Analysis of interatomic Contacts of Structural Units in PDB entry:
8YJ3

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 8YJ3 entry

There are 8 chains in PDB entry 8YJ3 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
E	GLU 1	ASP 246
D	ALA 1	PRO 203
A	GLU 1	ASP 246
B	ALA 1	PRO 203
C	GLU 1	ASP 246
F	ALA 1	PRO 203
G	GLU 1	ASP 246
H	ALA 1	PRO 203

There are 24 helices in PDB entry 8YJ3. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	E	82	86	Right-handed 310
Helix 2	AA2	E	133	141	Right-handed alpha
Helix 3	AA3	E	200	204	Right-handed alpha
Helix 4	AA4	D	82	86	Right-handed 310
Helix 5	AA5	D	165	168	Right-handed 310
Helix 6	AA6	D	184	189	Right-handed alpha
Helix 7	AA7	A	82	86	Right-handed 310
Helix 8	AA8	A	133	141	Right-handed alpha
Helix 9	AA9	A	200	204	Right-handed alpha
Helix 10	AB1	B	82	86	Right-handed 310
Helix 11	AB2	B	165	168	Right-handed 310
Helix 12	AB3	B	184	189	Right-handed alpha
Helix 13	AB4	C	82	86	Right-handed 310
Helix 14	AB5	C	133	141	Right-handed alpha
Helix 15	AB6	C	200	204	Right-handed alpha
Helix 16	AB7	F	82	86	Right-handed 310
Helix 17	AB8	F	165	168	Right-handed 310
Helix 18	AB9	F	184	189	Right-handed alpha
Helix 19	AC1	G	82	86	Right-handed 310
Helix 20	AC2	G	133	141	Right-handed alpha
Helix 21	AC3	G	200	204	Right-handed alpha
Helix 22	AC4	H	82	86	Right-handed 310
Helix 23	AC5	H	165	168	Right-handed 310
Helix 24	AC6	H	184	189	Right-handed alpha

There are 48 sheets in PDB entry 8YJ3. 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, AC7, AC8, AC9, AD1, AD2, AD3, AD4, AD5, AD6, AD7, AD8, AD9, AE1, AE2, AE3, AE4, AE5, AE6, AE7, AE8, AE9, AF1, AF2, AF3,

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	E	4	7	first strand
Strand 2	E	19	25	anti-parallel
Strand 3	E	76	78	anti-parallel
Strand 4	E	64	66	anti-parallel

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There are 6 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	10	14	first strand
Strand 2	E	111	116	parallel
Strand 3	E	87	94	anti-parallel
Strand 4	E	31	37	anti-parallel
Strand 5	E	43	51	anti-parallel
Strand 6	E	54	57	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	E	10	14	first strand
Strand 2	E	111	116	parallel
Strand 3	E	87	94	anti-parallel
Strand 4	E	105	107	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	E	126	130	first strand
Strand 2	E	142	152	anti-parallel
Strand 3	E	190	199	anti-parallel
Strand 4	E	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	E	126	130	first strand
Strand 2	E	142	152	anti-parallel
Strand 3	E	190	199	anti-parallel
Strand 4	E	179	180	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	E	166	168	first strand
Strand 2	E	157	163	anti-parallel
Strand 3	E	209	216	anti-parallel
Strand 4	E	235	242	anti-parallel

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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	3	5	first strand
Strand 2	D	24	26	anti-parallel

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There are 5 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	10	14	first strand
Strand 2	D	106	111	parallel
Strand 3	D	87	94	anti-parallel
Strand 4	D	33	39	anti-parallel
Strand 5	D	45	52	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	D	10	14	first strand
Strand 2	D	106	111	parallel
Strand 3	D	87	94	anti-parallel
Strand 4	D	100	102	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	D	19	21	first strand
Strand 2	D	73	78	anti-parallel
Strand 3	D	63	68	anti-parallel
Strand 4	D	59	60	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	D	120	125	first strand
Strand 2	D	133	138	anti-parallel
Strand 3	D	169	178	anti-parallel
Strand 4	D	154	156	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	D	120	125	first strand
Strand 2	D	133	138	anti-parallel
Strand 3	D	169	178	anti-parallel
Strand 4	D	160	164	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	A	5	7	first strand
Strand 2	A	19	24	anti-parallel
Strand 3	A	76	78	anti-parallel
Strand 4	A	64	66	anti-parallel

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There are 6 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	10	14	first strand
Strand 2	A	111	116	parallel
Strand 3	A	87	94	anti-parallel
Strand 4	A	31	37	anti-parallel
Strand 5	A	43	51	anti-parallel
Strand 6	A	54	57	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	A	10	14	first strand
Strand 2	A	111	116	parallel
Strand 3	A	87	94	anti-parallel
Strand 4	A	106	107	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	A	126	130	first strand
Strand 2	A	142	152	anti-parallel
Strand 3	A	190	199	anti-parallel
Strand 4	A	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	A	126	130	first strand
Strand 2	A	142	152	anti-parallel
Strand 3	A	190	199	anti-parallel
Strand 4	A	179	180	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	A	166	167	first strand
Strand 2	A	157	163	anti-parallel
Strand 3	A	209	216	anti-parallel
Strand 4	A	235	242	anti-parallel

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There are 2 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	3	5	first strand
Strand 2	B	24	26	anti-parallel

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There are 5 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	10	14	first strand
Strand 2	B	106	111	parallel
Strand 3	B	87	94	anti-parallel
Strand 4	B	33	39	anti-parallel
Strand 5	B	45	52	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	B	10	14	first strand
Strand 2	B	106	111	parallel
Strand 3	B	87	94	anti-parallel
Strand 4	B	100	102	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	B	19	21	first strand
Strand 2	B	73	78	anti-parallel
Strand 3	B	63	68	anti-parallel
Strand 4	B	59	60	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	B	120	125	first strand
Strand 2	B	133	138	anti-parallel
Strand 3	B	169	178	anti-parallel
Strand 4	B	154	156	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	B	120	125	first strand
Strand 2	B	133	138	anti-parallel
Strand 3	B	169	178	anti-parallel
Strand 4	B	160	164	anti-parallel

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There are 4 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	5	7	first strand
Strand 2	C	19	24	anti-parallel
Strand 3	C	76	78	anti-parallel
Strand 4	C	65	66	anti-parallel

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There are 6 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	10	14	first strand
Strand 2	C	111	116	parallel
Strand 3	C	87	94	anti-parallel
Strand 4	C	31	37	anti-parallel
Strand 5	C	43	49	anti-parallel
Strand 6	C	56	57	anti-parallel

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There are 4 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	10	14	first strand
Strand 2	C	111	116	parallel
Strand 3	C	87	94	anti-parallel
Strand 4	C	105	107	anti-parallel

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There are 4 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	126	130	first strand
Strand 2	C	142	152	anti-parallel
Strand 3	C	190	199	anti-parallel
Strand 4	C	172	174	anti-parallel

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There are 4 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	126	130	first strand
Strand 2	C	142	152	anti-parallel
Strand 3	C	190	199	anti-parallel
Strand 4	C	179	180	anti-parallel

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There are 4 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	166	168	first strand
Strand 2	C	157	163	anti-parallel
Strand 3	C	209	216	anti-parallel
Strand 4	C	235	242	anti-parallel

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There are 2 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	3	5	first strand
Strand 2	F	24	26	anti-parallel

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There are 5 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	10	14	first strand
Strand 2	F	106	111	parallel
Strand 3	F	87	94	anti-parallel
Strand 4	F	33	39	anti-parallel
Strand 5	F	45	52	anti-parallel

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There are 4 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	10	14	first strand
Strand 2	F	106	111	parallel
Strand 3	F	87	94	anti-parallel
Strand 4	F	100	102	anti-parallel

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There are 4 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	19	21	first strand
Strand 2	F	73	78	anti-parallel
Strand 3	F	63	68	anti-parallel
Strand 4	F	59	60	anti-parallel

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There are 4 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	120	125	first strand
Strand 2	F	133	138	anti-parallel
Strand 3	F	169	178	anti-parallel
Strand 4	F	154	156	anti-parallel

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There are 4 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	120	125	first strand
Strand 2	F	133	138	anti-parallel
Strand 3	F	169	178	anti-parallel
Strand 4	F	160	164	anti-parallel

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There are 4 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	4	7	first strand
Strand 2	G	19	25	anti-parallel
Strand 3	G	76	78	anti-parallel
Strand 4	G	65	66	anti-parallel

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There are 6 strands in AE2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	10	14	first strand
Strand 2	G	111	116	parallel
Strand 3	G	87	94	anti-parallel
Strand 4	G	31	37	anti-parallel
Strand 5	G	43	51	anti-parallel
Strand 6	G	54	57	anti-parallel

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There are 4 strands in AE3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	10	14	first strand
Strand 2	G	111	116	parallel
Strand 3	G	87	94	anti-parallel
Strand 4	G	105	107	anti-parallel

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There are 4 strands in AE4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	126	130	first strand
Strand 2	G	142	152	anti-parallel
Strand 3	G	190	199	anti-parallel
Strand 4	G	172	174	anti-parallel

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There are 4 strands in AE5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	126	130	first strand
Strand 2	G	142	152	anti-parallel
Strand 3	G	190	199	anti-parallel
Strand 4	G	179	180	anti-parallel

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There are 4 strands in AE6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	166	167	first strand
Strand 2	G	157	163	anti-parallel
Strand 3	G	209	216	anti-parallel
Strand 4	G	235	242	anti-parallel

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There are 2 strands in AE7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	3	5	first strand
Strand 2	H	24	26	anti-parallel

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There are 5 strands in AE8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	10	14	first strand
Strand 2	H	106	111	parallel
Strand 3	H	87	94	anti-parallel
Strand 4	H	33	39	anti-parallel
Strand 5	H	45	52	anti-parallel

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There are 4 strands in AE9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	10	14	first strand
Strand 2	H	106	111	parallel
Strand 3	H	87	94	anti-parallel
Strand 4	H	100	102	anti-parallel

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There are 4 strands in AF1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	19	21	first strand
Strand 2	H	73	78	anti-parallel
Strand 3	H	63	68	anti-parallel
Strand 4	H	59	60	anti-parallel

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There are 4 strands in AF2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	120	125	first strand
Strand 2	H	133	138	anti-parallel
Strand 3	H	169	178	anti-parallel
Strand 4	H	154	156	anti-parallel

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There are 4 strands in AF3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	120	125	first strand
Strand 2	H	133	138	anti-parallel
Strand 3	H	169	178	anti-parallel
Strand 4	H	160	164	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: 8YJ3

Analysis of interatomic Contacts of Structural Units in PDB entry:
8YJ3