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- EMDB-8524: MalFGK2 Apo -

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Basic information

Entry
Database: EMDB / ID: 8524
TitleMalFGK2 Apo
SampleMaltose transporter MalFGK2
SourceEscherichia coli / bacteria / エシェリキア・コリ, 大腸菌 /
Map dataMalFGK2 Apo
Methodsingle particle reconstruction, at 18.8 A resolution
AuthorsFabre L / Bao H / Innes J / Duong F / Rouiller I
CitationJ. Biol. Chem., 2017

J. Biol. Chem., 2017 StrPapers
Negative-stain single particle EM of the maltose transporter in nanodiscs reveals asymmetric closure of MalK2 and catalytic roles of ATP, MalE and maltose.
Lucien Fabre / Huan Bao / James Innes / Franck Duong / Isabelle Rouiller

DateDeposition: Dec 20, 2016 / Header (metadata) release: Jan 11, 2017 / Map release: Mar 1, 2017 / Last update: Dec 20, 2016

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.017
  • Imaged by UCSF CHIMERA
  • Download
  • Surface view colored by height
  • Surface level: 0.017
  • Imaged by UCSF CHIMERA
  • Download
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Supplemental images

Downloads & links

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Map

Fileemd_8524.map.gz (map file in CCP4 format, 6913 KB)
Projections & slices

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AxesZ (Sec.)Y (Row.)X (Col.)
120 pix
2.23 A/pix
= 267.6 A
120 pix
2.23 A/pix
= 267.6 A
120 pix
2.23 A/pix
= 267.6 A

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider package.

Voxel sizeX=Y=Z: 2.23 A
Density
Contour Level:0.0214 (by emdb), 0.017 (movie #1):
Minimum - Maximum-0.03528005 - 0.06798705
Average (Standard dev.)0.00013229462 (0.005542413)
Details

EMDB XML:

Space Group Number1
Map Geometry
Axis orderXYZ
Dimensions120120120
Origin000
Limit119119119
Spacing120120120
CellA=B=C: 267.6 A
Alpha=beta=gamma: 90 deg.

CCP4 map header:

modeImage stored as Reals
A/pix X/Y/Z2.232.232.23
M x/y/z120120120
origin x/y/z0.0000.0000.000
length x/y/z267.600267.600267.600
alpha/beta/gamma90.00090.00090.000
start NX/NY/NZ
NX/NY/NZ
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS120120120
D min/max/mean-0.0350.0680.000

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Supplemental data

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Sample components

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Entire Maltose transporter MalFGK2

EntireName: Maltose transporter MalFGK2 / Details: Reconstituted in Nanodiscs / Number of components: 1

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Component #1: protein, Maltose transporter MalFGK2

ProteinName: Maltose transporter MalFGK2 / Details: Reconstituted in Nanodiscs / Recombinant expression: No
SourceSpecies: Escherichia coli / bacteria / エシェリキア・コリ, 大腸菌 /
Source (engineered)Expression System: Escherichia coli 'bl21-gold(de3)plyss ag' / bacteria / image: Escherichia coli
Vector: pBAD22-FGK

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Experimental details

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Sample preparation

Specimen stateparticle
Sample solutionSpecimen conc.: 0.05 mg/ml / pH: 8
StainingFreshly prepared 1.5% uranyl formate (pH 5)
VitrificationCryogen name: NONE

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Electron microscopy imaging

ImagingMicroscope: FEI TECNAI F20
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 200 kV / Electron dose: 20 e/A2 / Illumination mode: FLOOD BEAM
LensMagnification: 134010 X (calibrated) / Imaging mode: BRIGHT FIELD / Defocus: 700 - 1400 nm
Specimen HolderModel: SIDE ENTRY, EUCENTRIC
CameraDetector: GATAN ULTRASCAN 4000 (4k x 4k)

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Image processing

ProcessingMethod: single particle reconstruction / Applied symmetry: C1 (asymmetric) / Number of projections: 12987
3D reconstructionSoftware: RELION / Resolution: 18.8 A / Resolution method: FSC 0.5 CUT-OFF

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