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

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 8YNY entry

There are 13 chains in PDB entry 8YNY (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 44	ARG 134
B	LEU 22	GLY 102
C	THR 16	ILE 111
D	GLU 32	ALA 121
E	VAL 46	ALA 135
F	ASN 25	GLY 102
G	ALA 14	PRO 109
H	GLU 32	ALA 121
I	C 4	A 140
J	G -56	C 78
K	T 1	T 17
W	A 1	U 97
X	LYS 4	GLN 1364

There are 78 helices in PDB entry 8YNY. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	44	57	Right-handed alpha
Helix 2	AA2	A	64	79	Right-handed alpha
Helix 3	AA3	A	85	114	Right-handed alpha
Helix 4	AA4	A	120	132	Right-handed alpha
Helix 5	AA5	B	24	29	Right-handed alpha
Helix 6	AA6	B	30	41	Right-handed alpha
Helix 7	AA7	B	47	76	Right-handed alpha
Helix 8	AA8	B	82	94	Right-handed alpha
Helix 9	AA9	C	17	22	Right-handed alpha
Helix 10	AB1	C	26	37	Right-handed alpha
Helix 11	AB2	C	45	73	Right-handed alpha
Helix 12	AB3	C	79	90	Right-handed alpha
Helix 13	AB4	C	90	97	Right-handed alpha
Helix 14	AB5	D	34	46	Right-handed alpha
Helix 15	AB6	D	52	81	Right-handed alpha
Helix 16	AB7	D	88	99	Right-handed alpha
Helix 17	AB8	D	103	121	Right-handed alpha
Helix 18	AB9	E	47	57	Right-handed alpha
Helix 19	AC1	E	63	79	Right-handed alpha
Helix 20	AC2	E	85	114	Right-handed alpha
Helix 21	AC3	E	120	132	Right-handed alpha
Helix 22	AC4	F	25	29	Right-handed 310
Helix 23	AC5	F	30	42	Right-handed alpha
Helix 24	AC6	F	47	77	Right-handed alpha
Helix 25	AC7	F	82	94	Right-handed alpha
Helix 26	AC8	G	16	21	Right-handed alpha
Helix 27	AC9	G	26	38	Right-handed alpha
Helix 28	AD1	G	45	73	Right-handed alpha
Helix 29	AD2	G	79	90	Right-handed alpha
Helix 30	AD3	G	90	98	Right-handed alpha
Helix 31	AD4	H	34	46	Right-handed alpha
Helix 32	AD5	H	52	82	Right-handed alpha
Helix 33	AD6	H	87	99	Right-handed alpha
Helix 34	AD7	H	100	121	Right-handed alpha
Helix 35	AD8	X	59	91	Right-handed alpha
Helix 36	AD9	X	95	104	Right-handed alpha
Helix 37	AE1	X	121	132	Right-handed alpha
Helix 38	AE2	X	134	145	Right-handed alpha
Helix 39	AE3	X	150	164	Right-handed alpha
Helix 40	AE4	X	315	343	Right-handed alpha
Helix 41	AE5	X	343	353	Right-handed alpha
Helix 42	AE6	X	358	364	Right-handed alpha
Helix 43	AE7	X	368	383	Right-handed alpha
Helix 44	AE8	X	387	395	Right-handed alpha
Helix 45	AE9	X	405	410	Right-handed 310
Helix 46	AF1	X	411	427	Right-handed alpha
Helix 47	AF2	X	430	436	Right-handed alpha
Helix 48	AF3	X	436	446	Right-handed alpha
Helix 49	AF4	X	477	482	Right-handed alpha
Helix 50	AF5	X	483	494	Right-handed alpha
Helix 51	AF6	X	512	525	Right-handed alpha
Helix 52	AF7	X	591	598	Right-handed alpha
Helix 53	AF8	X	614	626	Right-handed alpha
Helix 54	AF9	X	628	637	Right-handed alpha
Helix 55	AG1	X	644	654	Right-handed alpha
Helix 56	AG2	X	663	668	Right-handed alpha
Helix 57	AG3	X	679	685	Right-handed alpha
Helix 58	AG4	X	692	698	Right-handed alpha
Helix 59	AG5	X	702	709	Right-handed alpha
Helix 60	AG6	X	720	727	Right-handed alpha
Helix 61	AG7	X	730	751	Right-handed alpha
Helix 62	AG8	X	926	940	Right-handed alpha
Helix 63	AG9	X	959	971	Right-handed alpha
Helix 64	AH1	X	980	999	Right-handed alpha
Helix 65	AH2	X	1001	1007	Right-handed alpha
Helix 66	AH3	X	1041	1047	Right-handed 310
Helix 67	AH4	X	1077	1089	Right-handed alpha
Helix 68	AH5	X	1127	1132	Right-handed alpha
Helix 69	AH6	X	1168	1177	Right-handed alpha
Helix 70	AH7	X	1177	1185	Right-handed alpha
Helix 71	AH8	X	1191	1195	Right-handed 310
Helix 72	AH9	X	1229	1241	Right-handed alpha
Helix 73	AI1	X	1254	1262	Right-handed alpha
Helix 74	AI2	X	1262	1281	Right-handed alpha
Helix 75	AI3	X	1283	1298	Right-handed alpha
Helix 76	AI4	X	1301	1313	Right-handed alpha
Helix 77	AI5	X	1314	1316	Right-handed 310
Helix 78	AI6	X	1339	1345	Right-handed alpha

There are 8 sheets in PDB entry 8YNY. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 2 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	42	43	first strand
Strand 2	D	85	86	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	C	100	101	first strand
Strand 2	F	96	97	parallel

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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	77	78	first strand
Strand 2	H	50	51	parallel

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There are 6 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	954	957	first strand
Strand 2	X	758	763	parallel
Strand 3	X	5	11	parallel
Strand 4	X	15	22	anti-parallel
Strand 5	X	48	52	anti-parallel
Strand 6	X	1093	1096	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	X	29	33	first strand
Strand 2	X	42	46	anti-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	X	1156	1167	first strand
Strand 2	X	1139	1151	anti-parallel
Strand 3	X	1196	1198	anti-parallel

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There are 5 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	1220	1222	first strand
Strand 2	X	1211	1214	anti-parallel
Strand 3	X	1202	1205	anti-parallel
Strand 4	X	1346	1350	anti-parallel
Strand 5	X	1357	1361	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	X	1324	1325	first strand
Strand 2	X	1330	1331	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: 8YNY

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