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

GBD

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
O13	C1	sing	1.35Å	1.22Å
O13	H13	sing	0.97Å	0.95Å
C1	O11	doub	1.21Å	1.33Å
C1	C3	sing	1.47Å	1.48Å
C3	N2	doub	1.32Å	1.33Å	Aromatic
C3	C4	sing	1.39Å	1.48Å	Aromatic
N2	S1	sing	1.58Å	1.65Å	Aromatic
S1	N5	sing	1.70Å	1.65Å	Aromatic
C4	O4	sing	1.36Å	1.48Å
C4	N5	doub	1.32Å	1.33Å	Aromatic
O4	HO4	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
C1	O13	H13	120.6°	120.0°
O13	C1	O11	120.6°	120.0°
O13	C1	C3	121.5°	120.0°
O11	C1	C3	117.8°	120.0°
C1	C3	N2	126.9°	121.6°
C1	C3	C4	124.5°	121.7°
N2	C3	C4	108.6°	116.7°
C3	N2	S1	111.0°	105.3°
C3	C4	O4	124.0°	123.0°
C3	C4	N5	115.3°	114.2°
N2	S1	N5	97.2°	100.7°
S1	N5	C4	107.1°	103.1°
O4	C4	N5	120.6°	122.9°
C4	O4	HO4	124.0°	106.8°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O13	C1	O11	C3	178.6°	180.0°
O13	C1	C3	N2	147.8°	0.0°
O13	C1	C3	C4	31.9°	179.7°
H13	O13	C1	O11	179.9°	0.0°
H13	O13	C1	C3	1.4°	180.0°
O11	C1	C3	N2	30.8°	179.9°
O11	C1	C3	C4	149.6°	0.2°
C1	C3	N2	C4	179.7°	179.7°
C1	C3	N2	S1	174.5°	180.0°
C1	C3	C4	O4	0.9°	0.2°
C1	C3	C4	N5	179.9°	179.8°
C3	N2	S1	N5	7.6°	0.0°
N2	C3	C4	O4	179.4°	179.9°
N2	C3	C4	N5	0.3°	0.5°
C4	C3	N2	S1	5.2°	0.3°
C3	C4	N5	S1	5.4°	0.4°
C3	C4	O4	N5	179.1°	179.6°
C3	C4	O4	HO4	180.0°	90.4°
N2	S1	N5	C4	7.3°	0.2°
S1	N5	C4	O4	175.4°	180.0°
N5	C4	O4	HO4	1.0°	90.0°

248942

PDB entries from 2026-02-11

PDB statistics

PDBj update info

Contact PDBj

numon