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

A1CDM

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C5	N4	sing	1.46Å	1.45Å
C5	C6	sing	1.50Å	1.50Å
N4	S2	sing	1.67Å	1.63Å
C7	C6	doub	1.39Å	1.39Å	Aromatic
C7	C8	sing	1.38Å	1.39Å	Aromatic
C6	C11	sing	1.38Å	1.38Å	Aromatic
C8	C9	doub	1.38Å	1.38Å	Aromatic
S2	C11	sing	1.77Å	1.75Å
S2	O1	doub	1.42Å	1.43Å
S2	O3	doub	1.42Å	1.43Å
C11	C10	doub	1.38Å	1.39Å	Aromatic
C9	C10	sing	1.38Å	1.39Å	Aromatic
C5	H5A	sing	1.09Å	1.10Å
C5	H5B	sing	1.09Å	1.10Å
C7	H7	sing	1.08Å	1.08Å
C8	H8	sing	1.08Å	1.08Å
C10	H10	sing	1.08Å	1.08Å
C9	H9	sing	1.08Å	1.08Å
N4	H4	sing	0.97Å	1.00Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
N4	C5	C6	101.9°	114.6°
C5	N4	S2	112.9°	105.0°
N4	C5	H5A	111.3°	108.5°
N4	C5	H5B	111.3°	108.5°
C5	N4	H4	108.6°	127.5°
C5	C6	C7	128.9°	128.7°
C5	C6	C11	112.8°	113.4°
C6	C5	H5A	111.3°	108.5°
C6	C5	H5B	111.3°	108.5°
N4	S2	C11	91.6°	101.1°
N4	S2	O1	110.8°	107.4°
N4	S2	O3	110.7°	107.4°
S2	N4	H4	108.6°	127.5°
C6	C7	C8	120.2°	120.7°
C7	C6	C11	118.1°	117.9°
C6	C7	H7	119.9°	119.7°
C7	C8	C9	120.4°	120.5°
C8	C7	H7	119.9°	119.6°
C7	C8	H8	119.8°	119.8°
C6	C11	S2	109.7°	106.0°
C6	C11	C10	122.9°	121.7°
C8	C9	C10	120.4°	119.3°
C9	C8	H8	119.8°	119.7°
C8	C9	H9	119.8°	120.4°
C11	S2	O1	112.2°	107.3°
C11	S2	O3	112.0°	107.3°
S2	C11	C10	127.3°	132.4°
O1	S2	O3	116.8°	124.0°
C11	C10	C9	118.0°	119.9°
C11	C10	H10	121.0°	120.0°
C9	C10	H10	121.0°	120.1°
C10	C9	H9	119.8°	120.3°
H5A	C5	H5B	109.5°	108.2°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
N4	C5	C6	H5A	118.8°	121.3°
N4	C5	C6	H5B	118.8°	121.3°
C5	N4	S2	H4	120.5°	180.0°
N4	C5	C6	C7	158.4°	180.0°
N4	C5	C6	C11	26.6°	0.0°
C5	N4	S2	C11	28.3°	0.0°
C5	N4	S2	O1	86.3°	112.3°
C5	N4	S2	O3	142.6°	112.3°
N4	C5	H5A	H5B	123.5°	117.5°
C6	C5	N4	S2	35.4°	0.0°
C5	C6	C7	C11	174.7°	180.0°
C5	C6	C7	C8	174.4°	180.0°
C5	C6	C11	S2	8.8°	0.0°
C5	C6	C11	C10	175.1°	180.0°
C6	C5	H5A	H5B	123.5°	117.5°
C5	C6	C7	H7	5.6°	0.0°
C6	C5	N4	H4	155.9°	180.0°
N4	S2	C11	C6	10.7°	0.0°
N4	S2	C11	O1	113.2°	112.3°
N4	S2	C11	O3	113.1°	112.3°
N4	S2	O1	O3	127.9°	126.1°
N4	S2	C11	C10	165.3°	179.9°
S2	N4	C5	H5A	154.2°	121.4°
S2	N4	C5	H5B	83.3°	121.4°
C6	C7	C8	H7	180.0°	180.0°
C6	C7	C8	C9	0.1°	0.0°
C7	C6	C11	S2	175.7°	180.0°
C7	C6	C11	C10	0.4°	0.0°
C7	C6	C5	H5A	39.7°	58.7°
C7	C6	C5	H5B	82.8°	58.7°
C6	C7	C8	H8	180.0°	180.0°
C8	C7	C6	C11	0.3°	0.0°
C7	C8	C9	H8	180.0°	180.0°
C7	C8	C9	C10	0.0°	0.1°
C7	C8	C9	H9	180.0°	179.9°
C6	C11	S2	C10	175.9°	179.9°
C6	C11	S2	O1	102.6°	112.3°
C6	C11	S2	O3	123.8°	112.3°
C6	C11	C10	C9	0.3°	0.1°
C11	C6	C5	H5A	145.4°	121.3°
C11	C6	C5	H5B	92.1°	121.3°
C11	C6	C7	H7	179.7°	180.0°
C6	C11	C10	H10	179.7°	180.0°
C8	C9	C10	C11	0.1°	0.2°
C8	C9	C10	H9	180.0°	179.9°
C9	C8	C7	H7	179.9°	180.0°
C8	C9	C10	H10	179.9°	180.0°
C11	S2	O1	O3	131.2°	125.9°
S2	C11	C10	C9	175.1°	179.9°
S2	C11	C10	H10	4.9°	0.1°
C11	S2	N4	H4	148.8°	180.0°
O1	S2	C11	C10	81.5°	67.6°
O1	S2	N4	H4	34.2°	67.7°
O3	S2	C11	C10	52.1°	67.7°
O3	S2	N4	H4	96.9°	67.7°
C11	C10	C9	H10	180.0°	179.9°
C11	C10	C9	H9	179.9°	179.9°
C10	C9	C8	H8	179.9°	179.9°
H5A	C5	N4	H4	85.3°	58.6°
H5B	C5	N4	H4	37.2°	58.6°
H7	C7	C8	H8	0.0°	0.0°
H8	C8	C9	H9	0.1°	0.0°
H10	C10	C9	H9	0.1°	0.0°

247536

PDB entries from 2026-01-14

PDB statistics

PDBj update info

Contact PDBj

numon