PDB-4a0v: model refined against the Symmetry-free cryo-EM map of ...

Entry
Summary
Database / ID	PORTEIN DATA BANK (PDB) / 4a0v
Title	model refined against the Symmetry-free cryo-EM map of TRiC-AMP-PNP
Descriptor	T-COMPLEX PROTEIN 1 SUBUNIT BETA
Keywords	CHAPERONE, CHAPERONIN, PROTEIN FOLDING
Authors	Cong, Y., Schroder, G.F., Meyer, A.S., Jakana, J., Ma, B., Dougherty, M.T., Schmid, M.F., Reissmann, S., Levitt, M., Ludtke, S.L., Frydman, J., Chiu, W.
Date	Deposition: 2011-09-13, Release: 2012-02-15
PDBj Mine pages	Summary, Structural Details, Experimental Details, Functional Details
Other databases	RCSB-PDB, PDBe, CATH, CE, FSSP, SCOP, VAST
Structure Visualization
Movies	Movie Page #1: Depositted structure unit, Made by Jmol #2: Superimposing with EM 3D map: EMDB-1961, Made by UCSF CHIMERA
Structure viewers	Yorodumi, jV4, Jmol, Biological unit (Images, jV)
Related Structure Data
Related Entries	EMDB-1961 CiteFit EMDB-1960 Cite EMDB-1962 Cite EMDB-1963 Cite PDB-4a0o Cite PDB-4a0w Cite PDB-4a13 Cite Cite: data citing same article Fit: target map of fitting
Similar strucutres (beta)	Diagram EMDB-1961 PDB-4a0o PDB-4a13 PDB-3j02 EMDB-1962 List of similar structure data about Omokage system

Article
Citation - primary
Article	EMBO J., Vol. 31, Issue 3, Page 720-30, Year 2012
Title	Symmetry-free cryo-EM structures of the chaperonin TRiC along its ATPase-driven conformational cycle.
Authors	Yao Cong, Gunnar F Schröder, Anne S Meyer, Joanita Jakana, Boxue Ma, Matthew T Dougherty, Michael F Schmid, Stefanie Reissmann, Michael Levitt, Steven L Ludtke, Judith Frydman, Wah Chiu Verna and Marrs McLean Department of Biochemistry and Molecular Biology, National Center for Macromolecular Imaging, Baylor College of Medicine, Houston, TX 77030, USA.
Keywords	Adenosine Triphosphatases (metabolism, 3.6.1.-), Chaperonins (chemistry, 3.6.1.-), Cryoelectron Microscopy, Hydrolysis, Models, Molecular, Protein Conformation, Protein Folding
Links	DOI: 10.1038/emboj.2011.366, PubMed: 22045336, PMC: PMC3273382

Components
ID 1 : TCP-1-BETA, CCT-BETA, BOVINE TRIC
Image
Description	T-COMPLEX PROTEIN 1 SUBUNIT BETA
Type	polymer
Formula weight	55107.824 Da
Number of molecules	16
Source	Method: Isolated from a natural source Common name: CATTLE NCBI taxonomy: ID:9913 Organ: TESTES Organism scientific: BOS TAURUS
Links	UniProt: Q3ZBH0, Sequence view

Sample
Assembly
Aggregation state	PARTICLE
Name	BOVINE TRIC IN THE AMP- PNP STATE
Experiment
Reconstruction method	SINGLE PARTICLE
Specimen type	VITREOUS ICE
Sample support
Details	HOLEY CARBON

Processing
2D projection selection
Number of particles	29374
Software name	EMAN1.8
Single particle entity
Symmetry type	MIXED SYMMETRY
3D reconstruction
Actual pixel size	2.4 A/pix
CTF correction method	EACH MICROGRAPH
Details	OUR MODELS DO NOT INCLUDE SOME REGIONS OF THE APICAL DOMAIN IN SEVERAL SUBUNITS BECAUSE THE MAP IN THOSE REGIONS WAS NOT VERY WELL RESOLVED DUE TO THE DYNAMIC NATURE OF THOSE SUBUNITS. SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD- 1961. (DEPOSITION ID: 10236).
Method	PROJECTION MATCHING
Nominal pixel size	2.4 A/pix
Resolution	10.7 A
Refine
Ls d res high	10.70 A
ID	1
Refine hist
D res high	10.70
Total atoms	59707
Protein atoms	59707