Analysis of interatomic Contacts of Structural Units in PDB entry:
4MD9

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 4MD9 entry

There are 6 chains in PDB entry 4MD9 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	VAL 7	PHE 207
B	GLU 6	PHE 207
C	GLU 6	PHE 207
D	GLU 6	PHE 207
E	SER 2	ASP 330
F	PRO 4	ILE 95

There are240 helices in PDB entry 4MD9. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	8	15	Right-handed alpha
Helix 2	2	A	26	32	Right-handed alpha
Helix 3	3	A	33	37	Right-handed 310
Helix 4	4	A	38	42	Right-handed 310
Helix 5	5	A	45	54	Right-handed alpha
Helix 6	6	A	65	88	Right-handed alpha
Helix 7	7	A	90	104	Right-handed alpha
Helix 8	8	A	111	115	Right-handed 310
Helix 9	9	A	148	152	Right-handed 310
Helix 10	10	A	155	159	Right-handed 310
Helix 11	11	A	162	171	Right-handed alpha
Helix 12	12	A	172	175	Right-handed 310
Helix 13	13	A	194	206	Right-handed alpha
Helix 14	14	B	8	16	Right-handed alpha
Helix 15	15	B	26	32	Right-handed alpha
Helix 16	16	B	33	37	Right-handed 310
Helix 17	17	B	38	42	Right-handed 310
Helix 18	18	B	45	54	Right-handed alpha
Helix 19	19	B	67	88	Right-handed alpha
Helix 20	20	B	90	102	Right-handed alpha
Helix 21	21	B	111	115	Right-handed 310
Helix 22	22	B	148	152	Right-handed 310
Helix 23	23	B	155	159	Right-handed 310
Helix 24	24	B	162	171	Right-handed alpha
Helix 25	25	B	172	175	Right-handed 310
Helix 26	26	B	194	206	Right-handed alpha
Helix 27	27	C	8	15	Right-handed alpha
Helix 28	28	C	26	32	Right-handed alpha
Helix 29	29	C	38	42	Right-handed 310
Helix 30	30	C	45	54	Right-handed alpha
Helix 31	31	C	67	88	Right-handed alpha
Helix 32	32	C	90	104	Right-handed alpha
Helix 33	33	C	111	115	Right-handed 310
Helix 34	34	C	148	152	Right-handed 310
Helix 35	35	C	155	159	Right-handed 310
Helix 36	36	C	162	171	Right-handed alpha
Helix 37	37	C	172	175	Right-handed 310
Helix 38	38	C	194	206	Right-handed alpha
Helix 39	39	D	8	14	Right-handed alpha
Helix 40	40	D	26	32	Right-handed alpha
Helix 41	41	D	33	37	Right-handed 310
Helix 42	42	D	45	54	Right-handed alpha
Helix 43	43	D	66	88	Right-handed alpha
Helix 44	44	D	90	102	Right-handed alpha
Helix 45	45	D	111	115	Right-handed 310
Helix 46	46	D	148	152	Right-handed 310
Helix 47	47	D	155	159	Right-handed 310
Helix 48	48	D	162	171	Right-handed alpha
Helix 49	49	D	172	175	Right-handed 310
Helix 50	50	D	194	206	Right-handed alpha
Helix 51	51	E	14	19	Right-handed alpha
Helix 52	52	E	20	25	Right-handed alpha
Helix 53	53	E	26	29	Right-handed 310
Helix 54	54	E	35	37	Right-handed 310
Helix 55	55	E	74	89	Right-handed alpha
Helix 56	56	E	120	125	Right-handed alpha
Helix 57	57	E	129	150	Right-handed alpha
Helix 58	58	E	194	198	Right-handed 310
Helix 59	59	E	199	204	Right-handed alpha
Helix 60	60	E	211	226	Right-handed alpha
Helix 61	61	E	237	250	Right-handed alpha
Helix 62	62	E	251	261	Right-handed alpha
Helix 63	63	E	266	268	Right-handed 310
Helix 64	64	E	269	274	Right-handed alpha
Helix 65	65	E	280	285	Right-handed 310
Helix 66	66	E	294	303	Right-handed alpha
Helix 67	67	E	314	320	Right-handed alpha
Helix 68	68	E	321	325	Right-handed 310
Helix 69	69	F	20	25	Right-handed alpha
Helix 70	70	F	26	29	Right-handed 310
Helix 71	71	F	35	37	Right-handed 310
Helix 72	72	F	74	88	Right-handed alpha
Helix 73	73	F	121	126	Right-handed alpha
Helix 74	74	F	129	150	Right-handed alpha
Helix 75	75	F	158	160	Right-handed 310
Helix 76	76	F	166	169	Right-handed 310
Helix 77	77	F	199	204	Right-handed alpha
Helix 78	78	F	211	227	Right-handed alpha
Helix 79	79	F	237	250	Right-handed alpha
Helix 80	80	F	250	261	Right-handed alpha
Helix 81	81	F	268	273	Right-handed alpha
Helix 82	82	F	280	284	Right-handed 310
Helix 83	83	F	289	293	Right-handed 310
Helix 84	84	F	294	305	Right-handed alpha
Helix 85	85	F	308	312	Right-handed 310
Helix 86	86	F	314	320	Right-handed alpha
Helix 87	87	F	321	325	Right-handed 310
Helix 88	88	G	14	19	Right-handed alpha
Helix 89	89	G	25	29	Right-handed 310
Helix 90	90	G	35	37	Right-handed 310
Helix 91	91	G	74	89	Right-handed alpha
Helix 92	92	G	120	127	Right-handed alpha
Helix 93	93	G	129	150	Right-handed alpha
Helix 94	94	G	158	160	Right-handed 310
Helix 95	95	G	175	179	Right-handed 310
Helix 96	96	G	194	198	Right-handed 310
Helix 97	97	G	199	204	Right-handed alpha
Helix 98	98	G	211	227	Right-handed alpha
Helix 99	99	G	237	250	Right-handed alpha
Helix 100	100	G	251	262	Right-handed alpha
Helix 101	101	G	268	273	Right-handed alpha
Helix 102	102	G	280	284	Right-handed 310
Helix 103	103	G	289	293	Right-handed 310
Helix 104	104	G	294	303	Right-handed alpha
Helix 105	105	G	314	320	Right-handed alpha
Helix 106	106	H	14	19	Right-handed alpha
Helix 107	107	H	20	25	Right-handed alpha
Helix 108	108	H	35	37	Right-handed 310
Helix 109	109	H	74	89	Right-handed alpha
Helix 110	110	H	120	125	Right-handed alpha
Helix 111	111	H	129	150	Right-handed alpha
Helix 112	112	H	158	160	Right-handed 310
Helix 113	113	H	194	198	Right-handed 310
Helix 114	114	H	199	204	Right-handed alpha
Helix 115	115	H	211	227	Right-handed alpha
Helix 116	116	H	237	250	Right-handed alpha
Helix 117	117	H	251	261	Right-handed alpha
Helix 118	118	H	268	273	Right-handed alpha
Helix 119	119	H	280	285	Right-handed 310
Helix 120	120	H	294	305	Right-handed alpha
Helix 121	121	H	314	320	Right-handed alpha
Helix 122	122	H	321	325	Right-handed 310
Helix 123	123	I	8	16	Right-handed alpha
Helix 124	124	I	26	32	Right-handed alpha
Helix 125	125	I	33	37	Right-handed 310
Helix 126	126	I	38	42	Right-handed 310
Helix 127	127	I	45	54	Right-handed alpha
Helix 128	128	I	67	88	Right-handed alpha
Helix 129	129	I	90	104	Right-handed alpha
Helix 130	130	I	111	115	Right-handed 310
Helix 131	131	I	148	152	Right-handed 310
Helix 132	132	I	155	159	Right-handed 310
Helix 133	133	I	162	171	Right-handed alpha
Helix 134	134	I	172	175	Right-handed 310
Helix 135	135	I	197	206	Right-handed alpha
Helix 136	136	J	8	14	Right-handed alpha
Helix 137	137	J	26	32	Right-handed alpha
Helix 138	138	J	38	42	Right-handed 310
Helix 139	139	J	45	54	Right-handed alpha
Helix 140	140	J	68	88	Right-handed alpha
Helix 141	141	J	90	104	Right-handed alpha
Helix 142	142	J	111	115	Right-handed 310
Helix 143	143	J	148	154	Right-handed 310
Helix 144	144	J	155	159	Right-handed 310
Helix 145	145	J	162	171	Right-handed alpha
Helix 146	146	J	172	175	Right-handed 310
Helix 147	147	J	197	206	Right-handed alpha
Helix 148	148	K	20	25	Right-handed alpha
Helix 149	149	K	26	29	Right-handed 310
Helix 150	150	K	35	37	Right-handed 310
Helix 151	151	K	74	89	Right-handed alpha
Helix 152	152	K	120	125	Right-handed alpha
Helix 153	153	K	129	150	Right-handed alpha
Helix 154	154	K	158	160	Right-handed 310
Helix 155	155	K	199	204	Right-handed alpha
Helix 156	156	K	211	227	Right-handed alpha
Helix 157	157	K	237	250	Right-handed alpha
Helix 158	158	K	250	261	Right-handed alpha
Helix 159	159	K	280	285	Right-handed 310
Helix 160	160	K	294	305	Right-handed alpha
Helix 161	161	K	314	319	Right-handed alpha
Helix 162	162	K	320	325	Right-handed 310
Helix 163	163	L	20	25	Right-handed alpha
Helix 164	164	L	26	29	Right-handed 310
Helix 165	165	L	35	37	Right-handed 310
Helix 166	166	L	74	88	Right-handed alpha
Helix 167	167	L	129	150	Right-handed alpha
Helix 168	168	L	158	160	Right-handed 310
Helix 169	169	L	194	198	Right-handed 310
Helix 170	170	L	199	204	Right-handed alpha
Helix 171	171	L	211	227	Right-handed alpha
Helix 172	172	L	237	250	Right-handed alpha
Helix 173	173	L	251	261	Right-handed alpha
Helix 174	174	L	266	271	Right-handed 310
Helix 175	175	L	280	284	Right-handed 310
Helix 176	176	L	294	303	Right-handed alpha
Helix 177	177	L	314	319	Right-handed alpha
Helix 178	178	L	320	323	Right-handed 310
Helix 179	179	L	324	329	Right-handed alpha
Helix 180	180	M	14	19	Right-handed alpha
Helix 181	181	M	20	25	Right-handed alpha
Helix 182	182	M	26	29	Right-handed 310
Helix 183	183	M	35	37	Right-handed 310
Helix 184	184	M	74	89	Right-handed alpha
Helix 185	185	M	120	127	Right-handed alpha
Helix 186	186	M	129	150	Right-handed alpha
Helix 187	187	M	158	160	Right-handed 310
Helix 188	188	M	194	198	Right-handed 310
Helix 189	189	M	199	204	Right-handed alpha
Helix 190	190	M	211	226	Right-handed alpha
Helix 191	191	M	237	250	Right-handed alpha
Helix 192	192	M	250	261	Right-handed alpha
Helix 193	193	M	268	273	Right-handed alpha
Helix 194	194	M	280	284	Right-handed 310
Helix 195	195	M	294	303	Right-handed alpha
Helix 196	196	M	314	320	Right-handed alpha
Helix 197	197	M	321	323	Right-handed 310
Helix 198	198	M	324	329	Right-handed alpha
Helix 199	199	N	8	14	Right-handed alpha
Helix 200	200	N	26	32	Right-handed alpha
Helix 201	201	N	33	37	Right-handed 310
Helix 202	202	N	38	42	Right-handed 310
Helix 203	203	N	45	54	Right-handed alpha
Helix 204	204	N	67	88	Right-handed alpha
Helix 205	205	N	90	103	Right-handed alpha
Helix 206	206	N	111	115	Right-handed 310
Helix 207	207	N	150	154	Right-handed 310
Helix 208	208	N	155	159	Right-handed 310
Helix 209	209	N	162	171	Right-handed alpha
Helix 210	210	N	172	175	Right-handed 310
Helix 211	211	N	194	206	Right-handed alpha
Helix 212	212	O	8	15	Right-handed alpha
Helix 213	213	O	26	32	Right-handed alpha
Helix 214	214	O	38	42	Right-handed 310
Helix 215	215	O	45	54	Right-handed alpha
Helix 216	216	O	67	88	Right-handed alpha
Helix 217	217	O	90	104	Right-handed alpha
Helix 218	218	O	111	115	Right-handed 310
Helix 219	219	O	155	159	Right-handed 310
Helix 220	220	O	162	171	Right-handed alpha
Helix 221	221	O	172	175	Right-handed 310
Helix 222	222	O	197	206	Right-handed alpha
Helix 223	223	P	20	25	Right-handed alpha
Helix 224	224	P	26	29	Right-handed 310
Helix 225	225	P	35	37	Right-handed 310
Helix 226	226	P	74	89	Right-handed alpha
Helix 227	227	P	129	150	Right-handed alpha
Helix 228	228	P	158	160	Right-handed 310
Helix 229	229	P	175	179	Right-handed 310
Helix 230	230	P	194	198	Right-handed 310
Helix 231	231	P	199	204	Right-handed alpha
Helix 232	232	P	211	227	Right-handed alpha
Helix 233	233	P	237	250	Right-handed alpha
Helix 234	234	P	251	262	Right-handed alpha
Helix 235	235	P	268	274	Right-handed alpha
Helix 236	236	P	280	284	Right-handed 310
Helix 237	237	P	294	305	Right-handed alpha
Helix 238	238	P	314	320	Right-handed alpha
Helix 239	239	P	321	323	Right-handed 310
Helix 240	240	P	324	329	Right-handed alpha

There are 32 sheets in PDB entry 4MD9. 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,

There are 3 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	120	122	first strand
Strand 2	A	134	136	anti-parallel
Strand 3	A	143	144	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	B	120	123	first strand
Strand 2	B	133	136	anti-parallel
Strand 3	B	143	144	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	191	192	first strand
Strand 2	F	39	46	parallel
Strand 3	F	51	58	anti-parallel
Strand 4	F	64	70	anti-parallel
Strand 5	F	109	114	anti-parallel
Strand 6	F	97	102	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	120	122	first strand
Strand 2	C	134	136	anti-parallel
Strand 3	C	143	144	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	C	191	192	first strand
Strand 2	H	39	47	parallel
Strand 3	H	51	58	anti-parallel
Strand 4	H	64	70	anti-parallel
Strand 5	H	109	114	anti-parallel
Strand 6	H	97	102	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	120	122	first strand
Strand 2	D	134	137	anti-parallel
Strand 3	D	142	144	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	D	191	192	first strand
Strand 2	K	39	47	parallel
Strand 3	K	51	58	anti-parallel
Strand 4	K	64	70	anti-parallel
Strand 5	K	109	114	anti-parallel
Strand 6	K	97	102	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	39	47	first strand
Strand 2	E	51	58	anti-parallel
Strand 3	E	64	70	anti-parallel
Strand 4	E	109	114	anti-parallel
Strand 5	E	97	102	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	E	152	153	first strand
Strand 2	E	180	181	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	E	162	165	first strand
Strand 2	E	170	173	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	152	153	first strand
Strand 2	F	180	181	anti-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	F	162	165	first strand
Strand 2	F	170	173	anti-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	G	97	101	first strand
Strand 2	G	110	114	anti-parallel
Strand 3	G	64	70	anti-parallel
Strand 4	G	51	58	anti-parallel
Strand 5	G	39	47	anti-parallel
Strand 6	N	190	192	parallel
Strand 7	N	186	187	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	152	153	first strand
Strand 2	G	180	181	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	G	162	165	first strand
Strand 2	G	170	173	anti-parallel

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There are 2 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	152	153	first strand
Strand 2	H	180	181	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	H	162	165	first strand
Strand 2	H	170	173	anti-parallel

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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	I	120	123	first strand
Strand 2	I	133	136	anti-parallel
Strand 3	I	143	144	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	186	187	first strand
Strand 2	I	190	192	anti-parallel
Strand 3	L	39	47	parallel
Strand 4	L	51	58	anti-parallel
Strand 5	L	63	70	anti-parallel
Strand 6	L	109	114	anti-parallel
Strand 7	L	97	102	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	J	120	123	first strand
Strand 2	J	133	136	anti-parallel
Strand 3	J	143	144	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	191	192	first strand
Strand 2	M	39	47	parallel
Strand 3	M	51	58	anti-parallel
Strand 4	M	63	70	anti-parallel
Strand 5	M	108	114	anti-parallel
Strand 6	M	97	103	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	152	153	first strand
Strand 2	K	180	181	anti-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	K	162	165	first strand
Strand 2	K	170	173	anti-parallel

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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	L	152	153	first strand
Strand 2	L	180	181	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	L	162	165	first strand
Strand 2	L	170	173	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	M	152	153	first strand
Strand 2	M	180	181	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	M	162	165	first strand
Strand 2	M	170	173	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	N	120	123	first strand
Strand 2	N	133	136	anti-parallel
Strand 3	N	143	144	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	120	123	first strand
Strand 2	O	133	136	anti-parallel
Strand 3	O	143	144	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	186	187	first strand
Strand 2	O	190	192	anti-parallel
Strand 3	P	39	47	parallel
Strand 4	P	51	58	anti-parallel
Strand 5	P	63	70	anti-parallel
Strand 6	P	109	114	anti-parallel
Strand 7	P	97	102	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	152	153	first strand
Strand 2	P	180	181	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	P	162	165	first strand
Strand 2	P	170	173	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: 4MD9

Analysis of interatomic Contacts of Structural Units in PDB entry:
4MD9