RCSB PDB: Search

Warning You are using a web browser that we do not support. Our website will not work properly. Please update to a newer version or download a new web browser, such as Chrome or Firefox.

Help

Help

RCSB PDB

Deposit
- PDBx/mmCIF file
- pdb_extract
- SF-Tool
- Ligand Expo
- MAXIT
- Validation Server
- Validation API
- Information for Journals
- Validation Task Forces
- wwPDB OneDep System
- PDB-IHM
Search
Visualize
Analyze
Download
Learn
- Training Courses
- Guide to PDB Data
- Molecule of the Month
- Educational Resources
- Curricula
- Browse
- News
- SciArt Galleries
- Irving Geis
- David Goodsell
About
Careers
COVID-19

232,418 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

	Include CSM
Advanced Search \| Browse Annotations		Help

Search
Query History
Browse Annotations
MyPDB

QUERY: Structure Author = "Xue, X."

MyPDB Login

Search API

Advanced Search Query Builder

Help

Full Text

Structure Attributes

Help

NOT

Count

Add Subquery

Chemical Attributes

Sequence Similarity

Sequence Motif

Structure Similarity

Structure Motif

Chemical Similarity

Return

grouped by

Include Computed Structure Models (CSM)

Count

Clear

Search Summary

This query matches 37 Structures.

Refinements

Structure Determination Methodology

experimental (37)

Scientific Name of Source Organism

	Homo sapiens (23)
	synthetic construct (7)
	Severe acute respiratory syndrome-related coronavirus (6)
	Arabidopsis thaliana (3)
	Escherichia coli BL21(DE3) (2)
	Saccharomyces cerevisiae S288C (2)
	Escherichia coli K-12 (1)
	Transmissible gastroenteritis virus (1)
	Variola major virus (1)
	Zika virus (1)

More...

Taxonomy

	Eukaryota (28)
	Riboviria (8)
	other sequences (7)
	Bacteria (3)
	Varidnaviria (1)
	unclassified sequences (1)

Experimental Method

	X-RAY DIFFRACTION (36)
	SOLUTION NMR (1)

Polymer Entity Type

	Protein (37)
	DNA (3)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (11)
	2.0 - 2.5 (8)
	2.5 - 3.0 (9)
	3.0 - 3.5 (2)
	3.5 - 4.0 (1)
	4.0 - 4.5 (4)

Release Date

	2005 - 2009 (7)
	2010 - 2014 (7)
	2015 - 2019 (22)
	2020 - 2024 (1)

Enzyme Classification Name

Hydrolases (15)

Symmetry Type

	Asymmetric (28)
	Cyclic (9)

SCOP Classification

	All beta proteins (7)
	Artifacts (2)

AllSelected

1 to 25 of 37 Structures

Page 1 of 2

Sort by

Explore in 3D

1WOF	Download File View File

Crystal Structure Of SARS-CoV Mpro in Complex with an Inhibitor N1

Yang, H., Bartlam, M., Xue, X., Yang, K., Liang, W., Rao, Z.

(2005) PLoS Biol 3: 324-334

Released	2005-08-30
Method	X-RAY DIFFRACTION 2 Å
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	3C-like proteinase (protein)
Unique Ligands	I12

Explore in 3D

2AMD	Download File View File

Crystal Structure Of SARS_CoV Mpro in Complex with an Inhibitor N9

Yang, H., Xue, X., Yang, K., Zhao, Q., Bartlam, M., Rao, Z.

(2005) PLoS Biol 3: 324-334

Released	2005-09-13
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	3C-like proteinase (protein)
Unique Ligands	9IN

Explore in 3D

2AMP	Download File View File

Crystal Structure Of Porcine Transmissible Gastroenteritis Virus Mpro in Complex with an Inhibitor N1

Yang, H., Xue, X., Yang, K., Zhao, Q., Bartlam, M., Rao, Z.

(2005) PLoS Biol 3: 324-334

Released	2005-09-13
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Transmissible gastroenteritis virus
Macromolecule	3C-like proteinase (protein)
Unique Ligands	I12

Explore in 3D

2AMQ	Download File View File

Crystal Structure Of SARS_CoV Mpro in Complex with an Inhibitor N3

Yang, H., Xue, X., Yang, K., Zhao, Q., Bartlam, M., Rao, Z.

(2005) PLoS Biol 3: 324-334

Released	2005-09-13
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Severe acute respiratory syndrome-related coronavirus synthetic construct
Macromolecule	3C-like proteinase (protein) N-[(5-METHYLISOXAZOL-3-YL)CARBONYL]ALANYL-L-VALYL-N~1~-((1R,2Z)-4-(BENZYLOXY)-4-OXO-1-{[(3R)-2-OXOPYRROLIDIN-3-YL]METHYL}BUT-2-ENYL)-L-LEUCINAMIDE (protein)

Explore in 3D

2D2D	Download File View File

Crystal Structure Of SARS-CoV Mpro in Complex with an Inhibitor I2

Yang, H., Bartlam, M., Xue, X., Yang, K., Liang, W., Ding, Y., Rao, Z.

(2005) PLoS Biol 3: 324-334

Released	2005-09-20
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	3C-like proteinase (protein)
Unique Ligands	ENB

Explore in 3D

2H2Z	Download File View File

Crystal structure of SARS-CoV main protease with authentic N and C-termini

Yang, H., Xue, X., Shen, W., Zhao, Q., Rao, Z.

(2007) J Mol Biol 366: 965-975

Released	2007-04-03
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	Replicase polyprotein 1ab (protein)

Explore in 3D

2HOB	Download File View File

Crystal structure of SARS-CoV main protease with authentic N and C-termini in complex with a Michael acceptor N3

Xue, X., Yang, H., Shen, W., Zhao, Q., Li, J., Rao, Z.

(2007) J Mol Biol 366: 965-975

Released	2007-04-03
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Severe acute respiratory syndrome-related coronavirus synthetic construct
Macromolecule	N-[(5-METHYLISOXAZOL-3-YL)CARBONYL]ALANYL-L-VALYL-N~1~-((1R,2Z)-4-(BENZYLOXY)-4-OXO-1-{[(3R)-2-OXOPYRROLIDIN-3-YL]METHYL}BUT-2-ENYL)-L-LEUCINAMIDE (protein) Replicase polyprotein 1ab (protein)

Explore in 3D

3MP1	Download File View File

Complex structure of Sgf29 and trimethylated H3K4

Li, J., Ruan, J., Wu, M., Xue, X., Zang, J.

(2011) EMBO J 30: 2829-2842

Released	2011-05-04
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Escherichia coli K-12 Saccharomyces cerevisiae S288C synthetic construct unidentified
Macromolecule	H3K4me3 peptide (protein) Maltose-binding periplasmic protein,LINKER,SAGA-associated factor 29 (protein)
Unique Ligands	ACT
Unique branched monosaccharides	GLC

Explore in 3D

4LG5	Download File View File

ABA-mimicking ligand QUINABACTIN in complex with ABA receptor PYL2 and PP2C HAB1

Zhou, X.E., Gao, M., Liu, X., Zhang, Y., Xue, X., Melcher, K., Gao, P., Wang, F., Zeng, L., Zhao, Y., Zhao, Y., Deng, P., Zhong, D., Zhu, J.-K., Xu, Y., Xu, H.E.

(2013) Cell Res 23: 1043-1054

Released	2013-08-14
Method	X-RAY DIFFRACTION 2.88 Å
Organisms	Arabidopsis thaliana
Macromolecule	Abscisic acid receptor PYL2 (protein) Protein phosphatase 2C 16 (protein)
Unique Ligands	A1O, MG

Explore in 3D

4LGA	Download File View File

ABA-mimicking ligand N-(2-OXO-1-PROPYL-1,2,3,4-TETRAHYDROQUINOLIN-6-YL)-1-PHENYLMETHANESULFONAMIDE in complex with ABA receptor PYL2 and PP2C HAB1

Zhou, X.E., Gao, M., Liu, X., Zhang, Y., Xue, X., Melcher, K., Gao, P., Wang, F., Zeng, L., Zhao, Y., Zhao, Y., Deng, P., Zhong, D., Zhu, J.-K., Xu, Y., Xu, H.E.

(2013) Cell Res 23: 1043-1054

Released	2013-08-14
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Arabidopsis thaliana
Macromolecule	Abscisic acid receptor PYL2 (protein) Protein phosphatase 2C 16 (protein)
Unique Ligands	A2O, MG, SO4

Explore in 3D

4LGB	Download File View File

ABA-mimicking ligand N-(1-METHYL-2-OXO-1,2,3,4-TETRAHYDROQUINOLIN-6-YL)-1-(4-METHYLPHENYL)METHANESULFONAMIDE in complex with ABA receptor PYL2 and PP2C HAB1

Zhou, X.E., Gao, M., Liu, X., Zhang, Y., Xue, X., Melcher, K., Gao, P., Wang, F., Zeng, L., Zhao, Y., Zhao, Y., Deng, P., Zhong, D., Zhu, J.-K., Xu, Y., Xu, H.E.

(2013) Cell Res 23: 1043-1054

Released	2013-08-14
Method	X-RAY DIFFRACTION 3.15 Å
Organisms	Arabidopsis thaliana
Macromolecule	Abscisic acid receptor PYL2 (protein) Protein phosphatase 2C 16 (protein)
Unique Ligands	1W7, MG, SO4

Explore in 3D

4REA	Download File View File

A Nuclease DNA complex

Zhao, Q., Xue, X., Longerich, S., Sung, P., Xiong, Y.

(2014) Nat Commun 5: 5726-5726

Released	2014-12-24
Method	X-RAY DIFFRACTION 3.81 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Fanconi-associated nuclease 1 (protein) DNA (5'-D(TPGPCPTPCPGPCPCPAPC)-3') (nucleic acid) DNA (5'-D(PCPGPTPGPGPCPGPAPGPC)-3') (nucleic acid) DNA (5'-D(PGPGPCPGPAPGPCPGPCPTPCPGPCPCPAPCP*G)-3') (nucleic acid)

Explore in 3D

4REB	Download File View File

Structural Insights into 5' Flap DNA Unwinding and Incision by the Human FAN1 Dimer

Zhao, Q., Xue, X., Longerich, S., Sung, P., Xiong, Y.

(2014) Nat Commun 5: 5726-5726

Released	2014-12-24
Method	X-RAY DIFFRACTION 4.2 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Fanconi-associated nuclease 1 (protein) DNA (5'-D(PCPGPTPGPGPCPGPAPGPCPGPCPTPCPGPCPCPAPCPG)-3') (nucleic acid) DNA (5'-D(PGPCPTPCPGPCPCPAPCPG)-3') (nucleic acid) DNA (5'-D(PGPTPGPGPCPGPAPGP*C)-3') (nucleic acid)
Unique Ligands	SM

Explore in 3D

4REC	Download File View File

A nuclease-DNA complex form 3

Zhao, Q., Xue, X., Longerich, S., Sung, P., Xiong, Y.

(2014) Nat Commun 5: 5726-5726

Released	2014-12-24
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Fanconi-associated nuclease 1 (protein) DNA (40-MER) (nucleic acid)
Unique Ligands	IOD

Explore in 3D

5COI	Download File View File

Crystal Structure of the first bromodomain of human BRD4 in complex with benzo[cd]indol-2(1H)-one ligand

Zhang, Y., Song, M., Liu, Z., Xue, X., Xu, Y.

(2016) J Med Chem 59: 1565-1579

Released	2016-01-13
Method	X-RAY DIFFRACTION 1.62 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	55K

Explore in 3D

5CP5	Download File View File

Crystal Structure of the first bromodomain of human BRD4 in complex with benzo[cd]indol-2(1H)-one ligand

Zhang, Y., Song, M., Liu, Z., Xue, X., Xu, Y.

(2016) J Med Chem 59: 1565-1579

Released	2016-01-13
Method	X-RAY DIFFRACTION 1.79 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	EB0, EDO, NO3

Explore in 3D

5CPE	Download File View File

Crystal Structure of the first bromodomain of human BRD4 in complex with benzo[cd]indol-2(1H)-one ligand

Zhang, Y., Song, M., Liu, Z., Xue, X., Xu, Y.

(2016) J Med Chem 59: 1565-1579

Released	2016-01-13
Method	X-RAY DIFFRACTION 1.62 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	EB2, EDO

Explore in 3D

5CQT	Download File View File

Crystal Structure of the first bromodomain of human BRD4 in complex with benzo[cd]indol-2(1H)-one ligand

Zhang, Y., Song, M., Liu, Z., Xue, X., Xu, Y.

(2016) J Med Chem 59: 1565-1579

Released	2016-01-13
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	EB3

Explore in 3D

5CRM	Download File View File

Crystal Structure of the first bromodomain of human BRD4 in complex with benzo[cd]indol-2(1H)-one ligand

Zhang, Y., Song, M., Liu, Z., Xue, X., Xu, Y.

(2016) J Med Chem 59: 1565-1579

Released	2016-01-13
Method	X-RAY DIFFRACTION 1.99 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	DMS, EB5, EDO, GOL, NO3

Explore in 3D

5CRZ	Download File View File

Crystal Structure of the first bromodomain of human BRD4 in complex with benzo[cd]indol-2(1H)-one ligand

Zhang, Y., Song, M., Liu, Z., Xue, X., Xu, Y.

(2016) J Med Chem 59: 1565-1579

Released	2016-01-13
Method	X-RAY DIFFRACTION 2.12 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	EB7, EDO, GOL, NO3

Explore in 3D

5CS8	Download File View File

Crystal Structure of the first bromodomain of human BRD4 in complex with benzo[cd]indol-2(1H)-one ligand

Zhang, Y., Song, M., Liu, Z., Xue, X., Xu, Y.

(2016) J Med Chem 59: 1565-1579

Released	2016-01-13
Method	X-RAY DIFFRACTION 1.62 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	EB8, EDO, GOL, NO3

Explore in 3D

5CTL	Download File View File

Crystal Structure of the first bromodomain of human BRD4 in complex with benzo[cd]indol-2(1H)-one ligand

Zhang, Y., Song, M., Liu, Z., Xue, X., Xu, Y.

(2016) J Med Chem 59: 1565-1579

Released	2016-01-13
Method	X-RAY DIFFRACTION 2.51 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	EB9

Explore in 3D

5CY9	Download File View File

Crystal Structure of the first bromodomain of human BRD4 in complex with benzo[cd]indol-2(1H)-one ligand

Zhang, Y., Song, M., Liu, Z., Xue, X., Xu, Y.

(2016) J Med Chem 59: 1565-1579

Released	2016-01-13
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	E0A, EDO, GOL

Explore in 3D

5D0C	Download File View File

Crystal Structure of the first bromodomain of human BRD4 in complex with benzo[cd]indol-2(1H)-one ligand

Zhang, Y., Song, M., Liu, Z., Xue, X., Xu, Y.

(2016) J Med Chem 59: 1565-1579

Released	2016-01-13
Method	X-RAY DIFFRACTION 1.49 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	E0B, EDO, GOL, NO3

Explore in 3D

5DX4	Download File View File

Crystal Structure of the first bromodomain of human BRD4 in complex with benzo[cd]indol-2(1H)-one ligand

Zhang, Y., Song, M., Liu, Z., Xue, X., Xu, Y.

(2016) J Med Chem 59: 1565-1579

Released	2016-01-13
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Homo sapiens
Macromolecule	Bromodomain-containing protein 4 (protein)
Unique Ligands	DMS, E0C, EDO

1 to 25 of 37 Structures

Page 1 of 2

Sort by

About
About Us
Citing Us
Publications
Team
Careers
Usage & Privacy

Support
Contact Us
Help
Website FAQ
Glossary
Service Status

RCSB PDB is hosted by

RCSB PDB is a member of the

RCSB Partners
Nucleic Acid Knowledgebase

wwPDB Partners
RCSB PDB
PDBe
PDBj
BMRB
EMDB

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

All questions and comments will receive a response in a timely manner.

Use this form for questions about RCSB.org and RCSB PDB services.
Please attach a screenshot when reporting an issue, if possible.
To update/release your in-progress structure depositions:
access the OneDep Communication panel
For questions/corrections to specific PDB entries, including citation updates:
email deposit-help@mail.wwpdb.org

First Name

Last Name

Subject

Question, Comment, Feedback or Other

Attach File(s)
Use CTRL or Shift keys to select more than one file ( files max)

I agree to the Help Desk Privacy Policy

Optional: To help us learn more about our users, what is your:

Institution Type

Role

Main Research Interest

Thank you for providing your feedback! Someone will be in touch with you shortly. This window will automatically close in 5 seconds.

Apologies, our feedback server is currently unavailable and we are troubleshooting the issue. In the meantime, please copy and paste the below information into an email addressed to info@rcsb.org

Prepare Data

Validate Data

Deposit Data

Help and Resources

Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Symmetry Type

SCOP Classification