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


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 3VDP entry

There are 4 chains in PDB entry 3VDP (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 TYR 0VAL 196
B
 SER 2VAL 196
C
 TYR 0VAL 196
D
 MET -2VAL 196
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 38 helices in PDB entry 3VDP. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
2 14Right-handed alpha
Helix 2
2
A
19 31Right-handed alpha
Helix 3
3
A
34 52Right-handed alpha
Helix 4
4
A
67 72Right-handed alpha
Helix 5
5
A
85 94Right-handed alpha
Helix 6
6
A
116 120Right-handed 310
Helix 7
7
A
121 132Right-handed alpha
Helix 8
8
A
144 159Right-handed alpha
Helix 9
9
A
177 181Right-handed 310
Helix 10
10
A
182 192Right-handed alpha
Helix 11
11
B
3 15Right-handed alpha
Helix 12
12
B
19 33Right-handed alpha
Helix 13
13
B
34 52Right-handed alpha
Helix 14
14
B
67 72Right-handed alpha
Helix 15
15
B
85 94Right-handed alpha
Helix 16
16
B
122 129Right-handed alpha
Helix 17
17
B
144 158Right-handed alpha
Helix 18
18
B
177 181Right-handed 310
Helix 19
19
B
182 191Right-handed alpha
Helix 20
20
C
2 14Right-handed alpha
Helix 21
21
C
19 33Right-handed alpha
Helix 22
22
C
34 51Right-handed alpha
Helix 23
23
C
85 94Right-handed alpha
Helix 24
24
C
110 114Right-handed 310
Helix 25
25
C
116 120Right-handed 310
Helix 26
26
C
121 131Right-handed alpha
Helix 27
27
C
144 156Right-handed alpha
Helix 28
28
C
182 192Right-handed alpha
Helix 29
29
D
2 13Right-handed alpha
Helix 30
30
D
19 32Right-handed alpha
Helix 31
31
D
34 52Right-handed alpha
Helix 32
32
D
67 72Right-handed alpha
Helix 33
33
D
85 94Right-handed alpha
Helix 34
34
D
116 120Right-handed 310
Helix 35
35
D
121 130Right-handed alpha
Helix 36
36
D
144 158Right-handed alpha
Helix 37
37
D
177 181Right-handed 310
Helix 38
38
D
182 192Right-handed alpha
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There are 6 sheets in PDB entry 3VDP. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 2 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
53 54first strand
Strand 2
A
61 62anti-parallel
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There are 5 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
100 104first strand
Strand 2
A
76 83parallel
Strand 3
A
136 139parallel
Strand 4
A
164 167parallel
Strand 5
B
194 195anti-parallel
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There are 5 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
194 195first strand
Strand 2
B
165 167anti-parallel
Strand 3
B
137 139parallel
Strand 4
B
80 83parallel
Strand 5
B
101 104parallel
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There are 2 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
53 54first strand
Strand 2
C
61 62anti-parallel
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There are 5 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
100 104first strand
Strand 2
C
76 83parallel
Strand 3
C
136 139parallel
Strand 4
C
165 167parallel
Strand 5
D
194 195anti-parallel
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There are 5 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
194 195first strand
Strand 2
D
164 167anti-parallel
Strand 3
D
136 139parallel
Strand 4
D
79 83parallel
Strand 5
D
101 104parallel
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