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

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 5YSJ entry

There are 4 chains in PDB entry 5YSJ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LYS 759	PRO 901
B	LYS 759	PHE 903
C	ALA 758	PHE 903
D	LYS 759	ASP 902

There are 17 helices in PDB entry 5YSJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	771	788	Right-handed alpha
Helix 2	AA2	A	788	797	Right-handed alpha
Helix 3	AA3	A	798	809	Right-handed alpha
Helix 4	AA4	A	824	832	Right-handed alpha
Helix 5	AA5	B	771	788	Right-handed alpha
Helix 6	AA6	B	788	795	Right-handed alpha
Helix 7	AA7	B	798	809	Right-handed alpha
Helix 8	AA8	B	824	832	Right-handed alpha
Helix 9	AA9	C	771	788	Right-handed alpha
Helix 10	AB1	C	788	795	Right-handed alpha
Helix 11	AB2	C	798	809	Right-handed alpha
Helix 12	AB3	C	824	832	Right-handed alpha
Helix 13	AB4	D	771	788	Right-handed alpha
Helix 14	AB5	D	788	795	Right-handed alpha
Helix 15	AB6	D	798	809	Right-handed alpha
Helix 16	AB7	D	824	832	Right-handed alpha
Helix 17	AB8	D	854	858	Right-handed 310

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

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	A	763	768	first strand
Strand 2	A	836	841	anti-parallel
Strand 3	A	889	899	parallel
Strand 4	A	871	883	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	819	822	first strand
Strand 2	A	862	865	anti-parallel
Strand 3	A	850	851	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	B	763	768	first strand
Strand 2	B	836	841	anti-parallel
Strand 3	B	889	899	parallel
Strand 4	B	871	883	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	B	819	822	first strand
Strand 2	B	862	866	anti-parallel
Strand 3	B	848	851	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	C	763	768	first strand
Strand 2	C	836	841	anti-parallel
Strand 3	C	889	899	parallel
Strand 4	C	871	883	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	C	819	822	first strand
Strand 2	C	862	865	anti-parallel
Strand 3	C	850	851	anti-parallel

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There are 4 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	763	768	first strand
Strand 2	D	836	841	anti-parallel
Strand 3	D	889	899	parallel
Strand 4	D	871	883	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	D	819	822	first strand
Strand 2	D	862	865	anti-parallel
Strand 3	D	850	851	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: 5YSJ

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