Analysis of interatomic Contacts of Structural Units in PDB entry:
3TOP

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 3TOP entry

There are 2 chains in PDB entry 3TOP (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASP 960	THR 1849
B	ASP 960	LEU 1316

There are 46 helices in PDB entry 3TOP. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	974	980	Right-handed alpha
Helix 2	2	A	1023	1028	Right-handed alpha
Helix 3	3	A	1221	1234	Right-handed alpha
Helix 4	4	A	1240	1245	Right-handed 310
Helix 5	5	A	1255	1270	Right-handed alpha
Helix 6	6	A	1279	1283	Right-handed 310
Helix 7	7	A	1292	1296	Right-handed 310
Helix 8	8	A	1297	1308	Right-handed alpha
Helix 9	9	A	1328	1338	Right-handed alpha
Helix 10	10	A	1368	1376	Right-handed alpha
Helix 11	11	A	1387	1403	Right-handed alpha
Helix 12	12	A	1407	1411	Right-handed 310
Helix 13	13	A	1452	1456	Right-handed 310
Helix 14	14	A	1478	1482	Right-handed alpha
Helix 15	15	A	1484	1502	Right-handed alpha
Helix 16	16	A	1515	1519	Right-handed 310
Helix 17	17	A	1531	1548	Right-handed alpha
Helix 18	18	A	1564	1576	Right-handed alpha
Helix 19	19	A	1593	1597	Right-handed 310
Helix 20	20	A	1598	1630	Right-handed alpha
Helix 21	21	A	1636	1640	Right-handed 310
Helix 22	22	A	1725	1730	Right-handed alpha
Helix 23	23	A	1760	1764	Right-handed 310
Helix 24	24	B	974	980	Right-handed alpha
Helix 25	25	B	1023	1028	Right-handed alpha
Helix 26	26	B	1221	1234	Right-handed alpha
Helix 27	27	B	1240	1245	Right-handed 310
Helix 28	28	B	1255	1270	Right-handed alpha
Helix 29	29	B	1279	1283	Right-handed 310
Helix 30	30	B	1292	1296	Right-handed 310
Helix 31	31	B	1297	1308	Right-handed alpha
Helix 32	32	B	1328	1337	Right-handed alpha
Helix 33	33	B	1368	1376	Right-handed alpha
Helix 34	34	B	1387	1403	Right-handed alpha
Helix 35	35	B	1407	1411	Right-handed 310
Helix 36	36	B	1452	1456	Right-handed 310
Helix 37	37	B	1478	1482	Right-handed alpha
Helix 38	38	B	1484	1502	Right-handed alpha
Helix 39	39	B	1515	1519	Right-handed 310
Helix 40	40	B	1531	1548	Right-handed alpha
Helix 41	41	B	1564	1576	Right-handed alpha
Helix 42	42	B	1593	1597	Right-handed 310
Helix 43	43	B	1598	1630	Right-handed alpha
Helix 44	44	B	1636	1641	Right-handed alpha
Helix 45	45	B	1725	1730	Right-handed alpha
Helix 46	46	B	1760	1764	Right-handed 310

There are 26 sheets in PDB entry 3TOP. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	983	985	first strand
Strand 2	A	996	998	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1003	1005	first strand
Strand 2	A	1014	1021	anti-parallel
Strand 3	A	1009	1010	anti-parallel

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There are 8 strands in C sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1003	1005	first strand
Strand 2	A	1014	1021	anti-parallel
Strand 3	A	1038	1044	anti-parallel
Strand 4	A	1049	1055	anti-parallel
Strand 5	A	1212	1217	anti-parallel
Strand 6	A	1182	1187	anti-parallel
Strand 7	A	1172	1176	anti-parallel
Strand 8	A	1131	1132	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1083	1088	first strand
Strand 2	A	1093	1098	anti-parallel
Strand 3	A	1104	1107	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1114	1116	first strand
Strand 2	A	1119	1125	anti-parallel
Strand 3	A	1202	1207	anti-parallel
Strand 4	A	1193	1198	anti-parallel
Strand 5	A	1149	1153	anti-parallel

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There are 8 strands in F sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1552	1553	first strand
Strand 2	A	1521	1523	parallel
Strand 3	A	1507	1509	parallel
Strand 4	A	1416	1419	parallel
Strand 5	A	1311	1316	parallel
Strand 6	A	1275	1278	parallel
Strand 7	A	1247	1248	parallel
Strand 8	A	1582	1583	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1320	1321	first strand
Strand 2	A	1377	1381	anti-parallel
Strand 3	A	1351	1357	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1467	1469	first strand
Strand 2	A	1475	1477	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1634	1635	first strand
Strand 2	A	1654	1656	anti-parallel
Strand 3	A	1660	1663	anti-parallel
Strand 4	A	1708	1712	anti-parallel
Strand 5	A	1682	1684	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1672	1677	first strand
Strand 2	A	1696	1701	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1778	1785	first strand
Strand 2	A	1767	1773	anti-parallel
Strand 3	A	1746	1752	anti-parallel
Strand 4	A	1714	1720	parallel
Strand 5	A	1734	1739	anti-parallel
Strand 6	A	1796	1802	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1815	1816	first strand
Strand 2	A	1820	1821	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1826	1827	first strand
Strand 2	A	1834	1835	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	983	985	first strand
Strand 2	B	996	998	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1003	1005	first strand
Strand 2	B	1014	1021	anti-parallel
Strand 3	B	1009	1010	anti-parallel

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There are 8 strands in P sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1003	1005	first strand
Strand 2	B	1014	1021	anti-parallel
Strand 3	B	1038	1044	anti-parallel
Strand 4	B	1049	1055	anti-parallel
Strand 5	B	1212	1217	anti-parallel
Strand 6	B	1182	1187	anti-parallel
Strand 7	B	1172	1176	anti-parallel
Strand 8	B	1131	1132	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1083	1088	first strand
Strand 2	B	1093	1098	anti-parallel
Strand 3	B	1104	1107	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1114	1116	first strand
Strand 2	B	1119	1125	anti-parallel
Strand 3	B	1202	1207	anti-parallel
Strand 4	B	1193	1198	anti-parallel
Strand 5	B	1149	1153	anti-parallel

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There are 8 strands in S sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1552	1553	first strand
Strand 2	B	1521	1523	parallel
Strand 3	B	1507	1509	parallel
Strand 4	B	1416	1419	parallel
Strand 5	B	1311	1316	parallel
Strand 6	B	1275	1278	parallel
Strand 7	B	1247	1248	parallel
Strand 8	B	1582	1583	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1320	1321	first strand
Strand 2	B	1380	1381	anti-parallel
Strand 3	B	1351	1352	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1467	1469	first strand
Strand 2	B	1475	1477	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1634	1635	first strand
Strand 2	B	1654	1656	anti-parallel
Strand 3	B	1660	1663	anti-parallel
Strand 4	B	1708	1712	anti-parallel
Strand 5	B	1682	1684	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1672	1677	first strand
Strand 2	B	1696	1701	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1778	1785	first strand
Strand 2	B	1767	1773	anti-parallel
Strand 3	B	1746	1752	anti-parallel
Strand 4	B	1714	1720	parallel
Strand 5	B	1734	1739	anti-parallel
Strand 6	B	1796	1802	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1815	1816	first strand
Strand 2	B	1820	1821	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	1826	1827	first strand
Strand 2	B	1834	1835	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: 3TOP

Analysis of interatomic Contacts of Structural Units in PDB entry:
3TOP