PDB Chemical Component PBD

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 PBD

Atom I	Atom J	Distance (Experimental Model)	Distance (Ideal Model)
CAA	OAP	1.475	1.430
CAB	OAQ	1.459	1.429
SAC	CAR	1.748	1.711
CAD	CAG	1.345	1.346
CAD	NAM	1.350	1.341
CAE	CAF	1.424	1.382
CAE	CAS	1.412	1.389
CAF	CAT	1.424	1.386
CAG	NAV	1.321	1.369
CAH	NAM	1.356	1.305
CAH	NAV	1.335	1.351
CAI	CAS	1.391	1.388
CAI	CAU	1.392	1.386
CAJ	CAK	1.498	1.530
CAJ	CAL	1.494	1.530
CAK	NAN	1.479	1.465
CAL	NAV	1.483	1.465
NAN	CAR	1.309	1.348
NAO	CAR	1.329	1.349
NAO	CAS	1.358	1.400
OAP	CAT	1.403	1.361
OAQ	CAU	1.396	1.360
CAT	CAU	1.407	1.392
CAA	HAA	1.100	1.089
CAA	HAAA	1.100	1.090
CAA	HAAB	1.100	1.090
CAB	HAB	1.100	1.090
CAB	HABA	1.100	1.090
CAB	HABB	1.100	1.090
CAD	HAD	1.080	1.080
CAE	HAE	1.080	1.080
CAF	HAF	1.080	1.081
CAG	HAG	1.080	1.080
CAH	HAH	1.080	1.080
CAI	HAI	1.080	1.080
CAJ	HAJ	1.100	1.089
CAJ	HAJA	1.100	1.091
CAK	HAK	1.100	1.090
CAK	HAKA	1.100	1.091
CAL	HAL	1.100	1.090
CAL	HALA	1.100	1.089
NAN	HNAN	0.999	0.970
NAO	HNAO	1.000	0.970

Bond Angles for PBD

Atom I	Atom J	Atom K	Angle (Experimental Model)	Angle (Ideal Model)
CAA	OAP	CAT	115.5	117.0
OAP	CAA	HAA	109.5	109.5
OAP	CAA	HAAA	109.5	109.5
OAP	CAA	HAAB	109.4	109.4
CAB	OAQ	CAU	119.2	117.0
OAQ	CAB	HAB	109.5	109.5
OAQ	CAB	HABA	109.4	109.5
OAQ	CAB	HABB	109.4	109.5
SAC	CAR	NAN	121.5	120.0
SAC	CAR	NAO	120.6	120.0
CAG	CAD	NAM	108.5	108.0
CAD	CAG	NAV	108.2	106.8
CAG	CAD	HAD	125.8	126.0
CAD	CAG	HAG	125.9	126.6
CAD	NAM	CAH	105.9	109.3
NAM	CAD	HAD	125.7	126.0
CAF	CAE	CAS	118.4	120.0
CAE	CAF	CAT	119.0	120.1
CAF	CAE	HAE	120.8	120.0
CAE	CAF	HAF	120.5	119.9
CAE	CAS	CAI	122.5	120.0
CAE	CAS	NAO	121.8	120.0
CAS	CAE	HAE	120.8	119.9
CAF	CAT	OAP	124.8	120.0
CAF	CAT	CAU	120.2	120.0
CAT	CAF	HAF	120.5	119.9
CAG	NAV	CAH	108.2	107.2
CAG	NAV	CAL	129.7	126.4
NAV	CAG	HAG	125.9	126.6
NAM	CAH	NAV	108.9	108.7
NAM	CAH	HAH	125.6	125.7
CAH	NAV	CAL	121.9	126.4
NAV	CAH	HAH	125.5	125.6
CAS	CAI	CAU	118.8	119.9
CAI	CAS	NAO	115.7	119.9
CAS	CAI	HAI	120.6	120.0
CAI	CAU	OAQ	120.7	120.1
CAI	CAU	CAT	120.7	119.9
CAU	CAI	HAI	120.6	120.0
CAK	CAJ	CAL	111.0	109.5
CAJ	CAK	NAN	106.4	109.5
CAK	CAJ	HAJ	108.9	109.5
CAK	CAJ	HAJA	108.9	109.5
CAJ	CAK	HAK	110.5	109.5
CAJ	CAK	HAKA	110.5	109.5
CAJ	CAL	NAV	110.5	109.5
CAL	CAJ	HAJ	109.0	109.5
CAL	CAJ	HAJA	108.9	109.5
CAJ	CAL	HAL	109.1	109.5
CAJ	CAL	HALA	109.1	109.5
CAK	NAN	CAR	124.0	120.0
NAN	CAK	HAK	110.5	109.5
NAN	CAK	HAKA	110.5	109.4
CAK	NAN	HNAN	118.0	120.0
NAV	CAL	HAL	109.2	109.5
NAV	CAL	HALA	109.1	109.4
NAN	CAR	NAO	117.8	120.0
CAR	NAN	HNAN	118.0	120.0
CAR	NAO	CAS	126.8	120.0
CAR	NAO	HNAO	116.6	120.0
CAS	NAO	HNAO	116.6	120.1
OAP	CAT	CAU	114.6	120.0
OAQ	CAU	CAT	118.2	120.1
HAA	CAA	HAAA	109.5	109.5
HAA	CAA	HAAB	109.5	109.5
HAAA	CAA	HAAB	109.5	109.5
HAB	CAB	HABA	109.5	109.4
HAB	CAB	HABB	109.5	109.4
HABA	CAB	HABB	109.5	109.5
HAJ	CAJ	HAJA	110.0	109.4
HAK	CAK	HAKA	108.4	109.5
HAL	CAL	HALA	109.8	109.4

Torsion Angles for PBD

Atom I	Atom J	Atom K	Atom L	Angle (Experimental Model)	Angle (Ideal Model)
CAF	CAT	OAP	CAA	356.3	0.0
CAA	OAP	CAT	CAU	168.5	180.0
HAA	CAA	OAP	HAAA	240.0	239.9
HAA	CAA	OAP	HAAB	120.0	120.0
HAAA	CAA	OAP	HAAB	240.0	240.1
CAI	CAU	OAQ	CAB	8.5	360.0
CAB	OAQ	CAU	CAT	181.4	180.0
HAB	CAB	OAQ	HABA	240.0	240.0
HAB	CAB	OAQ	HABB	120.0	120.0
HABA	CAB	OAQ	HABB	240.0	240.0
CAK	NAN	CAR	SAC	0.3	360.0
NAN	CAR	SAC	NAO	179.5	180.0
SAC	CAR	NAN	HNAN	180.2	180.0
SAC	CAR	NAO	CAS	176.9	355.8
SAC	CAR	NAO	HNAO	356.8	175.8
CAG	CAD	NAM	CAH	354.3	0.0
NAM	CAD	CAG	HAD	180.0	180.2
CAD	CAG	NAV	CAH	355.2	0.0
CAD	CAG	NAV	CAL	180.8	180.0
NAV	CAG	CAD	HAG	180.0	180.0
NAM	CAD	CAG	NAV	6.6	360.0
CAG	CAD	NAM	HAD	180.0	179.8
NAM	CAD	CAG	HAG	186.6	180.0
CAD	NAM	CAH	NAV	2.8	360.0
CAD	NAM	CAH	HAH	182.8	180.0
CAF	CAE	CAS	CAI	1.1	0.1
CAF	CAE	CAS	NAO	179.8	180.0
CAS	CAE	CAF	HAE	180.0	180.2
CAE	CAF	CAT	OAP	175.5	180.1
CAE	CAF	CAT	CAU	3.8	0.0
CAT	CAF	CAE	HAF	180.0	179.9
CAS	CAE	CAF	CAT	359.1	359.9
CAF	CAE	CAS	HAE	180.0	179.8
CAS	CAE	CAF	HAF	179.2	180.0
CAE	CAS	CAI	CAU	355.9	359.9
CAI	CAS	CAE	NAO	181.2	180.1
CAE	CAS	CAI	HAI	175.9	180.0
CAR	NAO	CAS	CAE	73.5	45.5
CAE	CAS	NAO	HNAO	253.6	225.5
CAA	OAP	CAT	CAF	356.3	0.0
CAT	CAF	CAE	CAS	359.1	359.9
CAT	CAF	CAE	HAE	179.2	179.7
CAE	CAF	CAT	HAF	180.0	180.1
CAI	CAU	CAT	CAF	353.1	360.0
OAP	CAT	CAF	CAU	171.7	180.0
OAQ	CAU	CAT	CAF	180.2	179.9
NAV	CAG	CAD	NAM	6.6	360.0
NAV	CAG	CAD	HAD	186.6	179.7
CAD	CAG	NAV	HAG	180.0	180.0
NAM	CAH	NAV	CAG	1.2	0.0
CAH	NAV	CAG	CAL	174.5	180.0
CAG	NAV	CAH	HAH	181.2	180.0
CAJ	CAL	NAV	CAG	82.5	90.0
CAG	NAV	CAL	HAL	322.5	329.9
CAG	NAV	CAL	HALA	202.5	210.0
CAH	NAM	CAD	HAD	174.3	180.3
CAG	NAV	CAH	NAM	1.2	0.0
NAM	CAH	NAV	CAL	176.2	180.0
NAV	CAH	NAM	HAH	180.0	180.0
CAG	NAV	CAH	CAL	185.0	180.0
CAH	NAV	CAG	HAG	175.2	180.0
NAM	CAH	NAV	HAH	180.0	180.0
CAJ	CAL	NAV	CAH	268.7	270.0
CAH	NAV	CAL	HAL	148.7	150.0
CAH	NAV	CAL	HALA	28.7	30.0
CAE	CAS	CAI	NAO	178.8	179.9
CAI	CAS	CAE	HAE	181.0	180.3
CAS	CAI	CAU	OAQ	179.7	180.1
CAS	CAI	CAU	CAT	7.0	0.0
CAU	CAI	CAS	HAI	180.0	180.0
CAR	NAO	CAS	CAI	252.4	225.3
CAI	CAS	NAO	HNAO	72.4	45.3
CAB	OAQ	CAU	CAI	8.5	360.0
CAF	CAT	CAU	CAI	353.1	360.0
CAU	CAI	CAS	NAO	177.1	180.1
CAS	CAI	CAU	HAI	180.0	180.0
OAP	CAT	CAU	CAI	180.5	180.0
OAQ	CAU	CAI	CAT	172.7	180.1
CAK	CAJ	CAL	NAV	177.8	180.0
CAL	CAJ	CAK	HAJ	240.0	240.0
CAL	CAJ	CAK	HAJA	120.0	120.0
CAK	CAJ	CAL	HAL	297.8	300.0
CAK	CAJ	CAL	HALA	57.8	60.0
CAJ	CAK	NAN	CAR	194.8	180.0
NAN	CAK	CAJ	HAK	240.0	240.0
NAN	CAK	CAJ	HAKA	120.0	119.9
CAJ	CAK	NAN	HNAN	14.8	360.0
HAJ	CAJ	CAK	HAJA	240.0	240.0
HAK	CAK	CAJ	HAKA	240.0	240.0
CAG	NAV	CAL	CAJ	82.5	90.0
CAH	NAV	CAL	CAJ	268.7	270.0
CAL	CAJ	CAK	NAN	187.9	180.0
CAK	CAJ	CAL	HAJ	120.0	120.0
CAK	CAJ	CAL	HAJA	240.0	240.0
CAL	CAJ	CAK	HAK	307.9	300.0
CAL	CAJ	CAK	HAKA	67.9	60.0
NAV	CAL	CAJ	HAL	240.0	240.0
NAV	CAL	CAJ	HALA	120.0	120.0
HAJ	CAJ	CAL	HAJA	120.0	120.0
HAL	CAL	CAJ	HALA	240.0	240.0
SAC	CAR	NAN	CAK	0.3	360.0
NAN	CAK	CAJ	CAL	187.9	180.0
NAN	CAK	CAJ	HAJ	307.9	300.0
NAN	CAK	CAJ	HAJA	67.9	60.0
CAJ	CAK	NAN	HAK	120.0	120.0
CAJ	CAK	NAN	HAKA	240.0	240.0
CAK	NAN	CAR	NAO	179.7	180.0
CAR	NAN	CAK	HNAN	180.0	180.1
HAK	CAK	NAN	HAKA	120.0	120.0
CAG	NAV	CAL	CAH	173.8	180.0
CAL	NAV	CAG	HAG	0.8	360.0
CAL	NAV	CAH	HAH	356.2	0.0
NAV	CAL	CAJ	HAJ	57.8	60.0
NAV	CAL	CAJ	HAJA	297.8	300.0
CAJ	CAL	NAV	HAL	120.0	120.0
CAJ	CAL	NAV	HALA	240.0	240.0
HAL	CAL	NAV	HALA	120.0	119.9
SAC	CAR	NAN	NAO	180.5	180.0
CAR	NAN	CAK	HAK	74.8	60.0
CAR	NAN	CAK	HAKA	314.8	300.0
CAK	NAN	CAR	HNAN	180.0	179.9
NAN	CAR	NAO	CAS	357.4	175.7
NAN	CAR	NAO	HNAO	177.3	355.7
SAC	CAR	NAO	NAN	179.5	180.0
CAE	CAS	NAO	CAR	73.5	45.5
CAI	CAS	NAO	CAR	252.4	225.3
NAO	CAR	NAN	HNAN	359.7	0.1
CAS	NAO	CAR	HNAO	180.0	180.0
CAE	CAS	NAO	CAI	181.1	180.1
NAO	CAS	CAE	HAE	359.8	0.2
NAO	CAS	CAI	CAU	177.1	180.1
NAO	CAS	CAI	HAI	357.1	0.1
CAR	NAO	CAS	HNAO	180.0	180.0
CAT	OAP	CAA	HAA	180.0	180.0
CAT	OAP	CAA	HAAA	300.0	300.1
CAT	OAP	CAA	HAAB	60.0	60.0
CAF	CAT	OAP	CAU	187.9	180.0
OAP	CAT	CAF	HAF	355.5	360.0
CAI	CAU	CAT	OAP	180.5	180.0
OAQ	CAU	CAT	OAP	7.6	359.9
CAU	OAQ	CAB	HAB	180.0	180.0
CAU	OAQ	CAB	HABA	300.0	300.0
CAU	OAQ	CAB	HABB	60.0	60.0
CAF	CAT	CAU	OAQ	180.2	179.9
CAI	CAU	OAQ	CAT	187.1	179.9
OAQ	CAU	CAI	HAI	359.7	0.1
OAP	CAT	CAU	OAQ	7.6	359.9
CAF	CAT	CAU	OAP	172.5	180.0
CAU	CAT	CAF	HAF	183.8	179.9
CAI	CAU	CAT	OAQ	172.9	180.1
CAT	CAU	CAI	HAI	187.0	180.0
HAA	CAA	OAP	CAT	180.0	180.0
OAP	CAA	HAA	HAAA	120.0	120.0
OAP	CAA	HAA	HAAB	240.0	240.1
HAAA	CAA	HAA	HAAB	120.0	120.0
HAAA	CAA	OAP	CAT	300.0	300.1
OAP	CAA	HAAA	HAA	240.0	240.0
OAP	CAA	HAAA	HAAB	120.0	119.9
HAA	CAA	HAAA	HAAB	240.0	240.0
HAAB	CAA	OAP	CAT	60.0	60.0
OAP	CAA	HAAB	HAA	120.0	120.0
OAP	CAA	HAAB	HAAA	240.0	240.0
HAA	CAA	HAAB	HAAA	120.0	120.1
HAB	CAB	OAQ	CAU	180.0	180.0
OAQ	CAB	HAB	HABA	120.0	120.0
OAQ	CAB	HAB	HABB	240.0	239.9
HABA	CAB	HAB	HABB	120.0	119.9
HABA	CAB	OAQ	CAU	300.0	300.0
OAQ	CAB	HABA	HAB	240.0	240.0
OAQ	CAB	HABA	HABB	120.0	120.1
HAB	CAB	HABA	HABB	239.9	240.1
HABB	CAB	OAQ	CAU	60.0	60.0
OAQ	CAB	HABB	HAB	120.0	120.0
OAQ	CAB	HABB	HABA	240.0	240.0
HAB	CAB	HABB	HABA	120.0	119.9
CAG	CAD	HAD	NAM	180.0	180.3
HAD	CAD	CAG	NAV	186.6	179.7
HAD	CAD	CAG	HAG	6.5	359.8
HAD	CAD	NAM	CAH	174.3	180.3
CAF	CAE	HAE	CAS	180.0	180.2
HAE	CAE	CAF	CAT	179.2	179.7
HAE	CAE	CAF	HAF	359.2	359.8
HAE	CAE	CAS	CAI	181.0	180.3
HAE	CAE	CAS	NAO	359.8	0.2
HAF	CAF	CAE	CAS	179.2	180.0
CAE	CAF	HAF	CAT	180.0	179.9
HAF	CAF	CAE	HAE	359.2	359.8
HAF	CAF	CAT	OAP	355.5	360.0
HAF	CAF	CAT	CAU	183.8	179.9
HAG	CAG	CAD	NAM	186.6	180.0
CAD	CAG	HAG	NAV	180.0	180.0
HAG	CAG	CAD	HAD	6.5	359.8
HAG	CAG	NAV	CAH	175.2	180.0
HAG	CAG	NAV	CAL	0.8	360.0
NAM	CAH	HAH	NAV	180.0	180.0
HAH	CAH	NAV	CAL	356.2	0.0
CAS	CAI	HAI	CAU	180.0	180.0
HAI	CAI	CAS	NAO	357.1	0.1
HAI	CAI	CAU	OAQ	359.7	0.1
HAI	CAI	CAU	CAT	187.0	180.0
CAK	CAJ	HAJ	CAL	238.7	240.0
HAJ	CAJ	CAK	NAN	307.9	300.0
CAK	CAJ	HAJ	HAJA	119.4	120.0
HAJ	CAJ	CAK	HAK	67.9	60.0
HAJ	CAJ	CAK	HAKA	187.9	180.0
HAJ	CAJ	CAL	NAV	57.8	60.0
CAL	CAJ	HAJ	HAJA	240.6	240.0
HAJ	CAJ	CAL	HAL	177.8	180.0
HAJ	CAJ	CAL	HALA	297.8	300.0
CAK	CAJ	HAJA	CAL	121.3	120.0
HAJA	CAJ	CAK	NAN	67.9	60.0
CAK	CAJ	HAJA	HAJ	240.6	240.0
HAJA	CAJ	CAK	HAK	187.9	180.0
HAJA	CAJ	CAK	HAKA	307.9	300.0
HAJA	CAJ	CAL	NAV	297.8	300.0
CAL	CAJ	HAJA	HAJ	119.4	120.0
HAJA	CAJ	CAL	HAL	57.8	60.0
HAJA	CAJ	CAL	HALA	177.8	180.0
HAK	CAK	CAJ	CAL	307.9	300.0
CAJ	CAK	HAK	NAN	242.5	240.0
HAK	CAK	CAJ	HAJ	67.9	60.0
HAK	CAK	CAJ	HAJA	187.9	180.0
CAJ	CAK	HAK	HAKA	121.2	120.1
HAK	CAK	NAN	CAR	74.8	60.0
NAN	CAK	HAK	HAKA	238.8	240.1
HAK	CAK	NAN	HNAN	254.8	239.9
HAKA	CAK	CAJ	CAL	67.9	60.0
CAJ	CAK	HAKA	NAN	117.5	120.0
HAKA	CAK	CAJ	HAJ	187.9	180.0
HAKA	CAK	CAJ	HAJA	307.9	300.0
CAJ	CAK	HAKA	HAK	238.8	239.9
HAKA	CAK	NAN	CAR	314.8	300.0
NAN	CAK	HAKA	HAK	121.3	119.9
HAKA	CAK	NAN	HNAN	134.8	120.0
CAJ	CAL	HAL	NAV	239.2	240.0
HAL	CAL	CAJ	HAJ	177.8	180.0
HAL	CAL	CAJ	HAJA	57.8	60.0
CAJ	CAL	HAL	HALA	119.6	120.0
NAV	CAL	HAL	HALA	240.4	240.1
CAJ	CAL	HALA	NAV	120.8	120.0
HALA	CAL	CAJ	HAJ	297.8	300.0
HALA	CAL	CAJ	HAJA	177.8	180.0
CAJ	CAL	HALA	HAL	240.4	240.0
NAV	CAL	HALA	HAL	119.6	120.0
CAK	NAN	HNAN	CAR	180.0	180.1
HNAN	NAN	CAK	HAK	254.8	239.9
HNAN	NAN	CAK	HAKA	134.8	120.0
HNAN	NAN	CAR	NAO	359.7	0.1
CAR	NAO	HNAO	CAS	180.0	180.0