Analysis of interatomic Contacts of Structural Units in PDB entry:
2VOD


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 2VOD entry

There are 4 chains in PDB entry 2VOD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ASP 6LYS 192
B
 GLY 5LYS 192
C
 A -7 U -1
D
 A -7 U -1
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 20 helices in PDB entry 2VOD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
6 25Right-handed alpha
Helix 2
2
A
29 32Right-handed 310
Helix 3
3
A
33 43Right-handed alpha
Helix 4
4
A
49 53Right-handed alpha
Helix 5
5
A
55 62Right-handed alpha
Helix 6
6
A
64 75Right-handed alpha
Helix 7
7
A
101 110Right-handed alpha
Helix 8
8
A
123 132Right-handed alpha
Helix 9
9
A
160 170Right-handed alpha
Helix 10
10
A
185 192Right-handed alpha
Helix 11
11
B
6 25Right-handed alpha
Helix 12
12
B
29 32Right-handed 310
Helix 13
13
B
33 43Right-handed alpha
Helix 14
14
B
49 53Right-handed alpha
Helix 15
15
B
55 62Right-handed alpha
Helix 16
16
B
64 72Right-handed alpha
Helix 17
17
B
101 111Right-handed alpha
Helix 18
18
B
123 132Right-handed alpha
Helix 19
19
B
160 170Right-handed alpha
Helix 20
20
B
185 191Right-handed alpha
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There are 5 sheets in PDB entry 2VOD. Click on sheet of interest to get list of strands forming it: AA, AB, BA, BB, BC,

There are 3 strands in AA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
47 48first strand
Strand 2
A
88 91anti-parallel
Strand 3
A
80 82anti-parallel
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There are 4 strands in AB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
137 144first strand
Strand 2
A
150 158anti-parallel
Strand 3
A
112 116anti-parallel
Strand 4
A
181 184anti-parallel
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There are 3 strands in BA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
47 48first strand
Strand 2
B
88 91anti-parallel
Strand 3
B
80 82anti-parallel
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There are 4 strands in BB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
137 144first strand
Strand 2
B
150 158anti-parallel
Strand 3
B
112 116anti-parallel
Strand 4
B
181 184anti-parallel
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There are 2 strands in BC sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
174 175first strand
Strand 2
B
178 179anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il