Comprehensive Bending Classification of Nucleic Acid Double Helix Structures

Strong bending (M > 45 °)
Classification II (double-kink: M=max(a1,a2))
(Last update: November 15, 2004)

Number of structures: 53 + 20

PDB	NDB	IMB Jena Image Library	bp	molecule type	method	model	s(2)	r	a/a1	a2	a1+a2	M
1azq	pdr048	E   |    H   |    B	8	prot-nuc	diff	single-kink line	0.364		46			46
1jh9	pd0226	E   |    H   |    B	16	prot-nuc	diff	single-kink line*	0.369		46			46
1rvb	pde015	E   |    H   |    B	10	prot-nuc	diff	single-kink line	0.217		46			46
2puc	pdr042	E   |    H   |    B	16	prot-nuc	diff	single-kink line	0.442		46			46
2pud	pdr046	E   |    H   |    B	16	prot-nuc	diff	single-kink line	0.470		46			46
1cw0	pd0100	E   |    H   |    B	12	prot-nuc	diff	single-kink line	0.508		47			47
1icg	ah0015	E   |    H   |    B	8	nuc	diff	single-kink line	1.101		47			47
1id9	ah0016	E   |    H   |    B	8	nuc	diff	single-kink line	1.296		47			47
1ruo	pdr025	E   |    H   |    B	30	prot-nuc	diff	double-kink line	1.164		46	47	93	47
2pub	pdr041	E   |    H   |    B	16	prot-nuc	diff	single-kink line	0.455		47			47
1cgp	pdr006	E   |    H   |    B	30	prot-nuc	diff	double-kink line	0.389		48	44	92	48
1ic8	pd0208	E   |    H   |    B	21	prot-nuc	diff	double-kink line	0.737		18	48	66	48
1j5n	------	E   |    H   |    B	15	prot-nuc	NMR	single-kink line	0.419		48			48
1qrv	pd0110	E   |    H   |    B	9	prot-nuc	diff	single-kink line	0.412		48			48
1run	pdr024	E   |    H   |    B	30	prot-nuc	diff	double-kink line	0.527		48	42	90	48
2kbd	------	E   |    H   |    B	16	nuc	NMR	double-kink line	0.231		30	48	78	48
1ais	pdr031	E   |    H   |    B	17	prot-nuc	diff	double-kink line	0.617		49	29	78	49
1iha	ah0018	E   |    H   |    B	8	nuc	diff	single-kink line	0.993		49			49
1qne	pd0163	E   |    H   |    B	14	prot-nuc	diff	double-kink line	0.376		49	37	86	49
1b95	pd0038	E   |    H   |    B	10	prot-nuc	diff	single-kink line	0.307		50			50
1bsu	pde0145	E   |    H   |    B	10	prot-nuc	diff	single-kink line	0.050		50			50
1eon	pd0131	E   |    H   |    B	10	prot-nuc	diff	single-kink line	0.238		50			50
1idw	ah0017	E   |    H   |    B	8	nuc	diff	single-kink line	1.023		50			50
1ub8	ud0027	E   |    H   |    B	7	nuc	diff	circular line	1.997	15				50
1eo4	pd0130	E   |    H   |    B	9	prot-nuc	diff	single-kink line	0.342		51			51
1l1m	------	E   |    H   |    B	23	prot-nuc	NMR	double-kink line	0.217		51	41	92	51
399d	adl047	E   |    H   |    B	12	nuc	diff	single-kink line	1.203		51			51
1bgb	pd0010	E   |    H   |    B	10	prot-nuc	diff	single-kink line	0.340		52			52
1iaw	pd0207	E   |    H   |    B	16	prot-nuc	diff	double-kink line	0.590		52	21	73	52
1lwt	pd0320	E   |    H   |    B	36	prot-nuc	diff	double-kink line	1.483		52	19	71	52
1b94	pd0037	E   |    H   |    B	10	prot-nuc	diff	single-kink line	0.190		53			53
1b96	pd0039	E   |    H   |    B	10	prot-nuc	diff	single-kink line	0.211		53			53
422d	ar0007	E   |    H   |    B	8	nuc	diff	single-kink line	1.338		53			53
1b97	pd0040	E   |    H   |    B	10	prot-nuc	diff	single-kink line	0.272		54			54
1gt0	------	E   |    H   |    B	23	prot-nuc	diff	double-kink line	0.821		55	17	72	55
1au5	------	E   |    H   |    B	8	nuc	NMR	single-kink line	0.833		56			56
1cdw	pdt034	E   |    H   |    B	16	prot-nuc	diff	double-kink line	0.533		56	48	104	56
1lws	pd0319	E   |    H   |    B	34	prot-nuc	diff	double-kink line	1.163		56	17	73	56
1eoo	pd0132	E   |    H   |    B	12	prot-nuc	diff	single-kink line	0.235		57			57
1hbx	pd0233	E   |    H   |    B	25	prot-nuc	diff	single-kink line	1.881		57			57
1k6o	pd0258	E   |    H   |    B	23	prot-nuc	diff	double-kink line	1.853		21	57	78	57
1ngm	pd0368	E   |    H   |    B	19	prot-nuc	diff	double-kink line	0.573		57	38	95	57
4rve	pde003	E   |    H   |    B	10	prot-nuc	diff	single-kink line	0.503		57			57
1d3u	pd0070	E   |    H   |    B	23	prot-nuc	diff	double-kink line	0.683		58	44	102	58
1eo3	pd0129	E   |    H   |    B	9	prot-nuc	diff	single-kink line	0.184		58			58
1ipp	pde0144	E   |    H   |    B	20	prot-nuc	diff	double-kink line	0.311		62	12	74	62
1oh8	------	E   |    H   |    B	10	prot-nuc	diff	single-kink line	1.397		63			63
1owf	pd0406	E   |    H   |    B	20	prot-nuc	diff	double-kink line	0.579		24	65	89	65
1ouz	pd0405	E   |    H   |    B	20	prot-nuc	diff	double-kink line	0.574		25	67	92	67
1owg	pd0407	E   |    H   |    B	20	prot-nuc	diff	double-kink line	0.468		28	67	95	67
1e3m	pd0201	E   |    H   |    B	17	prot-nuc	diff	single-kink line	1.164		70			70
1ng9	pd0367	E   |    H   |    B	17	prot-nuc	diff	single-kink line	1.020		71			71
1a84	------	E   |    H   |    B	12	nuc	NMR	single-kink line	0.852		78			78

The following structures cannot be described by one of the models adopted for the description of the helical axis, like the superhelical structures 1aoi, 1eqz, 1f66 and 1id3, or have goodness-of-fit values larger than 2. The latter duplexes can nevertheless roughly be classified as double-kink structures. This Table includes the most strongly bent structures currently known: 1aoi, 1ihf, 5crx, 4crx. 

Number of structures: 20

PDB	NDB	IMB Jena Image Library	bp	molecule type	method	model	s(2)	r	a/a1	a2	a1+a2	M
2d47	adl025	E   |    H   |    B	12	nuc	diff	single-kink line	3.186		53			53
1j9h	ar0034	E   |    H   |    B	9	nuc	diff	circular line	3.280	12				60
1dfu	pr0018	E   |    H   |    B	15	prot-nuc	diff	double-kink line	3.516		62	31	93	62
1bpz	pde0124	E   |    H   |    B	16	prot-nuc	diff	double-kink line	2.241		64	32	96	64

PDB	NDB	IMB Jena Image Library	bp	molecule type	method	model	s(2)	r	a/a1	a2	a1+a2	M
2d47	adl025	E   |    H   |    B	12	nuc	diff	single-kink line	3.186		53			53
1j9h	ar0034	E   |    H   |    B	9	nuc	diff	circular line	3.280	12				60
1dfu	pr0018	E   |    H   |    B	15	prot-nuc	diff	double-kink line	3.516		62	31	93	62
1bpz	pde0124	E   |    H   |    B	16	prot-nuc	diff	double-kink line	2.241		64	32	96	64
1n96	------	E   |    H   |    B	8	nuc	NMR	circular line	34.159	9				76
1nzb	pd0392	E   |    H   |    B	36	prot-nuc	diff	double-kink line	4.446		24	78	102	78
4crx	pd0047	E   |    H   |    B	34	prot-nuc	diff	double-kink line	3.227		24	82	107	82
5crx	pd0048	E   |    H   |    B	32	prot-nuc	diff	double-kink line	2.926		29	83	111	83
1ihf	pdt040	E   |    H   |    B	34	prot-nuc	diff	double-kink line	3.423		92	82	174	92
1nyd	------	E   |    H   |    B	9	nuc	NMR	circular line	2.264	3				188
-	-	-	-	-	-	-	-	-	-	-	-	-
1aoi	pd0001	E   |   H	146	prot-nuc	diff	-	-	-	-	-	-	-
1eqz	pd0137	E   |   H	146	prot-nuc	diff	-	-	-	-	-	-	-
1f66	pd0171	E   |   H	146	prot-nuc	diff	-	-	-	-	-	-	-
1id3	pd0209	E   |   H	146	prot-nuc	diff	-	-	-	-	-	-	-
1kx3	pd0285	E   |   H	146	prot-nuc	diff	-	-	-	-	-	-	-
1kx4	pd0286	E   |   H	146	prot-nuc	diff	-	-	-	-	-	-	-
1m1a	pd0330	E   |   H	146	prot-nuc	diff	-	-	-	-	-	-	-
1m18	pd0328	E   |   H	146	prot-nuc	diff	-	-	-	-	-	-	-
1m19	pd0329	E   |   H	146	prot-nuc	diff	-	-	-	-	-	-	-
1kx5	pd0287	E   |   H	147	prot-nuc	diff	-	-	-	-	-	-	-

Abbreviations