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

HLP

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
O1	C1	doub	1.22Å	1.25Å
O2	C1	sing	1.35Å	1.24Å
C1	C2	sing	1.46Å	1.51Å
C2	C9	doub	1.37Å	1.40Å	Aromatic
C2	O3	sing	1.35Å	1.30Å	Aromatic
C9	C8	sing	1.40Å	1.43Å	Aromatic
O3	C3	sing	1.34Å	1.31Å	Aromatic
C8	C3	doub	1.35Å	1.40Å	Aromatic
C3	C4	sing	1.51Å	1.52Å
C4	N1	sing	1.46Å	1.45Å
N1	C7	sing	1.35Å	1.33Å	Aromatic
N1	C5	sing	1.37Å	1.33Å	Aromatic
C7	N2	doub	1.31Å	1.32Å	Aromatic
C5	C6	doub	1.35Å	1.39Å	Aromatic
N2	C6	sing	1.34Å	1.33Å	Aromatic
C4	H42	sing	1.09Å	1.10Å
C4	H41	sing	1.09Å	1.10Å
C5	H51	sing	1.08Å	1.08Å
C6	H61	sing	1.08Å	1.08Å
C7	H71	sing	1.08Å	1.08Å
C8	H81	sing	1.08Å	1.08Å
C9	H91	sing	1.08Å	1.08Å
O2	H1	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O1	C1	O2	121.2°	120.0°
O1	C1	C2	121.4°	120.0°
O2	C1	C2	117.3°	120.0°
C1	O2	H1	109.5°	117.0°
C1	C2	C9	127.1°	126.0°
C1	C2	O3	122.5°	126.0°
C9	C2	O3	110.4°	108.0°
C2	C9	C8	104.7°	106.7°
C2	C9	H91	127.7°	126.6°
C2	O3	C3	110.3°	109.4°
C9	C8	C3	104.8°	107.2°
C9	C8	H81	127.6°	126.4°
C8	C9	H91	127.7°	126.7°
O3	C3	C8	109.9°	108.7°
O3	C3	C4	124.2°	125.6°
C8	C3	C4	125.9°	125.6°
C3	C8	H81	127.6°	126.4°
C3	C4	N1	110.1°	109.5°
C3	C4	H42	109.3°	109.5°
C3	C4	H41	109.3°	109.4°
C4	N1	C7	127.7°	126.4°
C4	N1	C5	124.0°	126.4°
N1	C4	H42	109.3°	109.5°
N1	C4	H41	109.3°	109.5°
C7	N1	C5	108.3°	107.2°
N1	C7	N2	109.7°	108.7°
N1	C7	H71	125.2°	125.7°
N1	C5	C6	106.7°	106.8°
N1	C5	H51	126.6°	126.6°
C7	N2	C6	107.9°	109.3°
N2	C7	H71	125.2°	125.7°
C5	C6	N2	107.5°	108.0°
C6	C5	H51	126.6°	126.6°
C5	C6	H61	126.3°	126.0°
N2	C6	H61	126.3°	126.0°
H42	C4	H41	109.5°	109.4°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O1	C1	O2	C2	177.0°	180.0°
O1	C1	C2	C9	6.3°	0.0°
O1	C1	C2	O3	174.5°	179.7°
O1	C1	O2	H1	0.0°	0.0°
O2	C1	C2	C9	176.7°	180.0°
O2	C1	C2	O3	2.6°	0.3°
C1	C2	C9	O3	179.3°	179.8°
C1	C2	C9	C8	179.6°	180.0°
C1	C2	O3	C3	179.6°	179.8°
C1	C2	C9	H91	0.4°	0.2°
C2	C1	O2	H1	177.0°	180.0°
C2	C9	C8	H91	180.0°	179.7°
C9	C2	O3	C3	1.0°	0.4°
C2	C9	C8	C3	0.7°	0.0°
C2	C9	C8	H81	179.3°	179.7°
O3	C2	C9	C8	1.1°	0.3°
C2	O3	C3	C8	0.6°	0.5°
C2	O3	C3	C4	179.8°	179.6°
O3	C2	C9	H91	178.9°	180.0°
C9	C8	C3	O3	0.1°	0.3°
C9	C8	C3	H81	180.0°	179.7°
C9	C8	C3	C4	179.5°	179.7°
O3	C3	C8	C4	179.7°	180.0°
O3	C3	C4	N1	80.3°	90.0°
O3	C3	C4	H42	159.6°	149.9°
O3	C3	C4	H41	39.8°	30.0°
O3	C3	C8	H81	179.8°	180.0°
C8	C3	C4	N1	100.1°	90.0°
C8	C3	C4	H42	20.0°	30.1°
C8	C3	C4	H41	139.8°	150.0°
C3	C8	C9	H91	179.3°	179.7°
C3	C4	N1	H42	120.1°	120.0°
C3	C4	N1	H41	120.1°	120.0°
C3	C4	N1	C7	112.5°	89.9°
C3	C4	N1	C5	69.1°	89.7°
C3	C4	H42	H41	119.7°	119.9°
C4	C3	C8	H81	0.5°	0.0°
C4	N1	C7	C5	178.5°	179.7°
C4	N1	C7	N2	178.3°	179.7°
C4	N1	C5	C6	178.8°	179.7°
N1	C4	H42	H41	119.7°	120.0°
C4	N1	C5	H51	1.2°	0.3°
C4	N1	C7	H71	1.8°	0.3°
N1	C7	N2	H71	180.0°	180.0°
C7	N1	C5	C6	0.2°	0.0°
N1	C7	N2	C6	0.7°	0.0°
C7	N1	C4	H42	127.4°	150.0°
C7	N1	C4	H41	7.6°	30.1°
C7	N1	C5	H51	179.8°	180.0°
C5	N1	C7	N2	0.3°	0.0°
N1	C5	C6	H51	180.0°	180.0°
N1	C5	C6	N2	0.6°	0.0°
C5	N1	C4	H42	51.0°	30.4°
C5	N1	C4	H41	170.8°	150.3°
N1	C5	C6	H61	179.4°	179.9°
C5	N1	C7	H71	179.7°	179.9°
C7	N2	C6	C5	0.8°	0.0°
C7	N2	C6	H61	179.2°	179.9°
C5	C6	N2	H61	180.0°	179.9°
N2	C6	C5	H51	179.4°	180.0°
C6	N2	C7	H71	179.3°	180.0°
H51	C5	C6	H61	0.6°	0.1°
H81	C8	C9	H91	0.8°	0.0°

222624

PDB entries from 2024-07-17

PDB statistics

PDBj update info

Contact PDBj

numon