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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Zhang, Z."

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Search Summary

This query matches 32 Structures.

Refinements

Structure Determination Methodology

experimental (32)

Scientific Name of Source Organism

	Escherichia coli (12)
	Acinetobacter baumannii (4)
	Klebsiella pneumoniae (3)
	Bacillus sp. 707 (2)
	Bos taurus (2)
	Homo sapiens (2)
	Salmonella enterica (2)
	Staphylococcus aureus (2)
	Mus musculus (1)
	Pseudomonas aeruginosa (1)

More...

Taxonomy

	Bacteria (27)
	Eukaryota (5)

Experimental Method

	X-RAY DIFFRACTION (25)
	ELECTRON MICROSCOPY (5)
	SOLID-STATE NMR (1)
	SOLUTION NMR (1)

Polymer Entity Type

Protein (32)

Refinement Resolution (Å)

	0.5 - 1.0 (1)
	1.0 - 1.5 (6)
	1.5 - 2.0 (10)
	2.0 - 2.5 (10)
	2.5 - 3.0 (2)
	3.0 - 3.5 (1)

Release Date

	1995 - 1999 (1)
	2000 - 2004 (7)
	2005 - 2009 (5)
	2010 - 2014 (1)
	2015 - 2019 (8)
	2020 - 2024 (10)

Enzyme Classification Name

	Hydrolases (21)
	Translocases (4)

Membrane Protein Annotation

	PDBTM (4)
	mpstruc (4)
	OPM (2)

Symmetry Type

	Asymmetric (29)
	Dihedral (2)
	Cyclic (1)
	Helical (1)

SCOP Classification

	Multi-domain proteins (alpha and beta) (15)
	All beta proteins (3)
	Alpha and beta proteins (a+b) (2)
	Alpha and beta proteins (a/b) (2)

AllSelected

1 to 25 of 32 Structures

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1BZA \| pdb_00001bza	Download File View File

BETA-LACTAMASE TOHO-1 FROM ESCHERICHIA COLI TUH12191

Ibuka, A., Taguchi, A., Ishiguro, M., Fushinobu, S., Ishii, Y., Kamitori, S., Okuyama, K., Yamaguchi, K., Konno, M., Matsuzawa, H.

(1999) J Mol Biology 285: 2079-2087

Released	1999-04-27
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Escherichia coli
Macromolecule	BETA-LACTAMASE (protein)
Unique Ligands	SO4

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1DCJ \| pdb_00001dcj	Download File View File

SOLUTION STRUCTURE OF YHHP, A NOVEL ESCHERICHIA COLI PROTEIN IMPLICATED IN THE CELL DIVISION

Katoh, E., Hatta, T., Shindo, H., Mizuno, T., Yamazaki, T.

(2000) J Mol Biology 304: 219-229

Released	2001-07-18
Method	SOLUTION NMR
Organisms	Escherichia coli
Macromolecule	YHHP PROTEIN (protein)

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1IYO \| pdb_00001iyo	Download File View File

Toho-1 beta-Lactamase In Complex With Cefotaxime

Shimamura, T., Ibuka, A., Fushinobu, S., Wakagi, T., Ishiguro, M., Ishii, Y., Matsuzawa, H.

(2002) J Biological Chem 277: 46601-46608

Released	2002-12-11
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Escherichia coli
Macromolecule	Toho-1 beta-lactamase (protein)
Unique Ligands	CEF, SO4

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1IYP \| pdb_00001iyp	Download File View File

Toho-1 beta-Lactamase In Complex With Cephalothin

Shimamura, T., Ibuka, A., Fushinobu, S., Wakagi, T., Ishiguro, M., Ishii, Y., Matsuzawa, H.

(2002) J Biological Chem 277: 46601-46608

Released	2002-12-11
Method	X-RAY DIFFRACTION 2 Å
Organisms	Escherichia coli
Macromolecule	Toho-1 beta-lactamase (protein)
Unique Ligands	CEP, SO4

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1IYQ \| pdb_00001iyq	Download File View File

Toho-1 beta-Lactamase In Complex With Benzylpenicillin

Shimamura, T., Ibuka, A., Fushinobu, S., Wakagi, T., Ishiguro, M., Ishii, Y., Matsuzawa, H.

(2002) J Biological Chem 277: 46601-46608

Released	2002-12-11
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Escherichia coli
Macromolecule	Toho-1 beta-lactamase (protein)
Unique Ligands	PNM, SO4

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1IYS \| pdb_00001iys	Download File View File

Crystal Structure of Class A beta-Lactamase Toho-1

Ibuka, A.S., Ishii, Y., Yamaguchi, K., Matsuzawa, H., Sakai, H.

(2003) Biochemistry 42: 10634-10643

Released	2003-10-14
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Escherichia coli
Macromolecule	BETA-LACTAMASE TOHO-1 (protein)
Unique Ligands	SO4

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1WP6 \| pdb_00001wp6	Download File View File

Crystal structure of maltohexaose-producing amylase from alkalophilic Bacillus sp.707.

Kanai, R., Haga, K., Akiba, T., Yamane, K., Harata, K.

(2004) Biochemistry 43: 14047-14056

Released	2004-11-30
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Bacillus sp. 707
Macromolecule	Glucan 1,4-alpha-maltohexaosidase (protein)
Unique Ligands	CA, NA, PO4, TRS

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1WPC \| pdb_00001wpc	Download File View File

Crystal structure of maltohexaose-producing amylase complexed with pseudo-maltononaose

Kanai, R., Haga, K., Akiba, T., Yamane, K., Harata, K.

(2004) Biochemistry 43: 14047-14056

Released	2004-11-30
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Bacillus sp. 707
Macromolecule	Glucan 1,4-alpha-maltohexaosidase (protein)
Unique Ligands	ACI, CA, NA
Unique branched monosaccharides	GAL, GLC, GLD

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2DDQ \| pdb_00002ddq	Download File View File

Crystal Structure of the Fab fragment of a R310 antibody complexed with (R)-HNE-histidine adduct

Ito, S.

(2006) Proc Natl Acad Sci U S A 103: 6160-6165

Released	2006-07-11
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Mus musculus
Macromolecule	R310 antibody heavy chain (protein) R310 antibody light chain (protein)
Unique Ligands	EPE, HRB

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2MXU \| pdb_00002mxu	Download File View File

42-Residue Beta Amyloid Fibril

Xiao, Y., Ma, B., McElheny, D., Parthasarathy, S., Long, F., Hoshi, M., Nussinov, R., Ishii, Y.

(2015) Nat Struct Mol Biol 22: 499-505

Released	2015-05-06
Method	SOLID-STATE NMR
Organisms	Homo sapiens
Macromolecule	Amyloid beta A4 protein (protein)

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2ZQ9 \| pdb_00002zq9	Download File View File

Cephalothin acyl-intermediate structure of class a beta-lactamase Toho-1 E166A/R274N/R276N triple mutant

Nitanai, Y., Shimamura, T., Uchiyama, T., Ishii, Y., Takehira, M., Yutani, K., Matsuzawa, H., Miyano, M.

To be published

Released	2009-07-28
Method	X-RAY DIFFRACTION 1.07 Å
Organisms	Escherichia coli
Macromolecule	Beta-lactamase Toho-1 (protein)
Unique Ligands	CEO, CLS, SO4, SPA

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2ZQA \| pdb_00002zqa	Download File View File

Cefotaxime acyl-intermediate structure of class a beta-lacta Toho-1 E166A/R274N/R276N triple mutant

Nitanai, Y., Shimamura, T., Uchiyama, T., Ishii, Y., Takehira, M., Yutani, K., Matsuzawa, H., Miyano, M.

To be published

Released	2009-07-28
Method	X-RAY DIFFRACTION 0.95 Å
Organisms	Escherichia coli
Macromolecule	Beta-lactamase Toho-1 (protein)
Unique Ligands	CEF, SO4

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2ZQC \| pdb_00002zqc	Download File View File

Aztreonam acyl-intermediate structure of class a beta-lactam Toho-1 E166A/R274N/R276N triple mutant

Nitanai, Y., Shimamura, T., Uchiyama, T., Ishii, Y., Takehira, M., Yutani, K., Matsuzawa, H., Miyano, M.

To be published

Released	2009-07-28
Method	X-RAY DIFFRACTION 1.07 Å
Organisms	Escherichia coli
Macromolecule	Beta-lactamase Toho-1 (protein)
Unique Ligands	AZR, SO4

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2ZQD \| pdb_00002zqd	Download File View File

Ceftazidime acyl-intermediate structure of class a beta-lact Toho-1 E166A/R274N/R276N triple mutant

Nitanai, Y., Shimamura, T., Uchiyama, T., Ishii, Y., Takehira, M., Yutani, K., Matsuzawa, H., Miyano, M.

To be published

Released	2009-07-28
Method	X-RAY DIFFRACTION 1.19 Å
Organisms	Escherichia coli
Macromolecule	Beta-lactamase Toho-1 (protein)
Unique Ligands	CAZ, SO4

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3W8K \| pdb_00003w8k	Download File View File

Crystal structure of class C beta-lactamase Mox-1

Shimizu-ibuka, A., Oguri, T., Furuyama, T., Ishii, Y.

(2014) Antimicrob Agents Chemother 58: 3914-3920

Released	2014-04-23
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Klebsiella pneumoniae
Macromolecule	Beta-lactamase (protein)
Unique Ligands	ACT, ZN

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4WBG \| pdb_00004wbg	Download File View File

Crystal structure of class C beta-lactamase Mox-1 covalently complexed with aztorenam

Oguri, T., Shimizu-ibuka, A., Ishii, Y.

(2015) Antimicrob Agents Chemother 59: 5069-5072

Released	2015-07-01
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Klebsiella pneumoniae
Macromolecule	Beta-lactamase (protein)
Unique Ligands	ACT, AZR, ZN

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5B3R \| pdb_00005b3r	Download File View File

Crystal structure of metallo-beta-lactamase IMP-18 from Pseudomonas aeruginosa

Shimizu-Ibuka, A., Ishii, Y.

(2016) Antimicrob Agents Chemother 60: 5521-5526

Released	2017-02-15
Method	X-RAY DIFFRACTION 2 Å
Organisms	Pseudomonas aeruginosa
Macromolecule	IMP-18 (protein)
Unique Ligands	CIT, ZN

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5BOH \| pdb_00005boh	Download File View File

Crystal Structure of OXA-58 with the Substrate-Binding Cleft in a Closed State

Saino, H., Sugiyabu, T., Miyano, M.

(2015) PLoS One 10: e0145869-e0145869

Released	2015-12-30
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Acinetobacter baumannii
Macromolecule	Beta-lactamase (protein)
Unique Ligands	SO4

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5ZYB \| pdb_00005zyb	Download File View File

Crystal structure of MOX-1 complexed with a boronic acid transition state inhibitor S02030

Shimizu-Ibuka, A., Furukawa, N.

To be published

Released	2019-06-26
Method	X-RAY DIFFRACTION 2.13 Å
Organisms	Klebsiella pneumoniae
Macromolecule	Beta-lactamase (protein)
Unique Ligands	ACT, ZN, ZXM

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6AAV \| pdb_00006aav	Download File View File

Crystal structure of alpha-glucosyl transfer enzyme, XgtA at 1.72 angstrom resolution

Kurumizaka, H., Arimura, Y., Kirimura, K., Watanabe, R.

(2020) Biochem Biophys Res Commun 526: 580-585

Released	2019-07-24
Method	X-RAY DIFFRACTION 1.72 Å
Organisms	Xanthomonas campestris
Macromolecule	Alpha-glucosyltransferase (protein)

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6BN3 \| pdb_00006bn3	Download File View File

CTX-M-151 class A extended-spectrum beta-lactamase apo crystal structure at 1.3 Angstrom resolution

Power, P., Ghiglione, B., Rodriguez, M.M., Gutkind, G., Ishii, Y., Bonomo, R.A., Klinke, S.

(2021) Antimicrob Agents Chemother 65:

Released	2018-11-21
Method	X-RAY DIFFRACTION 1.278 Å
Organisms	Salmonella enterica
Macromolecule	Beta-lactamase (protein)
Unique Ligands	EPE

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6BPF \| pdb_00006bpf	Download File View File

CTX-M-151 class A extended-spectrum beta-lactamase crystal structure in complex with avibactam at 1.32 Angstrom resolution

Power, P., Ghiglione, B., Rodriguez, M.M., Gutkind, G., Ishii, Y., Bonomo, R.A., Klinke, S.

(2021) Antimicrob Agents Chemother 65:

Released	2018-11-28
Method	X-RAY DIFFRACTION 1.318 Å
Organisms	Salmonella enterica
Macromolecule	Beta-lactamase (protein)
Unique Ligands	NXL

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7VVI \| pdb_00007vvi	Download File View File

OXA-58 crystal structure of acylated meropenem complex

Saino, H., Sugiyabu, T., Miyano, M.

To be published

Released	2022-11-23
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Acinetobacter baumannii
Macromolecule	Beta-lactamase (protein)
Unique Ligands	MER, SO4

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7VX3 \| pdb_00007vx3	Download File View File

OXA-58 crystal structure of acylated meropenem complex 2

Saino, H., Sugiyabu, T., Miyano, M.

To be published

Released	2022-11-23
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Acinetobacter baumannii
Macromolecule	Beta-lactamase (protein)
Unique Ligands	DWZ, MER, SO4

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7VX6 \| pdb_00007vx6	Download File View File

OXA-58 crystal structure of acylated meropenem complex 2

Saino, H., Sugiyabu, T., Miyano, M.

To be published

Released	2022-11-23
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Acinetobacter baumannii
Macromolecule	Beta-lactamase (protein)
Unique Ligands	DWZ, MER, SO4

1 to 25 of 32 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

1BZA | pdb_00001bza

1DCJ | pdb_00001dcj

1IYO | pdb_00001iyo

1IYP | pdb_00001iyp

1IYQ | pdb_00001iyq

1IYS | pdb_00001iys

1WP6 | pdb_00001wp6

1WPC | pdb_00001wpc

2DDQ | pdb_00002ddq

2MXU | pdb_00002mxu

2ZQ9 | pdb_00002zq9

2ZQA | pdb_00002zqa

2ZQC | pdb_00002zqc

2ZQD | pdb_00002zqd

3W8K | pdb_00003w8k

4WBG | pdb_00004wbg

5B3R | pdb_00005b3r

5BOH | pdb_00005boh

5ZYB | pdb_00005zyb

6AAV | pdb_00006aav

6BN3 | pdb_00006bn3

6BPF | pdb_00006bpf

7VVI | pdb_00007vvi

7VX3 | pdb_00007vx3

7VX6 | pdb_00007vx6