Analysis of interatomic Contacts of Structural Units in PDB entry:
8GKC

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 8GKC entry

There are 2 chains in PDB entry 8GKC (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 858	ALA 2112
D	SER 858	ALA 2112

There are 74 helices in PDB entry 8GKC. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	872	876	Right-handed 310
Helix 2	AA2	A	887	903	Right-handed alpha
Helix 3	AA3	A	906	910	Right-handed 310
Helix 4	AA4	A	965	970	Right-handed 310
Helix 5	AA5	A	987	998	Right-handed alpha
Helix 6	AA6	A	1003	1006	Right-handed 310
Helix 7	AA7	A	1025	1040	Right-handed alpha
Helix 8	AA8	A	1058	1066	Right-handed alpha
Helix 9	AA9	A	1423	1434	Right-handed alpha
Helix 10	AB1	A	1452	1461	Right-handed alpha
Helix 11	AB2	A	1465	1470	Right-handed alpha
Helix 12	AB3	A	1490	1500	Right-handed alpha
Helix 13	AB4	A	1540	1542	Right-handed 310
Helix 14	AB5	A	1549	1554	Right-handed alpha
Helix 15	AB6	A	1572	1580	Right-handed alpha
Helix 16	AB7	A	1584	1588	Right-handed 310
Helix 17	AB8	A	1629	1631	Right-handed 310
Helix 18	AB9	A	1641	1646	Right-handed alpha
Helix 19	AC1	A	1648	1660	Right-handed alpha
Helix 20	AC2	A	1678	1691	Right-handed alpha
Helix 21	AC3	A	1701	1712	Right-handed alpha
Helix 22	AC4	A	1716	1718	Right-handed 310
Helix 23	AC5	A	1727	1736	Right-handed alpha
Helix 24	AC6	A	1750	1759	Right-handed alpha
Helix 25	AC7	A	1771	1776	Right-handed alpha
Helix 26	AC8	A	1783	1788	Right-handed 310
Helix 27	AC9	A	1795	1801	Right-handed 310
Helix 28	AD1	A	1804	1820	Right-handed alpha
Helix 29	AD2	A	1835	1846	Right-handed alpha
Helix 30	AD3	A	1894	1907	Right-handed alpha
Helix 31	AD4	A	1922	1936	Right-handed alpha
Helix 32	AD5	A	1948	1963	Right-handed alpha
Helix 33	AD6	A	1984	2010	Right-handed alpha
Helix 34	AD7	A	2022	2026	Right-handed alpha
Helix 35	AD8	A	2031	2051	Right-handed alpha
Helix 36	AD9	A	2067	2072	Right-handed alpha
Helix 37	AE1	A	2087	2099	Right-handed alpha
Helix 38	AE2	D	872	876	Right-handed 310
Helix 39	AE3	D	887	903	Right-handed alpha
Helix 40	AE4	D	906	910	Right-handed 310
Helix 41	AE5	D	965	970	Right-handed 310
Helix 42	AE6	D	987	998	Right-handed alpha
Helix 43	AE7	D	1003	1006	Right-handed 310
Helix 44	AE8	D	1025	1040	Right-handed alpha
Helix 45	AE9	D	1058	1066	Right-handed alpha
Helix 46	AF1	D	1423	1434	Right-handed alpha
Helix 47	AF2	D	1452	1461	Right-handed alpha
Helix 48	AF3	D	1465	1470	Right-handed alpha
Helix 49	AF4	D	1490	1500	Right-handed alpha
Helix 50	AF5	D	1540	1542	Right-handed 310
Helix 51	AF6	D	1549	1554	Right-handed alpha
Helix 52	AF7	D	1572	1580	Right-handed alpha
Helix 53	AF8	D	1584	1588	Right-handed 310
Helix 54	AF9	D	1629	1631	Right-handed 310
Helix 55	AG1	D	1641	1646	Right-handed alpha
Helix 56	AG2	D	1648	1660	Right-handed alpha
Helix 57	AG3	D	1678	1691	Right-handed alpha
Helix 58	AG4	D	1701	1712	Right-handed alpha
Helix 59	AG5	D	1716	1718	Right-handed 310
Helix 60	AG6	D	1727	1736	Right-handed alpha
Helix 61	AG7	D	1750	1759	Right-handed alpha
Helix 62	AG8	D	1771	1776	Right-handed alpha
Helix 63	AG9	D	1783	1788	Right-handed 310
Helix 64	AH1	D	1795	1801	Right-handed 310
Helix 65	AH2	D	1804	1820	Right-handed alpha
Helix 66	AH3	D	1835	1846	Right-handed alpha
Helix 67	AH4	D	1894	1907	Right-handed alpha
Helix 68	AH5	D	1922	1936	Right-handed alpha
Helix 69	AH6	D	1948	1963	Right-handed alpha
Helix 70	AH7	D	1984	2010	Right-handed alpha
Helix 71	AH8	D	2022	2026	Right-handed alpha
Helix 72	AH9	D	2031	2051	Right-handed alpha
Helix 73	AI1	D	2067	2072	Right-handed alpha
Helix 74	AI2	D	2087	2099	Right-handed alpha

There are 20 sheets in PDB entry 8GKC. 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,

There are 12 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	860	864	first strand
Strand 2	A	931	938	anti-parallel
Strand 3	A	943	948	anti-parallel
Strand 4	A	951	960	anti-parallel
Strand 5	A	912	919	anti-parallel
Strand 6	A	1047	1057	anti-parallel
Strand 7	A	1092	1101	anti-parallel
Strand 8	A	1086	1089	anti-parallel
Strand 9	A	1074	1081	anti-parallel
Strand 10	A	1017	1021	anti-parallel
Strand 11	A	1008	1012	anti-parallel
Strand 12	A	984	986	anti-parallel

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There are 10 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	860	864	first strand
Strand 2	A	931	938	anti-parallel
Strand 3	A	943	948	anti-parallel
Strand 4	A	951	960	anti-parallel
Strand 5	A	912	919	anti-parallel
Strand 6	A	1047	1057	anti-parallel
Strand 7	A	1092	1101	anti-parallel
Strand 8	A	1086	1089	anti-parallel
Strand 9	A	1074	1081	anti-parallel
Strand 10	A	1067	1068	anti-parallel

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There are 3 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	883	884	first strand
Strand 2	A	878	880	anti-parallel
Strand 3	A	999	1001	anti-parallel

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There are 13 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	1413	1416	first strand
Strand 2	A	1441	1445	parallel
Strand 3	A	1472	1475	parallel
Strand 4	A	1503	1507	parallel
Strand 5	A	1510	1518	anti-parallel
Strand 6	A	1113	1121	anti-parallel
Strand 7	A	2105	2111	anti-parallel
Strand 8	A	2056	2060	parallel
Strand 9	A	2015	2021	parallel
Strand 10	A	1965	1970	parallel
Strand 11	A	1886	1890	parallel
Strand 12	A	1911	1915	parallel
Strand 13	A	1938	1942	parallel

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There are 8 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	1413	1416	first strand
Strand 2	A	1441	1445	parallel
Strand 3	A	1472	1475	parallel
Strand 4	A	1503	1507	parallel
Strand 5	A	1510	1518	anti-parallel
Strand 6	A	1113	1121	anti-parallel
Strand 7	A	2105	2111	anti-parallel
Strand 8	A	2083	2084	anti-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	1525	1528	first strand
Strand 2	A	1873	1876	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	A	1531	1535	first strand
Strand 2	A	1544	1548	anti-parallel

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There are 5 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	1625	1628	first strand
Strand 2	A	1562	1570	anti-parallel
Strand 3	A	1602	1606	anti-parallel
Strand 4	A	1612	1616	anti-parallel
Strand 5	A	1633	1635	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	1625	1628	first strand
Strand 2	A	1562	1570	anti-parallel
Strand 3	A	1851	1855	anti-parallel
Strand 4	A	1828	1832	parallel

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There are 12 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	1720	1722	first strand
Strand 2	A	1695	1699	parallel
Strand 3	A	1671	1674	parallel
Strand 4	A	1741	1746	parallel
Strand 5	A	1760	1768	parallel
Strand 6	A	1790	1793	parallel
Strand 7	D	1790	1793	anti-parallel
Strand 8	D	1760	1768	parallel
Strand 9	D	1741	1746	parallel
Strand 10	D	1671	1674	parallel
Strand 11	D	1695	1699	parallel
Strand 12	D	1720	1722	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	A	1779	1781	first strand
Strand 2	D	1779	1781	anti-parallel

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There are 12 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	860	864	first strand
Strand 2	D	931	938	anti-parallel
Strand 3	D	943	948	anti-parallel
Strand 4	D	951	960	anti-parallel
Strand 5	D	912	919	anti-parallel
Strand 6	D	1047	1057	anti-parallel
Strand 7	D	1092	1101	anti-parallel
Strand 8	D	1086	1089	anti-parallel
Strand 9	D	1074	1081	anti-parallel
Strand 10	D	1017	1021	anti-parallel
Strand 11	D	1008	1012	anti-parallel
Strand 12	D	984	986	anti-parallel

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There are 10 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	860	864	first strand
Strand 2	D	931	938	anti-parallel
Strand 3	D	943	948	anti-parallel
Strand 4	D	951	960	anti-parallel
Strand 5	D	912	919	anti-parallel
Strand 6	D	1047	1057	anti-parallel
Strand 7	D	1092	1101	anti-parallel
Strand 8	D	1086	1089	anti-parallel
Strand 9	D	1074	1081	anti-parallel
Strand 10	D	1067	1068	anti-parallel

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There are 3 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	883	884	first strand
Strand 2	D	878	880	anti-parallel
Strand 3	D	999	1001	anti-parallel

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There are 13 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	1413	1416	first strand
Strand 2	D	1441	1445	parallel
Strand 3	D	1472	1475	parallel
Strand 4	D	1503	1507	parallel
Strand 5	D	1510	1518	anti-parallel
Strand 6	D	1113	1121	anti-parallel
Strand 7	D	2105	2111	anti-parallel
Strand 8	D	2056	2060	parallel
Strand 9	D	2015	2021	parallel
Strand 10	D	1965	1970	parallel
Strand 11	D	1886	1890	parallel
Strand 12	D	1911	1915	parallel
Strand 13	D	1938	1942	parallel

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There are 8 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	1413	1416	first strand
Strand 2	D	1441	1445	parallel
Strand 3	D	1472	1475	parallel
Strand 4	D	1503	1507	parallel
Strand 5	D	1510	1518	anti-parallel
Strand 6	D	1113	1121	anti-parallel
Strand 7	D	2105	2111	anti-parallel
Strand 8	D	2083	2084	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	D	1525	1528	first strand
Strand 2	D	1873	1876	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	1531	1535	first strand
Strand 2	D	1544	1548	anti-parallel

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There are 5 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	1625	1628	first strand
Strand 2	D	1562	1570	anti-parallel
Strand 3	D	1602	1606	anti-parallel
Strand 4	D	1612	1616	anti-parallel
Strand 5	D	1633	1635	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	D	1625	1628	first strand
Strand 2	D	1562	1570	anti-parallel
Strand 3	D	1851	1855	anti-parallel
Strand 4	D	1828	1832	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: 8GKC

Analysis of interatomic Contacts of Structural Units in PDB entry:
8GKC