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

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 1YNJ entry

There are 6 chains in PDB entry 1YNJ (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 are 95 helices in PDB entry 1YNJ. 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	48	Right-handed alpha
Helix 2	2	A	74	85	Right-handed alpha
Helix 3	3	A	152	157	Right-handed alpha
Helix 4	4	A	206	223	Right-handed alpha
Helix 5	5	B	31	47	Right-handed alpha
Helix 6	6	B	74	84	Right-handed alpha
Helix 7	7	B	110	114	Right-handed 310
Helix 8	8	B	152	157	Right-handed alpha
Helix 9	9	B	206	223	Right-handed alpha
Helix 10	10	C	19	28	Right-handed alpha
Helix 11	11	C	42	50	Right-handed alpha
Helix 12	12	C	79	87	Right-handed alpha
Helix 13	13	C	192	200	Right-handed alpha
Helix 14	14	C	203	212	Right-handed alpha
Helix 15	15	C	217	223	Right-handed alpha
Helix 16	16	C	230	243	Right-handed alpha
Helix 17	17	C	251	256	Right-handed alpha
Helix 18	18	C	273	281	Right-handed alpha
Helix 19	19	C	302	312	Right-handed alpha
Helix 20	20	C	335	362	Right-handed alpha
Helix 21	21	C	376	389	Right-handed alpha
Helix 22	22	C	399	408	Right-handed alpha
Helix 23	23	C	525	529	Right-handed 310
Helix 24	24	C	535	540	Right-handed 310
Helix 25	25	C	543	547	Right-handed 310
Helix 26	26	C	549	553	Right-handed 310
Helix 27	27	C	554	563	Right-handed alpha
Helix 28	28	C	582	591	Right-handed alpha
Helix 29	29	C	692	697	Right-handed alpha
Helix 30	30	C	733	737	Right-handed 310
Helix 31	31	C	770	778	Right-handed alpha
Helix 32	32	C	872	876	Right-handed 310
Helix 33	33	C	882	898	Right-handed alpha
Helix 34	34	C	910	933	Right-handed alpha
Helix 35	35	C	937	950	Right-handed alpha
Helix 36	36	C	958	969	Right-handed alpha
Helix 37	37	C	1033	1043	Right-handed alpha
Helix 38	38	C	1045	1054	Right-handed alpha
Helix 39	39	C	1059	1071	Right-handed alpha
Helix 40	40	C	1082	1094	Right-handed alpha
Helix 41	41	D	14	22	Right-handed alpha
Helix 42	42	D	82	88	Right-handed 310
Helix 43	43	D	102	107	Right-handed alpha
Helix 44	44	D	124	128	Right-handed 310
Helix 45	45	D	155	163	Right-handed alpha
Helix 46	46	D	228	230	Right-handed 310
Helix 47	47	D	457	467	Right-handed alpha
Helix 48	48	D	469	480	Right-handed alpha
Helix 49	49	D	491	504	Right-handed alpha
Helix 50	50	D	521	525	Right-handed 310
Helix 51	51	D	539	554	Right-handed alpha
Helix 52	52	D	563	584	Right-handed alpha
Helix 53	53	D	615	620	Right-handed alpha
Helix 54	54	D	645	664	Right-handed alpha
Helix 55	55	D	669	676	Right-handed alpha
Helix 56	56	D	684	696	Right-handed alpha
Helix 57	57	D	709	711	Right-handed 310
Helix 58	58	D	729	731	Right-handed 310
Helix 59	59	D	732	737	Right-handed alpha
Helix 60	60	D	752	763	Right-handed alpha
Helix 61	61	D	764	768	Right-handed 310
Helix 62	62	D	784	793	Right-handed alpha
Helix 63	63	D	812	822	Right-handed alpha
Helix 64	64	D	835	841	Right-handed alpha
Helix 65	65	D	845	855	Right-handed alpha
Helix 66	66	D	876	889	Right-handed alpha
Helix 67	67	D	892	900	Right-handed alpha
Helix 68	68	D	907	922	Right-handed alpha
Helix 69	69	D	923	945	Right-handed alpha
Helix 70	70	D	950	954	Right-handed 310
Helix 71	71	D	959	981	Right-handed alpha
Helix 72	72	D	984	1014	Right-handed alpha
Helix 73	73	D	1018	1026	Right-handed alpha
Helix 74	74	D	1031	1040	Right-handed alpha
Helix 75	75	D	1066	1073	Right-handed alpha
Helix 76	76	D	1075	1088	Right-handed alpha
Helix 77	77	D	1092	1103	Right-handed alpha
Helix 78	78	D	1136	1145	Right-handed alpha
Helix 79	79	D	1167	1180	Right-handed alpha
Helix 80	80	D	1220	1231	Right-handed alpha
Helix 81	81	D	1232	1234	Right-handed 310
Helix 82	82	J	1254	1264	Right-handed alpha
Helix 83	83	J	1331	1360	Right-handed alpha
Helix 84	84	J	1364	1375	Right-handed alpha
Helix 85	85	J	1395	1403	Right-handed alpha
Helix 86	86	J	1423	1430	Right-handed alpha
Helix 87	87	J	1433	1439	Right-handed alpha
Helix 88	88	J	1442	1453	Right-handed alpha
Helix 89	89	J	1461	1469	Right-handed alpha
Helix 90	90	J	1474	1478	Right-handed 310
Helix 91	91	J	1489	1497	Right-handed alpha
Helix 92	92	K	5	12	Right-handed alpha
Helix 93	93	K	16	33	Right-handed alpha
Helix 94	94	K	59	69	Right-handed alpha
Helix 95	95	K	81	86	Right-handed alpha

There are 46 sheets in PDB entry 1YNJ. 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,

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	182	anti-parallel

Back to list of sheets
Back to top of page

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	58	first strand
Strand 2	A	140	147	anti-parallel
Strand 3	A	99	101	anti-parallel

Back to list of sheets
Back to top of page

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

Back to list of sheets
Back to top of page

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	108	109	first strand
Strand 2	A	130	131	anti-parallel

Back to list of sheets
Back to top of page

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

Back to list of sheets
Back to top of page

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	174	176	first strand
Strand 2	A	200	201	anti-parallel

Back to list of sheets
Back to top of page

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	11	15	first strand
Strand 2	B	21	28	anti-parallel
Strand 3	B	189	201	anti-parallel
Strand 4	B	174	186	anti-parallel

Back to list of sheets
Back to top of page

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	B	96	102	first strand
Strand 2	B	139	147	anti-parallel
Strand 3	B	50	58	anti-parallel
Strand 4	B	165	166	anti-parallel

Back to list of sheets
Back to top of page

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	87	89	first strand
Strand 2	B	120	122	anti-parallel

Back to list of sheets
Back to top of page

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	2	5	first strand
Strand 2	C	899	902	parallel
Strand 3	C	579	580	parallel

Back to list of sheets
Back to top of page

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	93	99	anti-parallel
Strand 3	C	114	117	anti-parallel

Back to list of sheets
Back to top of page

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	C	135	136	first strand
Strand 2	C	392	393	anti-parallel

Back to list of sheets
Back to top of page

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

Back to list of sheets
Back to top of page

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

Back to list of sheets
Back to top of page

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	460	461	first strand
Strand 2	C	467	468	anti-parallel

Back to list of sheets
Back to top of page

There are 6 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	478	483	first strand
Strand 2	C	471	475	anti-parallel
Strand 3	C	531	533	anti-parallel
Strand 4	C	496	497	parallel
Strand 5	C	513	517	anti-parallel
Strand 6	C	520	524	anti-parallel

Back to list of sheets
Back to top of page

There are 3 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	595	596	first strand
Strand 2	C	654	657	anti-parallel
Strand 3	C	640	641	anti-parallel

Back to list of sheets
Back to top of page

There are 3 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	602	606	first strand
Strand 2	C	610	614	anti-parallel
Strand 3	C	621	624	anti-parallel

Back to list of sheets
Back to top of page

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

Back to list of sheets
Back to top of page

There are 8 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	971	972	first strand
Strand 2	C	987	996	anti-parallel
Strand 3	C	838	840	anti-parallel
Strand 4	C	847	853	anti-parallel
Strand 5	C	688	691	parallel
Strand 6	C	869	871	anti-parallel
Strand 7	C	669	676	parallel
Strand 8	C	987	996	anti-parallel

Back to list of sheets
Back to top of page

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	C	703	713	first strand
Strand 2	C	819	830	anti-parallel
Strand 3	C	798	806	anti-parallel
Strand 4	C	748	749	anti-parallel

Back to list of sheets
Back to top of page

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	C	1006	1007	first strand
Strand 2	D	626	628	anti-parallel
Strand 3	D	746	748	anti-parallel
Strand 4	D	700	703	anti-parallel
Strand 5	D	713	716	anti-parallel

Back to list of sheets
Back to top of page

There are 2 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	1030	1031	first strand
Strand 2	D	622	623	anti-parallel

Back to list of sheets
Back to top of page

There are 2 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	1100	1102	first strand
Strand 2	D	7	9	anti-parallel

Back to list of sheets
Back to top of page

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

Back to list of sheets
Back to top of page

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

Back to list of sheets
Back to top of page

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	D	166	170	first strand
Strand 2	D	392	396	anti-parallel
Strand 3	D	201	205	anti-parallel
Strand 4	D	184	185	anti-parallel

Back to list of sheets
Back to top of page

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	D	208	210	first strand
Strand 2	D	388	390	anti-parallel

Back to list of sheets
Back to top of page

There are 5 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	318	327	first strand
Strand 2	D	330	343	anti-parallel
Strand 3	D	213	226	anti-parallel
Strand 4	D	383	385	anti-parallel
Strand 5	D	359	361	anti-parallel

Back to list of sheets
Back to top of page

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	241	244	first strand
Strand 2	D	303	312	anti-parallel
Strand 3	D	249	252	anti-parallel

Back to list of sheets
Back to top of page

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	241	244	first strand
Strand 2	D	303	312	anti-parallel
Strand 3	D	286	290	anti-parallel

Back to list of sheets
Back to top of page

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	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

Back to list of sheets
Back to top of page

There are 2 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	352	353	first strand
Strand 2	D	368	369	anti-parallel

Back to list of sheets
Back to top of page

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	D	365	366	first strand
Strand 2	D	378	379	anti-parallel

Back to list of sheets
Back to top of page

There are 4 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	399	402	first strand
Strand 2	D	443	448	anti-parallel
Strand 3	D	433	438	anti-parallel
Strand 4	D	414	415	anti-parallel

Back to list of sheets
Back to top of page

There are 2 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	420	422	first strand
Strand 2	D	427	428	anti-parallel

Back to list of sheets
Back to top of page

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	528	530	first strand
Strand 2	D	534	536	anti-parallel

Back to list of sheets
Back to top of page

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	631	633	first strand
Strand 2	D	726	728	parallel

Back to list of sheets
Back to top of page

There are 3 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	842	843	first strand
Strand 2	D	865	868	parallel
Strand 3	D	871	873	anti-parallel

Back to list of sheets
Back to top of page

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	1118	1121	first strand
Strand 2	D	1185	1189	anti-parallel
Strand 3	D	1148	1149	anti-parallel

Back to list of sheets
Back to top of page

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	1123	1125	first strand
Strand 2	D	1132	1134	anti-parallel

Back to list of sheets
Back to top of page

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	1153	1155	first strand
Strand 2	D	1158	1160	anti-parallel

Back to list of sheets
Back to top of page

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	1300	1304	first strand
Strand 2	J	1291	1295	anti-parallel
Strand 3	J	1279	1284	anti-parallel
Strand 4	J	1318	1319	anti-parallel

Back to list of sheets
Back to top of page

There are 3 strands in AR 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

Back to list of sheets
Back to top of page

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	J	1485	1488	first strand
Strand 2	K	73	76	anti-parallel

Back to list of sheets
Back to top of page

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	47	48	first strand
Strand 2	K	55	56	anti-parallel

Back to list of sheets
Back to top of page

Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il

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

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