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

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 8VDX entry

There are 2 chains in PDB entry 8VDX (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 28	ALA 530
B	LYS 29	ALA 530

There are 42 helices in PDB entry 8VDX. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	50	61	Right-handed alpha
Helix 2	AA2	A	107	122	Right-handed alpha
Helix 3	AA3	A	122	131	Right-handed alpha
Helix 4	AA4	A	153	159	Right-handed alpha
Helix 5	AA5	A	170	175	Right-handed alpha
Helix 6	AA6	A	195	198	Right-handed 310
Helix 7	AA7	A	242	252	Right-handed alpha
Helix 8	AA8	A	262	264	Right-handed 310
Helix 9	AA9	A	265	272	Right-handed alpha
Helix 10	AB1	A	299	308	Right-handed alpha
Helix 11	AB2	A	311	321	Right-handed alpha
Helix 12	AB3	A	324	326	Right-handed 310
Helix 13	AB4	A	347	352	Right-handed alpha
Helix 14	AB5	A	355	366	Right-handed alpha
Helix 15	AB6	A	381	398	Right-handed alpha
Helix 16	AB7	A	408	416	Right-handed alpha
Helix 17	AB8	A	421	425	Right-handed 310
Helix 18	AB9	A	435	441	Right-handed 310
Helix 19	AC1	A	451	455	Right-handed 310
Helix 20	AC2	A	462	474	Right-handed alpha
Helix 21	AC3	A	477	496	Right-handed alpha
Helix 22	AC4	B	50	61	Right-handed alpha
Helix 23	AC5	B	107	119	Right-handed alpha
Helix 24	AC6	B	122	131	Right-handed alpha
Helix 25	AC7	B	153	159	Right-handed alpha
Helix 26	AC8	B	170	175	Right-handed alpha
Helix 27	AC9	B	195	198	Right-handed 310
Helix 28	AD1	B	242	252	Right-handed alpha
Helix 29	AD2	B	262	264	Right-handed 310
Helix 30	AD3	B	265	272	Right-handed alpha
Helix 31	AD4	B	299	308	Right-handed alpha
Helix 32	AD5	B	311	321	Right-handed alpha
Helix 33	AD6	B	324	326	Right-handed 310
Helix 34	AD7	B	347	352	Right-handed alpha
Helix 35	AD8	B	355	366	Right-handed alpha
Helix 36	AD9	B	381	398	Right-handed alpha
Helix 37	AE1	B	408	416	Right-handed alpha
Helix 38	AE2	B	421	425	Right-handed 310
Helix 39	AE3	B	436	441	Right-handed 310
Helix 40	AE4	B	451	455	Right-handed 310
Helix 41	AE5	B	462	475	Right-handed alpha
Helix 42	AE6	B	477	496	Right-handed alpha

There are 10 sheets in PDB entry 8VDX. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1,

There are 7 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	191	193	first strand
Strand 2	A	203	208	anti-parallel
Strand 3	A	234	238	anti-parallel
Strand 4	A	31	35	parallel
Strand 5	A	257	258	parallel
Strand 6	A	507	511	anti-parallel
Strand 7	A	275	279	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	65	67	first strand
Strand 2	A	73	75	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	78	84	first strand
Strand 2	A	89	94	anti-parallel
Strand 3	A	142	147	anti-parallel
Strand 4	A	132	137	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	328	329	first strand
Strand 2	A	499	504	anti-parallel
Strand 3	A	284	290	anti-parallel
Strand 4	A	429	434	anti-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	372	378	first strand
Strand 2	A	401	407	parallel

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There are 7 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	191	193	first strand
Strand 2	B	203	208	anti-parallel
Strand 3	B	234	238	anti-parallel
Strand 4	B	31	35	parallel
Strand 5	B	257	258	parallel
Strand 6	B	507	511	anti-parallel
Strand 7	B	275	279	anti-parallel

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There are 2 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	65	67	first strand
Strand 2	B	73	75	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	78	84	first strand
Strand 2	B	89	94	anti-parallel
Strand 3	B	142	147	anti-parallel
Strand 4	B	132	137	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	B	328	329	first strand
Strand 2	B	499	504	anti-parallel
Strand 3	B	284	290	anti-parallel
Strand 4	B	429	434	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	B	372	378	first strand
Strand 2	B	401	407	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: 8VDX

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