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- PDB-5nbz: Wzz dodecamer fitted by MDFF to the Wzz experimental map from cryo-EM -

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Basic information

Entry
Database: PDB / ID: 5nbz
TitleWzz dodecamer fitted by MDFF to the Wzz experimental map from cryo-EM
DescriptorWzzB
KeywordsMEMBRANE PROTEIN / Wzz Polysaccharide Chain Length membrane protein Cryo-electron microscopy Single particle analysis / Membrane protein
Specimen sourceStaphylococcus aureus / bacteria / スタフィロコッカス・アウレウス, 黄色ブドウ球菌
MethodElectron microscopy (9 A resolution / Single particle)
AuthorsFord, R.C. / Kargas, V. / Collins, R.F. / Whitfield, C. / Clarke, B.R. / Siebert, A. / Bond, P.J. / Clare, D.K.
CitationStructure, 2017, 25, 806-815.e3

Structure, 2017, 25, 806-815.e3 StrPapers
Full-length, Oligomeric Structure of Wzz Determined by Cryoelectron Microscopy Reveals Insights into Membrane-Bound States.
Richard F Collins / Vasileios Kargas / Brad R Clarke / C Alistair Siebert / Daniel K Clare / Peter J Bond / Chris Whitfield / Robert C Ford

DateDeposition: Mar 2, 2017 / Release: Apr 5, 2017 / Last modification: Jun 28, 2017

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Assembly

Deposited unit
A: WzzB
B: WzzB
C: WzzB
D: WzzB
E: WzzB
F: WzzB
G: WzzB
H: WzzB
I: WzzB
J: WzzB
K: WzzB
L: WzzB


Theoretical massNumber of molelcules
Total (without water)321,12212
Polyers321,12212
Non-polymers00
Water0
#1


TypeNameSymmetry operationNumber
identity operation1_5551
Buried area (A2)41770
ΔGint (kcal/M)-125
Surface area (A2)142600
MethodPISA

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Components

#1: Polypeptide(L)
WzzB


Mass: 26760.129 Da / Num. of mol.: 12
Source: (gene. exp.) Staphylococcus aureus / bacteria / スタフィロコッカス・アウレウス, 黄色ブドウ球菌

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentReconstruction method: SINGLE PARTICLE

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Sample preparation

ComponentName: Dodecameric complex / Type: COMPLEX
Buffer solutionDetails: 20mM Tris pH 7.5, 150mM NaCl, 0.025% dodecyl maltoside.
Specimen supportGrid material: GOLD / Grid mesh size: 400 / Grid type: Quantifoil R1.2/1.3
VitrificationInstrument: FEI VITROBOT MARK III / Cryogen name: ETHANE / Humidity: 95 % / Details: 1 x 4sec blot

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyMicroscope model: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELD
Specimen holderSpecimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER

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Processing

3D reconstructionResolution: 9 / Resolution method: OTHER / Number of particles: 22000 / Details: ResMap
Atomic model buildingRef protocol: FLEXIBLE FIT / Ref space: REAL
Atomic model buildingPDB-ID: 4E29 / Pdb chain id: A

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