/usr/share/gromacs/top/amber03.ff/aminoacids.hdb is in gromacs-data 2018.1-1.
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2 7 HW OW
HO4 1
3 10 HW OW
ACE 1
3 4 HH3 CH3 C O
NME 2
1 1 H N -C CH3
3 4 HH3 CH3 N -C
NHE 1
2 3 H N -C -CA
NH2 1
2 3 H N -C -CA
ALA 3
1 1 H N -C CA
1 5 HA CA N CB C
3 4 HB CB CA N
GLY 2
1 1 H N -C CA
2 6 HA CA N C
SER 4
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA OG
1 2 HG OG CB CA
THR 5
1 1 H N -C CA
1 5 HA CA N CB C
1 5 HB CB CA CG2 OG1
3 4 HG2 CG2 CB CA
1 2 HG1 OG1 CB CA
LEU 6
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 5 HG CG CB CD1 CD2
3 4 HD1 CD1 CG CB
3 4 HD2 CD2 CG CB
ILE 6
1 1 H N -C CA
1 5 HA CA N CB C
1 5 HB CB CA CG2 CG1
3 4 HG2 CG2 CB CA
2 6 HG1 CG1 CB CD
3 4 HD CD CG1 CB
VAL 5
1 1 H N -C CA
1 5 HA CA N CB C
1 5 HB CB CA CG1 CG2
3 4 HG1 CG1 CB CA
3 4 HG2 CG2 CB CA
ASN 4
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 3 HD2 ND2 CG CB
GLN 5
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB CD
2 3 HE2 NE2 CD CG
ARG 8
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB CD
2 6 HD CD CG NE
1 1 HE NE CD CZ
2 3 HH1 NH1 CZ NE
2 3 HH2 NH2 CZ NE
HID 6
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HD1 ND1 CG CE1
1 1 HE1 CE1 ND1 NE2
1 1 HD2 CD2 CG NE2
HIE 6
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HE1 CE1 ND1 NE2
1 1 HE2 NE2 CE1 CD2
1 1 HD2 CD2 CG NE2
HIP 7
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HD1 ND1 CG CE1
1 1 HE1 CE1 ND1 NE2
1 1 HE2 NE2 CE1 CD2
1 1 HD2 CD2 CG NE2
TRP 9
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HD1 CD1 CG NE1
1 1 HE1 NE1 CD1 CE2
1 1 HZ2 CZ2 CE2 CH2
1 1 HH2 CH2 CZ2 CZ3
1 1 HZ3 CZ3 CH2 CE3
1 1 HE3 CE3 CZ3 CD2
PHE 8
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HD1 CD1 CG CE1
1 1 HE1 CE1 CD1 CZ
1 1 HZ CZ CE1 CE2
1 1 HE2 CE2 CZ CD2
1 1 HD2 CD2 CG CE2
TYR 8
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HD1 CD1 CG CE1
1 1 HE1 CE1 CD1 CZ
1 2 HH OH CZ CE1
1 1 HE2 CE2 CZ CD2
1 1 HD2 CD2 CG CE2
GLU 4
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB CD
ASP 3
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
LYS 7
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB CD
2 6 HD CD CG CE
2 6 HE CE CD NZ
3 4 HZ NZ CE CD
ORN 6
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB CD
2 6 HD CD CG NE
3 4 HE NE CD CG
DAB 5
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB ND
3 4 HD ND CG CB
LYN 7
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB CD
2 6 HD CD CG CE
2 6 HE CE CD NZ
2 3 HZ NZ CE CD
PRO 4
2 6 HD CD N CG
2 6 HG CG CD CB
2 6 HB CB CG CA
1 5 HA CA N CB C
HYP 5
2 6 HD2 CD2 N CG
1 5 HG CG CD2 OD1 CB
1 2 HD1 OD1 CG CD2
2 6 HB CB CG CA
1 5 HA CA N CB C
CYS 4
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA SG
1 2 HG SG CB CA
CYM 3
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA SG
CYX 3
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA SG
CYS2 3
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA SG
MET 5
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB SD
3 4 HE CE SD CG
ASH 4
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 2 HD2 OD2 CG CB
GLH 5
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB CD
1 2 HE2 OE2 CD CG
CALA 4
1 1 H N -C CA
1 5 HA CA N CB C
3 4 HB CB CA N
1 1 OC1 C CA OC2
CGLY 3
1 1 H N -C CA
2 6 HA CA N C
1 1 OC1 C CA OC2
CSER 5
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA OG
1 2 HG OG CB CA
1 1 OC1 C CA OC2
CTHR 6
1 1 H N -C CA
1 5 HA CA N CB C
1 5 HB CB CA CG2 OG1
3 4 HG2 CG2 CB CA
1 2 HG1 OG1 CB CA
1 1 OC1 C CA OC2
CLEU 7
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 5 HG CG CB CD1 CD2
3 4 HD1 CD1 CG CB
3 4 HD2 CD2 CG CB
1 1 OC1 C CA OC2
CILE 7
1 1 H N -C CA
1 5 HA CA N CB C
1 5 HB CB CA CG2 CG1
3 4 HG2 CG2 CB CA
2 6 HG1 CG1 CB CD
3 4 HD CD CG1 CB
1 1 OC1 C CA OC2
CVAL 6
1 1 H N -C CA
1 5 HA CA N CB C
1 5 HB CB CA CG1 CG2
3 4 HG1 CG1 CB CA
3 4 HG2 CG2 CB CA
1 1 OC1 C CA OC2
CASN 5
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 3 HD2 ND2 CG CB
1 1 OC1 C CA OC2
CGLN 6
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB CD
2 3 HE2 NE2 CD CG
1 1 OC1 C CA OC2
CARG 9
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB CD
2 6 HD CD CG NE
1 1 HE NE CD CZ
2 3 HH1 NH1 CZ NE
2 3 HH2 NH2 CZ NE
1 1 OC1 C CA OC2
CHID 7
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HD1 ND1 CG CE1
1 1 HE1 CE1 ND1 NE2
1 1 HD2 CD2 CG NE2
1 1 OC1 C CA OC2
CHIE 7
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HE1 CE1 ND1 NE2
1 1 HE2 NE2 CE1 CD2
1 1 HD2 CD2 CG NE2
1 1 OC1 C CA OC2
CHIP 8
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HD1 ND1 CG CE1
1 1 HE1 CE1 ND1 NE2
1 1 HE2 NE2 CE1 CD2
1 1 HD2 CD2 CG NE2
1 1 OC1 C CA OC2
CTRP 10
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HD1 CD1 CG NE1
1 1 HE1 NE1 CD1 CE2
1 1 HZ2 CZ2 CE2 CH2
1 1 HH2 CH2 CZ2 CZ3
1 1 HZ3 CZ3 CH2 CE3
1 1 HE3 CE3 CZ3 CD2
1 1 OC1 C CA OC2
CPHE 9
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HD1 CD1 CG CE1
1 1 HE1 CE1 CD1 CZ
1 1 HZ CZ CE1 CE2
1 1 HE2 CE2 CZ CD2
1 1 HD2 CD2 CG CE2
1 1 OC1 C CA OC2
CTYR 9
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HD1 CD1 CG CE1
1 1 HE1 CE1 CD1 CZ
1 2 HH OH CZ CE1
1 1 HE2 CE2 CZ CD2
1 1 HD2 CD2 CG CE2
1 1 OC1 C CA OC2
CGLU 5
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB CD
1 1 OC1 C CA OC2
CASP 4
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 OC1 C CA OC2
CLYS 8
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB CD
2 6 HD CD CG CE
2 6 HE CE CD NZ
3 4 HZ NZ CE CD
1 1 OC1 C CA OC2
CPRO 5
2 6 HD CD N CG
2 6 HG CG CD CB
2 6 HB CB CG CA
1 5 HA CA N CB C
1 1 OC1 C CA OC2
CCYS 5
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA SG
1 2 HG SG CB CA
1 1 OC1 C CA OC2
CCYX 4
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA SG
1 1 OC1 C CA OC2
CMET 6
1 1 H N -C CA
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB SD
3 4 HE CE SD CG
1 1 OC1 C CA OC2
NALA 3
3 4 H N CA CB
1 5 HA CA N CB C
3 4 HB CB CA N
NGLY 2
3 4 H N CA C
2 6 HA CA N C
NSER 4
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA OG
1 2 HG OG CB CA
NTHR 5
3 4 H N CA CB
1 5 HA CA N CB C
1 5 HB CB CA CG2 OG1
3 4 HG2 CG2 CB CA
1 2 HG1 OG1 CB CA
NLEU 6
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA CG
1 5 HG CG CB CD1 CD2
3 4 HD1 CD1 CG CB
3 4 HD2 CD2 CG CB
NILE 6
3 4 H N CA CB
1 5 HA CA N CB C
1 5 HB CB CA CG2 CG1
3 4 HG2 CG2 CB CA
2 6 HG1 CG1 CB CD
3 4 HD CD CG1 CB
NVAL 5
3 4 H N CA CB
1 5 HA CA N CB C
1 5 HB CB CA CG1 CG2
3 4 HG1 CG1 CB CA
3 4 HG2 CG2 CB CA
NASN 4
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA CG
2 3 HD2 ND2 CG CB
NGLN 5
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB CD
2 3 HE2 NE2 CD CG
NARG 8
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB CD
2 6 HD CD CG NE
1 1 HE NE CD CZ
2 3 HH1 NH1 CZ NE
2 3 HH2 NH2 CZ NE
NHID 6
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HD1 ND1 CG CE1
1 1 HE1 CE1 ND1 NE2
1 1 HD2 CD2 CG NE2
NHIE 6
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HE1 CE1 ND1 NE2
1 1 HE2 NE2 CE1 CD2
1 1 HD2 CD2 CG NE2
NHIP 7
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HD1 ND1 CG CE1
1 1 HE1 CE1 ND1 NE2
1 1 HE2 NE2 CE1 CD2
1 1 HD2 CD2 CG NE2
NTRP 9
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HD1 CD1 CG NE1
1 1 HE1 NE1 CD1 CE2
1 1 HZ2 CZ2 CE2 CH2
1 1 HH2 CH2 CZ2 CZ3
1 1 HZ3 CZ3 CH2 CE3
1 1 HE3 CE3 CZ3 CD2
NPHE 8
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HD1 CD1 CG CE1
1 1 HE1 CE1 CD1 CZ
1 1 HZ CZ CE1 CE2
1 1 HE2 CE2 CZ CD2
1 1 HD2 CD2 CG CE2
NTYR 8
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA CG
1 1 HD1 CD1 CG CE1
1 1 HE1 CE1 CD1 CZ
1 2 HH OH CZ CE1
1 1 HE2 CE2 CZ CD2
1 1 HD2 CD2 CG CE2
NGLU 4
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB CD
NASP 3
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA CG
NLYS 7
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB CD
2 6 HD CD CG CE
2 6 HE CE CD NZ
3 4 HZ NZ CE CD
NPRO 5
2 6 H N CA CD
2 6 HD CD N CG
2 6 HG CG CD CB
2 6 HB CB CG CA
1 5 HA CA N CB C
NCYS 4
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA SG
1 2 HG SG CB CA
NCYX 3
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA SG
NMET 5
3 4 H N CA CB
1 5 HA CA N CB C
2 6 HB CB CA CG
2 6 HG CG CB SD
3 4 HE CE SD CG
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