Analysis of interatomic Contacts of Structural Units in PDB entry:
1VPD


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).
For CSU analysis of other PDB entry

This page provides analyses of contacts formed by:
For analysis of ligand-protein contacts, use: 3D structure can be seen in additional window with STING software for 1VPD entry

There is 1 chain in PDB entry 1VPD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MSE 3ARG 296
Residue contacts

1. List of contacts for up to 10 consecutive residues:
Chain ID from residue number to residue number


2. Detailed analyses of contacts for any single residue:
Residue number chain ID
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There are 15 helices in PDB entry 1VPD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
13 24Right-handed alpha
Helix 2
2
A
34 44Right-handed alpha
Helix 3
3
A
51 59Right-handed alpha
Helix 4
4
A
68 78Right-handed alpha
Helix 5
5
A
81 86Right-handed alpha
Helix 6
6
A
99 112Right-handed alpha
Helix 7
7
A
124 131Right-handed alpha
Helix 8
8
A
141 154Right-handed alpha
Helix 9
9
A
166 196Right-handed alpha
Helix 10
10
A
199 208Right-handed alpha
Helix 11
11
A
214 226Right-handed alpha
Helix 12
12
A
234 253Right-handed alpha
Helix 13
13
A
256 272Right-handed alpha
Helix 14
14
A
278 280Right-handed 310
Helix 15
15
A
281 291Right-handed alpha
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There are 2 sheets in PDB entry 1VPD. Click on sheet of interest to get list of strands forming it: A, B,

There are 6 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
47 48first strand
Strand 2
A
27 31parallel
Strand 3
A
4 8parallel
Strand 4
A
61 64parallel
Strand 5
A
91 94parallel
Strand 6
A
116 119parallel
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There are 3 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
122 123first strand
Strand 2
A
134 139anti-parallel
Strand 3
A
156 163parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il