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


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 3VDN entry

There is 1 chain in PDB entry 3VDN (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
B
 SER 4THR 481
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 21 helices in PDB entry 3VDN. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
B
35 40Right-handed alpha
Helix 2
2
B
56 66Right-handed alpha
Helix 3
3
B
75 77Right-handed 310
Helix 4
4
B
88 99Right-handed alpha
Helix 5
5
B
103 109Right-handed alpha
Helix 6
6
B
121 146Right-handed alpha
Helix 7
7
B
159 162Right-handed 310
Helix 8
8
B
163 172Right-handed alpha
Helix 9
9
B
187 192Right-handed alpha
Helix 10
10
B
195 207Right-handed alpha
Helix 11
11
B
216 231Right-handed alpha
Helix 12
12
B
274 280Right-handed alpha
Helix 13
13
B
292 295Right-handed 310
Helix 14
14
B
296 311Right-handed alpha
Helix 15
15
B
329 351Right-handed alpha
Helix 16
16
B
362 373Right-handed alpha
Helix 17
17
B
387 392Right-handed alpha
Helix 18
18
B
409 415Right-handed alpha
Helix 19
19
B
425 439Right-handed alpha
Helix 20
20
B
440 456Right-handed alpha
Helix 21
21
B
459 481Right-handed alpha
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There are 3 sheets in PDB entry 3VDN. Click on sheet of interest to get list of strands forming it: A, B, C,

There are 10 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
70 73first strand
Strand 2
B
79 85anti-parallel
Strand 3
B
47 53parallel
Strand 4
B
5 9parallel
Strand 5
B
153 157parallel
Strand 6
B
177 180parallel
Strand 7
B
211 214parallel
Strand 8
B
248 254parallel
Strand 9
B
242 245anti-parallel
Strand 10
B
235 237anti-parallel
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There are 2 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
15 19first strand
Strand 2
B
26 30anti-parallel
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There are 6 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
355 359first strand
Strand 2
B
316 323parallel
Strand 3
B
283 290parallel
Strand 4
B
375 378parallel
Strand 5
B
401 405parallel
Strand 6
B
419 421parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il