English 日本語简体中文繁體中文 한국어

✖

Menu

RCSB PDB PDBe BMRB Adv. Search Search help

Summary Geometry Related PDB entries

O09

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
O3	C8	doub	1.21Å	1.22Å
C8	O2	sing	1.34Å	1.33Å
C8	C7	sing	1.51Å	1.51Å
C7	O1	sing	1.43Å	1.42Å
O1	N2	sing	1.42Å	1.37Å
N2	C6	doub	1.29Å	1.26Å
C6	C5	sing	1.48Å	1.48Å
C5	C4	doub	1.40Å	1.39Å	Aromatic
C5	C9	sing	1.40Å	1.39Å	Aromatic
C4	C3	sing	1.38Å	1.39Å	Aromatic
C9	C10	doub	1.38Å	1.41Å	Aromatic
C3	C2	doub	1.40Å	1.39Å	Aromatic
C10	C2	sing	1.40Å	1.39Å	Aromatic
C2	C1	sing	1.48Å	1.50Å
N1	C1	sing	1.38Å	1.34Å
C1	N3	doub	1.30Å	1.28Å
N1	HN1	sing	0.97Å	1.00Å
N1	HN1A	sing	0.97Å	1.00Å
O2	HO2	sing	0.97Å	0.95Å
C3	H3	sing	1.08Å	1.08Å
N3	HN3	sing	0.97Å	1.00Å
C4	H4	sing	1.08Å	1.08Å
C6	H6	sing	1.08Å	1.08Å
C7	H7	sing	1.09Å	1.10Å
C7	H7A	sing	1.09Å	1.10Å
C9	H9	sing	1.08Å	1.08Å
C10	H10	sing	1.08Å	1.08Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O3	C8	O2	119.1°	120.0°
O3	C8	C7	119.8°	120.0°
O2	C8	C7	121.1°	120.0°
C8	O2	HO2	109.5°	117.0°
C8	C7	O1	109.8°	109.4°
C8	C7	H7	109.3°	109.5°
C8	C7	H7A	109.4°	109.5°
C7	O1	N2	119.1°	114.0°
O1	C7	H7	109.4°	109.4°
O1	C7	H7A	109.3°	109.4°
O1	N2	C6	116.9°	120.0°
N2	C6	C5	125.5°	120.0°
N2	C6	H6	117.2°	120.0°
C6	C5	C4	116.6°	120.0°
C6	C5	C9	123.7°	120.0°
C5	C6	H6	117.2°	120.0°
C4	C5	C9	119.7°	120.0°
C5	C4	C3	120.1°	120.0°
C5	C4	H4	120.0°	120.0°
C5	C9	C10	120.2°	119.9°
C5	C9	H9	119.9°	120.0°
C4	C3	C2	120.9°	120.0°
C4	C3	H3	119.5°	120.0°
C3	C4	H4	120.0°	120.0°
C9	C10	C2	119.6°	120.1°
C10	C9	H9	119.9°	120.0°
C9	C10	H10	120.2°	120.0°
C3	C2	C10	119.4°	120.0°
C3	C2	C1	118.5°	120.0°
C2	C3	H3	119.5°	120.0°
C10	C2	C1	122.2°	120.0°
C2	C10	H10	120.2°	120.0°
C2	C1	N1	118.2°	120.0°
C2	C1	N3	121.2°	120.0°
N1	C1	N3	120.6°	120.1°
C1	N1	HN1	120.0°	120.0°
C1	N1	HN1A	120.0°	120.0°
C1	N3	HN3	112.0°	119.9°
HN1	N1	HN1A	120.0°	120.0°
H7	C7	H7A	109.6°	109.5°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O3	C8	O2	C7	179.5°	179.9°
O3	C8	C7	O1	178.8°	0.0°
O3	C8	O2	HO2	0.0°	0.1°
O3	C8	C7	H7	58.8°	120.0°
O3	C8	C7	H7A	61.2°	120.0°
O2	C8	C7	O1	0.7°	180.0°
O2	C8	C7	H7	120.7°	60.1°
O2	C8	C7	H7A	119.3°	60.0°
C8	C7	O1	H7	120.0°	120.0°
C8	C7	O1	H7A	120.0°	120.0°
C8	C7	O1	N2	79.3°	180.0°
C7	C8	O2	HO2	179.5°	180.0°
C8	C7	H7	H7A	119.9°	120.1°
C7	O1	N2	C6	152.2°	180.0°
O1	C7	H7	H7A	119.8°	120.0°
O1	N2	C6	C5	180.0°	180.0°
O1	N2	C6	H6	0.0°	0.0°
N2	O1	C7	H7	40.7°	60.0°
N2	O1	C7	H7A	160.7°	60.0°
N2	C6	C5	H6	180.0°	180.0°
N2	C6	C5	C4	167.1°	179.9°
N2	C6	C5	C9	14.4°	0.0°
C6	C5	C4	C9	178.5°	179.9°
C6	C5	C4	C3	179.7°	180.0°
C6	C5	C9	C10	179.6°	179.7°
C6	C5	C4	H4	0.3°	0.1°
C6	C5	C9	H9	0.4°	0.0°
C5	C4	C3	H4	180.0°	179.9°
C4	C5	C9	C10	1.2°	0.2°
C5	C4	C3	C2	0.7°	0.0°
C5	C4	C3	H3	179.3°	179.9°
C4	C5	C6	H6	12.9°	0.1°
C4	C5	C9	H9	178.8°	179.9°
C9	C5	C4	C3	1.1°	0.0°
C5	C9	C10	H9	180.0°	179.7°
C5	C9	C10	C2	0.8°	0.5°
C9	C5	C4	H4	178.9°	180.0°
C9	C5	C6	H6	165.6°	180.0°
C5	C9	C10	H10	179.2°	180.0°
C4	C3	C2	H3	180.0°	179.9°
C4	C3	C2	C10	0.3°	0.3°
C4	C3	C2	C1	179.9°	180.0°
C9	C10	C2	C3	0.4°	0.5°
C9	C10	C2	H10	180.0°	179.5°
C9	C10	C2	C1	179.8°	179.7°
C3	C2	C10	C1	179.8°	179.8°
C3	C2	C1	N1	12.4°	179.7°
C3	C2	C1	N3	168.3°	0.0°
C2	C3	C4	H4	179.3°	179.9°
C3	C2	C10	H10	179.6°	179.9°
C10	C2	C1	N1	167.4°	0.5°
C10	C2	C1	N3	11.9°	179.8°
C10	C2	C3	H3	179.6°	179.8°
C2	C10	C9	H9	179.1°	179.8°
C2	C1	N1	N3	179.3°	179.7°
C2	C1	N1	HN1	179.3°	179.7°
C2	C1	N1	HN1A	0.7°	0.3°
C1	C2	C3	H3	0.2°	0.0°
C2	C1	N3	HN3	179.2°	179.7°
C1	C2	C10	H10	0.2°	0.2°
C1	N1	HN1	HN1A	180.0°	180.0°
N1	C1	N3	HN3	0.0°	0.0°
N3	C1	N1	HN1	0.0°	0.0°
N3	C1	N1	HN1A	180.0°	180.0°
H3	C3	C4	H4	0.7°	0.0°
H9	C9	C10	H10	0.9°	0.2°

223532

PDB entries from 2024-08-07

PDB statistics

PDBj update info

Contact PDBj

numon