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

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 8YKX entry

There are 5 chains in PDB entry 8YKX (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
R	CYS 11	GLN 309
A	THR 4	PHE 354
B	LEU 4	ASN 340
E	VAL 2	LEU 247
G	ALA 7	LYS 64

There are 31 helices in PDB entry 8YKX. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	R	11	49	Right-handed alpha
Helix 2	AA2	R	56	74	Right-handed alpha
Helix 3	AA3	R	75	86	Right-handed alpha
Helix 4	AA4	R	91	126	Right-handed alpha
Helix 5	AA5	R	131	134	Right-handed 310
Helix 6	AA6	R	135	155	Right-handed alpha
Helix 7	AA7	R	156	158	Right-handed 310
Helix 8	AA8	R	180	196	Right-handed alpha
Helix 9	AA9	R	196	217	Right-handed alpha
Helix 10	AB1	R	227	259	Right-handed alpha
Helix 11	AB2	R	270	286	Right-handed alpha
Helix 12	AB3	R	286	297	Right-handed alpha
Helix 13	AB4	R	299	309	Right-handed alpha
Helix 14	AB5	A	6	32	Right-handed alpha
Helix 15	AB6	A	45	50	Right-handed alpha
Helix 16	AB7	A	51	53	Right-handed 310
Helix 17	AB8	A	207	212	Right-handed alpha
Helix 18	AB9	A	213	216	Right-handed 310
Helix 19	AC1	A	242	255	Right-handed alpha
Helix 20	AC2	A	256	260	Right-handed 310
Helix 21	AC3	A	270	281	Right-handed alpha
Helix 22	AC4	A	282	286	Right-handed 310
Helix 23	AC5	A	295	309	Right-handed alpha
Helix 24	AC6	A	330	351	Right-handed alpha
Helix 25	AC7	B	5	26	Right-handed alpha
Helix 26	AC8	B	29	35	Right-handed alpha
Helix 27	AC9	E	28	32	Right-handed 310
Helix 28	AD1	E	87	91	Right-handed 310
Helix 29	AD2	G	8	25	Right-handed alpha
Helix 30	AD3	G	29	44	Right-handed alpha
Helix 31	AD4	G	45	48	Right-handed 310

There are 13 sheets in PDB entry 8YKX. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4,

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	191	first strand
Strand 2	A	194	200	anti-parallel
Strand 3	A	33	39	parallel
Strand 4	A	220	226	parallel
Strand 5	A	263	269	parallel
Strand 6	A	319	323	parallel

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There are 4 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	46	51	first strand
Strand 2	B	336	340	anti-parallel
Strand 3	B	327	330	anti-parallel
Strand 4	B	317	320	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	88	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	156	161	anti-parallel
Strand 3	B	166	170	anti-parallel
Strand 4	B	176	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	217	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	250	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	304	308	anti-parallel

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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	3	7	first strand
Strand 2	E	17	25	anti-parallel
Strand 3	E	78	84	anti-parallel
Strand 4	E	68	73	anti-parallel

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There are 6 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	10	12	first strand
Strand 2	E	115	119	parallel
Strand 3	E	92	99	anti-parallel
Strand 4	E	33	39	anti-parallel
Strand 5	E	45	51	anti-parallel
Strand 6	E	58	60	anti-parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	10	12	first strand
Strand 2	E	115	119	parallel
Strand 3	E	92	99	anti-parallel
Strand 4	E	110	111	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	140	141	first strand
Strand 2	E	155	161	anti-parallel
Strand 3	E	211	216	anti-parallel
Strand 4	E	203	208	anti-parallel

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There are 6 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	146	148	first strand
Strand 2	E	243	246	parallel
Strand 3	E	226	231	anti-parallel
Strand 4	E	174	179	anti-parallel
Strand 5	E	186	190	anti-parallel
Strand 6	E	194	195	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: 8YKX

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