Analysis of interatomic Contacts of Structural Units in PDB entry:
8Y8J

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 8Y8J entry

There are 2 chains in PDB entry 8Y8J (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	VAL 14	SER 284
B	ALA 315	ILE 669

There are 10 helices in PDB entry 8Y8J. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	86	90	Right-handed 310
Helix 2	AA2	B	328	334	Right-handed alpha
Helix 3	AA3	B	355	363	Right-handed alpha
Helix 4	AA4	B	374	379	Right-handed alpha
Helix 5	AA5	B	408	412	Right-handed 310
Helix 6	AA6	B	442	448	Right-handed alpha
Helix 7	AA7	B	478	485	Right-handed alpha
Helix 8	AA8	B	529	533	Right-handed 310
Helix 9	AA9	B	553	556	Right-handed 310
Helix 10	AB1	B	568	570	Right-handed 310

There are 13 sheets in PDB entry 8Y8J. 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	59	68	first strand
Strand 2	A	256	270	anti-parallel
Strand 3	A	101	107	anti-parallel
Strand 4	A	197	205	anti-parallel
Strand 5	A	208	214	anti-parallel
Strand 6	A	221	227	anti-parallel

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There are 3 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	75	76	first strand
Strand 2	A	256	270	anti-parallel
Strand 3	A	276	281	anti-parallel

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There are 3 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	80	81	first strand
Strand 2	A	240	241	parallel
Strand 3	A	161	162	parallel

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There are 2 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	109	113	first strand
Strand 2	A	116	120	anti-parallel

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There are 5 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	185	190	first strand
Strand 2	A	145	151	anti-parallel
Strand 3	A	136	142	anti-parallel
Strand 4	A	123	127	anti-parallel
Strand 5	A	234	238	anti-parallel

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There are 3 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	316	319	first strand
Strand 2	B	621	624	parallel
Strand 3	B	627	630	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	B	337	338	first strand
Strand 2	B	435	436	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	B	348	349	first strand
Strand 2	B	385	392	anti-parallel
Strand 3	B	585	595	anti-parallel
Strand 4	B	422	430	anti-parallel
Strand 5	B	364	371	anti-parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	382	383	first strand
Strand 2	B	602	603	anti-parallel

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There are 2 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	459	463	first strand
Strand 2	B	575	579	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	B	467	468	first strand
Strand 2	B	536	537	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	B	550	551	first strand
Strand 2	B	572	573	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	B	634	635	first strand
Strand 2	B	666	668	anti-parallel
Strand 3	B	655	659	anti-parallel
Strand 4	B	648	649	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: 8Y8J

Analysis of interatomic Contacts of Structural Units in PDB entry:
8Y8J