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

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 4NBD entry

There are 5 chains in PDB entry 4NBD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 2	LEU 385
B	ALA 2	LEU 385
C	ALA 2	HIS 389
D	ILE 4	LYS 106
E	GLN 3	GLU 109

There are 57 helices in PDB entry 4NBD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	5	12	Right-handed alpha
Helix 2	2	A	15	21	Right-handed alpha
Helix 3	3	A	36	38	Right-handed 310
Helix 4	4	A	75	80	Right-handed 310
Helix 5	5	A	144	149	Right-handed 310
Helix 6	6	A	170	180	Right-handed alpha
Helix 7	7	A	181	188	Right-handed 310
Helix 8	8	A	190	196	Right-handed alpha
Helix 9	9	A	209	212	Right-handed 310
Helix 10	10	A	230	235	Right-handed alpha
Helix 11	11	A	306	320	Right-handed alpha
Helix 12	12	A	320	325	Right-handed alpha
Helix 13	13	A	330	340	Right-handed alpha
Helix 14	14	A	340	346	Right-handed alpha
Helix 15	15	A	348	353	Right-handed alpha
Helix 16	16	A	356	358	Right-handed 310
Helix 17	17	A	359	373	Right-handed alpha
Helix 18	18	A	378	383	Right-handed alpha
Helix 19	19	B	5	10	Right-handed alpha
Helix 20	20	B	15	21	Right-handed alpha
Helix 21	21	B	36	38	Right-handed 310
Helix 22	22	B	75	80	Right-handed 310
Helix 23	23	B	144	149	Right-handed 310
Helix 24	24	B	170	179	Right-handed alpha
Helix 25	25	B	182	188	Right-handed 310
Helix 26	26	B	190	195	Right-handed alpha
Helix 27	27	B	209	213	Right-handed alpha
Helix 28	28	B	230	235	Right-handed alpha
Helix 29	29	B	310	320	Right-handed alpha
Helix 30	30	B	320	325	Right-handed alpha
Helix 31	31	B	330	340	Right-handed alpha
Helix 32	32	B	340	346	Right-handed alpha
Helix 33	33	B	348	353	Right-handed alpha
Helix 34	34	B	356	358	Right-handed 310
Helix 35	35	B	359	373	Right-handed alpha
Helix 36	36	B	378	383	Right-handed alpha
Helix 37	37	C	5	10	Right-handed alpha
Helix 38	38	C	11	13	Right-handed 310
Helix 39	39	C	15	21	Right-handed alpha
Helix 40	40	C	36	38	Right-handed 310
Helix 41	41	C	75	80	Right-handed 310
Helix 42	42	C	144	149	Right-handed 310
Helix 43	43	C	170	179	Right-handed alpha
Helix 44	44	C	182	188	Right-handed 310
Helix 45	45	C	190	196	Right-handed alpha
Helix 46	46	C	209	213	Right-handed alpha
Helix 47	47	C	230	235	Right-handed alpha
Helix 48	48	C	306	320	Right-handed alpha
Helix 49	49	C	320	325	Right-handed alpha
Helix 50	50	C	330	345	Right-handed alpha
Helix 51	51	C	348	353	Right-handed alpha
Helix 52	52	C	356	358	Right-handed 310
Helix 53	53	C	359	373	Right-handed alpha
Helix 54	54	C	378	384	Right-handed alpha
Helix 55	55	D	52	56	Right-handed 310
Helix 56	56	E	12	14	Right-handed 310
Helix 57	57	E	52	56	Right-handed 310

There are 28 sheets in PDB entry 4NBD. 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, W, X, Y, Z, AA, AB,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	28	34	first strand
Strand 2	A	132	137	anti-parallel
Strand 3	A	126	129	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	44	48	first strand
Strand 2	A	51	58	anti-parallel
Strand 3	A	61	66	anti-parallel
Strand 4	A	123	124	anti-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	A	87	89	first strand
Strand 2	A	95	98	anti-parallel
Strand 3	A	104	107	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	158	163	first strand
Strand 2	A	293	303	anti-parallel
Strand 3	A	166	167	anti-parallel

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There are 7 strands in E sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	158	163	first strand
Strand 2	A	293	303	anti-parallel
Strand 3	A	281	290	anti-parallel
Strand 4	A	269	273	anti-parallel
Strand 5	A	261	265	anti-parallel
Strand 6	A	226	229	anti-parallel
Strand 7	A	214	217	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	199	200	first strand
Strand 2	A	252	253	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	A	203	205	first strand
Strand 2	A	236	238	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	240	243	first strand
Strand 2	A	246	250	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	29	34	first strand
Strand 2	B	132	136	anti-parallel
Strand 3	B	126	129	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	44	48	first strand
Strand 2	B	51	58	anti-parallel
Strand 3	B	61	66	anti-parallel
Strand 4	B	123	124	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	B	87	89	first strand
Strand 2	B	95	98	anti-parallel
Strand 3	B	104	107	anti-parallel

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There are 7 strands in L sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	158	167	first strand
Strand 2	B	293	303	anti-parallel
Strand 3	B	281	290	anti-parallel
Strand 4	B	269	273	anti-parallel
Strand 5	B	261	265	anti-parallel
Strand 6	B	226	229	anti-parallel
Strand 7	B	214	217	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	198	199	first strand
Strand 2	B	256	257	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	203	205	first strand
Strand 2	B	236	238	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	240	243	first strand
Strand 2	B	246	250	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	28	34	first strand
Strand 2	C	132	137	anti-parallel
Strand 3	C	126	129	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	C	44	48	first strand
Strand 2	C	51	58	anti-parallel
Strand 3	C	61	66	anti-parallel
Strand 4	C	123	124	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	87	89	first strand
Strand 2	C	95	98	anti-parallel
Strand 3	C	104	107	anti-parallel

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There are 7 strands in S sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	158	167	first strand
Strand 2	C	293	303	anti-parallel
Strand 3	C	281	290	anti-parallel
Strand 4	C	269	273	anti-parallel
Strand 5	C	261	265	anti-parallel
Strand 6	C	226	229	anti-parallel
Strand 7	C	214	217	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	252	253	first strand
Strand 2	C	198	200	anti-parallel
Strand 3	C	256	257	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	203	205	first strand
Strand 2	C	236	238	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	240	243	first strand
Strand 2	C	246	250	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	6	10	first strand
Strand 2	D	99	105	anti-parallel
Strand 3	D	91	96	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	20	24	first strand
Strand 2	D	27	35	anti-parallel
Strand 3	D	38	43	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	57	59	first strand
Strand 2	D	62	64	anti-parallel
Strand 3	D	71	73	anti-parallel
Strand 4	D	79	81	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	5	10	first strand
Strand 2	E	99	103	anti-parallel
Strand 3	E	93	96	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	20	22	first strand
Strand 2	E	30	35	anti-parallel
Strand 3	E	38	43	anti-parallel
Strand 4	E	90	91	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	57	59	first strand
Strand 2	E	62	64	anti-parallel
Strand 3	E	71	73	anti-parallel
Strand 4	E	79	81	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: 4NBD

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