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

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 8YPY entry

There are 6 chains in PDB entry 8YPY (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 1	GLY 309
B	SER 1	ASN 308
C	SER 1	ASN 308
D	SER 1	ASN 308
E	SER 1	ASN 308
F	SER 1	ASN 308

There are 65 helices in PDB entry 8YPY. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	12	24	Right-handed alpha
Helix 2	AA2	A	62	80	Right-handed alpha
Helix 3	AA3	A	109	123	Right-handed alpha
Helix 4	AA4	A	134	141	Right-handed 310
Helix 5	AA5	A	150	162	Right-handed alpha
Helix 6	AA6	A	164	166	Right-handed 310
Helix 7	AA7	A	177	188	Right-handed alpha
Helix 8	AA8	A	229	242	Right-handed alpha
Helix 9	AA9	A	259	266	Right-handed alpha
Helix 10	AB1	A	280	285	Right-handed alpha
Helix 11	AB2	A	295	309	Right-handed alpha
Helix 12	AB3	B	12	24	Right-handed alpha
Helix 13	AB4	B	62	80	Right-handed alpha
Helix 14	AB5	B	111	123	Right-handed alpha
Helix 15	AB6	B	134	141	Right-handed 310
Helix 16	AB7	B	150	162	Right-handed alpha
Helix 17	AB8	B	164	166	Right-handed 310
Helix 18	AB9	B	177	188	Right-handed alpha
Helix 19	AC1	B	229	242	Right-handed alpha
Helix 20	AC2	B	259	267	Right-handed alpha
Helix 21	AC3	B	280	287	Right-handed alpha
Helix 22	AC4	B	295	308	Right-handed alpha
Helix 23	AC5	C	12	24	Right-handed alpha
Helix 24	AC6	C	62	80	Right-handed alpha
Helix 25	AC7	C	109	123	Right-handed alpha
Helix 26	AC8	C	134	141	Right-handed 310
Helix 27	AC9	C	150	162	Right-handed alpha
Helix 28	AD1	C	177	188	Right-handed alpha
Helix 29	AD2	C	229	242	Right-handed alpha
Helix 30	AD3	C	259	266	Right-handed alpha
Helix 31	AD4	C	280	285	Right-handed alpha
Helix 32	AD5	C	295	308	Right-handed alpha
Helix 33	AD6	D	12	24	Right-handed alpha
Helix 34	AD7	D	62	80	Right-handed alpha
Helix 35	AD8	D	109	123	Right-handed alpha
Helix 36	AD9	D	134	141	Right-handed 310
Helix 37	AE1	D	150	162	Right-handed alpha
Helix 38	AE2	D	163	166	Right-handed 310
Helix 39	AE3	D	174	176	Right-handed 310
Helix 40	AE4	D	177	187	Right-handed alpha
Helix 41	AE5	D	229	242	Right-handed alpha
Helix 42	AE6	D	259	266	Right-handed alpha
Helix 43	AE7	D	280	285	Right-handed alpha
Helix 44	AE8	D	295	308	Right-handed alpha
Helix 45	AE9	E	12	24	Right-handed alpha
Helix 46	AF1	E	62	78	Right-handed alpha
Helix 47	AF2	E	109	123	Right-handed alpha
Helix 48	AF3	E	134	141	Right-handed 310
Helix 49	AF4	E	150	162	Right-handed alpha
Helix 50	AF5	E	164	166	Right-handed 310
Helix 51	AF6	E	177	188	Right-handed alpha
Helix 52	AF7	E	229	242	Right-handed alpha
Helix 53	AF8	E	259	266	Right-handed alpha
Helix 54	AF9	E	280	285	Right-handed alpha
Helix 55	AG1	E	295	308	Right-handed alpha
Helix 56	AG2	F	12	24	Right-handed alpha
Helix 57	AG3	F	62	80	Right-handed alpha
Helix 58	AG4	F	109	123	Right-handed alpha
Helix 59	AG5	F	134	141	Right-handed 310
Helix 60	AG6	F	150	162	Right-handed alpha
Helix 61	AG7	F	164	166	Right-handed 310
Helix 62	AG8	F	177	188	Right-handed alpha
Helix 63	AG9	F	229	242	Right-handed alpha
Helix 64	AH1	F	259	266	Right-handed alpha
Helix 65	AH2	F	295	308	Right-handed alpha

There are 19 sheets in PDB entry 8YPY. 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,

There are 5 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	4	8	first strand
Strand 2	A	52	56	parallel
Strand 3	A	84	89	parallel
Strand 4	A	126	130	parallel
Strand 5	A	145	148	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	A	30	34	first strand
Strand 2	A	40	44	anti-parallel

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There are 7 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	207	211	first strand
Strand 2	A	191	198	anti-parallel
Strand 3	A	168	172	parallel
Strand 4	A	218	226	parallel
Strand 5	A	246	254	parallel
Strand 6	A	271	275	parallel
Strand 7	A	290	293	parallel

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There are 5 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	4	8	first strand
Strand 2	B	52	56	parallel
Strand 3	B	84	89	parallel
Strand 4	B	126	130	parallel
Strand 5	B	145	148	parallel

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There are 2 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	30	34	first strand
Strand 2	B	40	44	anti-parallel

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There are 7 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	209	211	first strand
Strand 2	B	191	196	anti-parallel
Strand 3	B	168	172	parallel
Strand 4	B	217	226	parallel
Strand 5	B	244	254	parallel
Strand 6	B	271	275	parallel
Strand 7	B	290	293	parallel

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There are 5 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	4	8	first strand
Strand 2	C	52	56	parallel
Strand 3	C	84	89	parallel
Strand 4	C	126	130	parallel
Strand 5	C	145	148	parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	30	34	first strand
Strand 2	C	40	44	anti-parallel

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There are 7 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	209	211	first strand
Strand 2	C	192	196	anti-parallel
Strand 3	C	169	172	parallel
Strand 4	C	219	226	parallel
Strand 5	C	247	254	parallel
Strand 6	C	272	275	parallel
Strand 7	C	290	293	parallel

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There are 5 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	4	8	first strand
Strand 2	D	52	56	parallel
Strand 3	D	84	89	parallel
Strand 4	D	126	130	parallel
Strand 5	D	145	148	parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	30	34	first strand
Strand 2	D	40	44	anti-parallel

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There are 5 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	169	171	first strand
Strand 2	D	219	226	parallel
Strand 3	D	247	254	parallel
Strand 4	D	272	275	parallel
Strand 5	D	290	293	parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	194	196	first strand
Strand 2	D	209	211	anti-parallel

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There are 5 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	4	8	first strand
Strand 2	E	52	56	parallel
Strand 3	E	84	89	parallel
Strand 4	E	126	130	parallel
Strand 5	E	145	148	parallel

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There are 2 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	30	34	first strand
Strand 2	E	40	44	anti-parallel

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There are 7 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	209	211	first strand
Strand 2	E	192	196	anti-parallel
Strand 3	E	168	172	parallel
Strand 4	E	218	226	parallel
Strand 5	E	247	254	parallel
Strand 6	E	272	275	parallel
Strand 7	E	290	293	parallel

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There are 5 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	4	8	first strand
Strand 2	F	52	56	parallel
Strand 3	F	84	89	parallel
Strand 4	F	126	130	parallel
Strand 5	F	145	148	parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	30	34	first strand
Strand 2	F	40	44	anti-parallel

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There are 7 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	208	211	first strand
Strand 2	F	191	197	anti-parallel
Strand 3	F	168	172	parallel
Strand 4	F	218	226	parallel
Strand 5	F	246	254	parallel
Strand 6	F	271	275	parallel
Strand 7	F	290	293	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: 8YPY

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