[English] 日本語
- 3DEM data search -

-
Search query


Keywords
Database /
Q: What are the data sources of EM Navigator?
Data entries / weeks ago
Q: When the data are updated?
Author
Processing method
Display mode
Sort by
Num. of entries / page
Entry
Article
Sample
Experiment
Processing
Max number of data0 for all data
File format
  • CSV format (Comma-Separated Values, for Excel, etc.)
  • TSV format (Tab Separated Values, for Excel, etc.)
  • JSON format

Yorodumi Search

-
Search result

Showing 1 - 50 of 51 items for (author: zavialov & av)

EMDB-52587:
Csu pilus rod purified from Acinetobacter baumannii
Method: helical / : Malmi H, Zavialov AV, Pakharukova N

EMDB-52600:
Csu pilus rod antiparallel pair
Method: single particle / : Malmi H, Pakharukova N, Zavialov AV

EMDB-52601:
Csu pilus rod type 1 stack
Method: single particle / : Malmi H, Pakharukova N, Zavialov AV

EMDB-52602:
Csu pilus rod type 2 stack
Method: single particle / : Malmi H, Pakharukova N, Zavialov AV

PDB-9i37:
Csu pilus rod purified from Acinetobacter baumannii
Method: helical / : Malmi H, Zavialov AV, Pakharukova N

PDB-9i3m:
Csu pilus rod antiparallel pair
Method: single particle / : Malmi H, Pakharukova N, Zavialov AV

PDB-9i3n:
Csu pilus rod type 1 stack
Method: single particle / : Malmi H, Pakharukova N, Zavialov AV

PDB-9i3o:
Csu pilus rod type 2 stack
Method: single particle / : Malmi H, Pakharukova N, Zavialov AV

EMDB-14777:
Cryo-EM structure of archaic chaperone-usher Csu pilus of Acinetobacter baumannii
Method: helical / : Pakharukova N, Malmi H, Tuittila M, Paavilainen S, Ghosal D, Chang YW, Jensen GJ, Zavialov AV

PDB-7zl4:
Cryo-EM structure of archaic chaperone-usher Csu pilus of Acinetobacter baumannii
Method: helical / : Pakharukova N, Malmi H, Tuittila M, Paavilainen S, Ghosal D, Chang YW, Jensen GJ, Zavialov AV

PDB-2rdo:
50S subunit with EF-G(GDPNP) and RRF bound
Method: single particle / : Gao N, Zavialov AV, Ehrenberg M, Frank J

EMDB-1430:
Specific interaction between EF-G and RRF and its implication for GTP-dependent ribosome splitting into subunits.
Method: single particle / : Gao N, Zavialov A, Ehrenberg M, Frank J

EMDB-1395:
Incorporation of aminoacyl-tRNA into the ribosome as seen by cryo-electron microscopy.
Method: single particle / : Valle M, Zavialov A, Li W, Stagg SM, Sengupta J, Nielsen RC, Nissen P, Harvey SC, Ehrenberg M, Frank J

PDB-2o0f:
Docking of the modified RF3 X-ray structure into cryo-EM map of E.coli 70S ribosome bound with RF3
Method: single particle / : Gao H, Zhou Z, Rawat U, Huang C, Bouakaz L, Wang C, Liu Y, Zavialov A, Gursky R, Sanyal S, Ehrenberg M, Frank J, Song H

EMDB-1302:
RF3 induces ribosomal conformational changes responsible for dissociation of class I release factors.
Method: single particle / : Gao H, Zhou Z, Rawat U, Huang C, Bouakaz L, Wang C, Liu Y, Zavialov A, Gursky R, Sanyal S, Ehrenberg M, Frank J, Song H

EMDB-1362:
Locking and unlocking of ribosomal motions.
Method: single particle / : Mikel V, Andrey Z, Sengupta J, Rawat U, Ehrenberg M, Frank J

EMDB-1363:
Locking and unlocking of ribosomal motions.
Method: single particle / : Mikel V, Andrey Z, Sengupta J, Rawat U, Ehrenberg M, Frank J

EMDB-1364:
Locking and unlocking of ribosomal motions.
Method: single particle / : Mikel V, Andrey Z, Sengupta J, Rawat U, Ehrenberg M, Frank J

EMDB-1365:
Locking and unlocking of ribosomal motions.
Method: single particle / : Mikel V, Andrey Z, Sengupta J, Rawat U, Ehrenberg M, Frank J

EMDB-1366:
Locking and unlocking of ribosomal motions.
Method: single particle / : Mikel V, Andrey Z, Sengupta J, Rawat U, Ehrenberg M, Frank J

EMDB-1248:
The cryo-EM structure of a translation initiation complex from Escherichia coli.
Method: single particle / : Allen GS, Zavialov A, Gursky R, Ehrenberg M, Frank J

EMDB-1249:
The cryo-EM structure of a translation initiation complex from Escherichia coli.
Method: single particle / : Allen GS, Zavialov A, Gursky R, Ehrenberg M, Frank J

EMDB-1127:
Mechanism for the disassembly of the posttermination complex inferred from cryo-EM studies.
Method: single particle / : Gao N, Zavialov AV, Li W, Sengupta J, Valle M, Gursky RP, Ehrenberg M, Frank J

EMDB-1128:
Mechanism for the disassembly of the posttermination complex inferred from cryo-EM studies.
Method: single particle / : Gao N, Zavialov AV, Li W, Sengupta J, Valle M, Gursky RP, Ehrenberg M, Frank J

EMDB-1184:
Interactions of the release factor RF1 with the ribosome as revealed by cryo-EM.
Method: single particle / : Rawat U, Gao H, Zavialov A, Gursky R, Ehrenberg M, Frank J

EMDB-1185:
Interactions of the release factor RF1 with the ribosome as revealed by cryo-EM.
Method: single particle / : Rawat U, Gao H, Zavialov A, Gursky R, Ehrenberg M, Frank J

PDB-2fvo:
Docking of the modified RF1 X-ray structure into the Low Resolution Cryo-EM map of E.coli 70S Ribosome bound with RF1
Method: single particle / : Rawat U, Gao H, Zavialov A, Gursky R, Ehrenberg M, Frank J

PDB-1zn0:
Coordinates of RRF and EF-G fitted into Cryo-EM map of the 50S subunit bound with both EF-G (GDPNP) and RRF
Method: single particle / : Gao N, Zavialov AV, Li W, Sengupta J, Valle M, Gursky RP, Ehrenberg M, Frank J

PDB-1zn1:
Coordinates of RRF fitted into Cryo-EM map of the 70S post-termination complex
Method: single particle / : Gao N, Zavialov AV, Li W, Sengupta J, Valle M, Gursky RP, Ehrenberg M, Frank J

PDB-1zo1:
IF2, IF1, and tRNA fitted to cryo-EM data OF E. COLI 70S initiation complex
Method: single particle / : Allen GS, Zavialov A, Gursky R, Ehrenberg M, Frank J

PDB-1zo3:
The P-site and P/E-site tRNA structures fitted to P/I site codon.
Method: single particle / : Allen GS, Zavialov A, Gursky R, Ehrenberg M, Frank J

EMDB-1055:
Locking and unlocking of ribosomal motions.
Method: single particle / : Valle M, Zavialov A, Li W, Stagg SM, Sengupta J, Nielsen RC, Nissen P, Hervey SC, Ehrenberg M, Frank J

EMDB-1056:
Incorporation of aminoacyl-tRNA into the ribosome as seen by cryo-electron microscopy.
Method: single particle / : Valle M, Zavialov A, Li W, Stagg SM, Sengupta J, Nielsen RC, Nissen P, Harvey SC, Ehrenberg M, Frank J

PDB-1qza:
Coordinates of the A/T site tRNA model fitted into the cryo-EM map of EF-Tu ternary complex (GDP.Kirromycin) bound 70S ribosome
Method: single particle / : Valle M, Zavialov A, Li W, Stagg SM, Sengupta J, Nielsen RC, Nissen P, Harvey SC, Ehrenberg M, Frank J

PDB-1qzb:
Coordinates of the A-site tRNA model fitted into the cryo-EM map of 70S ribosome in the pre-translocational state
Method: single particle / : Valle M, Zavialov A, Li W, Stagg SM, Sengupta J, Nielsen RC, Nissen P, Harvey SC, Ehrenberg M, Frank J

PDB-1qzc:
Coordinates of S12, SH44, LH69 and SRL separately fitted into the cryo-EM map of EF-Tu ternary complex (GDP.Kirromycin) bound 70S ribosome
Method: single particle / : Valle M, Zavialov A, Li W, Stagg SM, Sengupta J, Nielsen RC, Nissen P, Harvey SC, Ehrenberg M, Frank J

PDB-1qzd:
EF-Tu.kirromycin coordinates fitted into the cryo-EM map of EF-Tu ternary complex (GDP.Kirromycin) bound 70S ribosome
Method: single particle / : Valle M, Zavialov A, Li W, Stagg SM, Sengupta J, Nielsen RC, Nissen P, Harvey SC, Ehrenberg M, Frank J

PDB-1r2w:
Coordinates of L11 with 58nts of 23S rRNA fitted into the cryo-EM map of the 70S ribosome
Method: single particle / : Valle M, Zavialov A, Li W, Stagg SM, Sengupta J, Nielsen RC, Nissen P, Harvey SC, Ehrenberg M, Frank J

PDB-1r2x:
Coordinates of L11 with 58nts of 23S rRNA fitted into the cryo-EM map of EF-Tu ternary complex (GDP.Kirromycin) bound 70S ribosome
Method: single particle / : Valle M, Zavialov A, Li W, Stagg SM, Sengupta J, Nielsen RC, Nissen P, Harvey SC, Ehrenberg M, Frank J

EMDB-1006:
A cryo-electron microscopic study of ribosome-bound termination factor RF2.
Method: single particle / : Rawat U, Gao H, Zavialov A, Gursky R, Ehrenberg M, Frank J

EMDB-1007:
A cryo-electron microscopic study of ribosome-bound termination factor RF2.
Method: single particle / : Rawat UB, Zavialov AV, Sengupta J, Valle M, Grassucci RA, Linde J, Vestergaard B, Ehrenberg M, Frank J

EMDB-1008:
A cryo-electron microscopic study of ribosome-bound termination factor RF2.
Method: single particle / : Rawat UB, Zavialov AV, Sengupta J, Valle M, Grassucci RA, Linde J, Vestergaard B, Ehrenberg M, Frank J

EMDB-1009:
A cryo-electron microscopic study of ribosome-bound termination factor RF2.
Method: single particle / : Rawat UB, Zavialov AV, Sengupta J, Valle M, Grassucci RA, Linde J, Vestergaard B, Ehrenberg M, Frank J

EMDB-1010:
A cryo-electron microscopic study of ribosome-bound termination factor RF2.
Method: single particle / : Rawat UB, Zavialov AV, Sengupta J, Valle M, Grassucci RA, Linde J, Vestergaard B, Ehrenberg M, Frank J

EMDB-1005:
Structure of the Escherichia coli ribosomal termination complex with release factor 2.
Method: single particle / : Klaholz BP, Pape T, Zavialov AV, Myasnikov AG, Orlova EV, Vestergaard B, Ehrenberg M, van Heel M

PDB-1pn6:
Domain-wise fitting of the crystal structure of T.thermophilus EF-G into the low resolution map of the release complex.Puromycin.EFG.GDPNP of E.coli 70S ribosome.
Method: single particle / : Valle M, Zavialov A, Sengupta J, Rawat U, Ehrenberg M, Frank J

PDB-1pn7:
Coordinates of S12, L11 proteins and P-tRNA, from the 70S X-ray structure aligned to the 70S Cryo-EM map of E.coli ribosome
Method: single particle / : Valle M, Zavialov A, Sengupta J, Rawat U, Ehrenberg M, Frank J

PDB-1pn8:
Coordinates of S12, L11 proteins and E-site tRNA from 70S crystal structure separately fitted into the Cryo-EM map of E.coli 70S.EF-G.GDPNP complex. The atomic coordinates originally from the E-site tRNA were fitted in the position of the hybrid P/E-site tRNA.
Method: single particle / : Valle M, Zavialov A, Sengupta J, Rawat U, Ehrenberg M, Frank J

PDB-1mvr:
Decoding Center & Peptidyl transferase center from the X-ray structure of the Thermus thermophilus 70S ribosome, aligned to the low resolution Cryo-EM map of E.coli 70S Ribosome
Method: single particle / : Rawat UB, Zavialov AV, Sengupta J, Valle M, Grassucci RA, Linde J, Vestergaard B, Ehrenberg M, Frank J

PDB-1ml5:
Structure of the E. coli ribosomal termination complex with release factor 2
Method: single particle / : Klaholz BP, Pape T, Zavialov AV, Myasnikov AG, Orlova EV, Vestergaard B, Ehrenberg M, van Heel M

Pages:

+
About EMN search

-
News

-
Feb 9, 2022. New format data for meta-information of EMDB entries

New format data for meta-information of EMDB entries

  • Version 3 of the EMDB header file is now the official format.
  • The previous official version 1.9 will be removed from the archive.

Related info.:EMDB header

External links:wwPDB to switch to version 3 of the EMDB data model

-
Oct 5, 2021. Nobel Prize for mechanically activated and temperature-gated ion channels

Nobel Prize for mechanically activated and temperature-gated ion channels

  • The Nobel Prize in Physiology or Medicine 2021 was awarded jointly to David Julius and Ardem Patapoutian "for their discoveries of receptors for temperature and touch."
  • EM Navigator can help to find cryo-EM structure data by both pioneers.

External links:The Nobel Prize in Physiology or Medicine 2021 - NobelPrize.org / Structure data by Ardem Patapoutian / Structure data by David Julius

+
Aug 12, 2020. Covid-19 info

Covid-19 info

URL: https://pdbj.org/emnavi/covid19.php

New page: Covid-19 featured information page in EM Navigator.

Related info.:Covid-19 info / Mar 5, 2020. Novel coronavirus structure data

+
Mar 5, 2020. Novel coronavirus structure data

Novel coronavirus structure data

Related info.:Yorodumi Speices / Aug 12, 2020. Covid-19 info

External links:COVID-19 featured content - PDBj / Molecule of the Month (242)：Coronavirus Proteases

+
Jul 5, 2019. Downlodablable text data

Downlodablable text data

Some data of EM Navigator services can be downloaded as text file. Software such as Excel can load the data files.

PageDataFormat
EMN Searchsearch resultCSV, TSV, or JSON
EMN statisticsdata tableCSV or TSV

Related info.:EMN Search / EMN Statistics

-
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 are the data sources of EM Navigator? / Yorodumi Search / Jul 5, 2019. Downlodablable text data

Read more