PDB Chemical Component PMG

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 PMG

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
N1 C2 1.455 1.319
N1 C6 1.399 1.319
C2 C2A 1.527 1.507
C2 C3 1.503 1.387
C2A H2A1 1.115 1.090
C2A H2A2 1.115 1.090
C2A H2A3 1.115 1.090
C3 O3 1.337 1.359
C3 C4 1.481 1.391
O3 HO3 0.950 0.968
C4 C4A 1.561 1.507
C4 C5 1.509 1.386
C4A N 1.592 1.469
C4A H4A1 1.115 1.090
C4A H4A2 1.114 1.090
C5 C6 1.435 1.383
C5 C5A 1.518 1.507
C6 H6 1.102 1.080
C5A OP4 1.369 1.429
C5A H5A1 1.115 1.090
C5A H5A2 1.114 1.090
OP4 P 1.595 1.610
P OP1 1.449 1.610
P OP2 1.495 1.610
P OP3 1.541 1.480
OP2 HP2 0.949 0.967
OP3 HP3 0.949  
N CA 1.473 1.470
N HN 1.021 1.009
CA CB2 1.549 1.530
CA CB1 1.575 1.530
CA C 1.574 1.507
CB2 HB21 1.114 1.089
CB2 HB22 1.116 1.090
CB2 HB23 1.115 1.090
CB1 CG 1.517 1.530
CB1 HB11 1.115 1.090
CB1 HB12 1.115 1.090
CG CD 1.495 1.508
CG HG1 1.115 1.090
CG HG2 1.114 1.090
CD OE1 1.253 1.341
CD OE2 1.262 1.209
OE1 HE1 0.950 0.967
C O 1.244 1.342
C OXT 1.261 1.208
OXT HXT 0.950  

Bond Angles for PMG

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C2 N1 C6 125.5 121.8
N1 C2 C2A 109.9 119.6
N1 C2 C3 116.0 120.7
N1 C6 C5 116.9 120.8
N1 C6 H6 120.4 119.6
C2A C2 C3 134.1 119.7
C2 C2A H2A1 109.9 109.5
C2 C2A H2A2 112.1 109.5
C2 C2A H2A3 112.0 109.5
C2 C3 O3 111.4 120.4
C2 C3 C4 122.9 119.1
H2A1 C2A H2A2 112.1 109.5
H2A1 C2A H2A3 112.0 109.4
H2A2 C2A H2A3 98.4 109.5
O3 C3 C4 125.8 120.5
C3 O3 HO3 111.4 106.8
C3 C4 C4A 123.0 120.8
C3 C4 C5 113.2 118.4
C4A C4 C5 123.8 120.8
C4 C4A N 111.4 109.5
C4 C4A H4A1 111.5 109.4
C4 C4A H4A2 111.5 109.5
C4 C5 C6 125.6 119.3
C4 C5 C5A 123.5 120.4
N C4A H4A1 111.4 109.5
N C4A H4A2 111.5 109.5
C4A N CA 129.3 106.7
C4A N HN 105.3 106.7
H4A1 C4A H4A2 98.9 109.5
C6 C5 C5A 111.0 120.4
C5 C6 H6 122.7 119.6
C5 C5A OP4 116.5 109.5
C5 C5A H5A1 109.6 109.5
C5 C5A H5A2 109.6 109.5
OP4 C5A H5A1 109.7 109.5
OP4 C5A H5A2 109.7 109.5
C5A OP4 P 126.6 106.8
H5A1 C5A H5A2 100.6 109.5
OP4 P OP1 111.1 109.4
OP4 P OP2 101.2 109.4
OP4 P OP3 108.2 109.5
OP1 P OP2 117.0 109.5
OP1 P OP3 108.8 109.5
OP2 P OP3 110.1 109.5
P OP2 HP2 101.2 106.8
P OP3 HP3 108.2  
CA N HN 105.3 106.7
N CA CB2 107.6 109.5
N CA CB1 108.8 109.4
N CA C 107.6 109.5
CB2 CA CB1 110.7 109.5
CB2 CA C 107.4 109.5
CA CB2 HB21 107.6 109.5
CA CB2 HB22 112.9 109.5
CA CB2 HB23 113.0 109.4
CB1 CA C 114.5 109.5
CA CB1 CG 121.1 109.4
CA CB1 HB11 108.0 109.5
CA CB1 HB12 108.0 109.5
CA C O 119.2 120.0
CA C OXT 117.0 120.0
HB21 CB2 HB22 112.9 109.5
HB21 CB2 HB23 112.9 109.5
HB22 CB2 HB23 97.5 109.5
CG CB1 HB11 108.1 109.4
CG CB1 HB12 108.1 109.5
CB1 CG CD 111.2 109.5
CB1 CG HG1 111.5 109.5
CB1 CG HG2 111.6 109.5
HB11 CB1 HB12 101.9 109.5
CD CG HG1 111.6 109.4
CD CG HG2 111.6 109.5
CG CD OE1 117.6 120.0
CG CD OE2 117.2 120.0
HG1 CG HG2 98.9 109.6
OE1 CD OE2 125.2 120.0
CD OE1 HE1 117.6 120.0
O C OXT 123.8 120.0
C OXT HXT 117.1  

Torsion Angles for PMG

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C2 N1 C6 C5 0.1 0.1
C2 N1 C6 H6 180.1 180.0
C2A C2 N1 C3 180.0 179.8
N1 C2 C2A H2A1 180.0 90.0
N1 C2 C2A H2A2 305.3 210.0
N1 C2 C2A H2A3 54.8 330.0
N1 C2 C3 O3 179.9 180.0
N1 C2 C3 C4 359.9 359.5
C6 N1 C2 C2A 180.0 180.0
C6 N1 C2 C3 359.9 0.2
C4 C5 C6 N1 360.0 359.9
N1 C6 C5 C5A 179.8 180.0
C5 C6 N1 H6 180.0 180.1
C2A C2 N1 C6 180.0 180.0
N1 C2 C2A C3 180.0 180.2
C2A C2 C3 O3 359.9 0.2
C2A C2 C3 C4 179.9 179.7
H2A1 C2A C2 H2A2 234.7 240.0
H2A1 C2A C2 H2A3 125.2 120.0
H2A2 C2A C2 H2A3 250.5 240.0
C3 C2 N1 C6 359.9 0.2
N1 C2 C3 C2A 180.0 179.8
C3 C2 C2A H2A1 360.0 269.7
C3 C2 C2A H2A2 125.3 29.8
C3 C2 C2A H2A3 234.8 149.8
O3 C3 C2 C4 180.0 180.5
C2 C3 O3 HO3 180.0 269.5
C2 C3 C4 C4A 180.4 180.2
C2 C3 C4 C5 0.1 0.5
H2A1 C2A C2 C3 360.0 269.7
C2 C2A H2A1 H2A2 125.3 120.0
C2 C2A H2A1 H2A3 234.8 240.0
H2A2 C2A H2A1 H2A3 109.5 120.0
H2A2 C2A C2 C3 125.3 29.8
C2 C2A H2A2 H2A1 235.9 240.0
C2 C2A H2A2 H2A3 118.0 120.0
H2A1 C2A H2A2 H2A3 242.1 240.0
H2A3 C2A C2 C3 234.8 149.8
C2 C2A H2A3 H2A1 124.0 120.0
C2 C2A H2A3 H2A2 242.0 240.0
H2A1 C2A H2A3 H2A2 118.0 120.0
C2 C3 O3 C4 180.0 179.5
O3 C3 C4 C4A 0.3 359.8
O3 C3 C4 C5 180.1 180.0
C2 C3 C4 O3 180.0 180.5
C4 C3 O3 HO3 0.0 90.0
C4A C4 C3 C5 180.2 179.7
C3 C4 C4A N 333.8 270.3
C3 C4 C4A H4A1 99.0 30.3
C3 C4 C4A H4A2 208.5 150.3
C3 C4 C5 C6 359.9 359.8
C3 C4 C5 C5A 180.1 179.7
HO3 O3 C3 C4 0.0 90.0
C3 C4 C4A C5 179.7 180.3
C4A C4 C5 C6 179.7 180.0
C4A C4 C5 C5A 359.8 360.0
N C4A C4 H4A1 234.8 240.0
N C4A C4 H4A2 125.3 120.0
C4 C4A N CA 179.0 180.0
C4 C4A N HN 53.7 293.7
H4A1 C4A C4 H4A2 250.5 240.0
N1 C6 C5 C4 360.0 359.9
C3 C4 C5 C4A 180.2 179.7
C5 C4 C4A N 154.0 90.0
C5 C4 C4A H4A1 279.2 210.0
C5 C4 C4A H4A2 28.7 330.0
C6 C5 C4 C5A 179.9 180.1
C4 C5 C6 H6 180.0 180.0
C4 C5 C5A OP4 45.1 180.0
C4 C5 C5A H5A1 170.3 300.0
C4 C5 C5A H5A2 279.8 60.0
N C4A C4 C5 154.0 90.0
C4 C4A N H4A1 125.2 120.0
C4 C4A N H4A2 234.7 240.0
H4A1 C4A N H4A2 109.5 120.0
CA N C4A HN 125.3 246.2
C4A N CA CB2 276.7 60.1
C4A N CA CB1 36.6 180.0
C4A N CA C 161.3 300.0
H4A1 C4A C4 C5 279.2 210.0
C4 C4A H4A1 N 234.8 240.0
C4 C4A H4A1 H4A2 117.4 120.0
N C4A H4A1 H4A2 242.6 240.0
H4A1 C4A N CA 53.7 60.0
H4A1 C4A N HN 288.4 173.8
H4A2 C4A C4 C5 28.7 330.0
C4 C4A H4A2 N 125.3 120.0
C4 C4A H4A2 H4A1 242.6 240.0
N C4A H4A2 H4A1 117.4 120.0
H4A2 C4A N CA 304.3 300.0
H4A2 C4A N HN 179.0 53.7
N1 C6 C5 H6 180.0 179.9
C4 C5 C6 C5A 180.1 179.9
C6 C5 C5A OP4 225.2 360.0
C6 C5 C5A H5A1 350.4 120.0
C6 C5 C5A H5A2 99.9 240.0
C4 C5 C5A C6 179.9 180.1
C5A C5 C6 H6 359.9 0.1
OP4 C5A C5 H5A1 234.8 240.0
OP4 C5A C5 H5A2 125.3 120.0
C5 C5A OP4 P 180.1 180.0
H5A1 C5A C5 H5A2 250.5 240.0
N1 C6 H6 C5 180.0 180.1
H6 C6 C5 C5A 359.9 0.1
C5 C5A OP4 H5A1 125.2 120.0
C5 C5A OP4 H5A2 234.8 240.0
H5A1 C5A OP4 H5A2 109.5 120.0
C5A OP4 P OP1 239.8 175.0
C5A OP4 P OP2 114.8 295.0
C5A OP4 P OP3 359.1 55.0
C5 C5A H5A1 OP4 230.9 240.0
C5 C5A H5A1 H5A2 115.4 120.0
OP4 C5A H5A1 H5A2 244.5 240.0
H5A1 C5A OP4 P 54.8 60.0
C5 C5A H5A2 OP4 129.1 120.0
C5 C5A H5A2 H5A1 244.6 240.0
OP4 C5A H5A2 H5A1 115.5 120.0
H5A2 C5A OP4 P 305.3 300.0
P OP4 C5A H5A1 54.8 60.0
P OP4 C5A H5A2 305.3 300.0
OP1 P OP4 OP2 125.0 240.0
OP1 P OP4 OP3 240.6 120.0
OP2 P OP4 OP3 115.7 240.0
OP4 P OP2 HP2 180.0 300.0
OP4 P OP3 HP3 180.0  
OP4 P OP1 OP2 244.5 119.9
OP4 P OP1 OP3 119.0 240.0
OP2 P OP1 OP3 234.5 120.1
OP1 P OP2 HP2 59.1 60.0
OP1 P OP3 HP3 300.8  
OP4 P OP2 OP1 120.9 240.1
OP4 P OP2 OP3 245.7 120.0
OP1 P OP2 OP3 124.8 239.9
OP2 P OP3 HP3 70.3  
OP4 P OP3 OP1 239.2 120.0
OP4 P OP3 OP2 109.7 240.0
OP1 P OP3 OP2 230.6 120.0
OP3 P OP2 HP2 294.3 180.0
HP2 OP2 P OP3 294.3 180.0
CA N C4A H4A1 53.7 60.0
CA N C4A H4A2 304.3 300.0
C4A N CA HN 234.7 113.8
CB2 CA N CB1 240.0 240.0
CB2 CA N C 115.4 120.1
N CA CB2 HB21 180.0 59.9
N CA CB2 HB22 305.3 180.0
N CA CB2 HB23 54.7 300.0
CB1 CA N C 235.3 240.0
N CA CB1 CG 99.8 180.0
N CA CB1 HB11 225.0 300.0
N CA CB1 HB12 334.5 60.0
N CA C O 190.0 325.0
N CA C OXT 10.4 145.0
HN N C4A H4A1 288.4 173.8
HN N C4A H4A2 179.0 53.7
C4A N HN CA 139.1 246.3
HN N CA CB2 41.9 306.3
HN N CA CB1 161.9 66.2
HN N CA C 286.6 186.2
CB2 CA N HN 41.9 306.3
N CA CB2 CB1 118.8 119.9
N CA CB2 C 244.5 240.0
CB1 CA CB2 C 125.7 120.0
CB2 CA CB1 CG 217.8 300.0
CB2 CA CB1 HB11 343.1 60.0
CB2 CA CB1 HB12 92.5 180.0
CB2 CA C O 74.5 205.0
CB2 CA C OXT 254.8 25.0
HB21 CB2 CA HB22 234.8 239.9
HB21 CB2 CA HB23 125.3 120.0
HB22 CB2 CA HB23 250.6 240.1
CB1 CA N HN 161.9 66.2
N CA CB1 CB2 242.0 240.0
N CA CB1 C 120.5 120.0
CB2 CA CB1 C 238.5 239.9
CB1 CA CB2 HB21 61.2 300.0
CB1 CA CB2 HB22 186.5 60.1
CB1 CA CB2 HB23 295.9 180.0
CB1 CA C O 311.1 85.0
CB1 CA C OXT 131.5 264.9
CG CB1 CA HB11 234.7 240.0
CG CB1 CA HB12 125.3 120.0
CA CB1 CG CD 290.0 180.0
CA CB1 CG HG1 55.2 299.9
CA CB1 CG HG2 164.8 60.0
HB11 CB1 CA HB12 250.5 240.0
C CA N HN 286.6 186.2
N CA C CB2 115.5 120.0
N CA C CB1 238.9 240.0
CB2 CA C CB1 123.3 120.0
C CA CB2 HB21 295.6 180.0
C CA CB2 HB22 60.8 300.0
C CA CB2 HB23 170.2 60.0
C CA CB1 CG 339.3 60.1
C CA CB1 HB11 104.6 180.0
C CA CB1 HB12 214.0 300.0
O C CA OXT 179.6 180.0
CA C OXT HXT 180.0  
HB21 CB2 CA CB1 61.2 300.0
HB21 CB2 CA C 295.6 180.0
CA CB2 HB21 HB22 125.2 120.0
CA CB2 HB21 HB23 234.7 240.0
HB22 CB2 HB21 HB23 109.4 120.0
HB22 CB2 CA CB1 186.5 60.1
HB22 CB2 CA C 60.8 300.0
CA CB2 HB22 HB21 237.7 240.0
CA CB2 HB22 HB23 118.9 119.9
HB21 CB2 HB22 HB23 241.2 240.0
HB23 CB2 CA CB1 295.9 180.0
HB23 CB2 CA C 170.2 60.0
CA CB2 HB23 HB21 122.4 120.0
CA CB2 HB23 HB22 241.2 240.1
HB21 CB2 HB23 HB22 118.8 120.1
CG CB1 CA C 339.3 60.1
CA CB1 CG HB11 125.2 120.0
CA CB1 CG HB12 234.8 240.0
HB11 CB1 CG HB12 109.6 120.0
CD CG CB1 HG1 234.8 240.1
CD CG CB1 HG2 125.2 120.0
CB1 CG CD OE1 288.1 180.0
CB1 CG CD OE2 107.9 359.9
HG1 CG CB1 HG2 250.5 239.9
HB11 CB1 CA C 104.6 180.0
CA CB1 HB11 CG 227.3 240.1
CA CB1 HB11 HB12 113.6 120.0
CG CB1 HB11 HB12 246.3 240.0
HB11 CB1 CG CD 164.8 60.0
HB11 CB1 CG HG1 290.0 179.9
HB11 CB1 CG HG2 39.5 300.0
HB12 CB1 CA C 214.0 300.0
CA CB1 HB12 CG 132.7 120.0
CA CB1 HB12 HB11 246.4 240.0
CG CB1 HB12 HB11 113.7 120.0
HB12 CB1 CG CD 55.2 300.0
HB12 CB1 CG HG1 180.5 59.9
HB12 CB1 CG HG2 290.0 180.0
CD CG CB1 HB11 164.8 60.0
CD CG CB1 HB12 55.2 300.0
CB1 CG CD HG1 125.2 119.9
CB1 CG CD HG2 234.8 240.0
HG1 CG CD HG2 109.5 120.0
OE1 CD CG OE2 180.3 180.0
CG CD OE1 HE1 180.0 179.9
HG1 CG CB1 HB11 290.0 179.9
HG1 CG CB1 HB12 180.5 59.9
CB1 CG HG1 CD 235.0 240.1
CB1 CG HG1 HG2 117.5 120.1
CD CG HG1 HG2 242.5 240.0
HG1 CG CD OE1 162.9 60.0
HG1 CG CD OE2 342.6 240.0
HG2 CG CB1 HB11 39.5 300.0
HG2 CG CB1 HB12 290.0 180.0
CB1 CG HG2 CD 125.1 120.0
CB1 CG HG2 HG1 242.6 239.9
CD CG HG2 HG1 117.5 119.9
HG2 CG CD OE1 53.4 300.0
HG2 CG CD OE2 233.1 119.9
OE1 CD CG HG1 162.9 60.0
OE1 CD CG HG2 53.4 300.0
CG CD OE1 OE2 179.7 180.0
OE2 CD CG HG1 342.6 240.0
OE2 CD CG HG2 233.1 119.9
CG CD OE2 OE1 180.3 180.0
OE2 CD OE1 HE1 0.3 360.0
HE1 OE1 CD OE2 0.3 360.0
CA C O OXT 180.4 180.0
O C OXT HXT 0.4  
CA C OXT O 179.6 180.0