/usr/share/avogadro/builder/amino/l-met.zmat is in avogadro-data 1.2.0-3.
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 12 13 14 15 16 17 | N 0.000000 0.000000 0.000000 0 0 0 -0.245259 N
C 1.458667 0.000000 0.000000 1 0 0 0.088400 CA
C 1.537285 106.456466 0.000000 2 1 0 0.217740 C
O 1.229291 123.240722 331.160976 3 2 1 -0.287208 O
C 1.534858 110.556794 238.740009 2 1 3 -0.019936 CB
C 1.527386 112.470034 194.845315 5 2 1 -0.004715 CG
S 1.821874 110.020147 177.393266 6 5 2 -0.164064 SD
C 1.808517 98.714649 183.977616 7 6 5 -0.018102 CE
H 1.096512 108.155767 117.316041 2 1 3 0.055716 HA
H 1.098626 109.550569 72.152354 5 2 1 0.029282 HB1
H 1.098198 108.957455 315.824362 5 2 1 0.029282 HB2
H 1.094970 110.087862 57.408726 6 5 2 0.037679 HG1
H 1.092832 111.018828 296.837739 6 5 2 0.037679 HG2
H 1.093058 110.411489 300.091797 8 7 6 0.034049 HE1
H 1.093196 109.248884 180.771866 8 7 6 0.034049 HE2
H 1.093101 110.340073 61.538008 8 7 6 0.034049 HE3
H 1.016213 117.484311 29.501931 1 2 3 0.141360 H
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