RCSB PDB: Search

3IXY	Download File View File

The pseudo-atomic structure of dengue 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 23 Å
Organisms	Mus musculus dengue virus type 2
Macromolecule	E53 Fab Fragment (chain H) (protein) E53 Fab Fragment (chain L) (protein) Envelope protein E (protein) Peptide pr (protein)

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3IYA	Download File View File

Association of the pr peptides with dengue virus blocks membrane fusion at acidic pH

Yu, I., Holdaway, H.A., Chipman, P.R., Kuhn, R.J., Rossmann, M.G., Chen, J.

(2009) J Virol 83: 12101-12107

Released	2010-04-14
Method	ELECTRON MICROSCOPY 22 Å
Organisms	dengue virus type 2
Macromolecule	Envelope protein (protein) prM protein (protein)

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3J6S	Download File View File

Cryo-EM structure of Dengue virus serotype 3 at 28 degrees C

Fibriansah, G., Tan, J.L., Smith, S.A., de Alwis, R., Ng, T.-S., Kostyuchenko, V.A., Kukkaro, P., de Silva, A.M., Crowe Jr., J.E., Lok, S.-M.

(2015) Nat Commun 6: 6341-6341

Released	2015-03-04
Method	ELECTRON MICROSCOPY 6 Å
Organisms	dengue virus type 3
Macromolecule	envelope protein (protein) membrane protein (protein)

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3J6T	Download File View File

Cryo-EM structure of Dengue virus serotype 3 at 37 degrees C

Fibriansah, G., Tan, J.L., Smith, S.A., de Alwis, R., Ng, T.-S., Kostyuchenko, V.A., Kukkaro, P., de Silva, A.M., Crowe Jr., J.E., Lok, S.-M.

(2015) Nat Commun 6: 6341-6341

Released	2015-03-04
Method	ELECTRON MICROSCOPY 7 Å
Organisms	dengue virus type 3
Macromolecule	envelope protein (protein) membrane protein (protein)

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3J6U	Download File View File

Cryo-EM structure of Dengue virus serotype 3 in complex with human antibody 5J7 Fab

Fibriansah, G., Tan, J.L., Smith, S.A., de Alwis, R., Ng, T.-S., Kostyuchenko, V.A., Kukkaro, P., de Silva, A.M., Crowe Jr., J.E., Lok, S.-M.

(2015) Nat Commun 6: 6341-6341

Released	2015-03-04
Method	ELECTRON MICROSCOPY 9 Å
Organisms	Homo sapiens dengue virus type 3
Macromolecule	Fab 5J7 heavy chain (protein) Fab 5J7 light chain (protein) envelope protein (protein) membrane protein (protein)

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4UIF	Download File View File

Cryo-EM structure of Dengue virus serotype 2 in complex with antigen-binding fragments of human antibody 2D22

Fibriansah, G., Ibarra, K.D., Ng, T.-S., Smith, S.A., Tan, J.L., Lim, X.-N., Ooi, J.S.G., Kostyuchenko, V.A., Wang, J., de Silva, A.M., Harris, E., Crowe Junior, J.E., Lok, S.-M.

(2015) Science 349: 88-91

Released	2015-07-15
Method	ELECTRON MICROSCOPY 6.5 Å
Organisms	Homo sapiens dengue virus type 2
Macromolecule	ANTIGEN-BINDING FRAGMENT OF HUMAN ANTIBODY 2D22 - HEAVY CHAIN (protein) ANTIGEN-BINDING FRAGMENT OF HUMAN ANTIBODY 2D22 - LIGHT CHAIN (protein) DENGUE VIRUS SEROTYPE 2 STRAIN PVP94 07 - ENVELOPE PROTEIN (protein) DENGUE VIRUS SEROTYPE 2 STRAIN STRAIN PVP94 07 - MEMBRANE PROTEIN (protein)

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4UIH	Download File View File

Cryo-EM structure of Dengue virus serotype 2 strain New Guinea-C complexed with human antibody 2D22 Fab at 37 degree C. The Fab molecules were added to the virus before 37 degree C incubation.

Fibriansah, G., Ibarra, K.D., Ng, T.-S., Smith, S.A., Tan, J.L., Lim, X.N., Ooi, J.S.G., Kostyuchenko, V.A., Wang, J., de Silva, A.M., Harris, E., Crowe, J.E., Lok, S.-M.

(2015) Science 349: 88-91

Released	2015-07-15
Method	ELECTRON MICROSCOPY 20 Å
Organisms	Homo sapiens dengue virus type 2
Macromolecule	ANTIGEN-BINDING FRAGMENT OF HUMAN ANTIBODY 2D22 -HEAVY CHAIN (protein) ANTIGEN-BINDING FRAGMENT OF HUMAN ANTIBODY 2D22 -LIGHT CHAIN (protein) DENGUE VIRUS SEROTYPE 2 STRAIN NEW GUINEA-C E PROTEIN ECTODOMAIN (protein)

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5A1Z	Download File View File

Cryo-EM structure of Dengue virus serotype 2 strain PVP94-07 complexed with human antibody 2D22 Fab at 37 degrees C

Fibriansah, G., Ibarra, K.D., Ng, T.S., Smith, S.A., Tan, J.L., Lim, X.N., Ooi, J.S.G., Kostyuchenko, V.A., Wang, J., de Silva, A.M., Harris, E., Crowe Jr, J.E., Lok, S.M.

(2015) Science 349: 88-91

Released	2015-07-15
Method	ELECTRON MICROSCOPY 6.9 Å
Organisms	Homo sapiens dengue virus type 2
Macromolecule	ANTIGEN-BINDING FRAGMENT OF HUMAN ANTIBODY 2D22 - HEAVY CHAIN (protein) ANTIGEN-BINDING FRAGMENT OF HUMAN ANTIBODY 2D22 - LIGHT CHAIN (protein) ENVELOPE PROTEIN (protein) MEMBRANE GLYCOPROTEIN (protein)

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5Y0A	Download File View File

Cryo-EM structure of zika virus complexed with Fab of ZKA190 at pH 8.0 and 37 celsius degree

Wang, J.Q., Lok, S.M.

(2017) Cell 171: 229-241.e15

Released	2017-10-04
Method	ELECTRON MICROSCOPY 22 Å
Organisms	Homo sapiens Zika virus
Macromolecule	protein E (protein) variable region of Fab ZKA190 heavy chain (protein) variable region of Fab ZKA190 light chain (protein)

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6IDI	Download File View File

Cryo-EM structure of Immature Dengue virus serotype 3 in complex with human antibody 1H10 Fab at pH 8.0.

Wirawan, M., Fibriansah, G., Ng, T.S., Zhang, Q., Kostyuchenko, V.A., Shi, J., Lok, S.M.

(2019) Structure 27: 253-267.e8

Released	2018-12-12
Method	ELECTRON MICROSCOPY 12 Å
Organisms	Homo sapiens dengue virus type 3
Macromolecule	Envelope protein (protein) Fab 1H10 heavy chain (V-region) (protein) Fab 1H10 light chain (V-region) (protein) Premembrane protein (protein)

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6IDK	Download File View File

Cryo-EM structure of Immature Dengue virus serotype 3 in complex with human antibody 1H10 Fab at pH 5.0 (Class I particle)

Wirawan, M., Fibriansah, G., Ng, T.S., Zhang, Q., Kostyuchenko, V.A., Shi, J., Lok, S.M.

(2019) Structure 27: 253-267.e8

Released	2018-12-12
Method	ELECTRON MICROSCOPY 25 Å
Organisms	Homo sapiens dengue virus type 3
Macromolecule	Envelope protein (protein) Fab 1H10 heavy chain (V-region) (protein) Fab 1H10 light chain (V-region) (protein) Premembrane protein (protein)

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6IDL	Download File View File

Cryo-EM structure of Immature Dengue virus serotype 3 in complex with human antibody 1H10 Fab at pH 5.0 (Class II particle)

Wirawan, M., Fibriansah, G., Ng, T.S., Zhang, Q., Kostyuchenko, V.A., Shi, J., Lok, S.M.

(2019) Structure 27: 253-267.e8

Released	2018-12-12
Method	ELECTRON MICROSCOPY 25 Å
Organisms	Homo sapiens dengue virus type 3
Macromolecule	Envelope protein (protein) Fab 1H10 heavy chain (V-region) (protein) Fab 1H10 light chain (V-region) (protein) Premembrane protein (protein)

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7CTH	Download File View File

Cryo-EM structure of dengue virus serotype 2 in complex with the scFv fragment of the broadly neutralizing antibody EDE1 C10

Zhang, X., Sharma, A., Duquerroy, S., Zhou, Z.H., Rey, F.A.

(2021) Cell 184: 6052

Released	2021-12-01
Method	ELECTRON MICROSCOPY 3.5 Å
Organisms	Homo sapiens dengue virus type 2
Macromolecule	Core protein (protein) Single Chain Variable Fragment (protein)
Unique Ligands	NAG

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7KV8	Download File View File

Chimeric flavivirus between Binjari virus and Dengue virus serotype-2

Hardy, J.M., Venugopal, H.V., Newton, N.D., Watterson, D., Coulibaly, F.J.

(2021) Nat Commun 12: 3266-3266

Released	2020-12-23
Method	ELECTRON MICROSCOPY 2.5 Å
Organisms	dengue virus type 2
Macromolecule	Envelope protein E (protein) Matrix protein M (protein)
Unique Ligands	1Q0, 6OU, NAG

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7KV9	Download File View File

Chimeric flavivirus between Binjari virus and West Nile (Kunjin) virus

Hardy, J.M., Venugopal, H.V., Newton, N.D., Watterson, D., Coulibaly, F.J.

(2021) Nat Commun 12: 3266-3266

Released	2020-12-23
Method	ELECTRON MICROSCOPY 2.9 Å
Organisms	Kunjin virus
Macromolecule	Matrix protein M (protein) envelope protein E (protein)
Unique Ligands	NAG

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7KVB	Download File View File

Chimeric flavivirus between Binjari virus and Murray Valley encephalitis virus

Hardy, J.M., Venugopal, H.V., Newton, N.D., Watterson, D., Coulibaly, F.J.

(2021) Nat Commun 12: 3266-3266

Released	2020-12-23
Method	ELECTRON MICROSCOPY 3.7 Å
Organisms	Murray Valley encephalitis virus
Macromolecule	Envelope protein E (protein) Matrix protein M (protein)
Unique Ligands	NAG

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7L30	Download File View File

Binjari virus (BinJV)

Hardy, J.M., Venugopal, H.V., Newton, N.D., Watterson, D., Coulibaly, F.J.

(2021) Sci Adv 7:

Released	2021-03-10
Method	ELECTRON MICROSCOPY 4.4 Å
Organisms	Binjari virus
Macromolecule	Envelope protein E (protein) prM protein (protein)

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8FE3	Download File View File

Structure of dengue virus (DENV2) in complex with prM12, an anti-PrM monoclonal antibody

Dowd, A.D., Sirohi, D., Speer, S., Mukherjee, S., Govero, J., Aleshnick, M., Larman, B., Sukupolvi-Petty, S., Sevvana, M., Miller, A.S., Klose, T., Zheng, A., Kielian, M., Kuhn, R.J., Diamond, M.S., Pierson, T.C.

(2023) Proc Natl Acad Sci U S A 120: e2218899120-e2218899120

Released	2023-02-01
Method	ELECTRON MICROSCOPY 10.2 Å
Organisms	Mus musculus dengue virus type 2
Macromolecule	Envelope protein E (protein) prM protein (protein) prM12 Fab Heavy Chain (protein) prM12 Fab Light Chain (protein)

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8FE4	Download File View File

Structure of dengue virus (DENV2) in complex with prM13, an anti-PrM monoclonal antibody

Dowd, A.D., Sirohi, D., Speer, S., Mukherjee, S., Govero, J., Aleshnick, M., Larman, B., Sukupolvi-Petty, S., Sevvana, M., Miller, A.S., Klose, T., Zheng, A., Kielian, M., Kuhn, R.J., Diamond, M.S., Pierson, T.C.

(2023) Proc Natl Acad Sci U S A 120: e2218899120-e2218899120

Released	2023-02-01
Method	ELECTRON MICROSCOPY 9.8 Å
Organisms	Mus musculus dengue virus type 2
Macromolecule	Envelope protein E (protein) prM protein (protein) prM13 Fab Heavy Chain (protein) prM13 Fab Light Chain (protein)

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8JN1	Download File View File

Cryo-EM structure of dengue virus serotype 3 strain EHIE46200Y19 in complex with human antibody DENV-115 IgG at 4 deg C (subparticle LLR-LRR)

Fibriansah, G., Ng, T.S., Tan, A.W.K., Shi, J., Lok, S.M.

To be published

Released	2024-06-12
Method	ELECTRON MICROSCOPY 3.5 Å
Organisms	Homo sapiens dengue virus type 3
Macromolecule	Envelope protein (Fragment) (protein) Human antibody DENV-115 heavy chain (protein) Human antibody DENV-115 light chain (protein) Polyprotein (protein)
Unique branched monosaccharides	BMA, NAG

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8JN2	Download File View File

Cryo-EM structure of dengue virus serotype 3 strain 863DK in complex with human antibody DENV-115 Fab at 4 deg C (subparticle LLR-LRR)

Fibriansah, G., Ng, T.S., Tan, A.W.K., Shi, J., Lok, S.M.

To be published

Released	2024-06-12
Method	ELECTRON MICROSCOPY 4.1 Å
Organisms	Homo sapiens dengue virus type 3
Macromolecule	Envelope protein (protein) Human antibody DENV-115 heavy chain (protein) Human antibody DENV-115 light chain (protein) Membrane protein (protein)
Unique branched monosaccharides	BMA, NAG

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8JN3	Download File View File

Cryo-EM structure of dengue virus serotype 3 strain 863DK in complex with human antibody DENV-115 Fab at 37 deg C (subparticle LLR-LRR)

Fibriansah, G., Ng, T.S., Tan, A.W.K., Shi, J., Lok, S.M.

To be published

Released	2024-06-12
Method	ELECTRON MICROSCOPY 5.4 Å
Organisms	Homo sapiens dengue virus type 3
Macromolecule	Envelope protein (protein) Human antibody DENV-115 heavy chain (protein) Human antibody DENV-115 light chain (protein) Membrane protein (protein)

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8JN4	Download File View File

Cryo-EM structure of dengue virus serotype 3 strain 863DK in complex with human antibody DENV-290 Fab at 4 deg C (subparticle LLR-LRR)

Fibriansah, G., Ng, T.S., Tan, A.W.K., Shi, J., Lok, S.M.

To be published

Released	2024-06-12
Method	ELECTRON MICROSCOPY 3.5 Å
Organisms	Homo sapiens dengue virus type 3
Macromolecule	Envelope protein (protein) Human antibody DENV-290 heavy chain (protein) Human antibody DENV-290 light chain (protein) Membrane protein (protein)
Unique branched monosaccharides	BMA, MAN, NAG

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8JN5	Download File View File

Cryo-EM structure of dengue virus serotype 3 strain 863DK in complex with human antibody DENV-290 Fab at 37 deg C (subparticle LLR-LRR)

Fibriansah, G., Ng, T.S., Tan, A.W.K., Shi, J., Lok, S.M.

To be published

Released	2024-06-12
Method	ELECTRON MICROSCOPY 3.6 Å
Organisms	Homo sapiens dengue virus type 3
Macromolecule	Envelope protein (protein) Human antibody DENV-290 heavy chain (protein) Human antibody DENV-290 light chain (protein) Membrane protein (protein)
Unique branched monosaccharides	BMA, MAN, NAG

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8JN6	Download File View File

Cryo-EM structure of the small tail club shape particle of dengue virus serotype 3 strain CH53489 in complex with human antibody DENV-290 Fab at 37 deg C

Fibriansah, G., Ng, T.S., Tan, A.W.K., Shi, J., Lok, S.M.

To be published

Released	2024-06-12
Method	ELECTRON MICROSCOPY 9.8 Å
Organisms	Homo sapiens dengue virus type 3
Macromolecule	Human antibody DENV-290 heavy chain (protein) Human antibody DENV-290 light chain (protein) Polyprotein (Fragment) (protein)

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