Analysis of interatomic Contacts of Structural Units in PDB entry:
8YP1

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 8YP1 entry

There are 4 chains in PDB entry 8YP1 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 17	GLN 271
B	GLY 18	LEU 272
C	GLY 17	LEU 272
D	GLY 18	LEU 272

There are 28 helices in PDB entry 8YP1. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	27	33	Right-handed alpha
Helix 2	AA2	A	90	96	Right-handed alpha
Helix 3	AA3	A	135	141	Right-handed 310
Helix 4	AA4	A	195	200	Right-handed alpha
Helix 5	AA5	A	213	217	Right-handed 310
Helix 6	AA6	A	225	252	Right-handed alpha
Helix 7	AA7	A	259	271	Right-handed alpha
Helix 8	AA8	B	27	33	Right-handed alpha
Helix 9	AA9	B	90	96	Right-handed alpha
Helix 10	AB1	B	135	141	Right-handed 310
Helix 11	AB2	B	195	200	Right-handed alpha
Helix 12	AB3	B	213	217	Right-handed 310
Helix 13	AB4	B	228	251	Right-handed alpha
Helix 14	AB5	B	254	272	Right-handed alpha
Helix 15	AB6	C	27	33	Right-handed alpha
Helix 16	AB7	C	90	96	Right-handed alpha
Helix 17	AB8	C	135	141	Right-handed 310
Helix 18	AB9	C	195	200	Right-handed alpha
Helix 19	AC1	C	213	217	Right-handed 310
Helix 20	AC2	C	225	243	Right-handed alpha
Helix 21	AC3	C	259	272	Right-handed alpha
Helix 22	AC4	D	27	33	Right-handed alpha
Helix 23	AC5	D	90	96	Right-handed alpha
Helix 24	AC6	D	135	141	Right-handed 310
Helix 25	AC7	D	195	200	Right-handed alpha
Helix 26	AC8	D	213	217	Right-handed 310
Helix 27	AC9	D	228	251	Right-handed alpha
Helix 28	AD1	D	254	272	Right-handed alpha

There are 24 sheets in PDB entry 8YP1. 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, AB5, AB6, AB7, AB8, AB9, AC1, AC2, AC3, AC4, AC5, AC6,

There are 4 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	20	24	first strand
Strand 2	A	39	47	anti-parallel
Strand 3	A	81	88	anti-parallel
Strand 4	A	69	70	anti-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	A	20	24	first strand
Strand 2	A	39	47	anti-parallel
Strand 3	A	81	88	anti-parallel
Strand 4	A	74	75	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	A	63	65	first strand
Strand 2	A	55	60	anti-parallel
Strand 3	A	100	105	anti-parallel
Strand 4	A	113	117	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	A	128	132	first strand
Strand 2	A	143	153	anti-parallel
Strand 3	A	185	194	anti-parallel
Strand 4	A	172	174	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	A	128	132	first strand
Strand 2	A	143	153	anti-parallel
Strand 3	A	185	194	anti-parallel
Strand 4	A	178	179	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	A	167	169	first strand
Strand 2	A	159	164	anti-parallel
Strand 3	A	204	209	anti-parallel
Strand 4	A	218	222	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	20	24	first strand
Strand 2	B	39	48	anti-parallel
Strand 3	B	80	88	anti-parallel
Strand 4	B	69	70	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	20	24	first strand
Strand 2	B	39	48	anti-parallel
Strand 3	B	80	88	anti-parallel
Strand 4	B	74	75	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	B	63	65	first strand
Strand 2	B	54	60	anti-parallel
Strand 3	B	100	106	anti-parallel
Strand 4	B	113	117	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	B	128	132	first strand
Strand 2	B	143	153	anti-parallel
Strand 3	B	185	194	anti-parallel
Strand 4	B	172	174	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	B	128	132	first strand
Strand 2	B	143	153	anti-parallel
Strand 3	B	185	194	anti-parallel
Strand 4	B	178	179	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	B	167	168	first strand
Strand 2	B	159	164	anti-parallel
Strand 3	B	204	209	anti-parallel
Strand 4	B	218	222	anti-parallel

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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	20	24	first strand
Strand 2	C	39	47	anti-parallel
Strand 3	C	81	88	anti-parallel
Strand 4	C	69	70	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	20	24	first strand
Strand 2	C	39	47	anti-parallel
Strand 3	C	81	88	anti-parallel
Strand 4	C	74	75	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	63	65	first strand
Strand 2	C	55	60	anti-parallel
Strand 3	C	100	105	anti-parallel
Strand 4	C	113	117	anti-parallel

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There are 4 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	128	132	first strand
Strand 2	C	143	153	anti-parallel
Strand 3	C	185	194	anti-parallel
Strand 4	C	172	174	anti-parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	128	132	first strand
Strand 2	C	143	153	anti-parallel
Strand 3	C	185	194	anti-parallel
Strand 4	C	178	179	anti-parallel

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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	167	169	first strand
Strand 2	C	159	164	anti-parallel
Strand 3	C	204	209	anti-parallel
Strand 4	C	218	222	anti-parallel

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There are 4 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	20	24	first strand
Strand 2	D	39	48	anti-parallel
Strand 3	D	80	88	anti-parallel
Strand 4	D	69	70	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	20	24	first strand
Strand 2	D	39	48	anti-parallel
Strand 3	D	80	88	anti-parallel
Strand 4	D	74	75	anti-parallel

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There are 4 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	63	65	first strand
Strand 2	D	54	60	anti-parallel
Strand 3	D	100	106	anti-parallel
Strand 4	D	113	117	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	128	132	first strand
Strand 2	D	143	153	anti-parallel
Strand 3	D	185	194	anti-parallel
Strand 4	D	172	174	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	128	132	first strand
Strand 2	D	143	153	anti-parallel
Strand 3	D	185	194	anti-parallel
Strand 4	D	178	179	anti-parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	167	169	first strand
Strand 2	D	159	164	anti-parallel
Strand 3	D	204	209	anti-parallel
Strand 4	D	218	222	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: 8YP1

Analysis of interatomic Contacts of Structural Units in PDB entry:
8YP1