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

234,440 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: Source Organism Taxonomy Name (Full Lineage) = "Turnip yellow mosaic virus"

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 12 Structures.

Refinements

Structure Determination Methodology

experimental (12)

Scientific Name of Source Organism

	Turnip yellow mosaic virus (10)
	Turnip yellow mosaic virus (Australian isolate) (2)
	Escherichia coli BL21(DE3) (1)
	Homo sapiens (1)
	synthetic construct (1)

Taxonomy

	Riboviria (12)
	Bacteria (1)
	Eukaryota (1)
	other sequences (1)

Experimental Method

	X-RAY DIFFRACTION (11)
	SOLUTION NMR (1)

Polymer Entity Type

	Protein (9)
	RNA (4)

Refinement Resolution (Å)

	1.5 - 2.0 (3)
	2.0 - 2.5 (1)
	2.5 - 3.0 (3)
	3.0 - 3.5 (2)
	3.5 - 4.0 (2)

Release Date

	1995 - 1999 (2)
	2000 - 2004 (1)
	2005 - 2009 (2)
	2010 - 2014 (2)
	2015 - 2019 (3)
	2020 - 2024 (1)
	2025 - 2029 (1)

Enzyme Classification Name

	Hydrolases (4)
	Transferases (5)

Symmetry Type

	Asymmetric (4)
	Icosahedral (4)
	Cyclic (1)

SCOP Classification

All beta proteins (4)

AllSelected

1 to 12 of 12 Structures

Page 1 of 1

Sort by

Explore in 3D

1A60 \| pdb_00001a60	Download File View File

NMR STRUCTURE OF A CLASSICAL PSEUDOKNOT: INTERPLAY OF SINGLE-AND DOUBLE-STRANDED RNA, 24 STRUCTURES

Kolk, M.H., Van Der Graaf, M., Wijmenga, S.S., Pleij, C.W.A., Heus, H.A., Hilbers, C.W.

(1998) Science 280: 434-438

Released	1998-05-27
Method	SOLUTION NMR
Organisms	Turnip yellow mosaic virus
Macromolecule	TYMV PSEUDOKNOT (nucleic acid)

Explore in 3D

1AUY \| pdb_00001auy	Download File View File

TURNIP YELLOW MOSAIC VIRUS

Canady, M.A., Larson, S.B., Day, J., McPherson, A.

(1996) Nat Struct Biol 3: 771-781

Released	1998-03-18
Method	X-RAY DIFFRACTION 3 Å
Organisms	Turnip yellow mosaic virus
Macromolecule	TURNIP YELLOW MOSAIC VIRUS (protein)

Explore in 3D

1W39 \| pdb_00001w39	Download File View File

Crystal structure of an artificial top component of turnip yellow mosaic virus

van Roon, A.M.M., Bink, H.H.J., Plaisier, J.R., Pleij, C.W.A., Abrahams, J.P., Pannu, N.S.

(2004) J Mol Biology 341: 1205

Released	2004-08-16
Method	X-RAY DIFFRACTION 3.75 Å
Organisms	Turnip yellow mosaic virus
Macromolecule	TURNIP YELLOW MOSAIC VIRUS EMPTY CAPSID (protein)

Explore in 3D

2FZ1 \| pdb_00002fz1	Download File View File

Structure of Empty Head Turnip Yellow Mosaic Virus (ATC) at 100 K

Larson, S.B., Lucas, R.W., McPherson, A.

(2005) Virology 334: 245-254

Released	2006-02-21
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Turnip yellow mosaic virus (Australian isolate)
Macromolecule	Coat protein (protein)

Explore in 3D

2FZ2 \| pdb_00002fz2	Download File View File

Structure of Turnip Yellow Mosaic Virus at 100 K

Larson, S.B., Lucas, R.W., McPherson, A.

(2005) Virology 334: 245-254

Released	2006-02-21
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Turnip yellow mosaic virus (Australian isolate)
Macromolecule	Coat protein (protein) 5'-R(CPCP*C)-3' (nucleic acid)

Explore in 3D

4A5U \| pdb_00004a5u	Download File View File

Turnip yellow mosaic virus proteinase and Escherichia coli 30S ribosomal S15

Robin, C., Beaurepaire, L., Bressanelli, S.

(2013) PLoS Pathog 9: 3560

Released	2012-11-14
Method	X-RAY DIFFRACTION 2 Å
Organisms	Escherichia coli BL21(DE3) Turnip yellow mosaic virus
Macromolecule	30S RIBOSOMAL PROTEIN S15 (protein) RNA REPLICASE POLYPROTEIN (protein)

Explore in 3D

4P5J \| pdb_00004p5j	Download File View File

Crystal structure of the tRNA-like structure from Turnip Yellow Mosaic Virus (TYMV), a tRNA mimicking RNA

Colussi, T.M., Costantino, D.A., Hammond, J.A., Ruehle, G.M., Nix, J.C., Kieft, J.S.

(2014) Nature 511: 366-369

Released	2014-06-04
Method	X-RAY DIFFRACTION 1.9912 Å
Organisms	Turnip yellow mosaic virus
Macromolecule	Turnip yellow mosaic virus mRNA for the coat protein (nucleic acid)
Unique Ligands	IRI, MG, SPM

Explore in 3D

5LW5 \| pdb_00005lw5	Download File View File

TURNIP YELLOW MOSAIC VIRUS PROTEASE/DEUBIQUITINASE DOMAIN, DELTAC5 MUTANT

Ayach, M., Bressanelli, S.

(2017) PLoS Pathog 13: e1006714-e1006714

Released	2017-10-25
Method	X-RAY DIFFRACTION 1.649 Å
Organisms	Turnip yellow mosaic virus
Macromolecule	RNA replicase polyprotein (protein)

Explore in 3D

5LWA \| pdb_00005lwa	Download File View File

TURNIP YELLOW MOSAIC VIRUS PROTEASE/DEUBIQUITINASE DOMAIN, I847A MUTANT

Ayach, M., Bressanelli, S.

(2017) PLoS Pathog 13: e1006714-e1006714

Released	2017-10-25
Method	X-RAY DIFFRACTION 1.653 Å
Organisms	Turnip yellow mosaic virus
Macromolecule	RNA replicase polyprotein (protein)

Explore in 3D

6MJ0 \| pdb_00006mj0	Download File View File

Crystal structure of the complete turnip yellow mosaic virus 3'UTR

Hartwick, E.W., Costantino, D.A., MacFadden, A., Nix, J.C., Tian, S., Das, R., Kieft, J.S.

(2018) Nat Commun 9: 5074-5074

Released	2019-01-09
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Turnip yellow mosaic virus
Macromolecule	RNA (101-MER) (nucleic acid)

Explore in 3D

6YPT \| pdb_00006ypt	Download File View File

X-ray structure of Turnip Yellow Mosaic Virus PRO/DUB in complex with Ubiquitin

Fieulaine, S., Bressanelli, S.

(2020) J Biological Chem

Released	2020-08-05
Method	X-RAY DIFFRACTION 3.663 Å
Organisms	Homo sapiens Turnip yellow mosaic virus
Macromolecule	Polyubiquitin-C (protein) RNA replicase polyprotein (protein)
Unique Ligands	GVE

Explore in 3D

9CSH \| pdb_00009csh	Download File View File

Turnip Yellow Mosaic Virus (TYMV) protease (PRO) bound to a ubiquitin variant (UbV3)

Kim, K., Mark, B.L.

(2025) PLoS Pathog 21: e1012899-e1012899

Released	2025-01-22
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Turnip yellow mosaic virus synthetic construct
Macromolecule	Methyltransferase/Protease/Ubiquitinyl hydrolase (protein) Ubiquitin Variant UbV3 (protein)

1 to 12 of 12 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.

1A60 | pdb_00001a60

NMR STRUCTURE OF A CLASSICAL PSEUDOKNOT: INTERPLAY OF SINGLE-AND DOUBLE-STRANDED RNA, 24 STRUCTURES

1AUY | pdb_00001auy

TURNIP YELLOW MOSAIC VIRUS

1W39 | pdb_00001w39

Crystal structure of an artificial top component of turnip yellow mosaic virus

2FZ1 | pdb_00002fz1

Structure of Empty Head Turnip Yellow Mosaic Virus (ATC) at 100 K

2FZ2 | pdb_00002fz2

Structure of Turnip Yellow Mosaic Virus at 100 K

4A5U | pdb_00004a5u

Turnip yellow mosaic virus proteinase and Escherichia coli 30S ribosomal S15

4P5J | pdb_00004p5j

Crystal structure of the tRNA-like structure from Turnip Yellow Mosaic Virus (TYMV), a tRNA mimicking RNA

5LW5 | pdb_00005lw5

TURNIP YELLOW MOSAIC VIRUS PROTEASE/DEUBIQUITINASE DOMAIN, DELTAC5 MUTANT

5LWA | pdb_00005lwa

TURNIP YELLOW MOSAIC VIRUS PROTEASE/DEUBIQUITINASE DOMAIN, I847A MUTANT

6MJ0 | pdb_00006mj0

Crystal structure of the complete turnip yellow mosaic virus 3'UTR

6YPT | pdb_00006ypt

X-ray structure of Turnip Yellow Mosaic Virus PRO/DUB in complex with Ubiquitin

9CSH | pdb_00009csh

Turnip Yellow Mosaic Virus (TYMV) protease (PRO) bound to a ubiquitin variant (UbV3)

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

1A60 | pdb_00001a60

1AUY | pdb_00001auy

1W39 | pdb_00001w39

2FZ1 | pdb_00002fz1

2FZ2 | pdb_00002fz2

4A5U | pdb_00004a5u

4P5J | pdb_00004p5j

5LW5 | pdb_00005lw5

5LWA | pdb_00005lwa

6MJ0 | pdb_00006mj0

6YPT | pdb_00006ypt

9CSH | pdb_00009csh