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- PDB-3c9v: C7 Symmetrized Structure of Unliganded GroEL at 4.7 Angstrom Reso... -

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Basic information

Entry
Database: PDB / ID: 3c9v
TitleC7 Symmetrized Structure of Unliganded GroEL at 4.7 Angstrom Resolution from CryoEM
Descriptor60 kDa chaperonin
KeywordsCHAPERONE / GroEL / ATP-binding / Cell cycle / Cell division / Chaperone / Nucleotide-binding / Phosphoprotein
Specimen sourceEscherichia coli / bacteria / エシェリキア・コリ, 大腸菌 /
MethodElectron microscopy (4.7 A resolution)
AuthorsLudtke, S.J. / Baker, M.L. / Chen, D.H. / Song, J.L. / Chuang, D. / Chiu, W.
CitationStructure, 2008, 16, 441-448

Structure, 2008, 16, 441-448 StrPapers
De novo backbone trace of GroEL from single particle electron cryomicroscopy.
Steven J Ludtke / Matthew L Baker / Dong-Hua Chen / Jiu-Li Song / David T Chuang / Wah Chiu

DateDeposition: Feb 18, 2008 / Release: Sep 2, 2008 / Last modification: Jul 1, 2015

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Assembly

Deposited unit
A: 60 kDa chaperonin
B: 60 kDa chaperonin
C: 60 kDa chaperonin
D: 60 kDa chaperonin
E: 60 kDa chaperonin
F: 60 kDa chaperonin
G: 60 kDa chaperonin
H: 60 kDa chaperonin
I: 60 kDa chaperonin
J: 60 kDa chaperonin
K: 60 kDa chaperonin
L: 60 kDa chaperonin
M: 60 kDa chaperonin
N: 60 kDa chaperonin


Theoretical massNumber of molelcules
Total (without water)776,49514
Polyers776,49514
Non-polymers00
Water0
#1


TypeNameSymmetry operationNumber
identity operation1_555x,y,z1

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Components

#1: Polypeptide(L)
60 kDa chaperonin / Protein Cpn60 / groEL protein


Mass: 55463.934 Da / Num. of mol.: 14 / Fragment: residues 2-527
Source: (gene. exp.) Escherichia coli / bacteria / エシェリキア・コリ, 大腸菌 /
References: UniProt: P0A6F5

Cellular component

Molecular function

Biological process

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY

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Sample preparation

Assembly of specimenName: GroEL / Aggregation state: PARTICLE
ComponentName: GroEL / Details: 14-mer. Two back to back homo-heptameric rings.
Buffer solutionName: 20 mM Tris.HCl, pH 7.5, 50 mM MgCl2
Sample preparationpH: 7.5
VitrificationDetails: ETHANE. Vitrobot, blot for 2 sec.

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Electron microscopy imaging

MicroscopyMicroscope model: JEOL 3200SFF / Date: 2005
Electron gunElectron source: Field Emission Gun / Accelerating voltage: 300 kV / Electron dose: 36 e/A2 / Illumination mode: Flood Beam
Electron lensMode: Bright Field / Nominal magnification: 60000 X / Nominal defocus max: 2300 nm / Nominal defocus min: 900 nm / Cs: 1.6 mm
Specimen holderTemperature: 4 K / Tilt angle max: 0 deg. / Tilt angle min: 0 deg.
CameraType: Kodak SO163 film
RadiationDiffraction protocol: SINGLE WAVELENGTH / Monochromatic or laue m l: M / Scattering type: x-ray
Radiation wavelengthRelative weight: 1

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Processing

3D reconstructionMethod: EMAN, single particle / Resolution: 4.7 A / Nominal pixel size: 1.06 A/pix / CTF correction method: per micrograph / Details: C7 symmetry, This entry contains CA atom only
Number of atoms included #LASTProtein: 7364 / Nucleic acid: 0 / Ligand: 0 / Solvent: 0 / Total: 7364

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