Analysis of interatomic Contacts of Structural Units in PDB entry:
3VDI


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 3VDI entry

There is 1 chain in PDB entry 3VDI (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
THR 4GLN 362
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 8 helices in PDB entry 3VDI. Click on helix of interest for CSU analysis.
Helix
number
Helix
ID
Chain
ID
Initial
residue
Terminal
residue
Helix class
Helix 1
1
A
122 129Right-handed alpha
Helix 2
2
A
151 169Right-handed alpha
Helix 3
3
A
169 181Right-handed alpha
Helix 4
4
A
183 192Right-handed alpha
Helix 5
5
A
229 234Right-handed alpha
Helix 6
6
A
240 244Right-handed 310
Helix 7
7
A
287 295Right-handed alpha
Helix 8
8
A
338 350Right-handed alpha
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There are 3 sheets in PDB entry 3VDI. Click on sheet of interest to get list of strands forming it: A, B, C,

There are 3 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
194 196first strand
Strand 2
A
214 225anti-parallel
Strand 3
A
200 207anti-parallel
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There are 15 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
194 196first strand
Strand 2
A
214 225anti-parallel
Strand 3
A
137 148anti-parallel
Strand 4
A
104 118anti-parallel
Strand 5
A
90 101anti-parallel
Strand 6
A
73 85anti-parallel
Strand 7
A
59 70anti-parallel
Strand 8
A
42 54anti-parallel
Strand 9
A
248 257anti-parallel
Strand 10
A
260 269anti-parallel
Strand 11
A
23 31anti-parallel
Strand 12
A
6 15anti-parallel
Strand 13
A
304 312parallel
Strand 14
A
333 336anti-parallel
Strand 15
A
328 330anti-parallel
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There are 4 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
A
273 277first strand
Strand 2
A
280 283anti-parallel
Strand 3
A
357 361anti-parallel
Strand 4
A
318 323anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il