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233,249 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Kostyuchenko, V.A."

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Search Summary

This query matches 72 Structures.

Refinements

Structure Determination Methodology

experimental (72)

Scientific Name of Source Organism

	Homo sapiens (25)
	Tequatrovirus T4 (22)
	dengue virus type 2 (15)
	Mus musculus (8)
	dengue virus type 1 (7)
	dengue virus type 3 (7)
	Chikungunya virus (5)
	Zika virus (5)
	Zika virus ZIKV/H. sapiens/FrenchPolynesia/10087PF/2013 (4)
	Escherichia coli (2)

More...

Taxonomy

	Riboviria (47)
	Eukaryota (33)
	Duplodnaviria (22)
	Bacteria (2)

Experimental Method

	ELECTRON MICROSCOPY (60)
	X-RAY DIFFRACTION (12)

Polymer Entity Type

Protein (72)

Refinement Resolution (Å)

	1.5 - 2.0 (1)
	2.0 - 2.5 (5)
	2.5 - 3.0 (2)
	3.0 - 3.5 (3)
	3.5 - 4.0 (6)
	4.0 - 4.5 (4)
	> 4.5 (51)

Release Date

	1995 - 1999 (1)
	2000 - 2004 (13)
	2005 - 2009 (11)
	2010 - 2014 (12)
	2015 - 2019 (13)
	2020 - 2024 (22)

Enzyme Classification Name

	Hydrolases (16)
	Transferases (5)
	Oxidoreductases (1)

Membrane Protein Annotation

	OPM (6)
	PDBTM (1)

Symmetry Type

	Icosahedral (37)
	Cyclic (23)
	Asymmetric (5)
	Dihedral (5)
	Helical (2)
	Octahedral (1)

SCOP Classification

	Low resolution protein structures (7)
	All beta proteins (8)
	Alpha and beta proteins (a+b) (2)
	Alpha and beta proteins (a/b) (1)
	All alpha proteins (1)
	Artifacts (1)

AllSelected

1 to 25 of 72 Structures

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1EL6 \| pdb_00001el6	Download File View File

STRUCTURE OF BACTERIOPHAGE T4 GENE PRODUCT 11, THE INTERFACE BETWEEN THE BASEPLATE AND SHORT TAIL FIBERS

Leiman, P.G., Kostyuchenko, V.A., Schneider, M.M., Kurochkina, L.P., Mesyanzhinov, V.V., Rossmann, M.G.

(2000) J Mol Biology 301: 975-985

Released	2000-04-05
Method	X-RAY DIFFRACTION 2 Å
Organisms	Tequatrovirus T4
Macromolecule	BASEPLATE STRUCTURAL PROTEIN GP11 (protein)

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1K28 \| pdb_00001k28	Download File View File

The Structure of the Bacteriophage T4 Cell-Puncturing Device

Kanamaru, S., Leiman, P.G., Kostyuchenko, V.A., Chipman, P.R., Mesyanzhinov, V.V., Arisaka, F., Rossmann, M.G.

(2002) Nature 415: 553-557

Released	2002-02-06
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Tequatrovirus T4
Macromolecule	BASEPLATE STRUCTURAL PROTEIN GP27 (protein) TAIL-ASSOCIATED LYSOZYME (protein)
Unique Ligands	K, PO4

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1N7Z \| pdb_00001n7z	Download File View File

Structure and location of gene product 8 in the bacteriophage T4 baseplate

Leiman, P.G., Shneider, M.M., Kostyuchenko, V.A., Chipman, P.R., Mesyanzhinov, V.V., Rossmann, M.G.

(2003) J Mol Biology 328: 821-833

Released	2003-06-10
Method	X-RAY DIFFRACTION 2 Å
Organisms	Tequatrovirus T4
Macromolecule	baseplate structural protein gp8 (protein)
Unique Ligands	CL

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1N80 \| pdb_00001n80	Download File View File

Bacteriophage T4 baseplate structural protein gp8

Leiman, P.G., Shneider, M.M., Kostyuchenko, V.A., Chipman, P.R., Mesyanzhinov, V.V., Rossmann, M.G.

(2003) J Mol Biology 328: 821-833

Released	2003-06-10
Method	X-RAY DIFFRACTION 2.45 Å
Organisms	Tequatrovirus T4
Macromolecule	baseplate structural protein gp8 (protein)
Unique Ligands	CL

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1N8B \| pdb_00001n8b	Download File View File

Bacteriophage T4 baseplate structural protein gp8

Leiman, P.G., Shneider, M.M., Kostyuchenko, V.A., Chipman, P.R., Mesyanzhinov, V.V., Rossmann, M.G.

(2003) J Mol Biology 328: 821-833

Released	2003-06-10
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Tequatrovirus T4
Macromolecule	baseplate structural protein gp8 (protein)
Unique Ligands	BR

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1PDF \| pdb_00001pdf	Download File View File

Fitting of gp11 crystal structure into 3D cryo-EM reconstruction of bacteriophage T4 baseplate-tail tube complex

Kostyuchenko, V.A., Leiman, P.G., Chipman, P.R., Kanamaru, S., van Raaij, M.J., Arisaka, F., Mesyanzhinov, V.V., Rossmann, M.G.

(2003) Nat Struct Biol 10: 688-693

Released	2003-09-09
Method	ELECTRON MICROSCOPY 12 Å
Organisms	Tequatrovirus T4
Macromolecule	Baseplate structural protein Gp11 (protein)

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1PDI \| pdb_00001pdi	Download File View File

Fitting of the C-terminal part of the short tail fibers into the cryo-EM reconstruction of T4 baseplate

Kostyuchenko, V.A., Leiman, P.G., Chipman, P.R., Kanamaru, S., van Raaij, M.J., Arisaka, F., Mesyanzhinov, V.V., Rossmann, M.G.

(2003) Nat Struct Biol 10: 688-693

Released	2003-09-09
Method	ELECTRON MICROSCOPY 12 Å
Organisms	Tequatrovirus T4
Macromolecule	Short tail fiber protein (protein)

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1PDJ \| pdb_00001pdj	Download File View File

Fitting of gp27 into cryoEM reconstruction of bacteriophage T4 baseplate

Kostyuchenko, V.A., Leiman, P.G., Chipman, P.R., Kanamaru, S., van Raaij, M.J., Arisaka, F., Mesyanzhinov, V.V., Rossmann, M.G.

(2003) Nat Struct Biol 10: 688-693

Released	2003-09-09
Method	ELECTRON MICROSCOPY 12 Å
Organisms	Tequatrovirus T4
Macromolecule	Baseplate structural protein Gp27 (protein)

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1PDL \| pdb_00001pdl	Download File View File

Fitting of gp5 in the cryoEM reconstruction of the bacteriophage T4 baseplate

Kostyuchenko, V.A., Leiman, P.G., Chipman, P.R., Kanamaru, S., van Raaij, M.J., Arisaka, F., Mesyanzhinov, V.V., Rossmann, M.G.

(2003) Nat Struct Biol 10: 688-693

Released	2003-09-09
Method	ELECTRON MICROSCOPY 12 Å
Organisms	Tequatrovirus T4
Macromolecule	Tail-associated lysozyme (protein)

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1PDM \| pdb_00001pdm	Download File View File

Fitting of gp8 structure into the cryoEM reconstruction of the bacteriophage T4 baseplate

Kostyuchenko, V.A., Leiman, P.G., Chipman, P.R., Kanamaru, S., van Raaij, M.J., Arisaka, F., Mesyanzhinov, V.V., Rossmann, M.G.

(2003) Nat Struct Biol 10: 688-693

Released	2003-09-09
Method	ELECTRON MICROSCOPY 12 Å
Organisms	Tequatrovirus T4
Macromolecule	Baseplate structural protein Gp8 (protein)

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1PDP \| pdb_00001pdp	Download File View File

Fitting of gp9 structure into the bacteriophage T4 baseplate cryoEM reconstruction

Kostyuchenko, V.A., Leiman, P.G., Chipman, P.R., Kanamaru, S., van Raaij, M.J., Arisaka, F., Mesyanzhinov, V.V., Rossmann, M.G.

(2003) Nat Struct Biol 10: 688-693

Released	2003-09-09
Method	ELECTRON MICROSCOPY 12 Å
Organisms	Tequatrovirus T4
Macromolecule	Baseplate structural protein Gp9 (protein)

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1QEX \| pdb_00001qex	Download File View File

BACTERIOPHAGE T4 GENE PRODUCT 9 (GP9), THE TRIGGER OF TAIL CONTRACTION AND THE LONG TAIL FIBERS CONNECTOR

Kostyuchenko, V.A., Navruzbekov, G.A., Kurochkina, L.P., Strelkov, S.V., Mesyanzhinov, V.V., Rossmann, M.G.

(1999) Structure 7: 1213-1222

Released	1999-10-05
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Tequatrovirus T4
Macromolecule	PROTEIN (BACTERIOPHAGE T4 GENE PRODUCT 9 (GP9)) (protein)
Unique Ligands	EPE

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1S2E \| pdb_00001s2e	Download File View File

BACTERIOPHAGE T4 GENE PRODUCT 9 (GP9), THE TRIGGER OF TAIL CONTRACTION AND THE LONG TAIL FIBERS CONNECTOR, ALTERNATIVE FIT OF THE FIRST 19 RESIDUES

Kostyuchenko, V.A., Navruzbekov, G.A., Kurochkina, L.P., Strelkov, S.V., Mesyanzhinov, V.V., Rossmann, M.G.

(1999) Structure 7: 1213-1222

Released	2004-01-13
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Tequatrovirus T4
Macromolecule	Baseplate structural protein Gp9 (protein)
Unique Ligands	EPE

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1TJA \| pdb_00001tja	Download File View File

Fitting of gp8, gp9, and gp11 into the cryo-EM reconstruction of the bacteriophage T4 contracted tail

Leiman, P.G., Chipman, P.R., Kostyuchenko, V.A., Mesyanzhinov, V.V., Rossmann, M.G.

(2004) Cell 118: 419-429

Released	2004-08-31
Method	ELECTRON MICROSCOPY 16 Å
Organisms	Tequatrovirus T4
Macromolecule	Baseplate structural protein Gp11 (protein) Baseplate structural protein Gp8 (protein) Baseplate structural protein Gp9 (protein)

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1ZKU \| pdb_00001zku	Download File View File

Fitting of the gp9 structure in the EM density of bacteriophage T4 extended tail

Kostyuchenko, V.A.

(2005) Nat Struct Mol Biol 12: 810-813

Released	2005-08-09
Method	ELECTRON MICROSCOPY 15 Å
Organisms	Tequatrovirus T4
Macromolecule	Baseplate structural protein Gp9 (protein)
Unique Ligands	EPE

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2BSG \| pdb_00002bsg	Download File View File

The modeled structure of fibritin (gpwac) of bacteriophage T4 based on cryo-EM reconstruction of the extended tail of bacteriophage T4

Kostyuchenko, V.A., Chipman, P.R., Leiman, P.G., Arisaka, F., Mesyanzhinov, V.V., Rossmann, M.G.

(2005) Nat Struct Mol Biol 12: 810

Released	2005-09-21
Method	ELECTRON MICROSCOPY 15 Å
Organisms	Tequatrovirus T4
Macromolecule	FIBRITIN (protein)

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2NSU \| pdb_00002nsu	Download File View File

Crystal structure of the ectodomain of human transferrin receptor fitted into a cryo-EM reconstruction of canine parvovirus and feline transferrin receptor complex

Hafenstein, S., Kostyuchenko, V.A., Rossmann, M.G.

(2007) Proc Natl Acad Sci U S A 104: 6585-6589

Released	2007-03-27
Method	ELECTRON MICROSCOPY 27 Å
Organisms	Homo sapiens
Macromolecule	Transferrin receptor protein 1 (protein)

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2YEW \| pdb_00002yew	Download File View File

Modeling Barmah Forest virus structural proteins

Kostyuchenko, V.A., Jakana, J., Liu, X., Haddow, A.D., Aung, M., Weaver, S.C., Chiu, W., Lok, S.M.

(2011) J Virol 85: 9327

Released	2012-04-18
Method	ELECTRON MICROSCOPY 5 Å
Organisms	Barmah Forest virus
Macromolecule	CAPSID PROTEIN (protein) E1 ENVELOPE GLYCOPROTEIN (protein) E2 ENVELOPE GLYCOPROTEIN (protein)

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3C6R \| pdb_00003c6r	Download File View File

Low pH Immature Dengue Virus

Yu, I., Zhang, W., Holdway, H.A., Li, L., Kostyuchenko, V.A., Chipman, P.R., Kuhn, R.J., Rossmann, M.G., Chen, J.

(2008) Science 319: 1834-1837

Released	2008-04-22
Method	ELECTRON MICROSCOPY 25 Å
Organisms	Dengue virus 2 Thailand/PUO-218/1980
Macromolecule	Envelope protein (protein) Peptide pr (protein)

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3FO8 \| pdb_00003fo8	Download File View File

Crystal structure of the bacteriophage T4 tail sheath protein, protease resistant fragment gp18PR

Aksyuk, A.A., Leiman, P.G., Kurochkina, L.P., Shneider, M.M., Kostyuchenko, V.A., Mesyanzhinov, V.V., Rossmann, M.G.

(2009) EMBO J 28: 821-829

Released	2009-03-10
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Tequatrovirus T4
Macromolecule	Tail sheath protein Gp18 (protein)
Unique Ligands	ACT

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3FOA \| pdb_00003foa	Download File View File

Crystal structure of the bacteriophage T4 tail sheath protein, deletion mutant gp18M

Aksyuk, A.A., Leiman, P.G., Kurochkina, L.P., Shneider, M.M., Kostyuchenko, V.A., Mesyanzhinov, V.V., Rossmann, M.G.

(2009) EMBO J 28: 821-829

Released	2009-03-10
Method	X-RAY DIFFRACTION 3.5 Å
Organisms	Tequatrovirus T4
Macromolecule	Tail sheath protein Gp18 (protein)

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3FOH \| pdb_00003foh	Download File View File

Fitting of gp18M crystal structure into 3D cryo-EM reconstruction of bacteriophage T4 extended tail

Aksyuk, A.A., Leiman, P.G., Kurochkina, L.P., Shneider, M.M., Kostyuchenko, V.A., Mesyanzhinov, V.V., Rossmann, M.G.

(2009) EMBO J 28: 821-829

Released	2009-03-10
Method	ELECTRON MICROSCOPY 15 Å
Organisms	Tequatrovirus T4
Macromolecule	Tail sheath protein Gp18 (protein)

Explore in 3D

3FOI \| pdb_00003foi	Download File View File

Fitting of gp18M crystal structure into 3D cryo-EM reconstruction of bacteriophage T4 contracted tail

Aksyuk, A.A., Leiman, P.G., Kurochkina, L.P., Shneider, M.M., Kostyuchenko, V.A., Mesyanzhinov, V.V., Rossmann, M.G.

(2009) EMBO J 28: 821-829

Released	2009-03-10
Method	ELECTRON MICROSCOPY 16 Å
Organisms	Tequatrovirus T4
Macromolecule	Tail sheath protein Gp18 (protein)

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3I50 \| pdb_00003i50	Download File View File

Crystal structure of the West Nile Virus envelope glycoprotein in complex with the E53 antibody Fab

Nybakken, G.E., Warren, J.T., Chen, B.R., Nelson, C.A., Fremont, D.H.

(2009) EMBO J 28: 3269-3276

Released	2009-10-27
Method	X-RAY DIFFRACTION 3 Å
Organisms	Mus musculus West Nile virus
Macromolecule	Envelope glycoprotein (protein) murine heavy chain (IgG3) of E53 monoclonal antibody Fab (protein) murine kappa light chain of E53 monoclonal antibody Fab (protein)

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3IXX \| pdb_00003ixx	Download File View File

The pseudo-atomic structure of West Nile immature virus in complex with Fab fragments of the anti-fusion loop antibody E53

Cherrier, M.V., Kaufmann, B., Nybakken, G.E., Lok, S.M., Warren, J.T., Nelson, C.A., Kostyuchenko, V.A., Holdaway, H.A., Chipman, P.R., Kuhn, R.J., Diamond, M.S., Rossmann, M.G., Fremont, D.H.

(2009) EMBO J 28: 3269-3276

Released	2009-10-27
Method	ELECTRON MICROSCOPY 15 Å
Organisms	Mus musculus West Nile virus
Macromolecule	E53 Fab Fragment (chain H) (protein) E53 Fab Fragment (chain L) (protein) Envelope protein E (protein) Peptide pr (protein)

1 to 25 of 72 Structures

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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

1EL6 | pdb_00001el6

1K28 | pdb_00001k28

1N7Z | pdb_00001n7z

1N80 | pdb_00001n80

1N8B | pdb_00001n8b

1PDF | pdb_00001pdf

1PDI | pdb_00001pdi

1PDJ | pdb_00001pdj

1PDL | pdb_00001pdl

1PDM | pdb_00001pdm

1PDP | pdb_00001pdp

1QEX | pdb_00001qex

1S2E | pdb_00001s2e

1TJA | pdb_00001tja

1ZKU | pdb_00001zku

2BSG | pdb_00002bsg

2NSU | pdb_00002nsu

2YEW | pdb_00002yew

3C6R | pdb_00003c6r

3FO8 | pdb_00003fo8

3FOA | pdb_00003foa

3FOH | pdb_00003foh

3FOI | pdb_00003foi

3I50 | pdb_00003i50

3IXX | pdb_00003ixx