Analysis of interatomic Contacts of Structural Units in PDB entry:
4YPA

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 4YPA entry

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

Chain ID	Initial residue	Terminal residue
A	GLY 2063	GLY 2280
B	TYR 2069	GLY 2280
C	GLY 2063	ILE 2279
D	TYR 2069	ILE 2279

There are 20 helices in PDB entry 4YPA. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	2108	2113	Right-handed alpha
Helix 2	AA2	A	2124	2128	Right-handed 310
Helix 3	AA3	A	2176	2186	Right-handed alpha
Helix 4	AA4	A	2211	2216	Right-handed 310
Helix 5	AA5	A	2254	2259	Right-handed alpha
Helix 6	AA6	B	2110	2114	Right-handed 310
Helix 7	AA7	B	2124	2128	Right-handed 310
Helix 8	AA8	B	2177	2186	Right-handed alpha
Helix 9	AA9	B	2211	2216	Right-handed 310
Helix 10	AB1	B	2254	2258	Right-handed 310
Helix 11	AB2	C	2110	2114	Right-handed 310
Helix 12	AB3	C	2124	2128	Right-handed 310
Helix 13	AB4	C	2176	2186	Right-handed alpha
Helix 14	AB5	C	2211	2216	Right-handed 310
Helix 15	AB6	C	2254	2259	Right-handed alpha
Helix 16	AB7	D	2110	2114	Right-handed 310
Helix 17	AB8	D	2124	2128	Right-handed 310
Helix 18	AB9	D	2177	2186	Right-handed alpha
Helix 19	AC1	D	2211	2216	Right-handed 310
Helix 20	AC2	D	2254	2259	Right-handed 310

There are 24 sheets in PDB entry 4YPA. 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, AC2, AC3, AC4, AC5, AC6,

There are 2 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	2070	2071	first strand
Strand 2	A	2209	2210	parallel

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There are 4 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	2076	2077	first strand
Strand 2	A	2172	2175	parallel
Strand 3	A	2202	2205	anti-parallel
Strand 4	A	2195	2199	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	A	2142	2146	first strand
Strand 2	A	2152	2156	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	A	2165	2168	first strand
Strand 2	A	2234	2241	anti-parallel
Strand 3	A	2224	2231	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	2217	2218	first strand
Strand 2	A	2252	2253	parallel

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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	2266	2267	first strand
Strand 2	A	2278	2279	anti-parallel

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There are 2 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	2070	2071	first strand
Strand 2	B	2209	2210	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	2076	2077	first strand
Strand 2	B	2172	2175	parallel
Strand 3	B	2202	2205	anti-parallel
Strand 4	B	2195	2197	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	2142	2146	first strand
Strand 2	B	2152	2156	anti-parallel

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There are 3 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	2165	2168	first strand
Strand 2	B	2234	2241	anti-parallel
Strand 3	B	2224	2231	anti-parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	2217	2218	first strand
Strand 2	B	2252	2253	parallel

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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	2266	2267	first strand
Strand 2	B	2278	2279	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	2070	2071	first strand
Strand 2	C	2209	2210	parallel

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There are 4 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	2076	2077	first strand
Strand 2	C	2172	2175	parallel
Strand 3	C	2202	2205	anti-parallel
Strand 4	C	2195	2199	anti-parallel

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There are 2 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	2142	2146	first strand
Strand 2	C	2152	2156	anti-parallel

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There are 3 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	2165	2168	first strand
Strand 2	C	2234	2241	anti-parallel
Strand 3	C	2224	2231	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	2217	2218	first strand
Strand 2	C	2252	2253	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	C	2266	2267	first strand
Strand 2	C	2278	2279	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	2070	2071	first strand
Strand 2	D	2209	2210	parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	2076	2077	first strand
Strand 2	D	2172	2175	parallel
Strand 3	D	2202	2205	anti-parallel
Strand 4	D	2195	2197	anti-parallel

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There are 2 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	2142	2146	first strand
Strand 2	D	2152	2156	anti-parallel

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There are 3 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	2165	2168	first strand
Strand 2	D	2234	2241	anti-parallel
Strand 3	D	2224	2231	anti-parallel

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There are 2 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	2217	2218	first strand
Strand 2	D	2252	2253	parallel

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There are 2 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	2266	2267	first strand
Strand 2	D	2278	2279	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: 4YPA

Analysis of interatomic Contacts of Structural Units in PDB entry:
4YPA