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

232,059 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 = "Demeshkina, N."

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 29 Structures.

Refinements

Structure Determination Methodology

experimental (29)

Scientific Name of Source Organism

	Thermus thermophilus HB8 (26)
	Escherichia coli K-12 (15)
	Escherichia coli (12)
	Escherichia coli str. K-12 substr. MDS42 (6)
	Saccharomyces cerevisiae (2)
	Thermus thermophilus (2)
	Saccharomyces cerevisiae S288C (1)
	synthetic construct (1)

Taxonomy

	Bacteria (28)
	Eukaryota (3)
	other sequences (1)

Experimental Method

	X-RAY DIFFRACTION (28)
	ELECTRON MICROSCOPY (1)

Polymer Entity Type

	Protein (29)
	RNA (29)

Refinement Resolution (Å)

	2.5 - 3.0 (4)
	3.0 - 3.5 (24)
	4.0 - 4.5 (1)

Release Date

	2010 - 2014 (6)
	2015 - 2019 (21)
	2020 - 2024 (2)

Enzyme Classification Name

Hydrolases (1)

Symmetry Type

Asymmetric (29)

AllSelected

1 to 25 of 29 Structures

Page 1 of 2

Sort by

Explore in 3D

4V87	Download File View File

Crystal structure analysis of ribosomal decoding.

Demeshkina, N., Jenner, L., Yusupov, M., Yusupova, G.

(2012) Nature 484: 256-259

Released	2014-07-09
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Escherichia coli str. K-12 substr. MDS42 Thermus thermophilus HB8 synthetic construct
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 6
Unique Ligands	MG, ZN

Explore in 3D

4V8B	Download File View File

Crystal structure analysis of ribosomal decoding (near-cognate tRNA-leu complex).

Jenner, L., Demeshkina, N., Yusupov, M., Yusupova, G.

(2012) Nature 484: 256-259

Released	2014-07-09
Method	X-RAY DIFFRACTION 3 Å
Organisms	Escherichia coli str. K-12 substr. MDS42 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 6
Unique Ligands	MG, ZN

Explore in 3D

4V8C	Download File View File

Crystal structure analysis of ribosomal decoding (near-cognate tRNA-leu complex with paromomycin).

Jenner, L., Demeshkina, N., Yusupov, M., Yusupova, G.

(2012) Nature 484: 256-259

Released	2014-07-09
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Escherichia coli str. K-12 substr. MDS42 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 6
Unique Ligands	MG, PAR, ZN

Explore in 3D

4V8D	Download File View File

Structure analysis of ribosomal decoding (cognate tRNA-tyr complex).

Jenner, L., Demeshkina, N., Yusupov, M., Yusupova, G.

(2012) Nature 484: 256-259

Released	2014-07-09
Method	X-RAY DIFFRACTION 3 Å
Organisms	Escherichia coli str. K-12 substr. MDS42 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 6
Unique Ligands	MG, ZN

Explore in 3D

4V8E	Download File View File

Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex).

Jenner, L., Demeshkina, N., Yusupov, M., Yusupova, G.

(2012) Nature 484: 256-259

Released	2014-07-09
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Escherichia coli str. K-12 substr. MDS42 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 6
Unique Ligands	MG, OHX, ZN

Explore in 3D

4V8F	Download File View File

Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin).

Jenner, L., Demeshkina, N., Yusupov, M., Yusupova, G.

(2012) Nature 484: 256-259

Released	2014-07-09
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Escherichia coli str. K-12 substr. MDS42 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 6
Unique Ligands	MG, OHX, PAR, ZN

Explore in 3D

4WQ1	Download File View File

Complex of 70S ribosome with tRNA-Tyr and mRNA with C-A mismatch in the first position in the A-site.

Rozov, A., Demeshkina, N., Yusupov, M., Yusupova, G.

(2015) Nat Commun 6: 7251-7251

Released	2015-06-10
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Escherichia coli K-12 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 52 Unique nucleic acid chains: 7
Unique Ligands	MG, ZN

Explore in 3D

4WQR	Download File View File

Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the first position in the A-site.

Rozov, A., Demeshkina, N., Yusupov, M., Yusupova, G.

(2015) Nat Commun 6: 7251-7251

Released	2015-06-10
Method	X-RAY DIFFRACTION 3.15 Å
Organisms	Escherichia coli K-12 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 7
Unique Ligands	MG, ZN

Explore in 3D

4WR6	Download File View File

Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site.

Rozov, A., Demeshkina, N., Yusupov, M., Yusupova, G.

(2015) Nat Commun 6: 7251-7251

Released	2015-06-10
Method	X-RAY DIFFRACTION 3.05 Å
Organisms	Escherichia coli K-12 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 47 Unique nucleic acid chains: 10
Unique Ligands	MG, ZN

Explore in 3D

4WRA	Download File View File

Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site and with antibiotic paromomycin.

Rozov, A., Demeshkina, N., Yusupov, M., Yusupova, G.

(2015) Nat Commun 6: 7251-7251

Released	2015-06-10
Method	X-RAY DIFFRACTION 3.05 Å
Organisms	Escherichia coli Thermus thermophilus HB8
Macromolecule	Unique protein chains: 47 Unique nucleic acid chains: 8
Unique Ligands	MG, PAR, ZN

Explore in 3D

4WRO	Download File View File

Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the second position in the A-site

Rozov, A., Demeshkina, N., Yusupov, M., Yusupova, G.

(2015) Nat Commun 6: 7251-7251

Released	2015-06-10
Method	X-RAY DIFFRACTION 3.05 Å
Organisms	Escherichia coli K-12 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 7
Unique Ligands	MG, ZN

Explore in 3D

4WSD	Download File View File

Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the second position in the A-site and with antibiotic paromomycin.

Rozov, A., Demeshkina, N., Yusupov, M., Yusupova, G.

(2015) Nat Commun 6: 7251-7251

Released	2015-06-10
Method	X-RAY DIFFRACTION 2.95 Å
Organisms	Escherichia coli K-12 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 9
Unique Ligands	MG, PAR, ZN

Explore in 3D

4WSM	Download File View File

Complex of 70S ribosome with tRNA-Leu and mRNA with G-U mismatch in the first position in the A- and P-sites

Rozov, A., Demeshkina, N., Yusupov, M., Yusupova, G.

(2015) Nat Commun 6: 7251-7251

Released	2015-06-10
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Escherichia coli K-12 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 47 Unique nucleic acid chains: 7
Unique Ligands	MG, ZN

Explore in 3D

4WT1	Download File View File

Complex of 70S ribosome with tRNA-Phe and mRNA with A-A mismatch in the second position in the A-site

Rozov, A., Demeshkina, N., Yusupov, M., Yusupova, G.

(2015) Nat Commun 6: 7251-7251

Released	2015-06-10
Method	X-RAY DIFFRACTION 3.05 Å
Organisms	Escherichia coli K-12 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 7
Unique Ligands	MG, ZN

Explore in 3D

4WU1	Download File View File

Complex of 70S ribosome with tRNA-Tyr and mRNA with G-U mismatch in the second position in the P-site

Rozov, A., Demeshkina, N., Yusupov, M., Yusupova, G.

(2015) Nat Commun 6: 7251-7251

Released	2015-06-10
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Escherichia coli Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 6
Unique Ligands	MG, ZN

Explore in 3D

4WZD	Download File View File

Complex of 70S ribosome with cognate tRNA-Tyr in the P-site

Rozov, A., Demeshkina, N., Yusupov, M., Yusupova, G.

(2015) Nat Commun 6: 7251-7251

Released	2015-06-10
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Escherichia coli Thermus thermophilus HB8
Macromolecule	Unique protein chains: 49 Unique nucleic acid chains: 5
Unique Ligands	MG, ZN

Explore in 3D

4WZO	Download File View File

Complex of 70S ribosome with tRNA-fMet and mRNA

Rozov, A., Demeshkina, N., Yusupov, M., Yusupova, G.

(2015) Nat Commun 6: 7251-7251

Released	2015-06-10
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Escherichia coli K-12 Thermus thermophilus Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 8
Unique Ligands	MG, ZN

Explore in 3D

5E7K	Download File View File

Structure of T. thermophilus 70S ribosome complex with mRNA and cognate tRNALys in the A-site

Rozov, A., Demeshkina, N., Khusainov, I., Yusupov, M., Yusupova, G.

(2016) Nat Commun 7: 10457-10457

Released	2016-01-27
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Escherichia coli Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 9
Unique Ligands	MG, SF4, ZN

Explore in 3D

5E81	Download File View File

Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pair

Rozov, A., Demeshkina, N., Khusainov, I., Yusupov, M., Yusupova, G.

(2016) Nat Commun 7: 10457-10457

Released	2016-01-27
Method	X-RAY DIFFRACTION 2.95 Å
Organisms	Escherichia coli Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 7
Unique Ligands	MG, SF4, ZN

Explore in 3D

5EL4	Download File View File

Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position

Rozov, A., Demeshkina, N., Khusainov, I., Yusupov, M., Yusupova, G.

(2016) Nat Commun 7: 10457-10457

Released	2016-01-27
Method	X-RAY DIFFRACTION 3.15 Å
Organisms	Escherichia coli Escherichia coli K-12 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 9
Unique Ligands	MG, SF4, ZN

Explore in 3D

5EL5	Download File View File

Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position

Rozov, A., Demeshkina, N., Khusainov, I., Yusupov, M., Yusupova, G.

(2016) Nat Commun 7: 10457-10457

Released	2016-01-27
Method	X-RAY DIFFRACTION 3.15 Å
Organisms	Escherichia coli K-12 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 9
Unique Ligands	MG, SF4, ZN

Explore in 3D

5EL6	Download File View File

Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position and antibiotic paromomycin

Rozov, A., Demeshkina, N., Khusainov, I., Yusupov, M., Yusupova, G.

(2016) Nat Commun 7: 10457-10457

Released	2016-01-27
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Escherichia coli K-12 Thermus thermophilus Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 7
Unique Ligands	MG, PAR, SF4, ZN

Explore in 3D

5EL7	Download File View File

Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position and antibiotic paromomycin

Rozov, A., Demeshkina, N., Khusainov, I., Yusupov, M., Yusupova, G.

(2016) Nat Commun 7: 10457-10457

Released	2016-01-27
Method	X-RAY DIFFRACTION 3.15 Å
Organisms	Escherichia coli Escherichia coli K-12 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 8
Unique Ligands	MG, PAR, SF4, ZN

Explore in 3D

5IB7	Download File View File

Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet, near-cognate tRNALys with U-G mismatch in the A-site and antibiotic paromomycin

Rozov, A., Demeshkina, N., Yusupov, M., Yusupova, G.

(2016) Nucleic Acids Res 44: 6434-6441

Released	2016-05-25
Method	X-RAY DIFFRACTION 2.99 Å
Organisms	Escherichia coli Escherichia coli K-12 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 49 Unique nucleic acid chains: 7
Unique Ligands	MG, PAR, SF4, SPE, ZN

Explore in 3D

5IB8	Download File View File

Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and near-cognate tRNALys with U-G mismatch in the A-site

Rozov, A., Demeshkina, N., Yusupov, M., Yusupova, G.

(2016) Nucleic Acids Res 44: 6434-6441

Released	2016-05-25
Method	X-RAY DIFFRACTION 3.13 Å
Organisms	Escherichia coli Escherichia coli K-12 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 48 Unique nucleic acid chains: 8
Unique Ligands	MG, SF4, SPE, ZN

1 to 25 of 29 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.

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