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

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 1DDO entry

There are 8 chains in PDB entry 1DDO (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	LEU 339
B	MET 1	LEU 339
C	MET 1	LEU 339
D	MET 1	LEU 339
E	MET 1	LEU 339
F	MET 1	LEU 339
G	MET 1	LEU 339
H	MET 1	LEU 339

There are 88 helices in PDB entry 1DDO. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	10	23	Right-handed alpha
Helix 2	2	A	45	47	Right-handed 310
Helix 3	3	A	62	78	Right-handed 310
Helix 4	4	A	106	109	Right-handed 310
Helix 5	5	A	119	124	Right-handed alpha
Helix 6	6	A	141	155	Right-handed alpha
Helix 7	7	A	167	173	Right-handed alpha
Helix 8	8	A	183	189	Right-handed 310
Helix 9	9	A	253	266	Right-handed alpha
Helix 10	10	A	268	272	Right-handed 310
Helix 11	11	A	312	337	Right-handed 310
Helix 12	12	B	10	23	Right-handed alpha
Helix 13	13	B	45	47	Right-handed 310
Helix 14	14	B	62	78	Right-handed alpha
Helix 15	15	B	106	109	Right-handed 310
Helix 16	16	B	119	125	Right-handed alpha
Helix 17	17	B	141	155	Right-handed alpha
Helix 18	18	B	167	172	Right-handed alpha
Helix 19	19	B	183	189	Right-handed 310
Helix 20	20	B	253	266	Right-handed alpha
Helix 21	21	B	268	272	Right-handed 310
Helix 22	22	B	312	337	Right-handed 310
Helix 23	23	C	10	22	Right-handed alpha
Helix 24	24	C	45	47	Right-handed 310
Helix 25	25	C	62	78	Right-handed alpha
Helix 26	26	C	106	109	Right-handed 310
Helix 27	27	C	119	125	Right-handed alpha
Helix 28	28	C	141	155	Right-handed alpha
Helix 29	29	C	167	172	Right-handed alpha
Helix 30	30	C	183	189	Right-handed 310
Helix 31	31	C	253	266	Right-handed alpha
Helix 32	32	C	268	272	Right-handed 310
Helix 33	33	C	312	337	Right-handed 310
Helix 34	34	D	10	23	Right-handed alpha
Helix 35	35	D	45	47	Right-handed 310
Helix 36	36	D	62	78	Right-handed alpha
Helix 37	37	D	106	109	Right-handed 310
Helix 38	38	D	119	124	Right-handed alpha
Helix 39	39	D	141	155	Right-handed alpha
Helix 40	40	D	167	173	Right-handed alpha
Helix 41	41	D	183	189	Right-handed 310
Helix 42	42	D	253	266	Right-handed alpha
Helix 43	43	D	268	272	Right-handed 310
Helix 44	44	D	312	337	Right-handed 310
Helix 45	45	E	10	23	Right-handed alpha
Helix 46	46	E	45	47	Right-handed 310
Helix 47	47	E	63	78	Right-handed alpha
Helix 48	48	E	106	109	Right-handed 310
Helix 49	49	E	119	124	Right-handed alpha
Helix 50	50	E	141	155	Right-handed alpha
Helix 51	51	E	167	172	Right-handed alpha
Helix 52	52	E	183	189	Right-handed 310
Helix 53	53	E	253	266	Right-handed alpha
Helix 54	54	E	268	272	Right-handed 310
Helix 55	55	E	312	337	Right-handed 310
Helix 56	56	F	10	23	Right-handed alpha
Helix 57	57	F	45	47	Right-handed 310
Helix 58	58	F	63	78	Right-handed alpha
Helix 59	59	F	106	109	Right-handed 310
Helix 60	60	F	119	124	Right-handed alpha
Helix 61	61	F	141	155	Right-handed alpha
Helix 62	62	F	167	174	Right-handed alpha
Helix 63	63	F	183	189	Right-handed 310
Helix 64	64	F	253	266	Right-handed alpha
Helix 65	65	F	268	272	Right-handed 310
Helix 66	66	F	312	337	Right-handed 310
Helix 67	67	G	10	23	Right-handed alpha
Helix 68	68	G	45	47	Right-handed 310
Helix 69	69	G	62	78	Right-handed 310
Helix 70	70	G	106	109	Right-handed 310
Helix 71	71	G	119	124	Right-handed alpha
Helix 72	72	G	141	155	Right-handed alpha
Helix 73	73	G	167	174	Right-handed alpha
Helix 74	74	G	183	189	Right-handed 310
Helix 75	75	G	253	266	Right-handed alpha
Helix 76	76	G	268	272	Right-handed 310
Helix 77	77	G	312	337	Right-handed 310
Helix 78	78	H	10	22	Right-handed alpha
Helix 79	79	H	45	47	Right-handed 310
Helix 80	80	H	62	78	Right-handed alpha
Helix 81	81	H	106	109	Right-handed 310
Helix 82	82	H	119	124	Right-handed alpha
Helix 83	83	H	141	155	Right-handed alpha
Helix 84	84	H	167	172	Right-handed alpha
Helix 85	85	H	183	189	Right-handed 310
Helix 86	86	H	253	266	Right-handed alpha
Helix 87	87	H	268	272	Right-handed 310
Helix 88	88	H	312	337	Right-handed 310

There are 24 sheets in PDB entry 1DDO. 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,

There are 6 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	290	298	first strand
Strand 2	A	301	309	anti-parallel
Strand 3	A	177	180	parallel
Strand 4	A	2	6	parallel
Strand 5	A	31	36	parallel
Strand 6	A	158	161	parallel

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There are 3 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	130	139	first strand
Strand 2	A	89	98	anti-parallel
Strand 3	A	212	217	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	228	231	first strand
Strand 2	A	236	239	anti-parallel
Strand 3	A	196	206	anti-parallel
Strand 4	A	274	285	anti-parallel

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There are 6 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	290	298	first strand
Strand 2	B	301	309	anti-parallel
Strand 3	B	177	180	parallel
Strand 4	B	2	6	parallel
Strand 5	B	31	36	parallel
Strand 6	B	158	161	parallel

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There are 3 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	130	139	first strand
Strand 2	B	89	98	anti-parallel
Strand 3	B	212	216	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	228	231	first strand
Strand 2	B	236	239	anti-parallel
Strand 3	B	196	206	anti-parallel
Strand 4	B	274	285	anti-parallel

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There are 6 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	290	298	first strand
Strand 2	C	301	309	anti-parallel
Strand 3	C	177	180	parallel
Strand 4	C	2	6	parallel
Strand 5	C	31	36	parallel
Strand 6	C	158	161	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	C	130	139	first strand
Strand 2	C	89	98	anti-parallel
Strand 3	C	212	217	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	228	231	first strand
Strand 2	C	236	239	anti-parallel
Strand 3	C	196	206	anti-parallel
Strand 4	C	274	285	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	290	298	first strand
Strand 2	D	301	309	anti-parallel
Strand 3	D	177	180	parallel
Strand 4	D	2	6	parallel
Strand 5	D	31	36	parallel
Strand 6	D	158	161	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	D	130	139	first strand
Strand 2	D	89	98	anti-parallel
Strand 3	D	212	217	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	D	228	231	first strand
Strand 2	D	236	239	anti-parallel
Strand 3	D	196	206	anti-parallel
Strand 4	D	274	285	anti-parallel

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There are 6 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	290	298	first strand
Strand 2	E	301	309	anti-parallel
Strand 3	E	177	180	parallel
Strand 4	E	2	6	parallel
Strand 5	E	31	36	parallel
Strand 6	E	158	161	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	E	130	139	first strand
Strand 2	E	89	98	anti-parallel
Strand 3	E	212	216	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	E	228	231	first strand
Strand 2	E	236	239	anti-parallel
Strand 3	E	196	206	anti-parallel
Strand 4	E	274	285	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	290	298	first strand
Strand 2	F	301	309	anti-parallel
Strand 3	F	177	180	parallel
Strand 4	F	2	6	parallel
Strand 5	F	31	36	parallel
Strand 6	F	158	161	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	130	139	first strand
Strand 2	F	89	98	anti-parallel
Strand 3	F	212	216	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	F	228	231	first strand
Strand 2	F	236	239	anti-parallel
Strand 3	F	196	206	anti-parallel
Strand 4	F	274	285	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	G	290	298	first strand
Strand 2	G	301	309	anti-parallel
Strand 3	G	177	180	parallel
Strand 4	G	2	6	parallel
Strand 5	G	31	36	parallel
Strand 6	G	158	161	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	G	130	139	first strand
Strand 2	G	89	98	anti-parallel
Strand 3	G	212	217	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	G	228	231	first strand
Strand 2	G	236	239	anti-parallel
Strand 3	G	196	206	anti-parallel
Strand 4	G	274	285	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	290	298	first strand
Strand 2	H	301	309	anti-parallel
Strand 3	H	177	180	parallel
Strand 4	H	2	6	parallel
Strand 5	H	31	36	parallel
Strand 6	H	158	161	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	H	130	139	first strand
Strand 2	H	89	98	anti-parallel
Strand 3	H	212	217	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	228	231	first strand
Strand 2	H	236	239	anti-parallel
Strand 3	H	196	206	anti-parallel
Strand 4	H	274	285	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: 1DDO

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