EMD-37132 Validation analysis

EMD-37132 › Validation analysis

To see the Validation Analysis results for a different EMDB
entry, please enter the EMDB or PDB accession code
(e.g., 8117 or 5irx):

Structure of LAT1-CD98hc-Fab170 in complex with JPH203, consensus map

Validation summary

Resolution:

Method:

Map released:

Last modified:

Sample name:

3.83 Å (depositor provided) (FSC 0.143 CUT-OFF)

Single particle reconstruction

2025-02-12

LAT1-CD98hc-Fab170

Organism:

Fitted atomic model:

Homo sapiens, Mus musculus

8kdd (4 chains, 10458 atoms)

Model evaluation bars:

Model	Metric	Average value
8kdd	Q-score	0.432
	Atom Inclusion	0.622
	CCC	0.795
	SMOC	0.789

Additional validation information

Please find validation analyses used for peer review in the wwPDB validation reports for this entries map (EMD-37132) and model-map (8kdd and EMD-37132). 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:

0.04

136 × 136 × 136

1.534 × 1.534 × 1.534 Å

-0.208

0.311

0.001

0.008

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	4.09	3.77	3.77	3.80
FSC 0.5	4.54	4.21	4.21	4.22
FSC half-bit	4.16	3.85	3.85	3.86