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

8SD

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C5	C4	doub	1.38Å	1.38Å	Aromatic
C5	C6	sing	1.39Å	1.40Å	Aromatic
O1	C6	sing	1.36Å	1.37Å
C4	C3	sing	1.39Å	1.38Å	Aromatic
C6	C7	doub	1.39Å	1.39Å	Aromatic
C3	N1	sing	1.40Å	1.40Å
C3	C8	doub	1.39Å	1.39Å	Aromatic
C7	C8	sing	1.38Å	1.38Å	Aromatic
N1	C2	sing	1.34Å	1.35Å
C8	C1	sing	1.51Å	1.50Å
C2	C1	sing	1.51Å	1.53Å
C2	O2	doub	1.21Å	1.22Å
N1	H1	sing	0.97Å	1.00Å
C4	H2	sing	1.08Å	1.08Å
C5	H3	sing	1.08Å	1.08Å
C7	H4	sing	1.08Å	1.08Å
C1	H5	sing	1.09Å	1.10Å
C1	H6	sing	1.09Å	1.10Å
O1	H7	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
C4	C5	C6	121.4°	120.3°
C5	C4	C3	117.6°	120.2°
C5	C4	H2	121.2°	119.9°
C4	C5	H3	119.3°	119.9°
C5	C6	O1	118.6°	120.2°
C5	C6	C7	120.6°	119.7°
C6	C5	H3	119.3°	119.8°
O1	C6	C7	120.8°	120.1°
C6	O1	H7	109.5°	114.0°
C4	C3	N1	128.0°	130.8°
C4	C3	C8	121.4°	119.1°
C3	C4	H2	121.2°	119.9°
C6	C7	C8	117.5°	119.9°
C6	C7	H4	121.2°	120.1°
N1	C3	C8	110.6°	110.1°
C3	N1	C2	107.3°	112.3°
C3	N1	H1	126.3°	123.8°
C3	C8	C7	121.4°	120.8°
C3	C8	C1	110.4°	106.4°
C7	C8	C1	128.2°	132.8°
C8	C7	H4	121.2°	120.0°
N1	C2	C1	113.3°	107.1°
N1	C2	O2	123.3°	126.5°
C2	N1	H1	126.4°	123.9°
C8	C1	C2	98.5°	104.1°
C8	C1	H5	112.2°	110.5°
C8	C1	H6	112.1°	110.5°
C1	C2	O2	123.4°	126.4°
C2	C1	H5	112.1°	110.4°
C2	C1	H6	112.2°	110.7°
H5	C1	H6	109.5°	110.4°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
C4	C5	C6	H3	180.0°	180.0°
C4	C5	C6	O1	179.3°	180.0°
C5	C4	C3	H2	180.0°	179.9°
C4	C5	C6	C7	0.7°	0.0°
C5	C4	C3	N1	179.4°	180.0°
C5	C4	C3	C8	0.6°	0.0°
C5	C6	O1	C7	180.0°	180.0°
C6	C5	C4	C3	0.9°	0.0°
C5	C6	C7	C8	0.2°	0.0°
C6	C5	C4	H2	179.2°	180.0°
C5	C6	C7	H4	179.8°	180.0°
C5	C6	O1	H7	180.0°	89.9°
O1	C6	C7	C8	179.8°	180.0°
O1	C6	C5	H3	0.7°	0.0°
O1	C6	C7	H4	0.2°	0.0°
C4	C3	N1	C8	180.0°	180.0°
C4	C3	C8	C7	0.2°	0.1°
C4	C3	N1	C2	179.5°	180.0°
C4	C3	C8	C1	179.7°	179.7°
C4	C3	N1	H1	0.4°	0.2°
C3	C4	C5	H3	179.1°	180.0°
C6	C7	C8	C3	0.1°	0.1°
C6	C7	C8	H4	180.0°	179.9°
C6	C7	C8	C1	179.9°	179.7°
C7	C6	C5	H3	179.3°	180.0°
C7	C6	O1	H7	0.0°	90.0°
N1	C3	C8	C7	179.8°	180.0°
C3	N1	C2	H1	180.0°	179.8°
N1	C3	C8	C1	0.3°	0.3°
C3	N1	C2	C1	1.1°	0.2°
C3	N1	C2	O2	178.7°	179.7°
N1	C3	C4	H2	0.6°	0.1°
C3	C8	C7	C1	179.8°	179.7°
C8	C3	N1	C2	0.5°	0.0°
C3	C8	C1	C2	0.8°	0.4°
C8	C3	N1	H1	179.5°	179.8°
C8	C3	C4	H2	179.4°	179.9°
C3	C8	C7	H4	179.9°	180.0°
C3	C8	C1	H5	119.0°	119.0°
C3	C8	C1	H6	117.3°	118.6°
C7	C8	C1	C2	179.3°	179.9°
C7	C8	C1	H5	61.2°	61.3°
C7	C8	C1	H6	62.5°	61.2°
N1	C2	C1	C8	1.1°	0.4°
N1	C2	C1	O2	179.8°	180.0°
N1	C2	C1	H5	119.3°	119.0°
N1	C2	C1	H6	117.0°	118.4°
C8	C1	C2	H5	118.2°	118.7°
C8	C1	C2	H6	118.1°	118.8°
C8	C1	C2	O2	178.6°	179.6°
C1	C8	C7	H4	0.1°	0.3°
C8	C1	H5	H6	125.1°	122.6°
C1	C2	N1	H1	179.0°	180.0°
C2	C1	H5	H6	125.2°	122.8°
O2	C2	N1	H1	1.3°	0.0°
O2	C2	C1	H5	60.4°	61.0°
O2	C2	C1	H6	63.2°	61.6°
H2	C4	C5	H3	0.9°	0.1°

248636

PDB entries from 2026-02-04

PDB statistics

PDBj update info

Contact PDBj

numon