PDB Chemical Component PNK

The following tables include covalent bond distance, bond angle and torsion angle values for the experimental model and ideal geometries stored in the definition for this chemical component.

Bond Distances for PNK

Atom I	Atom J	Distance (Experimental Model)	Distance (Ideal Model)
C1	C2	1.536	1.508
C1	C4	1.559	1.530
C1	N2	1.453	1.465
C2	O3	1.268	1.342
C2	O4	1.246	1.208
C3	C7	1.390	1.383
C3	C16	1.386	1.383
C4	N1	1.490	1.490
C4	S1	1.825	1.842
C5	C6	1.590	1.541
C5	C9	1.503	1.507
C5	N1	1.491	1.465
C6	C12	1.523	1.530
C6	S1	1.823	1.837
C6	C13	1.535	1.530
C7	C8	1.386	1.382
C8	C10	1.388	1.382
C9	O1	1.251	1.343
C9	O2	1.239	1.208
C10	C11	1.391	1.382
C11	C16	1.384	1.382
O5	C14	1.240	1.213
C16	C15	1.518	1.507
C15	C14	1.515	1.507
C14	N2	1.317	1.348
C1	H1	1.100	1.090
C3	H3	1.080	1.080
C4	H4	1.100	1.090
C5	H5	1.100	1.090
C7	H7	1.080	1.080
C8	H8	1.080	1.080
C10	H10	1.080	1.081
C11	H11	1.080	1.080
C12	H12	1.100	1.090
C12	H12A	1.100	1.091
C12	H12B	1.100	1.090
N1	HN1	1.000	1.009
O1	HO1	0.950	0.967
O3	HO3	0.950	0.968
C15	H15	1.100	1.090
C15	H15A	1.100	1.090
N2	HN2	1.000	0.969
C13	H13	1.100	1.090
C13	H13A	1.099	1.090
C13	H13B	1.100	1.090

Bond Angles for PNK

Atom I	Atom J	Atom K	Angle (Experimental Model)	Angle (Ideal Model)
C2	C1	C4	113.7	109.4
C2	C1	N2	110.8	109.5
C1	C2	O3	116.8	120.0
C1	C2	O4	117.0	120.0
C2	C1	H1	105.9	109.5
C4	C1	N2	110.7	109.5
C1	C4	N1	107.8	111.1
C1	C4	S1	114.1	111.2
C4	C1	H1	106.1	109.4
C1	C4	H4	106.4	111.0
C1	N2	C14	121.2	119.9
N2	C1	H1	109.3	109.5
C1	N2	HN2	119.4	120.0
O3	C2	O4	126.1	120.1
C2	O3	HO3	109.5	116.9
C7	C3	C16	120.1	120.0
C3	C7	C8	119.7	120.0
C7	C3	H3	119.9	120.0
C3	C7	H7	120.1	119.9
C3	C16	C11	120.1	120.0
C3	C16	C15	119.6	120.0
C16	C3	H3	120.0	120.0
N1	C4	S1	106.1	100.9
C4	N1	C5	110.2	111.0
N1	C4	H4	114.4	111.1
C4	N1	HN1	109.2	110.9
C4	S1	C6	96.6	94.9
S1	C4	H4	108.2	111.2
C6	C5	C9	114.0	108.8
C6	C5	N1	108.4	112.9
C5	C6	C12	109.5	110.6
C5	C6	S1	103.7	103.5
C5	C6	C13	110.9	110.6
C6	C5	H5	108.1	108.8
C9	C5	N1	112.2	108.8
C5	C9	O1	116.4	120.0
C5	C9	O2	117.8	120.0
C9	C5	H5	104.0	108.8
N1	C5	H5	110.0	108.7
C5	N1	HN1	109.2	111.0
C12	C6	S1	110.3	110.6
C12	C6	C13	111.2	110.6
C6	C12	H12	109.5	109.5
C6	C12	H12A	109.5	109.5
C6	C12	H12B	109.5	109.5
S1	C6	C13	111.0	110.7
C6	C13	H13	109.5	109.5
C6	C13	H13A	109.5	109.5
C6	C13	H13B	109.5	109.5
C7	C8	C10	120.3	120.0
C8	C7	H7	120.1	120.0
C7	C8	H8	119.9	120.0
C8	C10	C11	119.7	120.0
C10	C8	H8	119.8	120.0
C8	C10	H10	120.1	120.0
O1	C9	O2	125.7	120.0
C9	O1	HO1	109.5	116.9
C10	C11	C16	120.0	120.0
C11	C10	H10	120.2	120.0
C10	C11	H11	120.0	120.0
C11	C16	C15	120.3	120.0
C16	C11	H11	120.0	120.0
O5	C14	C15	121.3	120.0
O5	C14	N2	124.4	120.0
C16	C15	C14	109.9	109.5
C16	C15	H15	109.3	109.5
C16	C15	H15A	109.2	109.4
C15	C14	N2	114.3	119.9
C14	C15	H15	109.3	109.5
C14	C15	H15A	109.2	109.5
C14	N2	HN2	119.4	120.0
H12	C12	H12A	109.5	109.4
H12	C12	H12B	109.4	109.5
H12A	C12	H12B	109.5	109.5
H15	C15	H15A	109.8	109.4
H13	C13	H13A	109.5	109.5
H13	C13	H13B	109.4	109.5
H13A	C13	H13B	109.5	109.4

Torsion Angles for PNK

Atom I	Atom J	Atom K	Atom L	Angle (Experimental Model)	Angle (Ideal Model)
C4	C1	C2	N2	125.5	120.0
C2	C1	C4	N1	70.0	176.8
C2	C1	C4	S1	312.5	65.2
C4	C1	C2	H1	243.9	240.1
C2	C1	C4	H4	193.2	301.0
C2	C1	N2	C14	203.8	275.0
N2	C1	C2	H1	118.4	120.0
C2	C1	N2	HN2	23.8	95.0
O3	C2	C1	O4	183.0	179.9
C1	C2	O3	HO3	176.6	180.0
C2	C1	C4	N2	234.4	240.0
C4	C1	C2	O3	135.8	273.2
C4	C1	C2	O4	312.7	93.2
C2	C1	C4	H1	116.0	120.0
C4	C1	N2	C14	76.6	155.0
N2	C1	C4	H1	241.6	240.0
C4	C1	N2	HN2	256.6	335.0
N1	C4	C1	S1	117.5	111.5
C1	C4	N1	C5	204.0	199.6
N1	C4	C1	H4	236.8	235.8
C1	C4	N1	HN1	324.0	323.5
C1	C4	S1	C6	130.8	152.5
S1	C4	C1	H4	119.2	124.3
C2	C1	N2	C4	127.2	120.0
N2	C1	C2	O3	10.3	153.2
N2	C1	C2	O4	187.2	333.2
C2	C1	N2	H1	243.7	240.0
N2	C1	C4	N1	195.6	296.8
N2	C1	C4	S1	78.0	185.3
C4	C1	N2	H1	116.5	120.0
N2	C1	C4	H4	318.8	61.0
O5	C14	N2	C1	359.1	360.0
C15	C14	N2	C1	179.2	180.0
C14	N2	C1	HN2	180.0	180.0
O3	C2	C1	C4	135.8	273.2
O3	C2	C1	N2	10.3	153.2
C1	C2	O3	O4	176.6	180.1
O3	C2	C1	H1	251.9	33.1
O4	C2	C1	C4	312.7	93.2
O4	C2	C1	N2	187.2	333.2
C1	C2	O4	O3	183.4	179.9
O4	C2	C1	H1	68.8	213.2
O4	C2	O3	HO3	360.0	359.9
C7	C3	C16	C11	0.3	359.9
C7	C3	C16	C15	179.5	180.0
C16	C3	C7	H3	180.0	180.3
C3	C7	C8	C10	359.8	0.0
C8	C7	C3	H7	180.0	180.0
C3	C7	C8	H8	179.8	179.9
C16	C3	C7	C8	360.0	360.0
C7	C3	C16	H3	180.0	179.7
C16	C3	C7	H7	180.0	180.0
C10	C11	C16	C3	359.6	0.1
C11	C16	C3	C15	180.8	179.9
C3	C16	C11	H11	179.6	180.0
C3	C16	C15	C14	112.9	90.0
C3	C16	C15	H15	232.9	210.0
C3	C16	C15	H15A	353.1	329.9
N1	C4	C1	N2	195.6	296.8
C1	C4	N1	S1	237.4	242.0
N1	C4	C1	H1	314.0	56.8
C1	C4	N1	H4	118.2	124.1
N1	C4	S1	C6	12.2	34.6
S1	C4	N1	H4	240.8	242.1
C6	C5	N1	C4	42.7	31.9
C9	C5	N1	C4	276.0	271.0
C4	N1	C5	H5	160.7	152.7
C5	N1	C4	HN1	240.0	236.1
S1	C4	C1	N2	78.0	185.3
C1	C4	S1	N1	118.5	117.9
S1	C4	C1	H1	196.5	305.3
C1	C4	S1	H4	241.7	235.8
S1	C4	N1	C5	326.6	317.6
N1	C4	S1	H4	123.2	117.9
S1	C4	N1	HN1	86.6	81.5
C5	C6	S1	C4	10.3	341.7
C12	C6	S1	C4	253.1	223.2
C4	S1	C6	C13	129.4	100.2
C4	N1	C5	C6	42.7	31.9
C4	S1	C6	C5	10.3	341.7
C9	C5	C6	N1	125.7	120.9
C6	C5	C9	O1	87.2	80.0
C6	C5	C9	O2	264.8	260.0
C9	C5	C6	H5	245.0	241.6
N1	C5	C6	H5	119.2	120.7
C6	C5	N1	HN1	282.8	268.0
C12	C6	C5	S1	117.7	118.5
C12	C6	C5	C13	237.0	237.1
C5	C6	C12	H12	133.9	60.1
C5	C6	C12	H12A	254.0	180.0
C5	C6	C12	H12B	14.0	300.0
S1	C6	C5	C13	119.2	118.6
C5	C6	C13	H13	31.8	59.9
C5	C6	C13	H13A	151.8	180.0
C5	C6	C13	H13B	271.8	299.9
C4	N1	C5	C9	276.0	271.0
C6	C5	C9	N1	236.3	236.6
C9	C5	C6	C12	212.7	235.5
C9	C5	C6	S1	95.0	117.0
C9	C5	C6	C13	335.7	358.4
C6	C5	C9	H5	117.4	118.4
N1	C5	C9	H5	241.1	241.8
C9	C5	N1	HN1	156.0	147.1
O1	C9	C5	O2	182.4	180.0
C5	C9	O1	HO1	177.4	180.0
C5	N1	C4	S1	326.6	317.6
C5	N1	C4	H4	85.8	75.5
C4	N1	C5	HN1	120.0	123.9
C6	C5	N1	C9	126.8	120.9
N1	C5	C6	C12	87.0	114.6
N1	C5	C6	S1	329.3	356.1
N1	C5	C6	C13	210.0	237.5
C6	C5	N1	H5	242.0	239.2
N1	C5	C9	O1	210.9	203.4
N1	C5	C9	O2	28.5	23.3
C9	C5	N1	H5	115.3	118.3
C4	S1	C6	C12	253.1	223.2
C12	C6	C5	C9	212.7	235.5
C12	C6	C5	N1	87.0	114.6
C5	C6	C12	S1	246.4	245.9
C5	C6	C12	C13	122.9	122.9
C12	C6	C5	H5	327.7	353.9
S1	C6	C12	C13	236.4	237.0
C12	C6	C13	H13	153.8	182.9
C12	C6	C13	H13A	273.8	302.9
C12	C6	C13	H13B	33.9	62.8
H12	C12	C6	H12A	240.0	240.1
H12	C12	C6	H12B	119.9	120.1
H12A	C12	C6	H12B	240.0	240.0
C6	S1	C4	H4	249.0	276.7
S1	C6	C5	C9	95.0	117.0
S1	C6	C5	N1	329.3	356.1
C5	C6	S1	C12	117.2	118.5
C5	C6	S1	C13	240.8	241.5
S1	C6	C5	H5	210.0	235.4
C12	C6	S1	C13	123.7	123.0
S1	C6	C12	H12	247.5	174.1
S1	C6	C12	H12A	7.5	294.1
S1	C6	C12	H12B	127.5	54.1
S1	C6	C13	H13	277.0	305.8
S1	C6	C13	H13A	37.0	65.9
S1	C6	C13	H13B	157.0	185.8
C13	C6	C5	C9	335.7	358.4
C13	C6	C5	N1	210.0	237.5
C5	C6	C13	C12	237.9	237.1
C5	C6	C13	S1	114.8	114.1
C13	C6	C5	H5	90.8	116.8
C12	C6	C13	S1	236.8	237.0
C13	C6	C12	H12	11.1	297.2
C13	C6	C12	H12A	131.1	57.1
C13	C6	C12	H12B	251.1	177.1
H13	C13	C6	H13A	240.0	239.9
H13	C13	C6	H13B	120.0	120.0
H13A	C13	C6	H13B	240.0	240.1
C8	C7	C3	C16	360.0	360.0
C8	C7	C3	H3	180.0	179.7
C3	C7	C8	H7	180.0	180.0
C7	C8	C10	C11	0.1	0.0
C10	C8	C7	H8	180.0	180.1
C7	C8	C10	H10	180.0	180.0
C10	C8	C7	H7	179.8	180.0
C7	C8	C10	H8	180.0	179.9
C8	C10	C11	C16	0.2	359.9
C11	C10	C8	H10	180.0	180.0
C8	C10	C11	H11	180.2	180.0
O1	C9	C5	N1	210.9	203.4
C5	C9	O1	O2	177.3	180.0
O1	C9	C5	H5	329.8	321.6
O2	C9	C5	N1	28.5	23.3
C5	C9	O2	O1	182.7	180.0
O2	C9	C5	H5	147.4	141.6
O2	C9	O1	HO1	0.0	0.1
C3	C16	C11	C10	359.6	0.1
C11	C10	C8	H8	180.1	180.1
C8	C10	C11	H10	180.0	180.0
C10	C11	C16	C15	180.4	180.0
C16	C11	C10	H11	180.0	179.9
C3	C16	C11	C15	179.2	180.1
C11	C16	C3	H3	180.3	180.3
C16	C11	C10	H10	180.2	179.9
C10	C11	C16	H11	180.0	180.1
C11	C16	C15	C14	292.1	270.0
C11	C16	C15	H15	52.1	30.1
C11	C16	C15	H15A	172.3	150.0
C1	N2	C14	O5	359.1	360.0
C16	C15	C14	O5	294.2	0.0
C15	C14	O5	N2	179.9	180.0
O5	C14	C15	H15	174.2	240.0
O5	C14	C15	H15A	54.1	120.0
O5	C14	N2	HN2	179.1	180.0
C3	C16	C15	C11	180.8	179.9
C15	C16	C3	H3	359.4	0.3
C15	C16	C11	H11	0.4	359.9
O5	C14	C15	C16	294.2	0.0
C16	C15	C14	N2	114.1	180.0
C14	C15	C16	H15	240.0	240.0
C14	C15	C16	H15A	119.8	120.0
H15	C15	C16	H15A	239.8	240.1
C1	N2	C14	C15	179.2	180.0
O5	C14	C15	N2	180.1	180.0
C16	C15	C14	H15	120.0	120.0
C16	C15	C14	H15A	240.2	240.0
C15	C14	N2	HN2	359.2	0.0
H15	C15	C14	H15A	120.2	120.0
C14	N2	C1	H1	320.2	35.0
C1	N2	C14	HN2	180.0	180.0
O5	C14	N2	C15	179.9	180.0
N2	C14	C15	H15	354.1	60.0
N2	C14	C15	H15A	234.0	300.0
C2	C1	H1	C4	238.8	240.1
C2	C1	H1	N2	119.4	120.0
H1	C1	C2	O3	251.9	33.1
H1	C1	C2	O4	68.8	213.2
C4	C1	H1	N2	240.6	240.0
H1	C1	C4	N1	314.0	56.8
H1	C1	C4	S1	196.5	305.3
H1	C1	C4	H4	77.2	181.0
H1	C1	N2	C14	320.2	35.0
H1	C1	N2	HN2	140.2	215.0
C7	C3	H3	C16	180.0	180.3
H3	C3	C7	C8	180.0	179.7
H3	C3	C7	H7	0.0	359.7
H3	C3	C16	C11	180.3	180.3
H3	C3	C16	C15	359.4	0.3
H4	C4	C1	N2	318.8	61.0
C1	C4	H4	N1	241.0	235.8
C1	C4	H4	S1	123.1	124.3
H4	C4	C1	H1	77.2	181.0
N1	C4	H4	S1	242.0	248.5
H4	C4	N1	C5	85.8	75.5
H4	C4	N1	HN1	205.8	199.4
H4	C4	S1	C6	249.0	276.7
C6	C5	H5	C9	238.6	241.6
C6	C5	H5	N1	118.2	123.3
H5	C5	C6	C12	327.7	353.9
H5	C5	C6	S1	210.0	235.4
H5	C5	C6	C13	90.8	116.8
C9	C5	H5	N1	239.7	241.7
H5	C5	C9	O1	329.8	321.6
H5	C5	C9	O2	147.4	141.6
H5	C5	N1	HN1	40.7	28.8
H7	C7	C3	C16	180.0	180.0
C3	C7	H7	C8	180.0	180.0
H7	C7	C3	H3	0.0	359.7
H7	C7	C8	C10	179.8	180.0
H7	C7	C8	H8	359.8	359.9
C7	C8	H8	C10	180.0	180.1
H8	C8	C7	H7	359.8	359.9
H8	C8	C10	C11	180.1	180.1
H8	C8	C10	H10	0.1	0.1
C8	C10	H10	C11	180.0	180.0
H10	C10	C8	H8	0.1	0.1
H10	C10	C11	C16	180.2	179.9
H10	C10	C11	H11	0.3	0.0
C10	C11	H11	C16	180.0	179.9
H11	C11	C10	H10	0.3	0.0
H11	C11	C16	C15	0.4	359.9
H12	C12	C6	S1	247.5	174.1
H12	C12	C6	C13	11.1	297.2
C6	C12	H12	H12A	120.0	119.9
C6	C12	H12	H12B	240.0	240.0
H12A	C12	H12	H12B	120.0	120.0
H12A	C12	C6	S1	7.5	294.1
H12A	C12	C6	C13	131.1	57.1
C6	C12	H12A	H12	240.0	240.1
C6	C12	H12A	H12B	120.0	120.0
H12	C12	H12A	H12B	240.0	239.9
H12B	C12	C6	S1	127.5	54.1
H12B	C12	C6	C13	251.1	177.1
C6	C12	H12B	H12	120.0	120.0
C6	C12	H12B	H12A	240.0	240.0
H12	C12	H12B	H12A	120.0	120.0
HN1	N1	C4	S1	86.6	81.5
C4	N1	HN1	C5	239.4	236.1
HN1	N1	C4	H4	205.8	199.4
HN1	N1	C5	H5	40.7	28.8
HO1	O1	C9	O2	0.0	0.1
HO3	O3	C2	O4	360.0	359.9
C16	C15	H15	C14	239.6	240.0
C16	C15	H15	H15A	119.8	119.9
H15	C15	C14	N2	354.1	60.0
C14	C15	H15	H15A	240.2	239.9
C16	C15	H15A	C14	120.3	120.0
C16	C15	H15A	H15	240.1	240.1
H15A	C15	C14	N2	234.0	300.0
C14	C15	H15A	H15	119.8	120.1
C1	N2	HN2	C14	180.0	180.0
HN2	N2	C1	H1	140.2	215.0
C6	C13	H13	H13A	120.0	120.0
C6	C13	H13	H13B	240.0	240.0
H13A	C13	H13	H13B	120.0	120.0
C6	C13	H13A	H13	240.0	239.9
C6	C13	H13A	H13B	120.0	120.0
H13	C13	H13A	H13B	240.0	240.0
C6	C13	H13B	H13	120.0	120.0
C6	C13	H13B	H13A	240.0	240.0
H13	C13	H13B	H13A	120.0	120.0