Analysis of interatomic Contacts of Structural Units in PDB entry:
1YJ9

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 1YJ9 entry

There are 35 chains in PDB entry 1YJ9 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
0	U 10	G 627
0	A 629	U 2586
0	U 2589	G 2618
0	U 2620	U 2620
0	A 2622	A 2914
9	U 1	C 122
A	GLY 1	GLY 237
B	PRO 1	GLY 337
C	MET 1	ARG 246
D	PHE 10	VAL 174
E	PRO 1	PRO 172
F	PRO 1	ARG 119
G	ILE 12	ASP 73
H	LYS 4	LEU 174
I	GLY 66	GLU 135
J	ALA 4	TRP 145
K	MET 1	VAL 132
L	THR 1	GLN 150
M	ALA 1	GLY 194
N	ALA 1	LEU 186
O	SER 1	ARG 115
P	THR 1	ALA 143
Q	PRO 1	GLU 95
R	GLY 1	PRO 150
S	SER 1	ILE 81
T	SER 1	ALA 119
U	ARG 4	ARG 56
V	THR 1	ASP 65
W	MET 1	ARG 154
X	GLU 7	GLU 88
Y	THR 95	VAL 236
Z	ARG 10	SER 82
1	THR 1	GLU 56
2	GLY 1	GLU 49
3	MET 1	GLU 92

There are144 helices in PDB entry 1YJ9. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	4	11	Right-handed alpha
Helix 2	2	A	13	17	Right-handed 310
Helix 3	3	A	19	23	Right-handed 310
Helix 4	4	A	163	167	Right-handed 310
Helix 5	5	A	171	180	Right-handed alpha
Helix 6	6	A	190	194	Right-handed 310
Helix 7	7	A	195	199	Right-handed 310
Helix 8	8	B	108	112	Right-handed 310
Helix 9	9	B	120	135	Right-handed alpha
Helix 10	10	B	147	151	Right-handed 310
Helix 11	11	B	172	184	Right-handed alpha
Helix 12	12	B	189	194	Right-handed alpha
Helix 13	13	B	213	219	Right-handed alpha
Helix 14	14	B	224	229	Right-handed alpha
Helix 15	15	C	19	24	Right-handed 310
Helix 16	16	C	27	42	Right-handed alpha
Helix 17	17	C	103	120	Right-handed alpha
Helix 18	18	C	120	127	Right-handed alpha
Helix 19	19	C	141	147	Right-handed 310
Helix 20	20	C	149	159	Right-handed alpha
Helix 21	21	C	163	170	Right-handed alpha
Helix 22	22	C	177	183	Right-handed 310
Helix 23	23	C	201	206	Right-handed alpha
Helix 24	24	C	219	224	Right-handed alpha
Helix 25	25	C	225	228	Right-handed 310
Helix 26	26	C	238	244	Right-handed alpha
Helix 27	27	D	36	44	Right-handed alpha
Helix 28	28	D	76	85	Right-handed alpha
Helix 29	29	D	87	91	Right-handed 310
Helix 30	30	D	139	144	Right-handed alpha
Helix 31	31	D	152	156	Right-handed 310
Helix 32	32	D	158	166	Right-handed alpha
Helix 33	33	E	55	78	Right-handed alpha
Helix 34	34	E	106	110	Right-handed 310
Helix 35	35	E	137	152	Right-handed alpha
Helix 36	36	F	9	27	Right-handed alpha
Helix 37	37	F	32	42	Right-handed alpha
Helix 38	38	F	57	62	Right-handed alpha
Helix 39	39	F	62	68	Right-handed alpha
Helix 40	40	F	79	88	Right-handed alpha
Helix 41	41	F	104	119	Right-handed alpha
Helix 42	42	G	13	29	Right-handed alpha
Helix 43	43	G	63	72	Right-handed alpha
Helix 44	44	H	5	9	Right-handed 310
Helix 45	45	H	62	81	Right-handed alpha
Helix 46	46	H	145	157	Right-handed alpha
Helix 47	47	I	69	74	Right-handed alpha
Helix 48	48	I	97	102	Right-handed alpha
Helix 49	49	I	102	107	Right-handed alpha
Helix 50	50	I	115	126	Right-handed alpha
Helix 51	51	J	18	31	Right-handed alpha
Helix 52	52	J	40	43	Right-handed 310
Helix 53	53	J	49	63	Right-handed alpha
Helix 54	54	J	74	85	Right-handed alpha
Helix 55	55	J	91	100	Right-handed alpha
Helix 56	56	J	122	126	Right-handed 310
Helix 57	57	J	132	140	Right-handed alpha
Helix 58	58	K	114	119	Right-handed alpha
Helix 59	59	K	121	126	Right-handed alpha
Helix 60	60	L	2	7	Right-handed alpha
Helix 61	61	L	23	28	Right-handed 310
Helix 62	62	L	54	58	Right-handed 310
Helix 63	63	L	66	72	Right-handed alpha
Helix 64	64	L	94	96	Right-handed 310
Helix 65	65	L	126	135	Right-handed alpha
Helix 66	66	M	4	12	Right-handed alpha
Helix 67	67	M	17	32	Right-handed alpha
Helix 68	68	M	45	53	Right-handed alpha
Helix 69	69	M	82	87	Right-handed 310
Helix 70	70	M	96	109	Right-handed alpha
Helix 71	71	M	138	143	Right-handed alpha
Helix 72	72	M	147	156	Right-handed 310
Helix 73	73	M	157	162	Right-handed 310
Helix 74	74	M	164	171	Right-handed alpha
Helix 75	75	M	187	191	Right-handed 310
Helix 76	76	N	10	15	Right-handed alpha
Helix 77	77	N	19	29	Right-handed alpha
Helix 78	78	N	66	70	Right-handed 310
Helix 79	79	N	77	96	Right-handed alpha
Helix 80	80	N	113	125	Right-handed alpha
Helix 81	81	N	132	136	Right-handed 310
Helix 82	82	N	138	144	Right-handed alpha
Helix 83	83	N	144	149	Right-handed alpha
Helix 84	84	N	168	180	Right-handed alpha
Helix 85	85	O	4	21	Right-handed alpha
Helix 86	86	O	24	34	Right-handed alpha
Helix 87	87	O	36	40	Right-handed 310
Helix 88	88	O	45	52	Right-handed alpha
Helix 89	89	O	82	93	Right-handed alpha
Helix 90	90	O	98	105	Right-handed alpha
Helix 91	91	P	3	14	Right-handed alpha
Helix 92	92	P	27	34	Right-handed alpha
Helix 93	93	P	36	46	Right-handed alpha
Helix 94	94	P	59	71	Right-handed alpha
Helix 95	95	P	76	80	Right-handed 310
Helix 96	96	P	83	88	Right-handed alpha
Helix 97	97	P	89	110	Right-handed alpha
Helix 98	98	P	117	127	Right-handed alpha
Helix 99	99	P	133	142	Right-handed alpha
Helix 100	100	Q	17	21	Right-handed 310
Helix 101	101	Q	25	30	Right-handed alpha
Helix 102	102	Q	53	57	Right-handed 310
Helix 103	103	Q	87	89	Right-handed 310
Helix 104	104	R	9	11	Right-handed 310
Helix 105	105	R	24	36	Right-handed alpha
Helix 106	106	R	39	53	Right-handed alpha
Helix 107	107	R	81	101	Right-handed alpha
Helix 108	108	R	105	109	Right-handed 310
Helix 109	109	S	11	22	Right-handed alpha
Helix 110	110	S	33	45	Right-handed alpha
Helix 111	111	S	73	81	Right-handed alpha
Helix 112	112	T	3	13	Right-handed alpha
Helix 113	113	T	15	20	Right-handed alpha
Helix 114	114	T	28	36	Right-handed alpha
Helix 115	115	T	92	94	Right-handed 310
Helix 116	116	T	105	114	Right-handed alpha
Helix 117	117	U	33	42	Right-handed alpha
Helix 118	118	U	45	49	Right-handed 310
Helix 119	119	V	4	10	Right-handed alpha
Helix 120	120	V	12	36	Right-handed alpha
Helix 121	121	V	45	63	Right-handed alpha
Helix 122	122	W	14	24	Right-handed alpha
Helix 123	123	W	38	49	Right-handed alpha
Helix 124	124	W	58	70	Right-handed alpha
Helix 125	125	W	80	88	Right-handed alpha
Helix 126	126	W	92	102	Right-handed alpha
Helix 127	127	W	142	153	Right-handed alpha
Helix 128	128	X	14	19	Right-handed 310
Helix 129	129	X	21	23	Right-handed 310
Helix 130	130	X	24	41	Right-handed alpha
Helix 131	131	X	51	60	Right-handed alpha
Helix 132	132	Y	110	124	Right-handed alpha
Helix 133	133	Y	165	169	Right-handed 310
Helix 134	134	Y	189	194	Right-handed 310
Helix 135	135	Y	210	224	Right-handed alpha
Helix 136	136	Z	10	15	Right-handed 310
Helix 137	137	Z	19	34	Right-handed alpha
Helix 138	138	Z	73	81	Right-handed alpha
Helix 139	139	1	4	9	Right-handed alpha
Helix 140	140	1	48	52	Right-handed 310
Helix 141	141	2	4	18	Right-handed alpha
Helix 142	142	2	22	29	Right-handed alpha
Helix 143	143	3	34	44	Right-handed alpha
Helix 144	144	3	49	54	Right-handed 310

There are 47 sheets in PDB entry 1YJ9. 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,

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	65	69	first strand
Strand 2	A	54	60	anti-parallel
Strand 3	A	39	47	anti-parallel
Strand 4	A	79	81	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	A	93	95	first strand
Strand 2	A	153	156	anti-parallel
Strand 3	A	104	106	anti-parallel
Strand 4	A	126	127	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	136	139	first strand
Strand 2	A	145	148	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	214	215	first strand
Strand 2	A	227	228	parallel

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There are 5 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	37	38	first strand
Strand 2	B	162	167	anti-parallel
Strand 3	B	137	145	anti-parallel
Strand 4	B	79	90	anti-parallel
Strand 5	B	93	100	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	37	38	first strand
Strand 2	B	162	167	anti-parallel
Strand 3	B	137	145	anti-parallel
Strand 4	B	79	90	anti-parallel
Strand 5	B	187	188	anti-parallel

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There are 8 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	327	330	first strand
Strand 2	B	41	54	anti-parallel
Strand 3	B	308	313	anti-parallel
Strand 4	B	199	205	anti-parallel
Strand 5	B	261	275	anti-parallel
Strand 6	B	292	298	anti-parallel
Strand 7	B	66	75	anti-parallel
Strand 8	B	41	54	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	211	212	first strand
Strand 2	B	255	256	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	C	2	3	first strand
Strand 2	C	16	17	anti-parallel

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There are 2 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	72	73	first strand
Strand 2	C	76	77	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	C	138	140	first strand
Strand 2	C	233	236	parallel
Strand 3	C	193	196	parallel
Strand 4	C	211	214	parallel

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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	173	174	first strand
Strand 2	C	186	187	anti-parallel

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There are 5 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	50	52	first strand
Strand 2	D	70	75	anti-parallel
Strand 3	D	18	26	anti-parallel
Strand 4	D	129	134	anti-parallel
Strand 5	D	103	106	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	E	2	6	first strand
Strand 2	E	46	51	anti-parallel
Strand 3	E	38	42	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	E	12	16	first strand
Strand 2	E	19	24	anti-parallel
Strand 3	E	27	32	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	123	127	first strand
Strand 2	E	130	135	anti-parallel
Strand 3	E	80	87	anti-parallel
Strand 4	E	165	170	anti-parallel

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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	E	95	96	first strand
Strand 2	E	103	104	anti-parallel
Strand 3	E	114	115	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	F	28	31	first strand
Strand 2	F	95	99	anti-parallel
Strand 3	F	47	51	anti-parallel
Strand 4	F	74	77	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	H	87	90	first strand
Strand 2	H	135	141	anti-parallel
Strand 3	H	48	54	anti-parallel
Strand 4	H	164	170	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	H	58	61	first strand
Strand 2	H	125	130	anti-parallel
Strand 3	H	96	98	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	I	94	95	first strand
Strand 2	I	133	134	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	10	13	first strand
Strand 2	J	36	39	parallel
Strand 3	J	101	103	parallel

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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	J	45	47	first strand
Strand 2	J	129	131	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	K	7	8	first strand
Strand 2	K	80	81	anti-parallel
Strand 3	K	87	90	anti-parallel
Strand 4	U	19	22	parallel
Strand 5	U	28	31	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	K	12	13	first strand
Strand 2	K	46	47	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	17	20	first strand
Strand 2	K	28	34	anti-parallel
Strand 3	K	52	57	anti-parallel
Strand 4	K	68	75	anti-parallel
Strand 5	K	94	98	anti-parallel
Strand 6	K	17	20	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	L	62	65	first strand
Strand 2	L	106	109	parallel
Strand 3	L	124	125	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	L	90	92	first strand
Strand 2	L	119	122	parallel
Strand 3	L	139	142	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	37	39	first strand
Strand 2	M	60	68	anti-parallel
Strand 3	M	126	134	anti-parallel
Strand 4	M	113	122	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	N	56	62	first strand
Strand 2	N	43	49	anti-parallel
Strand 3	N	33	38	anti-parallel
Strand 4	N	101	103	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	O	41	44	first strand
Strand 2	O	57	65	parallel
Strand 3	O	75	81	parallel
Strand 4	O	94	97	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	41	44	first strand
Strand 2	O	57	65	parallel
Strand 3	O	111	113	parallel

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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	P	21	23	first strand
Strand 2	P	49	51	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	80	86	first strand
Strand 2	Q	70	77	anti-parallel
Strand 3	Q	60	67	anti-parallel
Strand 4	Q	38	41	anti-parallel
Strand 5	Q	91	93	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	R	13	22	first strand
Strand 2	R	140	148	anti-parallel
Strand 3	R	110	118	anti-parallel

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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	R	57	58	first strand
Strand 2	R	78	79	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	5	8	first strand
Strand 2	S	23	28	anti-parallel
Strand 3	S	62	68	anti-parallel
Strand 4	S	49	56	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	T	39	41	first strand
Strand 2	T	24	27	anti-parallel
Strand 3	T	96	98	parallel
Strand 4	T	47	50	anti-parallel
Strand 5	T	59	66	anti-parallel
Strand 6	T	71	74	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	T	78	80	first strand
Strand 2	T	86	88	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	W	116	117	first strand
Strand 2	W	31	35	anti-parallel
Strand 3	W	2	6	anti-parallel
Strand 4	W	52	55	anti-parallel
Strand 5	W	139	140	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	8	11	first strand
Strand 2	X	71	76	anti-parallel
Strand 3	X	83	86	anti-parallel
Strand 4	X	48	50	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	Y	96	99	first strand
Strand 2	Y	233	236	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	Y	183	187	first strand
Strand 2	Y	201	205	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Z	37	38	first strand
Strand 2	Z	45	49	anti-parallel
Strand 3	Z	54	57	anti-parallel
Strand 4	Z	63	65	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	1	16	18	first strand
Strand 2	1	25	28	anti-parallel
Strand 3	1	33	34	anti-parallel

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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	3	2	4	first strand
Strand 2	3	89	91	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	3	6	9	first strand
Strand 2	3	18	24	anti-parallel
Strand 3	3	67	71	anti-parallel
Strand 4	3	77	78	anti-parallel

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Analysis of interatomic Contacts of Structural Units in PDB entry: 1YJ9

Analysis of interatomic Contacts of Structural Units in PDB entry:
1YJ9