Analysis of interatomic Contacts of Structural Units in PDB entry:
5YD0

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 5YD0 entry

There are 4 chains in PDB entry 5YD0 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER -1	ILE 351
B	SER -2	ILE 351
C	SER -1	ASP 350
D	HIS -3	ARG 315

There are 38 helices in PDB entry 5YD0. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	26	32	Right-handed alpha
Helix 2	AA2	A	34	54	Right-handed alpha
Helix 3	AA3	A	66	70	Right-handed 310
Helix 4	AA4	A	75	86	Right-handed alpha
Helix 5	AA5	A	90	93	Right-handed 310
Helix 6	AA6	A	143	159	Right-handed alpha
Helix 7	AA7	A	180	184	Right-handed alpha
Helix 8	AA8	A	186	191	Right-handed alpha
Helix 9	AA9	A	218	237	Right-handed alpha
Helix 10	AB1	A	262	276	Right-handed alpha
Helix 11	AB2	A	340	349	Right-handed alpha
Helix 12	AB3	B	26	32	Right-handed alpha
Helix 13	AB4	B	34	54	Right-handed alpha
Helix 14	AB5	B	66	70	Right-handed 310
Helix 15	AB6	B	75	86	Right-handed alpha
Helix 16	AB7	B	90	93	Right-handed 310
Helix 17	AB8	B	143	159	Right-handed alpha
Helix 18	AB9	B	185	191	Right-handed alpha
Helix 19	AC1	B	218	237	Right-handed alpha
Helix 20	AC2	B	262	276	Right-handed alpha
Helix 21	AC3	B	340	350	Right-handed alpha
Helix 22	AC4	C	26	31	Right-handed alpha
Helix 23	AC5	C	34	54	Right-handed alpha
Helix 24	AC6	C	75	86	Right-handed alpha
Helix 25	AC7	C	143	159	Right-handed alpha
Helix 26	AC8	C	185	191	Right-handed alpha
Helix 27	AC9	C	218	237	Right-handed alpha
Helix 28	AD1	C	262	276	Right-handed alpha
Helix 29	AD2	C	340	347	Right-handed alpha
Helix 30	AD3	D	26	32	Right-handed alpha
Helix 31	AD4	D	34	54	Right-handed alpha
Helix 32	AD5	D	75	86	Right-handed alpha
Helix 33	AD6	D	90	93	Right-handed 310
Helix 34	AD7	D	143	158	Right-handed alpha
Helix 35	AD8	D	186	191	Right-handed alpha
Helix 36	AD9	D	218	237	Right-handed alpha
Helix 37	AE1	D	262	276	Right-handed alpha
Helix 38	AE2	D	340	350	Right-handed alpha

There are 19 sheets in PDB entry 5YD0. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7, AB8, AB9, AC1,

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	17	23	first strand
Strand 2	A	58	64	parallel
Strand 3	A	103	108	anti-parallel
Strand 4	A	95	100	anti-parallel

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There are 5 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	194	196	first strand
Strand 2	A	291	299	parallel
Strand 3	A	304	313	anti-parallel
Strand 4	A	240	244	anti-parallel
Strand 5	A	209	212	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	A	194	196	first strand
Strand 2	A	291	299	parallel
Strand 3	A	304	313	anti-parallel
Strand 4	A	256	257	anti-parallel

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There are 2 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	279	280	first strand
Strand 2	A	319	320	anti-parallel

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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	328	331	first strand
Strand 2	A	335	338	anti-parallel

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There are 4 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	17	23	first strand
Strand 2	B	58	64	parallel
Strand 3	B	103	108	anti-parallel
Strand 4	B	95	100	anti-parallel

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There are 5 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	195	196	first strand
Strand 2	B	291	299	parallel
Strand 3	B	304	313	anti-parallel
Strand 4	B	240	244	anti-parallel
Strand 5	B	209	212	parallel

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There are 4 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	195	196	first strand
Strand 2	B	291	299	parallel
Strand 3	B	304	313	anti-parallel
Strand 4	B	256	257	anti-parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	279	280	first strand
Strand 2	B	319	320	anti-parallel

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There are 2 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	328	331	first strand
Strand 2	B	335	338	anti-parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	17	23	first strand
Strand 2	C	58	64	parallel
Strand 3	C	103	108	anti-parallel
Strand 4	C	95	100	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	209	212	first strand
Strand 2	C	240	244	parallel
Strand 3	C	308	313	anti-parallel
Strand 4	C	291	296	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	279	280	first strand
Strand 2	C	319	320	anti-parallel

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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	328	331	first strand
Strand 2	C	335	338	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	17	23	first strand
Strand 2	D	58	64	parallel
Strand 3	D	103	108	anti-parallel
Strand 4	D	95	100	anti-parallel

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There are 5 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	194	196	first strand
Strand 2	D	291	299	parallel
Strand 3	D	306	313	anti-parallel
Strand 4	D	240	244	anti-parallel
Strand 5	D	209	212	parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	194	196	first strand
Strand 2	D	291	299	parallel
Strand 3	D	306	313	anti-parallel
Strand 4	D	256	257	anti-parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	279	280	first strand
Strand 2	D	319	320	anti-parallel

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There are 2 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	328	331	first strand
Strand 2	D	335	338	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: 5YD0

Analysis of interatomic Contacts of Structural Units in PDB entry:
5YD0