Analysis of interatomic Contacts of Structural Units in PDB entry:
4YR8

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 4YR8 entry

There are 6 chains in PDB entry 4YR8 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
E	ASP 7	ASP 362
G	GLY 158	ILE 298
A	ASN 8	ASP 362
B	GLY 158	ILE 298
C	PHE 10	ASP 362
D	GLY 158	PRO 164

There are 96 helices in PDB entry 4YR8. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	E	63	80	Right-handed alpha
Helix 2	AA2	E	115	120	Right-handed alpha
Helix 3	AA3	E	124	145	Right-handed alpha
Helix 4	AA4	E	153	155	Right-handed 310
Helix 5	AA5	E	193	198	Right-handed alpha
Helix 6	AA6	E	205	221	Right-handed alpha
Helix 7	AA7	E	229	242	Right-handed alpha
Helix 8	AA8	E	245	250	Right-handed alpha
Helix 9	AA9	E	253	262	Right-handed alpha
Helix 10	AB1	E	270	275	Right-handed alpha
Helix 11	AB2	E	276	280	Right-handed 310
Helix 12	AB3	E	286	302	Right-handed alpha
Helix 13	AB4	E	311	317	Right-handed alpha
Helix 14	AB5	E	321	325	Right-handed 310
Helix 15	AB6	E	354	361	Right-handed alpha
Helix 16	AB7	G	171	176	Right-handed alpha
Helix 17	AB8	G	176	184	Right-handed alpha
Helix 18	AB9	G	202	204	Right-handed 310
Helix 19	AC1	G	222	236	Right-handed alpha
Helix 20	AC2	G	249	263	Right-handed alpha
Helix 21	AC3	G	266	278	Right-handed alpha
Helix 22	AC4	G	284	298	Right-handed alpha
Helix 23	AC5	A	63	80	Right-handed alpha
Helix 24	AC6	A	115	120	Right-handed alpha
Helix 25	AC7	A	124	145	Right-handed alpha
Helix 26	AC8	A	153	155	Right-handed 310
Helix 27	AC9	A	193	198	Right-handed alpha
Helix 28	AD1	A	205	221	Right-handed alpha
Helix 29	AD2	A	229	242	Right-handed alpha
Helix 30	AD3	A	245	250	Right-handed alpha
Helix 31	AD4	A	253	262	Right-handed alpha
Helix 32	AD5	A	270	275	Right-handed alpha
Helix 33	AD6	A	276	280	Right-handed 310
Helix 34	AD7	A	286	302	Right-handed alpha
Helix 35	AD8	A	305	309	Right-handed 310
Helix 36	AD9	A	311	317	Right-handed alpha
Helix 37	AE1	A	321	325	Right-handed 310
Helix 38	AE2	A	350	361	Right-handed alpha
Helix 39	AE3	B	171	175	Right-handed alpha
Helix 40	AE4	B	176	183	Right-handed alpha
Helix 41	AE5	B	202	204	Right-handed 310
Helix 42	AE6	B	219	221	Right-handed 310
Helix 43	AE7	B	222	236	Right-handed alpha
Helix 44	AE8	B	249	264	Right-handed alpha
Helix 45	AE9	B	266	278	Right-handed alpha
Helix 46	AF1	B	284	298	Right-handed alpha
Helix 47	AF2	C	63	80	Right-handed alpha
Helix 48	AF3	C	115	120	Right-handed alpha
Helix 49	AF4	C	124	145	Right-handed alpha
Helix 50	AF5	C	153	155	Right-handed 310
Helix 51	AF6	C	193	198	Right-handed alpha
Helix 52	AF7	C	205	221	Right-handed alpha
Helix 53	AF8	C	229	242	Right-handed alpha
Helix 54	AF9	C	245	250	Right-handed alpha
Helix 55	AG1	C	253	262	Right-handed alpha
Helix 56	AG2	C	270	275	Right-handed alpha
Helix 57	AG3	C	276	280	Right-handed 310
Helix 58	AG4	C	287	302	Right-handed alpha
Helix 59	AG5	C	305	309	Right-handed 310
Helix 60	AG6	C	311	317	Right-handed alpha
Helix 61	AG7	C	318	323	Right-handed alpha
Helix 62	AG8	C	326	331	Right-handed alpha
Helix 63	AG9	C	352	361	Right-handed alpha
Helix 64	AH1	D	170	175	Right-handed alpha
Helix 65	AH2	D	176	183	Right-handed alpha
Helix 66	AH3	D	202	204	Right-handed 310
Helix 67	AH4	D	219	221	Right-handed 310
Helix 68	AH5	D	222	236	Right-handed alpha
Helix 69	AH6	D	249	264	Right-handed alpha
Helix 70	AH7	D	266	278	Right-handed alpha
Helix 71	AH8	D	284	298	Right-handed alpha
Helix 72	AH9	F	65	80	Right-handed alpha
Helix 73	AI1	F	115	120	Right-handed alpha
Helix 74	AI2	F	124	145	Right-handed alpha
Helix 75	AI3	F	153	155	Right-handed 310
Helix 76	AI4	F	193	198	Right-handed alpha
Helix 77	AI5	F	205	221	Right-handed alpha
Helix 78	AI6	F	229	242	Right-handed alpha
Helix 79	AI7	F	245	250	Right-handed alpha
Helix 80	AI8	F	253	262	Right-handed alpha
Helix 81	AI9	F	270	275	Right-handed alpha
Helix 82	AJ1	F	276	280	Right-handed 310
Helix 83	AJ2	F	287	302	Right-handed alpha
Helix 84	AJ3	F	305	309	Right-handed 310
Helix 85	AJ4	F	311	317	Right-handed alpha
Helix 86	AJ5	F	318	323	Right-handed alpha
Helix 87	AJ6	F	326	331	Right-handed alpha
Helix 88	AJ7	F	355	360	Right-handed alpha
Helix 89	AJ8	H	170	175	Right-handed alpha
Helix 90	AJ9	H	176	183	Right-handed alpha
Helix 91	AK1	H	202	204	Right-handed 310
Helix 92	AK2	H	219	221	Right-handed 310
Helix 93	AK3	H	222	234	Right-handed alpha
Helix 94	AK4	H	249	263	Right-handed alpha
Helix 95	AK5	H	266	278	Right-handed alpha
Helix 96	AK6	H	284	300	Right-handed alpha

There are 15 sheets in PDB entry 4YR8. 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,

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	E	10	15	first strand
Strand 2	E	18	23	anti-parallel

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There are 5 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	26	31	first strand
Strand 2	E	39	45	anti-parallel
Strand 3	E	51	58	anti-parallel
Strand 4	E	103	109	anti-parallel
Strand 5	E	88	92	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	E	113	114	first strand
Strand 2	E	157	159	anti-parallel
Strand 3	E	165	167	anti-parallel

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There are 5 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	160	163	first strand
Strand 2	G	166	170	anti-parallel
Strand 3	G	240	244	parallel
Strand 4	G	187	190	parallel
Strand 5	G	206	208	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	A	10	15	first strand
Strand 2	A	18	23	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	A	26	31	first strand
Strand 2	A	39	45	anti-parallel
Strand 3	A	50	58	anti-parallel
Strand 4	A	103	109	anti-parallel
Strand 5	A	88	92	anti-parallel

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There are 3 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	113	114	first strand
Strand 2	A	157	159	anti-parallel
Strand 3	A	165	167	anti-parallel

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There are 5 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	160	163	first strand
Strand 2	B	166	170	anti-parallel
Strand 3	B	240	244	parallel
Strand 4	B	187	190	parallel
Strand 5	B	206	208	parallel

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There are 5 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	26	31	first strand
Strand 2	C	40	45	anti-parallel
Strand 3	C	50	57	anti-parallel
Strand 4	C	104	109	anti-parallel
Strand 5	C	88	92	anti-parallel

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There are 3 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	113	114	first strand
Strand 2	C	157	159	anti-parallel
Strand 3	C	165	167	anti-parallel

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There are 5 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	160	163	first strand
Strand 2	D	166	169	anti-parallel
Strand 3	D	239	243	parallel
Strand 4	D	185	190	parallel
Strand 5	D	206	208	parallel

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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	12	14	first strand
Strand 2	F	19	21	anti-parallel

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There are 5 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	27	31	first strand
Strand 2	F	40	44	anti-parallel
Strand 3	F	52	56	anti-parallel
Strand 4	F	105	109	anti-parallel
Strand 5	F	88	92	anti-parallel

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There are 3 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	113	114	first strand
Strand 2	F	157	159	anti-parallel
Strand 3	F	165	167	anti-parallel

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There are 5 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	160	163	first strand
Strand 2	H	166	169	anti-parallel
Strand 3	H	239	243	parallel
Strand 4	H	185	190	parallel
Strand 5	H	206	208	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: 4YR8

Analysis of interatomic Contacts of Structural Units in PDB entry:
4YR8