EMDB Validation Analysis : EMD-19442

EMD-19442 › Validation analysis

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Structure of the complete Vaccinia DNA-dependent RNA polymerase complex at 2.65A resolution

Validation summary

Resolution:
Method:
Map released:
Last modified:
Sample name:
2.65 Å (depositor provided) (FSC 0.143 CUT-OFF)
Single particle reconstruction
2025-01-29
2025-01-29
complete Vaccinia DNA-dependent RNA polymerase complex
Organism:
Fitted atomic model:
Vaccinia virus
8rqk (None chains, None atoms)

Model evaluation bars:

Model Metric Evaluation bar Average value
8rqk Q-score
Q-score bar not available
-
Atom Inclusion
Atom inclusion bar not available
-
CCC
None
SMOC
SMOC bar not available
-

Additional validation information

Please find validation analyses used for peer review in the wwPDB validation reports for this entries map (EMD-19442) and model-map (8rqk and EMD-19442). Validation analysis of this entry is available in the main page. Documentation for the outputs of EMDB Validation Analysis can be found on the help page.

Map parameters

Recommended contour level:
Number of grid points:
Voxel size:
Minimum value:
Maximum value:
Average value:
Standard deviation:
0.3
360 × 360 × 360
1.063 × 1.063 × 1.063 Å
-0.338
1.650
-0.003
0.070
Image not available

Primary map visualisation

Projections

Raw map visualisation (Raw map calculated from deposited two half-maps)

Volume graphs
Download: EMDB Mask Learn more EMDB Raw Map Learn more Depositor Half Map 1 Depositor Half Map 2
Map resolution (Å) measured by Fourier Shell Correlation (FSC)
EMDB calculated FSC Author FSC
Threshold Unmasked Masked Corrected Author
FSC 0.143 41.67 41.32 41.67 -
FSC 0.5 85.47 83.33 85.47 -
FSC half-bit 68.03 68.49 68.03 -

Map and 1 fitted model

Map with model 8rqk (Structure of the complete Vaccinia DNA-dependent RNA polymerase complex at 2.65A resolution)
Primary map with model views
Title
X projection

X

Y projection

Y

Z projection

Z

Map-model fit plots
Chain scores summary
Strudel Information
Chain:
Score range:

EMDB generated mask(s)

FSC mask with raw map
Title
X projection

X

Y projection

Y

Z projection

Z

Symmetry Information
  • Symmetry table
    • Symmetry type Symmetry fold Directional vector of symmetry axis
      X, Y, Z      		 Angle (degrees) Peak height
      Symmetry axis #1 C 3 +0.1239, -0.03759, +0.9916 +120 +0.06261
      Symmetry axis #2 C 2 -0.3369, +0.9415, -0.01225 +180 +0.05145
  • Symmetry element table
    • Symmetry element type Symmetry element fold Directional vector of symmetry axis
      X, Y, Z      		 Angle (degrees)
      Symmetry element #1 E 1 +1, +0, +0 +0
      Symmetry element #2 C 3 +0.1239, -0.03759, +0.9916 -120
      Symmetry element #3 C 3 +0.1239, -0.03759, +0.9916 +120
      Symmetry element #4 C 2 -0.3369, +0.9415, -0.01225 +180
  • Alternative symmetry information
    • Symmetry element type Symmetry element fold Directional vector of symmetry axis
      X, Y, Z      		 Angle (degrees) Peak Height
      Alternative Symmetry #1 C 3 +0.1239, -0.03759, +0.9916 +120 +0.06261
      Alternative Symmetry #2 C 2 -0.3369, +0.9415, -0.01225 +180 +0.05145
      Alternative Symmetry #3 D 3 +0.1239, -0.03759, +0.9916 +120 +0.06261