PDB Chemical Component 3SD

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 3SD

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
C3 C4 1.344 1.423
C4 C5 1.338 1.354
C4 H4 1.080 1.081
O1 C5 1.376 1.340
C5 C6 1.528 1.507
C6 H6 1.100 1.090
C6 H6A 1.100 1.090
C6 H6B 1.100 1.090
C10 C8 1.517 1.507
C9 C8 1.515 1.530
C8 N7 1.468 1.465
C8 H8 1.100 1.089
N13 C10 1.322 1.349
O11 C10 1.228 1.213
N16 C15 1.318 1.348
O19 C15 1.228 1.213
C15 C12 1.527 1.507
C14 C17 1.514 1.530
C17 C18 1.527 1.507
C17 H17 1.100 1.090
C17 H17A 1.100 1.090
C20 C21 1.520 1.507
C20 N16 1.455 1.464
C20 H20 1.100 1.090
C20 H20A 1.100 1.090
C22 C21 1.384 1.383
C21 C26 1.385 1.383
C22 C23 1.390 1.382
C22 H22 1.080 1.080
C23 C24 1.383 1.382
C24 C27 1.530 1.508
C24 C25 1.385 1.383
C26 C25 1.387 1.382
C26 H26 1.080 1.079
C28 C29 1.399 1.382
C28 C18 1.402 1.382
C28 H28 1.080 1.080
N2 O1 1.431 1.209
C3 N2 1.334 1.310
C41 C3 1.528 1.483
N7 C41 1.328 1.348
O42 C41 1.226 1.214
N7 HN7 1.000 0.970
C9 C33 1.510 1.507
C9 H9 1.100 1.090
C9 H9A 1.100 1.090
N34 C33 1.339 1.347
C33 O35 1.236 1.213
N34 C36 1.476 1.465
N34 HN34 1.000 0.970
C37 C36 1.544 1.530
C36 H36 1.100 1.089
C36 H36A 1.100 1.090
C40 C37 1.527 1.530
C39 C37 1.525 1.530
C37 C38 1.527 1.530
C40 H40 1.100 1.089
C40 H40A 1.100 1.089
C40 H40B 1.100 1.090
C38 H38 1.100 1.089
C38 H38A 1.100 1.090
C38 H38B 1.100 1.090
C39 H39 1.100 1.090
C39 H39A 1.100 1.089
C39 H39B 1.100 1.089
C12 N13 1.459 1.465
N13 HN13 1.000 0.970
C14 C12 1.521 1.531
C12 H12 1.100 1.090
C14 H14 1.100 1.089
C14 H14A 1.100 1.089
C18 C32 1.395 1.383
C29 C30 1.391 1.383
C29 H29 1.080 1.081
C30 C31 1.403 1.381
C30 H30 1.080 1.080
C32 C31 1.400 1.382
C31 H31 1.080 1.081
C32 H32 1.080 1.080
N16 HN16 1.000 0.970
C23 H23 1.080 1.080
C27 H27 1.100 1.090
C27 H27A 1.100 1.090
C27 H27B 1.100 1.089
C25 H25 1.080 1.080

Bond Angles for 3SD

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C3 C4 H4 126.5 128.0
C5 C4 H4 126.5 128.0
C4 C5 C6 125.0 126.7
C5 C6 H6 109.5 109.5
C5 C6 H6A 109.5 109.5
C5 C6 H6B 109.5 109.4
H6 C6 H6A 109.5 109.5
H6 C6 H6B 109.5 109.4
H6A C6 H6B 109.5 109.5
C10 C8 N7 113.0 109.4
C10 C8 H8 111.4 109.5
C9 C8 H8 113.8 109.5
N7 C8 H8 104.6 109.5
C8 N7 HN7 119.0 120.0
C15 C12 H12 111.4 109.4
C14 C17 C18 111.1 109.5
C14 C17 H17 108.9 109.5
C14 C17 H17A 108.9 109.5
C17 C14 H14 109.4 109.5
C17 C14 H14A 109.4 109.5
C18 C17 H17 108.9 109.5
C18 C17 H17A 108.9 109.5
C17 C18 C32 119.6 119.9
H17 C17 H17A 110.1 109.4
C21 C20 N16 110.8 109.5
C21 C20 H20 109.0 109.5
C21 C20 H20A 109.0 109.5
C20 C21 C26 120.5 120.0
N16 C20 H20 109.0 109.5
N16 C20 H20A 109.0 109.4
C20 N16 HN16 120.1 120.0
H20 C20 H20A 109.9 109.4
C22 C21 C26 120.3 120.0
C21 C26 C25 119.7 120.0
C21 C26 H26 120.1 120.0
C23 C22 H22 120.1 120.0
C22 C23 C24 120.1 120.0
C22 C23 H23 119.9 120.0
C23 C24 C27 119.6 120.0
C23 C24 C25 119.9 120.0
C27 C24 C25 120.6 120.0
C24 C27 H27 109.5 109.4
C24 C27 H27A 109.4 109.4
C24 C27 H27B 109.4 109.5
C24 C25 C26 120.3 120.0
C24 C25 H25 119.8 120.0
C25 C26 H26 120.2 120.0
C26 C25 H25 119.9 120.0
C29 C28 H28 119.7 120.0
C28 C29 C30 119.0 120.0
C28 C29 H29 120.5 120.0
C28 C18 C32 120.3 120.1
C33 C9 H9 107.9 109.5
C33 C9 H9A 107.9 109.4
C9 C33 O35 121.0 120.0
H9 C9 H9A 111.0 109.5
C36 N34 HN34 117.5 120.0
N34 C36 H36 109.1 109.5
N34 C36 H36A 109.1 109.4
C37 C36 H36 109.1 109.5
C37 C36 H36A 109.1 109.4
H36 C36 H36A 109.8 109.5
C40 C37 C38 109.2 109.5
C37 C38 H38 109.5 109.5
C37 C38 H38A 109.5 109.5
C37 C38 H38B 109.4 109.5
H40 C40 H40A 109.5 109.5
H40 C40 H40B 109.5 109.5
H40A C40 H40B 109.5 109.4
H38 C38 H38A 109.4 109.4
H38 C38 H38B 109.5 109.5
H38A C38 H38B 109.5 109.4
H39 C39 H39A 109.5 109.5
H39 C39 H39B 109.5 109.5
H39A C39 H39B 109.5 109.5
C12 N13 HN13 118.8 120.0
C14 C12 H12 107.9 109.5
H14 C14 H14A 109.5 109.6
C18 C32 C31 119.1 119.9
C18 C32 H32 120.5 120.0
C30 C29 H29 120.5 120.0
C29 C30 C31 120.5 120.0
C29 C30 H30 119.8 120.0
C30 C31 H31 119.8 120.0
C32 C31 H31 119.7 120.0
C31 C32 H32 120.5 120.0
H27 C27 H27A 109.5 109.5
H27 C27 H27B 109.4 109.5
H27A C27 H27B 109.5 109.5

Torsion Angles for 3SD

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C5 C4 C3 H4 180.0 179.8
C3 C4 C5 H4 180.0 180.2
C4 C5 C6 H6 180.6 89.9
C4 C5 C6 H6A 300.6 210.0
C4 C5 C6 H6B 60.6 330.0
H4 C4 C5 C6 359.5 0.0
O1 C5 C4 H4 180.0 180.0
O1 C5 C6 H6 0.0 270.0
O1 C5 C6 H6A 120.0 30.0
O1 C5 C6 H6B 240.0 150.0
C6 C5 C4 H4 359.5 0.0
H6 C6 C5 H6A 240.0 239.9
H6 C6 C5 H6B 120.0 119.9
H6A C6 C5 H6B 240.0 240.0
C5 C6 H6 H6A 120.0 120.1
C5 C6 H6 H6B 240.0 240.1
H6A C6 H6 H6B 120.0 120.0
C5 C6 H6A H6 240.0 240.0
C5 C6 H6A H6B 120.0 120.0
H6 C6 H6A H6B 240.0 240.0
C5 C6 H6B H6 120.0 119.9
C5 C6 H6B H6A 240.0 240.0
H6 C6 H6B H6A 120.0 120.1
C9 C8 C10 H8 237.3 240.0
N7 C8 C10 H8 117.4 120.1
C10 C8 N7 HN7 103.0 91.4
C10 C8 C9 H8 121.2 120.0
N7 C8 C9 H8 242.6 239.9
C9 C8 N7 HN7 347.2 331.4
C10 C8 N7 H8 238.7 240.0
C9 C8 N7 H8 122.9 120.0
C10 C8 H8 N7 122.4 120.0
H8 C8 N7 HN7 224.3 211.4
N13 C10 C8 H8 21.5 60.0
O11 C10 C8 H8 195.7 240.0
N16 C15 C12 H12 21.8 60.0
O19 C15 C12 H12 203.3 240.0
C15 C12 N13 HN13 74.9 25.0
C14 C12 C15 H12 240.4 240.0
C18 C17 C14 H17 240.0 240.0
C18 C17 C14 H17A 120.0 120.0
C14 C17 C18 C32 124.4 270.0
H17 C17 C14 H17A 240.0 240.0
C17 C14 C12 H12 63.7 55.1
H14 C14 C17 H14A 240.0 239.9
C14 C17 C18 H17 120.0 120.0
C14 C17 C18 H17A 240.0 240.0
C18 C17 C14 H14 53.5 300.0
C18 C17 C14 H14A 173.5 60.1
H17 C17 C18 H17A 120.0 120.0
C28 C18 C17 C32 179.3 180.0
C17 C18 C32 C31 179.5 180.0
C17 C18 C32 H32 359.5 0.0
C14 C17 H17 C18 238.7 240.0
C14 C17 H17 H17A 119.3 120.0
H17 C17 C14 H14 173.5 60.0
H17 C17 C14 H14A 293.5 180.1
C18 C17 H17 H17A 240.7 240.0
H17 C17 C18 C32 4.4 150.0
C14 C17 H17A C18 121.4 120.0
C14 C17 H17A H17 240.7 240.0
H17A C17 C14 H14 293.5 179.9
H17A C17 C14 H14A 53.5 300.0
C18 C17 H17A H17 119.3 120.0
H17A C17 C18 C32 244.4 30.0
N16 C20 C21 H20 240.0 240.0
N16 C20 C21 H20A 120.0 120.0
C21 C20 N16 HN16 273.7 0.1
H20 C20 C21 H20A 240.0 240.0
C22 C21 C20 C26 181.3 180.2
C20 C21 C26 C25 180.7 180.0
C20 C21 C26 H26 0.7 360.0
C21 C20 N16 H20 120.0 120.0
C21 C20 N16 H20A 240.0 240.0
N16 C20 C21 C26 279.6 90.0
H20 C20 N16 H20A 120.0 119.9
C21 C20 H20 N16 238.9 240.0
C21 C20 H20 H20A 119.5 120.0
H20 C20 C21 C26 39.5 210.0
N16 C20 H20 H20A 240.5 240.1
H20 C20 N16 HN16 153.7 240.0
C21 C20 H20A N16 121.1 120.0
C21 C20 H20A H20 240.5 240.0
H20A C20 C21 C26 159.6 330.0
N16 C20 H20A H20 119.4 119.9
H20A C20 N16 HN16 33.7 120.1
C22 C21 C20 N16 100.8 270.2
C22 C21 C20 H20 220.8 30.2
C22 C21 C20 H20A 340.8 150.2
C20 C21 C22 C26 178.7 179.8
C22 C21 C26 C25 359.4 359.8
C22 C21 C26 H26 179.4 179.8
C26 C21 C20 N16 279.6 90.0
C26 C21 C20 H20 39.5 210.0
C26 C21 C20 H20A 159.6 330.0
C24 C25 C26 C21 0.0 0.0
C25 C26 C21 H26 180.0 180.0
C21 C26 C25 H25 180.1 180.3
C23 C22 C21 C26 0.8 0.2
C22 C23 C24 C27 180.6 180.0
C22 C23 C24 C25 0.1 359.8
H22 C22 C21 C26 180.9 180.3
H22 C22 C23 C24 179.4 179.9
H22 C22 C23 H23 359.3 359.9
C24 C23 C22 H22 179.4 179.9
C22 C23 C24 H23 180.0 180.0
C27 C24 C23 C25 180.5 180.2
C23 C24 C27 H27 89.7 269.8
C23 C24 C27 H27A 209.7 29.8
C23 C24 C27 H27B 329.8 149.8
C23 C24 C25 C26 0.2 0.2
C23 C24 C25 H25 180.2 179.9
C23 C24 C27 C25 179.5 179.8
C27 C24 C25 C26 179.6 180.0
C27 C24 C25 H25 359.6 359.8
H27 C27 C24 H27A 240.0 240.0
H27 C27 C24 H27B 120.0 120.0
H27A C27 C24 H27B 240.0 239.9
C21 C26 C25 C24 0.0 0.0
C23 C24 C25 C27 180.5 180.2
C25 C24 C27 H27 270.3 90.0
C25 C24 C27 H27A 30.3 210.0
C25 C24 C27 H27B 150.3 330.0
C24 C25 C26 H26 180.0 180.0
C26 C25 C24 H25 180.0 180.3
C21 C26 C25 H26 180.0 180.0
C24 C25 C26 H25 180.0 179.7
C21 C26 H26 C25 180.0 180.0
H26 C26 C25 H25 0.1 0.3
C29 C28 C18 C32 0.1 0.0
C30 C29 C28 H29 180.0 180.1
C28 C29 C30 C31 359.8 360.0
C28 C29 C30 H30 179.8 180.0
C28 C18 C17 H17 183.7 330.0
C28 C18 C17 H17A 63.7 210.0
C17 C18 C28 C32 180.7 180.0
C28 C18 C32 C31 0.2 360.0
C28 C18 C32 H32 180.2 180.0
H28 C28 C29 C30 179.9 180.3
H28 C28 C29 H29 359.9 0.2
H28 C28 C18 C32 180.1 179.7
N2 C3 C4 H4 180.2 179.8
C41 C3 C4 H4 359.3 0.3
HN7 N7 C8 H8 224.3 211.4
C33 C9 C8 H8 46.6 54.4
H9 C9 C33 H9A 120.0 120.0
H9 C9 C8 H8 166.6 174.4
C33 C9 H9 H9A 242.0 240.0
H9 C9 C33 O35 218.9 234.4
H9A C9 C8 H8 286.6 294.5
C33 C9 H9A H9 118.0 120.0
H9A C9 C33 O35 98.9 114.4
N34 C33 C9 H9 39.9 54.4
N34 C33 C9 H9A 279.8 294.4
O35 C33 C9 H9 218.9 234.4
O35 C33 C9 H9A 98.9 114.4
C37 C36 N34 H36 240.0 239.9
C37 C36 N34 H36A 120.0 119.9
H36 C36 N34 H36A 240.0 240.0
HN34 N34 C36 H36 179.4 120.0
HN34 N34 C36 H36A 299.4 239.9
C37 C36 N34 HN34 59.4 359.9
N34 C36 C37 H36 120.0 120.1
N34 C36 C37 H36A 240.0 240.1
H36 C36 C37 H36A 120.0 120.0
H36 C36 N34 HN34 179.4 120.0
N34 C36 H36 H36A 119.5 120.0
C37 C36 H36 H36A 240.5 240.0
H36A C36 N34 HN34 299.4 239.9
N34 C36 H36A H36 240.5 240.0
C37 C36 H36A H36 119.5 120.0
C40 C37 C36 H36 303.3 180.0
C40 C37 C36 H36A 183.3 60.0
C40 C37 C38 H38 300.9 180.0
C40 C37 C38 H38A 60.8 300.0
C40 C37 C38 H38B 180.9 59.9
C39 C37 C36 H36 183.0 59.9
C39 C37 C36 H36A 63.1 300.0
C39 C37 C38 H38 58.9 300.1
C39 C37 C38 H38A 178.8 60.0
C39 C37 C38 H38B 298.9 180.0
C38 C37 C36 H36 63.6 300.0
C38 C37 C36 H36A 303.6 180.0
H38 C38 C37 H38A 240.0 240.0
H38 C38 C37 H38B 120.0 120.1
H38A C38 C37 H38B 240.0 240.1
H40 C40 C37 C38 59.2 300.0
H40A C40 H40 H40B 120.0 120.0
H40A C40 C37 C38 179.2 60.1
H40 C40 H40A H40B 240.0 240.0
H40B C40 C37 C38 299.2 180.0
H40 C40 H40B H40A 120.0 120.1
C37 C38 H38 H38A 120.0 120.0
C37 C38 H38 H38B 240.0 239.9
H38A C38 H38 H38B 120.0 119.9
C37 C38 H38A H38 240.0 240.0
C37 C38 H38A H38B 120.0 120.0
H38 C38 H38A H38B 240.0 240.0
C37 C38 H38B H38 120.0 120.1
C37 C38 H38B H38A 240.0 240.0
H38 C38 H38B H38A 120.0 119.9
H39A C39 H39 H39B 120.0 120.0
H39 C39 H39A H39B 240.0 240.0
H39 C39 H39B H39A 120.0 120.0
C15 C12 C14 H12 121.7 119.9
C14 C12 N13 HN13 316.0 265.0
H12 C12 N13 HN13 196.5 145.0
H14 C14 C17 C18 53.5 300.0
H14 C14 C17 H17 173.5 60.0
H14 C14 C17 H17A 293.5 179.9
C17 C14 H14 H14A 119.9 120.0
H14 C14 C12 H12 303.7 295.1
H14A C14 C17 C18 173.5 60.1
H14A C14 C17 H17 293.5 180.1
H14A C14 C17 H17A 53.5 300.0
C17 C14 H14A H14 240.1 240.0
H14A C14 C12 H12 183.7 175.0
C32 C18 C17 H17 4.4 150.0
C32 C18 C17 H17A 244.4 30.0
C18 C32 C31 H31 179.6 180.0
C31 C32 C18 H32 180.0 180.0
C30 C29 C28 H28 179.9 180.3
C28 C29 C30 H29 180.0 179.9
C29 C30 C31 H31 180.4 180.0
H29 C29 C28 H28 359.9 0.2
C28 C29 H29 C30 180.0 180.1
H29 C29 C30 C31 179.9 180.0
H29 C29 C30 H30 359.8 0.0
C31 C30 C29 H29 179.9 180.0
C29 C30 C31 H30 180.0 180.0
C32 C31 C30 H31 180.0 180.0
C30 C31 C32 H32 179.6 180.0
H30 C30 C29 H29 359.8 0.0
C29 C30 H30 C31 180.0 180.0
H30 C30 C31 H31 0.4 0.0
C18 C32 C31 H32 180.0 180.0
C29 C30 C31 C32 0.4 0.0
C30 C31 C32 H31 180.0 180.0
H31 C31 C32 H32 359.6 360.0
C18 C32 H32 C31 180.0 180.0
H32 C32 C31 H31 359.6 360.0
HN16 N16 C20 H20 153.7 240.0
HN16 N16 C20 H20A 33.7 120.1
H23 C23 C22 H22 359.3 359.9
C22 C23 H23 C24 180.0 180.0
H23 C23 C24 C27 0.6 360.0
H23 C23 C24 C25 180.1 179.8
H27 C27 C24 C25 270.3 90.0
C24 C27 H27 H27A 120.0 119.9
C24 C27 H27 H27B 240.0 240.0
H27A C27 H27 H27B 120.1 120.1
H27A C27 C24 C25 30.3 210.0
C24 C27 H27A H27 240.0 240.1
C24 C27 H27A H27B 120.0 120.0
H27 C27 H27A H27B 240.0 240.0
H27B C27 C24 C25 150.3 330.0
C24 C27 H27B H27 120.0 119.9
C24 C27 H27B H27A 240.0 240.0
H27 C27 H27B H27A 120.0 120.0
C24 C25 H25 C26 180.0 180.3
H25 C25 C26 H26 0.1 0.3