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

232,418 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: Structure Author = "Chiba, Y."

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 3 Structures.

Refinements

Structure Determination Methodology

experimental (3)

Scientific Name of Source Organism

	Hydrogenobacter thermophilus TK-6 (2)
	Actinomyces israelii (1)

Taxonomy

Bacteria (3)

Experimental Method

X-RAY DIFFRACTION (3)

Polymer Entity Type

Protein (3)

Refinement Resolution (Å)

	1.5 - 2.0 (2)
	2.5 - 3.0 (1)

Release Date

	2010 - 2014 (2)
	2015 - 2019 (1)

Enzyme Classification Name

	Hydrolases (2)
	Lyases (1)

Symmetry Type

	Cyclic (2)
	Asymmetric (1)

SCOP Classification

Alpha and beta proteins (a/b) (2)

AllSelected

1 to 3 of 3 Structures

Page 1 of 1

Sort by

Explore in 3D

4IJ5	Download File View File

Crystal Structure of a Novel-type Phosphoserine Phosphatase from <i>Hydrogenobacter thermophilus</i> TK-6

Chiba, Y., Horita, S., Ohtsuka, J., Arai, H., Nagata, K., Igarashi, Y., Tanokura, M., Ishii, M.

(2013) J Biol Chem 288: 11448-11458

Released	2013-03-20
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Hydrogenobacter thermophilus TK-6
Macromolecule	Phosphoserine phosphatase 1 (protein)
Unique Ligands	CL, EDO

Explore in 3D

4IJ6	Download File View File

Crystal Structure of a Novel-type Phosphoserine Phosphatase Mutant (H9A) from <i>Hydrogenobacter thermophilus</i> TK-6 in Complex with L-phosphoserine

Chiba, Y., Horita, S., Ohtsuka, J., Arai, H., Nagata, K., Igarashi, Y., Tanokura, M., Ishii, M.

(2013) J Biol Chem 288: 11448-11458

Released	2013-03-20
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Hydrogenobacter thermophilus TK-6
Macromolecule	Phosphoserine phosphatase 1 (protein)
Unique Ligands	CL, EDO, SEP

Explore in 3D

6K31	Download File View File

Crystal structure of pyrophosphate-dependent phosphoenolpyruvate carboxykinase (PPi-PEPCK)

Chiba, Y., Miyakawa, T., Tanokura, M.

(2019) J Biol Chem 294: 19269-19278

Released	2019-11-06
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Actinomyces israelii
Macromolecule	AiPEPCK (protein)
Unique Ligands	CO

1 to 3 of 3 Structures

Page 1 of 1

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.

All questions and comments will receive a response in a timely manner.

Use this form for questions about RCSB.org and RCSB PDB services.
Please attach a screenshot when reporting an issue, if possible.
To update/release your in-progress structure depositions:
access the OneDep Communication panel
For questions/corrections to specific PDB entries, including citation updates:
email deposit-help@mail.wwpdb.org

First Name

Last Name

Subject

Question, Comment, Feedback or Other

Attach File(s)
Use CTRL or Shift keys to select more than one file ( files max)

I agree to the Help Desk Privacy Policy

Optional: To help us learn more about our users, what is your:

Institution Type

Role

Main Research Interest

Thank you for providing your feedback! Someone will be in touch with you shortly. This window will automatically close in 5 seconds.

Apologies, our feedback server is currently unavailable and we are troubleshooting the issue. In the meantime, please copy and paste the below information into an email addressed to info@rcsb.org

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

Symmetry Type

SCOP Classification

4IJ5

Crystal Structure of a Novel-type Phosphoserine Phosphatase from <i>Hydrogenobacter thermophilus</i> TK-6

4IJ6

Crystal Structure of a Novel-type Phosphoserine Phosphatase Mutant (H9A) from <i>Hydrogenobacter thermophilus</i> TK-6 in Complex with L-phosphoserine

6K31

Crystal structure of pyrophosphate-dependent phosphoenolpyruvate carboxykinase (PPi-PEPCK)