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

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 1YYM entry

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

Chain ID	Initial residue	Terminal residue
G	GLU 83	GLU 492
L	ASP 1	GLY 212
H	GLU 1	LYS 214
M	ASN 2	CYS 26
P	GLU 1083	GLU 1492
Q	ASP 1001	GLY 1212
R	GLU 1001	LYS 1214
S	ASN 1002	CYS 1026

There are 31 helices in PDB entry 1YYM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	G	98	116	Right-handed alpha
Helix 2	2	G	335	354	Right-handed alpha
Helix 3	3	G	368	373	Right-handed alpha
Helix 4	4	G	388	392	Right-handed 310
Helix 5	5	G	475	484	Right-handed alpha
Helix 6	6	L	79	83	Right-handed 310
Helix 7	7	L	121	127	Right-handed alpha
Helix 8	8	L	183	187	Right-handed alpha
Helix 9	9	H	28	30	Right-handed 310
Helix 10	10	H	61	64	Right-handed 310
Helix 11	11	H	83	87	Right-handed 310
Helix 12	12	H	99	100	Right-handed 310
Helix 13	13	H	156	158	Right-handed 310
Helix 14	14	H	187	189	Right-handed 310
Helix 15	15	H	201	204	Right-handed 310
Helix 16	16	M	2	12	Right-handed alpha
Helix 17	17	P	1098	1116	Right-handed alpha
Helix 18	18	P	1335	1354	Right-handed alpha
Helix 19	19	P	1368	1373	Right-handed alpha
Helix 20	20	P	1387	1391	Right-handed 310
Helix 21	21	P	1475	1484	Right-handed alpha
Helix 22	22	Q	1079	1083	Right-handed 310
Helix 23	23	Q	1121	1128	Right-handed alpha
Helix 24	24	Q	1183	1187	Right-handed alpha
Helix 25	25	R	1028	1030	Right-handed 310
Helix 26	26	R	1083	1087	Right-handed 310
Helix 27	27	R	1099	1100	Right-handed 310
Helix 28	28	R	1156	1158	Right-handed 310
Helix 29	29	R	1187	1189	Right-handed 310
Helix 30	30	R	1201	1204	Right-handed 310
Helix 31	31	S	1002	1012	Right-handed alpha

There are 34 sheets in PDB entry 1YYM. 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,

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	G	91	94	first strand
Strand 2	G	236	239	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	G	196	202	first strand
Strand 2	G	120	126	anti-parallel
Strand 3	G	432	434	anti-parallel
Strand 4	G	423	425	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	242	245	first strand
Strand 2	G	223	228	anti-parallel
Strand 3	G	486	490	anti-parallel

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There are 7 strands in D sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	259	261	first strand
Strand 2	G	444	456	anti-parallel
Strand 3	G	284	297	anti-parallel
Strand 4	G	330	334	anti-parallel
Strand 5	G	413	420	anti-parallel
Strand 6	G	381	385	anti-parallel
Strand 7	G	374	378	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	271	273	first strand
Strand 2	G	284	297	anti-parallel
Strand 3	G	444	456	anti-parallel
Strand 4	G	465	470	anti-parallel
Strand 5	G	358	361	parallel
Strand 6	G	393	394	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	4	7	first strand
Strand 2	L	19	25	anti-parallel
Strand 3	L	70	75	anti-parallel
Strand 4	L	62	67	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	10	13	first strand
Strand 2	L	102	106	parallel
Strand 3	L	85	90	anti-parallel
Strand 4	L	33	38	anti-parallel
Strand 5	L	45	49	anti-parallel
Strand 6	L	53	54	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	L	10	13	first strand
Strand 2	L	102	106	parallel
Strand 3	L	85	90	anti-parallel
Strand 4	L	97	98	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	L	114	118	first strand
Strand 2	L	129	139	anti-parallel
Strand 3	L	173	182	anti-parallel
Strand 4	L	159	163	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	153	154	first strand
Strand 2	L	145	150	anti-parallel
Strand 3	L	191	197	anti-parallel
Strand 4	L	205	210	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	H	3	6	first strand
Strand 2	H	18	25	anti-parallel
Strand 3	H	77	82	anti-parallel
Strand 4	H	67	72	anti-parallel

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There are 6 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	10	12	first strand
Strand 2	H	107	111	parallel
Strand 3	H	88	96	anti-parallel
Strand 4	H	32	39	anti-parallel
Strand 5	H	46	52	anti-parallel
Strand 6	H	56	59	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	H	10	12	first strand
Strand 2	H	107	111	parallel
Strand 3	H	88	96	anti-parallel
Strand 4	H	102	103	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	120	124	first strand
Strand 2	H	135	145	anti-parallel
Strand 3	H	176	185	anti-parallel
Strand 4	H	163	165	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	H	120	124	first strand
Strand 2	H	135	145	anti-parallel
Strand 3	H	176	185	anti-parallel
Strand 4	H	169	170	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	H	151	154	first strand
Strand 2	H	195	200	anti-parallel
Strand 3	H	205	210	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	16	20	first strand
Strand 2	M	23	27	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	1091	1094	first strand
Strand 2	P	1236	1239	anti-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	P	1196	1202	first strand
Strand 2	P	1120	1126	anti-parallel
Strand 3	P	1432	1434	anti-parallel
Strand 4	P	1423	1425	anti-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	P	1242	1245	first strand
Strand 2	P	1223	1228	anti-parallel
Strand 3	P	1486	1490	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	1259	1261	first strand
Strand 2	P	1445	1456	anti-parallel
Strand 3	P	1284	1296	anti-parallel
Strand 4	P	1465	1470	first strand
Strand 5	P	1358	1361	parallel

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There are 7 strands in V sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	1271	1273	first strand
Strand 2	P	1284	1296	anti-parallel
Strand 3	P	1445	1456	anti-parallel
Strand 4	P	1330	1334	first strand
Strand 5	P	1413	1420	anti-parallel
Strand 6	P	1381	1385	anti-parallel
Strand 7	P	1374	1378	anti-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	Q	1004	1007	first strand
Strand 2	Q	1019	1025	anti-parallel
Strand 3	Q	1070	1075	anti-parallel
Strand 4	Q	1062	1067	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	Q	1010	1013	first strand
Strand 2	Q	1102	1106	parallel
Strand 3	Q	1085	1090	anti-parallel
Strand 4	Q	1033	1038	anti-parallel
Strand 5	Q	1045	1049	anti-parallel
Strand 6	Q	1053	1054	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	1010	1013	first strand
Strand 2	Q	1102	1106	parallel
Strand 3	Q	1085	1090	anti-parallel
Strand 4	Q	1097	1098	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	Q	1114	1118	first strand
Strand 2	Q	1129	1139	anti-parallel
Strand 3	Q	1173	1182	anti-parallel
Strand 4	Q	1159	1163	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	1153	1154	first strand
Strand 2	Q	1145	1150	anti-parallel
Strand 3	Q	1191	1197	anti-parallel
Strand 4	Q	1205	1210	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	1003	1006	first strand
Strand 2	R	1018	1025	anti-parallel
Strand 3	R	1077	1082	anti-parallel
Strand 4	R	1067	1072	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	1010	1012	first strand
Strand 2	R	1107	1111	parallel
Strand 3	R	1088	1096	anti-parallel
Strand 4	R	1032	1039	anti-parallel
Strand 5	R	1046	1051	anti-parallel
Strand 6	R	1057	1059	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	1010	1012	first strand
Strand 2	R	1107	1111	parallel
Strand 3	R	1088	1096	anti-parallel
Strand 4	R	1102	1103	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	1120	1124	first strand
Strand 2	R	1135	1145	anti-parallel
Strand 3	R	1176	1185	anti-parallel
Strand 4	R	1164	1165	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	1120	1124	first strand
Strand 2	R	1135	1145	anti-parallel
Strand 3	R	1176	1185	anti-parallel
Strand 4	R	1169	1170	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	1151	1154	first strand
Strand 2	R	1195	1200	anti-parallel
Strand 3	R	1205	1210	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	1016	1020	first strand
Strand 2	S	1023	1027	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: 1YYM

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