PDB Chemical Component KD5

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 KD5

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
O8 C8 1.412 1.430
C8 C7 1.525 1.531
C7 C6 1.515 1.550
C7 O7 1.458 1.446
C6 O6 1.435 1.429
C6 C5 1.530 1.548
O5 C5 1.381 1.428
O7 C4 1.433 1.438
C5 C4 1.526 1.541
O5 HO5 0.950 0.967
C4 H4 1.100 1.089
C5 H5 1.100 1.090
C6 H6 1.100 1.090
O6 HO6 0.950 0.967
C7 H7 1.100 1.090
O8 HO8 0.950 0.966
C8 H81 1.100 1.089
C8 H82 1.100 1.090
C4 C3   1.531
C3 C2   1.507
C2 C1   1.491
C2 O2   1.208
C1 O1B   1.345
C1 O1A   1.213
C3 H31   1.090
C3 H32   1.090
O1B HO1B   0.967

Bond Angles for KD5

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C8 O8 HO8 109.5 114.0
O8 C8 H81 108.7 109.5
O8 C8 H82 108.7 109.5
C8 C7 H7 109.1 110.6
C7 C6 H6 108.9 111.0
O7 C7 H7 110.0 110.5
O6 C6 H6 110.0 110.8
C6 O6 HO6 109.5 114.1
C6 C5 H5 105.3 110.6
O5 C5 C4 124.2 110.5
C5 O5 HO5 109.5 114.0
O5 C5 H5 107.0 110.5
O7 C4 H4 114.1 109.9
O7 C4 C3   109.8
C5 C4 H4 112.5 109.9
C5 C4 C3   109.9
H4 C4 C3   109.9
H81 C8 H82 109.5 109.5
C4 C3 C2   109.5
C4 C3 H31   109.4
C4 C3 H32   109.5
C3 C2 C1   120.0
C3 C2 O2   120.0
C2 C3 H31   109.5
C2 C3 H32   109.5
C1 C2 O2   120.0
C2 C1 O1B   120.0
C2 C1 O1A   120.0
O1B C1 O1A   120.0
C1 O1B HO1B   117.0
H31 C3 H32   109.5

Torsion Angles for KD5

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O8 C8 C7 H7 174.6 307.9
H81 C8 O8 H82 240.9 120.0
C8 C7 C6 H6 351.8 322.7
O7 C7 C8 H7 123.4 122.9
O6 C6 C7 H6 122.6 123.6
C7 C6 O6 HO6 180.0 292.7
C7 C6 C5 H5 220.3 262.2
C8 C7 O7 H7 237.1 237.1
O7 C7 C6 H6 114.5 81.3
C7 O7 C4 H4 196.7 214.2
C7 O7 C4 C3   93.2
C7 C6 O6 H6 238.0 236.3
O6 C6 C5 H5 341.9 20.3
C6 C5 O5 HO5 180.0 65.2
O5 C5 C6 H5 246.1 237.4
C6 C5 C4 H4 164.8 121.4
C6 C5 C4 C3   242.5
C6 C5 O5 H5 112.7 122.6
O5 C5 C4 H4 39.6 2.8
O5 C5 C4 C3   123.8
C5 C4 O7 H4 118.3 119.5
C5 C4 O7 C3   240.5
H4 C4 O7 C3   121.0
O7 C4 C3 C2   66.7
O7 C4 C3 H31   186.7
O7 C4 C3 H32   306.7
C4 C5 O5 HO5 304.5 180.0
O5 C5 C4 H5 123.5 122.6
O7 C4 C5 H4 240.5 240.5
O7 C4 C5 C3   119.5
H4 C4 C5 C3   239.0
C5 C4 C3 C2   184.7
C5 C4 C3 H31   304.7
C5 C4 C3 H32   64.6
HO5 O5 C5 C4 304.5 180.0
HO5 O5 C5 H5 67.3 302.6
O7 C4 H4 C3   239.0
C5 C4 H4 C3   121.0
H4 C4 C3 C2   305.8
H4 C4 C3 H31   65.7
H4 C4 C3 H32   185.7
O5 C5 H5 C4 226.2 237.4
H5 C5 O5 HO5 67.3 302.6
H5 C5 C4 H4 276.1 240.2
H5 C5 C4 C3   1.2
H6 C6 O6 HO6 301.9 56.3
H6 C6 C5 H5 106.2 143.9
HO6 O6 C6 H6 301.9 56.3
H7 C7 C6 H6 233.6 199.7
HO8 O8 C8 H81 300.4 60.1
HO8 O8 C8 H82 59.6 300.0
H81 C8 O8 HO8 300.4 60.1
O8 C8 H81 H82 118.7 240.0
H81 C8 C7 H7 54.2 68.0
H82 C8 O8 HO8 59.6 300.0
O8 C8 H82 H81 241.4 120.0
H82 C8 C7 H7 295.1 187.9
O7 C4 C3 H4   121.0
C5 C4 C3 H4   239.0
C4 C3 C2 C1   180.0
C4 C3 C2 O2   359.9
C2 C3 C4 H31   240.0
C2 C3 C4 H32   120.1
H31 C3 C4 H32   240.1
C4 C3 C2 H31   120.0
C4 C3 C2 H32   240.0
C1 C2 C3 O2   180.1
C3 C2 C1 O1B   179.9
C3 C2 C1 O1A   360.0
H31 C3 C2 H32   120.0
C3 C2 C1 O2   179.9
C1 C2 C3 H31   60.0
C1 C2 C3 H32   300.0
O1B C1 C2 O1A   180.0
C2 C1 O1B HO1B   180.0
C3 C2 O2 C1   180.1
O2 C2 C3 H31   240.0
O2 C2 C3 H32   119.9
O2 C2 C1 O1B   0.0
O2 C2 C1 O1A   180.0
O1B C1 C2 O2   0.0
C2 C1 O1B O1A   180.0
O1A C1 C2 O2   180.0
C2 C1 O1A O1B   180.0
O1A C1 O1B HO1B   359.9
C4 C3 H31 C2   240.0
C4 C3 H31 H32   119.9
H31 C3 C2 C1   60.0
H31 C3 C2 O2   240.0
C2 C3 H31 H32   239.9
C4 C3 H32 C2   120.0
C4 C3 H32 H31   240.1
H32 C3 C2 C1   300.0
H32 C3 C2 O2   119.9
C2 C3 H32 H31   120.1
HO1B O1B C1 O1A   359.9