PDB Chemical Component M6D

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 M6D

Atom I	Atom J	Distance (Experimental Model)	Distance (Ideal Model)
C2	C1	1.557	1.531
O1	C1	1.412	1.429
C1	O5	1.475	1.428
C1	H1	1.100	1.090
O2	C2	1.432	1.430
C2	C3	1.557	1.532
C2	H2	1.100	1.090
O3	C3	1.421	1.429
C3	C4	1.546	1.532
C3	H3	1.100	1.091
C4	O4	1.430	1.429
C4	C5	1.556	1.531
C4	H4	1.100	1.090
O5	C5	1.478	1.429
C5	C6	1.527	1.530
C5	H5	1.100	1.090
C6	O6	1.431	1.429
C6	H61	1.100	1.089
C6	H62	1.100	1.091
O1	HO1	0.950	0.967
O2	HO2	0.950	0.967
O3	HO3	0.950	0.966
O4	HO4	0.950	0.967
O6	P	1.590	1.610
O3P	P	1.511	1.480
P	O1P	1.504	1.610
P	O2P	1.518	1.610
O1P	HO1P	0.950	0.967
O2P	HO2P	0.950	0.967

Bond Angles for M6D

Atom I	Atom J	Atom K	Angle (Experimental Model)	Angle (Ideal Model)
C2	C1	O5	109.9	109.4
C2	C1	H1	108.1	109.4
O1	C1	O5	108.2	109.5
O1	C1	H1	109.9	109.4
O5	C1	H1	110.3	109.5
C1	O5	C5	114.3	114.1
O2	C2	H2	109.0	109.6
C3	C2	H2	110.0	109.6
C2	C3	C4	110.1	109.1
C2	C3	H3	108.6	109.5
O3	C3	H3	109.2	109.6
C4	C3	H3	109.2	109.5
C3	C4	O4	109.5	109.5
C3	C4	C5	108.8	109.2
C3	C4	H4	110.3	109.5
C5	C4	O4	110.6	109.5
O4	C4	H4	108.5	109.5
C4	O4	HO4	109.5	114.0
C5	C4	H4	109.2	109.6
C4	C5	C6	111.3	109.5
C4	C5	H5	108.2	109.5
O5	C5	H5	110.9	109.5
C6	C5	H5	108.7	109.5
C5	C6	O6	115.2	109.5
C5	C6	H61	107.6	109.5
C5	C6	H62	106.3	109.5
O6	C6	H61	107.6	109.5
O6	C6	H62	106.3	109.4
C6	O6	P	123.1	123.0
H61	C6	H62	114.0	109.4
O6	P	O1P	110.5	109.5
O6	P	O2P	110.4	109.5
O1P	P	O2P	108.0	109.5
P	O1P	HO1P	109.5	114.0
P	O2P	HO2P	109.5	114.0

Torsion Angles for M6D

Atom I	Atom J	Atom K	Atom L	Angle (Experimental Model)	Angle (Ideal Model)
O1	C1	C2	O5	119.3	120.0
O1	C1	C2	H1	239.8	240.1
O5	C1	C2	H1	120.5	120.0
C2	C1	O5	C5	301.0	298.8
C2	C1	O1	O5	239.7	240.0
C2	C1	O1	H1	119.2	119.9
O5	C1	O1	H1	239.5	239.9
O1	C1	O5	C5	180.4	178.8
C2	C1	O5	H1	240.8	240.0
O1	C1	O5	H1	120.2	120.0
C1	O5	C5	H5	300.6	301.2
C2	C1	H1	O5	120.2	120.0
O1	C1	H1	O5	240.8	239.9
H1	C1	O5	C5	60.2	58.8
O2	C2	C1	O5	296.3	297.7
O2	C2	C1	H1	175.8	177.7
C3	C2	O2	H2	120.4	120.2
O2	C2	C3	H3	181.4	182.8
C3	C2	C1	O5	56.1	57.5
C3	C2	C1	H1	295.6	297.5
O2	C2	C3	H2	240.2	239.8
O3	C3	C2	H3	119.5	120.2
C4	C3	C2	H3	240.5	240.2
C2	C3	C4	O4	179.9	176.9
C2	C3	C4	C5	59.0	56.9
C2	C3	C4	H4	299.2	297.0
H2	C2	C1	O5	176.5	177.5
H2	C2	C1	H1	56.0	57.5
H2	C2	C3	C4	181.8	183.1
H2	C2	C3	H3	301.3	303.0
O3	C3	C2	H2	60.8	63.2
C2	C3	O3	H3	240.8	239.9
C4	C3	O3	H3	119.5	120.2
O3	C3	C4	O4	301.2	296.8
O3	C3	C4	H4	60.5	56.9
C4	C3	C2	H2	181.8	183.1
C2	C3	C4	H3	119.1	119.8
O3	C3	C4	H3	240.4	239.8
C5	C4	C3	O4	239.1	240.1
O4	C4	C3	H4	240.7	239.9
C3	C4	O4	HO4	49.4	60.0
C5	C4	C3	H4	119.8	119.9
C3	C4	C5	C6	182.2	182.4
C3	C4	C5	H5	62.8	62.4
H3	C3	C2	H2	301.3	303.0
C2	C3	H3	C4	239.9	240.4
H3	C3	C4	O4	60.8	57.1
H3	C3	C4	C5	299.9	297.1
H3	C3	C4	H4	180.1	177.2
O4	C4	C3	H3	60.8	57.1
C3	C4	O4	C5	240.2	240.3
C3	C4	O4	H4	120.4	120.1
C5	C4	O4	H4	240.2	239.8
O4	C4	C5	C6	62.0	62.5
O4	C4	C5	H5	302.6	302.4
C1	O5	C5	C4	59.6	61.2
C5	C4	C3	H3	299.9	297.1
C3	C4	C5	O4	120.2	119.9
C3	C4	C5	H4	239.6	240.1
O4	C4	C5	H4	119.3	120.2
C5	C4	O4	HO4	169.2	179.7
O5	C5	C4	H5	239.2	240.0
C6	C5	C4	H5	119.4	120.1
C4	C5	C6	O6	180.7	185.0
C4	C5	C6	H61	300.7	305.0
C4	C5	C6	H62	63.3	65.0
H4	C4	C3	H3	180.1	177.2
C3	C4	H4	O4	240.1	239.9
C3	C4	H4	C5	119.5	119.7
C5	C4	H4	O4	120.6	120.2
H4	C4	O4	HO4	288.9	299.9
H4	C4	C5	C6	302.6	302.3
H4	C4	C5	H5	183.2	182.3
C5	O5	C1	H1	60.2	58.8
O5	C5	C4	H4	62.5	62.3
C4	C5	O5	H5	119.1	119.9
C6	C5	O5	H5	240.6	239.9
O5	C5	C6	O6	60.5	65.1
O5	C5	C6	H61	180.5	185.1
O5	C5	C6	H62	303.1	305.1
C1	O5	C5	C6	181.1	181.2
C6	C5	C4	O4	62.0	62.5
C6	C5	C4	H4	302.6	302.3
C4	C5	C6	H5	240.9	240.0
O5	C5	C6	H5	120.8	120.1
O6	C6	C5	H61	240.0	240.0
O6	C6	C5	H62	117.4	120.0
C5	C6	O6	P	215.1	180.0
H61	C6	C5	H62	237.4	240.0
H5	C5	C4	O4	302.6	302.4
H5	C5	C4	H4	183.2	182.3
C4	C5	H5	C6	121.0	120.0
H5	C5	C6	O6	299.7	305.0
H5	C5	C6	H61	59.8	65.0
H5	C5	C6	H62	182.3	185.0
O6	C6	C5	H5	299.7	305.0
C5	C6	O6	H61	120.0	120.1
C5	C6	O6	H62	242.6	240.0
H61	C6	O6	H62	122.6	120.0
C6	O6	P	O1P	300.7	175.0
C6	O6	P	O2P	181.4	295.0
H61	C6	C5	H5	59.8	65.0
C5	C6	H61	O6	235.3	240.0
C5	C6	H61	H62	117.7	120.0
O6	C6	H61	H62	242.4	240.0
H61	C6	O6	P	95.1	59.9
H62	C6	C5	H5	182.3	185.0
C5	C6	H62	O6	123.2	120.0
C5	C6	H62	H61	241.6	240.0
O6	C6	H62	H61	118.4	120.0
H62	C6	O6	P	332.6	300.0
HO1	O1	C1	O5	311.0	300.0
HO1	O1	C1	H1	71.5	60.1
HO2	O2	C2	H2	146.7	60.1
HO3	O3	C3	H3	102.0	60.2
HO4	O4	C4	H4	288.9	299.9
P	O6	C6	H61	95.1	59.9
P	O6	C6	H62	332.6	300.0
O1P	P	O6	O2P	119.4	240.0
O6	P	O1P	HO1P	50.5	180.0
O6	P	O2P	HO2P	100.1	300.0
O3P	P	O1P	HO1P	289.3	300.0
O3P	P	O2P	HO2P	221.4	180.0
O6	P	O1P	O2P	239.2	120.0
O1P	P	O2P	HO2P	339.2	60.0
O6	P	O2P	O1P	120.9	240.0
O2P	P	O1P	HO1P	171.3	60.0
HO1P	O1P	P	O2P	171.3	60.0