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Summary Geometry Related PDB entries

2E7

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
O16	P13	doub	1.48Å	1.49Å
O11	P9	doub	1.48Å	1.53Å
P13	O12	sing	1.61Å	1.58Å
P13	O14	sing	1.61Å	1.47Å
P13	O15	sing	1.61Å	1.47Å
O10	P9	sing	1.61Å	1.53Å
O12	P9	sing	1.61Å	1.64Å
P9	O8	sing	1.61Å	1.65Å
O8	C7	sing	1.43Å	1.45Å
N3	C4	doub	1.32Å	1.37Å	Aromatic
N3	C2	sing	1.32Å	1.36Å	Aromatic
C4	C5	sing	1.38Å	1.41Å	Aromatic
CL	C2	sing	1.74Å	1.75Å
C2	C1	doub	1.38Å	1.37Å	Aromatic
C5	C7	sing	1.51Å	1.51Å
C5	C6	doub	1.39Å	1.38Å	Aromatic
C1	C6	sing	1.39Å	1.37Å	Aromatic
C1	H1	sing	1.08Å	1.08Å
O10	H2	sing	0.97Å	0.95Å
O14	H3	sing	0.97Å	0.95Å
O15	H4	sing	0.97Å	0.95Å
C7	H5	sing	1.09Å	1.10Å
C7	H6	sing	1.09Å	1.10Å
C4	H7	sing	1.08Å	1.08Å
C6	H8	sing	1.08Å	1.08Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O16	P13	O12	107.7°	109.5°
O16	P13	O14	108.9°	109.4°
O16	P13	O15	112.2°	109.5°
O11	P9	O10	121.2°	109.5°
O11	P9	O12	111.8°	109.4°
O11	P9	O8	106.2°	109.5°
O12	P13	O14	100.1°	109.5°
O12	P13	O15	111.0°	109.5°
P13	O12	P9	131.0°	134.0°
O14	P13	O15	116.0°	109.4°
P13	O14	H3	109.5°	114.0°
P13	O15	H4	109.5°	114.0°
O10	P9	O12	101.6°	109.5°
O10	P9	O8	106.1°	109.5°
P9	O10	H2	109.5°	114.0°
O12	P9	O8	109.5°	109.5°
P9	O8	C7	125.0°	123.0°
O8	C7	C5	108.3°	109.5°
O8	C7	H5	109.8°	109.5°
O8	C7	H6	109.7°	109.5°
C4	N3	C2	116.8°	121.7°
N3	C4	C5	120.2°	120.8°
N3	C4	H7	119.9°	119.6°
N3	C2	CL	121.5°	119.6°
N3	C2	C1	125.3°	120.7°
C4	C5	C7	123.3°	120.4°
C4	C5	C6	120.4°	119.2°
C5	C4	H7	119.9°	119.6°
CL	C2	C1	113.2°	119.7°
C2	C1	C6	117.8°	119.2°
C2	C1	H1	121.1°	120.4°
C7	C5	C6	116.3°	120.4°
C5	C7	H5	109.7°	109.5°
C5	C7	H6	109.8°	109.4°
C5	C6	C1	119.5°	118.4°
C5	C6	H8	120.2°	120.8°
C6	C1	H1	121.1°	120.4°
C1	C6	H8	120.2°	120.8°
H5	C7	H6	109.5°	109.5°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O16	P13	O12	O14	113.7°	119.9°
O16	P13	O12	O15	123.3°	120.1°
O16	P13	O14	O15	127.7°	120.0°
O16	P13	O12	P9	89.9°	45.1°
O16	P13	O14	H3	0.0°	60.0°
O16	P13	O15	H4	0.0°	180.0°
O11	P9	O12	P13	32.9°	45.0°
O11	P9	O10	O12	124.7°	120.0°
O11	P9	O10	O8	120.9°	120.0°
O11	P9	O12	O8	117.4°	120.0°
O11	P9	O8	C7	158.0°	55.0°
O11	P9	O10	H2	0.0°	180.0°
O12	P13	O14	O15	119.5°	120.0°
P13	O12	P9	O10	163.7°	75.0°
P13	O12	P9	O8	84.5°	165.0°
O12	P13	O14	H3	112.8°	180.0°
O12	P13	O15	H4	120.6°	59.9°
O14	P13	O12	P9	156.4°	165.0°
O14	P13	O15	H4	126.0°	60.1°
O15	P13	O12	P9	33.3°	75.0°
O15	P13	O14	H3	127.7°	59.9°
O10	P9	O12	O8	111.9°	120.0°
O10	P9	O8	C7	27.8°	65.0°
O12	P9	O8	C7	81.1°	175.0°
O12	P9	O10	H2	124.7°	60.0°
P9	O8	C7	C5	61.7°	180.0°
O8	P9	O10	H2	120.9°	60.0°
P9	O8	C7	H5	58.1°	60.0°
P9	O8	C7	H6	178.5°	60.0°
O8	C7	C5	C4	125.8°	90.5°
O8	C7	C5	H5	119.8°	120.0°
O8	C7	C5	H6	119.8°	120.0°
O8	C7	C5	C6	53.1°	90.0°
O8	C7	H5	H6	120.5°	120.0°
N3	C4	C5	H7	180.0°	180.0°
C4	N3	C2	CL	177.6°	180.0°
C4	N3	C2	C1	1.6°	0.0°
N3	C4	C5	C7	179.7°	180.0°
N3	C4	C5	C6	0.8°	0.5°
C2	N3	C4	C5	1.2°	0.3°
N3	C2	CL	C1	179.3°	179.9°
N3	C2	C1	C6	1.6°	0.0°
N3	C2	C1	H1	178.4°	179.7°
C2	N3	C4	H7	178.8°	179.8°
C4	C5	C7	C6	179.0°	179.5°
C4	C5	C6	C1	0.7°	0.5°
C4	C5	C7	H5	6.0°	149.5°
C4	C5	C7	H6	114.4°	29.5°
C4	C5	C6	H8	179.3°	179.5°
CL	C2	C1	C6	177.7°	180.0°
CL	C2	C1	H1	2.3°	0.2°
C2	C1	C6	C5	1.0°	0.2°
C2	C1	C6	H1	180.0°	179.7°
C2	C1	C6	H8	178.9°	179.8°
C7	C5	C6	C1	179.7°	180.0°
C5	C7	H5	H6	120.5°	120.0°
C7	C5	C4	H7	0.3°	0.0°
C7	C5	C6	H8	0.3°	0.0°
C5	C6	C1	H8	180.0°	180.0°
C5	C6	C1	H1	179.0°	180.0°
C6	C5	C7	H5	173.0°	30.0°
C6	C5	C7	H6	66.7°	150.0°
C6	C5	C4	H7	179.2°	179.5°
H1	C1	C6	H8	1.1°	0.0°

248636

PDB entries from 2026-02-04

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