Analysis of interatomic Contacts of Structural Units in PDB entry:
5YJ9

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 5YJ9 entry

There is 1 chain in PDB entry 5YJ9 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
D	LYS 166	ASP 570

There are 13 helices in PDB entry 5YJ9. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	D	207	217	Right-handed alpha
Helix 2	AA2	D	301	305	Right-handed alpha
Helix 3	AA3	D	310	331	Right-handed alpha
Helix 4	AA4	D	390	395	Right-handed alpha
Helix 5	AA5	D	408	422	Right-handed alpha
Helix 6	AA6	D	440	444	Right-handed 310
Helix 7	AA7	D	452	463	Right-handed alpha
Helix 8	AA8	D	466	470	Right-handed 310
Helix 9	AA9	D	472	486	Right-handed alpha
Helix 10	AB1	D	487	492	Right-handed 310
Helix 11	AB2	D	499	516	Right-handed alpha
Helix 12	AB3	D	536	549	Right-handed alpha
Helix 13	AB4	D	551	565	Right-handed alpha

There are 3 sheets in PDB entry 5YJ9. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3,

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	D	167	170	first strand
Strand 2	D	174	179	anti-parallel
Strand 3	D	193	199	anti-parallel
Strand 4	D	289	295	anti-parallel
Strand 5	D	253	257	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	D	299	300	first strand
Strand 2	D	343	346	anti-parallel
Strand 3	D	354	357	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	D	372	374	first strand
Strand 2	D	403	405	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: 5YJ9

Analysis of interatomic Contacts of Structural Units in PDB entry:
5YJ9