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

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 8VPQ entry

There are 4 chains in PDB entry 8VPQ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	PRO 23	ALA 536
B	SER 26	ALA 536
C	ARG 8	ALA 376
D	MET 1	THR 135

There are 46 helices in PDB entry 8VPQ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	41	54	Right-handed alpha
Helix 2	AA2	A	75	83	Right-handed alpha
Helix 3	AA3	A	84	90	Right-handed alpha
Helix 4	AA4	A	111	120	Right-handed alpha
Helix 5	AA5	A	130	141	Right-handed alpha
Helix 6	AA6	A	143	156	Right-handed alpha
Helix 7	AA7	A	159	162	Right-handed 310
Helix 8	AA8	A	163	173	Right-handed alpha
Helix 9	AA9	A	175	189	Right-handed alpha
Helix 10	AB1	A	203	212	Right-handed alpha
Helix 11	AB2	A	216	219	Right-handed 310
Helix 12	AB3	A	220	230	Right-handed alpha
Helix 13	AB4	A	239	244	Right-handed alpha
Helix 14	AB5	B	41	54	Right-handed alpha
Helix 15	AB6	B	75	81	Right-handed alpha
Helix 16	AB7	B	83	91	Right-handed alpha
Helix 17	AB8	B	111	120	Right-handed alpha
Helix 18	AB9	B	131	142	Right-handed alpha
Helix 19	AC1	B	143	157	Right-handed alpha
Helix 20	AC2	B	162	170	Right-handed alpha
Helix 21	AC3	B	175	188	Right-handed alpha
Helix 22	AC4	B	190	194	Right-handed 310
Helix 23	AC5	B	203	212	Right-handed alpha
Helix 24	AC6	B	216	220	Right-handed 310
Helix 25	AC7	B	221	230	Right-handed alpha
Helix 26	AC8	B	232	237	Right-handed alpha
Helix 27	AC9	B	238	240	Right-handed 310
Helix 28	AD1	C	18	22	Right-handed 310
Helix 29	AD2	C	32	43	Right-handed alpha
Helix 30	AD3	C	69	78	Right-handed alpha
Helix 31	AD4	C	88	94	Right-handed alpha
Helix 32	AD5	C	106	125	Right-handed alpha
Helix 33	AD6	C	154	164	Right-handed alpha
Helix 34	AD7	C	180	187	Right-handed alpha
Helix 35	AD8	C	233	253	Right-handed alpha
Helix 36	AD9	C	277	290	Right-handed alpha
Helix 37	AE1	C	304	320	Right-handed alpha
Helix 38	AE2	C	356	371	Right-handed alpha
Helix 39	AE3	D	15	19	Right-handed 310
Helix 40	AE4	D	20	25	Right-handed 310
Helix 41	AE5	D	41	55	Right-handed alpha
Helix 42	AE6	D	61	69	Right-handed alpha
Helix 43	AE7	D	73	80	Right-handed alpha
Helix 44	AE8	D	92	106	Right-handed alpha
Helix 45	AE9	D	109	114	Right-handed alpha
Helix 46	AF1	D	122	131	Right-handed alpha

There are 20 sheets in PDB entry 8VPQ. 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	25	26	first strand
Strand 2	B	468	470	parallel
Strand 3	B	460	463	anti-parallel
Strand 4	B	449	453	anti-parallel
Strand 5	B	442	446	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	34	38	first strand
Strand 2	B	123	127	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	A	70	74	first strand
Strand 2	A	63	67	anti-parallel
Strand 3	A	101	104	parallel

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There are 2 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	123	127	first strand
Strand 2	B	34	38	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	280	283	first strand
Strand 2	A	271	276	anti-parallel
Strand 3	A	255	261	anti-parallel
Strand 4	A	530	535	anti-parallel

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There are 4 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	295	299	first strand
Strand 2	A	302	306	anti-parallel
Strand 3	A	317	319	anti-parallel
Strand 4	A	326	328	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	340	344	first strand
Strand 2	A	349	353	anti-parallel
Strand 3	A	367	370	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	A	355	356	first strand
Strand 2	A	362	363	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	A	390	394	first strand
Strand 2	A	397	401	anti-parallel
Strand 3	A	418	422	anti-parallel
Strand 4	A	427	430	anti-parallel

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There are 2 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	404	406	first strand
Strand 2	A	412	414	anti-parallel

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There are 3 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	442	446	first strand
Strand 2	A	449	453	anti-parallel
Strand 3	A	460	462	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	A	485	489	first strand
Strand 2	A	494	498	anti-parallel
Strand 3	A	508	512	anti-parallel
Strand 4	A	517	520	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	70	74	first strand
Strand 2	B	63	67	anti-parallel
Strand 3	B	101	104	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	B	268	271	first strand
Strand 2	B	258	261	anti-parallel
Strand 3	B	531	534	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	B	295	299	first strand
Strand 2	B	302	306	anti-parallel
Strand 3	B	316	319	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	B	340	342	first strand
Strand 2	B	350	353	anti-parallel
Strand 3	B	367	369	anti-parallel
Strand 4	B	376	378	anti-parallel

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There are 3 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	390	394	first strand
Strand 2	B	397	401	anti-parallel
Strand 3	B	418	421	anti-parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	405	406	first strand
Strand 2	B	412	413	anti-parallel

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There are 3 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	486	488	first strand
Strand 2	B	494	497	anti-parallel
Strand 3	B	509	511	anti-parallel

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There are 9 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	223	228	first strand
Strand 2	C	193	200	parallel
Strand 3	C	170	174	parallel
Strand 4	C	256	260	parallel
Strand 5	C	295	298	parallel
Strand 6	C	131	134	parallel
Strand 7	C	11	14	parallel
Strand 8	C	52	55	parallel
Strand 9	D	31	32	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: 8VPQ

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