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


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 3DVG entry

There are 4 chains in PDB entry 3DVG (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 THR 5GLY 214
B
 GLU 1LYS 221
X
 SER -1LEU 73
Y
 MET 1GLY 76
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 15 helices in PDB entry 3DVG. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
79 83Right-handed 310
Helix 2
2
A
123 128Right-handed alpha
Helix 3
3
A
185 190Right-handed alpha
Helix 4
4
B
28 32Right-handed 310
Helix 5
5
B
87 91Right-handed 310
Helix 6
6
B
101 104Right-handed 310
Helix 7
7
B
134 136Right-handed 310
Helix 8
8
B
163 165Right-handed 310
Helix 9
9
B
194 196Right-handed 310
Helix 10
10
B
208 211Right-handed 310
Helix 11
11
X
22 35Right-handed alpha
Helix 12
12
X
37 39Right-handed 310
Helix 13
13
X
56 60Right-handed 310
Helix 14
14
Y
22 35Right-handed alpha
Helix 15
15
Y
37 39Right-handed 310
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There are 13 sheets in PDB entry 3DVG. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M,

There are 6 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
9 13first strand
Strand 2
A
104 108parallel
Strand 3
A
85 91anti-parallel
Strand 4
A
34 38anti-parallel
Strand 5
A
45 49anti-parallel
Strand 6
A
53 54anti-parallel
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There are 4 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
9 13first strand
Strand 2
A
104 108parallel
Strand 3
A
85 91anti-parallel
Strand 4
A
98 100anti-parallel
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There are 3 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
19 23first strand
Strand 2
A
70 75anti-parallel
Strand 3
A
62 67anti-parallel
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There are 4 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
116 120first strand
Strand 2
A
131 141anti-parallel
Strand 3
A
175 184anti-parallel
Strand 4
A
161 165anti-parallel
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There are 4 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
155 156first strand
Strand 2
A
147 152anti-parallel
Strand 3
A
193 199anti-parallel
Strand 4
A
207 212anti-parallel
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There are 4 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
3 7first strand
Strand 2
B
18 25anti-parallel
Strand 3
B
78 83anti-parallel
Strand 4
B
68 73anti-parallel
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There are 6 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
10 12first strand
Strand 2
B
114 118parallel
Strand 3
B
92 99anti-parallel
Strand 4
B
33 39anti-parallel
Strand 5
B
45 51anti-parallel
Strand 6
B
58 60anti-parallel
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There are 4 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
10 12first strand
Strand 2
B
114 118parallel
Strand 3
B
92 99anti-parallel
Strand 4
B
107 110anti-parallel
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There are 4 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
127 131first strand
Strand 2
B
142 152anti-parallel
Strand 3
B
183 192anti-parallel
Strand 4
B
170 172anti-parallel
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There are 4 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
138 139first strand
Strand 2
B
142 152anti-parallel
Strand 3
B
183 192anti-parallel
Strand 4
B
176 177anti-parallel
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There are 3 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
158 161first strand
Strand 2
B
202 207anti-parallel
Strand 3
B
212 217anti-parallel
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There are 5 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
X
12 17first strand
Strand 2
X
1 7anti-parallel
Strand 3
X
66 71parallel
Strand 4
X
41 45anti-parallel
Strand 5
X
48 49anti-parallel
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There are 5 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
Y
13 16first strand
Strand 2
Y
2 6anti-parallel
Strand 3
Y
66 71parallel
Strand 4
Y
41 45anti-parallel
Strand 5
Y
48 49anti-parallel
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