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 = "Taoka, M."

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 47 Structures.

Refinements

Structure Determination Methodology

experimental (47)

Scientific Name of Source Organism

	Homo sapiens (8)
	Escherichia coli (6)
	Pseudoalteromonas sp. SM9913 (6)
	Roseovarius nubinhibens ISM (4)
	Ruegeria lacuscaerulensis ITI-1157 (4)
	Acinetobacter bereziniae NIPH 3 (3)
	uncultured bacterium (3)
	Catenovulum maritimum (2)
	Coxsackievirus A10 (2)
	Oryza sativa Japonica Group (2)

More...

Taxonomy

	Bacteria (39)
	Eukaryota (13)
	Riboviria (2)

Experimental Method

	X-RAY DIFFRACTION (37)
	ELECTRON MICROSCOPY (10)

Polymer Entity Type

Protein (47)

Refinement Resolution (Å)

	1.0 - 1.5 (2)
	1.5 - 2.0 (16)
	2.0 - 2.5 (18)
	2.5 - 3.0 (3)
	3.0 - 3.5 (7)
	3.5 - 4.0 (1)

Release Date

	1995 - 1999 (1)
	2010 - 2014 (4)
	2015 - 2019 (28)
	2020 - 2024 (8)
	2025 - 2029 (6)

Enzyme Classification Name

	Oxidoreductases (6)
	Hydrolases (1)

Membrane Protein Annotation

	PDBTM (8)
	MemProtMD (7)

Symmetry Type

	Asymmetric (28)
	Cyclic (19)
	Icosahedral (2)
	Dihedral (1)

SCOP Classification

	Alpha and beta proteins (a/b) (3)
	Artifacts (4)
	All alpha proteins (2)
	All beta proteins (3)
	Alpha and beta proteins (a+b) (2)

AllSelected

1 to 25 of 47 Structures

Page 1 of 2

Sort by

Explore in 3D

1AX8 \| pdb_00001ax8	Download File View File

Human obesity protein, leptin

Zhang, F., Beals, J.M., Briggs, S.L., Clawson, D.K., Wery, J.-P., Schevitz, R.W.

(1997) Nature 387: 206-209

Released	1998-11-25
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	OBESITY PROTEIN (protein)

Explore in 3D

3VV3 \| pdb_00003vv3	Download File View File

Crystal structure of deseasin MCP-01 from Pseudoalteromonas sp. SM9913

Zhao, G.Y., Gao, X., Chen, X.L., Zhang, Y.Z.

(2013) Mol Microbiol 90: 997-1010

Released	2013-08-07
Method	X-RAY DIFFRACTION 1.76 Å
Organisms	Pseudoalteromonas sp. SM9913
Macromolecule	Deseasin MCP-01 (protein)
Unique Ligands	CA

Explore in 3D

4Q05 \| pdb_00004q05	Download File View File

Crystal structure of an esterase E25

Li, P.Y., Li, C.Y., Zhang, Y.Z.

(2014) J Biological Chem 289: 19031-19041

Released	2014-06-04
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	uncultured bacterium
Macromolecule	esterase E25 (protein)
Unique Ligands	NA

Explore in 3D

4Q8K \| pdb_00004q8k	Download File View File

Crystal structure of polysaccharide lyase family 18 aly-SJ02 P-CATD

Dong, S., Li, C.Y., Zhang, Y.Z.

(2014) J Biological Chem 289: 29558-29569

Released	2014-09-17
Method	X-RAY DIFFRACTION 1.646 Å
Organisms	Pseudoalteromonas sp. SM0524
Macromolecule	Alginase (protein)
Unique Ligands	CA, SO4

Explore in 3D

4Q8L \| pdb_00004q8l	Download File View File

Crystal structure of polysacchride lyase family 18 aly-SJ02 r-CATD

Dong, S., Li, C.Y., Zhang, Y.Z.

(2014) J Biological Chem 289: 29558-29569

Released	2014-09-17
Method	X-RAY DIFFRACTION 2.099 Å
Organisms	Pseudoalteromonas sp. SM0524
Macromolecule	Alginase (protein)
Unique Ligands	CA

Explore in 3D

4QFK \| pdb_00004qfk	Download File View File

Crystal structure of dipeptide binding protein from pseudoalteromonas sp. SM9913

Li, C.Y., Zhang, Y.Z.

(2015) J Bacteriol 197: 1125-1134

Released	2015-01-28
Method	X-RAY DIFFRACTION 2.288 Å
Organisms	Pseudoalteromonas sp. SM9913
Macromolecule	ABC transporter periplasmic peptide-binding protein (protein)

Explore in 3D

4QFL \| pdb_00004qfl	Download File View File

Crystal structure of dipeptide binding protein from pseudoalteromonas sp. SM9913 in complex with Ala-Phe

Li, C.Y., Zhang, Y.Z.

(2015) J Bacteriol 197: 1125-1134

Released	2015-01-28
Method	X-RAY DIFFRACTION 1.749 Å
Organisms	Pseudoalteromonas sp. SM9913
Macromolecule	ABC transporter periplasmic peptide-binding protein (protein)
Unique Ligands	ALA, GOL, PHE

Explore in 3D

4QFN \| pdb_00004qfn	Download File View File

Crystal structure of dipeptide binding protein from pseudoalteromonas sp. SM9913 in complex with Gly-Glu

Li, C.Y., Zhang, Y.Z.

(2015) J Bacteriol 197: 1125-1134

Released	2015-01-28
Method	X-RAY DIFFRACTION 2.297 Å
Organisms	Pseudoalteromonas sp. SM9913
Macromolecule	ABC transporter periplasmic peptide-binding protein (protein)
Unique Ligands	GLU, GLY

Explore in 3D

4QFO \| pdb_00004qfo	Download File View File

Crystal structure of dipeptide binding protein from pseudoalteromonas sp. SM9913 in complex with Met-Leu

Li, C.Y., Zhang, Y.Z.

(2015) J Bacteriol 197: 1125-1134

Released	2015-01-28
Method	X-RAY DIFFRACTION 2.304 Å
Organisms	Pseudoalteromonas sp. SM9913
Macromolecule	ABC transporter periplasmic peptide-binding protein (protein)
Unique Ligands	GOL, LEU, MET

Explore in 3D

4QFP \| pdb_00004qfp	Download File View File

Crystal structure of dipeptide binding protein from pseudoalteromonas sp. SM9913 in complex with Val-Thr

Li, C.Y., Zhang, Y.Z.

(2015) J Bacteriol 197: 1125-1134

Released	2015-01-28
Method	X-RAY DIFFRACTION 1.903 Å
Organisms	Pseudoalteromonas sp. SM9913
Macromolecule	ABC transporter periplasmic peptide-binding protein (protein)
Unique Ligands	GOL, PO4, THR, VAL

Explore in 3D

4RZY \| pdb_00004rzy	Download File View File

Crystal structure of metallopeptidase-like dimethylsulphoniopropionate (DMSP) lyase RlDddP in complex with MES

Zhang, Y., Wang, P.

(2015) Mol Microbiol 98: 289-301

Released	2015-08-05
Method	X-RAY DIFFRACTION 1.949 Å
Organisms	Ruegeria lacuscaerulensis ITI-1157
Macromolecule	Peptidase M24 (protein)
Unique Ligands	FE, MES

Explore in 3D

4RZZ \| pdb_00004rzz	Download File View File

Crystal structure of metallopeptidase-like dimethylsulphoniopropionate (DMSP) lyase RlDddP in complex with phosphate

Zhang, Y., Wang, P.

(2015) Mol Microbiol 98: 289-301

Released	2015-08-05
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Ruegeria lacuscaerulensis ITI-1157
Macromolecule	Peptidase M24 (protein)
Unique Ligands	FE, GOL, PO4

Explore in 3D

4S00 \| pdb_00004s00	Download File View File

Crystal structure of metallopeptidase-like dimethylsulphoniopropionate (DMSP) lyase RlDddP mutant Y366A in complex with acrylate

Zhang, Y., Wang, P.

(2015) Mol Microbiol 98: 289-301

Released	2015-08-05
Method	X-RAY DIFFRACTION 2.099 Å
Organisms	Ruegeria lacuscaerulensis ITI-1157
Macromolecule	Peptidase M24 (protein)
Unique Ligands	AKR, FE, GOL

Explore in 3D

4S01 \| pdb_00004s01	Download File View File

Crystal structure of metallopeptidase-like dimethylsulphoniopropionate (DMSP) lyase RlDddP mutant D377N in complex with acrylate

Zhang, Y., Wang, P.

(2015) Mol Microbiol 98: 289-301

Released	2015-08-05
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Ruegeria lacuscaerulensis ITI-1157
Macromolecule	Peptidase M24 (protein)
Unique Ligands	AKR, FE, GOL

Explore in 3D

4XVC \| pdb_00004xvc	Download File View File

Crystal structure of an esterase from the bacterial hormone-sensitive lipase (HSL) family

Zhang, Y., Li, P.

(2015) J Biological Chem 290: 11188-11198

Released	2015-03-25
Method	X-RAY DIFFRACTION 2 Å
Organisms	environmental samples
Macromolecule	Esterase E40 (protein)
Unique Ligands	PMS

Explore in 3D

4XZ6 \| pdb_00004xz6	Download File View File

TmoX in complex with TMAO

Zhang, Y.Z., Li, C.Y.

(2015) J Bacteriol 197: 3378-3387

Released	2015-08-19
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Ruegeria pomeroyi DSS-3
Macromolecule	Glycine betaine/proline ABC transporter, periplasmic substrate-binding protein (protein)
Unique Ligands	CA, GOL, TMO, TRS

Explore in 3D

5CF3 \| pdb_00005cf3	Download File View File

Crystal structures of Bbp from Staphylococcus aureus

Yu, Y., Zhang, X.Y., Gu, J.K.

(2015) Protein Cell 6: 757-766

Released	2015-09-23
Method	X-RAY DIFFRACTION 2.031 Å
Organisms	Staphylococcus aureus
Macromolecule	Bone sialoprotein-binding protein (protein)
Unique Ligands	CA

Explore in 3D

5CFA \| pdb_00005cfa	Download File View File

Crystal structures of Bbp from Staphylococcus aureus with peptide ligand

Yu, Y., Zhang, X.Y., Gu, J.K.

(2015) Protein Cell 6: 757-766

Released	2015-09-23
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Homo sapiens Staphylococcus aureus
Macromolecule	Bone sialoprotein-binding protein (protein) Peptide from Fibrinogen alpha chain (protein)
Unique Ligands	MG

Explore in 3D

5GMR \| pdb_00005gmr	Download File View File

Crystal structure of the mutant M3+S202W/I203F of the esterase E40

Zhang, Y.-Z., Li, P.-Y.

(2017) Appl Environ Microbiol 83:

Released	2017-07-19
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	uncultured bacterium
Macromolecule	Esterase (protein)

Explore in 3D

5GMS \| pdb_00005gms	Download File View File

Crystal structure of the mutant S202W/I203F of the esterase E40

Zhang, Y.-Z., Li, P.-Y.

(2017) Appl Environ Microbiol 83:

Released	2017-07-19
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	uncultured bacterium
Macromolecule	Esterase (protein)

Explore in 3D

5GRM \| pdb_00005grm	Download File View File

Crystal structure of rat STING in complex with cyclic GMP-AMP with 2'5'and 3'5'phosphodiester linkage(2'3'-cGAMP)

Zhang, H., Han, M.J., Tao, J.L., Ye, Z.Y., Du, X.X., Deng, M.J., Zhang, X.Y., Li, L.F., Jiang, Z.F., Su, X.D.

To be published

Released	2017-10-25
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Rattus norvegicus
Macromolecule	Stimulator of interferon genes protein (protein)
Unique Ligands	1SY

Explore in 3D

5GS5 \| pdb_00005gs5	Download File View File

Crystal structure of apo rat STING

Zhang, H., Han, M.J., Tao, J.L., Ye, Z.Y., Du, X.X., Deng, M.J., Zhang, X.Y., Li, L.F., Jiang, Z.F., Su, X.D.

To be published

Released	2017-10-25
Method	X-RAY DIFFRACTION 1.84 Å
Organisms	Rattus norvegicus
Macromolecule	Stimulator of interferon genes protein (protein)
Unique Ligands	SO4

Explore in 3D

5GSN \| pdb_00005gsn	Download File View File

Tmm in complex with methimazole

Zhang, Y.Z., Li, C.Y.

(2017) Mol Microbiol 103: 992-1003

Released	2017-01-18
Method	X-RAY DIFFRACTION 2.203 Å
Organisms	Roseovarius nubinhibens ISM
Macromolecule	Flavin-containing monooxygenase (protein)
Unique Ligands	FAD, MMZ, NAP

Explore in 3D

5IPY \| pdb_00005ipy	Download File View File

Crystal structure of WT RnTmm

Li, C.Y., Zhang, Y.Z.

(2017) Mol Microbiol 103: 992-1003

Released	2017-01-18
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Roseovarius nubinhibens ISM
Macromolecule	Flavin-containing monooxygenase (protein)
Unique Ligands	FAD, NAP

Explore in 3D

5IQ1 \| pdb_00005iq1	Download File View File

Crystal structure of RnTmm mutant Y207S

Li, C.Y., Zhang, Y.Z.

(2017) Mol Microbiol 103: 992-1003

Released	2017-01-18
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Roseovarius nubinhibens ISM
Macromolecule	Flavin-containing monooxygenase (protein)
Unique Ligands	FAD, NAP

1 to 25 of 47 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.

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

Membrane Protein Annotation

Symmetry Type

SCOP Classification

1AX8 | pdb_00001ax8

3VV3 | pdb_00003vv3

4Q05 | pdb_00004q05

4Q8K | pdb_00004q8k

4Q8L | pdb_00004q8l

4QFK | pdb_00004qfk

4QFL | pdb_00004qfl

4QFN | pdb_00004qfn

4QFO | pdb_00004qfo

4QFP | pdb_00004qfp

4RZY | pdb_00004rzy

4RZZ | pdb_00004rzz

4S00 | pdb_00004s00

4S01 | pdb_00004s01

4XVC | pdb_00004xvc

4XZ6 | pdb_00004xz6

5CF3 | pdb_00005cf3

5CFA | pdb_00005cfa

5GMR | pdb_00005gmr

5GMS | pdb_00005gms

5GRM | pdb_00005grm

5GS5 | pdb_00005gs5

5GSN | pdb_00005gsn

5IPY | pdb_00005ipy

5IQ1 | pdb_00005iq1