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

NPA

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C1	C2	doub	1.36Å	1.34Å	Aromatic
C1	C6	sing	1.39Å	1.41Å	Aromatic
C1	C7	sing	1.51Å	1.49Å
C2	C3	sing	1.41Å	1.38Å	Aromatic
C2	H2	sing	1.08Å	1.10Å
C3	C4	doub	1.41Å	1.39Å	Aromatic
C3	N1	sing	1.34Å	1.41Å
C4	C5	sing	1.39Å	1.37Å	Aromatic
C4	O3	sing	1.35Å	1.35Å
C5	C6	doub	1.38Å	1.36Å	Aromatic
C5	H5	sing	1.08Å	1.10Å
C6	H6	sing	1.08Å	1.10Å
C7	C8	sing	1.51Å	1.52Å
C7	H71	sing	1.09Å	1.12Å
C7	H72	sing	1.09Å	1.11Å
C8	O4	doub	1.21Å	1.21Å
C8	O5	sing	1.34Å	1.28Å
N1	O1	sing	1.22Å	1.21Å
N1	O2	doub	1.22Å	1.23Å
O3	HO3	sing	0.97Å	0.95Å
O5	HO5	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
C2	C1	C6	119.0°	120.5°
C2	C1	C7	119.0°	119.8°
C1	C2	C3	117.8°	120.0°
C1	C2	H2	119.9°	120.0°
C6	C1	C7	122.0°	119.7°
C1	C6	C5	123.2°	120.6°
C1	C6	H6	120.3°	119.7°
C1	C7	C8	110.6°	109.5°
C1	C7	H71	111.7°	109.5°
C1	C7	H72	111.8°	109.5°
C3	C2	H2	122.3°	120.0°
C2	C3	C4	123.7°	119.4°
C2	C3	N1	114.9°	120.3°
C4	C3	N1	121.4°	120.3°
C3	C4	C5	118.0°	119.4°
C3	C4	O3	128.2°	120.3°
C3	N1	O1	121.9°	120.0°
C3	N1	O2	115.5°	120.1°
C5	C4	O3	113.8°	120.3°
C4	C5	C6	118.4°	120.0°
C4	C5	H5	121.3°	120.0°
C4	O3	HO3	128.3°	106.8°
C6	C5	H5	120.3°	120.0°
C5	C6	H6	116.5°	119.7°
C8	C7	H71	111.8°	109.5°
C8	C7	H72	111.8°	109.5°
C7	C8	O4	117.0°	120.0°
C7	C8	O5	117.5°	120.0°
H71	C7	H72	98.6°	109.4°
O4	C8	O5	125.2°	120.0°
C8	O5	HO5	117.5°	120.0°
O1	N1	O2	122.6°	120.0°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
C2	C1	C6	C7	178.9°	179.7°
C1	C2	C3	H2	180.0°	179.6°
C1	C2	C3	C4	1.6°	0.5°
C1	C2	C3	N1	177.6°	179.7°
C2	C1	C6	C5	1.1°	0.3°
C2	C1	C6	H6	179.0°	179.8°
C2	C1	C7	C8	100.4°	90.3°
C2	C1	C7	H71	24.9°	149.7°
C2	C1	C7	H72	134.3°	29.7°
C6	C1	C2	C3	1.5°	0.5°
C6	C1	C2	H2	178.5°	179.9°
C1	C6	C5	C4	0.5°	0.1°
C1	C6	C5	H6	180.0°	179.9°
C1	C6	C5	H5	179.5°	180.0°
C6	C1	C7	C8	78.5°	90.0°
C6	C1	C7	H71	156.3°	30.0°
C6	C1	C7	H72	46.9°	149.9°
C7	C1	C2	C3	179.6°	179.8°
C7	C1	C2	H2	0.4°	0.2°
C7	C1	C6	C5	179.9°	180.0°
C7	C1	C6	H6	0.1°	0.1°
C1	C7	C8	H71	125.2°	120.1°
C1	C7	C8	H72	125.3°	120.0°
C1	C7	H71	H72	117.6°	120.0°
C1	C7	C8	O4	99.0°	0.0°
C1	C7	C8	O5	86.4°	180.0°
C2	C3	C4	N1	179.0°	179.8°
C2	C3	C4	C5	1.0°	0.2°
C2	C3	C4	O3	179.7°	179.7°
C2	C3	N1	O1	1.0°	179.8°
C2	C3	N1	O2	179.2°	0.2°
H2	C2	C3	C4	178.5°	179.9°
H2	C2	C3	N1	2.4°	0.1°
C3	C4	C5	O3	179.4°	180.0°
C3	C4	C5	C6	0.4°	0.0°
C3	C4	C5	H5	179.6°	180.0°
C4	C3	N1	O1	179.8°	0.0°
C4	C3	N1	O2	0.1°	180.0°
C3	C4	O3	HO3	179.9°	90.0°
N1	C3	C4	C5	178.1°	180.0°
N1	C3	C4	O3	1.2°	0.1°
C3	N1	O1	O2	179.7°	180.0°
C4	C5	C6	H5	180.0°	179.9°
C4	C5	C6	H6	179.6°	180.0°
C5	C4	O3	HO3	0.6°	90.0°
O3	C4	C5	C6	179.8°	179.9°
O3	C4	C5	H5	0.2°	0.0°
H5	C5	C6	H6	0.4°	0.1°
C8	C7	H71	H72	117.7°	120.0°
C7	C8	O4	O5	174.1°	180.0°
C7	C8	O5	HO5	180.0°	180.0°
H71	C7	C8	O4	135.7°	120.1°
H71	C7	C8	O5	38.8°	60.0°
H72	C7	C8	O4	26.3°	120.0°
H72	C7	C8	O5	148.3°	60.0°
O4	C8	O5	HO5	5.9°	0.0°

220113

PDB entries from 2024-05-22

PDB statistics

PDBj update info

Contact PDBj

numon