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

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 1YDE entry

There are 16 chains in PDB entry 1YDE (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 4	TYR 253
B	THR 3	ALA 257
C	GLY 4	TYR 253
D	GLY 4	SER 258
E	GLY 4	TYR 253
F	GLY 4	ARG 259
G	ARG 6	GLY 252
H	THR 5	SER 258
I	TYR 7	TYR 253
J	GLY 4	SER 258
K	GLY 4	TYR 253
L	GLY 4	SER 258
M	LYS 10	TYR 253
N	LYS 10	ALA 257
O	TYR 7	TYR 253
P	ARG 6	ARG 259

There are190 helices in PDB entry 1YDE. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	19	32	Right-handed alpha
Helix 2	2	A	42	53	Right-handed alpha
Helix 3	3	A	65	81	Right-handed alpha
Helix 4	4	A	98	102	Right-handed 310
Helix 5	5	A	103	115	Right-handed alpha
Helix 6	6	A	115	133	Right-handed alpha
Helix 7	7	A	141	147	Right-handed alpha
Helix 8	8	A	151	173	Right-handed alpha
Helix 9	9	A	174	176	Right-handed 310
Helix 10	10	A	189	197	Right-handed alpha
Helix 11	11	A	201	212	Right-handed alpha
Helix 12	12	A	220	235	Right-handed alpha
Helix 13	13	B	19	32	Right-handed alpha
Helix 14	14	B	42	53	Right-handed alpha
Helix 15	15	B	65	81	Right-handed alpha
Helix 16	16	B	98	102	Right-handed 310
Helix 17	17	B	103	115	Right-handed alpha
Helix 18	18	B	115	133	Right-handed alpha
Helix 19	19	B	141	147	Right-handed alpha
Helix 20	20	B	151	173	Right-handed alpha
Helix 21	21	B	174	176	Right-handed 310
Helix 22	22	B	202	211	Right-handed alpha
Helix 23	23	B	220	235	Right-handed alpha
Helix 24	24	C	19	32	Right-handed alpha
Helix 25	25	C	42	53	Right-handed alpha
Helix 26	26	C	65	81	Right-handed alpha
Helix 27	27	C	98	102	Right-handed 310
Helix 28	28	C	103	115	Right-handed alpha
Helix 29	29	C	115	133	Right-handed alpha
Helix 30	30	C	142	147	Right-handed alpha
Helix 31	31	C	151	173	Right-handed alpha
Helix 32	32	C	174	176	Right-handed 310
Helix 33	33	C	189	197	Right-handed alpha
Helix 34	34	C	201	211	Right-handed alpha
Helix 35	35	C	220	235	Right-handed alpha
Helix 36	36	D	19	32	Right-handed alpha
Helix 37	37	D	42	53	Right-handed alpha
Helix 38	38	D	65	81	Right-handed alpha
Helix 39	39	D	98	102	Right-handed 310
Helix 40	40	D	103	115	Right-handed alpha
Helix 41	41	D	115	133	Right-handed alpha
Helix 42	42	D	142	147	Right-handed alpha
Helix 43	43	D	151	173	Right-handed alpha
Helix 44	44	D	174	176	Right-handed 310
Helix 45	45	D	189	198	Right-handed alpha
Helix 46	46	D	201	211	Right-handed alpha
Helix 47	47	D	220	234	Right-handed alpha
Helix 48	48	E	19	32	Right-handed alpha
Helix 49	49	E	42	53	Right-handed alpha
Helix 50	50	E	65	81	Right-handed alpha
Helix 51	51	E	98	102	Right-handed 310
Helix 52	52	E	103	115	Right-handed alpha
Helix 53	53	E	115	133	Right-handed alpha
Helix 54	54	E	141	147	Right-handed alpha
Helix 55	55	E	151	173	Right-handed alpha
Helix 56	56	E	174	176	Right-handed 310
Helix 57	57	E	189	197	Right-handed alpha
Helix 58	58	E	201	211	Right-handed alpha
Helix 59	59	E	220	234	Right-handed alpha
Helix 60	60	F	19	32	Right-handed alpha
Helix 61	61	F	42	53	Right-handed alpha
Helix 62	62	F	65	81	Right-handed alpha
Helix 63	63	F	98	102	Right-handed 310
Helix 64	64	F	103	115	Right-handed alpha
Helix 65	65	F	115	133	Right-handed alpha
Helix 66	66	F	141	147	Right-handed alpha
Helix 67	67	F	151	173	Right-handed alpha
Helix 68	68	F	174	176	Right-handed 310
Helix 69	69	F	189	198	Right-handed alpha
Helix 70	70	F	201	212	Right-handed alpha
Helix 71	71	F	220	234	Right-handed alpha
Helix 72	72	G	19	32	Right-handed alpha
Helix 73	73	G	42	53	Right-handed alpha
Helix 74	74	G	65	81	Right-handed alpha
Helix 75	75	G	98	102	Right-handed 310
Helix 76	76	G	103	115	Right-handed alpha
Helix 77	77	G	115	133	Right-handed alpha
Helix 78	78	G	141	147	Right-handed alpha
Helix 79	79	G	151	173	Right-handed alpha
Helix 80	80	G	174	176	Right-handed 310
Helix 81	81	G	189	198	Right-handed alpha
Helix 82	82	G	201	211	Right-handed alpha
Helix 83	83	G	220	235	Right-handed alpha
Helix 84	84	H	19	32	Right-handed alpha
Helix 85	85	H	42	53	Right-handed alpha
Helix 86	86	H	65	81	Right-handed alpha
Helix 87	87	H	98	102	Right-handed 310
Helix 88	88	H	103	115	Right-handed alpha
Helix 89	89	H	115	133	Right-handed alpha
Helix 90	90	H	142	147	Right-handed alpha
Helix 91	91	H	151	173	Right-handed alpha
Helix 92	92	H	174	176	Right-handed 310
Helix 93	93	H	189	197	Right-handed alpha
Helix 94	94	H	201	211	Right-handed alpha
Helix 95	95	H	220	234	Right-handed alpha
Helix 96	96	I	19	32	Right-handed alpha
Helix 97	97	I	42	53	Right-handed alpha
Helix 98	98	I	65	81	Right-handed alpha
Helix 99	99	I	98	102	Right-handed 310
Helix 100	100	I	103	115	Right-handed alpha
Helix 101	101	I	115	133	Right-handed alpha
Helix 102	102	I	141	147	Right-handed alpha
Helix 103	103	I	151	173	Right-handed alpha
Helix 104	104	I	174	176	Right-handed 310
Helix 105	105	I	189	197	Right-handed alpha
Helix 106	106	I	201	211	Right-handed alpha
Helix 107	107	I	220	234	Right-handed alpha
Helix 108	108	J	19	32	Right-handed alpha
Helix 109	109	J	42	53	Right-handed alpha
Helix 110	110	J	65	81	Right-handed alpha
Helix 111	111	J	98	102	Right-handed 310
Helix 112	112	J	103	115	Right-handed alpha
Helix 113	113	J	115	133	Right-handed alpha
Helix 114	114	J	142	147	Right-handed alpha
Helix 115	115	J	151	173	Right-handed alpha
Helix 116	116	J	174	176	Right-handed 310
Helix 117	117	J	189	197	Right-handed alpha
Helix 118	118	J	201	212	Right-handed alpha
Helix 119	119	J	220	234	Right-handed alpha
Helix 120	120	K	19	32	Right-handed alpha
Helix 121	121	K	42	53	Right-handed alpha
Helix 122	122	K	65	81	Right-handed alpha
Helix 123	123	K	98	102	Right-handed 310
Helix 124	124	K	103	115	Right-handed alpha
Helix 125	125	K	115	133	Right-handed alpha
Helix 126	126	K	141	147	Right-handed alpha
Helix 127	127	K	151	173	Right-handed alpha
Helix 128	128	K	174	176	Right-handed 310
Helix 129	129	K	189	197	Right-handed alpha
Helix 130	130	K	201	211	Right-handed alpha
Helix 131	131	K	220	234	Right-handed alpha
Helix 132	132	L	19	32	Right-handed alpha
Helix 133	133	L	42	53	Right-handed alpha
Helix 134	134	L	65	81	Right-handed alpha
Helix 135	135	L	98	102	Right-handed 310
Helix 136	136	L	103	115	Right-handed alpha
Helix 137	137	L	115	133	Right-handed alpha
Helix 138	138	L	142	147	Right-handed alpha
Helix 139	139	L	151	173	Right-handed alpha
Helix 140	140	L	174	176	Right-handed 310
Helix 141	141	L	189	198	Right-handed alpha
Helix 142	142	L	201	212	Right-handed alpha
Helix 143	143	L	220	234	Right-handed alpha
Helix 144	144	M	19	32	Right-handed alpha
Helix 145	145	M	42	53	Right-handed alpha
Helix 146	146	M	65	81	Right-handed alpha
Helix 147	147	M	98	102	Right-handed 310
Helix 148	148	M	103	115	Right-handed alpha
Helix 149	149	M	115	133	Right-handed alpha
Helix 150	150	M	142	147	Right-handed alpha
Helix 151	151	M	151	173	Right-handed alpha
Helix 152	152	M	174	176	Right-handed 310
Helix 153	153	M	189	197	Right-handed alpha
Helix 154	154	M	201	211	Right-handed alpha
Helix 155	155	M	220	234	Right-handed alpha
Helix 156	156	N	19	32	Right-handed alpha
Helix 157	157	N	42	53	Right-handed alpha
Helix 158	158	N	65	81	Right-handed alpha
Helix 159	159	N	98	102	Right-handed 310
Helix 160	160	N	103	115	Right-handed alpha
Helix 161	161	N	115	133	Right-handed alpha
Helix 162	162	N	142	147	Right-handed alpha
Helix 163	163	N	151	173	Right-handed alpha
Helix 164	164	N	174	176	Right-handed 310
Helix 165	165	N	202	211	Right-handed alpha
Helix 166	166	N	220	234	Right-handed alpha
Helix 167	167	O	19	32	Right-handed alpha
Helix 168	168	O	42	53	Right-handed alpha
Helix 169	169	O	65	81	Right-handed alpha
Helix 170	170	O	98	102	Right-handed 310
Helix 171	171	O	103	115	Right-handed alpha
Helix 172	172	O	115	133	Right-handed alpha
Helix 173	173	O	142	147	Right-handed alpha
Helix 174	174	O	151	173	Right-handed alpha
Helix 175	175	O	174	176	Right-handed 310
Helix 176	176	O	189	197	Right-handed alpha
Helix 177	177	O	201	211	Right-handed alpha
Helix 178	178	O	220	234	Right-handed alpha
Helix 179	179	P	19	32	Right-handed alpha
Helix 180	180	P	42	53	Right-handed alpha
Helix 181	181	P	65	81	Right-handed alpha
Helix 182	182	P	98	102	Right-handed 310
Helix 183	183	P	103	115	Right-handed alpha
Helix 184	184	P	115	133	Right-handed alpha
Helix 185	185	P	142	147	Right-handed alpha
Helix 186	186	P	151	173	Right-handed alpha
Helix 187	187	P	174	176	Right-handed 310
Helix 188	188	P	189	198	Right-handed alpha
Helix 189	189	P	202	211	Right-handed alpha
Helix 190	190	P	220	234	Right-handed alpha

There are 16 sheets in PDB entry 1YDE. 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,

There are 7 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	56	60	first strand
Strand 2	A	35	40	parallel
Strand 3	A	11	15	parallel
Strand 4	A	85	88	parallel
Strand 5	A	135	139	parallel
Strand 6	A	178	184	parallel
Strand 7	A	242	245	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	56	60	first strand
Strand 2	B	35	40	parallel
Strand 3	B	11	15	parallel
Strand 4	B	85	88	parallel
Strand 5	B	135	139	parallel
Strand 6	B	178	184	parallel
Strand 7	B	242	245	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	56	60	first strand
Strand 2	C	35	40	parallel
Strand 3	C	11	15	parallel
Strand 4	C	85	88	parallel
Strand 5	C	135	139	parallel
Strand 6	C	178	184	parallel
Strand 7	C	242	245	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	D	56	60	first strand
Strand 2	D	35	40	parallel
Strand 3	D	11	15	parallel
Strand 4	D	85	88	parallel
Strand 5	D	135	139	parallel
Strand 6	D	178	184	parallel
Strand 7	D	242	245	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	56	60	first strand
Strand 2	E	35	40	parallel
Strand 3	E	11	15	parallel
Strand 4	E	85	88	parallel
Strand 5	E	135	139	parallel
Strand 6	E	178	184	parallel
Strand 7	E	242	245	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	56	60	first strand
Strand 2	F	35	40	parallel
Strand 3	F	11	15	parallel
Strand 4	F	85	88	parallel
Strand 5	F	135	139	parallel
Strand 6	F	178	184	parallel
Strand 7	F	242	245	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	56	60	first strand
Strand 2	G	35	40	parallel
Strand 3	G	11	15	parallel
Strand 4	G	85	88	parallel
Strand 5	G	135	139	parallel
Strand 6	G	178	184	parallel
Strand 7	G	242	245	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	56	60	first strand
Strand 2	H	35	40	parallel
Strand 3	H	11	15	parallel
Strand 4	H	85	88	parallel
Strand 5	H	135	139	parallel
Strand 6	H	178	184	parallel
Strand 7	H	242	245	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	56	60	first strand
Strand 2	I	35	40	parallel
Strand 3	I	11	15	parallel
Strand 4	I	85	88	parallel
Strand 5	I	135	139	parallel
Strand 6	I	178	184	parallel
Strand 7	I	242	245	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	56	60	first strand
Strand 2	J	35	40	parallel
Strand 3	J	11	15	parallel
Strand 4	J	85	88	parallel
Strand 5	J	135	139	parallel
Strand 6	J	178	184	parallel
Strand 7	J	242	245	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	56	60	first strand
Strand 2	K	35	40	parallel
Strand 3	K	11	15	parallel
Strand 4	K	85	88	parallel
Strand 5	K	135	139	parallel
Strand 6	K	178	184	parallel
Strand 7	K	242	245	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	56	60	first strand
Strand 2	L	35	40	parallel
Strand 3	L	11	15	parallel
Strand 4	L	85	88	parallel
Strand 5	L	135	139	parallel
Strand 6	L	178	184	parallel
Strand 7	L	242	245	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	56	60	first strand
Strand 2	M	35	40	parallel
Strand 3	M	11	15	parallel
Strand 4	M	85	88	parallel
Strand 5	M	135	139	parallel
Strand 6	M	178	184	parallel
Strand 7	M	242	245	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	56	60	first strand
Strand 2	N	35	40	parallel
Strand 3	N	11	15	parallel
Strand 4	N	85	88	parallel
Strand 5	N	135	139	parallel
Strand 6	N	178	184	parallel
Strand 7	N	242	245	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	56	60	first strand
Strand 2	O	35	40	parallel
Strand 3	O	11	15	parallel
Strand 4	O	85	88	parallel
Strand 5	O	135	139	parallel
Strand 6	O	178	184	parallel
Strand 7	O	242	245	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	56	60	first strand
Strand 2	P	35	40	parallel
Strand 3	P	11	15	parallel
Strand 4	P	85	88	parallel
Strand 5	P	135	139	parallel
Strand 6	P	178	184	parallel
Strand 7	P	242	245	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: 1YDE

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