Analysis of interatomic Contacts of Structural Units in PDB entry:
5JY8

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 5JY8 entry

There are 2 chains in PDB entry 5JY8 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LEU 16	LEU 390
B	LEU 16	LEU 390

There are 18 helices in PDB entry 5JY8. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	51	67	Right-handed alpha
Helix 2	AA2	A	98	106	Right-handed alpha
Helix 3	AA3	A	125	141	Right-handed alpha
Helix 4	AA4	A	163	175	Right-handed alpha
Helix 5	AA5	A	221	235	Right-handed alpha
Helix 6	AA6	A	235	255	Right-handed alpha
Helix 7	AA7	A	290	299	Right-handed alpha
Helix 8	AA8	A	308	320	Right-handed alpha
Helix 9	AA9	A	369	388	Right-handed alpha
Helix 10	AB1	B	51	67	Right-handed alpha
Helix 11	AB2	B	98	105	Right-handed alpha
Helix 12	AB3	B	125	141	Right-handed alpha
Helix 13	AB4	B	163	175	Right-handed alpha
Helix 14	AB5	B	221	235	Right-handed alpha
Helix 15	AB6	B	235	255	Right-handed alpha
Helix 16	AB7	B	290	299	Right-handed alpha
Helix 17	AB8	B	308	320	Right-handed alpha
Helix 18	AB9	B	369	388	Right-handed alpha

There are 8 sheets in PDB entry 5JY8. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 9 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	93	96	first strand
Strand 2	A	30	33	anti-parallel
Strand 3	A	22	24	anti-parallel
Strand 4	A	179	184	anti-parallel
Strand 5	A	189	195	anti-parallel
Strand 6	A	348	352	anti-parallel
Strand 7	A	355	364	anti-parallel
Strand 8	A	147	158	anti-parallel
Strand 9	A	117	123	anti-parallel

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There are 9 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	93	96	first strand
Strand 2	A	30	33	anti-parallel
Strand 3	A	22	24	anti-parallel
Strand 4	A	179	184	anti-parallel
Strand 5	A	189	195	anti-parallel
Strand 6	A	348	352	anti-parallel
Strand 7	A	355	364	anti-parallel
Strand 8	A	147	158	anti-parallel
Strand 9	A	306	307	anti-parallel

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There are 9 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	37	39	first strand
Strand 2	A	87	90	anti-parallel
Strand 3	A	73	78	anti-parallel
Strand 4	A	330	335	anti-parallel
Strand 5	A	340	344	anti-parallel
Strand 6	A	198	203	anti-parallel
Strand 7	A	206	210	anti-parallel
Strand 8	A	281	285	anti-parallel
Strand 9	A	257	261	anti-parallel

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There are 3 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	212	217	first strand
Strand 2	A	274	278	anti-parallel
Strand 3	A	267	270	anti-parallel

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There are 9 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	93	96	first strand
Strand 2	B	30	33	anti-parallel
Strand 3	B	22	24	anti-parallel
Strand 4	B	179	184	anti-parallel
Strand 5	B	190	195	anti-parallel
Strand 6	B	348	352	anti-parallel
Strand 7	B	355	364	anti-parallel
Strand 8	B	148	158	anti-parallel
Strand 9	B	117	123	anti-parallel

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There are 6 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	37	39	first strand
Strand 2	B	87	90	anti-parallel
Strand 3	B	73	78	anti-parallel
Strand 4	B	330	335	anti-parallel
Strand 5	B	340	344	anti-parallel
Strand 6	B	198	202	anti-parallel

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There are 3 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	208	209	first strand
Strand 2	B	281	285	anti-parallel
Strand 3	B	257	261	anti-parallel

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There are 3 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	212	217	first strand
Strand 2	B	274	278	anti-parallel
Strand 3	B	267	270	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: 5JY8

Analysis of interatomic Contacts of Structural Units in PDB entry:
5JY8