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

LDP

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C7	C1	sing	1.51Å	1.60Å
C7	C8	sing	1.53Å	1.63Å
C7	H71	sing	1.09Å	1.12Å
C7	H72	sing	1.09Å	1.12Å
C1	C2	doub	1.38Å	1.50Å	Aromatic
C1	C6	sing	1.38Å	1.51Å	Aromatic
C4	C5	sing	1.39Å	1.45Å	Aromatic
C4	C3	doub	1.39Å	1.51Å	Aromatic
C4	O2	sing	1.36Å	1.38Å
C2	C3	sing	1.39Å	1.47Å	Aromatic
C2	H2	sing	1.08Å	1.10Å
C6	C5	doub	1.38Å	1.43Å	Aromatic
C6	H6	sing	1.08Å	1.10Å
C5	H5	sing	1.08Å	1.10Å
C3	O1	sing	1.36Å	1.38Å
O1	HO1	sing	0.97Å	0.95Å
O2	HO2	sing	0.97Å	0.95Å
C8	N1	sing	1.47Å	1.52Å
C8	H81	sing	1.09Å	1.12Å
C8	H82	sing	1.09Å	1.11Å
N1	HN11	sing	1.01Å	1.02Å
N1	HN12	sing	1.01Å	1.02Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
C1	C7	C8	114.3°	109.5°
C1	C7	H71	110.5°	109.5°
C1	C7	H72	110.5°	109.5°
C7	C1	C2	121.9°	119.9°
C7	C1	C6	119.7°	120.0°
C8	C7	H71	110.5°	109.4°
C8	C7	H72	110.5°	109.5°
C7	C8	N1	113.0°	109.5°
C7	C8	H81	110.9°	109.4°
C7	C8	H82	110.9°	109.5°
H71	C7	H72	99.8°	109.4°
C2	C1	C6	118.4°	120.1°
C1	C2	C3	119.6°	120.0°
C1	C2	H2	121.0°	120.0°
C1	C6	C5	121.9°	120.2°
C1	C6	H6	121.9°	119.9°
C5	C4	C3	120.9°	119.9°
C5	C4	O2	117.5°	120.1°
C4	C5	C6	120.0°	120.0°
C4	C5	H5	120.9°	120.0°
C3	C4	O2	121.5°	120.0°
C4	C3	C2	119.2°	119.8°
C4	C3	O1	118.6°	120.1°
C4	O2	HO2	117.5°	106.9°
C3	C2	H2	119.4°	119.9°
C2	C3	O1	122.2°	120.1°
C5	C6	H6	116.2°	119.9°
C6	C5	H5	119.1°	120.1°
C3	O1	HO1	118.6°	106.8°
N1	C8	H81	111.0°	109.5°
N1	C8	H82	111.0°	109.5°
C8	N1	HN11	112.9°	106.8°
C8	N1	HN12	110.9°	106.7°
H81	C8	H82	99.4°	109.4°
HN11	N1	HN12	111.0°	106.6°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
C1	C7	C8	H71	125.3°	120.0°
C1	C7	C8	H72	125.3°	120.1°
C1	C7	H71	H72	116.3°	120.1°
C7	C1	C2	C6	180.0°	179.8°
C7	C1	C2	C3	179.9°	179.8°
C7	C1	C2	H2	0.1°	0.2°
C7	C1	C6	C5	179.9°	180.0°
C7	C1	C6	H6	0.1°	0.0°
C1	C7	C8	N1	55.9°	180.0°
C1	C7	C8	H81	69.4°	60.0°
C1	C7	C8	H82	178.8°	59.9°
C8	C7	H71	H72	116.3°	119.9°
C8	C7	C1	C2	143.5°	90.3°
C8	C7	C1	C6	36.5°	89.9°
C7	C8	N1	H81	125.2°	120.0°
C7	C8	N1	H82	125.2°	120.1°
C7	C8	H81	H82	116.8°	119.9°
C7	C8	N1	HN11	180.0°	179.9°
C7	C8	N1	HN12	54.7°	66.2°
H71	C7	C1	C2	18.3°	149.8°
H71	C7	C1	C6	161.8°	30.0°
H71	C7	C8	N1	178.8°	60.0°
H71	C7	C8	H81	55.9°	180.0°
H71	C7	C8	H82	53.6°	60.1°
H72	C7	C1	C2	91.2°	29.8°
H72	C7	C1	C6	88.8°	150.0°
H72	C7	C8	N1	69.4°	59.9°
H72	C7	C8	H81	165.3°	60.1°
H72	C7	C8	H82	55.9°	180.0°
C1	C2	C3	C4	0.0°	0.5°
C1	C2	C3	H2	180.0°	179.6°
C2	C1	C6	C5	0.0°	0.2°
C2	C1	C6	H6	180.0°	179.8°
C1	C2	C3	O1	180.0°	179.8°
C1	C6	C5	C4	0.1°	0.0°
C6	C1	C2	C3	0.1°	0.4°
C6	C1	C2	H2	179.9°	180.0°
C1	C6	C5	H6	180.0°	179.9°
C1	C6	C5	H5	179.9°	180.0°
C5	C4	C3	O2	180.0°	180.0°
C5	C4	C3	C2	0.2°	0.3°
C4	C5	C6	H5	180.0°	180.0°
C4	C5	C6	H6	179.9°	180.0°
C5	C4	C3	O1	179.9°	180.0°
C5	C4	O2	HO2	180.0°	90.0°
C4	C3	C2	O1	180.0°	179.7°
C4	C3	C2	H2	180.0°	179.9°
C3	C4	C5	C6	0.2°	0.0°
C3	C4	C5	H5	179.8°	180.0°
C4	C3	O1	HO1	180.0°	89.9°
C3	C4	O2	HO2	0.1°	90.0°
O2	C4	C3	C2	179.9°	179.7°
O2	C4	C5	C6	179.8°	180.0°
O2	C4	C5	H5	0.1°	0.0°
O2	C4	C3	O1	0.1°	0.0°
C2	C3	O1	HO1	0.0°	89.8°
H2	C2	C3	O1	0.0°	0.2°
H6	C6	C5	H5	0.1°	0.0°
N1	C8	H81	H82	116.9°	120.0°
C8	N1	HN11	HN12	125.2°	113.8°
H81	C8	N1	HN11	54.8°	60.0°
H81	C8	N1	HN12	70.5°	53.8°
H82	C8	N1	HN11	54.7°	60.0°
H82	C8	N1	HN12	180.0°	173.7°

222926

PDB entries from 2024-07-24

PDB statistics

PDBj update info

Contact PDBj

numon