Analysis of interatomic Contacts of Structural Units in PDB entry:
1YBT

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 1YBT entry

There are 4 chains in PDB entry 1YBT (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 291	ASP 457
B	ALA 291	ARG 462
C	ALA 291	ARG 462
D	ALA 291	ASP 457

There are 18 helices in PDB entry 1YBT. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	305	336	Right-handed alpha
Helix 2	2	A	354	371	Right-handed alpha
Helix 3	3	A	398	411	Right-handed alpha
Helix 4	4	A	420	426	Right-handed alpha
Helix 5	5	B	305	314	Right-handed alpha
Helix 6	6	B	314	336	Right-handed alpha
Helix 7	7	B	354	371	Right-handed alpha
Helix 8	8	B	398	411	Right-handed alpha
Helix 9	9	B	420	426	Right-handed alpha
Helix 10	10	C	305	314	Right-handed alpha
Helix 11	11	C	314	336	Right-handed alpha
Helix 12	12	C	354	371	Right-handed alpha
Helix 13	13	C	398	411	Right-handed alpha
Helix 14	14	C	420	426	Right-handed alpha
Helix 15	15	D	305	336	Right-handed alpha
Helix 16	16	D	354	371	Right-handed alpha
Helix 17	17	D	398	411	Right-handed alpha
Helix 18	18	D	420	426	Right-handed alpha

There are 8 sheets in PDB entry 1YBT. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	339	340	first strand
Strand 2	A	348	352	anti-parallel
Strand 3	A	292	303	anti-parallel
Strand 4	A	376	389	anti-parallel
Strand 5	A	394	397	anti-parallel

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There are 7 strands in B sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	339	340	first strand
Strand 2	A	348	352	anti-parallel
Strand 3	A	292	303	anti-parallel
Strand 4	A	376	389	anti-parallel
Strand 5	A	416	419	parallel
Strand 6	A	448	453	anti-parallel
Strand 7	A	433	439	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	339	340	first strand
Strand 2	B	348	352	anti-parallel
Strand 3	B	292	303	anti-parallel
Strand 4	B	376	390	anti-parallel
Strand 5	B	393	397	anti-parallel

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There are 7 strands in D sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	339	340	first strand
Strand 2	B	348	352	anti-parallel
Strand 3	B	292	303	anti-parallel
Strand 4	B	376	390	anti-parallel
Strand 5	B	416	419	parallel
Strand 6	B	450	453	anti-parallel
Strand 7	B	433	435	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	338	340	first strand
Strand 2	C	348	352	anti-parallel
Strand 3	C	292	303	anti-parallel
Strand 4	C	376	390	anti-parallel
Strand 5	C	393	397	anti-parallel

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There are 7 strands in F sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	338	340	first strand
Strand 2	C	348	352	anti-parallel
Strand 3	C	292	303	anti-parallel
Strand 4	C	376	390	anti-parallel
Strand 5	C	416	419	parallel
Strand 6	C	450	453	anti-parallel
Strand 7	C	433	435	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	339	340	first strand
Strand 2	D	348	352	anti-parallel
Strand 3	D	292	303	anti-parallel
Strand 4	D	376	389	anti-parallel
Strand 5	D	394	397	anti-parallel

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There are 7 strands in H sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	339	340	first strand
Strand 2	D	348	352	anti-parallel
Strand 3	D	292	303	anti-parallel
Strand 4	D	376	389	anti-parallel
Strand 5	D	416	419	parallel
Strand 6	D	448	453	anti-parallel
Strand 7	D	433	439	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: 1YBT

Analysis of interatomic Contacts of Structural Units in PDB entry:
1YBT