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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Wu, D."

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Search Summary

This query matches 407 Structures.

Refinements

Structure Determination Methodology

experimental (407)

Scientific Name of Source Organism

	Homo sapiens (194)
	Mus musculus (36)
	Escherichia coli K-12 (29)
	Escherichia coli (17)
	Rattus norvegicus (17)
	Arabidopsis thaliana (15)
	Severe acute respiratory syndrome coronavirus 2 (13)
	Saccharomyces cerevisiae (11)
	Sus scrofa (11)
	Helicobacter pylori (8)

More...

Taxonomy

	Eukaryota (300)
	Bacteria (117)
	Riboviria (19)
	other sequences (9)
	Archaea (3)

Experimental Method

	X-RAY DIFFRACTION (284)
	ELECTRON MICROSCOPY (119)
	SOLUTION NMR (4)

Polymer Entity Type

	Protein (405)
	DNA (16)
	RNA (6)

Refinement Resolution (Å)

	1.0 - 1.5 (13)
	1.5 - 2.0 (74)
	2.0 - 2.5 (93)
	2.5 - 3.0 (96)
	3.0 - 3.5 (77)
	3.5 - 4.0 (29)
	4.0 - 4.5 (10)
	> 4.5 (11)

Release Date

	2000 - 2004 (6)
	2005 - 2009 (37)
	2010 - 2014 (17)
	2015 - 2019 (89)
	2020 - 2024 (243)
	2025 - 2029 (15)

Enzyme Classification Name

	Translocases (47)
	Oxidoreductases (26)
	Hydrolases (55)
	Transferases (39)
	Ligases (15)
	Lyases (7)
	Isomerases (9)

Membrane Protein Annotation

	PDBTM (92)
	mpstruc (60)
	OPM (54)
	MemProtMD (55)

Symmetry Type

	Asymmetric (292)
	Cyclic (110)
	Dihedral (13)
	Octahedral (2)

SCOP Classification

	Alpha and beta proteins (a/b) (48)
	All beta proteins (31)
	Alpha and beta proteins (a+b) (41)
	All alpha proteins (30)
	Membrane and cell surface proteins and peptides (7)
	Artifacts (28)
	Coiled coil proteins (4)
	Multi-domain proteins (alpha and beta) (1)

AllSelected

1 to 25 of 407 Structures

Page 1 of 17

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1FSH \| pdb_00001fsh	Download File View File

STRUCTURAL BASIS OF THE RECOGNITION OF THE DISHEVELLED DEP DOMAIN IN THE WNT SIGNALING PATHWAY

Wong, H.C., Zheng, J.

(2000) Nat Struct Biol 7: 1178-1184

Released	2001-03-08
Method	SOLUTION NMR
Organisms	Mus musculus
Macromolecule	DISHEVELLED-1 (protein)

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1I1I \| pdb_00001i1i	Download File View File

NEUROLYSIN (ENDOPEPTIDASE 24.16) CRYSTAL STRUCTURE

Brown, C.K., Madauss, K., Lian, W., Tolbert, W.D., Beck, M.R., Rodgers, D.W.

(2001) Proc Natl Acad Sci U S A 98: 3127-3132

Released	2001-02-28
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Rattus norvegicus
Macromolecule	NEUROLYSIN (protein)
Unique Ligands	ZN

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1MC7 \| pdb_00001mc7	Download File View File

Solution Structure of mDvl1 PDZ domain

Wong, H.-C., Bourdelas, A., Shao, Y., Wu, D., Shi, D.L., Zheng, J.

(2003) Mol Cell 12: 1251-1260

Released	2003-09-23
Method	SOLUTION NMR
Organisms	Mus musculus
Macromolecule	Segment polarity protein dishevelled homolog DVL-1 (protein)

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1NM8 \| pdb_00001nm8	Download File View File

Structure of Human Carnitine Acetyltransferase: Molecular Basis for Fatty Acyl Transfer

Wu, D., Govindasamy, L., Lian, W., Gu, Y., Kukar, T., Agbandje-McKenna, M., McKenna, R.

(2003) J Biological Chem 278: 13159-13165

Released	2003-03-11
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Homo sapiens
Macromolecule	Carnitine O-acetyltransferase (protein)

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1QNK \| pdb_00001qnk	Download File View File

TRUNCATED HUMAN GROB[5-73], NMR, 20 STRUCTURES

Qian, Y.Q., Johanson, K., McDevitt, P.

(1999) J Mol Biology 294: 1065-1072

Released	2000-02-04
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	C-X-C motif chemokine 2 (protein)

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1S5O \| pdb_00001s5o	Download File View File

Structural and Mutational Characterization of L-carnitine Binding to Human carnitine Acetyltransferase

Govindasamy, L., Kukar, T., Lian, W., Pedersen, B., Gu, Y., Agbandje-Mckenna, M., Jin, S., Mckenna, R., Wu, D.

(2004) J Struct Biol 146: 416-424

Released	2004-02-03
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens
Macromolecule	carnitine acetyltransferase isoform 2 (protein)
Unique Ligands	152

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1T1U \| pdb_00001t1u	Download File View File

Structural Insights and Functional Implications of Choline Acetyltransferase

Govindasamy, L., Pedersen, B., Lian, W., Kukar, T., Gu, Y., Jin, S., Agbandje-McKenna, M., Wu, D.

(2004) J Struct Biol 148: 226-235

Released	2005-04-12
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Rattus norvegicus
Macromolecule	Choline O-acetyltransferase (protein)

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2AKR \| pdb_00002akr	Download File View File

Structural basis of sulfatide presentation by mouse CD1d

Zajonc, D.M., Halder, R., Wu, D., Maricic, I., Roy, K., Wong, C.-H., Kumar, V., Wilson, I.A.

(2005) J Exp Medicine 202: 1517-1526

Released	2005-12-06
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Mus musculus
Macromolecule	Beta-2-microglobulin (protein) T-cell surface glycoprotein CD1d1 (protein)
Unique Ligands	CIS, NAG
Unique branched monosaccharides	NAG

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2EW5 \| pdb_00002ew5	Download File View File

Structure of Helicobacter Pylori peptide deformylase in complex with inhibitor

Cai, J.

(2006) Protein Sci 15: 2071-2081

Released	2006-10-24
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Helicobacter pylori
Macromolecule	peptide deformylase (protein)
Unique Ligands	CO, Y12

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2EW6 \| pdb_00002ew6	Download File View File

Structure of Helicobacter Pylori peptide deformylase in complex with inhibitor

Cai, J.

(2006) Protein Sci 15: 2071-2081

Released	2006-10-24
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Helicobacter pylori
Macromolecule	peptide deformylase (protein)
Unique Ligands	CO, Y13

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2EW7 \| pdb_00002ew7	Download File View File

Crystal Structure of Helicobacter Pylori peptide deformylase

Cai, J.

(2006) Protein Sci 15: 2071-2081

Released	2006-10-24
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Helicobacter pylori
Macromolecule	peptide deformylase (protein)
Unique Ligands	CO

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2FIK \| pdb_00002fik	Download File View File

Structure of a microbial glycosphingolipid bound to mouse CD1d

Wu, D., Zajonc, D.M.

(2006) Proc Natl Acad Sci U S A 103: 3972-3977

Released	2006-03-21
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Mus musculus
Macromolecule	B(2)-microglobulin (protein) T-cell surface glycoprotein CD1d1 (protein)
Unique Ligands	GSL, NAG, PLM
Unique branched monosaccharides	NAG

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2JTK \| pdb_00002jtk	Download File View File

A functional domain of a Wnt signal protein

Chen, L., Shao, Y., Huang, J., Zheng, J.

(2008) J Biological Chem 283: 23364-23370

Released	2008-07-08
Method	SOLUTION NMR
Organisms	Mus musculus
Macromolecule	Dickkopf-related protein 2 (protein)

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2PVP \| pdb_00002pvp	Download File View File

Crystal structure of D-Alanine-D-Alanine Ligase from Helicobacter pylori

Wu, D., Zhang, L., Jiang, H., Shen, X.

(2008) Proteins 72: 1148-1160

Released	2008-04-01
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Helicobacter pylori SS1
Macromolecule	D-alanine-D-alanine ligase (protein)

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2QGH \| pdb_00002qgh	Download File View File

Crystal structure of diaminopimelate decarboxylase from Helicobacter pylori complexed with L-lysine

Hu, T., Wu, D., Jiang, H., Shen, X.

To be published

Released	2008-05-27
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Helicobacter pylori
Macromolecule	Diaminopimelate decarboxylase (protein)
Unique Ligands	GOL, LYS, PLP

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2RJG \| pdb_00002rjg	Download File View File

Crystal structure of biosynthetic alaine racemase from Escherichia coli

Wu, D., Hu, T., Zhang, L., Jiang, H., Shen, X.

(2008) Protein Sci 17: 1066-1076

Released	2008-07-08
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Escherichia coli K-12
Macromolecule	Alanine racemase (protein)
Unique Ligands	PLP, SO4

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2RJH \| pdb_00002rjh	Download File View File

Crystal structure of biosynthetic alaine racemase in D-cycloserine-bound form from Escherichia coli

Wu, D., Hu, T., Zhang, L., Jiang, H., Shen, X.

(2008) Protein Sci 17: 1066-1076

Released	2008-07-08
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Escherichia coli K-12
Macromolecule	Alanine racemase (protein)
Unique Ligands	DCS, SO4

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3B8T \| pdb_00003b8t	Download File View File

Crystal structure of Escherichia coli alaine racemase mutant P219A

Wu, D., Hu, T., Zhang, L., Jiang, H., Shen, X.

(2008) Protein Sci 17: 1066-1076

Released	2008-07-08
Method	X-RAY DIFFRACTION 3 Å
Organisms	Escherichia coli K-12
Macromolecule	Alanine racemase (protein)
Unique Ligands	PLP, SO4

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3B8U \| pdb_00003b8u	Download File View File

Crystal structure of Escherichia coli alaine racemase mutant E221A

Wu, D., Hu, T., Zhang, L., Jiang, H., Shen, X.

(2008) Protein Sci 17: 1066-1076

Released	2008-07-08
Method	X-RAY DIFFRACTION 3 Å
Organisms	Escherichia coli K-12
Macromolecule	Alanine racemase (protein)
Unique Ligands	PLP, SO4

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3B8V \| pdb_00003b8v	Download File View File

Crystal structure of Escherichia coli alaine racemase mutant E221K

Wu, D., Hu, T., Zhang, L., Jiang, H., Shen, X.

(2008) Protein Sci 17: 1066-1076

Released	2008-07-08
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Escherichia coli K-12
Macromolecule	Alanine racemase (protein)
Unique Ligands	PLP, SO4

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3B8W \| pdb_00003b8w	Download File View File

Crystal structure of Escherichia coli alaine racemase mutant E221P

Wu, D., Hu, T., Zhang, L., Jiang, H., Shen, X.

(2008) Protein Sci 17: 1066-1076

Released	2008-07-08
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Escherichia coli K-12
Macromolecule	Alanine racemase (protein)
Unique Ligands	PLP, SO4

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3C5Q \| pdb_00003c5q	Download File View File

Crystal structure of diaminopimelate decarboxylase (I148L mutant) from Helicobacter pylori complexed with L-lysine

Hu, T., Wu, D., Jiang, H., Shen, X.

To be published

Released	2008-05-27
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Helicobacter pylori
Macromolecule	Diaminopimelate decarboxylase (protein)
Unique Ligands	GOL, LYS, PLP

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3CF8 \| pdb_00003cf8	Download File View File

Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase (FabZ) from Helicobacter pylori in complex with quercetin

Zhang, L., Wu, D., Liu, W., Shen, X., Jiang, H.

(2008) Protein Sci 17: 1971-1978

Released	2008-12-09
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Helicobacter pylori
Macromolecule	(3R)-hydroxymyristoyl-acyl carrier protein dehydratase (protein)
Unique Ligands	BEN, CL, QUE

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3CF9 \| pdb_00003cf9	Download File View File

Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase (FabZ) from Helicobacter pylori in complex with apigenin

Zhang, L., Wu, D., Liu, W., Shen, X., Jiang, H.

(2008) Protein Sci 17: 1971-1978

Released	2008-12-09
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Helicobacter pylori
Macromolecule	(3R)-hydroxymyristoyl-acyl carrier protein dehydratase (protein)
Unique Ligands	AGI, BEN, CL

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3CGL \| pdb_00003cgl	Download File View File

Crystal Structure and Raman Studies of dsFP483, a Cyan Fluorescent Protein from Discosoma striata

Malo, G.D.

(2008) J Mol Biology 378: 869-884

Released	2008-07-01
Method	X-RAY DIFFRACTION 2.09 Å
Organisms	Discosoma striata
Macromolecule	GFP-like fluorescent chromoprotein dsFP483 (protein)
Unique Ligands	NA

1 to 25 of 407 Structures

Page 1 of 17

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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

1FSH | pdb_00001fsh

1I1I | pdb_00001i1i

1MC7 | pdb_00001mc7

1NM8 | pdb_00001nm8

1QNK | pdb_00001qnk

1S5O | pdb_00001s5o

1T1U | pdb_00001t1u

2AKR | pdb_00002akr

2EW5 | pdb_00002ew5

2EW6 | pdb_00002ew6

2EW7 | pdb_00002ew7

2FIK | pdb_00002fik

2JTK | pdb_00002jtk

2PVP | pdb_00002pvp

2QGH | pdb_00002qgh

2RJG | pdb_00002rjg

2RJH | pdb_00002rjh

3B8T | pdb_00003b8t

3B8U | pdb_00003b8u

3B8V | pdb_00003b8v

3B8W | pdb_00003b8w

3C5Q | pdb_00003c5q

3CF8 | pdb_00003cf8

3CF9 | pdb_00003cf9

3CGL | pdb_00003cgl