Analysis of interatomic Contacts of Structural Units in PDB entry:
2Y8R

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 2Y8R entry

There are 4 chains in PDB entry 2Y8R (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 68	CYS 479
B	GLY 69	CYS 479
D	GLY 69	CYS 479
E	GLY 69	GLU 478

There are 44 helices in PDB entry 2Y8R. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	75	83	Right-handed alpha
Helix 2	2	A	84	86	Right-handed 310
Helix 3	3	A	144	152	Right-handed alpha
Helix 4	4	A	176	181	Right-handed alpha
Helix 5	5	A	189	201	Right-handed alpha
Helix 6	6	A	272	277	Right-handed 310
Helix 7	7	A	281	286	Right-handed alpha
Helix 8	8	A	308	310	Right-handed 310
Helix 9	9	A	320	331	Right-handed alpha
Helix 10	10	A	414	418	Right-handed 310
Helix 11	11	A	472	477	Right-handed alpha
Helix 12	12	B	75	83	Right-handed alpha
Helix 13	13	B	84	86	Right-handed 310
Helix 14	14	B	144	152	Right-handed alpha
Helix 15	15	B	176	181	Right-handed alpha
Helix 16	16	B	189	201	Right-handed alpha
Helix 17	17	B	272	277	Right-handed 310
Helix 18	18	B	281	286	Right-handed alpha
Helix 19	19	B	308	310	Right-handed 310
Helix 20	20	B	320	331	Right-handed alpha
Helix 21	21	B	414	418	Right-handed 310
Helix 22	22	B	436	440	Right-handed 310
Helix 23	23	D	70	74	Right-handed 310
Helix 24	24	D	75	83	Right-handed alpha
Helix 25	25	D	144	152	Right-handed alpha
Helix 26	26	D	176	181	Right-handed alpha
Helix 27	27	D	189	200	Right-handed alpha
Helix 28	28	D	272	277	Right-handed 310
Helix 29	29	D	281	286	Right-handed alpha
Helix 30	30	D	308	310	Right-handed 310
Helix 31	31	D	320	331	Right-handed alpha
Helix 32	32	D	414	418	Right-handed 310
Helix 33	33	D	472	477	Right-handed alpha
Helix 34	34	E	70	75	Right-handed alpha
Helix 35	35	E	75	83	Right-handed alpha
Helix 36	36	E	84	86	Right-handed 310
Helix 37	37	E	144	152	Right-handed alpha
Helix 38	38	E	176	180	Right-handed alpha
Helix 39	39	E	189	200	Right-handed alpha
Helix 40	40	E	272	277	Right-handed 310
Helix 41	41	E	281	286	Right-handed alpha
Helix 42	42	E	320	331	Right-handed alpha
Helix 43	43	E	414	418	Right-handed 310
Helix 44	44	E	474	478	Right-handed 310

There are 21 sheets in PDB entry 2Y8R. Click on sheet of interest to get list of strands forming it: AA, AB, AC, AD, AE, AF, BA, BB, BC, BD, BE, A, DB, C, DD, DE, EA, EB, EC, ED, EE,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	101	105	first strand
Strand 2	A	108	112	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	119	120	first strand
Strand 2	A	268	271	anti-parallel
Strand 3	A	217	220	anti-parallel
Strand 4	A	225	228	anti-parallel
Strand 5	A	174	175	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	123	126	first strand
Strand 2	A	256	259	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	242	243	first strand
Strand 2	A	253	254	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	303	306	first strand
Strand 2	A	291	300	anti-parallel
Strand 3	A	393	404	anti-parallel
Strand 4	A	371	376	anti-parallel
Strand 5	A	382	387	anti-parallel
Strand 6	A	314	317	anti-parallel

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There are 3 strands in AF sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	443	444	first strand
Strand 2	A	453	460	anti-parallel
Strand 3	A	463	470	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	101	105	first strand
Strand 2	B	108	112	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	119	120	first strand
Strand 2	B	268	271	anti-parallel
Strand 3	B	217	220	anti-parallel
Strand 4	B	225	228	anti-parallel
Strand 5	B	174	175	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	123	126	first strand
Strand 2	B	256	259	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	303	306	first strand
Strand 2	B	291	300	anti-parallel
Strand 3	B	393	404	anti-parallel
Strand 4	B	371	376	anti-parallel
Strand 5	B	382	387	anti-parallel
Strand 6	B	314	317	anti-parallel

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There are 3 strands in BE sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	443	444	first strand
Strand 2	B	453	460	anti-parallel
Strand 3	B	463	470	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	101	105	first strand
Strand 2	D	108	112	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	119	120	first strand
Strand 2	D	268	271	anti-parallel
Strand 3	D	217	220	anti-parallel
Strand 4	D	225	228	anti-parallel
Strand 5	D	174	175	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	123	127	first strand
Strand 2	D	255	259	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	303	306	first strand
Strand 2	D	291	300	anti-parallel
Strand 3	D	393	404	anti-parallel
Strand 4	D	371	376	anti-parallel
Strand 5	D	382	387	anti-parallel
Strand 6	D	314	317	anti-parallel

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There are 3 strands in DE sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	443	444	first strand
Strand 2	D	453	460	anti-parallel
Strand 3	D	463	470	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	101	105	first strand
Strand 2	E	108	112	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	119	120	first strand
Strand 2	E	268	271	anti-parallel
Strand 3	E	217	220	anti-parallel
Strand 4	E	225	228	anti-parallel
Strand 5	E	174	175	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	123	126	first strand
Strand 2	E	256	259	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	303	306	first strand
Strand 2	E	291	300	anti-parallel
Strand 3	E	393	404	anti-parallel
Strand 4	E	371	376	anti-parallel
Strand 5	E	382	387	anti-parallel
Strand 6	E	314	317	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	453	460	first strand
Strand 2	E	463	470	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: 2Y8R

Analysis of interatomic Contacts of Structural Units in PDB entry:
2Y8R