Obsolete: GDB

GDB was replaced with GDN on

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
N1	CA1	sing	1.47Å	1.50Å
N1	HN11	sing	1.01Å	1.02Å
N1	HN12	sing	1.01Å	1.02Å
CA1	C1	sing	1.51Å	1.49Å
CA1	CB1	sing	1.53Å	1.51Å
CA1	HA1	sing	1.09Å	1.11Å
C1	O11	doub	1.34Å	1.20Å
C1	O12	sing	1.21Å	1.39Å
O12	HO2	sing	8.47Å	0.95Å
CB1	CG1	sing	1.53Å	1.58Å
CB1	HB11	sing	1.09Å	1.12Å
CB1	HB12	sing	1.09Å	1.12Å
CG1	CD1	sing	1.51Å	1.54Å
CG1	HG11	sing	1.09Å	1.12Å
CG1	HG12	sing	1.09Å	1.11Å
CD1	OE1	doub	1.21Å	1.26Å
CD1	N2	sing	1.35Å	1.33Å
N2	CA2	sing	1.46Å	1.46Å
N2	HN2	sing	0.97Å	1.02Å
CA2	C2	sing	1.51Å	1.53Å
CA2	CB2	sing	1.53Å	1.55Å
CA2	HA2	sing	1.09Å	1.12Å
C2	O2	doub	1.21Å	1.22Å
C2	N3	sing	1.35Å	1.32Å
CB2	SG2	sing	1.81Å	1.78Å
CB2	HB21	sing	1.09Å	1.11Å
CB2	HB22	sing	1.09Å	1.11Å
SG2	C1'	sing	1.76Å	1.73Å
N3	CA3	sing	1.46Å	1.48Å
N3	HN3	sing	0.97Å	1.02Å
CA3	C3	sing	1.51Å	1.49Å
CA3	HA31	sing	1.09Å	1.11Å
CA3	HA32	sing	1.09Å	1.11Å
C3	O31	doub	1.34Å	1.26Å
C3	O32	sing	1.21Å	1.35Å
O32	HO3	sing	5.80Å	0.95Å
C1'	C2'	doub	1.39Å	1.41Å	Aromatic
C1'	C6'	sing	1.39Å	1.44Å	Aromatic
C2'	N2'	sing	1.48Å	1.48Å
C2'	C3'	sing	1.38Å	1.43Å	Aromatic
N2'	O21	doub	1.22Å	1.24Å
N2'	O22	doub	1.22Å	1.28Å
C3'	C4'	doub	1.38Å	1.43Å	Aromatic
C3'	H3'	sing	1.08Å	1.10Å
C4'	N4'	sing	1.48Å	1.41Å
C4'	C5'	sing	1.38Å	1.41Å	Aromatic
N4'	O41	doub	1.22Å	1.36Å
N4'	O42	doub	1.22Å	1.38Å
C5'	C6'	doub	1.38Å	1.40Å	Aromatic
C5'	H5'	sing	1.08Å	1.10Å
C6'	H6'	sing	1.08Å	1.10Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
CA1	N1	HN11	113.2°	106.7°
CA1	N1	HN12	110.8°	106.7°
N1	CA1	C1	113.2°	109.5°
N1	CA1	CB1	109.0°	109.4°
N1	CA1	HA1	109.2°	109.5°
HN11	N1	HN12	110.7°	106.7°
C1	CA1	CB1	114.7°	109.5°
C1	CA1	HA1	102.8°	109.5°
CA1	C1	O11	129.4°	120.0°
CA1	C1	O12	108.2°	120.0°
CB1	CA1	HA1	107.5°	109.5°
CA1	CB1	CG1	109.3°	109.5°
CA1	CB1	HB11	112.3°	109.5°
CA1	CB1	HB12	112.3°	109.4°
O11	C1	O12	122.4°	120.0°
C1	O12	HO2	108.3°	43.7°
CG1	CB1	HB11	112.3°	109.5°
CG1	CB1	HB12	112.2°	109.4°
CB1	CG1	CD1	108.2°	109.5°
CB1	CG1	HG11	112.6°	109.5°
CB1	CG1	HG12	112.7°	109.4°
HB11	CB1	HB12	98.1°	109.5°
CD1	CG1	HG11	112.7°	109.5°
CD1	CG1	HG12	112.7°	109.5°
CG1	CD1	OE1	119.0°	120.0°
CG1	CD1	N2	112.3°	120.0°
HG11	CG1	HG12	97.8°	109.4°
OE1	CD1	N2	128.7°	120.0°
CD1	N2	CA2	124.5°	120.0°
CD1	N2	HN2	113.0°	120.0°
CA2	N2	HN2	122.5°	120.0°
N2	CA2	C2	109.2°	109.5°
N2	CA2	CB2	111.1°	109.5°
N2	CA2	HA2	109.9°	109.5°
C2	CA2	CB2	113.1°	109.5°
C2	CA2	HA2	107.8°	109.5°
CA2	C2	O2	116.0°	120.0°
CA2	C2	N3	120.4°	120.0°
CB2	CA2	HA2	105.7°	109.4°
CA2	CB2	SG2	110.0°	109.5°
CA2	CB2	HB21	112.1°	109.4°
CA2	CB2	HB22	112.1°	109.5°
O2	C2	N3	123.7°	120.0°
C2	N3	CA3	119.3°	120.0°
C2	N3	HN3	114.6°	120.0°
SG2	CB2	HB21	112.0°	109.5°
SG2	CB2	HB22	112.0°	109.5°
CB2	SG2	C1'	114.4°	100.0°
HB21	CB2	HB22	98.4°	109.6°
SG2	C1'	C2'	119.3°	120.1°
SG2	C1'	C6'	119.2°	120.1°
CA3	N3	HN3	126.0°	120.0°
N3	CA3	C3	111.3°	109.4°
N3	CA3	HA31	111.5°	109.5°
N3	CA3	HA32	111.5°	109.5°
C3	CA3	HA31	111.5°	109.5°
C3	CA3	HA32	111.6°	109.5°
CA3	C3	O31	122.7°	120.0°
CA3	C3	O32	123.4°	120.0°
HA31	CA3	HA32	98.8°	109.5°
O31	C3	O32	113.9°	120.0°
C3	O32	HO3	123.4°	92.2°
C2'	C1'	C6'	121.4°	119.8°
C1'	C2'	N2'	127.7°	120.1°
C1'	C2'	C3'	117.7°	120.0°
C1'	C6'	C5'	120.3°	119.9°
C1'	C6'	H6'	121.4°	120.0°
N2'	C2'	C3'	114.5°	120.0°
C2'	N2'	O21	123.0°	120.1°
C2'	N2'	O22	113.7°	120.0°
C2'	C3'	C4'	120.3°	120.0°
C2'	C3'	H3'	119.9°	120.0°
O21	N2'	O22	123.3°	119.9°
C4'	C3'	H3'	119.9°	120.0°
C3'	C4'	N4'	119.6°	119.9°
C3'	C4'	C5'	121.5°	120.2°
N4'	C4'	C5'	118.9°	119.9°
C4'	N4'	O41	119.9°	120.0°
C4'	N4'	O42	122.7°	120.0°
C4'	C5'	C6'	118.7°	120.1°
C4'	C5'	H5'	121.0°	120.0°
O41	N4'	O42	117.4°	120.0°
C6'	C5'	H5'	120.3°	119.9°
C5'	C6'	H6'	118.3°	120.0°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
CA1	N1	HN11	HN12	125.2°	113.8°
N1	CA1	C1	CB1	126.0°	120.0°
N1	CA1	C1	HA1	117.6°	120.0°
N1	CA1	CB1	HA1	118.2°	120.0°
N1	CA1	C1	O11	151.9°	160.0°
N1	CA1	C1	O12	27.7°	20.0°
N1	CA1	CB1	CG1	161.7°	65.0°
N1	CA1	CB1	HB11	36.4°	55.1°
N1	CA1	CB1	HB12	73.1°	175.0°
HN11	N1	CA1	C1	180.0°	60.0°
HN11	N1	CA1	CB1	51.0°	60.0°
HN11	N1	CA1	HA1	66.2°	180.0°
HN12	N1	CA1	C1	54.8°	173.8°
HN12	N1	CA1	CB1	74.2°	53.8°
HN12	N1	CA1	HA1	168.6°	66.2°
C1	CA1	CB1	HA1	113.6°	120.0°
CA1	C1	O11	O12	179.5°	179.9°
CA1	C1	O12	HO2	179.9°	37.1°
C1	CA1	CB1	CG1	70.2°	175.0°
C1	CA1	CB1	HB11	164.5°	64.9°
C1	CA1	CB1	HB12	55.1°	55.1°
CB1	CA1	C1	O11	82.1°	80.0°
CB1	CA1	C1	O12	98.3°	99.9°
CA1	CB1	CG1	HB11	125.3°	120.1°
CA1	CB1	CG1	HB12	125.3°	119.9°
CA1	CB1	HB11	HB12	118.2°	119.9°
CA1	CB1	CG1	CD1	178.8°	180.0°
CA1	CB1	CG1	HG11	56.0°	59.9°
CA1	CB1	CG1	HG12	53.5°	60.0°
HA1	CA1	C1	O11	34.2°	40.0°
HA1	CA1	C1	O12	145.4°	140.1°
HA1	CA1	CB1	CG1	43.4°	54.9°
HA1	CA1	CB1	HB11	81.9°	175.0°
HA1	CA1	CB1	HB12	168.7°	65.0°
O11	C1	O12	HO2	0.4°	142.8°
CG1	CB1	HB11	HB12	118.1°	120.0°
CB1	CG1	CD1	HG11	125.2°	120.1°
CB1	CG1	CD1	HG12	125.3°	120.0°
CB1	CG1	HG11	HG12	118.6°	120.0°
CB1	CG1	CD1	OE1	4.7°	0.0°
CB1	CG1	CD1	N2	174.7°	180.0°
HB11	CB1	CG1	CD1	53.4°	60.0°
HB11	CB1	CG1	HG11	178.7°	180.0°
HB11	CB1	CG1	HG12	71.8°	60.0°
HB12	CB1	CG1	CD1	56.0°	60.1°
HB12	CB1	CG1	HG11	69.3°	60.0°
HB12	CB1	CG1	HG12	178.8°	179.9°
CD1	CG1	HG11	HG12	118.6°	120.0°
CG1	CD1	OE1	N2	179.4°	180.0°
CG1	CD1	N2	CA2	179.3°	180.0°
CG1	CD1	N2	HN2	0.7°	0.0°
HG11	CG1	CD1	OE1	120.5°	120.0°
HG11	CG1	CD1	N2	60.0°	60.0°
HG12	CG1	CD1	OE1	130.0°	120.0°
HG12	CG1	CD1	N2	49.5°	60.0°
OE1	CD1	N2	CA2	0.1°	0.0°
OE1	CD1	N2	HN2	179.8°	180.0°
CD1	N2	CA2	HN2	180.0°	180.0°
CD1	N2	CA2	C2	145.0°	85.0°
CD1	N2	CA2	CB2	89.5°	155.0°
CD1	N2	CA2	HA2	27.0°	35.0°
N2	CA2	C2	CB2	124.3°	120.0°
N2	CA2	C2	HA2	119.3°	120.0°
N2	CA2	CB2	HA2	119.2°	120.0°
N2	CA2	C2	O2	32.2°	0.0°
N2	CA2	C2	N3	147.7°	180.0°
N2	CA2	CB2	SG2	160.1°	60.0°
N2	CA2	CB2	HB21	34.9°	60.0°
N2	CA2	CB2	HB22	74.6°	180.0°
HN2	N2	CA2	C2	35.0°	95.0°
HN2	N2	CA2	CB2	90.4°	25.0°
HN2	N2	CA2	HA2	153.0°	144.9°
C2	CA2	CB2	HA2	117.6°	120.0°
CA2	C2	O2	N3	179.9°	180.0°
C2	CA2	CB2	SG2	76.7°	180.0°
C2	CA2	CB2	HB21	158.1°	60.1°
C2	CA2	CB2	HB22	48.6°	60.0°
CA2	C2	N3	CA3	180.0°	180.0°
CA2	C2	N3	HN3	0.0°	0.1°
CB2	CA2	C2	O2	92.1°	120.0°
CB2	CA2	C2	N3	88.0°	59.9°
CA2	CB2	SG2	HB21	125.3°	119.9°
CA2	CB2	SG2	HB22	125.3°	120.0°
CA2	CB2	HB21	HB22	118.0°	120.0°
CA2	CB2	SG2	C1'	65.6°	180.0°
HA2	CA2	C2	O2	151.5°	120.1°
HA2	CA2	C2	N3	28.4°	60.0°
HA2	CA2	CB2	SG2	41.0°	60.0°
HA2	CA2	CB2	HB21	84.3°	179.9°
HA2	CA2	CB2	HB22	166.2°	60.0°
O2	C2	N3	CA3	0.2°	0.0°
O2	C2	N3	HN3	179.9°	180.0°
C2	N3	CA3	HN3	180.0°	179.9°
C2	N3	CA3	C3	116.4°	180.0°
C2	N3	CA3	HA31	118.3°	60.1°
C2	N3	CA3	HA32	8.9°	60.0°
SG2	CB2	HB21	HB22	117.9°	120.1°
CB2	SG2	C1'	C2'	163.5°	179.7°
CB2	SG2	C1'	C6'	16.3°	0.0°
HB21	CB2	SG2	C1'	59.7°	60.1°
HB22	CB2	SG2	C1'	169.2°	60.0°
SG2	C1'	C2'	C6'	179.8°	179.7°
SG2	C1'	C2'	N2'	0.4°	0.3°
SG2	C1'	C2'	C3'	179.4°	179.7°
SG2	C1'	C6'	C5'	179.7°	180.0°
SG2	C1'	C6'	H6'	0.3°	0.1°
N3	CA3	C3	HA31	125.2°	120.0°
N3	CA3	C3	HA32	125.3°	120.0°
N3	CA3	HA31	HA32	117.4°	120.0°
N3	CA3	C3	O31	18.9°	180.0°
N3	CA3	C3	O32	160.8°	0.0°
HN3	N3	CA3	C3	63.6°	0.1°
HN3	N3	CA3	HA31	61.6°	120.0°
HN3	N3	CA3	HA32	171.1°	119.9°
C3	CA3	HA31	HA32	117.5°	120.0°
CA3	C3	O31	O32	179.7°	180.0°
CA3	C3	O32	HO3	179.9°	8.3°
HA31	CA3	C3	O31	144.2°	60.0°
HA31	CA3	C3	O32	35.5°	120.0°
HA32	CA3	C3	O31	106.4°	60.0°
HA32	CA3	C3	O32	74.0°	120.0°
O31	C3	O32	HO3	0.2°	171.8°
C1'	C2'	N2'	C3'	179.8°	179.3°
C1'	C2'	N2'	O21	10.1°	179.4°
C1'	C2'	N2'	O22	169.2°	0.7°
C1'	C2'	C3'	C4'	0.4°	0.7°
C1'	C2'	C3'	H3'	179.6°	179.7°
C2'	C1'	C6'	C5'	0.1°	0.3°
C2'	C1'	C6'	H6'	179.9°	179.7°
C6'	C1'	C2'	N2'	179.8°	180.0°
C6'	C1'	C2'	C3'	0.4°	0.6°
C1'	C6'	C5'	C4'	0.3°	0.0°
C1'	C6'	C5'	H6'	180.0°	180.0°
C1'	C6'	C5'	H5'	179.7°	180.0°
C2'	N2'	O21	O22	179.2°	179.9°
N2'	C2'	C3'	C4'	179.8°	180.0°
N2'	C2'	C3'	H3'	0.2°	0.3°
C3'	C2'	N2'	O21	169.6°	0.1°
C3'	C2'	N2'	O22	11.1°	180.0°
C2'	C3'	C4'	H3'	179.9°	179.7°
C2'	C3'	C4'	N4'	179.6°	179.7°
C2'	C3'	C4'	C5'	0.0°	0.4°
C3'	C4'	N4'	C5'	179.6°	179.9°
C3'	C4'	N4'	O41	0.5°	180.0°
C3'	C4'	N4'	O42	179.8°	0.1°
C3'	C4'	C5'	C6'	0.3°	0.1°
C3'	C4'	C5'	H5'	179.7°	179.9°
H3'	C3'	C4'	N4'	0.4°	0.0°
H3'	C3'	C4'	C5'	180.0°	180.0°
C4'	N4'	O41	O42	179.8°	180.0°
N4'	C4'	C5'	C6'	179.3°	180.0°
N4'	C4'	C5'	H5'	0.7°	0.0°
C5'	C4'	N4'	O41	179.9°	0.1°
C5'	C4'	N4'	O42	0.1°	180.0°
C4'	C5'	C6'	H5'	180.0°	180.0°
C4'	C5'	C6'	H6'	179.7°	180.0°
H5'	C5'	C6'	H6'	0.3°	0.0°

Definition date:	1999-07-08
Last modified:	2008-10-14
Release status:	OBS
Processing site:	EBI
Replaced by:	GDN