EMDB Validation Analysis : EMD-31983

Validation summary

Resolution:
Method:
Map released:
Last modified:
Sample name:
4.2 Å (depositor provided) (FSC 0.143 CUT-OFF)
Single particle reconstruction
2021-09-29
2022-03-02
Machupo virus polymerase L in complex with matrix protein Z
Organism:
Fitted atomic model:
Machupo mammarenavirus
7vh1 (2 chains, 12943 atoms)

Model evaluation bars:

Model Metric Evaluation bar Average value
7vh1 Q-score
0.363

Additional validation information

Please find validation analyses used for peer review in the wwPDB validation reports for this entries map (EMD-31983) and model-map (7vh1 and EMD-31983). More extensive validation analysis of this entry is available in the EMDB Validation Analysis resource pages. 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:
0.025
180 × 180 × 180
1.600 × 1.600 × 1.600 Å
-0.083
0.154
0.000
0.004

Content

Primary map visualisation

Projections
Volume graphs
Download: EMDB Mask Learn more EMDB Raw Map Learn more Depositor Half Map 1 Depositor Half Map 2

Map and 1 fitted model

Map with model 7vh1 (Cryo-EM structure of Machupo virus dimeric L-Z complex)
Primary map with model views
Title
X projection

X

Y projection

Y

Z projection

Z

Map-model fit plots
Chain scores summary
Symmetry Information
  • Symmetry table
    • Symmetry type Symmetry fold Directional vector of symmetry axis
      X, Y, Z      		 Angle (degrees) Peak height
      Symmetry axis #1 C 2 +0.999, -0.02175, -0.03817 +180 +0.1336
  • 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 +2 +0.999, -0.02175, -0.03817 +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 2 +0.999, -0.02171, -0.03819 +180 +0.1311
      Alternative Symmetry #2 C 4 +0.9899, -0.09255, -0.04359 +90 +0.09021
      Alternative Symmetry #3 C 6 +0.9919, -0.05588, -0.106 +60 +0.0796
      Alternative Symmetry #4 C 8 +0.9916, -0.07755, -0.05955 +45 +0.06788
      Alternative Symmetry #5 C 3 +0.99, -0.08653, -0.1111 +120 +0.0531
      Alternative Symmetry #6 C 18 +0.9847, -0.09024, -0.1237 +20 +0.04616
      Alternative Symmetry #7 C 33 +0.9857, -0.09364, -0.1126 +10.91 +0.03937
      Alternative Symmetry #8 C 35 +0.9843, -0.09268, -0.1246 +10.29 +0.03763
      Alternative Symmetry #9 C 63 +0.9852, -0.09799, -0.1121 +5.714 +0.03575
      Alternative Symmetry #10 C 53 +0.9838, -0.09863, -0.1215 +6.792 +0.0352
      Alternative Symmetry #11 C 31 +0.983, -0.09767, -0.1314 +11.61 +0.03509
      Alternative Symmetry #12 C 51 +0.9834, -0.09935, -0.1242 +7.059 +0.0349
      Alternative Symmetry #13 C 39 +0.9858, -0.09663, -0.1073 +9.231 +0.03489
      Alternative Symmetry #14 C 49 +0.9847, -0.09501, -0.1172 +7.347 +0.03463
      Alternative Symmetry #15 C 32 +0.9853, -0.09536, -0.1135 +11.25 +0.03322
      Alternative Symmetry #16 C 61 +0.9852, -0.09597, -0.1144 +5.902 +0.03322
      Alternative Symmetry #17 C 58 +0.9835, -0.09955, -0.1242 +6.207 +0.03279
      Alternative Symmetry #18 C 47 +0.9853, -0.0941, -0.1158 +7.66 +0.0324
      Alternative Symmetry #19 C 52 +0.9826, -0.1027, -0.128 +6.923 +0.03161
      Alternative Symmetry #20 C 62 +0.9849, -0.09949, -0.1127 +5.806 +0.03152
      Alternative Symmetry #21 C 48 +0.9841, -0.09775, -0.1216 +7.5 +0.03135
      Alternative Symmetry #22 C 34 +0.9847, -0.09111, -0.1262 +10.59 +0.03131
      Alternative Symmetry #23 C 60 +0.986, -0.09512, -0.1029 +6 +0.03127
      Alternative Symmetry #24 C 46 +0.9851, -0.09229, -0.1121 +7.826 +0.03098
      Alternative Symmetry #25 C 38 +0.9846, -0.1003, -0.1138 +9.474 +0.02992
      Alternative Symmetry #26 C 59 +0.9854, -0.09311, -0.1146 +6.102 +0.02986
      Alternative Symmetry #27 C 4 +0.9729, -0.1561, -0.1547 +90 +0.02914