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- EMDB-30137: N-teminal of mature bacteriophage T7 tail fiber protein gp17 -

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Basic information

Entry
Database: EMDB / ID: EMD-30137
TitleN-teminal of mature bacteriophage T7 tail fiber protein gp17
Map data
SampleN-teminal of mature bacteriophage T7 tail fiber protein gp17
Function / homology
Function and homology information


virus tail, fiber / adhesion receptor-mediated virion attachment to host cell / viral entry into host cell / virion attachment to host cell / identical protein binding
Similarity search - Function
Tail fibre protein gp37 C terminal / Bacteriophage T7, Gp17, C-terminal / Bacteriophage T7 tail fibre protein / Phage T7 tail fibre protein
Similarity search - Domain/homology
Biological speciesEscherichia phage T7 (bacteriophage)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.8 Å
AuthorsChen WY / Xiao H
Funding support1 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)
CitationJournal: Protein Cell / Year: 2020
Title: Structural changes of a bacteriophage upon DNA packaging and maturation.
Authors: Wenyuan Chen / Hao Xiao / Xurong Wang / Shuanglin Song / Zhen Han / Xiaowu Li / Fan Yang / Li Wang / Jingdong Song / Hongrong Liu / Lingpeng Cheng /
History
DepositionMar 20, 2020-
Header (metadata) releaseMar 17, 2021-
Map releaseMar 17, 2021-
UpdateMar 17, 2021-
Current statusMar 17, 2021Processing site: PDBj / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 7
  • Imaged by UCSF Chimera
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  • Surface view colored by cylindrical radius
  • Surface level: 7
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: PDB-7boz
  • Surface level: 7
  • Imaged by UCSF Chimera
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  • Simplified surface model + fitted atomic model
  • Atomic modelsPDB-7boz
  • Imaged by Jmol
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Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

Downloads & links

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Map

FileDownload / File: emd_30137.map.gz / Format: CCP4 / Size: 166.4 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.27 Å/pix.
x 352 pix.
= 447.04 Å
1.27 Å/pix.
x 352 pix.
= 447.04 Å
1.27 Å/pix.
x 352 pix.
= 447.04 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.27 Å
Density
Contour LevelBy AUTHOR: 7.0 / Movie #1: 7
Minimum - Maximum-14.838167 - 27.53207
Average (Standard dev.)-0.31891695 (±0.9940423)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions352352352
Spacing352352352
CellA=B=C: 447.03998 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.271.271.27
M x/y/z352352352
origin x/y/z0.0000.0000.000
length x/y/z447.040447.040447.040
α/β/γ90.00090.00090.000
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS352352352
D min/max/mean-14.83827.532-0.319

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Supplemental data

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Sample components

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Entire N-teminal of mature bacteriophage T7 tail fiber protein gp17

EntireName: N-teminal of mature bacteriophage T7 tail fiber protein gp17
Number of components: 2

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Component #1: protein, N-teminal of mature bacteriophage T7 tail fiber protein gp17

ProteinName: N-teminal of mature bacteriophage T7 tail fiber protein gp17
Recombinant expression: No
SourceSpecies: Escherichia phage T7 (bacteriophage)

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Component #2: protein, N-teminal of mature bacteriophage T7 tail fiber protein gp17

ProteinName: N-teminal of mature bacteriophage T7 tail fiber protein gp17
Number of Copies: 18 / Recombinant expression: No
MassTheoretical: 61.641875 kDa
SourceSpecies: Escherichia phage T7 (bacteriophage)
Source (engineered)Expression System: Escherichia coli BL21 (bacteria)

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Experimental details

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Sample preparation

SpecimenSpecimen state: Particle / Method: cryo EM
Sample solutionpH: 7
VitrificationCryogen name: NITROGEN

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Electron microscopy imaging

Experimental equipment
Model: Talos Arctica / Image courtesy: FEI Company
ImagingMicroscope: FEI TECNAI ARCTICA
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 200 kV / Electron dose: 24 e/Å2 / Illumination mode: FLOOD BEAM
LensImaging mode: BRIGHT FIELD
Specimen HolderModel: OTHER
CameraDetector: FEI FALCON II (4k x 4k)

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Image processing

ProcessingMethod: single particle reconstruction / Number of projections: 55212
3D reconstructionResolution: 3.8 Å / Resolution method: FSC 0.143 CUT-OFF

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Atomic model buiding

Output model

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