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


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 1VDD entry

There are 4 chains in PDB entry 1VDD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1PRO 199
B
 LYS 2PRO 199
C
 LYS 2SER 197
D
 LYS 2PRO 199
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 42 helices in PDB entry 1VDD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
4 16Right-handed alpha
Helix 2
2
A
21 33Right-handed alpha
Helix 3
3
A
36 54Right-handed alpha
Helix 4
4
A
69 74Right-handed alpha
Helix 5
5
A
87 94Right-handed alpha
Helix 6
6
A
112 116Right-handed 310
Helix 7
7
A
124 131Right-handed 310
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
4 15Right-handed alpha
Helix 12
12
B
21 34Right-handed alpha
Helix 13
13
B
36 54Right-handed alpha
Helix 14
14
B
69 74Right-handed alpha
Helix 15
15
B
87 98Right-handed alpha
Helix 16
16
B
112 116Right-handed 310
Helix 17
17
B
118 122Right-handed 310
Helix 18
18
B
124 131Right-handed 310
Helix 19
19
B
144 159Right-handed alpha
Helix 20
20
B
177 181Right-handed 310
Helix 21
21
B
182 192Right-handed alpha
Helix 22
22
C
4 17Right-handed alpha
Helix 23
23
C
21 34Right-handed alpha
Helix 24
24
C
36 54Right-handed alpha
Helix 25
25
C
69 74Right-handed alpha
Helix 26
26
C
87 96Right-handed alpha
Helix 27
27
C
118 122Right-handed 310
Helix 28
28
C
127 131Right-handed 310
Helix 29
29
C
146 159Right-handed alpha
Helix 30
30
C
177 181Right-handed 310
Helix 31
31
C
182 192Right-handed alpha
Helix 32
32
D
4 15Right-handed alpha
Helix 33
33
D
21 34Right-handed alpha
Helix 34
34
D
36 54Right-handed alpha
Helix 35
35
D
69 74Right-handed alpha
Helix 36
36
D
88 96Right-handed alpha
Helix 37
37
D
112 116Right-handed 310
Helix 38
38
D
118 122Right-handed 310
Helix 39
39
D
124 131Right-handed 310
Helix 40
40
D
144 159Right-handed alpha
Helix 41
41
D
160 162Right-handed 310
Helix 42
42
D
182 192Right-handed alpha
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There are 8 sheets in PDB entry 1VDD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

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
55 56first strand
Strand 2
A
63 64anti-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
103 106first strand
Strand 2
A
81 85parallel
Strand 3
A
136 139parallel
Strand 4
A
164 167parallel
Strand 5
B
194 197anti-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 197first strand
Strand 2
B
164 167anti-parallel
Strand 3
B
136 139parallel
Strand 4
B
81 85parallel
Strand 5
B
103 106parallel
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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
B
55 56first strand
Strand 2
B
63 64anti-parallel
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There are 2 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
55 56first strand
Strand 2
C
63 64anti-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
103 106first strand
Strand 2
C
81 85parallel
Strand 3
C
135 140parallel
Strand 4
C
163 167parallel
Strand 5
D
194 197anti-parallel
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There are 5 strands in G 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
78 85parallel
Strand 5
D
102 106parallel
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There are 2 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
55 56first strand
Strand 2
D
63 64anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il