Y9Y

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
O2	C2	sing	1.43Å	1.43Å
O3	C3	sing	1.43Å	1.43Å
C2	C3	sing	1.53Å	1.52Å
C2	C1	sing	1.53Å	1.52Å
O4	C4	sing	1.43Å	1.42Å
C3	C4	sing	1.53Å	1.52Å
C1	O5	sing	1.43Å	1.41Å
C1	O1	sing	1.43Å	1.41Å
C4	C5	sing	1.53Å	1.52Å
O3'	N1'	sing	1.22Å	1.22Å
O2'	N1'	doub	1.22Å	1.22Å
N1'	C4'	sing	1.48Å	1.46Å
C3'	C4'	doub	1.38Å	1.39Å	Aromatic
C3'	C2'	sing	1.38Å	1.38Å	Aromatic
C4'	C5'	sing	1.38Å	1.39Å	Aromatic
C2'	C1'	doub	1.39Å	1.38Å	Aromatic
O5	C5	sing	1.43Å	1.44Å
C5'	C6'	doub	1.38Å	1.38Å	Aromatic
C1'	C6'	sing	1.39Å	1.38Å	Aromatic
C1'	O1	sing	1.36Å	1.38Å
C5	C6	sing	1.53Å	1.51Å
C6	O6	sing	1.43Å	1.43Å
C1	H1	sing	1.09Å	1.10Å
C2	H2	sing	1.09Å	1.10Å
O2	H3	sing	0.97Å	0.95Å
C3	H4	sing	1.09Å	1.10Å
O3	H5	sing	0.97Å	0.95Å
C4	H6	sing	1.09Å	1.10Å
O4	H7	sing	0.97Å	0.95Å
C5	H8	sing	1.09Å	1.10Å
C6	H9	sing	1.09Å	1.10Å
C6	H10	sing	1.09Å	1.10Å
O6	H11	sing	0.97Å	0.95Å
C2'	H12	sing	1.08Å	1.08Å
C3'	H13	sing	1.08Å	1.08Å
C5'	H14	sing	1.08Å	1.08Å
C6'	H15	sing	1.08Å	1.08Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O2	C2	C3	111.3°	109.5°
O2	C2	C1	110.1°	109.5°
O2	C2	H2	109.7°	109.6°
C2	O2	H3	109.5°	114.0°
O3	C3	C2	109.9°	109.5°
O3	C3	C4	110.4°	109.6°
O3	C3	H4	109.7°	109.6°
C3	O3	H5	109.5°	114.0°
C3	C2	C1	109.0°	109.2°
C2	C3	C4	109.9°	109.0°
C3	C2	H2	108.5°	109.5°
C2	C3	H4	108.5°	109.5°
C2	C1	O5	110.9°	109.4°
C2	C1	O1	106.9°	109.4°
C2	C1	H1	108.5°	109.5°
C1	C2	H2	108.3°	109.5°
O4	C4	C3	109.8°	109.5°
O4	C4	C5	108.9°	109.5°
O4	C4	H6	110.3°	109.6°
C4	O4	H7	109.5°	114.0°
C3	C4	C5	109.7°	109.2°
C4	C3	H4	108.5°	109.6°
C3	C4	H6	109.1°	109.5°
O5	C1	O1	110.6°	109.5°
C1	O5	C5	113.5°	114.1°
O5	C1	H1	109.9°	109.5°
C1	O1	C1'	117.2°	117.0°
O1	C1	H1	109.9°	109.5°
C4	C5	O5	109.9°	109.4°
C4	C5	C6	112.6°	109.5°
C5	C4	H6	109.0°	109.5°
C4	C5	H8	108.8°	109.4°
O3'	N1'	O2'	123.5°	120.0°
O3'	N1'	C4'	118.3°	120.0°
O2'	N1'	C4'	118.3°	120.0°
N1'	C4'	C3'	119.1°	120.0°
N1'	C4'	C5'	119.1°	119.9°
C4'	C3'	C2'	118.6°	120.1°
C3'	C4'	C5'	121.8°	120.1°
C4'	C3'	H13	120.7°	119.9°
C3'	C2'	C1'	120.0°	119.9°
C3'	C2'	H12	120.0°	120.0°
C2'	C3'	H13	120.7°	120.0°
C4'	C5'	C6'	118.7°	120.0°
C4'	C5'	H14	120.7°	120.0°
C2'	C1'	C6'	121.0°	119.9°
C2'	C1'	O1	119.0°	120.1°
C1'	C2'	H12	120.0°	120.0°
O5	C5	C6	106.7°	109.5°
O5	C5	H8	109.9°	109.5°
C5'	C6'	C1'	119.9°	119.9°
C6'	C5'	H14	120.6°	119.9°
C5'	C6'	H15	120.1°	120.0°
C6'	C1'	O1	120.0°	120.1°
C1'	C6'	H15	120.1°	120.0°
C5	C6	O6	111.4°	109.5°
C6	C5	H8	109.0°	109.5°
C5	C6	H9	109.0°	109.6°
C5	C6	H10	109.0°	109.5°
O6	C6	H9	109.0°	109.4°
O6	C6	H10	109.0°	109.4°
C6	O6	H11	109.5°	114.0°
H9	C6	H10	109.5°	109.5°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O2	C2	C3	O3	60.6°	63.2°
O2	C2	C3	C1	121.5°	120.0°
O2	C2	C3	H2	120.7°	120.2°
O2	C2	C1	H2	119.9°	120.2°
O2	C2	C3	C4	177.7°	176.9°
O2	C2	C1	O5	179.6°	177.5°
O2	C2	C1	O1	59.0°	57.5°
O2	C2	C1	H1	59.5°	62.4°
O2	C2	C3	H4	59.3°	57.0°
O3	C3	C2	C4	121.6°	119.9°
O3	C3	C2	H4	119.9°	120.2°
O3	C3	C2	C1	177.8°	176.8°
O3	C3	C4	O4	58.0°	56.9°
O3	C3	C4	H4	120.2°	120.3°
O3	C3	C4	C5	177.7°	176.9°
O3	C3	C2	H2	60.1°	57.0°
O3	C3	C4	H6	63.0°	63.3°
C3	C2	C1	H2	117.8°	119.9°
C2	C3	C4	O4	63.4°	62.9°
C2	C3	C4	H4	118.4°	119.8°
C3	C2	C1	O5	57.4°	57.6°
C3	C2	C1	O1	63.3°	62.4°
C2	C3	C4	C5	56.3°	57.0°
C3	C2	C1	H1	178.2°	177.6°
C3	C2	O2	H3	180.0°	180.0°
C2	C3	O3	H5	180.0°	60.0°
C2	C3	C4	H6	175.6°	176.9°
C1	C2	C3	C4	56.2°	56.9°
C2	C1	O5	O1	118.5°	120.0°
C2	C1	O5	H1	120.0°	120.0°
C2	C1	O1	H1	117.5°	120.0°
C2	C1	O5	C5	59.9°	61.2°
C2	C1	O1	C1'	102.1°	175.1°
C1	C2	O2	H3	59.1°	60.3°
C1	C2	C3	H4	62.3°	62.9°
O4	C4	C3	C5	119.7°	119.9°
O4	C4	C3	H6	121.0°	120.2°
O4	C4	C5	H6	120.4°	120.2°
O4	C4	C5	O5	64.2°	62.3°
O4	C4	C5	C6	54.6°	57.7°
O4	C4	C3	H4	178.2°	177.2°
O4	C4	C5	H8	175.5°	177.7°
C3	C4	C5	H6	119.4°	119.9°
C3	C4	C5	O5	56.0°	57.6°
C3	C4	C5	C6	174.8°	177.6°
C4	C3	C2	H2	61.6°	62.9°
C4	C3	O3	H5	58.6°	179.5°
C3	C4	O4	H7	180.0°	60.0°
C3	C4	C5	H8	64.3°	62.4°
O5	C1	O1	H1	121.6°	120.1°
C1	O5	C5	C4	58.9°	61.2°
O5	C1	O1	C1'	137.1°	65.0°
C1	O5	C5	C6	178.8°	178.9°
O5	C1	C2	H2	60.5°	62.3°
C1	O5	C5	H8	60.8°	58.8°
C1	O1	C1'	C2'	43.4°	0.2°
O1	C1	O5	C5	58.6°	58.8°
C1	O1	C1'	C6'	138.5°	180.0°
O1	C1	C2	H2	178.9°	177.7°
C4	C5	O5	C6	122.4°	120.0°
C4	C5	O5	H8	119.6°	119.9°
C4	C5	C6	H8	120.8°	120.0°
C4	C5	C6	O6	179.0°	175.0°
C5	C4	C3	H4	62.1°	62.9°
C5	C4	O4	H7	59.8°	179.7°
C4	C5	C6	H9	60.7°	65.0°
C4	C5	C6	H10	58.8°	55.0°
O3'	N1'	O2'	C4'	179.3°	179.9°
O3'	N1'	C4'	C3'	172.0°	180.0°
O3'	N1'	C4'	C5'	7.6°	0.1°
O2'	N1'	C4'	C3'	7.3°	0.1°
O2'	N1'	C4'	C5'	173.1°	180.0°
N1'	C4'	C3'	C5'	179.6°	180.0°
N1'	C4'	C3'	C2'	180.0°	180.0°
N1'	C4'	C5'	C6'	179.7°	180.0°
N1'	C4'	C3'	H13	0.0°	0.0°
N1'	C4'	C5'	H14	0.3°	0.0°
C4'	C3'	C2'	H13	180.0°	180.0°
C4'	C3'	C2'	C1'	0.8°	0.0°
C3'	C4'	C5'	C6'	0.7°	0.1°
C4'	C3'	C2'	H12	179.2°	180.0°
C3'	C4'	C5'	H14	179.3°	180.0°
C2'	C3'	C4'	C5'	0.4°	0.0°
C3'	C2'	C1'	H12	180.0°	180.0°
C3'	C2'	C1'	C6'	1.5°	0.0°
C3'	C2'	C1'	O1	179.5°	179.8°
C4'	C5'	C6'	H14	180.0°	180.0°
C4'	C5'	C6'	C1'	1.3°	0.0°
C5'	C4'	C3'	H13	179.6°	180.0°
C4'	C5'	C6'	H15	178.7°	179.7°
C2'	C1'	C6'	C5'	1.8°	0.0°
C2'	C1'	C6'	O1	178.0°	179.8°
C1'	C2'	C3'	H13	179.2°	180.0°
C2'	C1'	C6'	H15	178.2°	179.8°
O5	C5	C6	H8	118.6°	120.1°
O5	C5	C6	O6	60.3°	65.1°
C5	O5	C1	H1	179.8°	178.8°
O5	C5	C4	H6	175.4°	177.5°
O5	C5	C6	H9	59.9°	54.9°
O5	C5	C6	H10	179.4°	175.0°
C5'	C6'	C1'	H15	180.0°	179.7°
C5'	C6'	C1'	O1	179.8°	179.8°
C6'	C1'	C2'	H12	178.5°	179.9°
C1'	C6'	C5'	H14	178.7°	180.0°
C1'	O1	C1	H1	15.5°	55.1°
O1	C1'	C2'	H12	0.4°	0.3°
O1	C1'	C6'	H15	0.2°	0.0°
C5	C6	O6	H9	120.3°	120.1°
C5	C6	O6	H10	120.3°	120.0°
C6	C5	C4	H6	65.8°	62.5°
C5	C6	H9	H10	119.1°	120.1°
C5	C6	O6	H11	180.0°	180.0°
O6	C6	C5	H8	58.3°	55.0°
O6	C6	H9	H10	119.1°	119.9°
H1	C1	C2	H2	60.4°	57.7°
H2	C2	O2	H3	60.0°	59.8°
H2	C2	C3	H4	180.0°	177.2°
H4	C3	O3	H5	60.8°	60.2°
H4	C3	C4	H6	57.2°	57.0°
H6	C4	O4	H7	59.8°	60.1°
H6	C4	C5	H8	55.1°	57.5°
H8	C5	C6	H9	178.5°	175.0°
H8	C5	C6	H10	62.0°	64.9°
H9	C6	O6	H11	59.7°	59.9°
H10	C6	O6	H11	59.7°	60.0°
H12	C2'	C3'	H13	0.8°	0.1°
H14	C5'	C6'	H15	1.3°	0.2°

Release date:	2022-02-09
Definition date:	2021-02-12
Last modified:	2022-02-04
Release status:	REL
Processing site:	RCSB
Derived from:	7LNP