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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Kovtun, O."

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Search Summary

This query matches 16 Structures.

Refinements

Structure Determination Methodology

experimental (16)

Scientific Name of Source Organism

	Homo sapiens (9)
	Mus musculus (5)
	Thermochaetoides thermophila DSM 1495 (4)
	Rattus norvegicus (3)
	Aequorea victoria (1)
	Camelus dromedarius (1)
	Danio rerio (1)
	Sus scrofa (1)

Taxonomy

Eukaryota (16)

Experimental Method

	ELECTRON MICROSCOPY (11)
	X-RAY DIFFRACTION (5)

Polymer Entity Type

Protein (16)

Refinement Resolution (Å)

	1.5 - 2.0 (1)
	2.5 - 3.0 (2)
	3.0 - 3.5 (2)
	3.5 - 4.0 (1)
	> 4.5 (10)

Release Date

	2010 - 2014 (3)
	2015 - 2019 (3)
	2020 - 2024 (10)

Enzyme Classification Name

	Transferases (1)
	Hydrolases (1)

Membrane Protein Annotation

mpstruc (6)

Symmetry Type

	Asymmetric (14)
	Cyclic (2)

SCOP Classification

	All beta proteins (1)
	Alpha and beta proteins (a+b) (1)
	Artifacts (1)

AllSelected

1 to 16 of 16 Structures

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3OGO \| pdb_00003ogo	Download File View File

Structure of the GFP:GFP-nanobody complex at 2.8 A resolution in spacegroup P21212

Kubala, M.H., Kovtun, O., Alexandrov, K., Collins, B.M.

(2010) Protein Sci 19: 2389-2401

Released	2010-08-25
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Aequorea victoria Camelus dromedarius
Macromolecule	GFP-nanobody (protein) Green fluorescent protein (protein)
Unique Ligands	IPA

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4PQO \| pdb_00004pqo	Download File View File

Structure of the human SNX14 PX domain in space group I41

Mas, C., Norwood, S., Bugarcic, A., Kinna, G., Leneva, N., Kovtun, O., Teasdale, R., Collins, B.

(2014) J Biological Chem 289: 28554-28568

Released	2014-09-03
Method	X-RAY DIFFRACTION 2.55 Å
Organisms	Homo sapiens
Macromolecule	Sorting nexin-14 (protein)

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4PQP \| pdb_00004pqp	Download File View File

Crystal structure of human SNX14 PX domain in space group P43212

Mas, C., Norwood, S., Bugarcic, A., Kinna, G., Leneva, N., Kovtun, O., Teasdale, R., Collins, B.

(2014) J Biological Chem 289: 28554-28568

Released	2014-09-03
Method	X-RAY DIFFRACTION 3 Å
Organisms	Homo sapiens
Macromolecule	Sorting nexin-14 (protein)
Unique Ligands	GOL

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4QKV \| pdb_00004qkv	Download File View File

Crystal structure of the mouse cavin1 HR1 domain

Kovtun, O., Tillu, V., Parton, R.G., Collins, B.M.

(2014) Dev Cell 31: 405-419

Released	2015-03-18
Method	X-RAY DIFFRACTION 3 Å
Organisms	Mus musculus
Macromolecule	Polymerase I and transcript release factor (protein)

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4QKW \| pdb_00004qkw	Download File View File

Crystal structure of the zebrafish cavin4a HR1 domain

Kovtun, O., Tillu, V., Parton, R.G., Collins, B.M.

(2014) Dev Cell 31: 405-419

Released	2015-03-18
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Danio rerio
Macromolecule	Muscle-related coiled-coil protein (protein)
Unique Ligands	CL

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6H7W \| pdb_00006h7w	Download File View File

Model of retromer-Vps5 complex assembled on membrane.

Kovtun, O., Leneva, N., Ariotti, N., Rohan, T.S., Owen, D.J., Briggs, J.A.G., Collins, B.M.

(2018) Nature 561: 561-564

Released	2018-09-26
Method	ELECTRON MICROSCOPY 11.4 Å
Organisms	Thermochaetoides thermophila DSM 1495
Macromolecule	Unique protein chains: 6

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6YAE \| pdb_00006yae	Download File View File

AP2 core in physiological buffer

Kane Dickson, V., Kovtun, O., Kelly, B.T., Owen, D.J., Briggs, J.A.G.

(2020) Sci Adv 6: eaba8381-eaba8381

Released	2020-07-29
Method	ELECTRON MICROSCOPY 3.9 Å
Organisms	Homo sapiens Mus musculus Rattus norvegicus
Macromolecule	AP-2 complex subunit alpha (protein) AP-2 complex subunit beta (protein) AP-2 complex subunit mu (protein) AP-2 complex subunit sigma (protein)

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6YAF \| pdb_00006yaf	Download File View File

AP2 on a membrane containing tyrosine-based cargo peptide

Kovtun, O., Kane Dickson, V., Kelly, B.T., Owen, D., Briggs, J.A.G.

(2020) Sci Adv 6: eaba8381-eaba8381

Released	2020-07-29
Method	ELECTRON MICROSCOPY 9.1 Å
Organisms	Homo sapiens Mus musculus Rattus norvegicus
Macromolecule	AP-2 complex subunit alpha-2 (protein) AP-2 complex subunit beta (protein) AP-2 complex subunit mu (protein) AP-2 complex subunit sigma (protein) Tyrosine type cargo signal derived from TGN38 (protein)

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6YAH \| pdb_00006yah	Download File View File

AP2 in clathrin coats assembled on a membrane containing dileucine- and tyrosine-based cargo peptides

Kovtun, O., Kane Dickson, V., Kelly, B.T., Owen, D., Briggs, J.A.G.

(2020) Sci Adv 6: eaba8381-eaba8381

Released	2020-07-29
Method	ELECTRON MICROSCOPY 10.2 Å
Organisms	Homo sapiens Mus musculus Rattus norvegicus
Macromolecule	AP-2 complex subunit alpha-2 (protein) AP-2 complex subunit beta (protein) AP-2 complex subunit mu (protein) AP-2 complex subunit sigma (protein)

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6YAI \| pdb_00006yai	Download File View File

Clathrin with bound beta2 appendage of AP2

Kovtun, O., Kane Dickson, V., Kelly, B.T., Owen, D., Briggs, J.A.G.

(2020) Sci Adv 6: eaba8381-eaba8381

Released	2020-07-29
Method	ELECTRON MICROSCOPY 9.2 Å
Organisms	Homo sapiens Sus scrofa
Macromolecule	AP-2 complex subunit beta (protein) Clathrin heavy chain (protein) Clathrin light chain (protein)

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7BL1 \| pdb_00007bl1	Download File View File

human complex II-BATS bound to membrane-attached Rab5a-GTP

Tremel, S., Morado, D.R., Kovtun, O., Williams, R.L., Briggs, J.A.G., Munro, S., Ohashi, Y., Bertram, J., Perisic, O.

(2021) Nat Commun 12: 1564-1564

Released	2021-03-03
Method	ELECTRON MICROSCOPY 9.8 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 6
Unique Ligands	GTP, MG

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7BLN \| pdb_00007bln	Download File View File

VPS35/VPS29 arch of metazoan membrane-assembled retromer:SNX3 complex modelled with human proteins

Leneva, N., Kovtun, O., Morado, D.R., Briggs, J.A.G., Owen, D.J.

(2021) Sci Adv 7:

Released	2021-02-10
Method	ELECTRON MICROSCOPY 8.9 Å
Organisms	Homo sapiens
Macromolecule	Vacuolar protein sorting-associated protein 29 (protein) Vacuolar protein sorting-associated protein 35 (protein)

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7BLO \| pdb_00007blo	Download File View File

VPS26 dimer region of metazoan membrane-assembled retromer:SNX3 complex modelled with human proteins

Leneva, N., Kovtun, O., Morado, D.R., Briggs, J.A.G., Owen, D.J.

(2021) Sci Adv 7:

Released	2021-03-03
Method	ELECTRON MICROSCOPY 9.5 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	C-term (residues 493-54) of Wls (fitted sequence corresponds to hDMT1-II) (protein) Sorting nexin-3 (protein) Vacuolar protein sorting-associated protein 26A (protein) Vacuolar protein sorting-associated protein 35 (protein)
Unique Ligands	PIB

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7BLP \| pdb_00007blp	Download File View File

Vps35/Vps29 arch of fungal membrane-assembled retromer:Grd19 complex

Leneva, N., Kovtun, O., Morado, D.R., Briggs, J.A.G., Owen, D.J.

(2021) Sci Adv 7:

Released	2021-02-10
Method	ELECTRON MICROSCOPY 9.5 Å
Organisms	Thermochaetoides thermophila DSM 1495
Macromolecule	Vacuolar protein sorting-associated protein 29 (protein) Vacuolar protein sorting-associated protein 35 (protein)

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7BLQ \| pdb_00007blq	Download File View File

Vps26 dimer region of the fungal membrane-assembled retromer:Grd19 complex.

Leneva, N., Kovtun, O., Morado, D.R., Briggs, J.A.G., Owen, D.J.

(2021) Sci Adv 7:

Released	2021-03-03
Method	ELECTRON MICROSCOPY 9.2 Å
Organisms	Thermochaetoides thermophila DSM 1495
Macromolecule	Sorting nexin-3 (protein) The C-terminal portion of Kex2 cargo, fitted with Phi-X-(L/M) sorting motif of hDMT1-II cargo. (protein) Vacuolar protein sorting-associated protein 26-like protein (protein) Vacuolar protein sorting-associated protein 35 (protein)
Unique Ligands	PIB

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7BLR \| pdb_00007blr	Download File View File

Vps35/Vps29 arch of fungal membrane-assembled retromer:Vps5 (SNX-BAR) complex.

Leneva, N., Kovtun, O., Morado, D.R., Briggs, J.A.G., Owen, D.J.

(2021) Sci Adv 7:

Released	2021-02-10
Method	ELECTRON MICROSCOPY 9.3 Å
Organisms	Thermochaetoides thermophila DSM 1495
Macromolecule	Vacuolar protein sorting-associated protein 29 (protein) Vacuolar protein sorting-associated protein 35 (protein)

1 to 16 of 16 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.

3OGO | pdb_00003ogo

Structure of the GFP:GFP-nanobody complex at 2.8 A resolution in spacegroup P21212

4PQO | pdb_00004pqo

Structure of the human SNX14 PX domain in space group I41

4PQP | pdb_00004pqp

Crystal structure of human SNX14 PX domain in space group P43212

4QKV | pdb_00004qkv

Crystal structure of the mouse cavin1 HR1 domain

4QKW | pdb_00004qkw

Crystal structure of the zebrafish cavin4a HR1 domain

6H7W | pdb_00006h7w

Model of retromer-Vps5 complex assembled on membrane.

6YAE | pdb_00006yae

AP2 core in physiological buffer

6YAF | pdb_00006yaf

AP2 on a membrane containing tyrosine-based cargo peptide

6YAH | pdb_00006yah

AP2 in clathrin coats assembled on a membrane containing dileucine- and tyrosine-based cargo peptides

6YAI | pdb_00006yai

Clathrin with bound beta2 appendage of AP2

7BL1 | pdb_00007bl1

human complex II-BATS bound to membrane-attached Rab5a-GTP

7BLN | pdb_00007bln

VPS35/VPS29 arch of metazoan membrane-assembled retromer:SNX3 complex modelled with human proteins

7BLO | pdb_00007blo

VPS26 dimer region of metazoan membrane-assembled retromer:SNX3 complex modelled with human proteins

7BLP | pdb_00007blp

Vps35/Vps29 arch of fungal membrane-assembled retromer:Grd19 complex

7BLQ | pdb_00007blq

Vps26 dimer region of the fungal membrane-assembled retromer:Grd19 complex.

7BLR | pdb_00007blr

Vps35/Vps29 arch of fungal membrane-assembled retromer:Vps5 (SNX-BAR) complex.

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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

Membrane Protein Annotation

Symmetry Type

SCOP Classification

3OGO | pdb_00003ogo

4PQO | pdb_00004pqo

4PQP | pdb_00004pqp

4QKV | pdb_00004qkv

4QKW | pdb_00004qkw

6H7W | pdb_00006h7w

6YAE | pdb_00006yae

6YAF | pdb_00006yaf

6YAH | pdb_00006yah

6YAI | pdb_00006yai

7BL1 | pdb_00007bl1

7BLN | pdb_00007bln

7BLO | pdb_00007blo

7BLP | pdb_00007blp

7BLQ | pdb_00007blq

7BLR | pdb_00007blr