Analysis of interatomic Contacts of Structural Units in PDB entry:
8IOD

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 8IOD entry

There are 7 chains in PDB entry 8IOD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LEU 5	LEU 361
B	ASP 5	SER 342
G	GLN 11	ARG 62
L	ASP 2	PRO 3
L	ARG 5	LYS 7
N	VAL 2	SER 127
R	GLY 37	CYS 312

There are 27 helices in PDB entry 8IOD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	6	32	Right-handed alpha
Helix 2	AA2	A	45	51	Right-handed alpha
Helix 3	AA3	A	212	216	Right-handed 310
Helix 4	AA4	A	232	245	Right-handed alpha
Helix 5	AA5	A	260	270	Right-handed alpha
Helix 6	AA6	A	274	279	Right-handed alpha
Helix 7	AA7	A	280	283	Right-handed 310
Helix 8	AA8	A	298	317	Right-handed alpha
Helix 9	AA9	A	338	358	Right-handed alpha
Helix 10	AB1	B	6	25	Right-handed alpha
Helix 11	AB2	G	12	24	Right-handed alpha
Helix 12	AB3	G	29	43	Right-handed alpha
Helix 13	AB4	G	55	59	Right-handed 310
Helix 14	AB5	N	28	32	Right-handed 310
Helix 15	AB6	N	62	65	Right-handed 310
Helix 16	AB7	N	87	91	Right-handed 310
Helix 17	AB8	R	39	43	Right-handed 310
Helix 18	AB9	R	44	60	Right-handed alpha
Helix 19	AC1	R	69	101	Right-handed alpha
Helix 20	AC2	R	107	146	Right-handed alpha
Helix 21	AC3	R	155	180	Right-handed alpha
Helix 22	AC4	R	183	220	Right-handed alpha
Helix 23	AC5	R	233	247	Right-handed alpha
Helix 24	AC6	R	252	261	Right-handed alpha
Helix 25	AC7	R	267	275	Right-handed alpha
Helix 26	AC8	R	276	296	Right-handed alpha
Helix 27	AC9	R	299	312	Right-handed alpha

There are 11 sheets in PDB entry 8IOD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2,

There are 6 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	185	189	first strand
Strand 2	A	196	200	anti-parallel
Strand 3	A	34	39	parallel
Strand 4	A	220	226	parallel
Strand 5	A	253	259	parallel
Strand 6	A	326	330	parallel

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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	45	51	first strand
Strand 2	B	336	341	anti-parallel

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There are 4 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	58	63	first strand
Strand 2	B	69	74	anti-parallel
Strand 3	B	78	83	anti-parallel
Strand 4	B	89	94	anti-parallel

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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	100	105	first strand
Strand 2	B	111	116	anti-parallel
Strand 3	B	120	125	anti-parallel
Strand 4	B	134	140	anti-parallel

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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	146	151	first strand
Strand 2	B	157	161	anti-parallel
Strand 3	B	166	170	anti-parallel
Strand 4	B	175	180	anti-parallel

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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	187	192	first strand
Strand 2	B	198	203	anti-parallel
Strand 3	B	207	212	anti-parallel
Strand 4	B	218	223	anti-parallel

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There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	229	234	first strand
Strand 2	B	240	245	anti-parallel
Strand 3	B	249	254	anti-parallel
Strand 4	B	259	264	anti-parallel

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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	273	278	first strand
Strand 2	B	284	289	anti-parallel
Strand 3	B	294	298	anti-parallel
Strand 4	B	303	308	anti-parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	319	320	first strand
Strand 2	B	327	328	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	3	6	first strand
Strand 2	N	17	25	anti-parallel
Strand 3	N	78	84	anti-parallel
Strand 4	N	69	71	anti-parallel

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There are 6 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	10	12	first strand
Strand 2	N	122	126	parallel
Strand 3	N	92	98	anti-parallel
Strand 4	N	34	39	anti-parallel
Strand 5	N	45	51	anti-parallel
Strand 6	N	58	60	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: 8IOD

Analysis of interatomic Contacts of Structural Units in PDB entry:
8IOD