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

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 8JYP entry

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

Chain ID	Initial residue	Terminal residue
A	ASN 331	LYS 529
D	SER 19	ALA 614

There are 33 helices in PDB entry 8JYP. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	367	371	Right-handed 310
Helix 2	AA2	A	403	410	Right-handed 310
Helix 3	AA3	A	416	422	Right-handed alpha
Helix 4	AA4	D	20	53	Right-handed alpha
Helix 5	AA5	D	55	80	Right-handed alpha
Helix 6	AA6	D	81	83	Right-handed 310
Helix 7	AA7	D	84	88	Right-handed 310
Helix 8	AA8	D	92	104	Right-handed alpha
Helix 9	AA9	D	109	130	Right-handed alpha
Helix 10	AB1	D	147	155	Right-handed alpha
Helix 11	AB2	D	157	194	Right-handed alpha
Helix 12	AB3	D	198	205	Right-handed alpha
Helix 13	AB4	D	206	208	Right-handed 310
Helix 14	AB5	D	220	233	Right-handed alpha
Helix 15	AB6	D	233	252	Right-handed alpha
Helix 16	AB7	D	275	279	Right-handed 310
Helix 17	AB8	D	293	300	Right-handed alpha
Helix 18	AB9	D	303	318	Right-handed alpha
Helix 19	AC1	D	324	331	Right-handed alpha
Helix 20	AC2	D	365	385	Right-handed alpha
Helix 21	AC3	D	389	393	Right-handed 310
Helix 22	AC4	D	399	413	Right-handed alpha
Helix 23	AC5	D	414	422	Right-handed alpha
Helix 24	AC6	D	431	447	Right-handed alpha
Helix 25	AC7	D	448	466	Right-handed alpha
Helix 26	AC8	D	469	471	Right-handed 310
Helix 27	AC9	D	472	482	Right-handed alpha
Helix 28	AD1	D	498	502	Right-handed 310
Helix 29	AD2	D	503	508	Right-handed alpha
Helix 30	AD3	D	513	533	Right-handed alpha
Helix 31	AD4	D	548	559	Right-handed alpha
Helix 32	AD5	D	565	572	Right-handed alpha
Helix 33	AD6	D	581	599	Right-handed alpha

There are 6 sheets in PDB entry 8JYP. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

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	354	358	first strand
Strand 2	A	394	402	anti-parallel
Strand 3	A	508	516	anti-parallel
Strand 4	A	431	437	anti-parallel
Strand 5	A	376	379	anti-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	452	454	first strand
Strand 2	A	492	494	anti-parallel

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There are 2 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	473	474	first strand
Strand 2	A	488	489	anti-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	D	131	132	first strand
Strand 2	D	142	143	anti-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	D	262	263	first strand
Strand 2	D	487	488	parallel

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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	347	350	first strand
Strand 2	D	356	359	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: 8JYP

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