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

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 9VUD entry

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

Chain ID	Initial residue	Terminal residue
D	GLN 3	VAL 124
C	ASP 1	GLU 319

There are 13 helices in PDB entry 9VUD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	D	28	32	Right-handed 310
Helix 2	AA2	D	74	76	Right-handed 310
Helix 3	AA3	D	87	91	Right-handed 310
Helix 4	AA4	C	24	34	Right-handed alpha
Helix 5	AA5	C	35	46	Right-handed alpha
Helix 6	AA6	C	56	61	Right-handed 310
Helix 7	AA7	C	69	73	Right-handed 310
Helix 8	AA8	C	78	85	Right-handed alpha
Helix 9	AA9	C	141	144	Right-handed 310
Helix 10	AB1	C	168	183	Right-handed alpha
Helix 11	AB2	C	233	235	Right-handed 310
Helix 12	AB3	C	248	258	Right-handed alpha
Helix 13	AB4	C	266	270	Right-handed 310

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

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	D	4	7	first strand
Strand 2	D	18	24	anti-parallel
Strand 3	D	78	83	anti-parallel
Strand 4	D	68	73	anti-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	D	58	60	first strand
Strand 2	D	45	51	anti-parallel
Strand 3	D	33	39	anti-parallel
Strand 4	D	92	102	anti-parallel
Strand 5	D	120	122	anti-parallel

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There are 5 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	110	116	first strand
Strand 2	D	92	102	anti-parallel
Strand 3	C	302	304	parallel
Strand 4	C	294	299	anti-parallel
Strand 5	C	225	229	anti-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	C	51	54	first strand
Strand 2	C	147	149	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	C	62	64	first strand
Strand 2	C	153	156	parallel
Strand 3	C	110	114	parallel
Strand 4	C	119	123	anti-parallel
Strand 5	C	91	92	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	C	128	130	first strand
Strand 2	C	137	139	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	C	158	161	first strand
Strand 2	C	308	318	anti-parallel
Strand 3	C	186	189	anti-parallel
Strand 4	C	192	193	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	C	158	161	first strand
Strand 2	C	308	318	anti-parallel
Strand 3	C	204	212	anti-parallel
Strand 4	C	219	221	anti-parallel

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There are 3 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	237	241	first strand
Strand 2	C	284	288	anti-parallel
Strand 3	C	262	263	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: 9VUD

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