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


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 2VGO entry


Note, this PDB entry contains modified residue(s) PHOSPHOTHREONINE (TPO) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

There are 6 chains in PDB entry 2VGO (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
LYS 87ARG 247
A
MET 249TYR 355
B
THR 78ARG 247
B
MET 249SER 357
C
PRO 797PHE 837
D
ILE 798SER 840
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 35 helices in PDB entry 2VGO. Click on helix of interest for CSU analysis.
Helix
number
Helix
ID
Chain
ID
Initial
residue
Terminal
residue
Helix class
Helix 1
1
A
89 91Right-handed 310
Helix 2
2
A
126 132Right-handed alpha
Helix 3
3
A
134 147Right-handed alpha
Helix 4
4
A
178 186Right-handed alpha
Helix 5
5
A
189 209Right-handed alpha
Helix 6
6
A
218 220Right-handed 310
Helix 7
7
A
252 256Right-handed 310
Helix 8
8
A
257 262Right-handed alpha
Helix 9
9
A
269 285Right-handed alpha
Helix 10
10
A
293 303Right-handed alpha
Helix 11
11
A
313 324Right-handed alpha
Helix 12
12
A
327 331Right-handed 310
Helix 13
13
A
333 339Right-handed alpha
Helix 14
14
A
340 347Right-handed alpha
Helix 15
15
B
89 91Right-handed 310
Helix 16
16
B
126 130Right-handed alpha
Helix 17
17
B
134 146Right-handed alpha
Helix 18
18
B
178 186Right-handed alpha
Helix 19
19
B
189 210Right-handed alpha
Helix 20
20
B
218 220Right-handed 310
Helix 21
21
B
252 256Right-handed 310
Helix 22
22
B
257 262Right-handed alpha
Helix 23
23
B
269 285Right-handed alpha
Helix 24
24
B
293 303Right-handed alpha
Helix 25
25
B
313 324Right-handed alpha
Helix 26
26
B
327 331Right-handed 310
Helix 27
27
B
333 339Right-handed alpha
Helix 28
28
B
340 347Right-handed alpha
Helix 29
29
C
799 802Right-handed 310
Helix 30
30
C
803 817Right-handed alpha
Helix 31
31
C
820 825Right-handed alpha
Helix 32
32
C
832 837Right-handed alpha
Helix 33
33
D
799 803Right-handed 310
Helix 34
34
D
804 817Right-handed alpha
Helix 35
35
D
820 825Right-handed alpha
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There are 6 sheets in PDB entry 2VGO. Click on sheet of interest to get list of strands forming it: AA, AB, AC, BA, BB, BC,

There are 5 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
93 101first strand
Strand 2
A
105 112anti-parallel
Strand 3
A
117 125anti-parallel
Strand 4
A
165 170anti-parallel
Strand 5
A
156 161anti-parallel
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There are 3 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
176 177first strand
Strand 2
A
222 224anti-parallel
Strand 3
A
230 232anti-parallel
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There are 2 strands in AC sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
A
212 213first strand
Strand 2
A
239 240anti-parallel
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There are 5 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
93 101first strand
Strand 2
B
106 112anti-parallel
Strand 3
B
117 125anti-parallel
Strand 4
B
165 170anti-parallel
Strand 5
B
156 161anti-parallel
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There are 3 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
176 177first strand
Strand 2
B
222 224anti-parallel
Strand 3
B
230 232anti-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
212 213first strand
Strand 2
B
239 240anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il