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

1JZ

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
N5	C10	doub	1.30Å	1.33Å
N4	C10	sing	1.37Å	1.35Å
C10	N3	sing	1.38Å	1.32Å
C11	C12	doub	1.38Å	1.39Å	Aromatic
C6	C12	sing	1.38Å	1.38Å	Aromatic
C12	H12	sing	1.08Å	1.08Å
C8	C9	doub	1.39Å	1.39Å	Aromatic
C8	C7	sing	1.38Å	1.38Å	Aromatic
C8	H8	sing	1.08Å	1.08Å
C7	C6	doub	1.38Å	1.38Å	Aromatic
C7	H7	sing	1.08Å	1.08Å
C6	C5	sing	1.51Å	1.47Å
C5	O2	sing	1.43Å	1.27Å
C5	H5	sing	1.09Å	1.10Å
C5	H5A	sing	1.09Å	1.10Å
O2	HO2	sing	0.97Å	0.95Å
N3	C9	sing	1.40Å	1.35Å
C9	C11	sing	1.39Å	1.37Å	Aromatic
C11	H11	sing	1.08Å	1.08Å
N3	HN3	sing	0.97Å	1.00Å
N4	HN4	sing	0.97Å	1.00Å
N4	HN4A	sing	0.97Å	1.00Å
N5	HN5	sing	0.97Å	1.00Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
N5	C10	N4	120.0°	120.1°
N5	C10	N3	123.6°	120.0°
C10	N5	HN5	110.4°	120.0°
N4	C10	N3	115.8°	120.0°
C10	N4	HN4	110.4°	120.1°
C10	N4	HN4A	124.8°	119.9°
C10	N3	C9	127.1°	120.0°
C10	N3	HN3	116.5°	120.0°
C11	C12	C6	119.7°	120.1°
C11	C12	H12	120.2°	120.0°
C12	C11	C9	121.5°	119.9°
C12	C11	H11	119.3°	120.0°
C6	C12	H12	120.2°	119.9°
C12	C6	C7	119.5°	120.1°
C12	C6	C5	117.9°	120.0°
C9	C8	C7	120.7°	119.9°
C9	C8	H8	119.7°	120.0°
C8	C9	N3	123.7°	120.1°
C8	C9	C11	118.3°	119.9°
C7	C8	H8	119.7°	120.1°
C8	C7	C6	120.3°	120.1°
C8	C7	H7	119.8°	119.9°
C6	C7	H7	119.8°	120.0°
C7	C6	C5	122.5°	119.9°
C6	C5	O2	112.6°	109.4°
C6	C5	H5	108.5°	109.5°
C6	C5	H5A	107.7°	109.4°
O2	C5	H5	108.4°	109.5°
O2	C5	H5A	107.7°	109.5°
C5	O2	HO2	109.5°	113.9°
H5	C5	H5A	111.9°	109.5°
N3	C9	C11	117.9°	120.1°
C9	N3	HN3	116.4°	120.0°
C9	C11	H11	119.3°	120.0°
HN4	N4	HN4A	124.8°	120.0°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
N5	C10	N4	N3	172.1°	179.7°
N5	C10	N3	C9	166.1°	5.5°
N5	C10	N3	HN3	13.9°	174.5°
N5	C10	N4	HN4	180.0°	173.7°
N5	C10	N4	HN4A	0.0°	6.4°
N4	C10	N3	C9	22.1°	174.8°
N4	C10	N3	HN3	157.9°	5.2°
C10	N4	HN4	HN4A	180.0°	180.0°
N4	C10	N5	HN5	0.0°	0.3°
C10	N3	C9	C8	15.1°	147.1°
C10	N3	C9	HN3	180.0°	180.0°
C10	N3	C9	C11	168.3°	33.2°
N3	C10	N4	HN4	7.9°	6.0°
N3	C10	N4	HN4A	172.1°	173.9°
N3	C10	N5	HN5	171.5°	180.0°
C11	C12	C6	H12	180.0°	179.8°
C12	C11	C9	C8	1.4°	0.0°
C11	C12	C6	C7	0.6°	0.2°
C11	C12	C6	C5	178.0°	179.7°
C12	C11	C9	N3	175.4°	179.8°
C12	C11	C9	H11	180.0°	180.0°
C12	C6	C7	C8	1.2°	0.0°
C12	C6	C7	C5	178.6°	179.9°
C12	C6	C7	H7	178.9°	179.8°
C12	C6	C5	O2	50.1°	90.0°
C12	C6	C5	H5	170.1°	150.0°
C12	C6	C5	H5A	68.5°	29.9°
C6	C12	C11	C9	1.9°	0.2°
C6	C12	C11	H11	178.1°	179.8°
H12	C12	C6	C7	179.4°	180.0°
H12	C12	C6	C5	2.0°	0.1°
H12	C12	C11	C9	178.1°	180.0°
H12	C12	C11	H11	1.9°	0.0°
C9	C8	C7	H8	180.0°	179.8°
C9	C8	C7	C6	1.7°	0.3°
C9	C8	C7	H7	178.3°	179.9°
C8	C9	N3	C11	176.6°	179.7°
C8	C9	C11	H11	178.6°	180.0°
C8	C9	N3	HN3	164.9°	33.0°
C8	C7	C6	H7	180.0°	179.8°
C8	C7	C6	C5	179.7°	179.9°
C7	C8	C9	N3	177.0°	180.0°
C7	C8	C9	C11	0.4°	0.3°
H8	C8	C7	C6	178.3°	180.0°
H8	C8	C7	H7	1.7°	0.2°
H8	C8	C9	N3	3.0°	0.3°
H8	C8	C9	C11	179.6°	180.0°
C7	C6	C5	O2	128.4°	90.1°
C7	C6	C5	H5	8.4°	29.9°
C7	C6	C5	H5A	112.9°	150.0°
H7	C7	C6	C5	0.3°	0.2°
C6	C5	O2	H5	120.0°	120.0°
C6	C5	O2	H5A	118.7°	119.9°
C6	C5	H5	H5A	118.7°	120.0°
C6	C5	O2	HO2	152.2°	180.0°
O2	C5	H5	H5A	118.7°	120.1°
H5	C5	O2	HO2	87.7°	60.0°
H5A	C5	O2	HO2	33.6°	60.1°
N3	C9	C11	H11	4.6°	0.3°
C11	C9	N3	HN3	11.7°	146.7°

219140

PDB entries from 2024-05-01

PDB statistics

PDBj update info

Contact PDBj

numon