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

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 4DOP entry

There are 3 chains in PDB entry 4DOP (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
B	ALA 79	SER 400
C	ALA 79	SER 402
A	MET 1	ASN 668

There are 62 helices in PDB entry 4DOP. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	B	158	171	Right-handed alpha
Helix 2	2	B	174	189	Right-handed alpha
Helix 3	3	B	191	200	Right-handed alpha
Helix 4	4	B	254	259	Right-handed alpha
Helix 5	5	B	330	332	Right-handed 310
Helix 6	6	B	390	396	Right-handed alpha
Helix 7	7	B	397	399	Right-handed 310
Helix 8	8	C	85	93	Right-handed alpha
Helix 9	9	C	158	171	Right-handed alpha
Helix 10	10	C	174	187	Right-handed alpha
Helix 11	11	C	191	202	Right-handed alpha
Helix 12	12	C	253	258	Right-handed 310
Helix 13	13	C	330	332	Right-handed 310
Helix 14	14	C	381	392	Right-handed alpha
Helix 15	15	C	393	400	Right-handed alpha
Helix 16	16	A	2	13	Right-handed alpha
Helix 17	17	A	13	33	Right-handed alpha
Helix 18	18	A	57	65	Right-handed alpha
Helix 19	19	A	66	75	Right-handed alpha
Helix 20	20	A	102	114	Right-handed alpha
Helix 21	21	A	134	136	Right-handed 310
Helix 22	22	A	152	162	Right-handed alpha
Helix 23	23	A	163	170	Right-handed alpha
Helix 24	24	A	192	200	Right-handed alpha
Helix 25	25	A	202	211	Right-handed alpha
Helix 26	26	A	239	245	Right-handed alpha
Helix 27	27	A	296	312	Right-handed alpha
Helix 28	28	A	327	356	Right-handed alpha
Helix 29	29	A	359	385	Right-handed alpha
Helix 30	30	A	389	416	Right-handed alpha
Helix 31	31	A	420	425	Right-handed alpha
Helix 32	32	A	433	440	Right-handed alpha
Helix 33	33	A	441	452	Right-handed alpha
Helix 34	34	A	452	460	Right-handed alpha
Helix 35	35	A	461	468	Right-handed 310
Helix 36	36	A	469	492	Right-handed alpha
Helix 37	37	A	496	504	Right-handed alpha
Helix 38	38	A	518	533	Right-handed alpha
Helix 39	39	A	535	550	Right-handed alpha
Helix 40	40	A	550	555	Right-handed alpha
Helix 41	41	A	581	598	Right-handed alpha
Helix 42	42	A	641	653	Right-handed alpha
Helix 43	43	A	664	675	Right-handed alpha
Helix 44	44	A	689	705	Right-handed alpha
Helix 45	45	A	729	736	Right-handed alpha
Helix 46	46	A	739	749	Right-handed alpha
Helix 47	47	A	773	778	Right-handed 310
Helix 48	48	A	779	785	Right-handed alpha
Helix 49	49	A	799	801	Right-handed 310
Helix 50	50	A	832	848	Right-handed alpha
Helix 51	51	A	860	873	Right-handed alpha
Helix 52	52	A	874	891	Right-handed alpha
Helix 53	53	A	893	901	Right-handed alpha
Helix 54	54	A	904	918	Right-handed alpha
Helix 55	55	A	923	944	Right-handed alpha
Helix 56	56	A	945	950	Right-handed alpha
Helix 57	57	A	951	954	Right-handed 310
Helix 58	58	A	965	970	Right-handed alpha
Helix 59	59	A	970	994	Right-handed alpha
Helix 60	60	A	996	1000	Right-handed 310
Helix 61	61	A	1005	1031	Right-handed alpha
Helix 62	62	A	1031	1042	Right-handed alpha

There are 23 sheets in PDB entry 4DOP. 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,

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	B	96	98	first strand
Strand 2	B	376	378	anti-parallel
Strand 3	B	339	344	anti-parallel
Strand 4	B	333	334	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	B	96	98	first strand
Strand 2	B	376	378	anti-parallel
Strand 3	B	339	344	anti-parallel
Strand 4	B	350	354	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	B	100	102	first strand
Strand 2	B	324	328	anti-parallel
Strand 3	B	364	369	anti-parallel
Strand 4	B	356	361	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	276	278	first strand
Strand 2	B	264	267	anti-parallel
Strand 3	B	312	320	anti-parallel
Strand 4	B	105	115	anti-parallel
Strand 5	B	243	251	anti-parallel
Strand 6	B	293	301	anti-parallel
Strand 7	B	282	283	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	B	121	124	first strand
Strand 2	B	236	239	anti-parallel
Strand 3	B	216	220	anti-parallel
Strand 4	B	143	144	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	B	207	211	first strand
Strand 2	B	149	154	anti-parallel
Strand 3	B	130	135	anti-parallel
Strand 4	B	228	229	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	C	95	98	first strand
Strand 2	C	376	380	anti-parallel

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There are 4 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	100	102	first strand
Strand 2	C	324	328	anti-parallel
Strand 3	C	364	369	anti-parallel
Strand 4	C	356	360	anti-parallel

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There are 6 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	143	144	first strand
Strand 2	C	216	220	anti-parallel
Strand 3	C	236	251	anti-parallel
Strand 4	C	106	124	anti-parallel
Strand 5	C	312	319	anti-parallel
Strand 6	C	263	267	anti-parallel

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There are 5 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	143	144	first strand
Strand 2	C	216	220	anti-parallel
Strand 3	C	236	251	anti-parallel
Strand 4	C	293	300	anti-parallel
Strand 5	C	278	283	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	207	211	first strand
Strand 2	C	149	154	anti-parallel
Strand 3	C	130	135	anti-parallel
Strand 4	C	228	229	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	C	333	334	first strand
Strand 2	C	339	344	anti-parallel
Strand 3	C	350	354	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	A	79	87	first strand
Strand 2	A	90	97	anti-parallel
Strand 3	A	45	52	anti-parallel
Strand 4	A	127	129	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	A	174	181	first strand
Strand 2	A	285	291	anti-parallel
Strand 3	A	138	145	anti-parallel
Strand 4	A	320	326	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	263	269	first strand
Strand 2	A	185	191	anti-parallel
Strand 3	A	764	771	parallel
Strand 4	A	755	761	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	217	218	first strand
Strand 2	A	232	233	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	223	224	first strand
Strand 2	A	227	228	anti-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	A	247	250	first strand
Strand 2	A	256	258	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	274	278	first strand
Strand 2	A	602	610	anti-parallel
Strand 3	A	626	630	anti-parallel
Strand 4	A	569	575	anti-parallel
Strand 5	A	659	663	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	A	712	715	first strand
Strand 2	A	819	827	anti-parallel
Strand 3	A	815	816	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	712	715	first strand
Strand 2	A	819	827	anti-parallel
Strand 3	A	681	686	anti-parallel
Strand 4	A	855	857	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	A	721	725	first strand
Strand 2	A	805	809	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	787	789	first strand
Strand 2	A	795	797	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: 4DOP

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