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

3PB

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C1	O2	doub	1.21Å	1.24Å
C2	C1	sing	1.51Å	1.55Å
C1	O1	sing	1.34Å	1.26Å
O1	HO1	sing	0.97Å	0.95Å
C3	C2	sing	1.53Å	1.53Å
C2	H2	sing	1.09Å	1.10Å
C2	H2A	sing	1.09Å	1.10Å
O1P	C3	sing	1.43Å	1.47Å
C3	C4	sing	1.53Å	1.52Å
C3	H3	sing	1.09Å	1.10Å
C4	H4	sing	1.09Å	1.10Å
C4	H4A	sing	1.09Å	1.10Å
C4	H4B	sing	1.09Å	1.10Å
P	O1P	sing	1.61Å	1.63Å
O2P	P	doub	1.48Å	1.52Å
O3P	P	sing	1.61Å	1.51Å
P	O4P	sing	1.61Å	1.52Å
O4P	HO4P	sing	0.97Å	0.95Å
O3P	HO3P	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O2	C1	C2	117.8°	120.0°
O2	C1	O1	122.2°	120.0°
C2	C1	O1	120.0°	120.0°
C1	C2	C3	113.5°	109.5°
C1	C2	H2	108.2°	109.5°
C1	C2	H2A	107.2°	109.4°
C1	O1	HO1	109.5°	117.0°
C3	C2	H2	108.1°	109.5°
C3	C2	H2A	107.2°	109.5°
C2	C3	O1P	107.5°	109.5°
C2	C3	C4	113.1°	109.5°
C2	C3	H3	108.0°	109.5°
H2	C2	H2A	112.7°	109.4°
O1P	C3	C4	108.4°	109.5°
O1P	C3	H3	112.8°	109.4°
C3	O1P	P	121.1°	123.0°
C4	C3	H3	107.1°	109.5°
C3	C4	H4	109.5°	109.5°
C3	C4	H4A	109.5°	109.5°
C3	C4	H4B	109.5°	109.4°
H4	C4	H4A	109.5°	109.5°
H4	C4	H4B	109.4°	109.4°
H4A	C4	H4B	109.5°	109.5°
O1P	P	O2P	101.9°	109.5°
O1P	P	O3P	106.2°	109.4°
O1P	P	O4P	104.2°	109.4°
O2P	P	O3P	112.0°	109.5°
O2P	P	O4P	117.3°	109.5°
O3P	P	O4P	113.6°	109.5°
P	O3P	HO3P	109.5°	114.0°
P	O4P	HO4P	109.5°	114.0°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O2	C1	C2	O1	178.4°	179.8°
O2	C1	O1	HO1	0.0°	0.0°
O2	C1	C2	C3	82.8°	6.5°
O2	C1	C2	H2	157.2°	113.5°
O2	C1	C2	H2A	35.4°	126.5°
C2	C1	O1	HO1	178.4°	179.7°
C1	C2	C3	H2	120.0°	120.0°
C1	C2	C3	H2A	118.2°	120.0°
C1	C2	H2	H2A	118.3°	119.9°
C1	C2	C3	O1P	175.5°	65.8°
C1	C2	C3	C4	55.8°	174.2°
C1	C2	C3	H3	62.5°	54.1°
O1	C1	C2	C3	95.6°	173.3°
O1	C1	C2	H2	24.4°	66.7°
O1	C1	C2	H2A	146.2°	53.3°
C3	C2	H2	H2A	118.4°	120.0°
C2	C3	O1P	C4	122.7°	120.1°
C2	C3	O1P	H3	118.9°	120.0°
C2	C3	C4	H3	118.9°	120.1°
C2	C3	C4	H4	113.7°	60.0°
C2	C3	C4	H4A	126.3°	180.0°
C2	C3	C4	H4B	6.3°	60.0°
C2	C3	O1P	P	142.2°	132.9°
H2	C2	C3	O1P	55.5°	174.2°
H2	C2	C3	C4	64.2°	54.2°
H2	C2	C3	H3	177.5°	65.9°
H2A	C2	C3	O1P	66.3°	54.2°
H2A	C2	C3	C4	174.0°	65.8°
H2A	C2	C3	H3	55.7°	174.1°
O1P	C3	C4	H3	121.9°	119.9°
O1P	C3	C4	H4	5.5°	60.1°
O1P	C3	C4	H4A	114.5°	60.0°
O1P	C3	C4	H4B	125.5°	180.0°
C3	O1P	P	O2P	177.7°	54.2°
C3	O1P	P	O3P	60.3°	174.2°
C3	O1P	P	O4P	59.9°	65.9°
C3	C4	H4	H4A	120.0°	120.1°
C3	C4	H4	H4B	120.0°	119.9°
C3	C4	H4A	H4B	120.0°	120.0°
C4	C3	O1P	P	95.1°	107.1°
H3	C3	C4	H4	127.4°	180.0°
H3	C3	C4	H4A	7.4°	60.0°
H3	C3	C4	H4B	112.6°	60.1°
H3	C3	O1P	P	23.3°	12.9°
H4	C4	H4A	H4B	120.0°	120.0°
O1P	P	O2P	O3P	113.1°	120.0°
O1P	P	O2P	O4P	112.9°	120.0°
O1P	P	O3P	O4P	113.9°	119.9°
O1P	P	O4P	HO4P	11.9°	57.5°
O1P	P	O3P	HO3P	44.3°	180.0°
O2P	P	O3P	O4P	135.7°	120.1°
O2P	P	O4P	HO4P	123.6°	177.5°
O2P	P	O3P	HO3P	154.7°	60.0°
O3P	P	O4P	HO4P	103.2°	62.4°
O4P	P	O3P	HO3P	69.6°	60.0°

248636

PDB entries from 2026-02-04

PDB statistics

PDBj update info

Contact PDBj

numon