VPF

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C1	O1	doub	1.21Å	1.25Å
C1	O2	sing	1.34Å	1.45Å
C1	C2	sing	1.51Å	1.54Å
C2	C3	sing	1.53Å	1.55Å
C3	C4	sing	1.51Å	1.51Å
C4	O3	doub	1.21Å	1.24Å
C4	N	sing	1.35Å	1.34Å
N	CA	sing	1.46Å	1.46Å
CA	C	sing	1.51Å	1.54Å
CA	CB	sing	1.53Å	1.60Å
C	O	doub	1.21Å	1.24Å
C	N1	sing	1.35Å	1.35Å
CB	CG1	sing	1.53Å	1.50Å
CB	CG2	sing	1.53Å	1.48Å
N1	CA1	sing	1.47Å	1.47Å
N1	CD	sing	1.47Å	1.47Å
CA1	C5	sing	1.51Å	1.53Å
CA1	CB1	sing	1.54Å	1.54Å
C5	O4	doub	1.21Å	1.24Å
C5	N2	sing	1.35Å	1.34Å
CB1	CG	sing	1.55Å	1.46Å
CG	CD	sing	1.55Å	1.49Å
N2	CA2	sing	1.46Å	1.08Å
CA2	HA2	sing	1.09Å	1.10Å
CA2	CB2	sing	1.53Å	1.56Å
CA2	P	sing	1.82Å	1.54Å
CB2	CG3	sing	1.51Å	1.52Å
CG3	CD1	doub	1.38Å	1.41Å	Aromatic
CG3	CD2	sing	1.38Å	1.39Å	Aromatic
CD1	CE1	sing	1.38Å	1.41Å	Aromatic
CD2	CE2	doub	1.38Å	1.42Å	Aromatic
CE1	CZ	doub	1.38Å	1.40Å	Aromatic
CE2	CZ	sing	1.38Å	1.39Å	Aromatic
O1P	P	doub	1.48Å	1.58Å
P	O2P	sing	1.61Å	1.58Å
P	OGG	sing	1.61Å	1.58Å
O2	HO2	sing	0.97Å	0.95Å
C2	H21	sing	1.09Å	1.10Å
C2	H22	sing	1.09Å	1.10Å
C3	H31	sing	1.09Å	1.10Å
C3	H32	sing	1.09Å	1.10Å
N	H	sing	0.97Å	1.00Å
CA	HA	sing	1.09Å	1.10Å
CB	HB	sing	1.09Å	1.10Å
CG1	HG11	sing	1.09Å	1.10Å
CG1	HG12	sing	1.09Å	1.10Å
CG1	HG13	sing	1.09Å	1.10Å
CG2	HG21	sing	1.09Å	1.10Å
CG2	HG22	sing	1.09Å	1.10Å
CG2	HG23	sing	1.09Å	1.10Å
CA1	HA1	sing	1.09Å	1.10Å
CB1	HB2	sing	1.09Å	1.10Å
CB1	HB3	sing	1.09Å	1.10Å
CG	HG2	sing	1.09Å	1.10Å
CG	HG3	sing	1.09Å	1.10Å
CD	HD2	sing	1.09Å	1.10Å
CD	HD3	sing	1.09Å	1.10Å
N2	HN2	sing	0.97Å	1.00Å
CB2	HB1	sing	1.09Å	1.10Å
CB2	HB21	sing	1.09Å	1.10Å
CD1	HD1	sing	1.08Å	1.08Å
CD2	HD21	sing	1.08Å	1.08Å
CE1	HE1	sing	1.08Å	1.08Å
CE2	HE2	sing	1.08Å	1.08Å
CZ	HZ	sing	1.08Å	1.08Å
O2P	HOP2	sing	0.97Å	0.95Å
OGG	H1	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O1	C1	O2	126.2°	120.0°
O1	C1	C2	112.2°	119.9°
O2	C1	C2	121.5°	120.0°
C1	O2	HO2	109.5°	117.0°
C1	C2	C3	115.0°	109.5°
C1	C2	H21	108.1°	109.5°
C1	C2	H22	108.1°	109.5°
C2	C3	C4	112.1°	109.5°
C3	C2	H21	108.1°	109.5°
C3	C2	H22	108.1°	109.5°
C2	C3	H31	108.8°	109.4°
C2	C3	H32	108.8°	109.4°
C3	C4	O3	119.1°	120.0°
C3	C4	N	114.9°	120.0°
C4	C3	H31	108.8°	109.5°
C4	C3	H32	108.8°	109.5°
O3	C4	N	122.3°	120.0°
C4	N	CA	121.1°	120.1°
C4	N	H	119.4°	120.0°
N	CA	C	108.7°	109.5°
N	CA	CB	112.0°	109.5°
CA	N	H	119.4°	119.9°
N	CA	HA	108.9°	109.5°
C	CA	CB	111.9°	109.4°
CA	C	O	119.7°	120.0°
CA	C	N1	124.0°	120.0°
C	CA	HA	107.9°	109.5°
CA	CB	CG1	112.5°	109.4°
CA	CB	CG2	110.1°	109.5°
CB	CA	HA	107.2°	109.4°
CA	CB	HB	107.6°	109.5°
O	C	N1	105.9°	120.0°
C	N1	CA1	123.9°	125.6°
C	N1	CD	123.7°	125.6°
CG1	CB	CG2	108.9°	109.5°
CG1	CB	HB	108.7°	109.4°
CB	CG1	HG11	109.5°	109.5°
CB	CG1	HG12	109.4°	109.5°
CB	CG1	HG13	109.5°	109.4°
CG2	CB	HB	109.0°	109.5°
CB	CG2	HG21	109.5°	109.5°
CB	CG2	HG22	109.5°	109.5°
CB	CG2	HG23	109.5°	109.5°
CA1	N1	CD	110.7°	108.7°
N1	CA1	C5	113.2°	109.9°
N1	CA1	CB1	103.1°	107.2°
N1	CA1	HA1	109.5°	109.9°
N1	CD	CG	103.1°	104.7°
N1	CD	HD2	111.0°	110.4°
N1	CD	HD3	111.0°	110.4°
C5	CA1	CB1	113.4°	109.9°
CA1	C5	O4	120.1°	120.0°
CA1	C5	N2	116.7°	120.0°
C5	CA1	HA1	108.7°	109.9°
CA1	CB1	CG	104.9°	102.9°
CB1	CA1	HA1	108.7°	110.0°
CA1	CB1	HB2	110.6°	110.7°
CA1	CB1	HB3	110.6°	110.7°
O4	C5	N2	123.2°	120.0°
C5	N2	CA2	123.0°	120.0°
C5	N2	HN2	118.5°	119.9°
CB1	CG	CD	105.4°	101.5°
CG	CB1	HB2	110.6°	110.7°
CG	CB1	HB3	110.6°	110.7°
CB1	CG	HG2	110.5°	111.0°
CB1	CG	HG3	110.5°	111.1°
CD	CG	HG2	110.5°	111.2°
CD	CG	HG3	110.5°	110.9°
CG	CD	HD2	111.1°	110.5°
CG	CD	HD3	111.0°	110.4°
N2	CA2	HA2	116.3°	109.5°
N2	CA2	CB2	122.7°	109.5°
N2	CA2	P	92.4°	109.5°
CA2	N2	HN2	118.5°	120.0°
HA2	CA2	CB2	107.8°	109.5°
HA2	CA2	P	108.0°	109.5°
CB2	CA2	P	107.3°	109.5°
CA2	CB2	CG3	119.9°	109.5°
CA2	CB2	HB1	106.8°	109.5°
CA2	CB2	HB21	106.8°	109.5°
CA2	P	O1P	102.3°	109.5°
CA2	P	O2P	134.6°	109.5°
CA2	P	OGG	105.3°	109.5°
CB2	CG3	CD1	120.8°	120.0°
CB2	CG3	CD2	120.7°	120.0°
CG3	CB2	HB1	106.8°	109.5°
CG3	CB2	HB21	106.8°	109.5°
CD1	CG3	CD2	118.5°	120.0°
CG3	CD1	CE1	121.0°	120.0°
CG3	CD1	HD1	119.5°	120.0°
CG3	CD2	CE2	120.9°	120.0°
CG3	CD2	HD21	119.5°	120.0°
CD1	CE1	CZ	119.9°	120.0°
CE1	CD1	HD1	119.5°	120.0°
CD1	CE1	HE1	120.0°	120.0°
CD2	CE2	CZ	120.1°	120.0°
CE2	CD2	HD21	119.6°	120.0°
CD2	CE2	HE2	119.9°	120.0°
CE1	CZ	CE2	119.6°	120.0°
CZ	CE1	HE1	120.1°	120.0°
CE1	CZ	HZ	120.2°	120.0°
CZ	CE2	HE2	120.0°	120.0°
CE2	CZ	HZ	120.2°	120.1°
O1P	P	O2P	103.7°	109.5°
O1P	P	OGG	103.7°	109.5°
O2P	P	OGG	103.8°	109.4°
P	O2P	HOP2	109.5°	114.0°
P	OGG	H1	109.5°	114.0°
H21	C2	H22	109.5°	109.4°
H31	C3	H32	109.5°	109.5°
HG11	CG1	HG12	109.5°	109.5°
HG11	CG1	HG13	109.5°	109.5°
HG12	CG1	HG13	109.5°	109.4°
HG21	CG2	HG22	109.4°	109.5°
HG21	CG2	HG23	109.5°	109.4°
HG22	CG2	HG23	109.5°	109.4°
HB2	CB1	HB3	109.5°	110.7°
HG2	CG	HG3	109.5°	110.9°
HD2	CD	HD3	109.5°	110.4°
HB1	CB2	HB21	109.5°	109.5°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O1	C1	O2	C2	175.9°	179.7°
O1	C1	C2	C3	144.8°	0.0°
O1	C1	O2	HO2	0.0°	0.0°
O1	C1	C2	H21	94.4°	120.0°
O1	C1	C2	H22	24.0°	120.0°
O2	C1	C2	C3	31.7°	179.7°
O2	C1	C2	H21	89.1°	60.2°
O2	C1	C2	H22	152.5°	59.7°
C1	C2	C3	H21	120.8°	120.0°
C1	C2	C3	H22	120.8°	120.0°
C1	C2	C3	C4	179.6°	180.0°
C2	C1	O2	HO2	175.9°	179.7°
C1	C2	H21	H22	117.5°	120.0°
C1	C2	C3	H31	59.2°	60.0°
C1	C2	C3	H32	60.0°	60.0°
C2	C3	C4	H31	120.4°	120.0°
C2	C3	C4	H32	120.4°	120.0°
C2	C3	C4	O3	90.6°	0.0°
C2	C3	C4	N	67.9°	180.0°
C3	C2	H21	H22	117.5°	120.0°
C2	C3	H31	H32	118.8°	119.9°
C3	C4	O3	N	156.9°	180.0°
C3	C4	N	CA	168.5°	180.0°
C4	C3	C2	H21	59.6°	60.0°
C4	C3	C2	H22	58.8°	60.0°
C4	C3	H31	H32	118.8°	120.1°
C3	C4	N	H	11.5°	0.0°
O3	C4	N	CA	10.7°	0.0°
O3	C4	C3	H31	149.0°	120.0°
O3	C4	C3	H32	29.8°	120.0°
O3	C4	N	H	169.3°	180.0°
C4	N	CA	H	180.0°	180.0°
C4	N	CA	C	103.9°	155.0°
C4	N	CA	CB	131.9°	85.0°
N	C4	C3	H31	52.5°	60.0°
N	C4	C3	H32	171.7°	60.0°
C4	N	CA	HA	13.4°	35.0°
N	CA	C	CB	124.3°	120.0°
N	CA	C	HA	118.0°	120.1°
N	CA	CB	HA	119.4°	120.0°
N	CA	C	O	14.3°	39.2°
N	CA	C	N1	125.6°	140.7°
N	CA	CB	CG1	67.8°	58.6°
N	CA	CB	CG2	170.5°	178.5°
N	CA	CB	HB	51.9°	61.4°
C	CA	CB	HA	118.2°	119.9°
CA	C	O	N1	146.3°	179.9°
C	CA	CB	CG1	54.6°	61.5°
C	CA	CB	CG2	67.1°	58.5°
CA	C	N1	CA1	172.2°	175.7°
CA	C	N1	CD	8.5°	4.0°
C	CA	N	H	76.1°	25.0°
C	CA	CB	HB	174.3°	178.5°
CB	CA	C	O	109.9°	80.9°
CB	CA	C	N1	110.2°	99.2°
CA	CB	CG1	CG2	122.4°	120.0°
CA	CB	CG1	HB	119.0°	120.0°
CA	CB	CG2	HB	117.8°	120.1°
CB	CA	N	H	48.1°	95.0°
CA	CB	CG1	HG11	180.0°	60.0°
CA	CB	CG1	HG12	60.0°	179.9°
CA	CB	CG1	HG13	60.0°	60.0°
CA	CB	CG2	HG21	180.0°	61.1°
CA	CB	CG2	HG22	60.0°	58.9°
CA	CB	CG2	HG23	60.0°	178.9°
O	C	N1	CA1	43.4°	4.2°
O	C	N1	CD	152.9°	176.1°
O	C	CA	HA	132.3°	159.2°
C	N1	CA1	CD	165.5°	179.8°
C	N1	CA1	C5	46.4°	59.5°
C	N1	CA1	CB1	169.4°	179.0°
C	N1	CD	CG	148.0°	155.8°
N1	C	CA	HA	7.6°	20.7°
C	N1	CA1	HA1	75.1°	61.5°
C	N1	CD	HD2	93.0°	85.3°
C	N1	CD	HD3	29.1°	37.0°
CG1	CB	CG2	HB	118.5°	119.9°
CG1	CB	CA	HA	172.8°	178.5°
CB	CG1	HG11	HG12	120.0°	120.1°
CB	CG1	HG11	HG13	120.0°	120.0°
CB	CG1	HG12	HG13	120.0°	120.0°
CG1	CB	CG2	HG21	56.2°	58.8°
CG1	CB	CG2	HG22	63.8°	178.9°
CG1	CB	CG2	HG23	176.2°	61.1°
CG2	CB	CA	HA	51.1°	61.5°
CG2	CB	CG1	HG11	57.6°	60.0°
CG2	CB	CG1	HG12	177.6°	60.1°
CG2	CB	CG1	HG13	62.4°	180.0°
CB	CG2	HG21	HG22	120.0°	120.1°
CB	CG2	HG21	HG23	120.0°	120.0°
CB	CG2	HG22	HG23	120.0°	120.0°
N1	CA1	C5	CB1	117.1°	117.8°
N1	CA1	C5	HA1	122.0°	121.1°
N1	CA1	CB1	HA1	116.2°	119.5°
N1	CA1	C5	O4	37.7°	0.0°
N1	CA1	C5	N2	141.1°	180.0°
N1	CA1	CB1	CG	24.5°	22.2°
CA1	N1	CD	CG	17.5°	24.4°
N1	CA1	CB1	HB2	143.7°	140.6°
N1	CA1	CB1	HB3	94.8°	96.2°
CA1	N1	CD	HD2	101.5°	94.5°
CA1	N1	CD	HD3	136.4°	143.2°
CD	N1	CA1	C5	119.1°	120.7°
CD	N1	CA1	CB1	3.9°	1.3°
N1	CD	CG	CB1	33.0°	37.3°
N1	CD	CG	HD2	119.0°	118.8°
N1	CD	CG	HD3	118.9°	118.8°
CD	N1	CA1	HA1	119.4°	118.3°
N1	CD	CG	HG2	86.3°	80.8°
N1	CD	CG	HG3	152.4°	155.3°
N1	CD	HD2	HD3	123.0°	122.3°
C5	CA1	CB1	HA1	121.0°	121.1°
CA1	C5	O4	N2	178.7°	180.0°
C5	CA1	CB1	CG	98.4°	97.2°
CA1	C5	N2	CA2	179.6°	174.9°
C5	CA1	CB1	HB2	20.9°	21.1°
C5	CA1	CB1	HB3	142.4°	144.4°
CA1	C5	N2	HN2	0.4°	5.0°
CB1	CA1	C5	O4	79.4°	117.8°
CB1	CA1	C5	N2	101.9°	62.2°
CA1	CB1	CG	HB2	119.3°	118.4°
CA1	CB1	CG	HB3	119.2°	118.4°
CA1	CB1	CG	CD	36.1°	35.7°
CA1	CB1	HB2	HB3	122.1°	123.2°
CA1	CB1	CG	HG2	83.2°	82.6°
CA1	CB1	CG	HG3	155.5°	153.6°
O4	C5	N2	CA2	0.9°	5.0°
O4	C5	CA1	HA1	159.7°	121.0°
O4	C5	N2	HN2	179.1°	175.0°
C5	N2	CA2	HN2	180.0°	180.0°
C5	N2	CA2	HA2	97.0°	16.5°
C5	N2	CA2	CB2	126.9°	136.5°
C5	N2	CA2	P	14.5°	103.5°
N2	C5	CA1	HA1	19.1°	58.9°
CB1	CG	CD	HG2	119.3°	118.1°
CB1	CG	CD	HG3	119.4°	118.0°
CG	CB1	CA1	HA1	140.6°	141.7°
CG	CB1	HB2	HB3	122.1°	123.2°
CB1	CG	HG2	HG3	121.9°	124.0°
CB1	CG	CD	HD2	85.9°	81.6°
CB1	CG	CD	HD3	152.0°	156.1°
CD	CG	CB1	HB2	155.4°	154.0°
CD	CG	CB1	HB3	83.1°	82.7°
CD	CG	HG2	HG3	121.9°	123.8°
CG	CD	HD2	HD3	123.0°	122.3°
N2	CA2	HA2	CB2	142.3°	120.0°
N2	CA2	HA2	P	102.1°	120.0°
N2	CA2	CB2	P	104.6°	120.0°
N2	CA2	CB2	CG3	62.3°	174.2°
N2	CA2	P	O1P	81.1°	44.9°
N2	CA2	P	O2P	42.7°	165.0°
N2	CA2	P	OGG	170.7°	75.0°
N2	CA2	CB2	HB1	59.1°	65.8°
N2	CA2	CB2	HB21	176.2°	54.2°
HA2	CA2	CB2	P	116.1°	120.0°
HA2	CA2	CB2	CG3	158.4°	54.2°
HA2	CA2	P	O1P	160.3°	75.1°
HA2	CA2	P	O2P	75.9°	45.0°
HA2	CA2	P	OGG	52.1°	165.0°
HA2	CA2	N2	HN2	83.1°	163.5°
HA2	CA2	CB2	HB1	80.2°	174.2°
HA2	CA2	CB2	HB21	36.9°	65.8°
CA2	CB2	CG3	HB1	121.4°	120.0°
CA2	CB2	CG3	HB21	121.5°	120.0°
CA2	CB2	CG3	CD1	41.6°	94.9°
CA2	CB2	CG3	CD2	138.0°	84.8°
CB2	CA2	P	O1P	44.3°	164.9°
CB2	CA2	P	O2P	168.1°	75.0°
CB2	CA2	P	OGG	63.9°	45.0°
CB2	CA2	N2	HN2	53.1°	43.5°
CA2	CB2	HB1	HB21	115.3°	120.0°
P	CA2	CB2	CG3	42.3°	65.8°
CA2	P	O1P	O2P	142.5°	120.0°
CA2	P	O1P	OGG	109.3°	120.0°
CA2	P	O2P	OGG	128.5°	120.0°
P	CA2	N2	HN2	165.5°	76.5°
P	CA2	CB2	HB1	163.8°	54.2°
P	CA2	CB2	HB21	79.2°	174.2°
CA2	P	O2P	HOP2	44.1°	65.1°
CA2	P	OGG	H1	107.1°	55.1°
CB2	CG3	CD1	CD2	179.6°	179.8°
CB2	CG3	CD1	CE1	179.6°	179.7°
CB2	CG3	CD2	CE2	179.5°	180.0°
CG3	CB2	HB1	HB21	115.3°	120.0°
CB2	CG3	CD1	HD1	0.4°	0.0°
CB2	CG3	CD2	HD21	0.5°	0.1°
CG3	CD1	CE1	HD1	180.0°	179.7°
CD1	CG3	CD2	CE2	0.1°	0.2°
CG3	CD1	CE1	CZ	0.1°	0.5°
CD1	CG3	CB2	HB1	163.0°	25.1°
CD1	CG3	CB2	HB21	79.9°	145.1°
CD1	CG3	CD2	HD21	179.9°	179.7°
CG3	CD1	CE1	HE1	179.9°	179.7°
CD2	CG3	CD1	CE1	0.0°	0.5°
CG3	CD2	CE2	HD21	180.0°	179.9°
CG3	CD2	CE2	CZ	0.1°	0.1°
CD2	CG3	CB2	HB1	16.6°	155.2°
CD2	CG3	CB2	HB21	100.5°	35.2°
CD2	CG3	CD1	HD1	180.0°	179.8°
CG3	CD2	CE2	HE2	179.9°	180.0°
CD1	CE1	CZ	HE1	180.0°	179.7°
CD1	CE1	CZ	CE2	0.1°	0.2°
CD1	CE1	CZ	HZ	179.9°	179.7°
CD2	CE2	CZ	CE1	0.0°	0.1°
CD2	CE2	CZ	HE2	180.0°	179.9°
CD2	CE2	CZ	HZ	180.0°	180.0°
CE1	CZ	CE2	HZ	180.0°	180.0°
CZ	CE1	CD1	HD1	179.9°	179.8°
CE1	CZ	CE2	HE2	180.0°	179.9°
CZ	CE2	CD2	HD21	179.9°	180.0°
CE2	CZ	CE1	HE1	179.9°	180.0°
O1P	P	O2P	OGG	108.1°	120.0°
O1P	P	O2P	HOP2	79.2°	55.0°
O1P	P	OGG	H1	0.0°	64.9°
O2P	P	OGG	H1	108.1°	175.1°
OGG	P	O2P	HOP2	172.7°	175.0°
H21	C2	C3	H31	180.0°	180.0°
H21	C2	C3	H32	60.8°	60.0°
H22	C2	C3	H31	61.6°	60.0°
H22	C2	C3	H32	179.2°	180.0°
H	N	CA	HA	166.6°	145.1°
HA	CA	CB	HB	67.5°	58.6°
HB	CB	CG1	HG11	61.0°	180.0°
HB	CB	CG1	HG12	59.0°	59.9°
HB	CB	CG1	HG13	179.0°	60.0°
HB	CB	CG2	HG21	62.3°	178.8°
HB	CB	CG2	HG22	177.8°	61.2°
HB	CB	CG2	HG23	57.7°	58.8°
HG11	CG1	HG12	HG13	120.0°	120.0°
HG21	CG2	HG22	HG23	120.0°	119.9°
HA1	CA1	CB1	HB2	100.1°	99.9°
HA1	CA1	CB1	HB3	21.4°	23.3°
HB2	CB1	CG	HG2	36.0°	35.8°
HB2	CB1	CG	HG3	85.3°	88.1°
HB3	CB1	CG	HG2	157.5°	159.1°
HB3	CB1	CG	HG3	36.2°	35.2°
HG2	CG	CD	HD2	154.7°	160.3°
HG2	CG	CD	HD3	32.7°	38.0°
HG3	CG	CD	HD2	33.4°	36.5°
HG3	CG	CD	HD3	88.6°	85.9°
HD1	CD1	CE1	HE1	0.1°	0.0°
HD21	CD2	CE2	HE2	0.1°	0.1°
HE1	CE1	CZ	HZ	0.1°	0.0°
HE2	CE2	CZ	HZ	0.0°	0.1°

Release date:	2013-01-18
Definition date:	2012-02-10
Last modified:	2013-01-18
Release status:	REL
Processing site:	PDBJ
Sub-components:	SIN VAL PRO XPH
Derived from:	3UFA