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


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 3VUP entry

There are 2 chains in PDB entry 3VUP (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ARG 1LEU 351
B
 ARG 1LEU 351
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 33 helices in PDB entry 3VUP. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
35 54Right-handed alpha
Helix 2
2
A
87 102Right-handed alpha
Helix 3
3
A
118 120Right-handed 310
Helix 4
4
A
121 129Right-handed alpha
Helix 5
5
A
129 140Right-handed alpha
Helix 6
6
A
140 148Right-handed alpha
Helix 7
7
A
163 167Right-handed 310
Helix 8
8
A
175 179Right-handed 310
Helix 9
9
A
180 184Right-handed 310
Helix 10
10
A
196 215Right-handed alpha
Helix 11
11
A
226 230Right-handed 310
Helix 12
12
A
241 250Right-handed alpha
Helix 13
13
A
274 278Right-handed 310
Helix 14
14
A
279 284Right-handed 310
Helix 15
15
A
295 299Right-handed 310
Helix 16
16
A
303 314Right-handed alpha
Helix 17
17
A
323 339Right-handed alpha
Helix 18
18
B
35 54Right-handed alpha
Helix 19
19
B
87 102Right-handed alpha
Helix 20
20
B
121 129Right-handed alpha
Helix 21
21
B
129 140Right-handed alpha
Helix 22
22
B
140 148Right-handed alpha
Helix 23
23
B
163 166Right-handed 310
Helix 24
24
B
175 179Right-handed 310
Helix 25
25
B
180 184Right-handed 310
Helix 26
26
B
196 215Right-handed alpha
Helix 27
27
B
226 230Right-handed 310
Helix 28
28
B
241 250Right-handed alpha
Helix 29
29
B
274 278Right-handed 310
Helix 30
30
B
279 284Right-handed 310
Helix 31
31
B
295 299Right-handed 310
Helix 32
32
B
303 314Right-handed alpha
Helix 33
33
B
323 339Right-handed alpha
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There are 6 sheets in PDB entry 3VUP. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

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
3 5first strand
Strand 2
A
8 11anti-parallel
Strand 3
A
14 15anti-parallel
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There are 9 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
18 22first strand
Strand 2
A
58 65parallel
Strand 3
A
105 112parallel
Strand 4
A
157 161parallel
Strand 5
A
220 224parallel
Strand 6
A
259 262parallel
Strand 7
A
289 293parallel
Strand 8
A
318 322parallel
Strand 9
A
18 22parallel
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There are 2 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
72 73first strand
Strand 2
A
79 81anti-parallel
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There are 3 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
3 5first strand
Strand 2
B
8 11anti-parallel
Strand 3
B
14 15anti-parallel
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There are 9 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
18 22first strand
Strand 2
B
58 65parallel
Strand 3
B
105 112parallel
Strand 4
B
157 161parallel
Strand 5
B
220 224parallel
Strand 6
B
259 262parallel
Strand 7
B
289 293parallel
Strand 8
B
318 322parallel
Strand 9
B
18 22parallel
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There are 2 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
72 73first strand
Strand 2
B
79 81anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il