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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Gene Name = "CAPSID"

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Search Summary

This query matches 13 Structures.

Refinements

Structure Determination Methodology

experimental (13)

Scientific Name of Source Organism

	Norwalk-like virus (5)
	Human calicivirus NLV/VA97207/1997 (3)
	Rubella virus strain M33 (3)
	Adeno-associated virus (2)

Taxonomy

	Riboviria (11)
	Monodnaviria (2)

Experimental Method

	X-RAY DIFFRACTION (11)
	ELECTRON MICROSCOPY (2)

Polymer Entity Type

Protein (13)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (5)
	2.0 - 2.5 (3)
	2.5 - 3.0 (2)
	3.0 - 3.5 (1)
	> 4.5 (1)

Release Date

	2010 - 2014 (12)
	2015 - 2019 (1)

Symmetry Type

	Cyclic (11)
	Icosahedral (2)

SCOP Classification

All beta proteins (9)

AllSelected

1 to 13 of 13 Structures

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3ASP \| pdb_00003asp	Download File View File

Crystal structure of P domain from Norovirus Funabashi258 stain in the complex with A-antigen

Kubota, T., Kumagai, A., Itoh, H., Furukawa, S., Narimatsu, H., Wakita, T., Ishii, K., Takeda, N., Someya, Y., Shirato, H.

(2012) J Virol 86: 11138-11150

Released	2012-01-25
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Norwalk-like virus
Macromolecule	Capsid protein (protein)
Unique Ligands	NA
Unique branched monosaccharides	A2G, FUC, GAL, NAG

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3ASQ \| pdb_00003asq	Download File View File

Crystal structure of P domain from Norovirus Funabashi258 stain in the complex with H-antigen

Kubota, T., Kumagai, A., Itoh, H., Furukawa, S., Narimatsu, H., Wakita, T., Ishii, K., Takeda, N., Someya, Y., Shirato, H.

(2012) J Virol 86: 11138-11150

Released	2012-01-25
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Norwalk-like virus
Macromolecule	Capsid protein (protein)
Unique Ligands	NA, NPO
Unique branched monosaccharides	FUC, GAL, NAG

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3ASR \| pdb_00003asr	Download File View File

Crystal structure of P domain from Norovirus Funabashi258 stain in the complex with Lewis-a

Kubota, T., Kumagai, A., Itoh, H., Furukawa, S., Narimatsu, H., Wakita, T., Ishii, K., Takeda, N., Someya, Y., Shirato, H.

(2012) J Virol 86: 11138-11150

Released	2012-01-25
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Norwalk-like virus
Macromolecule	Capsid protein (protein)
Unique Ligands	NA, NPO
Unique branched monosaccharides	FUC, GAL, NAG

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3ASS \| pdb_00003ass	Download File View File

Crystal structure of P domain from Norovirus Funabashi258 stain in the complex with Lewis-b

Kubota, T., Kumagai, A., Itoh, H., Furukawa, S., Narimatsu, H., Wakita, T., Ishii, K., Takeda, N., Someya, Y., Shirato, H.

(2012) J Virol 86: 11138-11150

Released	2012-01-25
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Norwalk-like virus
Macromolecule	Capsid protein (protein)
Unique Ligands	NA, NPO
Unique branched monosaccharides	FUC, GAL, NAG

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3AST \| pdb_00003ast	Download File View File

Crystal structure of P domain Q389N mutant from Norovirus Funabashi258 stain in the complex with Lewis-b

Kubota, T., Kumagai, A., Itoh, H., Furukawa, S., Narimatsu, H., Wakita, T., Ishii, K., Takeda, N., Someya, Y., Shirato, H.

(2012) J Virol 86: 11138-11150

Released	2012-01-25
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Norwalk-like virus
Macromolecule	Capsid protein (protein)
Unique Ligands	NA, NPO
Unique branched monosaccharides	FUC, GAL, NAG

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3J1Q \| pdb_00003j1q	Download File View File

Structure of AAV-DJ, a Retargeted Gene Therapy Vector: Cryo-Electron Microscopy at 4.5A resolution

Lerch, T.F., O'Donnell, J.K., Meyer, N.L., Xie, Q., Taylor, K.A., Stagg, S.M., Chapman, M.S.

(2012) Structure 20: 1310-1320

Released	2012-08-22
Method	ELECTRON MICROSCOPY 4.5 Å
Organisms	Adeno-associated virus
Macromolecule	Adeno-associated virus DJ (protein)

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3PUM \| pdb_00003pum	Download File View File

Crystal structure of P domain dimer of Norovirus VA207

Chen, Y., Tan, M., Xia, M., Hao, N., Zhang, X.C., Huang, P., Jiang, X., Li, X., Rao, Z.

(2011) PLoS Pathog 7: e1002152-e1002152

Released	2011-08-03
Method	X-RAY DIFFRACTION 2.252 Å
Organisms	Human calicivirus NLV/VA97207/1997
Macromolecule	Capsid (protein)

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3PUN \| pdb_00003pun	Download File View File

Crystal structure of P domain dimer of Norovirus VA207 with Lewis y tetrasaccharide

Chen, Y., Tan, M., Xia, M., Hao, N., Zhang, X.C., Huang, P., Jiang, X., Li, X., Rao, Z.

(2011) PLoS Pathog 7: e1002152-e1002152

Released	2011-08-03
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Human calicivirus NLV/VA97207/1997
Macromolecule	Capsid (protein)
Unique branched monosaccharides	FUC, GAL, NDG

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3PVD \| pdb_00003pvd	Download File View File

Crystal structure of P domain dimer of Norovirus VA207 complexed with 3'-sialyl-Lewis x tetrasaccharide

Chen, Y., Tan, M., Xia, M., Hao, N., Zhang, X.C., Huang, P., Jiang, X., Li, X., Rao, Z.

(2011) PLoS Pathog 7: e1002152-e1002152

Released	2011-08-03
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Human calicivirus NLV/VA97207/1997
Macromolecule	Capsid (protein)
Unique branched monosaccharides	FUC, GAL, NDG, SIA

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4HAR \| pdb_00004har	Download File View File

Crystal Structure of Rubella virus capsid protein (residues 127-277)

Mangala Prasad, V., Fokine, A., Rossmann, M.G.

(2013) Proc Natl Acad Sci U S A 110: 20105-20110

Released	2013-12-11
Method	X-RAY DIFFRACTION 2.663 Å
Organisms	Rubella virus strain M33
Macromolecule	Capsid protein (protein)
Unique Ligands	CL, LDA

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4HBE \| pdb_00004hbe	Download File View File

Crystal Structure of Rubella virus capsid protein (residues 127-277)

Mangala Prasad, V., Fokine, A., Rossmann, M.G.

(2013) Proc Natl Acad Sci U S A 110: 20105-20110

Released	2013-12-11
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Rubella virus strain M33
Macromolecule	Capsid protein (protein)

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4HBO \| pdb_00004hbo	Download File View File

Crystal Structure of Rubella virus capsid protein (residues 127-277)

Mangala Prasad, V., Fokine, A., Rossmann, M.G.

(2013) Proc Natl Acad Sci U S A 110: 20105-20110

Released	2013-12-11
Method	X-RAY DIFFRACTION 3.241 Å
Organisms	Rubella virus strain M33
Macromolecule	Capsid protein (protein)

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5UF6 \| pdb_00005uf6	Download File View File

The 2.8 A Electron Microscopy Structure of Adeno-Associated Virus-DJ Bound by a Heparanoid Pentasaccharide

Xie, Q., Spear, J.M., Noble, A.J., Sousa, D.R., Meyer, N.L., Davulcu, O., Zhang, F., Linhardt, R.J., Stagg, S.M., Chapman, M.

(2017) Mol Ther Methods Clin Dev 5: 1-12

Released	2017-05-24
Method	ELECTRON MICROSCOPY 2.8 Å
Organisms	Adeno-associated virus
Macromolecule	capsid protein VP1 (protein)
Unique branched monosaccharides	BDP, IDS, SGN, SUS, ZDO

1 to 13 of 13 Structures

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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.

3ASP | pdb_00003asp

Crystal structure of P domain from Norovirus Funabashi258 stain in the complex with A-antigen

3ASQ | pdb_00003asq

Crystal structure of P domain from Norovirus Funabashi258 stain in the complex with H-antigen

3ASR | pdb_00003asr

Crystal structure of P domain from Norovirus Funabashi258 stain in the complex with Lewis-a

3ASS | pdb_00003ass

Crystal structure of P domain from Norovirus Funabashi258 stain in the complex with Lewis-b

3AST | pdb_00003ast

Crystal structure of P domain Q389N mutant from Norovirus Funabashi258 stain in the complex with Lewis-b

3J1Q | pdb_00003j1q

Structure of AAV-DJ, a Retargeted Gene Therapy Vector: Cryo-Electron Microscopy at 4.5A resolution

3PUM | pdb_00003pum

Crystal structure of P domain dimer of Norovirus VA207

3PUN | pdb_00003pun

Crystal structure of P domain dimer of Norovirus VA207 with Lewis y tetrasaccharide

3PVD | pdb_00003pvd

Crystal structure of P domain dimer of Norovirus VA207 complexed with 3'-sialyl-Lewis x tetrasaccharide

4HAR | pdb_00004har

Crystal Structure of Rubella virus capsid protein (residues 127-277)

4HBE | pdb_00004hbe

Crystal Structure of Rubella virus capsid protein (residues 127-277)

4HBO | pdb_00004hbo

Crystal Structure of Rubella virus capsid protein (residues 127-277)

5UF6 | pdb_00005uf6

The 2.8 A Electron Microscopy Structure of Adeno-Associated Virus-DJ Bound by a Heparanoid Pentasaccharide

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Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Symmetry Type

SCOP Classification

3ASP | pdb_00003asp

3ASQ | pdb_00003asq

3ASR | pdb_00003asr

3ASS | pdb_00003ass

3AST | pdb_00003ast

3J1Q | pdb_00003j1q

3PUM | pdb_00003pum

3PUN | pdb_00003pun

3PVD | pdb_00003pvd

4HAR | pdb_00004har

4HBE | pdb_00004hbe

4HBO | pdb_00004hbo

5UF6 | pdb_00005uf6