Analysis of interatomic Contacts of Structural Units in PDB entry:
4DV4

Contacts of Structural Units (CSU) are derived with the CSU software (Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332).
This page provides analyses of contacts formed by:

chains
helices
sheets
residues

For analysis of ligand-protein contacts, use:

LPC software

3D structure can be seen in additional window with STING software for 4DV4 entry

There is 1 chain in PDB entry 4DV4 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	U 5	U 486

There are 87 helices in PDB entry 4DV4. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	B	11	15	Right-handed 310
Helix 2	2	B	25	30	Right-handed 310
Helix 3	3	B	43	65	Right-handed alpha
Helix 4	4	B	77	88	Right-handed alpha
Helix 5	5	B	104	122	Right-handed alpha
Helix 6	6	B	124	128	Right-handed 310
Helix 7	7	B	131	149	Right-handed alpha
Helix 8	8	B	166	180	Right-handed alpha
Helix 9	9	B	193	197	Right-handed 310
Helix 10	10	B	207	226	Right-handed alpha
Helix 11	11	B	233	240	Right-handed 310
Helix 12	12	C	6	12	Right-handed alpha
Helix 13	13	C	25	48	Right-handed alpha
Helix 14	14	C	73	78	Right-handed alpha
Helix 15	15	C	82	95	Right-handed alpha
Helix 16	16	C	112	126	Right-handed alpha
Helix 17	17	C	129	144	Right-handed alpha
Helix 18	18	C	156	160	Right-handed 310
Helix 19	19	D	8	15	Right-handed alpha
Helix 20	20	D	52	69	Right-handed alpha
Helix 21	21	D	71	85	Right-handed alpha
Helix 22	22	D	88	99	Right-handed alpha
Helix 23	23	D	100	108	Right-handed alpha
Helix 24	24	D	113	123	Right-handed alpha
Helix 25	25	D	150	154	Right-handed 310
Helix 26	26	D	155	164	Right-handed alpha
Helix 27	27	D	199	209	Right-handed alpha
Helix 28	28	E	50	64	Right-handed alpha
Helix 29	29	E	103	113	Right-handed alpha
Helix 30	30	E	127	140	Right-handed alpha
Helix 31	31	E	144	153	Right-handed alpha
Helix 32	32	F	15	32	Right-handed alpha
Helix 33	33	F	68	82	Right-handed alpha
Helix 34	34	G	20	31	Right-handed alpha
Helix 35	35	G	35	53	Right-handed alpha
Helix 36	36	G	57	69	Right-handed alpha
Helix 37	37	G	92	110	Right-handed alpha
Helix 38	38	G	115	129	Right-handed alpha
Helix 39	39	G	132	145	Right-handed alpha
Helix 40	40	G	148	155	Right-handed 310
Helix 41	41	H	4	19	Right-handed alpha
Helix 42	42	H	29	42	Right-handed alpha
Helix 43	43	H	96	100	Right-handed 310
Helix 44	44	H	102	107	Right-handed 310
Helix 45	45	H	120	128	Right-handed alpha
Helix 46	46	I	40	46	Right-handed 310
Helix 47	47	I	47	54	Right-handed alpha
Helix 48	48	I	69	89	Right-handed alpha
Helix 49	49	I	91	97	Right-handed alpha
Helix 50	50	I	98	100	Right-handed 310
Helix 51	51	J	12	27	Right-handed alpha
Helix 52	52	J	79	85	Right-handed alpha
Helix 53	53	K	52	57	Right-handed 310
Helix 54	54	K	58	74	Right-handed alpha
Helix 55	55	K	91	101	Right-handed alpha
Helix 56	56	K	122	126	Right-handed 310
Helix 57	57	L	6	14	Right-handed alpha
Helix 58	58	M	14	19	Right-handed alpha
Helix 59	59	M	20	22	Right-handed 310
Helix 60	60	M	26	38	Right-handed alpha
Helix 61	61	M	44	48	Right-handed 310
Helix 62	62	M	49	61	Right-handed alpha
Helix 63	63	M	66	84	Right-handed alpha
Helix 64	64	M	86	94	Right-handed alpha
Helix 65	65	M	107	112	Right-handed alpha
Helix 66	66	N	4	8	Right-handed 310
Helix 67	67	N	16	20	Right-handed 310
Helix 68	68	N	40	50	Right-handed alpha
Helix 69	69	O	4	16	Right-handed alpha
Helix 70	70	O	24	45	Right-handed alpha
Helix 71	71	O	49	74	Right-handed alpha
Helix 72	72	O	74	86	Right-handed alpha
Helix 73	73	P	52	62	Right-handed alpha
Helix 74	74	P	67	78	Right-handed alpha
Helix 75	75	Q	81	94	Right-handed alpha
Helix 76	76	Q	95	97	Right-handed 310
Helix 77	77	R	36	41	Right-handed alpha
Helix 78	78	R	42	44	Right-handed 310
Helix 79	79	R	52	57	Right-handed alpha
Helix 80	80	R	59	76	Right-handed alpha
Helix 81	81	S	12	25	Right-handed alpha
Helix 82	82	S	41	45	Right-handed 310
Helix 83	83	S	63	67	Right-handed 310
Helix 84	84	T	12	47	Right-handed alpha
Helix 85	85	T	48	69	Right-handed alpha
Helix 86	86	T	75	92	Right-handed alpha
Helix 87	87	U	8	14	Right-handed alpha

There are 22 sheets in PDB entry 4DV4. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V,

There are 2 strands in A sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	32	36	first strand
Strand 2	B	39	42	anti-parallel

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There are 5 strands in B sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	92	93	first strand
Strand 2	B	68	71	parallel
Strand 3	B	161	164	parallel
Strand 4	B	184	188	parallel
Strand 5	B	199	202	parallel

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There are 3 strands in C sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	52	56	first strand
Strand 2	C	67	70	anti-parallel
Strand 3	C	102	105	parallel

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There are 4 strands in D sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	169	171	first strand
Strand 2	C	148	153	anti-parallel
Strand 3	C	194	203	anti-parallel
Strand 4	C	182	191	anti-parallel

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There are 5 strands in E sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	131	132	first strand
Strand 2	D	126	128	anti-parallel
Strand 3	D	145	148	anti-parallel
Strand 4	D	183	185	anti-parallel
Strand 5	D	174	176	anti-parallel

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There are 4 strands in F sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	7	14	first strand
Strand 2	E	28	35	anti-parallel
Strand 3	E	40	48	anti-parallel
Strand 4	E	66	68	anti-parallel

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There are 2 strands in G sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	17	20	first strand
Strand 2	E	23	26	anti-parallel

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There are 3 strands in H sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	80	84	first strand
Strand 2	E	87	93	anti-parallel
Strand 3	E	118	124	anti-parallel

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There are 4 strands in I sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	36	52	first strand
Strand 2	F	55	67	anti-parallel
Strand 3	F	2	10	anti-parallel
Strand 4	F	85	92	anti-parallel

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There are 2 strands in J sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	74	76	first strand
Strand 2	G	87	89	anti-parallel

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There are 3 strands in K sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	23	27	first strand
Strand 2	H	56	62	anti-parallel
Strand 3	H	47	53	anti-parallel

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There are 3 strands in L sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	82	85	first strand
Strand 2	H	131	138	anti-parallel
Strand 3	H	94	95	anti-parallel

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There are 4 strands in M sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	82	85	first strand
Strand 2	H	131	138	anti-parallel
Strand 3	H	109	114	anti-parallel
Strand 4	H	117	119	anti-parallel

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There are 3 strands in N sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	4	6	first strand
Strand 2	I	13	21	anti-parallel
Strand 3	I	9	10	anti-parallel

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There are 5 strands in O sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	4	6	first strand
Strand 2	I	13	21	anti-parallel
Strand 3	I	59	66	anti-parallel
Strand 4	I	26	28	parallel
Strand 5	I	31	32	anti-parallel

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There are 4 strands in P sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	38	49	first strand
Strand 2	J	61	71	anti-parallel
Strand 3	J	6	10	anti-parallel
Strand 4	J	94	98	anti-parallel

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There are 4 strands in Q sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	39	44	first strand
Strand 2	K	27	33	anti-parallel
Strand 3	K	15	24	anti-parallel
Strand 4	K	77	85	parallel

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There are 2 strands in R sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	109	110	first strand
Strand 2	R	85	86	anti-parallel

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There are 6 strands in S sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	33	43	first strand
Strand 2	L	53	60	anti-parallel
Strand 3	L	65	69	anti-parallel
Strand 4	L	98	101	parallel
Strand 5	L	82	85	anti-parallel
Strand 6	L	33	43	anti-parallel

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There are 5 strands in T sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	49	50	first strand
Strand 2	P	34	39	anti-parallel
Strand 3	P	17	23	anti-parallel
Strand 4	P	2	8	anti-parallel
Strand 5	P	65	66	parallel

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There are 6 strands in U sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	5	12	first strand
Strand 2	Q	18	28	anti-parallel
Strand 3	Q	35	45	anti-parallel
Strand 4	Q	69	78	parallel
Strand 5	Q	56	66	anti-parallel
Strand 6	Q	5	12	anti-parallel

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There are 3 strands in V sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	32	33	first strand
Strand 2	S	48	52	parallel
Strand 3	S	57	61	anti-parallel

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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il

Analysis of interatomic Contacts of Structural Units in PDB entry: 4DV4

Analysis of interatomic Contacts of Structural Units in PDB entry:
4DV4