Analysis of interatomic Contacts of Structural Units in PDB entry:
1DPP

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 1DPP entry

There are 4 chains in PDB entry 1DPP (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LYS 1	GLU 507
C	LYS 1	GLU 507
E	LYS 1	GLU 507
G	LYS 1	GLU 507

There are 92 helices in PDB entry 1DPP. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	16	18	Right-handed 310
Helix 2	2	A	22	27	Right-handed alpha
Helix 3	3	A	29	32	Right-handed alpha
Helix 4	4	A	87	98	Right-handed alpha
Helix 5	5	A	103	109	Right-handed 310
Helix 6	6	A	113	117	Right-handed alpha
Helix 7	7	A	120	123	Right-handed alpha
Helix 8	8	A	144	151	Right-handed 310
Helix 9	9	A	153	155	Right-handed 310
Helix 10	10	A	160	168	Right-handed alpha
Helix 11	11	A	172	177	Right-handed 310
Helix 12	12	A	222	230	Right-handed alpha
Helix 13	13	A	242	250	Right-handed alpha
Helix 14	14	A	279	287	Right-handed alpha
Helix 15	15	A	291	297	Right-handed alpha
Helix 16	16	A	328	337	Right-handed alpha
Helix 17	17	A	361	375	Right-handed alpha
Helix 18	18	A	386	394	Right-handed alpha
Helix 19	19	A	412	420	Right-handed 310
Helix 20	20	A	422	427	Right-handed alpha
Helix 21	21	A	437	443	Right-handed alpha
Helix 22	22	A	445	448	Right-handed alpha
Helix 23	23	A	452	469	Right-handed alpha
Helix 24	24	C	16	18	Right-handed 310
Helix 25	25	C	22	27	Right-handed alpha
Helix 26	26	C	29	32	Right-handed alpha
Helix 27	27	C	87	98	Right-handed alpha
Helix 28	28	C	103	109	Right-handed 310
Helix 29	29	C	113	117	Right-handed alpha
Helix 30	30	C	120	123	Right-handed alpha
Helix 31	31	C	144	151	Right-handed 310
Helix 32	32	C	153	155	Right-handed 310
Helix 33	33	C	160	168	Right-handed alpha
Helix 34	34	C	172	177	Right-handed 310
Helix 35	35	C	222	230	Right-handed alpha
Helix 36	36	C	242	250	Right-handed alpha
Helix 37	37	C	279	287	Right-handed alpha
Helix 38	38	C	291	297	Right-handed alpha
Helix 39	39	C	328	337	Right-handed alpha
Helix 40	40	C	361	375	Right-handed alpha
Helix 41	41	C	386	394	Right-handed alpha
Helix 42	42	C	412	420	Right-handed 310
Helix 43	43	C	422	427	Right-handed alpha
Helix 44	44	C	437	443	Right-handed alpha
Helix 45	45	C	445	448	Right-handed alpha
Helix 46	46	C	452	469	Right-handed alpha
Helix 47	47	E	16	18	Right-handed 310
Helix 48	48	E	22	27	Right-handed alpha
Helix 49	49	E	29	32	Right-handed alpha
Helix 50	50	E	87	98	Right-handed alpha
Helix 51	51	E	103	109	Right-handed 310
Helix 52	52	E	113	117	Right-handed alpha
Helix 53	53	E	120	123	Right-handed alpha
Helix 54	54	E	144	151	Right-handed 310
Helix 55	55	E	153	155	Right-handed 310
Helix 56	56	E	160	168	Right-handed alpha
Helix 57	57	E	172	177	Right-handed 310
Helix 58	58	E	222	230	Right-handed alpha
Helix 59	59	E	242	250	Right-handed alpha
Helix 60	60	E	279	287	Right-handed alpha
Helix 61	61	E	291	297	Right-handed alpha
Helix 62	62	E	328	337	Right-handed alpha
Helix 63	63	E	361	375	Right-handed alpha
Helix 64	64	E	386	394	Right-handed alpha
Helix 65	65	E	412	420	Right-handed 310
Helix 66	66	E	422	427	Right-handed alpha
Helix 67	67	E	437	443	Right-handed alpha
Helix 68	68	E	445	448	Right-handed alpha
Helix 69	69	E	452	469	Right-handed alpha
Helix 70	70	G	16	18	Right-handed 310
Helix 71	71	G	22	27	Right-handed alpha
Helix 72	72	G	29	32	Right-handed alpha
Helix 73	73	G	87	98	Right-handed alpha
Helix 74	74	G	103	109	Right-handed 310
Helix 75	75	G	113	117	Right-handed alpha
Helix 76	76	G	120	123	Right-handed alpha
Helix 77	77	G	144	151	Right-handed 310
Helix 78	78	G	153	155	Right-handed 310
Helix 79	79	G	160	168	Right-handed alpha
Helix 80	80	G	172	177	Right-handed 310
Helix 81	81	G	222	230	Right-handed alpha
Helix 82	82	G	242	250	Right-handed alpha
Helix 83	83	G	279	287	Right-handed alpha
Helix 84	84	G	291	297	Right-handed alpha
Helix 85	85	G	328	337	Right-handed alpha
Helix 86	86	G	361	375	Right-handed alpha
Helix 87	87	G	386	394	Right-handed alpha
Helix 88	88	G	412	420	Right-handed 310
Helix 89	89	G	422	427	Right-handed alpha
Helix 90	90	G	437	443	Right-handed alpha
Helix 91	91	G	445	448	Right-handed alpha
Helix 92	92	G	452	469	Right-handed alpha

There are 22 sheets in PDB entry 1DPP. 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 4 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	2	7	first strand
Strand 2	A	213	218	parallel
Strand 3	A	195	200	anti-parallel
Strand 4	A	185	191	anti-parallel

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There are 2 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	37	39	first strand
Strand 2	A	46	48	anti-parallel

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There are 4 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	51	56	first strand
Strand 2	A	62	67	anti-parallel
Strand 3	A	134	139	anti-parallel
Strand 4	A	124	129	anti-parallel

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There are 2 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	254	259	first strand
Strand 2	A	480	485	anti-parallel

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There are 4 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	400	406	first strand
Strand 2	A	263	269	anti-parallel
Strand 3	A	472	478	anti-parallel
Strand 4	A	303	305	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	A	344	349	first strand
Strand 2	A	377	383	parallel
Strand 3	C	377	383	anti-parallel
Strand 4	C	344	349	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	2	7	first strand
Strand 2	C	213	218	parallel
Strand 3	C	195	200	anti-parallel
Strand 4	C	185	191	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	C	37	39	first strand
Strand 2	C	46	48	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	C	51	56	first strand
Strand 2	C	62	67	anti-parallel
Strand 3	C	134	139	anti-parallel
Strand 4	C	124	129	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	C	254	259	first strand
Strand 2	C	480	485	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	400	406	first strand
Strand 2	C	263	269	anti-parallel
Strand 3	C	472	478	anti-parallel
Strand 4	C	303	305	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	2	7	first strand
Strand 2	E	213	218	parallel
Strand 3	E	195	200	anti-parallel
Strand 4	E	185	191	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	E	37	39	first strand
Strand 2	E	46	48	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	51	56	first strand
Strand 2	E	62	67	anti-parallel
Strand 3	E	134	139	anti-parallel
Strand 4	E	124	129	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	E	254	259	first strand
Strand 2	E	480	485	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	E	400	406	first strand
Strand 2	E	263	269	anti-parallel
Strand 3	E	472	478	anti-parallel
Strand 4	E	303	305	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	E	344	349	first strand
Strand 2	E	377	383	parallel
Strand 3	G	377	383	anti-parallel
Strand 4	G	344	349	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	2	7	first strand
Strand 2	G	213	218	parallel
Strand 3	G	195	200	anti-parallel
Strand 4	G	185	191	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	37	39	first strand
Strand 2	G	46	48	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	51	56	first strand
Strand 2	G	62	67	anti-parallel
Strand 3	G	134	139	anti-parallel
Strand 4	G	124	129	anti-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	G	254	259	first strand
Strand 2	G	480	485	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	400	406	first strand
Strand 2	G	263	269	anti-parallel
Strand 3	G	472	478	anti-parallel
Strand 4	G	303	305	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: 1DPP

Analysis of interatomic Contacts of Structural Units in PDB entry:
1DPP