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

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 1YNT entry

There are 7 chains in PDB entry 1YNT (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASP 1	GLU 213
B	GLN 501	ARG 718
C	ASP 1001	GLU 1213
D	GLN 1501	ARG 1718
E	GLU 820	ALA 880
F	PRO 2003	ALA 2254
G	PRO 3003	ALA 3254

There are 24 helices in PDB entry 1YNT. 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	126	Right-handed alpha
Helix 3	3	A	183	187	Right-handed alpha
Helix 4	4	B	561	565	Right-handed 310
Helix 5	5	B	574	577	Right-handed 310
Helix 6	6	B	705	708	Right-handed 310
Helix 7	7	C	1079	1083	Right-handed 310
Helix 8	8	C	1121	1126	Right-handed alpha
Helix 9	9	C	1183	1187	Right-handed alpha
Helix 10	10	D	1561	1565	Right-handed 310
Helix 11	11	D	1574	1577	Right-handed 310
Helix 12	12	D	1661	1663	Right-handed 310
Helix 13	13	D	1705	1708	Right-handed 310
Helix 14	14	E	844	862	Right-handed alpha
Helix 15	15	F	2042	2047	Right-handed 310
Helix 16	16	F	2068	2072	Right-handed 310
Helix 17	17	F	2077	2079	Right-handed 310
Helix 18	18	F	2098	2102	Right-handed 310
Helix 19	19	F	2186	2190	Right-handed 310
Helix 20	20	G	3042	3047	Right-handed 310
Helix 21	21	G	3068	3072	Right-handed 310
Helix 22	22	G	3077	3079	Right-handed 310
Helix 23	23	G	3098	3102	Right-handed 310
Helix 24	24	G	3186	3190	Right-handed 310

There are 40 sheets in PDB entry 1YNT. 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, AA, AB, AC, AD, AE, AF, AG, AH, AI, AJ, AK, AL, AM, AN,

There are 3 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	8	10	first strand
Strand 2	E	834	841	anti-parallel
Strand 3	E	821	828	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	19	24	first strand
Strand 2	A	70	75	anti-parallel
Strand 3	A	62	67	anti-parallel

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There are 5 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	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 5 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	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	103	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	A	114	117	first strand
Strand 2	A	133	139	anti-parallel
Strand 3	A	173	179	anti-parallel
Strand 4	A	159	163	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	A	129	130	first strand
Strand 2	A	181	182	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	A	145	146	first strand
Strand 2	A	191	197	anti-parallel
Strand 3	A	149	150	anti-parallel
Strand 4	A	153	154	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	A	145	146	first strand
Strand 2	A	191	197	anti-parallel
Strand 3	A	205	210	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	503	505	first strand
Strand 2	B	523	525	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	510	512	first strand
Strand 2	B	612	616	parallel
Strand 3	B	592	599	anti-parallel
Strand 4	B	533	539	anti-parallel
Strand 5	B	546	552	anti-parallel
Strand 6	B	558	559	anti-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	B	510	512	first strand
Strand 2	B	612	616	parallel
Strand 3	B	592	599	anti-parallel
Strand 4	B	607	608	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	518	520	first strand
Strand 2	B	578	583	anti-parallel
Strand 3	B	570	573	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	B	625	629	first strand
Strand 2	B	640	650	anti-parallel
Strand 3	B	679	689	anti-parallel
Strand 4	B	669	676	anti-parallel

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There are 3 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	656	659	first strand
Strand 2	B	699	704	anti-parallel
Strand 3	B	709	714	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	C	1019	1024	first strand
Strand 2	C	1070	1075	anti-parallel
Strand 3	C	1062	1067	anti-parallel

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There are 5 strands in P 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 5 strands in Q 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	1103	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1114	1117	first strand
Strand 2	C	1133	1139	anti-parallel
Strand 3	C	1173	1179	anti-parallel
Strand 4	C	1159	1163	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	C	1129	1130	first strand
Strand 2	C	1181	1182	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	C	1145	1146	first strand
Strand 2	C	1191	1197	anti-parallel
Strand 3	C	1149	1150	anti-parallel
Strand 4	C	1153	1154	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1145	1146	first strand
Strand 2	C	1191	1197	anti-parallel
Strand 3	C	1205	1210	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1503	1505	first strand
Strand 2	D	1523	1525	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1510	1512	first strand
Strand 2	D	1612	1616	parallel
Strand 3	D	1592	1599	anti-parallel
Strand 4	D	1533	1539	anti-parallel
Strand 5	D	1546	1551	anti-parallel
Strand 6	D	1558	1559	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1510	1512	first strand
Strand 2	D	1612	1616	parallel
Strand 3	D	1592	1599	anti-parallel
Strand 4	D	1607	1608	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1518	1520	first strand
Strand 2	D	1578	1583	anti-parallel
Strand 3	D	1570	1573	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1625	1629	first strand
Strand 2	D	1640	1650	anti-parallel
Strand 3	D	1679	1689	anti-parallel
Strand 4	D	1669	1676	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1656	1659	first strand
Strand 2	D	1699	1704	anti-parallel
Strand 3	D	1709	1714	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	865	868	first strand
Strand 2	E	875	878	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	2005	2006	first strand
Strand 2	F	2009	2011	anti-parallel
Strand 3	F	2031	2033	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	2019	2023	first strand
Strand 2	F	2124	2128	parallel
Strand 3	F	2107	2110	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	2039	2040	first strand
Strand 2	F	2113	2114	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	2081	2083	first strand
Strand 2	F	2093	2095	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	2134	2135	first strand
Strand 2	F	2139	2141	anti-parallel
Strand 3	F	2162	2166	parallel
Strand 4	F	2218	2220	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	2148	2154	first strand
Strand 2	F	2245	2253	parallel
Strand 3	F	2231	2239	anti-parallel
Strand 4	F	2171	2174	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	3005	3006	first strand
Strand 2	G	3009	3011	anti-parallel
Strand 3	G	3031	3033	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	3019	3023	first strand
Strand 2	G	3124	3128	parallel
Strand 3	G	3107	3110	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	3039	3040	first strand
Strand 2	G	3113	3114	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	3081	3083	first strand
Strand 2	G	3093	3095	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	3134	3135	first strand
Strand 2	G	3139	3141	anti-parallel
Strand 3	G	3162	3166	parallel
Strand 4	G	3218	3220	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	3148	3154	first strand
Strand 2	G	3245	3253	parallel
Strand 3	G	3231	3239	anti-parallel
Strand 4	G	3171	3174	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: 1YNT

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