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

233,605 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: Citation Author = "Zhu, Z."

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 426 Structures.

Refinements

Structure Determination Methodology

experimental (426)

Scientific Name of Source Organism

	Homo sapiens (247)
	synthetic construct (22)
	Influenza A virus (A/Brevig Mission/1/1918(H1N1)) (21)
	Camelidae mixed library (18)
	Saccharomyces cerevisiae S288C (17)
	Staphylococcus aureus (14)
	Severe acute respiratory syndrome coronavirus 2 (12)
	Hepacivirus hominis (10)
	Saccharomyces cerevisiae (10)
	Mus musculus (9)

More...

Taxonomy

	Eukaryota (329)
	Bacteria (73)
	Riboviria (55)
	other sequences (22)
	Riboviria (RNA viruses and viroids) (9)
	Varidnaviria (6)
	Duplodnaviria (2)

Experimental Method

	X-RAY DIFFRACTION (351)
	ELECTRON MICROSCOPY (75)

Polymer Entity Type

	Protein (426)
	RNA (28)
	DNA (14)

Refinement Resolution (Å)

	1.0 - 1.5 (20)
	1.5 - 2.0 (143)
	2.0 - 2.5 (117)
	2.5 - 3.0 (84)
	3.0 - 3.5 (33)
	3.5 - 4.0 (7)
	4.0 - 4.5 (9)
	> 4.5 (13)

Release Date

	1995 - 1999 (4)
	2000 - 2004 (5)
	2005 - 2009 (24)
	2010 - 2014 (73)
	2015 - 2019 (40)
	2020 - 2024 (166)
	2025 - 2029 (114)

Enzyme Classification Name

	Hydrolases (219)
	Transferases (83)
	Ligases (6)
	Isomerases (4)
	Oxidoreductases (1)
	Lyases (1)

Membrane Protein Annotation

	MemProtMD (23)
	PDBTM (30)
	mpstruc (11)
	OPM (11)

Symmetry Type

	Asymmetric (316)
	Cyclic (103)
	Dihedral (13)
	Helical (3)
	Icosahedral (2)

SCOP Classification

	All beta proteins (43)
	All alpha proteins (15)
	Alpha and beta proteins (a+b) (16)
	Alpha and beta proteins (a/b) (19)
	Artifacts (9)
	Multi-domain proteins (alpha and beta) (2)
	Small proteins (1)

AllSelected

1 to 25 of 426 Structures

Page 1 of 18

Sort by

Explore in 3D

1BUD \| pdb_00001bud	Download File View File

ACUTOLYSIN A FROM SNAKE VENOM OF AGKISTRODON ACUTUS AT PH 5.0

Gong, W., Zhu, X., Liu, S., Teng, M., Niu, L.

(1998) J Mol Biology 283: 657-668

Released	1999-09-07
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Deinagkistrodon acutus
Macromolecule	PROTEIN (ACUTOLYSIN A) (protein)
Unique Ligands	CA, ZN

Explore in 3D

1BXA \| pdb_00001bxa	Download File View File

AMICYANIN REDUCED, PH 4.4, 1.3 ANGSTROMS

Cunane, L.M., Chen, Z.W., Durley, R.C.E., Mathews, F.S.

(1998) Biochemistry 37: 17128-17136

Released	1998-10-07
Method	X-RAY DIFFRACTION 1.3 Å
Organisms	Paracoccus denitrificans
Macromolecule	PROTEIN (AMICYANIN) (protein)
Unique Ligands	CU1

Explore in 3D

1HQZ \| pdb_00001hqz	Download File View File

Cofilin homology domain of a yeast actin-binding protein ABP1P

Strokopytov, B.V., Fedorov, A.A., Mahoney, N., Drubin, D.G., Almo, S.C., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

(2005) Acta Crystallogr D Biol Crystallogr 61: 285-293

Released	2001-12-21
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	ACTIN-BINDING PROTEIN (protein)

Explore in 3D

1HXR \| pdb_00001hxr	Download File View File

CRYSTAL STRUCTURE OF MSS4 AT 1.65 ANGSTROMS

Zhu, Z., Dumas, J.J., Lietzke, S.E., Lambright, D.G.

(2001) Biochemistry 40: 3027-3036

Released	2001-02-14
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Rattus norvegicus
Macromolecule	GUANINE NUCLEOTIDE EXCHANGE FACTOR MSS4 (protein)
Unique Ligands	ZN

Explore in 3D

1OP0 \| pdb_00001op0	Download File View File

Crystal Structure of AaV-SP-I, a Glycosylated Snake Venom Serine Proteinase from Agkistrodon acutus

Zhu, Z., Teng, M., Niu, L.

(2005) J Biological Chem 280: 10524-10529

Released	2004-05-25
Method	X-RAY DIFFRACTION 2 Å
Organisms	Deinagkistrodon acutus
Macromolecule	Venom serine proteinase (protein)
Unique Ligands	SO4
Unique branched monosaccharides	FUC, NAG

Explore in 3D

1OP2 \| pdb_00001op2	Download File View File

Crystal Structure of AaV-SP-II, a Glycosylated Snake Venom Serine Proteinase from Agkistrodon acutus

Zhu, Z., Teng, M., Niu, L.

(2005) J Biological Chem 280: 10524-10529

Released	2004-05-25
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Deinagkistrodon acutus
Macromolecule	Venom serine proteinase (protein)
Unique Ligands	NAG, SO4

Explore in 3D

1QUA \| pdb_00001qua	Download File View File

CRYSTAL STRUCTURE OF ACUTOLYSIN-C, A HEMORRHAGIC TOXIN FROM THE SNAKE VENOM OF AGKISTRODON ACUTUS, AT 2.2 A RESOLUTION

Niu, L., Teng, M., Zhu, X.

(1999) Acta Crystallogr D Biol Crystallogr 55: 1834-1841

Released	2000-07-05
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Deinagkistrodon acutus
Macromolecule	ACUTOLYSIN-C (protein)
Unique Ligands	ZN

Explore in 3D

1W24 \| pdb_00001w24	Download File View File

Crystal Structure Of human Vps29

Wang, D., Guo, M., Teng, M., Niu, L.

(2005) J Biological Chem 280: 22962

Released	2005-03-23
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	VACUOLAR PROTEIN SORTING PROTEIN 29 (protein)

Explore in 3D

1WT9 \| pdb_00001wt9	Download File View File

crystal structure of Aa-X-bp-I, a snake venom protein with the activity of binding to coagulation factor X from Agkistrodon acutus

Zhu, Z., Liu, S., Mo, X., Yu, X., Liang, Z., Zang, J., Zhao, W., Teng, M., Niu, L.

To be published

Released	2006-03-07
Method	X-RAY DIFFRACTION 2.01 Å
Organisms	Deinagkistrodon acutus
Macromolecule	agkisacutacin A chain (protein) anticoagulant protein-B (protein)
Unique Ligands	CA

Explore in 3D

1Y17 \| pdb_00001y17	Download File View File

crystal structure of Aa-X-bp-II, a snake venom protein with the activity of binding to coagulation factor X from Agkistrodon acutus

Zhu, Z., Liu, S., Mo, X., Yu, X., Liang, Z., Zang, J., Zhao, W., Teng, M., Niu, L.

To be published

Released	2006-03-07
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Deinagkistrodon acutus
Macromolecule	anticoagulant protein A (protein) anticoagulant protein-B (protein)
Unique Ligands	CA

Explore in 3D

2A4G \| pdb_00002a4g	Download File View File

Hepatitis C Protease NS3-4A serine protease with Ketoamide Inhibitor SCH225724 Bound

Arasappan, A., Njoroge, F.G., Chan, T.Y., Bennett, F., Bogen, S.L., Chen, K., Gu, H., Hong, L., Jao, E., Liu, Y.T., Lovey, R.G., Parekh, T., Pike, R.E., Pinto, P., Santhanam, B., Venkatraman, S., Vaccaro, H., Wang, H., Yang, X., Zhu, Z., Mckittrick, B., Saksena, A.K., Girijavallabhan, V., Pichardo, J., Butkiewicz, N., Ingram, R., Malcolm, B., Prongay, A.J., Yao, N., Marten, B., Madison, V., Kemp, S., Levy, O., Lim-Wilby, M., Tamura, S., Ganguly, A.K.

(2005) Bioorg Med Chem Lett 15: 4180-4184

Released	2006-07-04
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Hepacivirus hominis Hepatitis C virus subtype 1b
Macromolecule	NS3 protease/helicase (protein) NS4a peptide (protein)
Unique Ligands	UNH, ZN

Explore in 3D

2A4Q \| pdb_00002a4q	Download File View File

HCV NS3 protease with NS4a peptide and a covalently bound macrocyclic ketoamide compound.

Chen, K.X., Njoroge, F.G., Prongay, A., Pichardo, J., Madison, V., Girijavallabhan, V.

(2005) Bioorg Med Chem Lett 15: 4475-4478

Released	2006-07-04
Method	X-RAY DIFFRACTION 2.45 Å
Organisms	Hepacivirus hominis
Macromolecule	NS3 protease/helicase' (protein) NS4a peptide (protein)
Unique Ligands	BME, FNH, ZN

Explore in 3D

2A4R \| pdb_00002a4r	Download File View File

HCV NS3 Protease Domain with a Ketoamide Inhibitor Covalently bound.

Bogen, S., Saksena, A.K., Arasappan, A., Gu, H., Njoroge, F.G., Girijavallabhan, V., Pichardo, J., Butkiewicz, N., Prongay, A., Madison, V.

(2005) Bioorg Med Chem Lett 15: 4515-4519

Released	2006-07-04
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Hepacivirus hominis Hepatitis C virus genotype 1a (isolate H77)
Macromolecule	NS3 protease/helicase (protein) Ns4a peptide (protein)
Unique Ligands	BNH, ZN

Explore in 3D

2B5A \| pdb_00002b5a	Download File View File

C.BclI, Control Element of the BclI Restriction-Modification System

Sawaya, M.R., Zhu, Z., Mersha, F., Chan, S.H., Dabur, R., Xu, S.Y., Balendiran, G.K.

(2005) Structure 13: 1837-1847

Released	2006-01-03
Method	X-RAY DIFFRACTION 1.543 Å
Organisms	[Bacillus] caldolyticus
Macromolecule	C.BclI (protein)
Unique Ligands	ACY

Explore in 3D

2DD8 \| pdb_00002dd8	Download File View File

Crystal Structure of SARS-CoV Spike Receptor-Binding Domain Complexed with Neutralizing Antibody

Prabakaran, P., Gan, J.H., Feng, Y., Zhu, Z.Y., Xiao, X.D., Ji, X., Dimitrov, D.S.

(2006) J Biological Chem 281: 15829-15836

Released	2006-04-04
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Homo sapiens Severe acute respiratory syndrome-related coronavirus
Macromolecule	IGG Heavy Chain (protein) IGG Light Chain (protein) Spike glycoprotein (protein)
Unique Ligands	NAG, PO4

Explore in 3D

2G75 \| pdb_00002g75	Download File View File

Crystal Structure of anti-SARS m396 Antibody

Prabakaran, P., Gan, J.H., Feng, Y., Zhu, Z.Y., Xiao, X.D., Ji, X., Dimitrov, D.S.

(2006) J Biological Chem 281: 15829-15836

Released	2006-04-04
Method	X-RAY DIFFRACTION 2.28 Å
Organisms	Homo sapiens
Macromolecule	IGG Heavy Chain (protein) IGG Light Chain (protein)

Explore in 3D

2GJJ \| pdb_00002gjj	Download File View File

Crystal structure of a single chain antibody scA21 against Her2/ErbB2

Zhu, Z.

(2007) Proteins 70: 938-949

Released	2006-10-01
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Mus musculus
Macromolecule	A21 single-chain antibody fragment against erbB2 (protein)
Unique Ligands	GOL

Explore in 3D

2GVF \| pdb_00002gvf	Download File View File

HCV NS3-4A protease domain complexed with a macrocyclic ketoamide inhibitor, SCH419021

Arasappan, A., Njoroge, F.G., Chen, K.X., Venkatraman, S., Parekh, T.N., Gu, H., Pichardo, J., Butkiewicz, N., Prongay, A., Madison, V., Girijavallabhan, V.

(2006) Bioorg Med Chem Lett 16: 3960-3965

Released	2007-01-23
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Hepacivirus hominis Hepatitis C virus genotype 1a (isolate 1)
Macromolecule	Polyprotein (protein) polyprotein (protein)
Unique Ligands	NHN, ZN

Explore in 3D

2OBO \| pdb_00002obo	Download File View File

Structure of HEPATITIS C VIRAL NS3 protease domain complexed with NS4A peptide and ketoamide SCH476776

Prongay, A.J., Guo, Z., Yao, N., Fischmann, T., Strickland, C., Myers Jr., J., Weber, P.C., Malcolm, B., Beyer, B.M., Ingram, R., Pichardo, J., Hong, Z., Prosise, W.W., Ramanathan, L., Taremi, S.S., Yarosh-Tomaine, T., Zhang, R., Senior, M., Yang, R., Arasappan, A., Bennett, F., Bogen, S.F., Chen, K., Jao, E., Liu, Y., Love, R.G., Saksena, A.K., Venkatraman, S., Girijavallabhan, V., Njoroge, F.G., Madison, V.

(2007) J Med Chem 50: 2310-2318

Released	2007-07-31
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Hepacivirus hominis Hepatitis C virus subtype 1b
Macromolecule	HCV NS3 protease (protein) HCV NS4A peptide (protein)
Unique Ligands	BME, HUD, ZN

Explore in 3D

2OBQ \| pdb_00002obq	Download File View File

Discovery of the HCV NS3/4A Protease Inhibitor SCH503034. Key Steps in Structure-Based Optimization

(2007) J Med Chem 50: 2310-2318

Released	2007-07-31
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Hepacivirus hominis Hepatitis C virus genotype 1a (isolate H77)
Macromolecule	Hepatitis C virus (protein)
Unique Ligands	ZN

Explore in 3D

2OC0 \| pdb_00002oc0	Download File View File

Structure of NS3 complexed with a ketoamide inhibitor SCh491762

(2007) J Med Chem 50: 2310-2318

Released	2007-07-31
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Hepacivirus hominis Hepatitis C virus genotype 1a (isolate H77)
Macromolecule	Hepatitis C Virus (protein) Hepatitis C virus (protein)
Unique Ligands	BME, HU1, ZN

Explore in 3D

2OC1 \| pdb_00002oc1	Download File View File

Structure of the HCV NS3/4A Protease Inhibitor CVS4819

(2007) J Med Chem 50: 2310-2318

Released	2007-07-31
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Hepacivirus hominis Hepatitis C virus genotype 1a (isolate H77)
Macromolecule	Hepatitis C virus (protein)
Unique Ligands	HU2, ZN

Explore in 3D

2OC7 \| pdb_00002oc7	Download File View File

Structure of Hepatitis C Viral NS3 protease domain complexed with NS4A peptide and ketoamide SCH571696

(2007) J Med Chem 50: 2310-2318

Released	2007-07-31
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Hepacivirus hominis Hepatitis C virus genotype 1a (isolate H77)
Macromolecule	Hepatitis C Virus (protein)
Unique Ligands	BME, HU4, ZN

Explore in 3D

2OC8 \| pdb_00002oc8	Download File View File

Structure of Hepatitis C Viral NS3 protease domain complexed with NS4A peptide and ketoamide SCH503034

Prongay, A.J., Guo, Z., Yao, N., Fischmann, T., Strickland, C., Myers, J., Weber, P.C., Malcolm, B., Beyer, B.M., Ingram, R., Pichardo, J., Hong, Z., Prosise, W.W., Ramanathan, L., Taremi, S.S., Yarosh-Tomaine, T., Zhang, R., Senior, M., Yang, R.S., Arasappan, A., Bennett, F., Bogen, S.L., Chen, K., Jao, E., Liu, Y.T., Lovey, R.G., Saksena, A.K., Venkatraman, S., Girijavallabhan, V., Njoroge, F.G., Madison, V.

(2007) J Med Chem 50: 2310-2318

Released	2007-07-31
Method	X-RAY DIFFRACTION 2.66 Å
Organisms	Hepacivirus hominis Hepatitis C virus genotype 1a (isolate H77)
Macromolecule	Hepatitis C virus (protein)
Unique Ligands	BME, U5G, ZN