Analysis of interatomic Contacts of Structural Units in PDB entry:
6VP8

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 6VP8 entry

Note, this PDB entry contains modified residue(s) PHOSPHOTHREONINE (TPO) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

There are 4 chains in PDB entry 6VP8 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	VAL 1330	ASN 1342
A	GLY 1344	SER 2525
B	PRO 1670	ALA 1950
C	LEU 2140	ILE 2498

There are 47 helices in PDB entry 6VP8. 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	1400	1405	Right-handed alpha
Helix 3	AA3	A	1424	1431	Right-handed alpha
Helix 4	AA4	A	1431	1443	Right-handed alpha
Helix 5	AA5	A	1453	1457	Right-handed 310
Helix 6	AA6	A	1458	1473	Right-handed alpha
Helix 7	AA7	A	1494	1519	Right-handed alpha
Helix 8	AA8	A	1528	1540	Right-handed alpha
Helix 9	AA9	A	1550	1558	Right-handed alpha
Helix 10	AB1	A	1567	1579	Right-handed alpha
Helix 11	AB2	A	1599	1613	Right-handed alpha
Helix 12	AB3	A	1628	1639	Right-handed alpha
Helix 13	AB4	A	1642	1656	Right-handed alpha
Helix 14	AB5	A	1686	1688	Right-handed 310
Helix 15	AB6	A	1703	1713	Right-handed alpha
Helix 16	AB7	A	1770	1792	Right-handed alpha
Helix 17	AB8	A	1827	1837	Right-handed alpha
Helix 18	AB9	A	1852	1856	Right-handed alpha
Helix 19	AC1	A	1865	1869	Right-handed 310
Helix 20	AC2	A	1880	1882	Right-handed 310
Helix 21	AC3	A	1914	1925	Right-handed alpha
Helix 22	AC4	A	1955	1960	Right-handed alpha
Helix 23	AC5	A	1967	1988	Right-handed alpha
Helix 24	AC6	A	2042	2046	Right-handed 310
Helix 25	AC7	A	2051	2068	Right-handed alpha
Helix 26	AC8	A	2071	2077	Right-handed alpha
Helix 27	AC9	A	2079	2090	Right-handed alpha
Helix 28	AD1	A	2106	2115	Right-handed alpha
Helix 29	AD2	A	2124	2133	Right-handed alpha
Helix 30	AD3	A	2134	2139	Right-handed alpha
Helix 31	AD4	A	2278	2282	Right-handed 310
Helix 32	AD5	A	2339	2344	Right-handed 310
Helix 33	AD6	A	2346	2351	Right-handed alpha
Helix 34	AD7	A	2389	2396	Right-handed alpha
Helix 35	AD8	A	2499	2525	Right-handed alpha
Helix 36	AD9	B	1686	1688	Right-handed 310
Helix 37	AE1	B	1703	1713	Right-handed alpha
Helix 38	AE2	B	1716	1720	Right-handed 310
Helix 39	AE3	B	1770	1791	Right-handed alpha
Helix 40	AE4	B	1827	1837	Right-handed alpha
Helix 41	AE5	B	1865	1869	Right-handed 310
Helix 42	AE6	B	1880	1884	Right-handed 310
Helix 43	AE7	B	1914	1925	Right-handed alpha
Helix 44	AE8	C	2278	2282	Right-handed 310
Helix 45	AE9	C	2339	2344	Right-handed 310
Helix 46	AF1	C	2346	2351	Right-handed alpha
Helix 47	AF2	C	2389	2396	Right-handed alpha

There are 25 sheets in PDB entry 6VP8. 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, AC7,

There are 6 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	1372	1376	first strand
Strand 2	A	1389	1394	anti-parallel
Strand 3	A	1334	1341	parallel
Strand 4	A	1413	1420	parallel
Strand 5	A	1447	1452	parallel
Strand 6	A	1484	1487	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	1597	1598	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	1626	1627	first strand
Strand 2	A	1666	1667	anti-parallel

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There are 7 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	1732	1733	first strand
Strand 2	A	1737	1743	anti-parallel
Strand 3	A	1746	1753	anti-parallel
Strand 4	A	1761	1768	anti-parallel
Strand 5	A	1690	1697	anti-parallel
Strand 6	A	1809	1814	anti-parallel
Strand 7	A	1823	1826	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	1839	1841	first strand
Strand 2	A	1849	1851	anti-parallel

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There are 5 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	1884	1888	first strand
Strand 2	A	1891	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 AA7 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 AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	2140	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 AA9 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 AB1 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 AB2 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 AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	2300	2304	first strand
Strand 2	A	2315	2319	anti-parallel
Strand 3	A	2322	2326	anti-parallel
Strand 4	A	2336	2337	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	2354	2359	first strand
Strand 2	A	2363	2367	anti-parallel
Strand 3	A	2372	2376	anti-parallel
Strand 4	A	2383	2388	anti-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	A	2414	2419	first strand
Strand 2	A	2424	2429	anti-parallel
Strand 3	A	2433	2438	anti-parallel
Strand 4	A	2444	2449	anti-parallel

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There are 6 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1737	1738	first strand
Strand 2	B	1749	1755	anti-parallel
Strand 3	B	1758	1768	anti-parallel
Strand 4	B	1690	1696	anti-parallel
Strand 5	B	1809	1814	anti-parallel
Strand 6	B	1823	1826	anti-parallel

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There are 2 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1840	1841	first strand
Strand 2	B	1849	1850	anti-parallel

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There are 3 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1875	1876	first strand
Strand 2	B	1891	1898	anti-parallel
Strand 3	B	1886	1888	anti-parallel

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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1875	1876	first strand
Strand 2	B	1891	1898	anti-parallel
Strand 3	B	1901	1908	anti-parallel
Strand 4	B	1944	1948	anti-parallel

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There are 4 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	2142	2145	first strand
Strand 2	C	2491	2497	anti-parallel
Strand 3	C	2468	2475	anti-parallel
Strand 4	C	2454	2462	anti-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	C	2152	2157	first strand
Strand 2	C	2166	2171	anti-parallel
Strand 3	C	2177	2183	anti-parallel
Strand 4	C	2188	2195	anti-parallel

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There are 4 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	2199	2207	first strand
Strand 2	C	2212	2219	anti-parallel
Strand 3	C	2224	2228	anti-parallel
Strand 4	C	2235	2238	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	2245	2249	first strand
Strand 2	C	2262	2267	anti-parallel
Strand 3	C	2271	2276	anti-parallel
Strand 4	C	2289	2292	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	2300	2305	first strand
Strand 2	C	2315	2319	anti-parallel
Strand 3	C	2322	2326	anti-parallel
Strand 4	C	2332	2337	anti-parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	2354	2359	first strand
Strand 2	C	2363	2367	anti-parallel
Strand 3	C	2372	2376	anti-parallel
Strand 4	C	2383	2388	anti-parallel

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There are 4 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	2414	2420	first strand
Strand 2	C	2424	2429	anti-parallel
Strand 3	C	2434	2438	anti-parallel
Strand 4	C	2443	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: 6VP8

Analysis of interatomic Contacts of Structural Units in PDB entry:
6VP8