
Macromolecule	Alpha-synuclein (protein)

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6OSL \| pdb_00006osl	Download File View File

Cryo-EM structure of the N-terminally acetylated C-terminal Alpha-synuclein truncation Ac1-122

Ni, X., McGlinchey, R.P., Jiang, J., Lee, J.C.

(2019) J Mol Biology 431: 3913-3919

Released	2019-09-25
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Homo sapiens
Macromolecule	Alpha-synuclein (protein)

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6OSM \| pdb_00006osm	Download File View File

Cryo-EM structure of the N-terminally acetylated C-terminal Alpha-synuclein truncation Ac1-103

Xiaodan, N., Ryan, P.M., Jiansen, J., Jennifer, C.L.

(2019) J Mol Biology 431: 3913-3919

Released	2019-09-25
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Homo sapiens
Macromolecule	Alpha-synuclein (protein)

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6PPF \| pdb_00006ppf	Download File View File

Bacterial 45SRbgA ribosomal particle class B

Ortega, J., Seffouh, A., Jain, N., Jahagirdar, D., Basu, K., Razi, A., Ni, X., Guarne, A., Britton, R.A.

(2019) Nucleic Acids Res 47: 10414-10425

Released	2019-09-18
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Bacillus subtilis
Macromolecule	Unique protein chains: 19 Unique nucleic acid chains: 2

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6PPK \| pdb_00006ppk	Download File View File

RbgA+45SRbgA complex

Ortega, J.

(2019) Nucleic Acids Res 47: 10414-10425

Released	2019-09-18
Method	ELECTRON MICROSCOPY 4.4 Å
Organisms	Bacillus subtilis
Macromolecule	Unique protein chains: 22 Unique nucleic acid chains: 2
Unique Ligands	GNP

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6PVK \| pdb_00006pvk	Download File View File

Bacterial 45SRbgA ribosomal particle class A

Ortega, J., Seffouh, A., Jain, N., Jahagirdar, D., Basu, K., Razi, A., Ni, X., Guarne, A., Britton, R.A.

(2019) Nucleic Acids Res 47: 10414-10425

Released	2019-09-18
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Bacillus subtilis
Macromolecule	Unique protein chains: 16 Unique nucleic acid chains: 1

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6SHZ \| pdb_00006shz	Download File View File

p53 cancer mutant Y220C

Joerger, A.C., Structural Genomics Consortium (SGC)

(2020) ACS Chem Biol 15: 657-668

Released	2020-02-19
Method	X-RAY DIFFRACTION 1.24 Å
Organisms	Homo sapiens
Macromolecule	Cellular tumor antigen p53 (protein)
Unique Ligands	EDO, GOL, ZN

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6SI0 \| pdb_00006si0	Download File View File

p53 cancer mutant Y220C in complex with small-molecule stabilizer PK9323

Joerger, A.C., Kraemer, A., Knapp, S., Structural Genomics Consortium (SGC)

(2020) ACS Chem Biol 15: 657-668

Released	2020-02-19
Method	X-RAY DIFFRACTION 1.53 Å
Organisms	Homo sapiens
Macromolecule	Cellular tumor antigen p53 (protein)
Unique Ligands	EDO, EPE, GOL, LEK, ZN

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6SI1 \| pdb_00006si1	Download File View File

p53 cancer mutant Y220H

Joerger, A.C., Kraemer, A., Knapp, S., Structural Genomics Consortium (SGC)

(2020) ACS Chem Biol 15: 657-668

Released	2020-02-19
Method	X-RAY DIFFRACTION 1.44 Å
Organisms	Homo sapiens
Macromolecule	Cellular tumor antigen p53 (protein)
Unique Ligands	EDO, EPE, GOL, ZN