SPACI score report for 5lyt in ASTRAL 1.75:

PDB Entry: 5lyt
SPACI score: 0.46
AEROSPACI score: 0.46

Experiment type: XRAY
Resolution: 1.9
R-factor: 0.176
PCK1 PROCHECK Ramachandran: 1
PCK2 PROCHECK Chi-1 angle: 2
PCK3 PROCHECK H-bonds: 3
WCK1 WHAT_CHECK Packing: -2.056
WCK2 WHAT_CHECK Ramachandran: -4.595
WCK3 WHAT_CHECK Chi angles: -3.871
WCK4 WHAT_CHECK Backbone: -1.374

Note: Here are links to pages about PROCHECK and WHAT_CHECK.

Here is the full WHAT_CHECK report on this protein (linked from the WHAT_CHECK site).