Analysis of interatomic Contacts of Structural Units in PDB entry:
8YHD

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 8YHD entry

There are 15 chains in PDB entry 8YHD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 2	LEU 199
B	ALA 2	LYS 200
C	ALA 2	LYS 200
D	ALA 2	LYS 200
E	ALA 2	LYS 200
F	ALA 2	LYS 200
G	ILE 4	LEU 239
H	MET 1	LEU 609
I	VAL 435	LEU 609
J	ALA 2	LYS 200
K	ASN 163	LEU 609
L	LYS 434	LYS 608
M	G -9	U 44
N	G 3	C 37
O	ALA 2	ASP 196

There are 85 helices in PDB entry 8YHD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	51	66	Right-handed alpha
Helix 2	AA2	A	85	90	Right-handed alpha
Helix 3	AA3	A	109	114	Right-handed alpha
Helix 4	AA4	A	156	172	Right-handed alpha
Helix 5	AA5	B	24	32	Right-handed alpha
Helix 6	AA6	B	51	67	Right-handed alpha
Helix 7	AA7	B	85	90	Right-handed alpha
Helix 8	AA8	B	109	113	Right-handed alpha
Helix 9	AA9	B	156	172	Right-handed alpha
Helix 10	AB1	B	176	180	Right-handed 310
Helix 11	AB2	C	24	32	Right-handed alpha
Helix 12	AB3	C	54	67	Right-handed alpha
Helix 13	AB4	C	84	91	Right-handed alpha
Helix 14	AB5	C	109	113	Right-handed alpha
Helix 15	AB6	C	157	172	Right-handed alpha
Helix 16	AB7	D	24	32	Right-handed alpha
Helix 17	AB8	D	51	67	Right-handed alpha
Helix 18	AB9	D	85	91	Right-handed alpha
Helix 19	AC1	D	155	172	Right-handed alpha
Helix 20	AC2	D	196	198	Right-handed 310
Helix 21	AC3	E	24	32	Right-handed alpha
Helix 22	AC4	E	51	67	Right-handed alpha
Helix 23	AC5	E	84	90	Right-handed alpha
Helix 24	AC6	E	109	113	Right-handed alpha
Helix 25	AC7	E	156	172	Right-handed alpha
Helix 26	AC8	F	24	32	Right-handed alpha
Helix 27	AC9	F	51	67	Right-handed alpha
Helix 28	AD1	F	85	90	Right-handed alpha
Helix 29	AD2	F	109	113	Right-handed alpha
Helix 30	AD3	F	156	172	Right-handed alpha
Helix 31	AD4	F	196	198	Right-handed 310
Helix 32	AD5	G	28	43	Right-handed alpha
Helix 33	AD6	G	47	53	Right-handed alpha
Helix 34	AD7	G	127	142	Right-handed alpha
Helix 35	AD8	G	148	152	Right-handed 310
Helix 36	AD9	H	42	53	Right-handed alpha
Helix 37	AE1	H	70	77	Right-handed alpha
Helix 38	AE2	H	86	107	Right-handed alpha
Helix 39	AE3	H	114	122	Right-handed alpha
Helix 40	AE4	H	207	219	Right-handed alpha
Helix 41	AE5	H	234	245	Right-handed alpha
Helix 42	AE6	H	255	268	Right-handed alpha
Helix 43	AE7	H	269	272	Right-handed 310
Helix 44	AE8	H	273	277	Right-handed 310
Helix 45	AE9	H	295	304	Right-handed alpha
Helix 46	AF1	H	323	332	Right-handed alpha
Helix 47	AF2	H	375	384	Right-handed alpha
Helix 48	AF3	H	400	413	Right-handed alpha
Helix 49	AF4	H	470	479	Right-handed alpha
Helix 50	AF5	H	509	523	Right-handed alpha
Helix 51	AF6	H	527	541	Right-handed alpha
Helix 52	AF7	H	541	554	Right-handed alpha
Helix 53	AF8	H	572	592	Right-handed alpha
Helix 54	AF9	H	594	603	Right-handed alpha
Helix 55	AG1	I	470	490	Right-handed alpha
Helix 56	AG2	I	509	523	Right-handed alpha
Helix 57	AG3	I	527	540	Right-handed alpha
Helix 58	AG4	I	541	554	Right-handed alpha
Helix 59	AG5	I	572	592	Right-handed alpha
Helix 60	AG6	I	594	604	Right-handed alpha
Helix 61	AG7	J	24	32	Right-handed alpha
Helix 62	AG8	J	51	67	Right-handed alpha
Helix 63	AG9	J	84	91	Right-handed alpha
Helix 64	AH1	J	109	113	Right-handed alpha
Helix 65	AH2	J	156	172	Right-handed alpha
Helix 66	AH3	J	176	180	Right-handed 310
Helix 67	AH4	K	378	386	Right-handed alpha
Helix 68	AH5	K	405	413	Right-handed alpha
Helix 69	AH6	K	470	488	Right-handed alpha
Helix 70	AH7	K	509	523	Right-handed alpha
Helix 71	AH8	K	527	540	Right-handed alpha
Helix 72	AH9	K	541	553	Right-handed alpha
Helix 73	AI1	K	572	592	Right-handed alpha
Helix 74	AI2	K	594	603	Right-handed alpha
Helix 75	AI3	L	470	486	Right-handed alpha
Helix 76	AI4	L	509	523	Right-handed alpha
Helix 77	AI5	L	527	539	Right-handed alpha
Helix 78	AI6	L	542	553	Right-handed alpha
Helix 79	AI7	L	572	592	Right-handed alpha
Helix 80	AI8	L	594	603	Right-handed alpha
Helix 81	AI9	O	24	32	Right-handed alpha
Helix 82	AJ1	O	51	67	Right-handed alpha
Helix 83	AJ2	O	84	91	Right-handed alpha
Helix 84	AJ3	O	109	113	Right-handed alpha
Helix 85	AJ4	O	157	172	Right-handed alpha

There are 39 sheets in PDB entry 8YHD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, 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 4 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	99	101	first strand
Strand 2	A	144	150	anti-parallel
Strand 3	A	4	14	anti-parallel
Strand 4	A	184	194	anti-parallel

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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	48	49	first strand
Strand 2	A	104	105	anti-parallel

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There are 3 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	99	100	first strand
Strand 2	B	143	151	anti-parallel
Strand 3	B	105	106	anti-parallel

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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	99	100	first strand
Strand 2	B	143	151	anti-parallel
Strand 3	B	4	14	anti-parallel
Strand 4	B	184	194	anti-parallel

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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	114	122	first strand
Strand 2	B	129	138	anti-parallel

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There are 5 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	41	42	first strand
Strand 2	C	46	49	anti-parallel
Strand 3	C	104	106	anti-parallel
Strand 4	C	143	150	anti-parallel
Strand 5	C	99	101	anti-parallel

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There are 6 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	41	42	first strand
Strand 2	C	46	49	anti-parallel
Strand 3	C	104	106	anti-parallel
Strand 4	C	143	150	anti-parallel
Strand 5	C	4	14	anti-parallel
Strand 6	C	184	194	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	C	114	122	first strand
Strand 2	C	129	138	anti-parallel

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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	48	49	first strand
Strand 2	D	104	106	anti-parallel
Strand 3	D	143	150	anti-parallel
Strand 4	D	99	101	anti-parallel

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There are 5 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	48	49	first strand
Strand 2	D	104	106	anti-parallel
Strand 3	D	143	150	anti-parallel
Strand 4	D	4	14	anti-parallel
Strand 5	D	184	194	anti-parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	114	122	first strand
Strand 2	D	129	138	anti-parallel

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There are 3 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	99	101	first strand
Strand 2	E	143	151	anti-parallel
Strand 3	E	105	106	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	E	99	101	first strand
Strand 2	E	143	151	anti-parallel
Strand 3	E	4	14	anti-parallel
Strand 4	E	184	194	anti-parallel

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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	114	122	first strand
Strand 2	E	129	138	anti-parallel

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There are 3 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	99	101	first strand
Strand 2	F	143	151	anti-parallel
Strand 3	F	105	106	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	F	99	101	first strand
Strand 2	F	143	151	anti-parallel
Strand 3	F	4	14	anti-parallel
Strand 4	F	184	194	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	F	114	122	first strand
Strand 2	F	129	138	anti-parallel

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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	115	117	first strand
Strand 2	G	5	10	anti-parallel
Strand 3	G	155	162	anti-parallel
Strand 4	G	143	144	anti-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	G	59	61	first strand
Strand 2	G	120	122	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	G	75	76	first strand
Strand 2	G	83	84	anti-parallel

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There are 2 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	97	102	first strand
Strand 2	G	105	110	anti-parallel

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There are 3 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	214	216	first strand
Strand 2	G	173	176	anti-parallel
Strand 3	G	236	238	anti-parallel

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There are 2 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	187	192	first strand
Strand 2	G	203	208	anti-parallel

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There are 6 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	2	4	first strand
Strand 2	H	16	19	anti-parallel
Strand 3	H	24	26	anti-parallel
Strand 4	H	55	59	parallel
Strand 5	H	80	85	parallel
Strand 6	H	125	127	parallel

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There are 7 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	134	136	first strand
Strand 2	H	139	144	anti-parallel
Strand 3	H	154	159	anti-parallel
Strand 4	H	162	166	anti-parallel
Strand 5	H	191	192	parallel
Strand 6	H	392	394	parallel
Strand 7	H	417	418	parallel

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There are 4 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	226	228	first strand
Strand 2	H	311	313	parallel
Strand 3	H	251	253	parallel
Strand 4	H	290	292	parallel

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There are 2 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	339	340	first strand
Strand 2	H	365	366	parallel

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There are 4 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	435	436	first strand
Strand 2	H	466	469	parallel
Strand 3	H	451	461	anti-parallel
Strand 4	H	445	446	anti-parallel

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There are 6 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	435	436	first strand
Strand 2	H	466	469	parallel
Strand 3	H	451	461	anti-parallel
Strand 4	K	454	461	anti-parallel
Strand 5	K	465	469	anti-parallel
Strand 6	K	435	438	parallel

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There are 3 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	445	447	first strand
Strand 2	I	450	460	anti-parallel
Strand 3	I	467	469	anti-parallel

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There are 4 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	445	447	first strand
Strand 2	I	450	460	anti-parallel
Strand 3	L	454	461	anti-parallel
Strand 4	L	466	469	anti-parallel

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There are 4 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	48	49	first strand
Strand 2	J	104	106	anti-parallel
Strand 3	J	143	150	anti-parallel
Strand 4	J	99	101	anti-parallel

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There are 5 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	48	49	first strand
Strand 2	J	104	106	anti-parallel
Strand 3	J	143	150	anti-parallel
Strand 4	J	4	14	anti-parallel
Strand 5	J	184	194	anti-parallel

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There are 2 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	114	122	first strand
Strand 2	J	129	138	anti-parallel

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There are 4 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	164	165	first strand
Strand 2	K	191	193	parallel
Strand 3	K	392	394	parallel
Strand 4	K	416	417	parallel

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There are 2 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	445	447	first strand
Strand 2	L	450	452	anti-parallel

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There are 4 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	99	100	first strand
Strand 2	O	143	151	anti-parallel
Strand 3	O	5	14	anti-parallel
Strand 4	O	184	189	anti-parallel

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There are 4 strands in AE2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	105	106	first strand
Strand 2	O	143	151	anti-parallel
Strand 3	O	5	14	anti-parallel
Strand 4	O	192	193	anti-parallel

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There are 2 strands in AE3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	114	122	first strand
Strand 2	O	129	138	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: 8YHD

Analysis of interatomic Contacts of Structural Units in PDB entry:
8YHD