Analysis of interatomic Contacts of Structural Units in PDB entry:
6YBD

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 6YBD entry

There are 19 chains in PDB entry 6YBD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
6	ASP 8	TRP 357
4	GLY 89	LEU 357
u	MET 1	ARG 572
v	ASN 33	ILE 422
y	GLU 313	LEU 863
8	GLY 29	ASN 352
G	ILE 8	GLN 193
H	PRO 2	LYS 82
K	MET 1	LYS 81
M	GLU 79	ARG 132
L	ASP 57	THR 276
O	ASP 23	GLY 233
N	SER 2	GLU 208
Q	THR 2	ARG 100
P	PRO 19	LEU 151
I	GLY 2	ALA 151
x	VAL 21	THR 88
3	ALA 2	SER 216
5	LEU 183	GLU 552

There are198 helices in PDB entry 6YBD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	6	17	25	Right-handed alpha
Helix 2	AA2	6	30	35	Right-handed alpha
Helix 3	AA3	6	63	68	Right-handed alpha
Helix 4	AA4	6	87	92	Right-handed 310
Helix 5	AA5	6	98	106	Right-handed alpha
Helix 6	AA6	6	107	109	Right-handed 310
Helix 7	AA7	6	116	128	Right-handed alpha
Helix 8	AA8	6	154	168	Right-handed alpha
Helix 9	AA9	6	174	193	Right-handed alpha
Helix 10	AB1	6	198	212	Right-handed alpha
Helix 11	AB2	6	262	267	Right-handed alpha
Helix 12	AB3	6	268	278	Right-handed alpha
Helix 13	AB4	6	280	285	Right-handed alpha
Helix 14	AB5	6	296	301	Right-handed alpha
Helix 15	AB6	6	307	318	Right-handed alpha
Helix 16	AB7	6	341	346	Right-handed alpha
Helix 17	AB8	6	347	355	Right-handed alpha
Helix 18	AB9	4	96	106	Right-handed alpha
Helix 19	AC1	4	152	163	Right-handed alpha
Helix 20	AC2	4	183	192	Right-handed alpha
Helix 21	AC3	4	245	254	Right-handed alpha
Helix 22	AC4	4	266	290	Right-handed alpha
Helix 23	AC5	4	295	298	Right-handed alpha
Helix 24	AC6	4	304	314	Right-handed alpha
Helix 25	AC7	4	320	352	Right-handed alpha
Helix 26	AC8	u	8	16	Right-handed alpha
Helix 27	AC9	u	23	36	Right-handed alpha
Helix 28	AD1	u	46	61	Right-handed alpha
Helix 29	AD2	u	64	77	Right-handed alpha
Helix 30	AD3	u	83	103	Right-handed alpha
Helix 31	AD4	u	105	116	Right-handed alpha
Helix 32	AD5	u	128	132	Right-handed 310
Helix 33	AD6	u	139	144	Right-handed alpha
Helix 34	AD7	u	146	163	Right-handed alpha
Helix 35	AD8	u	170	188	Right-handed alpha
Helix 36	AD9	u	191	204	Right-handed alpha
Helix 37	AE1	u	207	211	Right-handed 310
Helix 38	AE2	u	222	242	Right-handed alpha
Helix 39	AE3	u	247	260	Right-handed alpha
Helix 40	AE4	u	271	286	Right-handed alpha
Helix 41	AE5	u	288	307	Right-handed alpha
Helix 42	AE6	u	311	327	Right-handed alpha
Helix 43	AE7	u	338	345	Right-handed alpha
Helix 44	AE8	u	351	359	Right-handed alpha
Helix 45	AE9	u	370	376	Right-handed alpha
Helix 46	AF1	u	378	382	Right-handed 310
Helix 47	AF2	u	389	396	Right-handed alpha
Helix 48	AF3	u	399	401	Right-handed 310
Helix 49	AF4	u	402	416	Right-handed alpha
Helix 50	AF5	u	421	427	Right-handed 310
Helix 51	AF6	u	428	444	Right-handed alpha
Helix 52	AF7	u	451	459	Right-handed alpha
Helix 53	AF8	u	463	476	Right-handed alpha
Helix 54	AF9	u	518	523	Right-handed alpha
Helix 55	AG1	u	525	536	Right-handed alpha
Helix 56	AG2	u	539	560	Right-handed alpha
Helix 57	AG3	u	561	563	Right-handed 310
Helix 58	AG4	u	564	572	Right-handed alpha
Helix 59	AG5	v	37	42	Right-handed 310
Helix 60	AG6	v	49	55	Right-handed alpha
Helix 61	AG7	v	61	66	Right-handed alpha
Helix 62	AG8	v	67	70	Right-handed 310
Helix 63	AG9	v	76	83	Right-handed alpha
Helix 64	AH1	v	96	106	Right-handed alpha
Helix 65	AH2	v	107	109	Right-handed 310
Helix 66	AH3	v	128	138	Right-handed alpha
Helix 67	AH4	v	164	177	Right-handed alpha
Helix 68	AH5	v	181	195	Right-handed alpha
Helix 69	AH6	v	203	218	Right-handed alpha
Helix 70	AH7	v	224	229	Right-handed alpha
Helix 71	AH8	v	230	232	Right-handed 310
Helix 72	AH9	v	237	245	Right-handed alpha
Helix 73	AI1	v	250	264	Right-handed alpha
Helix 74	AI2	v	275	280	Right-handed alpha
Helix 75	AI3	v	304	308	Right-handed 310
Helix 76	AI4	v	314	321	Right-handed alpha
Helix 77	AI5	v	329	347	Right-handed alpha
Helix 78	AI6	v	352	357	Right-handed alpha
Helix 79	AI7	v	363	377	Right-handed alpha
Helix 80	AI8	v	402	420	Right-handed alpha
Helix 81	AI9	y	327	338	Right-handed alpha
Helix 82	AJ1	y	346	364	Right-handed alpha
Helix 83	AJ2	y	367	384	Right-handed alpha
Helix 84	AJ3	y	394	415	Right-handed alpha
Helix 85	AJ4	y	443	461	Right-handed alpha
Helix 86	AJ5	y	466	474	Right-handed alpha
Helix 87	AJ6	y	475	493	Right-handed alpha
Helix 88	AJ7	y	495	508	Right-handed alpha
Helix 89	AJ8	y	515	520	Right-handed 310
Helix 90	AJ9	y	543	558	Right-handed alpha
Helix 91	AK1	y	563	579	Right-handed alpha
Helix 92	AK2	y	585	593	Right-handed alpha
Helix 93	AK3	y	597	601	Right-handed 310
Helix 94	AK4	y	602	622	Right-handed alpha
Helix 95	AK5	y	626	633	Right-handed alpha
Helix 96	AK6	y	633	638	Right-handed alpha
Helix 97	AK7	y	641	646	Right-handed alpha
Helix 98	AK8	y	651	655	Right-handed 310
Helix 99	AK9	y	660	667	Right-handed alpha
Helix 100	AL1	y	678	700	Right-handed alpha
Helix 101	AL2	y	712	723	Right-handed alpha
Helix 102	AL3	y	732	743	Right-handed alpha
Helix 103	AL4	y	749	757	Right-handed alpha
Helix 104	AL5	y	758	765	Right-handed alpha
Helix 105	AL6	y	766	769	Right-handed 310
Helix 106	AL7	y	771	795	Right-handed alpha
Helix 107	AL8	y	814	825	Right-handed alpha
Helix 108	AL9	y	851	860	Right-handed alpha
Helix 109	AM1	8	43	54	Right-handed alpha
Helix 110	AM2	8	97	104	Right-handed alpha
Helix 111	AM3	8	132	142	Right-handed alpha
Helix 112	AM4	8	173	176	Right-handed alpha
Helix 113	AM5	8	211	220	Right-handed alpha
Helix 114	AM6	8	232	239	Right-handed alpha
Helix 115	AM7	8	248	278	Right-handed alpha
Helix 116	AM8	8	282	285	Right-handed alpha
Helix 117	AM9	8	316	350	Right-handed alpha
Helix 118	AN2	G	17	31	Right-handed alpha
Helix 119	AN3	G	66	70	Right-handed alpha
Helix 120	AN4	G	77	87	Right-handed alpha
Helix 121	AN5	G	129	134	Right-handed alpha
Helix 122	AN6	G	169	182	Right-handed alpha
Helix 123	AN7	H	11	15	Right-handed 310
Helix 124	AN8	K	56	62	Right-handed alpha
Helix 125	AN9	K	65	76	Right-handed alpha
Helix 126	AO1	M	99	109	Right-handed alpha
Helix 127	AO2	L	64	72	Right-handed alpha
Helix 128	AO3	L	78	83	Right-handed alpha
Helix 129	AO4	L	92	98	Right-handed alpha
Helix 130	AO5	L	147	159	Right-handed alpha
Helix 131	AO6	L	160	162	Right-handed 310
Helix 132	AO7	L	207	215	Right-handed alpha
Helix 133	AO8	L	234	245	Right-handed alpha
Helix 134	AO9	L	252	257	Right-handed 310
Helix 135	AP1	L	264	269	Right-handed alpha
Helix 136	AP2	L	271	275	Right-handed 310
Helix 137	AP3	O	23	26	Right-handed 310
Helix 138	AP4	O	71	76	Right-handed alpha
Helix 139	AP5	O	106	111	Right-handed alpha
Helix 140	AP6	O	159	175	Right-handed alpha
Helix 141	AP7	O	180	189	Right-handed alpha
Helix 142	AP8	O	193	201	Right-handed alpha
Helix 143	AP9	O	226	231	Right-handed alpha
Helix 144	AQ1	N	11	22	Right-handed alpha
Helix 145	AQ2	N	52	67	Right-handed alpha
Helix 146	AQ3	N	70	72	Right-handed 310
Helix 147	AQ4	N	85	90	Right-handed alpha
Helix 148	AQ5	N	90	95	Right-handed alpha
Helix 149	AQ6	N	130	138	Right-handed alpha
Helix 150	AQ7	N	168	187	Right-handed alpha
Helix 151	AQ8	N	198	202	Right-handed 310
Helix 152	AQ9	Q	46	49	Right-handed 310
Helix 153	AR1	Q	50	56	Right-handed alpha
Helix 154	AR2	P	65	69	Right-handed 310
Helix 155	AR3	P	70	86	Right-handed alpha
Helix 156	AR4	P	111	122	Right-handed alpha
Helix 157	AR5	I	31	41	Right-handed alpha
Helix 158	AR6	I	48	57	Right-handed alpha
Helix 159	AR7	I	62	68	Right-handed alpha
Helix 160	AR8	I	71	76	Right-handed alpha
Helix 161	AR9	I	85	90	Right-handed alpha
Helix 162	AS1	I	90	95	Right-handed alpha
Helix 163	AS2	I	96	103	Right-handed alpha
Helix 164	AS3	I	110	115	Right-handed alpha
Helix 165	AS4	I	122	130	Right-handed alpha
Helix 166	AS5	I	145	150	Right-handed 310
Helix 167	AS6	3	3	17	Right-handed alpha
Helix 168	AS7	3	18	24	Right-handed 310
Helix 169	AS8	3	25	39	Right-handed alpha
Helix 170	AS9	3	44	57	Right-handed alpha
Helix 171	AT1	3	58	61	Right-handed 310
Helix 172	AT2	3	62	75	Right-handed alpha
Helix 173	AT3	3	80	88	Right-handed alpha
Helix 174	AT4	3	92	95	Right-handed 310
Helix 175	AT5	3	96	111	Right-handed alpha
Helix 176	AT6	3	113	121	Right-handed alpha
Helix 177	AT7	3	125	130	Right-handed alpha
Helix 178	AT8	3	137	150	Right-handed alpha
Helix 179	AT9	3	154	162	Right-handed alpha
Helix 180	AU1	3	166	178	Right-handed alpha
Helix 181	AU2	3	191	196	Right-handed alpha
Helix 182	AU3	3	206	216	Right-handed alpha
Helix 183	AU4	5	184	207	Right-handed alpha
Helix 184	AU5	5	208	218	Right-handed alpha
Helix 185	AU6	5	223	247	Right-handed alpha
Helix 186	AU7	5	252	268	Right-handed alpha
Helix 187	AU8	5	274	290	Right-handed alpha
Helix 188	AU9	5	297	303	Right-handed alpha
Helix 189	AV1	5	312	326	Right-handed alpha
Helix 190	AV2	5	328	335	Right-handed alpha
Helix 191	AV3	5	335	342	Right-handed alpha
Helix 192	AV4	5	358	375	Right-handed alpha
Helix 193	AV5	5	387	401	Right-handed alpha
Helix 194	AV6	5	405	417	Right-handed alpha
Helix 195	AV7	5	438	462	Right-handed alpha
Helix 196	AV8	5	471	481	Right-handed alpha
Helix 197	AV9	5	491	497	Right-handed alpha
Helix 198	AW1	5	526	549	Right-handed alpha

There are 36 sheets in PDB entry 6YBD. Click on sheet of interest to get list of strands forming it: AA3, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7, AB8, AB9, AC1, AC2, AC3, AC4, AC5, AC6, AC7, AC8, AC9, AD1, AD2, AD3, AD4, AD5, AD6, AD7, AD8, AD9, AE1, AE2, AE3,

There are 6 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	u	490	493	first strand
Strand 2	u	482	485	anti-parallel
Strand 3	y	799	803	parallel
Strand 4	y	840	843	anti-parallel
Strand 5	y	832	835	anti-parallel
Strand 6	v	348	349	parallel

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There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	51	52	first strand
Strand 2	G	58	65	anti-parallel
Strand 3	G	92	97	parallel

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There are 3 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	142	146	first strand
Strand 2	G	152	157	anti-parallel
Strand 3	G	185	188	parallel

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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	32	36	first strand
Strand 2	H	43	47	anti-parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	64	65	first strand
Strand 2	H	72	73	anti-parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	35	37	first strand
Strand 2	K	50	52	anti-parallel

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There are 2 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	96	98	first strand
Strand 2	M	117	119	parallel

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There are 3 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	105	106	first strand
Strand 2	L	123	131	anti-parallel
Strand 3	L	110	112	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	105	106	first strand
Strand 2	L	123	131	anti-parallel
Strand 3	L	136	144	anti-parallel
Strand 4	L	163	164	anti-parallel

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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	184	188	first strand
Strand 2	L	191	196	anti-parallel
Strand 3	L	222	228	anti-parallel
Strand 4	L	204	205	parallel

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There are 5 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	45	50	first strand
Strand 2	O	28	33	anti-parallel
Strand 3	O	95	100	parallel
Strand 4	O	83	92	anti-parallel
Strand 5	O	66	70	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	102	103	first strand
Strand 2	O	215	217	anti-parallel
Strand 3	O	134	143	anti-parallel
Strand 4	O	121	128	anti-parallel

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There are 4 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	102	103	first strand
Strand 2	O	215	217	anti-parallel
Strand 3	O	134	143	anti-parallel
Strand 4	O	207	211	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	38	41	first strand
Strand 2	N	47	49	anti-parallel

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There are 5 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	97	100	first strand
Strand 2	N	74	78	parallel
Strand 3	N	121	124	parallel
Strand 4	N	144	148	parallel
Strand 5	N	159	162	parallel

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There are 2 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	20	22	first strand
Strand 2	Q	29	31	anti-parallel

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There are 2 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	36	43	first strand
Strand 2	Q	66	73	anti-parallel

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There are 5 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	54	57	first strand
Strand 2	P	40	45	anti-parallel
Strand 3	P	28	35	anti-parallel
Strand 4	P	92	98	parallel
Strand 5	P	125	131	parallel

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There are 2 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	3	180	181	first strand
Strand 2	3	187	188	anti-parallel

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There are 3 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	5	469	470	first strand
Strand 2	5	513	515	anti-parallel
Strand 3	5	504	506	anti-parallel

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There are 1 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	4	91	94	first strand

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There are 1 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	4	117	125	first strand

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There are 1 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	4	128	136	first strand

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There are 1 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	4	139	142	first strand

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There are 1 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	4	145	148	first strand

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There are 1 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	4	168	175	first strand

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There are 1 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	4	198	202	first strand

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There are 1 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	4	213	218	first strand

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There are 1 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	4	231	239	first strand

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There are 1 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	8	38	41	first strand

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There are 1 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	8	65	71	first strand

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There are 1 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	8	75	83	first strand

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There are 1 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	8	116	121	first strand

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There are 1 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	8	148	152	first strand

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There are 1 strands in AE2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	8	164	169	first strand

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There are 1 strands in AE3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	8	198	200	first strand

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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: 6YBD

Analysis of interatomic Contacts of Structural Units in PDB entry:
6YBD