/usr/share/avogadro/builder/amino/l-ser.zmat is in avogadro-data 1.0.3-5.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 | N 0.000000 0.000000 0.000000 0 0 0 -0.242989 N
C 1.461241 0.000000 0.000000 1 0 0 0.110570 CA
C 1.538860 107.132158 0.000000 2 1 0 0.220016 C
O 1.230365 123.132914 358.745512 3 2 1 -0.287123 O
H 1.097270 108.262001 115.987612 2 1 3 0.057995 HA
C 1.534550 112.587886 238.350872 2 1 3 0.068103 CB
H 1.093821 110.956057 308.840453 6 2 1 0.057743 1HB
H 1.096502 111.146269 69.137346 6 2 1 0.057743 2HB
O 1.432672 110.965390 189.337350 6 2 1 -0.392982 OG
H 0.975351 106.214433 165.155840 9 6 2 0.209479 HG
H 1.017157 116.682867 2.654999 1 2 3 0.141446 H
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