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

DEZ

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
OH2	C1	doub	1.21Å	1.25Å
C1	OH1	sing	1.34Å	1.25Å
C1	C2	sing	1.51Å	1.50Å
OH1	HH1	sing	0.97Å	0.95Å
C2	O2	sing	1.43Å	1.42Å
C2	C3	sing	1.53Å	1.53Å
C2	H2	sing	1.09Å	1.11Å
O2	HA	sing	0.97Å	0.95Å
C3	O3	sing	1.43Å	1.42Å
C3	C4	sing	1.53Å	1.53Å
C3	H3	sing	1.09Å	1.12Å
O3	HB	sing	0.97Å	0.95Å
C4	O4	sing	1.43Å	1.43Å
C4	H4C1	sing	1.09Å	1.12Å
C4	H4C2	sing	1.09Å	1.12Å
O4	P	sing	1.61Å	1.61Å
P	O1P	doub	1.48Å	1.50Å
P	O2P	sing	1.61Å	1.51Å
P	O3P	sing	1.61Å	1.51Å
O2P	H2P	sing	0.97Å	0.95Å
O3P	H3P	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
OH2	C1	OH1	122.6°	120.0°
OH2	C1	C2	118.5°	120.0°
OH1	C1	C2	118.9°	120.0°
C1	OH1	HH1	122.6°	120.0°
C1	C2	O2	109.7°	109.5°
C1	C2	C3	110.0°	109.4°
C1	C2	H2	109.0°	109.5°
O2	C2	C3	110.0°	109.5°
O2	C2	H2	109.1°	109.5°
C2	O2	HA	109.6°	106.8°
C3	C2	H2	109.1°	109.5°
C2	C3	O3	109.3°	109.5°
C2	C3	C4	111.5°	109.5°
C2	C3	H3	108.7°	109.4°
O3	C3	C4	109.9°	109.5°
O3	C3	H3	108.7°	109.5°
C3	O3	HB	109.3°	106.8°
C4	C3	H3	108.6°	109.5°
C3	C4	O4	110.6°	109.5°
C3	C4	H4C1	111.8°	109.5°
C3	C4	H4C2	111.8°	109.5°
O4	C4	H4C1	111.8°	109.4°
O4	C4	H4C2	111.8°	109.5°
C4	O4	P	122.3°	106.8°
H4C1	C4	H4C2	98.6°	109.4°
O4	P	O1P	105.8°	109.4°
O4	P	O2P	105.2°	109.5°
O4	P	O3P	103.4°	109.5°
O1P	P	O2P	112.7°	109.5°
O1P	P	O3P	114.4°	109.5°
O2P	P	O3P	114.0°	109.4°
P	O2P	H2P	105.2°	106.8°
P	O3P	H3P	103.4°	106.8°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
OH2	C1	OH1	C2	179.9°	179.9°
OH2	C1	OH1	HH1	180.0°	0.0°
OH2	C1	C2	O2	46.8°	5.0°
OH2	C1	C2	C3	74.3°	115.0°
OH2	C1	C2	H2	166.1°	125.0°
OH1	C1	C2	O2	133.3°	175.0°
OH1	C1	C2	C3	105.5°	65.0°
OH1	C1	C2	H2	14.0°	55.0°
C2	C1	OH1	HH1	0.1°	180.0°
C1	C2	O2	C3	121.1°	120.0°
C1	C2	O2	H2	119.3°	120.0°
C1	C2	C3	H2	119.5°	120.0°
C1	C2	O2	HA	180.0°	60.0°
C1	C2	C3	O3	65.1°	60.0°
C1	C2	C3	C4	173.1°	180.0°
C1	C2	C3	H3	53.4°	60.0°
O2	C2	C3	H2	119.6°	120.0°
O2	C2	C3	O3	174.0°	180.0°
O2	C2	C3	C4	52.2°	60.0°
O2	C2	C3	H3	67.5°	60.0°
C3	C2	O2	HA	58.9°	60.0°
C2	C3	O3	C4	122.7°	120.0°
C2	C3	O3	H3	118.5°	119.9°
C2	C3	C4	H3	119.8°	120.0°
C2	C3	O3	HB	180.0°	60.1°
C2	C3	C4	O4	169.4°	175.0°
C2	C3	C4	H4C1	44.1°	55.0°
C2	C3	C4	H4C2	65.4°	65.0°
H2	C2	O2	HA	60.7°	179.9°
H2	C2	C3	O3	54.4°	60.0°
H2	C2	C3	C4	67.4°	60.1°
H2	C2	C3	H3	172.9°	180.0°
O3	C3	C4	H3	118.8°	120.0°
O3	C3	C4	O4	48.0°	65.0°
O3	C3	C4	H4C1	77.3°	175.0°
O3	C3	C4	H4C2	173.2°	55.0°
C4	C3	O3	HB	57.3°	60.0°
C3	C4	O4	H4C1	125.3°	120.0°
C3	C4	O4	H4C2	125.3°	120.0°
C3	C4	H4C1	H4C2	117.7°	120.0°
C3	C4	O4	P	155.9°	180.0°
H3	C3	O3	HB	61.5°	180.0°
H3	C3	C4	O4	70.8°	55.0°
H3	C3	C4	H4C1	163.9°	65.0°
H3	C3	C4	H4C2	54.4°	175.0°
O4	C4	H4C1	H4C2	117.7°	120.0°
C4	O4	P	O1P	86.5°	55.0°
C4	O4	P	O2P	33.1°	65.0°
C4	O4	P	O3P	152.9°	175.0°
H4C1	C4	O4	P	78.8°	60.0°
H4C2	C4	O4	P	30.6°	59.9°
O4	P	O1P	O2P	114.4°	120.0°
O4	P	O1P	O3P	113.1°	120.0°
O4	P	O2P	O3P	112.5°	120.0°
O4	P	O2P	H2P	180.0°	60.0°
O4	P	O3P	H3P	180.0°	180.0°
O1P	P	O2P	O3P	132.6°	120.0°
O1P	P	O2P	H2P	65.2°	180.0°
O1P	P	O3P	H3P	65.4°	60.0°
O2P	P	O3P	H3P	66.4°	60.0°
O3P	P	O2P	H2P	67.5°	60.0°

227111

PDB entries from 2024-11-06

PDB statistics

PDBj update info

Contact PDBj

numon