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

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 1LYB entry

There are 8 chains in PDB entry 1LYB (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 1	GLN 97
B	GLY 106	ALA 346
I	VAL 2	VAL 3
I	ALA 5	ALA 5
C	GLY 1	GLN 97
D	GLY 106	ALA 346
J	VAL 2	VAL 3
J	ALA 5	ALA 5

There are 14 helices in PDB entry 1LYB. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	A11	A	47	55	Right-handed alpha
Helix 2	A21	B	124	129	Right-handed alpha
Helix 3	A31	B	149	159	Right-handed alpha
Helix 4	A41	B	240	252	Right-handed alpha
Helix 5	A51	B	264	271	Right-handed alpha
Helix 6	A61	B	286	291	Right-handed alpha
Helix 7	A71	B	322	327	Right-handed alpha
Helix 8	A12	C	47	55	Right-handed alpha
Helix 9	A22	D	124	129	Right-handed alpha
Helix 10	A32	D	149	159	Right-handed alpha
Helix 11	A42	D	240	252	Right-handed alpha
Helix 12	A52	D	264	271	Right-handed alpha
Helix 13	A62	D	286	291	Right-handed alpha
Helix 14	A72	D	322	327	Right-handed alpha

There are 12 sheets in PDB entry 1LYB. Click on sheet of interest to get list of strands forming it: I1, II1, 1A1, 1B1, 2A1, 2B1, I2, II2, 1A2, 1B2, 2A2, 2B2,

There are 6 strands in I1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	3	7	first strand
Strand 2	B	178	184	anti-parallel
Strand 3	B	164	170	anti-parallel
Strand 4	B	330	334	anti-parallel
Strand 5	B	337	346	anti-parallel
Strand 6	B	190	200	anti-parallel

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There are 4 strands in II1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	254	256	first strand
Strand 2	B	260	263	anti-parallel
Strand 3	B	301	304	anti-parallel
Strand 4	B	296	298	anti-parallel

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There are 9 strands in 1A1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	68	78	first strand
Strand 2	A	81	90	anti-parallel
Strand 3	B	113	120	anti-parallel
Strand 4	A	38	43	parallel
Strand 5	B	131	137	anti-parallel
Strand 6	A	26	33	parallel
Strand 7	A	14	22	anti-parallel
Strand 8	A	8	10	anti-parallel
Strand 9	B	110	112	anti-parallel

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There are 9 strands in 1B1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	68	78	first strand
Strand 2	A	81	90	anti-parallel
Strand 3	B	113	120	anti-parallel
Strand 4	A	38	43	parallel
Strand 5	B	131	137	anti-parallel
Strand 6	A	26	33	parallel
Strand 7	A	14	22	anti-parallel
Strand 8	A	91	96	anti-parallel
Strand 9	B	110	112	anti-parallel

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There are 7 strands in 2A1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	281	285	first strand
Strand 2	B	273	278	anti-parallel
Strand 3	B	206	216	anti-parallel
Strand 4	B	219	221	anti-parallel
Strand 5	B	219	223	parallel
Strand 6	B	234	239	anti-parallel
Strand 7	B	305	309	parallel

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There are 7 strands in 2B1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	281	285	first strand
Strand 2	B	273	278	anti-parallel
Strand 3	B	206	216	anti-parallel
Strand 4	B	226	231	anti-parallel
Strand 5	B	219	223	parallel
Strand 6	B	234	239	anti-parallel
Strand 7	B	305	309	parallel

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There are 6 strands in I2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	3	7	first strand
Strand 2	D	178	184	anti-parallel
Strand 3	D	164	170	anti-parallel
Strand 4	D	330	334	anti-parallel
Strand 5	D	337	346	anti-parallel
Strand 6	D	190	200	anti-parallel

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There are 4 strands in II2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	254	256	first strand
Strand 2	D	260	263	anti-parallel
Strand 3	D	301	304	anti-parallel
Strand 4	D	296	298	anti-parallel

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There are 9 strands in 1A2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	68	78	first strand
Strand 2	C	81	90	anti-parallel
Strand 3	D	113	120	anti-parallel
Strand 4	C	38	43	parallel
Strand 5	D	131	137	anti-parallel
Strand 6	C	26	33	parallel
Strand 7	C	14	22	anti-parallel
Strand 8	C	8	10	anti-parallel
Strand 9	D	110	112	anti-parallel

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There are 9 strands in 1B2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	68	78	first strand
Strand 2	C	81	90	anti-parallel
Strand 3	D	113	120	anti-parallel
Strand 4	C	38	43	parallel
Strand 5	D	131	137	anti-parallel
Strand 6	C	26	33	parallel
Strand 7	C	14	22	anti-parallel
Strand 8	C	91	96	anti-parallel
Strand 9	D	110	112	anti-parallel

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There are 7 strands in 2A2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	281	285	first strand
Strand 2	D	273	278	anti-parallel
Strand 3	D	206	216	anti-parallel
Strand 4	D	219	221	anti-parallel
Strand 5	D	219	223	parallel
Strand 6	D	234	239	anti-parallel
Strand 7	D	305	309	parallel

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There are 7 strands in 2B2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	281	285	first strand
Strand 2	D	273	278	anti-parallel
Strand 3	D	206	216	anti-parallel
Strand 4	D	226	231	anti-parallel
Strand 5	D	219	223	parallel
Strand 6	D	234	239	anti-parallel
Strand 7	D	305	309	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: 1LYB

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