Analysis of interatomic Contacts of Structural Units in PDB entry:
8V88

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 8V88 entry

There are 5 chains in PDB entry 8V88 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 1	PHE 478
B	GLU 1	PHE 478
C	GLU 1	PHE 478
D	GLU 1	PHE 478
E	GLU 1	PHE 478

There are 55 helices in PDB entry 8V88. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	1	11	Right-handed alpha
Helix 2	AA2	A	207	214	Right-handed alpha
Helix 3	AA3	A	214	226	Right-handed alpha
Helix 4	AA4	A	227	231	Right-handed 310
Helix 5	AA5	A	232	236	Right-handed 310
Helix 6	AA6	A	237	260	Right-handed alpha
Helix 7	AA7	A	268	296	Right-handed alpha
Helix 8	AA8	A	305	312	Right-handed alpha
Helix 9	AA9	A	314	320	Right-handed alpha
Helix 10	AB1	A	409	465	Right-handed alpha
Helix 11	AB2	A	469	478	Right-handed alpha
Helix 12	AB3	B	2	11	Right-handed alpha
Helix 13	AB4	B	207	214	Right-handed alpha
Helix 14	AB5	B	214	226	Right-handed alpha
Helix 15	AB6	B	227	231	Right-handed 310
Helix 16	AB7	B	232	236	Right-handed 310
Helix 17	AB8	B	237	260	Right-handed alpha
Helix 18	AB9	B	268	296	Right-handed alpha
Helix 19	AC1	B	305	312	Right-handed alpha
Helix 20	AC2	B	314	320	Right-handed alpha
Helix 21	AC3	B	409	465	Right-handed alpha
Helix 22	AC4	B	469	478	Right-handed alpha
Helix 23	AC5	C	2	11	Right-handed alpha
Helix 24	AC6	C	207	214	Right-handed alpha
Helix 25	AC7	C	214	226	Right-handed alpha
Helix 26	AC8	C	227	231	Right-handed 310
Helix 27	AC9	C	232	236	Right-handed 310
Helix 28	AD1	C	237	260	Right-handed alpha
Helix 29	AD2	C	268	296	Right-handed alpha
Helix 30	AD3	C	305	312	Right-handed alpha
Helix 31	AD4	C	314	320	Right-handed alpha
Helix 32	AD5	C	409	465	Right-handed alpha
Helix 33	AD6	C	469	478	Right-handed alpha
Helix 34	AD7	D	2	11	Right-handed alpha
Helix 35	AD8	D	207	214	Right-handed alpha
Helix 36	AD9	D	214	226	Right-handed alpha
Helix 37	AE1	D	227	231	Right-handed 310
Helix 38	AE2	D	232	236	Right-handed 310
Helix 39	AE3	D	237	260	Right-handed alpha
Helix 40	AE4	D	268	296	Right-handed alpha
Helix 41	AE5	D	305	312	Right-handed alpha
Helix 42	AE6	D	314	320	Right-handed alpha
Helix 43	AE7	D	409	465	Right-handed alpha
Helix 44	AE8	D	469	478	Right-handed alpha
Helix 45	AE9	E	2	11	Right-handed alpha
Helix 46	AF1	E	207	214	Right-handed alpha
Helix 47	AF2	E	214	226	Right-handed alpha
Helix 48	AF3	E	227	231	Right-handed 310
Helix 49	AF4	E	232	236	Right-handed 310
Helix 50	AF5	E	237	260	Right-handed alpha
Helix 51	AF6	E	268	296	Right-handed alpha
Helix 52	AF7	E	305	312	Right-handed alpha
Helix 53	AF8	E	314	320	Right-handed alpha
Helix 54	AF9	E	409	465	Right-handed alpha
Helix 55	AG1	E	469	478	Right-handed alpha

There are 20 sheets in PDB entry 8V88. 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,

There are 5 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	76	79	first strand
Strand 2	A	107	110	anti-parallel
Strand 3	A	114	117	anti-parallel
Strand 4	A	48	60	anti-parallel
Strand 5	A	120	126	anti-parallel

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There are 6 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	76	79	first strand
Strand 2	A	107	110	anti-parallel
Strand 3	A	114	117	anti-parallel
Strand 4	A	48	60	anti-parallel
Strand 5	A	28	43	anti-parallel
Strand 6	A	155	159	parallel

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There are 4 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	89	91	first strand
Strand 2	A	138	147	anti-parallel
Strand 3	A	190	205	anti-parallel
Strand 4	A	173	177	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	A	89	91	first strand
Strand 2	A	138	147	anti-parallel
Strand 3	A	190	205	anti-parallel
Strand 4	A	180	187	anti-parallel

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There are 5 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	76	79	first strand
Strand 2	B	107	110	anti-parallel
Strand 3	B	114	117	anti-parallel
Strand 4	B	48	60	anti-parallel
Strand 5	B	120	126	anti-parallel

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There are 6 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	76	79	first strand
Strand 2	B	107	110	anti-parallel
Strand 3	B	114	117	anti-parallel
Strand 4	B	48	60	anti-parallel
Strand 5	B	28	43	anti-parallel
Strand 6	B	155	159	parallel

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There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	89	91	first strand
Strand 2	B	138	147	anti-parallel
Strand 3	B	190	205	anti-parallel
Strand 4	B	173	177	anti-parallel

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There are 4 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	89	91	first strand
Strand 2	B	138	147	anti-parallel
Strand 3	B	190	205	anti-parallel
Strand 4	B	180	187	anti-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	76	79	first strand
Strand 2	C	107	110	anti-parallel
Strand 3	C	114	117	anti-parallel
Strand 4	C	48	60	anti-parallel
Strand 5	C	120	126	anti-parallel

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There are 6 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	76	79	first strand
Strand 2	C	107	110	anti-parallel
Strand 3	C	114	117	anti-parallel
Strand 4	C	48	60	anti-parallel
Strand 5	C	28	43	anti-parallel
Strand 6	C	155	159	parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	89	91	first strand
Strand 2	C	138	147	anti-parallel
Strand 3	C	190	205	anti-parallel
Strand 4	C	173	177	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	C	89	91	first strand
Strand 2	C	138	147	anti-parallel
Strand 3	C	190	205	anti-parallel
Strand 4	C	180	187	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	D	76	79	first strand
Strand 2	D	107	110	anti-parallel
Strand 3	D	114	117	anti-parallel
Strand 4	D	48	60	anti-parallel
Strand 5	D	120	126	anti-parallel

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There are 6 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	76	79	first strand
Strand 2	D	107	110	anti-parallel
Strand 3	D	114	117	anti-parallel
Strand 4	D	48	60	anti-parallel
Strand 5	D	28	43	anti-parallel
Strand 6	D	155	159	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	D	89	91	first strand
Strand 2	D	138	147	anti-parallel
Strand 3	D	190	205	anti-parallel
Strand 4	D	173	177	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	D	89	91	first strand
Strand 2	D	138	147	anti-parallel
Strand 3	D	190	205	anti-parallel
Strand 4	D	180	187	anti-parallel

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There are 5 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	76	79	first strand
Strand 2	E	107	110	anti-parallel
Strand 3	E	114	117	anti-parallel
Strand 4	E	48	60	anti-parallel
Strand 5	E	120	126	anti-parallel

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There are 6 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	76	79	first strand
Strand 2	E	107	110	anti-parallel
Strand 3	E	114	117	anti-parallel
Strand 4	E	48	60	anti-parallel
Strand 5	E	28	43	anti-parallel
Strand 6	E	155	159	parallel

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There are 4 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	89	91	first strand
Strand 2	E	138	147	anti-parallel
Strand 3	E	190	205	anti-parallel
Strand 4	E	173	177	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	89	91	first strand
Strand 2	E	138	147	anti-parallel
Strand 3	E	190	205	anti-parallel
Strand 4	E	180	187	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: 8V88

Analysis of interatomic Contacts of Structural Units in PDB entry:
8V88