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

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 1YNN entry

There are 6 chains in PDB entry 1YNN (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LEU 6	THR 235
B	SER 4	PRO 228
C	MET 1	GLY 1114
D	LYS 3	THR 1240
J	THR 1253	GLU 1501
K	MET 1	THR 95

There are100 helices in PDB entry 1YNN. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	31	38	Right-handed alpha
Helix 2	2	A	38	48	Right-handed alpha
Helix 3	3	A	74	83	Right-handed alpha
Helix 4	4	A	152	157	Right-handed alpha
Helix 5	5	A	206	223	Right-handed alpha
Helix 6	6	B	31	45	Right-handed alpha
Helix 7	7	B	74	84	Right-handed alpha
Helix 8	8	B	110	114	Right-handed 310
Helix 9	9	B	152	157	Right-handed alpha
Helix 10	10	B	206	223	Right-handed alpha
Helix 11	11	C	19	31	Right-handed alpha
Helix 12	12	C	43	52	Right-handed alpha
Helix 13	13	C	79	86	Right-handed alpha
Helix 14	14	C	192	200	Right-handed alpha
Helix 15	15	C	205	211	Right-handed alpha
Helix 16	16	C	218	223	Right-handed alpha
Helix 17	17	C	224	228	Right-handed 310
Helix 18	18	C	230	243	Right-handed alpha
Helix 19	19	C	251	256	Right-handed alpha
Helix 20	20	C	271	281	Right-handed alpha
Helix 21	21	C	302	312	Right-handed alpha
Helix 22	22	C	335	362	Right-handed alpha
Helix 23	23	C	376	389	Right-handed alpha
Helix 24	24	C	399	408	Right-handed alpha
Helix 25	25	C	535	540	Right-handed 310
Helix 26	26	C	543	547	Right-handed 310
Helix 27	27	C	549	553	Right-handed 310
Helix 28	28	C	554	563	Right-handed alpha
Helix 29	29	C	564	568	Right-handed 310
Helix 30	30	C	583	591	Right-handed alpha
Helix 31	31	C	692	697	Right-handed alpha
Helix 32	32	C	730	735	Right-handed alpha
Helix 33	33	C	772	778	Right-handed alpha
Helix 34	34	C	872	876	Right-handed 310
Helix 35	35	C	882	898	Right-handed alpha
Helix 36	36	C	910	932	Right-handed alpha
Helix 37	37	C	937	951	Right-handed alpha
Helix 38	38	C	958	969	Right-handed alpha
Helix 39	39	C	1033	1043	Right-handed alpha
Helix 40	40	C	1045	1054	Right-handed alpha
Helix 41	41	C	1059	1073	Right-handed alpha
Helix 42	42	C	1082	1094	Right-handed alpha
Helix 43	43	D	14	22	Right-handed alpha
Helix 44	44	D	83	87	Right-handed 310
Helix 45	45	D	101	106	Right-handed alpha
Helix 46	46	D	122	127	Right-handed alpha
Helix 47	47	D	154	162	Right-handed alpha
Helix 48	48	D	228	230	Right-handed 310
Helix 49	49	D	456	467	Right-handed alpha
Helix 50	50	D	469	479	Right-handed alpha
Helix 51	51	D	488	506	Right-handed alpha
Helix 52	52	D	521	525	Right-handed 310
Helix 53	53	D	539	553	Right-handed alpha
Helix 54	54	D	555	560	Right-handed alpha
Helix 55	55	D	570	584	Right-handed alpha
Helix 56	56	D	612	620	Right-handed alpha
Helix 57	57	D	645	664	Right-handed alpha
Helix 58	58	D	669	679	Right-handed alpha
Helix 59	59	D	684	696	Right-handed alpha
Helix 60	60	D	709	711	Right-handed 310
Helix 61	61	D	732	737	Right-handed alpha
Helix 62	62	D	752	764	Right-handed alpha
Helix 63	63	D	765	768	Right-handed 310
Helix 64	64	D	784	792	Right-handed alpha
Helix 65	65	D	812	818	Right-handed alpha
Helix 66	66	D	835	839	Right-handed 310
Helix 67	67	D	845	855	Right-handed alpha
Helix 68	68	D	876	889	Right-handed alpha
Helix 69	69	D	892	900	Right-handed alpha
Helix 70	70	D	907	922	Right-handed alpha
Helix 71	71	D	923	946	Right-handed alpha
Helix 72	72	D	950	954	Right-handed 310
Helix 73	73	D	958	973	Right-handed alpha
Helix 74	74	D	984	1014	Right-handed alpha
Helix 75	75	D	1018	1026	Right-handed alpha
Helix 76	76	D	1031	1039	Right-handed alpha
Helix 77	77	D	1066	1073	Right-handed alpha
Helix 78	78	D	1074	1090	Right-handed alpha
Helix 79	79	D	1092	1103	Right-handed alpha
Helix 80	80	D	1136	1145	Right-handed alpha
Helix 81	81	D	1167	1180	Right-handed alpha
Helix 82	82	D	1190	1194	Right-handed 310
Helix 83	83	D	1220	1231	Right-handed alpha
Helix 84	84	D	1232	1235	Right-handed 310
Helix 85	85	J	1254	1264	Right-handed alpha
Helix 86	86	J	1331	1340	Right-handed alpha
Helix 87	87	J	1340	1360	Right-handed alpha
Helix 88	88	J	1364	1377	Right-handed alpha
Helix 89	89	J	1425	1430	Right-handed alpha
Helix 90	90	J	1433	1440	Right-handed alpha
Helix 91	91	J	1442	1453	Right-handed alpha
Helix 92	92	J	1461	1468	Right-handed alpha
Helix 93	93	J	1474	1477	Right-handed 310
Helix 94	94	J	1478	1483	Right-handed alpha
Helix 95	95	J	1488	1493	Right-handed alpha
Helix 96	96	K	5	13	Right-handed alpha
Helix 97	97	K	15	33	Right-handed alpha
Helix 98	98	K	40	45	Right-handed alpha
Helix 99	99	K	59	69	Right-handed alpha
Helix 100	100	K	81	86	Right-handed alpha

There are 48 sheets in PDB entry 1YNN. 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, AO, AP, AQ, AR, AS, AT, AU, AV,

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	11	15	first strand
Strand 2	A	21	28	anti-parallel
Strand 3	A	193	197	anti-parallel
Strand 4	A	179	183	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	50	52	first strand
Strand 2	A	140	147	anti-parallel
Strand 3	A	96	101	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	A	87	88	first strand
Strand 2	A	121	122	anti-parallel

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There are 2 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	107	108	first strand
Strand 2	A	131	132	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	A	150	151	first strand
Strand 2	A	169	170	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	B	11	12	first strand
Strand 2	B	21	28	anti-parallel
Strand 3	B	189	201	anti-parallel
Strand 4	B	174	186	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	B	96	102	first strand
Strand 2	B	139	147	anti-parallel
Strand 3	B	50	58	anti-parallel
Strand 4	B	164	166	anti-parallel

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There are 2 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	87	89	first strand
Strand 2	B	120	122	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	107	109	first strand
Strand 2	B	130	132	anti-parallel

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There are 3 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	3	5	first strand
Strand 2	C	900	902	parallel
Strand 3	C	579	580	parallel

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There are 3 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	67	73	first strand
Strand 2	C	91	99	anti-parallel
Strand 3	C	113	119	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	C	127	128	first strand
Strand 2	C	133	136	anti-parallel
Strand 3	C	392	393	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	C	331	334	first strand
Strand 2	C	138	142	anti-parallel
Strand 3	C	409	411	parallel
Strand 4	C	452	454	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	C	145	146	first strand
Strand 2	C	159	163	anti-parallel
Strand 3	C	172	175	anti-parallel
Strand 4	C	184	186	anti-parallel
Strand 5	C	189	191	anti-parallel

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There are 2 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	291	293	first strand
Strand 2	C	298	299	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	C	460	461	first strand
Strand 2	C	467	473	anti-parallel
Strand 3	C	483	486	anti-parallel

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There are 6 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	460	461	first strand
Strand 2	C	467	473	anti-parallel
Strand 3	C	531	533	anti-parallel
Strand 4	C	496	497	parallel
Strand 5	C	513	516	anti-parallel
Strand 6	C	521	524	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	C	503	504	first strand
Strand 2	C	507	508	anti-parallel

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There are 3 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	595	596	first strand
Strand 2	C	654	657	anti-parallel
Strand 3	C	640	641	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	C	601	606	first strand
Strand 2	C	610	615	anti-parallel
Strand 3	C	620	624	anti-parallel

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There are 2 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	661	662	first strand
Strand 2	C	665	666	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	839	840	first strand
Strand 2	C	987	996	anti-parallel
Strand 3	C	670	676	anti-parallel
Strand 4	C	869	871	parallel
Strand 5	C	688	691	anti-parallel
Strand 6	C	849	853	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	839	840	first strand
Strand 2	C	987	996	anti-parallel
Strand 3	C	971	972	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	718	719	first strand
Strand 2	C	703	715	anti-parallel
Strand 3	C	819	830	anti-parallel
Strand 4	C	798	806	anti-parallel
Strand 5	C	748	749	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1100	1102	first strand
Strand 2	D	7	9	anti-parallel

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There are 2 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	91	94	first strand
Strand 2	D	516	519	anti-parallel

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There are 2 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	133	134	first strand
Strand 2	D	152	153	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	166	170	first strand
Strand 2	D	388	396	anti-parallel
Strand 3	D	205	210	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	184	185	first strand
Strand 2	D	201	202	anti-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	D	340	342	first strand
Strand 2	D	213	216	anti-parallel
Strand 3	D	383	385	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	222	226	first strand
Strand 2	D	330	334	anti-parallel
Strand 3	D	323	327	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	D	243	244	first strand
Strand 2	D	310	311	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	D	249	252	first strand
Strand 2	D	303	307	anti-parallel
Strand 3	D	288	290	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	D	277	284	first strand
Strand 2	D	267	274	anti-parallel
Strand 3	D	257	264	anti-parallel
Strand 4	D	297	298	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	D	352	353	first strand
Strand 2	D	366	369	anti-parallel
Strand 3	D	377	378	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	398	402	first strand
Strand 2	D	443	448	anti-parallel
Strand 3	D	433	438	anti-parallel
Strand 4	D	414	415	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	D	419	420	first strand
Strand 2	D	428	429	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	D	528	529	first strand
Strand 2	D	535	536	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	641	642	first strand
Strand 2	D	713	718	parallel
Strand 3	D	700	704	anti-parallel
Strand 4	D	744	748	anti-parallel
Strand 5	D	626	633	anti-parallel
Strand 6	D	726	728	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	842	843	first strand
Strand 2	D	865	867	parallel
Strand 3	D	872	873	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1043	1046	first strand
Strand 2	D	1052	1057	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1118	1121	first strand
Strand 2	D	1185	1188	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1123	1126	first strand
Strand 2	D	1131	1134	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1147	1148	first strand
Strand 2	D	1165	1166	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1153	1155	first strand
Strand 2	D	1158	1160	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	1280	1281	first strand
Strand 2	J	1290	1295	anti-parallel
Strand 3	J	1300	1305	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	1392	1394	first strand
Strand 2	J	1378	1382	anti-parallel
Strand 3	J	1416	1419	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	1485	1487	first strand
Strand 2	K	74	76	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: 1YNN

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