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- EMDB-8529: MalFGK2 ADP -

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Basic information

Entry
Database: EMDB / ID: 8529
TitleMalFGK2 ADP
SampleMalFGK2 ADP
SourceEscherichia coli / bacteria / エシェリキア・コリ, 大腸菌 /
Map dataMalFGK2 ADP
Methodsingle particle reconstruction, at 22.3 Å resolution
AuthorsFabre L / Bao H / Innes J / Duong F / Rouiller I
CitationJ. Biol. Chem., 2017, 292, 5457-5464

J. Biol. Chem., 2017, 292, 5457-5464 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 21, 2016 / Header (metadata) release: Jan 11, 2017 / Map release: Mar 1, 2017 / Last update: Apr 12, 2017

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.014
  • Imaged by UCSF CHIMERA
  • Download
  • Surface view colored by height
  • Surface level: 0.014
  • Imaged by UCSF CHIMERA
  • Download
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Supplemental images

Downloads & links

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Map

Fileemd_8529.map.gz (map file in CCP4 format, 6913 KB)
Projections & slices

Image control

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

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider package.

Voxel sizeX=Y=Z: 2.23 Å
Density
Contour Level:0.0138 (by author), 0.014 (movie #1):
Minimum - Maximum-0.030927107 - 0.057332724
Average (Standard dev.)-0.0002866001 (0.004445707)
Details

EMDB XML:

Space Group Number1
Map Geometry
Axis orderXYZ
Dimensions120120120
Origin000
Limit119119119
Spacing120120120
CellA=B=C: 267.6 Å
α=β=γ: 90 deg.

CCP4 map header:

modeImage stored as Reals
Å/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
α/β/γ90.00090.00090.000
start NX/NY/NZ-152-37
NX/NY/NZ998271
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS120120120
D min/max/mean-0.0310.057-0.000

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Supplemental data

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Sample components

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Entire MalFGK2 ADP

EntireName: MalFGK2 ADP / Details: Maltose Transporter MalFGK2 in complex with ADP / Number of components: 1

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Component #1: protein, MalFGK2 ADP

ProteinName: MalFGK2 ADP / Details: Maltose Transporter MalFGK2 in complex with ADP / 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

Experimental equipment
Model: Tecnai F20 / Image courtesy: FEI Company
ImagingMicroscope: FEI TECNAI F20
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 200 kV / Electron dose: 20 e/Å2 / 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: 6382
3D reconstructionSoftware: RELION / Resolution: 22.3 Å / Resolution method: FSC 0.5 CUT-OFF

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