PDB Chemical Component DBY

The following tables include covalent bond distance, bond angle and torsion angle values for the experimental model and ideal geometries stored in the definition for this chemical component.

Bond Distances for DBY

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
N CA 1.467 1.468
N H 1.020 1.009
N H2 1.019 1.009
CA C 1.525 1.507
CA CB 1.523 1.529
CA HA 1.116 1.091
C O 1.233 1.208
C OXT 1.332 1.343
CB CG 1.507 1.508
CB HB2 1.114 1.089
CB HB3 1.115 1.091
CG CD1 1.394 1.381
CG CD2 1.385 1.383
CD1 CE1 1.388 1.382
CD1 HD1 1.102 1.080
CE1 CZ 1.359 1.388
CE1 BR1 1.836 1.891
CD2 CE2 1.378 1.382
CD2 HD2 1.104 1.081
CE2 CZ 1.372 1.386
CE2 BR2 1.828 1.891
CZ OH 1.368 1.360
OH HH 0.951 0.966
OXT HXT 0.950 0.967

Bond Angles for DBY

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
CA N H 109.4 106.6
CA N H2 112.2 106.7
N CA C 109.4 109.5
N CA CB 110.0 109.5
N CA HA 108.4 109.5
H N H2 112.3 106.7
C CA CB 106.9 109.5
C CA HA 111.4 109.4
CA C O 119.7 120.0
CA C OXT 117.5 120.0
CB CA HA 110.8 109.5
CA CB CG 115.8 109.5
CA CB HB2 109.9 109.5
CA CB HB3 109.9 109.5
O C OXT 122.7 119.9
C OXT HXT 117.6 120.0
CG CB HB2 109.9 109.5
CG CB HB3 109.9 109.4
CB CG CD1 121.1 119.9
CB CG CD2 120.9 119.9
HB2 CB HB3 100.3 109.5
CD1 CG CD2 117.9 120.1
CG CD1 CE1 120.7 120.1
CG CD1 HD1 119.8 120.0
CG CD2 CE2 120.8 120.0
CG CD2 HD2 119.9 120.0
CE1 CD1 HD1 119.4 119.9
CD1 CE1 CZ 120.0 119.9
CD1 CE1 BR1 120.6 120.1
CZ CE1 BR1 119.3 120.0
CE1 CZ CE2 120.3 119.9
CE1 CZ OH 118.6 120.1
CE2 CD2 HD2 119.3 120.0
CD2 CE2 CZ 120.3 120.0
CD2 CE2 BR2 119.7 120.0
CZ CE2 BR2 120.0 120.0
CE2 CZ OH 121.2 120.1
CZ OH HH 118.6 106.9

Torsion Angles for DBY

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
H N CA H2 125.3 246.2
C CA N CB 117.1 120.0
C CA N HA 238.4 240.0
N CA C O 320.6 330.0
N CA C OXT 142.3 149.9
CB CA N HA 121.3 120.0
N CA CB CG 284.2 300.0
N CA CB HB2 49.4 60.1
N CA CB HB3 159.0 180.1
CA N H H2 234.7 113.7
H N CA C 180.0 60.0
H N CA CB 62.9 300.0
H N CA HA 301.7 180.0
CA N H2 H 123.7 246.3
H2 N CA C 54.7 173.8
H2 N CA CB 297.6 53.7
H2 N CA HA 176.3 293.7
C CA N H 180.0 60.0
C CA N H2 54.7 173.8
N CA C CB 241.0 240.0
N CA C HA 119.8 120.0
CB CA C HA 238.8 240.0
C CA CB CG 165.5 180.0
C CA CB HB2 290.8 300.0
C CA CB HB3 40.3 60.0
O C CA OXT 178.3 180.1
CA C OXT HXT 180.0 180.0
CB CA N H 62.9 300.0
CB CA N H2 297.6 53.7
N CA CB C 118.6 120.1
N CA CB HA 240.2 240.0
C CA CB HA 121.6 119.9
CB CA C O 79.7 90.0
CB CA C OXT 261.3 269.9
CG CB CA HB2 234.8 240.0
CG CB CA HB3 125.2 120.0
CA CB CG CD1 107.1 90.0
CA CB CG CD2 282.9 269.7
HB2 CB CA HB3 250.5 240.0
HA CA N H 301.7 180.0
HA CA N H2 176.3 293.7
N CA HA C 239.6 240.0
N CA HA CB 120.8 120.0
C CA HA CB 241.2 240.0
HA CA C O 200.8 210.0
HA CA C OXT 22.5 29.9
HA CA CB CG 44.0 60.0
HA CA CB HB2 169.2 180.1
HA CA CB HB3 278.8 300.1
O C CA CB 79.7 90.0
O C CA HA 200.8 210.0
CA C O OXT 181.7 179.9
O C OXT HXT 1.7 359.9
OXT C CA CB 261.3 269.9
OXT C CA HA 22.5 29.9
CA C OXT O 178.3 180.1
CG CB CA HA 44.0 60.0
CA CB CG HB2 125.3 120.0
CA CB CG HB3 234.8 240.0
HB2 CB CG HB3 109.5 120.0
CD1 CG CB CD2 184.2 180.3
CB CG CD1 CE1 175.4 180.0
CB CG CD1 HD1 355.4 359.9
CB CG CD2 CE2 184.9 179.7
CB CG CD2 HD2 5.0 0.3
HB2 CB CA HA 169.2 180.1
CA CB HB2 CG 231.4 240.0
CA CB HB2 HB3 115.7 120.0
CG CB HB2 HB3 244.3 240.1
HB2 CB CG CD1 341.8 330.0
HB2 CB CG CD2 157.6 149.7
HB3 CB CA HA 278.8 300.1
CA CB HB3 CG 128.6 120.0
CA CB HB3 HB2 244.3 240.0
CG CB HB3 HB2 115.7 120.0
HB3 CB CG CD1 232.3 210.0
HB3 CB CG CD2 48.1 29.7
CD1 CG CB HB2 341.8 330.0
CD1 CG CB HB3 232.3 210.0
CB CG CD1 CD2 175.9 179.7
CD1 CG CD2 CE2 0.9 359.4
CD1 CG CD2 HD2 180.9 180.0
CE1 CD1 CG HD1 180.0 180.0
CG CD1 CE1 CZ 359.6 0.0
CG CD1 CE1 BR1 177.5 180.0
CD2 CG CB HB2 157.6 149.7
CD2 CG CB HB3 48.1 29.7
CB CG CD2 CD1 184.1 180.3
CD2 CG CD1 CE1 359.5 0.3
CD2 CG CD1 HD1 179.5 180.3
CE2 CD2 CG HD2 180.0 179.5
CG CD2 CE2 CZ 359.6 0.6
CG CD2 CE2 BR2 179.5 180.2
CE1 CD1 CG CD2 359.5 0.3
CG CD1 CE1 HD1 180.0 180.0
CZ CE1 CD1 BR1 182.1 180.0
CD1 CE1 CZ CE2 0.9 360.0
CD1 CE1 CZ OH 182.4 180.1
HD1 CD1 CG CD2 179.5 180.3
CG CD1 HD1 CE1 180.0 180.0
HD1 CD1 CE1 CZ 179.7 180.0
HD1 CD1 CE1 BR1 357.6 0.0
CZ CE1 CD1 HD1 179.7 180.0
CD1 CE1 CZ BR1 177.9 180.0
CD2 CE2 CZ CE1 359.5 359.7
CE1 CZ CE2 BR2 179.6 180.1
CE2 CZ CE1 OH 178.5 179.9
CE1 CZ OH HH 180.0 89.9
BR1 CE1 CD1 HD1 357.6 0.0
CD1 CE1 BR1 CZ 182.1 180.0
BR1 CE1 CZ CE2 182.9 180.0
BR1 CE1 CZ OH 4.5 0.1
CG CD2 CE2 HD2 180.0 180.5
CE1 CZ CE2 CD2 359.5 359.7
CZ CE2 CD2 BR2 180.1 180.4
CD2 CE2 CZ OH 177.9 179.6
CG CD2 HD2 CE2 180.0 179.5
HD2 CD2 CE2 CZ 179.6 180.0
HD2 CD2 CE2 BR2 359.5 359.6
CE2 CZ CE1 BR1 182.9 180.0
CE1 CZ CE2 OH 181.6 180.1
CZ CE2 CD2 HD2 179.6 180.0
CD2 CE2 CZ BR2 179.9 179.6
CE2 CZ OH HH 1.6 270.0
BR2 CE2 CD2 HD2 359.5 359.6
CD2 CE2 BR2 CZ 180.1 180.4
BR2 CE2 CZ OH 358.0 0.0
OH CZ CE1 BR1 4.5 0.1
CE1 CZ OH CE2 178.4 179.9
OH CZ CE2 BR2 358.0 0.0