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Showing all 48 items for author: q. & zhang

PDB-6b7n:
Cryo-electron microscopy structure of porcine delta coronavirus spike protein in the pre-fusion state
Method: single particle / : Shang J, Zheng Y, Yang Y, Liu C, Geng Q, Tai W, Du L, Zhou Y, Zhang W, Li F

PDB-5xs4:
Structure of Coxsackievirus A6 (CVA6) virus A-particle
Method: single particle / : Zheng QB, He MZ, Xu LF, Yu H, Li SW, Cheng T

PDB-5xs5:
Structure of Coxsackievirus A6 (CVA6) virus procapsid particle
Method: single particle / : Zheng QB, He MZ, Xu LF, Yu H, Cheng T, Li SW

PDB-5xs7:
Structure of Coxsackievirus A6 (CVA6) virus A-particle in complex with the neutralizing antibody fragment 1D5
Method: single particle / : Zheng QB, He MZ, Xu LF, Yu H, Li SW, Cheng T

PDB-5uf6:
The 2.8 A Electron Microscopy Structure of Adeno-Associated Virus-DJ Bound by a Heparanoid Pentasaccharide
Method: single particle / : Xie Q, Spear JM, Noble AJ, Sousa DR, Meyer NL, Davulcu O, Zhang F, Linhardt RJ, Stagg SM, Chapman M

PDB-5vai:
Cryo-EM structure of the activated Glucagon-like peptide-1 receptor in complex with G protein
Method: single particle / : Zhang Y, Sun B, Feng D, Hu H, Chu M, Qu Q, Tarrasch JT, Li S, Kobilka TS, Kobilka BK, Skiniotis G

PDB-5x58:
Prefusion structure of SARS-CoV spike glycoprotein, conformation 1
Method: single particle / : Yuan Y, Cao D, Zhang Y, Ma J, Qi J, Wang Q, Lu G, Wu Y, Yan J, Shi Y, Zhang X, Gao GF

PDB-5x59:
Prefusion structure of MERS-CoV spike glycoprotein, three-fold symmetry
Method: single particle / : Yuan Y, Cao D, Zhang Y, Ma J, Qi J, Wang Q, Lu G, Wu Y, Yan J, Shi Y, Zhang X, Gao GF

PDB-5x5b:
Prefusion structure of SARS-CoV spike glycoprotein, conformation 2
Method: single particle / : Yuan Y, Cao D, Zhang Y, Ma J, Qi J, Wang Q, Lu G, Wu Y, Yan J, Shi Y, Zhang X, Gao GF

PDB-5x5c:
Prefusion structure of MERS-CoV spike glycoprotein, conformation 1
Method: single particle / : Yuan Y, Cao D, Zhang Y, Ma J, Qi J, Wang Q, Lu G, Wu Y, Yan J, Shi Y, Zhang X, Gao GF

PDB-5x5f:
Prefusion structure of MERS-CoV spike glycoprotein, conformation 2
Method: single particle / : Yuan Y, Cao D, Zhang Y, Ma J, Qi J, Wang Q, Lu G, Wu Y, Yan J, Shi Y, Zhang X, Gao GF

PDB-5wyj:
Cryo-EM structure of the 90S small subunit pre-ribosome (Dhr1-depleted, Enp1-TAP, state 1)
Method: single particle / : Ye K, Zhu X, Sun Q

PDB-5wyk:
Cryo-EM structure of the 90S small subunit pre-ribosome (Mtr4-depleted, Enp1-TAP)
Method: single particle / : Ye K, Zhu X, Sun Q

PDB-5x0m:
Structure of a eukaryotic voltage-gated sodium channel at near atomic resolution
Method: single particle / : Shen H, Zhou Q, Pan X, Li Z, Wu J, Yan N

PDB-5wte:
Cryo-EM structure for Hepatitis A virus full particle
Method: single particle / : Wang X, Zhu L, Dang M, Hu Z, Gao Q, Yuan S, Sun Y, Zhang B, Ren J, Walter TS, Wang J, Fry EE, Stuart DI, Rao Z

PDB-5wtf:
Cryo-EM structure for Hepatitis A virus empty particle
Method: single particle / : Wang X, Zhu L, Dang M, Hu Z, Gao Q, Yuan S, Sun Y, Zhang B, Ren J, Walter TS, Wang J, Fry EE, Stuart DI, Rao Z

PDB-5wth:
Cryo-EM structure for Hepatitis A virus complexed with FAB
Method: single particle / : Wang X, Zhu L, Dang M, Hu Z, Gao Q, Yuan S, Sun Y, Zhang B, Ren J, Walter TS, Wang J, Fry EE, Stuart DI, Rao Z

PDB-3jbm:
Electron cryo-microscopy of a virus-like particle of orange-spotted grouper nervous necrosis virus
Method: single particle / : Xie J, Li K, Gao Y, Huang R, Lai Y, Shi Y, Yang S, Zhu G, Zhang Q, He J

PDB-5gjv:
Structure of the mammalian voltage-gated calcium channel Cav1.1 complex at near atomic resolution
Method: single particle / : Wu JP, Yan Z, Li ZQ, Zhou Q, Yan N

PDB-5gjw:
Structure of the mammalian voltage-gated calcium channel Cav1.1 complex for ClassII map
Method: single particle / : Wu JP, Yan Z, Li ZQ, Zhou Q, Yan N

PDB-3jb8:
Insight into Three-dimensional structure of Maize Chlorotic Mottle Virus Revealed by Single Particle Analysis
Method: single particle / : Wang CY, Zhang QF, Gao YZ, Zhou XP, Ji G, Huang XJ, Hong J, Zhang CX

PDB-3jct:
Cryo-em structure of eukaryotic pre-60S ribosomal subunits
Method: single particle / : Wu S, Kumcuoglu B, Yan KG, Brown H, Zhang YX, Tan D, Gamalinda M, Yuan Y, Li ZF, Jakovljevic J, Ma CY, Lei JL, Dong MQ, Woolford Jr JL, Gao N

PDB-5jb1:
Pseudo-atomic structure of Human Papillomavirus Type 59 L1 Virus-like Particle
Method: single particle / : Li ZH, Yan XD, Yu H, Zheng QB, Gu Y, Li SW

PDB-3jau:
The cryoEM map of EV71 mature viron in complex with the Fab fragment of antibody D5
Method: single particle / : Fan C, Ye XH, Ku ZQ, Zuo T, Kong LL, Zhang C, Shi JP, Liu QW, Chen T, Zhang YY, Jiang W, Zhang LQ, Huang Z, Cong Y

PDB-3jaa:
HUMAN DNA POLYMERASE ETA in COMPLEX WITH NORMAL DNA AND INCO NUCLEOTIDE (NRM)
Method: single particle / : Lau WCY, Li Y, Zhang Q, Huen MSY

PDB-3ja9:
Structure of native human PCNA
Method: single particle / : Lau WCY, Li Y, Zhang Q, Huen MSY

PDB-3jbl:
Cryo-EM Structure of the Activated NAIP2/NLRC4 Inflammasome Reveals Nucleated Polymerization
Method: single particle / : Zhang L, Chen S, Ruan J, Wu J, Tong AB, Yin Q, Li Y, David L, Lu A, Wang WL, Marks C, Ouyang Q, Zhang X, Mao Y, Wu H

PDB-3j7v:
Capsid Expansion Mechanism Of Bacteriophage T7 Revealed By Multi-State Atomic Models Derived From Cryo-EM Reconstructions
Method: single particle / : Guo F, Liu Z, Fang PA, Zhang Q, Wright ET, Wu W, Zhang C, Vago F, Ren Y, Jakata J, Chiu W, Serwer P, Jiang W

PDB-3j7w:
Capsid Expansion Mechanism Of Bacteriophage T7 Revealed By Multi-State Atomic Models Derived From Cryo-EM Reconstructions
Method: single particle / : Guo F, Liu Z, Fang PA, Zhang Q, Wright ET, Wu W, Zhang C, Vago F, Ren Y, Jakata J, Chiu W, Serwer P, Jiang W

PDB-3j7x:
Capsid Expansion Mechanism Of Bacteriophage T7 Revealed By Multi-State Atomic Models Derived From Cryo-EM Reconstructions
Method: single particle / : Guo F, Liu Z, Fang PA, Zhang Q, Wright ET, Wu W, Zhang C, Vago F, Ren Y, Jakata J, Chiu W, Serwer P, Jiang W

PDB-4ckg:
Helical reconstruction of ACAP1(BAR-PH domain) decorated membrane tubules by cryo-electron microscopy
Method: helical / : Pang XY, Fan J, Zhang Y, Zhang K, Gao BQ, Ma J, Li J, Deng YC, Zhou QJ, Hsu V, Sun F

PDB-4ckh:
Helical reconstruction of ACAP1(BAR-PH domain) decorated membrane tubules by cryo-electron microscopy
Method: helical / : Pang XY, Fan J, Zhang Y, Zhang K, Gao BQ, Ma J, Li J, Deng YC, Zhou QJ, Hsu V, Sun F

PDB-4v8m:
High-resolution cryo-electron microscopy structure of the Trypanosoma brucei ribosome
Method: single particle / : Hashem Y, des Georges A, Fu J, Buss SN, Jossinet F, Jobe A, Zhang Q, Liao HY, Grassucci RA, Bajaj C, Westhof E, Madison-Antenucci S, Frank J

PDB-4csu:
Cryo-EM structures of the 50S ribosome subunit bound with ObgE
Method: single particle / : Feng B, Mandava CS, Guo Q, Wang J, Cao W, Li N, Zhang Y, Zhang Y, Wang Z, Wu J, Sanyal S, Lei J, Gao N

PDB-3j6c:
Cryo-EM structure of MAVS CARD filament
Method: helical / : Xu H, He X, Zheng H, Huang LJ, Hou F, Yu Z, de la Cruz MJ, Borkowski B, Zhang X, Chen ZJ, Jiang QX

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

PDB-3j40:
Validated Near-Atomic Resolution Structure of Bacteriophage Epsilon15 Derived from Cryo-EM and Modeling
Method: single particle / : Baker ML, Hryc CF, Zhang Q, Wu W, Jakana J, Haase-Pettingell C, Afonine PV, Adams PD, King JA, Jiang W, Chiu W

PDB-3j3v:
Atomic model of the immature 50S subunit from Bacillus subtilis (state I-a)
Method: single particle / : Li N, Guo Q, Zhang Y, Yuan Y, Ma C, Lei J, Gao N

PDB-3j3w:
Atomic model of the immature 50S subunit from Bacillus subtilis (state II-a)
Method: single particle / : Li N, Guo Q, Zhang Y, Yuan Y, Ma C, Lei J, Gao N

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-3j32:
An asymmetric unit map from electron cryo-microscopy of Haliotis diversicolor molluscan hemocyanin isoform 1 (HdH1)
Method: single particle / : Zhang Q, Dai X, Cong Y, Zhang J, Chen DH, Dougherty M, Wang J, Ludtke S, Schmid MF, Chiu W

PDB-3j27:
CryoEM structure of Dengue virus
Method: single particle / : Zhang X, Ge P, Yu X, Brannan JM, Bi G, Zhang Q, Schein S, Zhou ZH

PDB-3j2p:
CryoEM structure of Dengue virus envelope protein heterotetramer
Method: single particle / : Zhang X, Ge P, Yu X, Brannan JM, Bi G, Zhang Q, Schein S, Zhou ZH

PDB-2xd8:
Capsid structure of the infectious Prochlorococcus Cyanophage P-SSP7
Method: single particle / : Liu X, Zhang Q, Murata K, Baker ML, Sullivan MB, Fu C, Dougherty M, Schmid MF, Osburne MS, Chisholm SW, Chiu W

PDB-3iyl:
Atomic CryoEM Structure of a Nonenveloped Virus Suggests How Membrane Penetration Protein is Primed for Cell Entry
Method: single particle / : Zhang X, Jin L, Fang Q, Hui W, Zhou ZH

PDB-3k1q:
Backbone model of an aquareovirus virion by cryo-electron microscopy and bioinformatics
Method: single particle / : Cheng LP, Zhu J, Hiu WH, Zhang XK, Honig B, Fang Q, Zhou ZH

PDB-3ixv:
Scorpion Hemocyanin resting state pseudo atomic model built based on cryo-EM density map
Method: single particle / : Cong Y, Zhang Q, Woolford D, Schweikardt T, Khant H, Ludtke S, Chiu W, Decker H

PDB-3ixw:
Scorpion Hemocyanin activated state pseudo atomic model built based on cryo-EM density map
Method: single particle / : Cong Y, Zhang Q, Woolford D, Schweikardt T, Khant H, Ludtke S, Chiu W, Decker H

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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.
  • In this update, many items about electron microscopy experimental information are reorganized (e.g. em_software). Now, EM Navigator and Yorodumi are based on the updated data.

External links: wwPDB Remediation / Enriched Model Files Conforming to OneDep Data Standards Now Available in the PDB FTP Archive

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