PMO

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
N3	C2	doub	1.30Å	1.34Å	Aromatic
N3	C3A	sing	1.36Å	1.39Å	Aromatic
N1	C2	sing	1.36Å	1.36Å	Aromatic
N1	C7A	sing	1.38Å	1.42Å	Aromatic
N1	C1'	sing	1.46Å	1.49Å
C2	H21	sing	1.08Å	1.10Å
C7A	C3A	doub	1.40Å	1.38Å	Aromatic
C7A	C7	sing	1.39Å	1.40Å	Aromatic
C3A	C4	sing	1.40Å	1.40Å	Aromatic
C4	C5	doub	1.38Å	1.38Å	Aromatic
C4	H41	sing	1.08Å	1.10Å
C5	C6	sing	1.39Å	1.42Å	Aromatic
C5	O10	sing	1.36Å	1.37Å
C6	C7	doub	1.38Å	1.39Å	Aromatic
C6	H61	sing	1.08Å	1.10Å
C7	H71	sing	1.08Å	1.10Å
O10	C11	sing	1.43Å	1.41Å
C11	H111	sing	1.09Å	1.11Å
C11	H112	sing	1.09Å	1.12Å
C11	H113	sing	1.09Å	1.12Å
P	O1P	doub	1.48Å	1.49Å
P	O2P	sing	1.61Å	1.48Å
P	O3P	sing	1.61Å	1.50Å
P	O5'	sing	1.61Å	1.62Å
O2P	HOP2	sing	0.97Å	0.95Å
O3P	HOP3	sing	0.97Å	0.95Å
O5'	C5'	sing	1.43Å	1.43Å
C5'	C4'	sing	1.53Å	1.52Å
C5'	H5'1	sing	1.09Å	1.12Å
C5'	H5'2	sing	1.09Å	1.12Å
C4'	O4'	sing	1.44Å	1.47Å
C4'	C3'	sing	1.55Å	1.52Å
C4'	H4'	sing	1.09Å	1.11Å
O4'	C1'	sing	1.43Å	1.43Å
C3'	O3'	sing	1.43Å	1.43Å
C3'	C2'	sing	1.55Å	1.54Å
C3'	H3'	sing	1.09Å	1.12Å
O3'	HO3'	sing	0.97Å	0.95Å
C2'	O2'	sing	1.43Å	1.45Å
C2'	C1'	sing	1.54Å	1.54Å
C2'	H2'	sing	1.09Å	1.12Å
O2'	HO2'	sing	0.97Å	0.95Å
C1'	H1'	sing	1.09Å	1.12Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
C2	N3	C3A	106.5°	109.7°
N3	C2	N1	113.9°	110.1°
N3	C2	H21	122.4°	124.9°
N3	C3A	C7A	107.3°	106.9°
N3	C3A	C4	131.3°	133.5°
C2	N1	C7A	103.2°	107.3°
C2	N1	C1'	127.3°	126.3°
N1	C2	H21	123.6°	124.9°
C7A	N1	C1'	129.5°	126.4°
N1	C7A	C3A	109.0°	106.0°
N1	C7A	C7	132.0°	134.0°
N1	C1'	O4'	114.3°	109.9°
N1	C1'	C2'	113.7°	109.8°
N1	C1'	H1'	101.4°	109.8°
C3A	C7A	C7	119.1°	120.0°
C7A	C3A	C4	121.3°	119.6°
C7A	C7	C6	120.1°	119.9°
C7A	C7	H71	120.3°	120.0°
C3A	C4	C5	120.1°	119.7°
C3A	C4	H41	120.3°	120.2°
C5	C4	H41	119.5°	120.1°
C4	C5	C6	118.8°	120.4°
C4	C5	O10	129.5°	119.8°
C6	C5	O10	111.6°	119.8°
C5	C6	C7	120.5°	120.4°
C5	C6	H61	120.7°	119.8°
C5	O10	C11	111.3°	106.8°
C7	C6	H61	118.7°	119.8°
C6	C7	H71	119.6°	120.1°
O10	C11	H111	111.3°	109.5°
O10	C11	H112	111.5°	109.5°
O10	C11	H113	111.5°	109.5°
H111	C11	H112	111.6°	109.5°
H111	C11	H113	111.5°	109.5°
H112	C11	H113	98.8°	109.4°
O1P	P	O2P	110.9°	109.4°
O1P	P	O3P	118.1°	109.4°
O1P	P	O5'	100.6°	109.5°
O2P	P	O3P	111.1°	109.5°
O2P	P	O5'	107.5°	109.5°
P	O2P	HOP2	110.9°	106.8°
O3P	P	O5'	107.7°	109.5°
P	O3P	HOP3	118.1°	106.7°
P	O5'	C5'	120.7°	106.8°
O5'	C5'	C4'	109.1°	109.5°
O5'	C5'	H5'1	112.3°	109.5°
O5'	C5'	H5'2	112.3°	109.4°
C4'	C5'	H5'1	112.4°	109.5°
C4'	C5'	H5'2	112.4°	109.4°
C5'	C4'	O4'	109.3°	110.3°
C5'	C4'	C3'	114.7°	110.5°
C5'	C4'	H4'	104.5°	110.3°
H5'1	C5'	H5'2	98.0°	109.4°
O4'	C4'	C3'	104.7°	105.1°
O4'	C4'	H4'	114.7°	110.3°
C4'	O4'	C1'	110.3°	110.0°
C3'	C4'	H4'	109.2°	110.3°
C4'	C3'	O3'	113.5°	111.1°
C4'	C3'	C2'	98.1°	101.0°
C4'	C3'	H3'	114.4°	111.1°
O4'	C1'	C2'	103.9°	107.7°
O4'	C1'	H1'	111.6°	109.8°
O3'	C3'	C2'	110.1°	111.2°
O3'	C3'	H3'	103.5°	111.0°
C3'	O3'	HO3'	113.5°	106.8°
C2'	C3'	H3'	117.6°	111.1°
C3'	C2'	O2'	107.7°	110.9°
C3'	C2'	C1'	103.3°	102.2°
C3'	C2'	H2'	115.5°	110.8°
O2'	C2'	C1'	112.4°	111.0°
O2'	C2'	H2'	106.9°	110.8°
C2'	O2'	HO2'	107.7°	106.8°
C1'	C2'	H2'	111.0°	111.0°
C2'	C1'	H1'	112.3°	109.8°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
N3	C2	N1	H21	180.0°	179.9°
N3	C2	N1	C7A	1.1°	0.0°
N3	C2	N1	C1'	179.6°	180.0°
C2	N3	C3A	C7A	1.5°	0.0°
C2	N3	C3A	C4	177.4°	179.8°
C3A	N3	C2	N1	0.2°	0.0°
N3	C3A	C7A	N1	2.2°	0.0°
C3A	N3	C2	H21	179.8°	179.9°
N3	C3A	C7A	C4	179.1°	179.8°
N3	C3A	C7A	C7	179.3°	180.0°
N3	C3A	C4	C5	178.2°	179.8°
N3	C3A	C4	H41	1.8°	0.0°
C2	N1	C7A	C1'	179.3°	179.9°
C2	N1	C7A	C3A	2.0°	0.0°
C2	N1	C7A	C7	179.7°	180.0°
C2	N1	C1'	O4'	172.0°	28.4°
C2	N1	C1'	C2'	52.9°	89.9°
C2	N1	C1'	H1'	67.7°	149.3°
C7A	N1	C2	H21	178.9°	179.9°
N1	C7A	C3A	C7	178.5°	180.0°
N1	C7A	C3A	C4	176.9°	179.8°
N1	C7A	C7	C6	177.4°	180.0°
N1	C7A	C7	H71	2.6°	0.1°
C7A	N1	C1'	O4'	7.1°	151.6°
C7A	N1	C1'	C2'	126.1°	90.2°
C7A	N1	C1'	H1'	113.2°	30.6°
C1'	N1	C2	H21	0.4°	0.1°
C1'	N1	C7A	C3A	178.8°	179.9°
C1'	N1	C7A	C7	0.5°	0.0°
N1	C1'	O4'	C4'	118.3°	117.8°
N1	C1'	O4'	C2'	124.5°	119.5°
N1	C1'	O4'	H1'	114.4°	120.9°
N1	C1'	C2'	C3'	93.5°	140.9°
N1	C1'	C2'	O2'	22.3°	22.6°
N1	C1'	C2'	H1'	114.4°	120.8°
N1	C1'	C2'	H2'	142.1°	101.0°
C7A	C3A	C4	C5	3.0°	0.5°
C7A	C3A	C4	H41	177.0°	179.7°
C3A	C7A	C7	C6	0.7°	0.1°
C3A	C7A	C7	H71	179.3°	180.0°
C7	C7A	C3A	C4	1.7°	0.2°
C7A	C7	C6	C5	1.1°	0.1°
C7A	C7	C6	H71	180.0°	179.9°
C7A	C7	C6	H61	178.9°	180.0°
C3A	C4	C5	H41	180.0°	179.8°
C3A	C4	C5	C6	3.3°	0.5°
C3A	C4	C5	O10	178.5°	179.8°
C4	C5	C6	O10	176.0°	179.7°
C4	C5	C6	C7	2.4°	0.3°
C4	C5	C6	H61	177.6°	179.7°
C4	C5	O10	C11	0.1°	179.7°
H41	C4	C5	C6	176.7°	179.7°
H41	C4	C5	O10	1.5°	0.1°
C5	C6	C7	H61	180.0°	179.9°
C5	C6	C7	H71	178.9°	180.0°
C6	C5	O10	C11	175.4°	0.0°
O10	C5	C6	C7	178.4°	180.0°
O10	C5	C6	H61	1.6°	0.0°
C5	O10	C11	H111	180.0°	180.0°
C5	O10	C11	H112	54.7°	59.9°
C5	O10	C11	H113	54.7°	60.0°
H61	C6	C7	H71	1.1°	0.1°
O10	C11	H111	H112	125.2°	120.1°
O10	C11	H111	H113	125.3°	120.0°
O10	C11	H112	H113	117.4°	120.0°
H111	C11	H112	H113	117.4°	119.9°
O1P	P	O2P	O3P	133.4°	119.9°
O1P	P	O2P	O5'	109.1°	120.0°
O1P	P	O3P	O5'	112.9°	120.0°
O1P	P	O2P	HOP2	180.0°	60.0°
O1P	P	O3P	HOP3	180.0°	180.0°
O1P	P	O5'	C5'	64.4°	60.0°
O2P	P	O3P	O5'	117.4°	120.1°
O2P	P	O3P	HOP3	50.3°	60.1°
O2P	P	O5'	C5'	179.6°	180.0°
O3P	P	O2P	HOP2	46.6°	59.9°
O3P	P	O5'	C5'	59.9°	59.9°
O5'	P	O2P	HOP2	70.9°	180.0°
O5'	P	O3P	HOP3	67.1°	60.0°
P	O5'	C5'	C4'	93.8°	180.0°
P	O5'	C5'	H5'1	140.9°	59.9°
P	O5'	C5'	H5'2	31.5°	60.0°
O5'	C5'	C4'	H5'1	125.3°	120.1°
O5'	C5'	C4'	H5'2	125.3°	120.0°
O5'	C5'	H5'1	H5'2	118.2°	119.9°
O5'	C5'	C4'	O4'	63.3°	61.4°
O5'	C5'	C4'	C3'	179.5°	177.2°
O5'	C5'	C4'	H4'	59.9°	60.6°
C4'	C5'	H5'1	H5'2	118.3°	120.0°
C5'	C4'	O4'	C3'	123.3°	119.1°
C5'	C4'	O4'	H4'	117.0°	122.0°
C5'	C4'	C3'	H4'	117.0°	122.1°
C5'	C4'	O4'	C1'	101.5°	143.5°
C5'	C4'	C3'	O3'	163.4°	86.6°
C5'	C4'	C3'	C2'	80.5°	155.4°
C5'	C4'	C3'	H3'	44.9°	37.5°
H5'1	C5'	C4'	O4'	62.0°	178.5°
H5'1	C5'	C4'	C3'	55.2°	62.7°
H5'1	C5'	C4'	H4'	174.8°	59.4°
H5'2	C5'	C4'	O4'	171.4°	58.6°
H5'2	C5'	C4'	C3'	54.2°	57.2°
H5'2	C5'	C4'	H4'	65.4°	179.4°
O4'	C4'	C3'	H4'	123.2°	118.8°
O4'	C4'	C3'	O3'	76.8°	154.4°
O4'	C4'	C3'	C2'	39.3°	36.3°
O4'	C4'	C3'	H3'	164.7°	81.5°
C4'	O4'	C1'	C2'	6.1°	1.7°
C4'	O4'	C1'	H1'	127.3°	121.3°
C3'	C4'	O4'	C1'	21.8°	24.3°
C4'	C3'	O3'	C2'	108.9°	111.7°
C4'	C3'	O3'	H3'	124.6°	124.1°
C4'	C3'	C2'	H3'	123.1°	117.9°
C4'	C3'	O3'	HO3'	180.0°	180.0°
C4'	C3'	C2'	O2'	162.0°	84.3°
C4'	C3'	C2'	C1'	42.9°	34.0°
C4'	C3'	C2'	H2'	78.6°	152.3°
H4'	C4'	O4'	C1'	141.5°	94.5°
H4'	C4'	C3'	O3'	46.4°	35.6°
H4'	C4'	C3'	C2'	162.5°	82.5°
H4'	C4'	C3'	H3'	72.1°	159.6°
O4'	C1'	C2'	C3'	31.4°	21.3°
O4'	C1'	C2'	O2'	147.2°	96.9°
O4'	C1'	C2'	H1'	120.8°	119.6°
O4'	C1'	C2'	H2'	93.0°	139.5°
O3'	C3'	C2'	H3'	118.1°	124.1°
O3'	C3'	C2'	O2'	43.2°	33.7°
O3'	C3'	C2'	C1'	75.9°	152.0°
O3'	C3'	C2'	H2'	162.6°	89.7°
C2'	C3'	O3'	HO3'	71.1°	68.4°
C3'	C2'	O2'	C1'	113.2°	112.8°
C3'	C2'	O2'	H2'	124.7°	123.4°
C3'	C2'	C1'	H2'	124.4°	118.2°
C3'	C2'	O2'	HO2'	179.9°	61.4°
C3'	C2'	C1'	H1'	152.2°	98.3°
H3'	C3'	O3'	HO3'	55.4°	55.8°
H3'	C3'	C2'	O2'	74.9°	157.8°
H3'	C3'	C2'	C1'	166.0°	83.9°
H3'	C3'	C2'	H2'	44.5°	34.4°
O2'	C2'	C1'	H2'	119.8°	123.6°
O2'	C2'	C1'	H1'	92.0°	143.5°
C1'	C2'	O2'	HO2'	66.9°	174.2°
H2'	C2'	O2'	HO2'	55.2°	62.0°
H2'	C2'	C1'	H1'	27.7°	19.9°

Definition date:	2001-07-09
Last modified:	2020-06-17
Release status:	REL
Processing site:	RCSB
Derived from:	1JHQ