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

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 1DEE entry

There are 8 chains in PDB entry 1DEE (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASP 1	CYS 214
B	GLN 501	LEU 723
C	ASP 1001	CYS 1214
D	GLN 1501	LEU 1723
E	ASP 2001	CYS 2214
F	GLN 2501	LEU 2723
G	ASP 1806	LYS 1856
H	PHE 2803	LYS 2856

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

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	79	83	Right-handed 310
Helix 2	2	A	121	127	Right-handed alpha
Helix 3	3	A	183	188	Right-handed alpha
Helix 4	4	B	528	532	Right-handed 310
Helix 5	5	B	587	591	Right-handed 310
Helix 6	6	C	1079	1083	Right-handed 310
Helix 7	7	C	1121	1127	Right-handed alpha
Helix 8	8	C	1183	1188	Right-handed alpha
Helix 9	9	D	1528	1532	Right-handed 310
Helix 10	10	D	1587	1591	Right-handed 310
Helix 11	11	E	2079	2083	Right-handed 310
Helix 12	12	E	2121	2127	Right-handed alpha
Helix 13	13	E	2183	2188	Right-handed alpha
Helix 14	14	F	2528	2532	Right-handed 310
Helix 15	15	F	2587	2591	Right-handed 310
Helix 16	16	G	1806	1817	Right-handed alpha
Helix 17	17	G	1821	1835	Right-handed alpha
Helix 18	18	G	1838	1853	Right-handed alpha
Helix 19	19	H	2804	2815	Right-handed alpha
Helix 20	20	H	2821	2835	Right-handed alpha
Helix 21	21	H	2838	2853	Right-handed alpha

There are 33 sheets in PDB entry 1DEE. Click on sheet of interest to get list of strands forming it: A, B, B1, C, D, E, F, F1, G, G1, H, I, J, J1, K, L, M, N, N1, O, O1, P, Q, R, R1, S, T, U, V, V1, W, W1, X,

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	A	4	7	first strand
Strand 2	A	19	25	anti-parallel
Strand 3	A	70	75	anti-parallel
Strand 4	A	62	67	anti-parallel

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There are 5 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	53	54	first strand
Strand 2	A	45	49	anti-parallel
Strand 3	A	33	38	anti-parallel
Strand 4	A	85	90	anti-parallel
Strand 5	A	97	98	anti-parallel

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There are 6 strands in B1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	53	54	first strand
Strand 2	A	45	49	anti-parallel
Strand 3	A	33	38	anti-parallel
Strand 4	A	85	90	anti-parallel
Strand 5	A	102	106	anti-parallel
Strand 6	A	10	13	parallel

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There are 4 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	114	118	first strand
Strand 2	A	129	139	anti-parallel
Strand 3	A	173	182	anti-parallel
Strand 4	A	159	163	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	A	154	155	first strand
Strand 2	A	144	150	anti-parallel
Strand 3	A	191	198	anti-parallel
Strand 4	A	205	210	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	503	507	first strand
Strand 2	B	518	525	anti-parallel
Strand 3	B	578	583	anti-parallel
Strand 4	B	568	573	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	558	560	first strand
Strand 2	B	545	551	anti-parallel
Strand 3	B	534	539	anti-parallel
Strand 4	B	592	599	anti-parallel
Strand 5	B	608	611	anti-parallel

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There are 6 strands in F1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	558	560	first strand
Strand 2	B	545	551	anti-parallel
Strand 3	B	534	539	anti-parallel
Strand 4	B	592	599	anti-parallel
Strand 5	B	615	619	anti-parallel
Strand 6	B	511	512	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	B	628	633	first strand
Strand 2	B	643	653	anti-parallel
Strand 3	B	684	694	anti-parallel
Strand 4	B	673	675	anti-parallel

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There are 4 strands in G1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	628	633	first strand
Strand 2	B	643	653	anti-parallel
Strand 3	B	684	694	anti-parallel
Strand 4	B	679	681	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	659	663	first strand
Strand 2	B	705	711	anti-parallel
Strand 3	B	717	722	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	C	1004	1007	first strand
Strand 2	C	1019	1025	anti-parallel
Strand 3	C	1070	1075	anti-parallel
Strand 4	C	1062	1067	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	C	1053	1054	first strand
Strand 2	C	1045	1049	anti-parallel
Strand 3	C	1033	1038	anti-parallel
Strand 4	C	1085	1090	anti-parallel
Strand 5	C	1097	1098	anti-parallel

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There are 6 strands in J1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1053	1054	first strand
Strand 2	C	1045	1049	anti-parallel
Strand 3	C	1033	1038	anti-parallel
Strand 4	C	1085	1090	anti-parallel
Strand 5	C	1102	1106	anti-parallel
Strand 6	C	1010	1013	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1114	1118	first strand
Strand 2	C	1129	1139	anti-parallel
Strand 3	C	1173	1182	anti-parallel
Strand 4	C	1159	1163	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1153	1155	first strand
Strand 2	C	1144	1150	anti-parallel
Strand 3	C	1191	1198	anti-parallel
Strand 4	C	1205	1210	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1503	1507	first strand
Strand 2	D	1518	1525	anti-parallel
Strand 3	D	1578	1583	anti-parallel
Strand 4	D	1568	1573	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1558	1560	first strand
Strand 2	D	1545	1551	anti-parallel
Strand 3	D	1534	1539	anti-parallel
Strand 4	D	1592	1598	anti-parallel
Strand 5	D	1610	1611	anti-parallel

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There are 6 strands in N1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1558	1560	first strand
Strand 2	D	1545	1551	anti-parallel
Strand 3	D	1534	1539	anti-parallel
Strand 4	D	1592	1598	anti-parallel
Strand 5	D	1615	1619	anti-parallel
Strand 6	D	1510	1512	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	D	1628	1633	first strand
Strand 2	D	1643	1653	anti-parallel
Strand 3	D	1684	1694	anti-parallel
Strand 4	D	1673	1675	anti-parallel

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There are 4 strands in O1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1628	1633	first strand
Strand 2	D	1643	1653	anti-parallel
Strand 3	D	1684	1694	anti-parallel
Strand 4	D	1679	1681	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	D	1659	1663	first strand
Strand 2	D	1705	1711	anti-parallel
Strand 3	D	1717	1722	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	2004	2007	first strand
Strand 2	E	2019	2025	anti-parallel
Strand 3	E	2070	2075	anti-parallel
Strand 4	E	2062	2067	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	E	2053	2054	first strand
Strand 2	E	2045	2049	anti-parallel
Strand 3	E	2033	2038	anti-parallel
Strand 4	E	2085	2090	anti-parallel
Strand 5	E	2097	2098	anti-parallel

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There are 6 strands in R1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	2053	2054	first strand
Strand 2	E	2045	2049	anti-parallel
Strand 3	E	2033	2038	anti-parallel
Strand 4	E	2085	2090	anti-parallel
Strand 5	E	2102	2106	anti-parallel
Strand 6	E	2010	2013	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	2114	2118	first strand
Strand 2	E	2129	2139	anti-parallel
Strand 3	E	2173	2182	anti-parallel
Strand 4	E	2159	2163	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	2153	2155	first strand
Strand 2	E	2144	2150	anti-parallel
Strand 3	E	2191	2198	anti-parallel
Strand 4	E	2205	2210	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	2503	2507	first strand
Strand 2	F	2518	2525	anti-parallel
Strand 3	F	2578	2583	anti-parallel
Strand 4	F	2568	2573	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	F	2558	2560	first strand
Strand 2	F	2545	2551	anti-parallel
Strand 3	F	2534	2539	anti-parallel
Strand 4	F	2592	2599	anti-parallel
Strand 5	F	2608	2611	anti-parallel

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There are 6 strands in V1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	2558	2560	first strand
Strand 2	F	2545	2551	anti-parallel
Strand 3	F	2534	2539	anti-parallel
Strand 4	F	2592	2599	anti-parallel
Strand 5	F	2615	2619	anti-parallel
Strand 6	F	2511	2512	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	2628	2633	first strand
Strand 2	F	2643	2653	anti-parallel
Strand 3	F	2684	2694	anti-parallel
Strand 4	F	2673	2675	anti-parallel

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There are 4 strands in W1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	2628	2633	first strand
Strand 2	F	2643	2653	anti-parallel
Strand 3	F	2684	2694	anti-parallel
Strand 4	F	2679	2681	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	2659	2663	first strand
Strand 2	F	2705	2711	anti-parallel
Strand 3	F	2717	2722	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: 1DEE

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