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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Vasishtan, D."

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Search Summary

This query matches 14 Structures.

Refinements

Structure Determination Methodology

experimental (14)

Scientific Name of Source Organism

	Escherichia coli (6)
	Acanthamoeba polyphaga mimivirus (4)
	Caenorhabditis elegans (1)
	Human alphaherpesvirus 1 (1)
	Inovirus M13 (1)
	Suid alphaherpesvirus 1 (1)

Taxonomy

	Bacteria (6)
	Varidnaviria (4)
	Duplodnaviria (2)
	Eukaryota (1)
	Monodnaviria (1)

Experimental Method

ELECTRON MICROSCOPY (14)

Polymer Entity Type

	Protein (13)
	DNA (1)

Refinement Resolution (Å)

	3.0 - 3.5 (1)
	3.5 - 4.0 (2)
	4.0 - 4.5 (1)
	> 4.5 (10)

Release Date

	2010 - 2014 (7)
	2015 - 2019 (1)
	2020 - 2024 (6)

Enzyme Classification Name

	Isomerases (6)
	Oxidoreductases (1)

Symmetry Type

	Cyclic (6)
	Dihedral (5)
	Asymmetric (1)
	Helical (1)

AllSelected

1 to 14 of 14 Structures

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4AAQ \| pdb_00004aaq	Download File View File

ATP-triggered molecular mechanics of the chaperonin GroEL

Clare, D.K., Vasishtan, D., Stagg, S., Quispe, J., Farr, G.W., Topf, M., Horwich, A.L., Saibil, H.R.

(2012) Cell 149: 113

Released	2012-12-12
Method	ELECTRON MICROSCOPY 8 Å
Organisms	Escherichia coli
Macromolecule	60 KDA CHAPERONIN (protein)
Unique Ligands	ATP, MG, PO4

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4AAR \| pdb_00004aar	Download File View File

ATP-triggered molecular mechanics of the chaperonin GroEL

Clare, D.K., Vasishtan, D., Stagg, S., Quispe, J., Farr, G.W., Topf, M., Horwich, A.L., Saibil, H.R.

(2012) Cell 149: 113

Released	2012-12-12
Method	ELECTRON MICROSCOPY 8 Å
Organisms	Escherichia coli
Macromolecule	60 KDA CHAPERONIN (protein)
Unique Ligands	ATP, MG, PO4

Explore in 3D

4AAS \| pdb_00004aas	Download File View File

ATP-triggered molecular mechanics of the chaperonin GroEL

Clare, D.K., Vasishtan, D., Stagg, S., Quispe, J., Farr, G.W., Topf, M., Horwich, A.L., Saibil, H.R.

(2012) Cell 149: 113

Released	2012-12-12
Method	ELECTRON MICROSCOPY 8.5 Å
Organisms	Escherichia coli
Macromolecule	60 KDA CHAPERONIN (protein)
Unique Ligands	ATP, MG, PO4

Explore in 3D

4AAU \| pdb_00004aau	Download File View File

ATP-triggered molecular mechanics of the chaperonin GroEL

Clare, D.K., Vasishtan, D., Stagg, S., Quispe, J., Farr, G.W., Topf, M., Horwich, A.L., Saibil, H.R.

(2012) Cell 149: 113

Released	2012-12-12
Method	ELECTRON MICROSCOPY 8.5 Å
Organisms	Escherichia coli
Macromolecule	60 KDA CHAPERONIN (protein)
Unique Ligands	ATP, MG, PO4

Explore in 3D

4AB2 \| pdb_00004ab2	Download File View File

ATP-triggered molecular mechanics of the chaperonin GroEL

Clare, D.K., Vasishtan, D., Stagg, S., Quispe, J., Farr, G.W., Topf, M., Horwich, A.L., Saibil, H.R.

(2012) Cell 149: 113

Released	2012-12-12
Method	ELECTRON MICROSCOPY 8.5 Å
Organisms	Escherichia coli
Macromolecule	60 KDA CHAPERONIN (protein)
Unique Ligands	ATP, MG, PO4

Explore in 3D

4AB3 \| pdb_00004ab3	Download File View File

ATP-triggered molecular mechanics of the chaperonin GroEL

Clare, D.K., Vasishtan, D., Stagg, S., Quispe, J., Farr, G.W., Topf, M., Horwich, A.L., Saibil, H.R.

(2012) Cell 149: 113

Released	2012-12-12
Method	ELECTRON MICROSCOPY 8.5 Å
Organisms	Escherichia coli
Macromolecule	60 KDA CHAPERONIN (protein)
Unique Ligands	ATP, MG, PO4

Explore in 3D

4CYL \| pdb_00004cyl	Download File View File

Tomographic subvolume average of EFF-1 fusogen on extracellular vesicles

Zeev-Ben-Mordehai, T., Vasishtan, D., Siebert, C.A., Grunewald, K.

(2014) Nat Commun 5: 3912

Released	2014-06-04
Method	ELECTRON MICROSCOPY 22.2 Å
Organisms	Caenorhabditis elegans
Macromolecule	EFF-1A (protein)

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5FKI \| pdb_00005fki	Download File View File

Pseudorabies virus (PrV) nuclear egress complex proteins fitted as a hexameric lattice into a sub-tomogram average derived from focused- ion beam milled lamellae electron cryo-microscopic data

Hagen, C., Dent, K.C., Zeev Ben Mordehai, T., Vasishtan, D., Antonin, W., Mettenleiter, T.C., Gruenewald, K.

(2015) Cell Rep 13: 2645-2652

Released	2016-03-16
Method	ELECTRON MICROSCOPY 35 Å
Organisms	Suid alphaherpesvirus 1
Macromolecule	UL31 (protein) UL34 protein (protein)
Unique Ligands	CL, ZN

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6Z9M \| pdb_00006z9m	Download File View File

Pseudoatomic model of the pre-fusion conformation of glycoprotein B of Herpes simplex virus 1

Vollmer, B., Prazak, V., Vasishtan, D., Jefferys, E.E., Hernandez-Duran, A., Vallbracht, M., Klupp, B., Mettenleiter, T.C., Backovic, M., Rey, F.A., Topf, M., Gruenewald, K.

(2020) Sci Adv 6:

Released	2020-10-07
Method	ELECTRON MICROSCOPY 9.1 Å
Organisms	Human alphaherpesvirus 1
Macromolecule	Envelope glycoprotein B (protein)

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7BHO \| pdb_00007bho	Download File View File

DNA origami signpost designed model

Silvester, E., Vollmer, B., Prazak, V., Vasishtan, D., Machala, E.A., Whittle, C., Black, S., Bath, J., Turberfield, A.J., Gruenewald, K., Baker, L.A.

(2021) Cell 184: 1110-1121.e16

Released	2021-04-14
Method	ELECTRON MICROSCOPY 36.44 Å
Organisms	Inovirus M13
Macromolecule	Unique nucleic acid chains: 238

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7PTV \| pdb_00007ptv	Download File View File

Structure of the Mimivirus genomic fibre asymmetric unit

Villalta, A., Schmitt, A., Estrozi, L.F., Quemin, E.R.J., Alempic, J.M., Lartigue, A., Prazak, V., Belmudes, L., Vasishtan, D., Colmant, A.M.G., Honore, F.A., Coute, Y., Grunewald, K., Abergel, C.

(2022) Elife 11:

Released	2022-08-10
Method	ELECTRON MICROSCOPY 3.3 Å
Organisms	Acanthamoeba polyphaga mimivirus
Macromolecule	Putative glucose-methanol-choline oxidoreductase protein (protein)
Unique Ligands	FAD

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7YX3 \| pdb_00007yx3	Download File View File

Structure of the Mimivirus genomic fibre in its compact 6-start helix form

Villalta, A., Schmitt, A., Estrozi, L.F., Quemin, E.R.J., Alempic, J.M., Lartigue, A., Prazak, V., Belmudes, L., Vasishtan, D., Colmant, A.M.G., Honore, F.A., Coute, Y., Grunewald, K., Abergel, C.

(2022) Elife 11:

Released	2022-08-10
Method	ELECTRON MICROSCOPY 4 Å
Organisms	Acanthamoeba polyphaga mimivirus
Macromolecule	Putative GMC-type oxidoreductase (protein)
Unique Ligands	FAD

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7YX4 \| pdb_00007yx4	Download File View File

Structure of the Mimivirus genomic fibre in its compact 5-start helix form

Villalta, A., Schmitt, A., Estrozi, L.F., Quemin, E.R.J., Alempic, J.M., Lartigue, A., Prazak, V., Belmudes, L., Vasishtan, D., Colmant, A.M.G., Honore, F.A., Coute, Y., Grunewald, K., Abergel, C.

(2022) Elife 11:

Released	2022-08-10
Method	ELECTRON MICROSCOPY 3.7 Å
Organisms	Acanthamoeba polyphaga mimivirus
Macromolecule	Putative glucose-methanol-choline oxidoreductase protein (protein)
Unique Ligands	FAD

Explore in 3D

7YX5 \| pdb_00007yx5	Download File View File

Structure of the Mimivirus genomic fibre in its relaxed 5-start helix form

Villalta, A., Schmitt, A., Estrozi, L.F., Quemin, E.R.J., Alempic, J.M., Lartigue, A., Prazak, V., Belmudes, L., Vasishtan, D., Colmant, A.M.G., Honore, F.A., Coute, Y., Grunewald, K., Abergel, C.

(2022) Elife 11:

Released	2022-08-10
Method	ELECTRON MICROSCOPY 3.7 Å
Organisms	Acanthamoeba polyphaga mimivirus
Macromolecule	Putative glucose-methanol-choline oxidoreductase protein (protein)
Unique Ligands	FAD

1 to 14 of 14 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.

4AAQ | pdb_00004aaq

ATP-triggered molecular mechanics of the chaperonin GroEL

4AAR | pdb_00004aar

ATP-triggered molecular mechanics of the chaperonin GroEL

4AAS | pdb_00004aas

ATP-triggered molecular mechanics of the chaperonin GroEL

4AAU | pdb_00004aau

ATP-triggered molecular mechanics of the chaperonin GroEL

4AB2 | pdb_00004ab2

ATP-triggered molecular mechanics of the chaperonin GroEL

4AB3 | pdb_00004ab3

ATP-triggered molecular mechanics of the chaperonin GroEL

4CYL | pdb_00004cyl

Tomographic subvolume average of EFF-1 fusogen on extracellular vesicles

5FKI | pdb_00005fki

Pseudorabies virus (PrV) nuclear egress complex proteins fitted as a hexameric lattice into a sub-tomogram average derived from focused- ion beam milled lamellae electron cryo-microscopic data

6Z9M | pdb_00006z9m

Pseudoatomic model of the pre-fusion conformation of glycoprotein B of Herpes simplex virus 1

7BHO | pdb_00007bho

DNA origami signpost designed model

7PTV | pdb_00007ptv

Structure of the Mimivirus genomic fibre asymmetric unit

7YX3 | pdb_00007yx3

Structure of the Mimivirus genomic fibre in its compact 6-start helix form

7YX4 | pdb_00007yx4

Structure of the Mimivirus genomic fibre in its compact 5-start helix form

7YX5 | pdb_00007yx5

Structure of the Mimivirus genomic fibre in its relaxed 5-start helix form

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Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Symmetry Type

4AAQ | pdb_00004aaq

4AAR | pdb_00004aar

4AAS | pdb_00004aas

4AAU | pdb_00004aau

4AB2 | pdb_00004ab2

4AB3 | pdb_00004ab3

4CYL | pdb_00004cyl

5FKI | pdb_00005fki

6Z9M | pdb_00006z9m

7BHO | pdb_00007bho

7PTV | pdb_00007ptv

7YX3 | pdb_00007yx3

7YX4 | pdb_00007yx4

7YX5 | pdb_00007yx5