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Showing all 20 items for Latest entries: updated PDB

PDB-5v5b:
KVQIINKKLD, Structure of the amyloid spine from microtubule associated protein tau Repeat 2
Method: electron crystallography / : Seidler PM, Sawaya MR, Rodriguez JA, Eisenberg DS, Cascio D, Boyer DR

PDB-5v5c:
VQIINK, Structure of the amyloid-spine from microtubule associated protein tau Repeat 2
Method: electron crystallography / : Seidler PM, Sawaya MR, Rodriguez JA, Eisenberg DS, Cascio D, Boyer DR

PDB-6be1:
Cryo-EM structure of serotonin receptor
Method: single particle / : Basak S, Chakrapani S

PDB-6bf6:
Cryo-EM structure of human insulin degrading enzyme
Method: single particle / : Liang WG, Zhang Z, Bailey LJ, Kossiakoff AA, Tan YZ, Wei H, Carragher B, Potter SC, Tang WJ

PDB-6bf7:
Cryo-EM structure of human insulin degrading enzyme in complex with FAB H11-E heavy chain, FAB H11-E light chain
Method: single particle / : Liang WG, Zhang Z, Bailey LJ, Kossiakoff AA, Tan YZ, Wei H, Carragher B, Potter SC, Tang WJ

PDB-6bf9:
Cryo-EM structure of human insulin degrading enzyme in complex with FAB H11-E heavy chain, FAB H11-E light chain
Method: single particle / : Liang WG, Zhang Z, Bailey LJ, Kossiakoff AA, Tan YZ, Wei H, Carragher B, Potter SC, Tang WJ

PDB-6bvf:
Cryo-EM Structure of Hepatitis B virus T=4 capsid in complex with the fluorescent allosteric modulator HAP-TAMRA
Method: single particle / : Schlicksup C, Wang JC, Zlotnick A

PDB-6bvn:
Cryo-EM Structure of Hepatitis B virus T=3 capsid in complex with the fluorescent allosteric modulator HAP-TAMRA
Method: single particle / : Schlicksup C, Wang JC, Zlotnick A

PDB-6epc:
Ground state 26S proteasome (GS2)
Method: subtomogram averaging / : Guo Q, Lehmer C, Martinez-Sanchez A, Rudack T, Beck F, Hartmann H, Hipp MS, Hartl FU, Edbauer D, Baumeister W, Fernandez-Busnadiego R

PDB-6epd:
Substrate processing state 26S proteasome (SPS1)
Method: subtomogram averaging / : Guo Q, Lehmer C, Martinez-Sanchez A, Rudack T, Beck F, Hartmann H, Hipp MS, Hartl FU, Edbauer D, Baumeister W, Fernandez-Busnadiego R

PDB-6epe:
Substrate processing state 26S proteasome (SPS2)
Method: subtomogram averaging / : Guo Q, Lehmer C, Martinez-Sanchez A, Rudack T, Beck F, Hartmann H, Hipp MS, Hartl FU, Edbauer D, Baumeister W, Fernandez-Busnadiego R

PDB-6epf:
Ground state 26S proteasome (GS1)
Method: subtomogram averaging / : Guo Q, Lehmer C, Martinez-Sanchez A, Rudack T, Beck F, Hartmann H, Hipp MS, Hartl FU, Edbauer D, Baumeister W, Fernandez-Busnadiego R

PDB-6eqc:
Cryo-EM reconstruction of a complex of a binding protein and human adenovirus C5 hexon
Method: single particle / : Schmid M, Ernst P, Honegger A, Suomalainen M, Zimmermann M, Braun L, Stauffer S, Thom C, Dreier B, Eibauer M, Kipar A, Vogel V, Greber UF, Medalia O, Plueckthun A

PDB-6bu8:
70S ribosome with S1 domains 1 and 2 (Class 1)
Method: single particle / : Loveland AB, Korostelev AA

PDB-6c26:
The Cryo-EM structure of a eukaryotic oligosaccharyl transferase complex
Method: single particle / : Bai L, Li H

PDB-6c23:
Cryo-EM structure of PRC2 bound to cofactors AEBP2 and JARID2 in the Compact Active State
Method: single particle / : Kasinath V, Faini M, Poepsel S, Reif D, Feng A, Stjepanovic G, Aebersold R, Nogales E

PDB-6c24:
Cryo-EM structure of PRC2 bound to cofactors AEBP2 and JARID2 in the Extended Active State
Method: single particle / : Kasinath V, Faini M, Poepsel S, Reif D, Feng A, Stjepanovic G, Aebersold R, Nogales E

PDB-5n8n:
Contracted sheath of a Pseudomonas aeruginosa type six secretion system consisting of TssB1 and TssC1
Method: helical / : Salih O, He S, Stach L, Macdonald JT, Planamente S, Manoli E, Scheres S, Filloux A, Freemont PS

PDB-6bgj:
Cryo-EM structure of the TMEM16A calcium-activated chloride channel in LMNG
Method: single particle / : Dang S, Feng S, Tien J, Peters CJ, Bulkley D, Lolicato M, Zhao J, Zuberbuhler K, Ye W, Qi L, Chen T, Craik CS, Jan YN, Minor DLJr, Cheng Y, Jan LY

PDB-4ug0:
STRUCTURE OF THE HUMAN 80S RIBOSOME
Method: single particle / : Khatter H, Myasnikov AG, Natchiar SK, Klaholz BP

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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.

External links: The 2017 Nobel Prize in Chemistry - Press Release

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Jul 12, 2017. Major update of PDB

Major update of PDB

  • wwPDB released updated PDB data conforming to the new PDBx/mmCIF dictionary. This is a major update changing the version number from 4 to 5, and with Remediation, in which all the entries are updated. See below links for details.
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External links: wwPDB Remediation / Enriched Model Files Conforming to OneDep Data Standards Now Available in the PDB FTP Archive

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

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