Analysis of interatomic Contacts of Structural Units in PDB entry:
1Y61

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 1Y61 entry

There are 2 chains in PDB entry 1Y61 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
H	ALA 1	ARG 709
L	SER 1546	TYR 2196

There are 21 helices in PDB entry 1Y61. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	H	105	110	Right-handed alpha
Helix 2	2	H	127	131	Right-handed 310
Helix 3	3	H	284	291	Right-handed alpha
Helix 4	4	H	302	310	Right-handed 310
Helix 5	5	H	441	446	Right-handed alpha
Helix 6	6	H	482	490	Right-handed alpha
Helix 7	7	H	526	528	Right-handed 310
Helix 8	8	H	530	539	Right-handed alpha
Helix 9	9	H	549	555	Right-handed alpha
Helix 10	10	H	639	646	Right-handed alpha
Helix 11	11	L	1568	1576	Right-handed alpha
Helix 12	12	L	1607	1611	Right-handed 310
Helix 13	13	L	1691	1695	Right-handed 310
Helix 14	14	L	1709	1715	Right-handed alpha
Helix 15	15	L	1755	1760	Right-handed alpha
Helix 16	16	L	1770	1774	Right-handed 310
Helix 17	17	L	1860	1867	Right-handed alpha
Helix 18	18	L	1891	1893	Right-handed 310
Helix 19	19	L	1905	1909	Right-handed 310
Helix 20	20	L	2050	2052	Right-handed 310
Helix 21	21	L	2069	2073	Right-handed 310

There are 19 sheets in PDB entry 1Y61. 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,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	33	40	first strand
Strand 2	H	3	15	anti-parallel
Strand 3	H	69	76	parallel
Strand 4	H	119	124	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	62	63	first strand
Strand 2	H	159	165	parallel
Strand 3	H	139	145	anti-parallel
Strand 4	H	85	86	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	170	172	first strand
Strand 2	H	175	176	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	202	205	first strand
Strand 2	H	181	191	anti-parallel
Strand 3	H	224	232	parallel
Strand 4	H	265	271	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	239	241	first strand
Strand 2	H	258	260	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	276	278	first strand
Strand 2	H	296	298	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	362	371	first strand
Strand 2	H	321	334	anti-parallel
Strand 3	H	402	409	parallel
Strand 4	H	451	458	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	394	398	first strand
Strand 2	H	493	498	parallel
Strand 3	H	472	478	anti-parallel
Strand 4	H	418	419	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	557	561	first strand
Strand 2	H	517	524	anti-parallel
Strand 3	H	578	586	parallel
Strand 4	H	619	627	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	573	575	first strand
Strand 2	H	649	654	parallel
Strand 3	H	633	636	anti-parallel
Strand 4	H	596	599	anti-parallel
Strand 5	H	612	613	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	603	604	first strand
Strand 2	H	609	610	anti-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	H	671	672	first strand
Strand 2	H	677	678	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	1587	1594	first strand
Strand 2	L	1551	1563	anti-parallel
Strand 3	L	1627	1634	parallel
Strand 4	L	1679	1683	anti-parallel
Strand 5	L	1648	1649	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	L	1697	1703	first strand
Strand 2	L	1717	1723	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	1776	1780	first strand
Strand 2	L	1739	1749	anti-parallel
Strand 3	L	1797	1804	parallel
Strand 4	L	1842	1847	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	1791	1792	first strand
Strand 2	L	1869	1874	parallel
Strand 3	L	1852	1857	anti-parallel

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There are 14 strands in Q sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	1920	1921	first strand
Strand 2	L	2025	2033	anti-parallel
Strand 3	L	1935	1951	anti-parallel
Strand 4	L	1895	1897	anti-parallel
Strand 5	L	1935	1951	anti-parallel
Strand 6	L	2000	2003	anti-parallel
Strand 7	L	1935	1951	anti-parallel
Strand 8	L	2009	2021	anti-parallel
Strand 9	L	1959	1970	anti-parallel
Strand 10	L	1953	1954	anti-parallel
Strand 11	L	1959	1970	anti-parallel
Strand 12	L	1989	1991	anti-parallel
Strand 13	L	1959	1970	anti-parallel
Strand 14	L	1977	1978	anti-parallel

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There are 14 strands in R sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	2040	2041	first strand
Strand 2	L	2185	2193	anti-parallel
Strand 3	L	2084	2085	anti-parallel
Strand 4	L	2185	2193	anti-parallel
Strand 5	L	2095	2111	anti-parallel
Strand 6	L	2054	2056	anti-parallel
Strand 7	L	2095	2111	anti-parallel
Strand 8	L	2160	2181	anti-parallel
Strand 9	L	2118	2130	anti-parallel
Strand 10	L	2137	2138	anti-parallel
Strand 11	L	2118	2130	anti-parallel
Strand 12	L	2113	2115	anti-parallel
Strand 13	L	2118	2130	anti-parallel
Strand 14	L	2150	2151	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	2060	2062	first strand
Strand 2	L	2066	2068	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: 1Y61

Analysis of interatomic Contacts of Structural Units in PDB entry:
1Y61