Analysis of interatomic Contacts of Structural Units in PDB entry:
9YCD

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 9YCD entry

There is 1 chain in PDB entry 9YCD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1338	SER 2525

There are 34 helices in PDB entry 9YCD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	1346	1355	Right-handed alpha
Helix 2	AA2	A	1404	1409	Right-handed 310
Helix 3	AA3	A	1424	1429	Right-handed alpha
Helix 4	AA4	A	1431	1441	Right-handed alpha
Helix 5	AA5	A	1465	1469	Right-handed 310
Helix 6	AA6	A	1496	1509	Right-handed alpha
Helix 7	AA7	A	1512	1516	Right-handed 310
Helix 8	AA8	A	1528	1537	Right-handed alpha
Helix 9	AA9	A	1538	1540	Right-handed 310
Helix 10	AB1	A	1549	1561	Right-handed alpha
Helix 11	AB2	A	1573	1578	Right-handed alpha
Helix 12	AB3	A	1599	1607	Right-handed alpha
Helix 13	AB4	A	1608	1613	Right-handed alpha
Helix 14	AB5	A	1703	1715	Right-handed alpha
Helix 15	AB6	A	1773	1785	Right-handed alpha
Helix 16	AB7	A	1792	1796	Right-handed 310
Helix 17	AB8	A	1856	1861	Right-handed alpha
Helix 18	AB9	A	1880	1882	Right-handed 310
Helix 19	AC1	A	1914	1921	Right-handed alpha
Helix 20	AC2	A	1955	1961	Right-handed alpha
Helix 21	AC3	A	1967	1988	Right-handed alpha
Helix 22	AC4	A	2051	2053	Right-handed 310
Helix 23	AC5	A	2054	2068	Right-handed alpha
Helix 24	AC6	A	2071	2079	Right-handed alpha
Helix 25	AC7	A	2094	2100	Right-handed alpha
Helix 26	AC8	A	2107	2114	Right-handed alpha
Helix 27	AC9	A	2124	2134	Right-handed alpha
Helix 28	AD1	A	2135	2140	Right-handed alpha
Helix 29	AD2	A	2278	2282	Right-handed 310
Helix 30	AD3	A	2337	2344	Right-handed 310
Helix 31	AD4	A	2346	2351	Right-handed alpha
Helix 32	AD5	A	2389	2396	Right-handed alpha
Helix 33	AD6	A	2504	2513	Right-handed alpha
Helix 34	AD7	A	2514	2521	Right-handed alpha

There are 13 sheets in PDB entry 9YCD. 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,

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	1415	1419	first strand
Strand 2	A	1447	1451	parallel

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There are 2 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	1547	1548	first strand
Strand 2	A	1596	1597	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	1690	1693	first strand
Strand 2	A	1765	1768	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	1696	1697	first strand
Strand 2	A	1761	1762	anti-parallel

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There are 5 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	1884	1886	first strand
Strand 2	A	1892	1898	anti-parallel
Strand 3	A	1901	1907	anti-parallel
Strand 4	A	1944	1948	anti-parallel
Strand 5	A	1935	1939	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	A	1953	1954	first strand
Strand 2	A	2000	2002	anti-parallel
Strand 3	A	2013	2015	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	A	2142	2145	first strand
Strand 2	A	2491	2497	anti-parallel
Strand 3	A	2468	2475	anti-parallel
Strand 4	A	2454	2462	anti-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	A	2155	2157	first strand
Strand 2	A	2166	2169	anti-parallel
Strand 3	A	2177	2183	anti-parallel
Strand 4	A	2188	2195	anti-parallel

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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	2199	2207	first strand
Strand 2	A	2212	2219	anti-parallel
Strand 3	A	2224	2228	anti-parallel
Strand 4	A	2235	2237	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	2245	2249	first strand
Strand 2	A	2262	2267	anti-parallel
Strand 3	A	2271	2276	anti-parallel
Strand 4	A	2289	2292	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	A	2300	2305	first strand
Strand 2	A	2315	2319	anti-parallel
Strand 3	A	2322	2326	anti-parallel
Strand 4	A	2332	2336	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	A	2354	2358	first strand
Strand 2	A	2362	2367	anti-parallel
Strand 3	A	2372	2377	anti-parallel
Strand 4	A	2383	2388	anti-parallel

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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	2417	2420	first strand
Strand 2	A	2424	2428	anti-parallel
Strand 3	A	2434	2437	anti-parallel
Strand 4	A	2444	2448	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: 9YCD

Analysis of interatomic Contacts of Structural Units in PDB entry:
9YCD