YTI

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
O1P	P	doub	1.48Å	1.49Å
O3'	C3'	sing	1.43Å	1.45Å
O3'	P	sing	1.61Å	1.62Å
C3'	C4'	sing	1.55Å	1.58Å
C3'	C2'	sing	1.55Å	1.38Å
C4'	O4'	sing	1.44Å	1.58Å
P	O2P	sing	1.61Å	1.48Å
O4'	C1'	sing	1.43Å	1.50Å
C2'	C1'	sing	1.54Å	1.44Å
C1'	N1	sing	1.46Å	1.45Å
O2	C2	doub	1.22Å	1.19Å
N1	C2	sing	1.35Å	1.47Å
N1	C6	sing	1.37Å	1.49Å
C2	N3	sing	1.35Å	1.43Å
C6	C5	doub	1.35Å	1.37Å
N3	C4	sing	1.35Å	1.42Å
C5	C4	sing	1.42Å	1.52Å
C5	C5M	sing	1.51Å	1.56Å
C4	O4	doub	1.22Å	1.20Å
O2P	H2	sing	0.97Å	0.95Å
C4'	H3	sing	1.09Å	1.10Å
C4'	H4	sing	1.09Å	1.10Å
C3'	H5	sing	1.09Å	1.10Å
C2'	H6	sing	1.09Å	1.10Å
C2'	H7	sing	1.09Å	1.10Å
C1'	H8	sing	1.09Å	1.10Å
N3	H9	sing	0.97Å	1.00Å
C6	H10	sing	1.08Å	1.08Å
C5M	H11	sing	1.09Å	1.10Å
C5M	H12	sing	1.09Å	1.10Å
C5M	H13	sing	1.09Å	1.10Å
P	O3P	sing	1.61Å	1.60Å
O3P	H3P	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O1P	P	O3'	107.0°	109.5°
O1P	P	O2P	109.6°	109.5°
O1P	P	O3P	105.6°	109.5°
C3'	O3'	P	130.0°	123.0°
O3'	C3'	C4'	113.8°	111.1°
O3'	C3'	C2'	111.9°	111.1°
O3'	C3'	H5	107.9°	111.1°
O3'	P	O2P	108.0°	109.5°
O3'	P	O3P	118.4°	109.5°
C4'	C3'	C2'	107.6°	100.9°
C3'	C4'	O4'	102.5°	105.1°
C3'	C4'	H3	111.2°	110.3°
C3'	C4'	H4	111.2°	110.4°
C4'	C3'	H5	106.4°	111.1°
C3'	C2'	C1'	105.1°	102.3°
C2'	C3'	H5	108.9°	111.1°
C3'	C2'	H6	110.6°	110.8°
C3'	C2'	H7	110.6°	110.9°
C4'	O4'	C1'	101.8°	110.0°
O4'	C4'	H3	111.2°	110.3°
O4'	C4'	H4	111.2°	110.3°
P	O2P	H2	109.5°	114.0°
O2P	P	O3P	107.9°	109.4°
O4'	C1'	C2'	110.6°	107.6°
O4'	C1'	N1	108.1°	109.9°
O4'	C1'	H8	108.7°	109.8°
C2'	C1'	N1	110.6°	109.9°
C1'	C2'	H6	110.6°	110.8°
C1'	C2'	H7	110.6°	110.9°
C2'	C1'	H8	109.5°	109.8°
C1'	N1	C2	117.9°	119.7°
C1'	N1	C6	121.5°	119.7°
N1	C1'	H8	109.3°	109.9°
O2	C2	N1	119.6°	119.5°
O2	C2	N3	120.9°	119.6°
C2	N1	C6	120.7°	120.6°
N1	C2	N3	119.5°	120.9°
N1	C6	C5	119.5°	119.6°
N1	C6	H10	120.3°	120.1°
C2	N3	C4	119.9°	120.3°
C2	N3	H9	120.1°	119.8°
C6	C5	C4	120.0°	119.2°
C6	C5	C5M	122.8°	120.4°
C5	C6	H10	120.2°	120.2°
N3	C4	C5	120.4°	119.4°
N3	C4	O4	121.9°	120.3°
C4	N3	H9	120.1°	119.9°
C4	C5	C5M	117.2°	120.4°
C5	C4	O4	117.7°	120.3°
C5	C5M	H11	109.5°	109.5°
C5	C5M	H12	109.5°	109.5°
C5	C5M	H13	109.5°	109.5°
H3	C4'	H4	109.5°	110.3°
H6	C2'	H7	109.4°	110.9°
H11	C5M	H12	109.4°	109.4°
H11	C5M	H13	109.5°	109.5°
H12	C5M	H13	109.5°	109.4°
P	O3P	H3P	109.5°	114.1°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O1P	P	O3'	C3'	136.0°	55.0°
O1P	P	O3'	O2P	118.0°	120.0°
O1P	P	O3'	O3P	119.0°	120.0°
O1P	P	O2P	O3P	114.6°	120.0°
O1P	P	O2P	H2	0.0°	180.0°
O1P	P	O3P	H3P	0.0°	59.9°
O3'	C3'	C4'	C2'	124.6°	117.9°
O3'	C3'	C4'	H5	118.7°	124.2°
O3'	C3'	C2'	H5	119.2°	124.2°
O3'	C3'	C4'	O4'	145.4°	154.3°
C3'	O3'	P	O2P	106.0°	65.1°
O3'	C3'	C2'	C1'	160.0°	152.0°
O3'	C3'	C4'	H3	95.7°	35.4°
O3'	C3'	C4'	H4	26.6°	86.7°
O3'	C3'	C2'	H6	40.7°	33.9°
O3'	C3'	C2'	H7	80.7°	89.7°
C3'	O3'	P	O3P	16.9°	175.0°
P	O3'	C3'	C4'	38.4°	121.4°
P	O3'	C3'	C2'	83.9°	127.0°
O3'	P	O2P	O3P	129.1°	120.0°
O3'	P	O2P	H2	116.2°	59.9°
P	O3'	C3'	H5	156.2°	2.8°
O3'	P	O3P	H3P	119.8°	180.0°
C4'	C3'	C2'	H5	115.0°	117.9°
C3'	C4'	O4'	H3	118.9°	118.9°
C3'	C4'	O4'	H4	118.9°	119.0°
C3'	C4'	O4'	C1'	0.5°	24.4°
C4'	C3'	C2'	C1'	34.2°	34.1°
C3'	C4'	H3	H4	123.3°	122.2°
C4'	C3'	C2'	H6	85.1°	84.1°
C4'	C3'	C2'	H7	153.5°	152.4°
C2'	C3'	C4'	O4'	20.8°	36.4°
C3'	C2'	C1'	O4'	36.0°	21.3°
C3'	C2'	C1'	H6	119.3°	118.1°
C3'	C2'	C1'	H7	119.3°	118.3°
C3'	C2'	C1'	N1	155.7°	140.9°
C2'	C3'	C4'	H3	139.7°	82.5°
C2'	C3'	C4'	H4	98.1°	155.4°
C3'	C2'	H6	H7	122.0°	123.5°
C3'	C2'	C1'	H8	83.8°	98.2°
C4'	O4'	C1'	C2'	21.1°	1.8°
C4'	O4'	C1'	N1	142.3°	117.8°
O4'	C4'	H3	H4	123.2°	122.1°
O4'	C4'	C3'	H5	95.8°	81.5°
C4'	O4'	C1'	H8	99.1°	121.2°
O2P	P	O3P	H3P	117.2°	60.1°
O4'	C1'	C2'	N1	119.7°	119.6°
O4'	C1'	C2'	H8	119.7°	119.5°
O4'	C1'	N1	H8	118.2°	121.0°
O4'	C1'	N1	C2	73.8°	53.5°
O4'	C1'	N1	C6	105.3°	126.7°
C1'	O4'	C4'	H3	118.4°	94.4°
C1'	O4'	C4'	H4	119.3°	143.4°
O4'	C1'	C2'	H6	83.3°	96.8°
O4'	C1'	C2'	H7	155.3°	139.6°
C2'	C1'	N1	H8	120.6°	120.9°
C2'	C1'	N1	C2	165.0°	64.6°
C2'	C1'	N1	C6	15.9°	115.2°
C1'	C2'	C3'	H5	80.8°	83.8°
C1'	C2'	H6	H7	122.0°	123.6°
C1'	N1	C2	O2	0.3°	0.0°
C1'	N1	C2	C6	179.1°	179.8°
C1'	N1	C2	N3	179.5°	180.0°
C1'	N1	C6	C5	179.5°	179.7°
N1	C1'	C2'	H6	36.4°	22.8°
N1	C1'	C2'	H7	85.0°	100.9°
C1'	N1	C6	H10	0.5°	0.1°
O2	C2	N1	N3	179.8°	180.0°
O2	C2	N1	C6	179.4°	179.7°
O2	C2	N3	C4	179.5°	180.0°
O2	C2	N3	H9	0.5°	0.1°
C2	N1	C6	C5	0.5°	0.5°
N1	C2	N3	C4	0.3°	0.0°
C2	N1	C1'	H8	44.4°	174.5°
N1	C2	N3	H9	179.7°	180.0°
C2	N1	C6	H10	179.5°	179.7°
C6	N1	C2	N3	0.5°	0.2°
N1	C6	C5	H10	180.0°	179.8°
N1	C6	C5	C4	0.3°	0.5°
N1	C6	C5	C5M	178.8°	179.8°
C6	N1	C1'	H8	136.5°	5.7°
C2	N3	C4	H9	180.0°	179.9°
C2	N3	C4	C5	0.1°	0.0°
C2	N3	C4	O4	179.7°	180.0°
C6	C5	C4	N3	0.1°	0.2°
C6	C5	C4	C5M	179.1°	179.7°
C6	C5	C4	O4	179.7°	179.7°
C6	C5	C5M	H11	180.0°	179.7°
C6	C5	C5M	H12	60.0°	59.7°
C6	C5	C5M	H13	60.0°	60.2°
N3	C4	C5	O4	179.7°	179.9°
N3	C4	C5	C5M	179.0°	180.0°
C5	C4	N3	H9	179.9°	180.0°
C4	C5	C6	H10	179.7°	179.7°
C4	C5	C5M	H11	0.9°	0.0°
C4	C5	C5M	H12	120.9°	120.0°
C4	C5	C5M	H13	119.1°	120.0°
C5M	C5	C4	O4	1.2°	0.0°
C5M	C5	C6	H10	1.2°	0.0°
C5	C5M	H11	H12	120.0°	120.1°
C5	C5M	H11	H13	120.0°	120.0°
C5	C5M	H12	H13	120.0°	120.0°
O4	C4	N3	H9	0.4°	0.1°
H2	O2P	P	O3P	114.7°	60.0°
H3	C4'	C3'	H5	23.0°	159.6°
H4	C4'	C3'	H5	145.3°	37.5°
H5	C3'	C2'	H6	159.9°	158.1°
H5	C3'	C2'	H7	38.5°	34.5°
H6	C2'	C1'	H8	156.9°	143.7°
H7	C2'	C1'	H8	35.6°	20.1°
H11	C5M	H12	H13	120.0°	120.0°

Release date:	2024-08-28
Definition date:	2023-06-20
Last modified:	2024-08-23
Release status:	REL
Processing site:	RCSB
Derived from:	8T3X