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

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 8YPZ entry

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

Chain ID	Initial residue	Terminal residue
A	SER 1	PRO 317
B	PRO 2	LEU 318
C	PRO 2	LEU 318
D	ASN 3	ASN 305
E	PRO 2	PRO 317
F	SER 1	LEU 318

There are 73 helices in PDB entry 8YPZ. 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	23	Right-handed alpha
Helix 2	AA2	A	62	80	Right-handed alpha
Helix 3	AA3	A	107	120	Right-handed alpha
Helix 4	AA4	A	131	138	Right-handed 310
Helix 5	AA5	A	147	159	Right-handed alpha
Helix 6	AA6	A	161	164	Right-handed 310
Helix 7	AA7	A	174	186	Right-handed alpha
Helix 8	AA8	A	226	239	Right-handed alpha
Helix 9	AA9	A	256	263	Right-handed alpha
Helix 10	AB1	A	277	284	Right-handed alpha
Helix 11	AB2	A	292	306	Right-handed alpha
Helix 12	AB3	A	308	314	Right-handed 310
Helix 13	AB4	B	12	23	Right-handed alpha
Helix 14	AB5	B	62	80	Right-handed alpha
Helix 15	AB6	B	107	120	Right-handed alpha
Helix 16	AB7	B	131	138	Right-handed 310
Helix 17	AB8	B	147	159	Right-handed alpha
Helix 18	AB9	B	161	164	Right-handed 310
Helix 19	AC1	B	174	186	Right-handed alpha
Helix 20	AC2	B	226	239	Right-handed alpha
Helix 21	AC3	B	256	264	Right-handed alpha
Helix 22	AC4	B	277	284	Right-handed alpha
Helix 23	AC5	B	292	305	Right-handed alpha
Helix 24	AC6	B	308	314	Right-handed 310
Helix 25	AC7	C	12	23	Right-handed alpha
Helix 26	AC8	C	62	80	Right-handed alpha
Helix 27	AC9	C	107	120	Right-handed alpha
Helix 28	AD1	C	131	138	Right-handed 310
Helix 29	AD2	C	147	159	Right-handed alpha
Helix 30	AD3	C	161	163	Right-handed 310
Helix 31	AD4	C	174	186	Right-handed alpha
Helix 32	AD5	C	226	239	Right-handed alpha
Helix 33	AD6	C	256	263	Right-handed alpha
Helix 34	AD7	C	277	284	Right-handed alpha
Helix 35	AD8	C	292	306	Right-handed alpha
Helix 36	AD9	C	308	314	Right-handed 310
Helix 37	AE1	D	12	23	Right-handed alpha
Helix 38	AE2	D	62	80	Right-handed alpha
Helix 39	AE3	D	107	120	Right-handed alpha
Helix 40	AE4	D	131	138	Right-handed 310
Helix 41	AE5	D	147	159	Right-handed alpha
Helix 42	AE6	D	161	165	Right-handed 310
Helix 43	AE7	D	174	186	Right-handed alpha
Helix 44	AE8	D	226	239	Right-handed alpha
Helix 45	AE9	D	256	264	Right-handed alpha
Helix 46	AF1	D	277	284	Right-handed alpha
Helix 47	AF2	D	292	304	Right-handed alpha
Helix 48	AF3	E	12	23	Right-handed alpha
Helix 49	AF4	E	62	80	Right-handed alpha
Helix 50	AF5	E	107	120	Right-handed alpha
Helix 51	AF6	E	131	138	Right-handed 310
Helix 52	AF7	E	147	159	Right-handed alpha
Helix 53	AF8	E	160	164	Right-handed 310
Helix 54	AF9	E	174	186	Right-handed alpha
Helix 55	AG1	E	226	239	Right-handed alpha
Helix 56	AG2	E	256	263	Right-handed alpha
Helix 57	AG3	E	277	284	Right-handed alpha
Helix 58	AG4	E	292	305	Right-handed alpha
Helix 59	AG5	E	308	314	Right-handed 310
Helix 60	AG6	F	12	23	Right-handed alpha
Helix 61	AG7	F	62	80	Right-handed alpha
Helix 62	AG8	F	107	120	Right-handed alpha
Helix 63	AG9	F	131	138	Right-handed 310
Helix 64	AH1	F	147	159	Right-handed alpha
Helix 65	AH2	F	160	163	Right-handed 310
Helix 66	AH3	F	171	173	Right-handed 310
Helix 67	AH4	F	174	186	Right-handed alpha
Helix 68	AH5	F	226	239	Right-handed alpha
Helix 69	AH6	F	256	264	Right-handed alpha
Helix 70	AH7	F	277	283	Right-handed alpha
Helix 71	AH8	F	292	304	Right-handed alpha
Helix 72	AH9	F	305	307	Right-handed 310
Helix 73	AI1	F	308	314	Right-handed 310

There are 19 sheets in PDB entry 8YPZ. 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	123	127	parallel
Strand 5	A	142	145	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	206	209	first strand
Strand 2	A	188	193	anti-parallel
Strand 3	A	166	169	parallel
Strand 4	A	216	222	parallel
Strand 5	A	244	250	parallel
Strand 6	A	268	272	parallel
Strand 7	A	287	290	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	88	parallel
Strand 4	B	123	127	parallel
Strand 5	B	142	145	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	206	208	first strand
Strand 2	B	188	193	anti-parallel
Strand 3	B	166	169	parallel
Strand 4	B	216	222	parallel
Strand 5	B	244	250	parallel
Strand 6	B	268	272	parallel
Strand 7	B	287	290	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	123	127	parallel
Strand 5	C	142	145	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	206	208	first strand
Strand 2	C	188	193	anti-parallel
Strand 3	C	165	169	parallel
Strand 4	C	215	222	parallel
Strand 5	C	243	250	parallel
Strand 6	C	266	272	parallel
Strand 7	C	287	290	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	123	127	parallel
Strand 5	D	142	145	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 3 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	168	169	first strand
Strand 2	D	190	193	parallel
Strand 3	D	206	208	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	D	215	223	first strand
Strand 2	D	243	251	parallel
Strand 3	D	266	272	parallel
Strand 4	D	287	290	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	123	127	parallel
Strand 5	E	142	145	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	206	209	first strand
Strand 2	E	188	193	anti-parallel
Strand 3	E	166	169	parallel
Strand 4	E	216	220	parallel
Strand 5	E	244	250	parallel
Strand 6	E	268	272	parallel
Strand 7	E	287	290	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	123	127	parallel
Strand 5	F	142	145	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	207	208	first strand
Strand 2	F	188	192	anti-parallel
Strand 3	F	165	169	parallel
Strand 4	F	215	222	parallel
Strand 5	F	244	250	parallel
Strand 6	F	266	272	parallel
Strand 7	F	287	290	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: 8YPZ

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