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Showing all 33 items for author: v. & kostyuchenko

PDB-5h30:
Cryo-EM structure of zika virus complexed with Fab C10 at pH 6.5
Method: single particle / : Zhang S, Kostyuchenko V, Ng TS, Lok SM

PDB-5h32:
Cryo-EM structure of zika virus complexed with Fab C10 at pH 5.0
Method: single particle / : Zhang S, Kostyuchenko V, Ng TS, Lok SM

PDB-5h37:
Cryo-EM structure of zika virus complexed with Fab C10 at pH 8.0
Method: single particle / : Zhang S, Kostyuchenko V, Ng TS, Lim XN, Ooi JSG, Lambert S, Tan TY, Widman D, Shi J, Baric RS, Lok SM

PDB-5iz7:
Cryo-EM structure of thermally stable Zika virus strain H/PF/2013
Method: single particle / : Kostyuchenko VA, Zhang S, Fibriansah G, Lok SM

PDB-4uif:
Cryo-EM structure of Dengue virus serotype 2 in complex with antigen- binding fragments of human antibody 2D22
Method: single particle / : Fibriansah G, Ibarra KD, Ng TS, Smith SA, Tan JL, Lim XN, Ooi JSG, Kostyuchenko VA, Wang J, de Silva AM, Harris E, Crowe Junior JE, Lok SM

PDB-4uih:
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.
Method: single particle / : Fibriansah G, Ibarra KD, Ng TS, Smith SA, Tan JL, Lim XN, Ooi JSG, Kostyuchenko VA, Wang J, deSilva AM, Harris E, Crowe JE, Lok SM

PDB-5a1z:
Cryo-EM structure of Dengue virus serotype 2 strain PVP94-07 complexed with human antibody 2D22 Fab at 37 degrees C
Method: single particle / : Fibriansah G, Ibarra KD, Ng TS, Smith SA, Tan JL, Lim XN, Ooi JSG, Kostyuchenko VA, Wang J, de Silva AM, Harris E, Crowe Jr JE, Lok SM

PDB-3j6s:
Cryo-EM structure of Dengue virus serotype 3 at 28 degrees C
Method: single particle / : Fibriansah G, Tan JL, Smith SA, de Alwis R, Ng TS, Kostyuchenko VA, Kukkaro P, de Silva AM, Crowe Jr JE, Lok SM

PDB-3j6t:
Cryo-EM structure of Dengue virus serotype 3 at 37 degrees C
Method: single particle / : Fibriansah G, Tan JL, Smith SA, de Alwis R, Ng TS, Kostyuchenko VA, Kukkaro P, de Silva AM, Crowe Jr JE, Lok SM

PDB-3j6u:
Cryo-EM structure of Dengue virus serotype 3 in complex with human antibody 5J7 Fab
Method: single particle / : Fibriansah G, Tan JL, Smith SA, de Alwis R, Ng TS, Kostyuchenko VA, Kukkaro P, de Silva AM, Crowe Jr JE, Lok SM

PDB-4c2i:
Cryo-EM structure of Dengue virus serotype 1 complexed with Fab fragments of human antibody 1F4
Method: single particle / : Fibriansah G, Tan JL, de Alwis R, Smith SA, Ng TS, Kostyuchenko VA, Ibarra KD, Harris E, de Silva A, Crowe Junior JE, Lok SM

PDB-4cbf:
Near-atomic resolution cryo-EM structure of Dengue serotype 4 virus
Method: single particle / : Kostyuchenko VA, Chew PL, Ng TS, Lok SM

PDB-4cct:
Dengue 1 cryo-EM reconstruction
Method: single particle / : Kostyuchenko VA, Zhang Q, Tan JL, Ng TS, Lok SM

PDB-4cau:
THREE-DIMENSIONAL STRUCTURE OF DENGUE VIRUS SEROTYPE 1 COMPLEXED WITH 2 HMAB 14C10 FAB
Method: single particle / : Teoh EP, Kukkaro P, Teo EW, Lim AP, Tan TT, Yip A, Schul W, Aung M, Kostyuchenko VA, Leo YS, Chan SH, Smith KG, Chan AH, Zou G, Ooi EE, Kemeny DM, Tan GK, Ng JK, Ng ML, Alonso S, Fisher D, Shi PY, Hanson BJ, Lok SM, Macary PA

PDB-4b03:
6A Electron cryomicroscopy structure of immature Dengue virus serotype 1
Method: single particle / : Kostyuchenko VA, Zhang Q, Tan LC, Ng TS, Lok SM

PDB-3zko:
The structure of ''breathing'' dengue virus.
Method: single particle / : Fibriansah G, Ng TS, Kostyuchenko VA, Lee S, Wang J, Lok SM

PDB-2yew:
Modeling Barmah Forest virus structural proteins
Method: single particle / : Kostyuchenko VA, Jakana J, Liu X, Haddow AD, Aung M, Weaver SC, Chiu W, Lok SM

PDB-3ixx:
The pseudo-atomic structure of West Nile immature virus in complex with Fab fragments of the anti-fusion loop antibody E53
Method: single particle / : Cherrier MV, Kaufmann B, Nybakken GE, Lok SM, Warren JT, Nelson CA, Kostyuchenko VA, Holdaway HA, Chipman PR, Kuhn RJ, Diamond MS, Rossmann MG, Fremont DH

PDB-3ixy:
The pseudo-atomic structure of dengue immature virus in complex with Fab fragments of the anti-fusion loop antibody E53
Method: single particle / : Cherrier MV, Kaufmann B, Nybakken GE, Lok SM, Warren JT, Nelson CA, Kostyuchenko VA, Holdaway HA, Chipman PR, Kuhn RJ, Diamond MS, Rossmann MG, Fremont DH

PDB-3foh:
Fitting of gp18M crystal structure into 3D cryo-EM reconstruction of bacteriophage T4 extended tail
Method: single particle / : Aksyuk AA, Leiman PG, Kurochkina LP, Shneider MM, Kostyuchenko VA, Mesyanzhinov VV, Rossmann MG

PDB-3foi:
Fitting of gp18M crystal structure into 3D cryo-EM reconstruction of bacteriophage T4 contracted tail
Method: single particle / : Aksyuk AA, Leiman PG, Kurochkina LP, Shneider MM, Kostyuchenko VA, Mesyanzhinov VV, Rossmann MG

PDB-3c6r:
Low pH Immature Dengue Virus
Method: single particle / : Yu I, Zhang W, Holdway HA, Li L, Kostyuchenko VA, Chipman PR, Kuhn RJ, Rossmann MG, Chen J

PDB-2r6p:
Fit of E protein and Fab 1A1D-2 into 24 angstrom resolution cryoEM map of Fab complexed with dengue 2 virus.
Method: single particle / : Lok SM, Kostyuchenko VK, Holdaway HA, Chipman PR, Kuhn RJ, Rossmann MG

PDB-2nsu:
Crystal structure of the ectodomain of human transferrin receptor fitted into a cryo-EM reconstruction of canine parvovirus and feline transferrin receptor complex
Method: single particle / : Hafenstein S, Kostyuchenko VA, Rossmann MG

PDB-2bsg:
The modeled structure of fibritin (gpwac) of bacteriophage T4 based on cryo-EM reconstruction of the extended tail of bacteriophage T4
Method: helical / : Kostyuchenko VA, Chipman PR, Leiman PG, Arisaka F, Mesyanzhinov VV, Rossmann MG

PDB-1zku:
Fitting of the gp9 structure in the EM density of bacteriophage T4 extended tail
Method: single particle / : Kostyuchenko VA

PDB-1tja:
Fitting of gp8, gp9, and gp11 into the cryo-EM reconstruction of the bacteriophage T4 contracted tail
Method: single particle / : Leiman PG, Chipman PR, Kostyuchenko VA, Mesyanzhinov VV, Rossmann MG

PDB-1pdf:
Fitting of gp11 crystal structure into 3D cryo-EM reconstruction of bacteriophage T4 baseplate-tail tube complex
Method: single particle / : Kostyuchenko VA, Leiman PG, Chipman PR, Kanamaru S, van Raaij MJ, Arisaka F, Mesyanzhinov VV, Rossmann MG

PDB-1pdi:
Fitting of the C-terminal part of the short tail fibers into the cryo-EM reconstruction of T4 baseplate
Method: single particle / : Kostyuchenko VA, Leiman PG, Chipman PR, Kanamaru S, van Raaij MJ, Arisaka F, Mesyanzhinov VV, Rossmann MG

PDB-1pdj:
Fitting of gp27 into cryoEM reconstruction of bacteriophage T4 baseplate
Method: single particle / : Kostyuchenko VA, Leiman PG, Chipman PR, Kanamaru S, van Raaij MJ, Arisaka F, Mesyanzhinov VV, Rossmann MG

PDB-1pdl:
Fitting of gp5 in the cryoEM reconstruction of the bacteriophage T4 baseplate
Method: single particle / : Kostyuchenko VA, Leiman PG, Chipman PR, Kanamaru S, van Raaij MJ, Arisaka F, Mesyanzhinov VV, Rossmann MG

PDB-1pdm:
Fitting of gp8 structure into the cryoEM reconstruction of the bacteriophage T4 baseplate
Method: single particle / : Kostyuchenko VA, Leiman PG, Chipman PR, Kanamaru S, van Raaij MJ, Arisaka F, Mesyanzhinov VV, Rossmann MG

PDB-1pdp:
Fitting of gp9 structure into the bacteriophage T4 baseplate cryoEM reconstruction
Method: single particle / : Kostyuchenko VA, Leiman PG, Chipman PR, Kanamaru S, van Raaij MJ, Arisaka F, Mesyanzhinov VV, Rossmann MG

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Oct 4, 2017. Three pioneers of this field were awarded Nobel Prize in Chemistry 2017

Three pioneers of this field were awarded Nobel Prize in Chemistry 2017

  • Jacques Dubochet (University of Lausanne, Switzerland) is a pioneer of ice-embedding method of EM specimen (as known as cryo-EM), Most of 3DEM structures in EMDB and PDB are obtained using his method.
  • Joachim Frank (Columbia University, New York, USA) is a pioneer of single particle reconstruction, which is the most used reconstruction method for 3DEM structures in EMDB and EM entries in PDB. And also, he is a develper of Spider, which is one of the most famous software in this field, and is used for some EM Navigor data (e.g. map projection/slice images).
  • Richard Henderson (MRC Laboratory of Molecular Biology, Cambridge, UK) was determined the first biomolecule structure by EM. The first EM entry in PDB, PDB-1brd is determinedby him.

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