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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Xu, Z."

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Search Summary

This query matches 133 Structures.

Refinements

Structure Determination Methodology

experimental (133)

Scientific Name of Source Organism

	Homo sapiens (57)
	Escherichia coli (17)
	Mus musculus (14)
	Saccharomyces cerevisiae (14)
	uncultured bacterium (11)
	Saccharomyces cerevisiae S288C (6)
	Erwinia rhapontici (5)
	Nitratidesulfovibrio vulgaris str. Hildenborough (4)
	Escherichia coli K-12 (3)
	Maclura pomifera (3)

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Taxonomy

	Eukaryota (89)
	Bacteria (55)
	other sequences (2)
	Duplodnaviria (1)
	Eukaryota (eukaryotes) (1)
	Riboviria (1)

Experimental Method

	X-RAY DIFFRACTION (101)
	ELECTRON MICROSCOPY (26)
	SOLUTION NMR (6)

Polymer Entity Type

	Protein (133)
	DNA (4)
	RNA (1)

Refinement Resolution (Å)

	1.0 - 1.5 (8)
	1.5 - 2.0 (24)
	2.0 - 2.5 (32)
	2.5 - 3.0 (36)
	3.0 - 3.5 (18)
	3.5 - 4.0 (5)
	4.0 - 4.5 (2)
	> 4.5 (2)

Release Date

	1990 - 1994 (1)
	1995 - 1999 (1)
	2000 - 2004 (7)
	2005 - 2009 (26)
	2010 - 2014 (24)
	2015 - 2019 (33)
	2020 - 2024 (37)
	2025 - 2029 (4)

Enzyme Classification Name

	Hydrolases (43)
	Transferases (15)
	Isomerases (9)
	Ligases (3)
	Oxidoreductases (3)
	Translocases (1)

Membrane Protein Annotation

	PDBTM (16)
	mpstruc (13)
	OPM (8)
	MemProtMD (5)

Symmetry Type

	Asymmetric (88)
	Cyclic (40)
	Dihedral (11)

SCOP Classification

	Alpha and beta proteins (a+b) (22)
	Alpha and beta proteins (a/b) (26)
	All alpha proteins (16)
	Artifacts (19)
	All beta proteins (10)
	Small proteins (3)

AllSelected

1 to 25 of 133 Structures

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1ALB \| pdb_00001alb	Download File View File

CRYSTAL STRUCTURE OF RECOMBINANT MURINE ADIPOCYTE LIPID-BINDING PROTEIN

Xu, Z., Banaszak, L.J.

(1992) Biochemistry 31: 3484-3492

Released	1993-10-31
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Mus musculus
Macromolecule	ADIPOCYTE LIPID-BINDING PROTEIN (protein)

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1AON \| pdb_00001aon	Download File View File

CRYSTAL STRUCTURE OF THE ASYMMETRIC CHAPERONIN COMPLEX GROEL/GROES/(ADP)7

Xu, Z., Horwich, A.L., Sigler, P.B.

(1997) Nature 388: 741-750

Released	1997-10-15
Method	X-RAY DIFFRACTION 3 Å
Organisms	Escherichia coli
Macromolecule	GROEL (protein) GROEL/GROES COMPLEX (protein)
Unique Ligands	ADP, MG

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1FX3 \| pdb_00001fx3	Download File View File

CRYSTAL STRUCTURE OF H. INFLUENZAE SECB

Xu, Z., Knafels, J.D., Yoshino, K.

(2000) Nat Struct Biol 7: 1172-1177

Released	2000-12-06
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Haemophilus influenzae
Macromolecule	PROTEIN-EXPORT PROTEIN SECB (protein)

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1NFG \| pdb_00001nfg	Download File View File

Structure of D-hydantoinase

Xu, Z., Yang, Y., Jiang, W., Arnold, E., Ding, J.

(2003) J Bacteriol 185: 4038-4049

Released	2003-07-15
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Ralstonia pickettii
Macromolecule	D-hydantoinase (protein)
Unique Ligands	ZN

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1NW1 \| pdb_00001nw1	Download File View File

Crystal Structure of Choline Kinase

Peisach, D., Gee, P., Kent, C., Xu, Z.

(2003) Structure 11: 703-713

Released	2003-06-10
Method	X-RAY DIFFRACTION 2.02 Å
Organisms	Caenorhabditis elegans
Macromolecule	Choline kinase (49.2 kD) (protein)
Unique Ligands	CA

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1OZB \| pdb_00001ozb	Download File View File

Crystal Structure of SecB complexed with SecA C-terminus

Zhou, J., Xu, Z.

(2003) Nat Struct Biol 10: 942-947

Released	2003-10-14
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Haemophilus influenzae
Macromolecule	Preprotein translocase secA subunit (protein) Protein-export protein secB (protein)
Unique Ligands	ZN

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1R62 \| pdb_00001r62	Download File View File

Crystal structure of the C-terminal Domain of the Two-Component System Transmitter Protein NRII (NtrB)

Song, Y., Peisach, D., Pioszak, A.A., Xu, Z., Ninfa, A.J.

(2004) Biochemistry 43: 6670-6678

Released	2004-06-15
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Escherichia coli K-12
Macromolecule	Nitrogen regulation protein NR(II) (protein)

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1T11 \| pdb_00001t11	Download File View File

Trigger Factor

Ludlam, A.V., Moore, B.A., Xu, Z.

(2004) Proc Natl Acad Sci U S A 101: 13436-13441

Released	2004-09-21
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Vibrio cholerae
Macromolecule	Trigger factor (protein)

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1UKF \| pdb_00001ukf	Download File View File

Crystal Structure of Pseudomonas Avirulence Protein AvrPphB

Zhu, M., Shao, F., Innes, R.W., Dixon, J.E., Xu, Z.

(2004) Proc Natl Acad Sci U S A 101: 302-307

Released	2003-12-09
Method	X-RAY DIFFRACTION 1.35 Å
Organisms	Pseudomonas savastanoi pv. phaseolicola
Macromolecule	Avirulence protein AVRPPH3 (protein)

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1YTV \| pdb_00001ytv	Download File View File

Maltose-binding protein fusion to a C-terminal fragment of the V1a vasopressin receptor

Adikesavan, N.V., Mahmood, S.S., Stanley, S., Xu, Z., Wu, N., Thibonnier, M., Shoham, M.

(2005) Acta Crystallogr Sect F Struct Biol Cryst Commun 61: 341-345

Released	2005-04-12
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Escherichia coli Homo sapiens
Macromolecule	Maltose-binding periplasmic protein (protein) Vasopressin V1a receptor (protein)
Unique branched monosaccharides	GLC

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1ZCP \| pdb_00001zcp	Download File View File

Crystal Structure of a catalytic site mutant E. coli TrxA (CACA)

Collet, J.-F., Peisach, D., Bardwell, J.C., Xu, Z.

(2005) Protein Sci 14: 1863-1869

Released	2005-08-09
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Escherichia coli
Macromolecule	Thioredoxin 1 (protein)

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2F42 \| pdb_00002f42	Download File View File

dimerization and U-box domains of Zebrafish C-terminal of HSP70 interacting protein

Xu, Z., Nix, J.C., Misra, S.

(2006) Biochemistry 45: 4749-4759

Released	2006-05-02
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Danio rerio
Macromolecule	STIP1 homology and U-box containing protein 1 (protein)
Unique Ligands	CL

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2G4D \| pdb_00002g4d	Download File View File

Crystal structure of human SENP1 mutant (C603S) in complex with SUMO-1

Xu, Z., Chau, S.F., Lam, K.H., Au, S.W.N.

(2006) Biochem J 398: 345-352

Released	2006-10-17
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Homo sapiens
Macromolecule	SENP1 protein (protein) Small ubiquitin-related modifier 1 (protein)

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2HKP \| pdb_00002hkp	Download File View File

SUMO protease Ulp1 with the catalytic cysteine oxidized to a sulfenic acid

Xu, Z., Ng, T.B., Au, S.W.N.

(2008) FASEB J 22: 127-137

Released	2007-07-31
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Ubiquitin-like-specific protease 1 (protein)

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2HL8 \| pdb_00002hl8	Download File View File

SUMO protease Ulp1 with the catalytic cysteine oxidized to a sulfinic acid

Xu, Z., Ng, T.B., Au, S.W.N.

(2008) FASEB J 22: 127-137

Released	2007-07-31
Method	X-RAY DIFFRACTION 2 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Ubiquitin-like-specific protease 1 (protein)

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2HL9 \| pdb_00002hl9	Download File View File

SUMO protease Ulp1 with the catalytic cysteine oxidized to a sulfonic acid

Xu, Z., Ng, T.B., Au, S.W.N.

(2008) FASEB J 22: 127-137

Released	2007-07-31
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Ubiquitin-like-specific protease 1 (protein)

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2HZ6 \| pdb_00002hz6	Download File View File

The crystal structure of human IRE1-alpha luminal domain

Kaufman, R.J., Xu, Z., Zhou, J.

(2006) Proc Natl Acad Sci U S A 103: 14343-14348

Released	2006-08-29
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Homo sapiens
Macromolecule	Endoplasmic reticulum to nucleus signalling 1 isoform 1 variant (protein)

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2LKO \| pdb_00002lko	Download File View File

Structural Basis of Phosphoinositide Binding to Kindlin-2 Pleckstrin Homology Domain in Regulating Integrin Activation

Liu, J., Fukuda, K., Xu, Z.

(2011) J Biological Chem 286: 43334-43342

Released	2011-10-26
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Fermitin family homolog 2 (protein)
Unique Ligands	4IP

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2LP0 \| pdb_00002lp0	Download File View File

The solution structure of homeodomain-protein complex

Liu, C., Zhou, B., Xu, Z., Zhu, G.

(2012) Proc Natl Acad Sci U S A

Released	2012-06-06
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Geminin (protein) Homeobox protein Hox-C9 (protein)

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2LUH \| pdb_00002luh	Download File View File

NMR structure of the Vta1-Vps60 complex

Yang, Z., Vild, C., Ju, J., Zhang, X., Liu, J., Shen, J., Zhao, B., Lan, W., Gong, F., Liu, M., Cao, C., Xu, Z.

(2012) J Biological Chem 287: 43899-43908

Released	2012-11-07
Method	SOLUTION NMR
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	Vacuolar protein sorting-associated protein VTA1 (protein) Vacuolar protein-sorting-associated protein 60 (protein)

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2OCG \| pdb_00002ocg	Download File View File

Crystal structure of human valacyclovir hydrolase

Lai, L., Xu, Z., Amidon, G.L.

(2008) J Biological Chem 283: 9318-9327

Released	2008-02-05
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Homo sapiens
Macromolecule	Valacyclovir hydrolase (protein)
Unique Ligands	GOL, MG, MN

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2OCI \| pdb_00002oci	Download File View File

Crystal structure of valacyclovir hydrolase complexed with a product analogue

Lai, L., Xu, Z., Amidon, G.L.

(2008) J Biological Chem 283: 9318-9327

Released	2008-02-05
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Homo sapiens
Macromolecule	Valacyclovir hydrolase (protein)
Unique Ligands	MG, MN, TYC

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2OCK \| pdb_00002ock	Download File View File

Crystal structure of valacyclovir hydrolase D123N mutant

Lai, L., Xu, Z., Amidon, G.L.

(2008) J Biological Chem 283: 9318-9327

Released	2008-02-05
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Homo sapiens
Macromolecule	Valacyclovir hydrolase (protein)
Unique Ligands	MG, MN

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2OCL \| pdb_00002ocl	Download File View File

Crystal structure of valacyclovir hydrolase S122A mutant

Lai, L., Xu, Z., Amidon, G.L.

(2008) J Biological Chem 283: 9318-9327

Released	2008-02-05
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Homo sapiens
Macromolecule	Valacyclovir hydrolase (protein)
Unique Ligands	MG, MN

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2OXQ \| pdb_00002oxq	Download File View File

Structure of the UbcH5 :CHIP U-box complex

Xu, Z., Nix, J.C., Devlin, K.I., Misra, S.

(2008) BMC Struct Biol 8: 26-26

Released	2008-02-19
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Danio rerio
Macromolecule	STIP1 homology and U-Box containing protein 1 (protein) Ubiquitin-conjugating enzyme E2D 1 (protein)
Unique Ligands	CL

1 to 25 of 133 Structures

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Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Membrane Protein Annotation

Symmetry Type

SCOP Classification

1ALB | pdb_00001alb

1AON | pdb_00001aon

1FX3 | pdb_00001fx3

1NFG | pdb_00001nfg

1NW1 | pdb_00001nw1

1OZB | pdb_00001ozb

1R62 | pdb_00001r62

1T11 | pdb_00001t11

1UKF | pdb_00001ukf

1YTV | pdb_00001ytv

1ZCP | pdb_00001zcp

2F42 | pdb_00002f42

2G4D | pdb_00002g4d

2HKP | pdb_00002hkp

2HL8 | pdb_00002hl8

2HL9 | pdb_00002hl9

2HZ6 | pdb_00002hz6

2LKO | pdb_00002lko

2LP0 | pdb_00002lp0

2LUH | pdb_00002luh

2OCG | pdb_00002ocg

2OCI | pdb_00002oci

2OCK | pdb_00002ock

2OCL | pdb_00002ocl

2OXQ | pdb_00002oxq