SPACI score report for 1yd2 in ASTRAL 2.07:

PDB Entry: 1yd2
SPACI score: 0.63
AEROSPACI score: 0.63

Experiment type: XRAY
Resolution: 1.6
R-factor: 0.176
PCK1 PROCHECK Ramachandran: 1
PCK2 PROCHECK Chi-1 angle: 1
PCK3 PROCHECK H-bonds: 1
WCK1 WHAT_CHECK Packing: -1.245
WCK2 WHAT_CHECK Ramachandran: -0.366
WCK3 WHAT_CHECK Chi angles: 3.001
WCK4 WHAT_CHECK Backbone: 4.034

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).