SPACI score report for 1ya4 in ASTRAL 2.06:

PDB Entry: 1ya4
SPACI score: 0.22
AEROSPACI score: 0.22

Experiment type: XRAY
Resolution: 3.2
R-factor: 0.203
PCK1 PROCHECK Ramachandran: 1
PCK2 PROCHECK Chi-1 angle: 2
PCK3 PROCHECK H-bonds: 2
WCK1 WHAT_CHECK Packing: -2.105
WCK2 WHAT_CHECK Ramachandran: -3.711
WCK3 WHAT_CHECK Chi angles: -2.262
WCK4 WHAT_CHECK Backbone: 1.924

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).