Analysis of interatomic Contacts of Structural Units in PDB entry:
8YY8

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 8YY8 entry

There are 5 chains in PDB entry 8YY8 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLN 12	LEU 394
B	LEU 4	ASN 340
C	THR 30	ARG 86
N	GLN 24	VAL 149
R	CYS 210	HIS 562

There are 29 helices in PDB entry 8YY8. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	13	38	Right-handed alpha
Helix 2	AA2	A	48	56	Right-handed 310
Helix 3	AA3	A	233	239	Right-handed 310
Helix 4	AA4	A	265	278	Right-handed alpha
Helix 5	AA5	A	279	283	Right-handed 310
Helix 6	AA6	A	293	304	Right-handed alpha
Helix 7	AA7	A	307	311	Right-handed 310
Helix 8	AA8	A	312	318	Right-handed 310
Helix 9	AA9	A	331	352	Right-handed alpha
Helix 10	AB1	A	371	390	Right-handed alpha
Helix 11	AB2	B	5	26	Right-handed alpha
Helix 12	AB3	B	29	34	Right-handed alpha
Helix 13	AB4	B	35	37	Right-handed 310
Helix 14	AB5	C	31	49	Right-handed alpha
Helix 15	AB6	C	53	68	Right-handed alpha
Helix 16	AB7	C	79	83	Right-handed 310
Helix 17	AB8	N	51	55	Right-handed 310
Helix 18	AB9	N	110	114	Right-handed 310
Helix 19	AC1	R	211	215	Right-handed 310
Helix 20	AC2	R	246	278	Right-handed alpha
Helix 21	AC3	R	286	308	Right-handed alpha
Helix 22	AC4	R	333	366	Right-handed alpha
Helix 23	AC5	R	374	376	Right-handed 310
Helix 24	AC6	R	377	400	Right-handed alpha
Helix 25	AC7	R	417	425	Right-handed alpha
Helix 26	AC8	R	425	457	Right-handed alpha
Helix 27	AC9	R	461	508	Right-handed alpha
Helix 28	AD1	R	527	544	Right-handed alpha
Helix 29	AD2	R	550	562	Right-handed alpha

There are 13 sheets in PDB entry 8YY8. 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	208	214	first strand
Strand 2	A	217	223	anti-parallel
Strand 3	A	40	46	parallel
Strand 4	A	243	249	parallel
Strand 5	A	286	292	parallel
Strand 6	A	359	363	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	47	52	first strand
Strand 2	B	335	339	anti-parallel
Strand 3	B	327	331	anti-parallel
Strand 4	B	315	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	165	170	anti-parallel
Strand 4	B	175	181	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	208	212	anti-parallel
Strand 4	B	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	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	307	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	N	26	30	first strand
Strand 2	N	40	48	anti-parallel
Strand 3	N	101	107	anti-parallel
Strand 4	N	91	96	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	N	33	34	first strand
Strand 2	N	145	148	parallel
Strand 3	N	115	121	anti-parallel
Strand 4	N	57	62	anti-parallel
Strand 5	N	68	74	anti-parallel
Strand 6	N	81	83	anti-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	R	223	224	first strand
Strand 2	R	227	228	anti-parallel

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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	315	316	first strand
Strand 2	R	326	327	anti-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	R	402	403	first strand
Strand 2	R	412	413	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: 8YY8

Analysis of interatomic Contacts of Structural Units in PDB entry:
8YY8