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

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 8VVM entry

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

Chain ID	Initial residue	Terminal residue
A	GLU 1	CYS 230
G	ASP 1	CYS 232
B	GLY 8	SER 229
C	GLN 3	CYS 232
I	LYS 10	SER 222

There are 21 helices in PDB entry 8VVM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	29	37	Right-handed 310
Helix 2	AA2	A	82	84	Right-handed 310
Helix 3	AA3	A	95	99	Right-handed 310
Helix 4	AA4	A	170	172	Right-handed 310
Helix 5	AA5	A	201	203	Right-handed 310
Helix 6	AA6	A	215	218	Right-handed 310
Helix 7	AA7	G	95	99	Right-handed 310
Helix 8	AA8	G	141	146	Right-handed alpha
Helix 9	AA9	G	203	208	Right-handed alpha
Helix 10	AB1	B	95	99	Right-handed 310
Helix 11	AB2	B	170	172	Right-handed 310
Helix 12	AB3	B	201	203	Right-handed 310
Helix 13	AB4	B	215	218	Right-handed 310
Helix 14	AB5	C	95	99	Right-handed 310
Helix 15	AB6	C	141	147	Right-handed alpha
Helix 16	AB7	C	203	208	Right-handed alpha
Helix 17	AB8	I	11	19	Right-handed alpha
Helix 18	AB9	I	20	22	Right-handed 310
Helix 19	AC1	I	86	91	Right-handed alpha
Helix 20	AC2	I	114	118	Right-handed 310
Helix 21	AC3	I	150	152	Right-handed 310

There are 26 sheets in PDB entry 8VVM. 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,

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	3	7	first strand
Strand 2	A	19	26	anti-parallel
Strand 3	A	86	91	anti-parallel
Strand 4	A	76	81	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	11	13	first strand
Strand 2	A	122	126	parallel
Strand 3	A	100	108	anti-parallel
Strand 4	A	39	44	anti-parallel
Strand 5	A	50	56	anti-parallel
Strand 6	A	65	67	anti-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	11	13	first strand
Strand 2	A	122	126	parallel
Strand 3	A	100	108	anti-parallel
Strand 4	A	114	118	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	134	138	first strand
Strand 2	A	149	159	anti-parallel
Strand 3	A	190	199	anti-parallel
Strand 4	A	177	179	anti-parallel

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There are 4 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	134	138	first strand
Strand 2	A	149	159	anti-parallel
Strand 3	A	190	199	anti-parallel
Strand 4	A	183	184	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	A	165	168	first strand
Strand 2	A	208	214	anti-parallel
Strand 3	A	219	225	anti-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	G	4	7	first strand
Strand 2	G	19	25	anti-parallel
Strand 3	G	86	91	anti-parallel
Strand 4	G	76	83	anti-parallel

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There are 6 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	10	13	first strand
Strand 2	G	122	126	parallel
Strand 3	G	101	107	anti-parallel
Strand 4	G	39	44	anti-parallel
Strand 5	G	51	55	anti-parallel
Strand 6	G	66	67	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	G	10	13	first strand
Strand 2	G	122	126	parallel
Strand 3	G	101	107	anti-parallel
Strand 4	G	116	118	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	134	138	first strand
Strand 2	G	149	159	anti-parallel
Strand 3	G	193	202	anti-parallel
Strand 4	G	179	183	anti-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	G	173	174	first strand
Strand 2	G	165	170	anti-parallel
Strand 3	G	211	218	anti-parallel
Strand 4	G	221	228	anti-parallel

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There are 6 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	11	13	first strand
Strand 2	B	122	126	parallel
Strand 3	B	100	104	anti-parallel
Strand 4	B	39	44	anti-parallel
Strand 5	B	50	57	anti-parallel
Strand 6	B	64	67	anti-parallel

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There are 3 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	18	24	first strand
Strand 2	B	86	92	anti-parallel
Strand 3	B	76	81	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	134	138	first strand
Strand 2	B	149	159	anti-parallel
Strand 3	B	190	199	anti-parallel
Strand 4	B	177	179	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	B	134	138	first strand
Strand 2	B	149	159	anti-parallel
Strand 3	B	190	199	anti-parallel
Strand 4	B	183	184	anti-parallel

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There are 3 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	165	168	first strand
Strand 2	B	208	214	anti-parallel
Strand 3	B	219	225	anti-parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	4	7	first strand
Strand 2	C	19	25	anti-parallel
Strand 3	C	86	91	anti-parallel
Strand 4	C	76	83	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	C	10	13	first strand
Strand 2	C	122	126	parallel
Strand 3	C	101	107	anti-parallel
Strand 4	C	39	44	anti-parallel
Strand 5	C	51	55	anti-parallel
Strand 6	C	66	67	anti-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	C	10	13	first strand
Strand 2	C	122	126	parallel
Strand 3	C	101	107	anti-parallel
Strand 4	C	116	118	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	C	134	138	first strand
Strand 2	C	149	159	anti-parallel
Strand 3	C	193	202	anti-parallel
Strand 4	C	179	183	anti-parallel

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There are 4 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	173	174	first strand
Strand 2	C	165	170	anti-parallel
Strand 3	C	211	218	anti-parallel
Strand 4	C	221	228	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	27	29	first strand
Strand 2	I	37	41	anti-parallel
Strand 3	I	79	84	anti-parallel
Strand 4	I	70	73	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	65	66	first strand
Strand 2	I	53	59	anti-parallel
Strand 3	I	96	102	anti-parallel
Strand 4	I	107	113	anti-parallel

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There are 2 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	119	120	first strand
Strand 2	I	207	208	parallel

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There are 3 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	125	130	first strand
Strand 2	I	139	143	anti-parallel
Strand 3	I	180	181	anti-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	I	169	174	first strand
Strand 2	I	154	161	anti-parallel
Strand 3	I	191	200	anti-parallel
Strand 4	I	216	219	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: 8VVM

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