Analysis of interatomic Contacts of Structural Units in PDB entry:
9VKF

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 9VKF entry

There are 2 chains in PDB entry 9VKF (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	TYR 30	HIS 348
B	ASP 28	HIS 348

There are 23 helices in PDB entry 9VKF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	30	39	Right-handed alpha
Helix 2	AA2	A	39	53	Right-handed alpha
Helix 3	AA3	A	53	58	Right-handed alpha
Helix 4	AA4	A	70	79	Right-handed alpha
Helix 5	AA5	A	92	103	Right-handed alpha
Helix 6	AA6	A	143	144	Right-handed 310
Helix 7	AA7	A	146	146	Right-handed 310
Helix 8	AA8	A	147	155	Right-handed alpha
Helix 9	AA9	A	175	185	Right-handed alpha
Helix 10	AB1	A	186	188	Right-handed 310
Helix 11	AB2	A	194	196	Right-handed 310
Helix 12	AB3	A	197	204	Right-handed alpha
Helix 13	AB4	A	211	215	Right-handed 310
Helix 14	AB5	B	29	38	Right-handed alpha
Helix 15	AB6	B	39	53	Right-handed alpha
Helix 16	AB7	B	53	58	Right-handed alpha
Helix 17	AB8	B	70	79	Right-handed alpha
Helix 18	AB9	B	92	103	Right-handed alpha
Helix 19	AC1	B	143	155	Right-handed alpha
Helix 20	AC2	B	175	185	Right-handed alpha
Helix 21	AC3	B	186	188	Right-handed 310
Helix 22	AC4	B	194	196	Right-handed 310
Helix 23	AC5	B	197	204	Right-handed alpha

There are 11 sheets in PDB entry 9VKF. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2,

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	109	111	first strand
Strand 2	A	84	87	parallel
Strand 3	A	62	65	parallel
Strand 4	A	128	131	parallel
Strand 5	A	160	162	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	A	206	208	first strand
Strand 2	A	286	297	anti-parallel
Strand 3	A	249	261	anti-parallel
Strand 4	A	165	173	anti-parallel
Strand 5	A	223	226	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	220	220	first strand
Strand 2	A	165	173	anti-parallel
Strand 3	A	249	261	anti-parallel
Strand 4	A	272	274	anti-parallel

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There are 3 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	237	237	first strand
Strand 2	A	302	309	anti-parallel
Strand 3	A	240	244	anti-parallel

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There are 3 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	237	237	first strand
Strand 2	A	302	309	anti-parallel
Strand 3	A	324	328	anti-parallel

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There are 2 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	319	321	first strand
Strand 2	A	345	347	anti-parallel

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There are 5 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	109	112	first strand
Strand 2	B	84	87	parallel
Strand 3	B	62	65	parallel
Strand 4	B	128	131	parallel
Strand 5	B	160	162	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	206	208	first strand
Strand 2	B	286	296	anti-parallel
Strand 3	B	250	261	anti-parallel
Strand 4	B	167	173	anti-parallel
Strand 5	B	220	224	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	206	208	first strand
Strand 2	B	286	296	anti-parallel
Strand 3	B	250	261	anti-parallel
Strand 4	B	272	274	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	B	237	237	first strand
Strand 2	B	302	310	anti-parallel
Strand 3	B	240	244	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	B	237	237	first strand
Strand 2	B	302	310	anti-parallel
Strand 3	B	320	328	anti-parallel
Strand 4	B	340	346	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: 9VKF

Analysis of interatomic Contacts of Structural Units in PDB entry:
9VKF