[English] 日本語
EMN search
- 3DEM data search -

-
Search query


Keywords
Database
Q: What is the data source of EM Navigator?
Latest entriesEMDB:
PDB:
Q: When the data are updated?
Author
Processing method
Display mode
Sort by
Displayentries / page
Entry
Article
Sample
Experiment
Processing

Yorodumi Search

-
Search result

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: icosahedral / : 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: icosahedral / : 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: icosahedral / : 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: icosahedral / : 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: icosahedral / : 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: icosahedral / : 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: icosahedral / : 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

+
About EMN search

-
News

-
Sep 15, 2016. EM Navigator & Yorodumi renewed

EM Navigator & Yorodumi renewed

  • New versions of EM Navigator and Yorodumi started

Related info.: Changes in new EM Navigator and Yorodumi / EM Navigator (legacy version) / Yorodumi (legacy version)

-
Aug 31, 2016. New EM Navigator & Yorodumi

New EM Navigator & Yorodumi

  • In 15th Sep 2016, the development versions of EM Navigator and Yorodumi will replace the official versions.
  • Current version will continue as 'legacy version' for some time.

Related info.: Changes in new EM Navigator and Yorodumi / EM Navigator / Yorodumi / EM Navigator (legacy version) / Yorodumi (legacy version)

+
Apr 13, 2016. Omokage search got faster

Omokage search got faster

  • The computation time became ~1/2 compared to the previous version by re-optimization of data accession
  • Enjoy "shape similarity" of biomolecules, more!

Related info.: Omokage search

+
Mar 3, 2016. Presentation (PDF format) at IPR seminar on Feb 19.

+
Dec 4, 2015. The article about Omokage search is published online

The article about Omokage search is published online

Related info.: Omokage search / gmfit

Read more

-
EMN Search

3DEM data search

  • Advanced data search for EMDB and EM data in PDB widh various search and display options

Related info.: EMDB / PDB / EM Navigator / Q: What is the data source of EM Navigator? / Yorodumi Search

Read more