Analysis of interatomic
Contacts of Structural
Units in PDB entry:
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).
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 2VPG entry
There are 10 chains in PDB entry 2VPG
(CSU analysis of residue contacts immediately below table)
| Chain ID |
Initial residue | Terminal residue |
|---|
A
|
MET 338 | ASP 398 |
B
|
GLY 174 | PHE 203 |
C
|
GLY 336 | ASP 398 |
D
|
GLY 174 | PHE 203 |
P
|
ALA 1 | ALA 1 |
P
|
THR 3 | THR 3 |
P
|
GLN 5 | ALA 7 |
R
|
ALA 1 | ALA 1 |
R
|
THR 3 | THR 3 |
R
|
GLN 5 | ALA 7 |
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There are 8
helices in PDB entry 2VPG. Click on helix of interest for
CSU analysis.
Helix
number
| Helix
ID | Chain
ID |
Initial
residue | Terminal
residue |
Helix class |
|---|
| Helix 1 |
1 | A
| 369 |
373 | Right-handed alpha |
| Helix 2 |
2 | A
| 375 |
385 | Right-handed alpha |
| Helix 3 |
3 | A
| 392 |
398 | Right-handed alpha |
| Helix 4 |
4 | B
| 181 |
194 | Right-handed alpha |
| Helix 5 |
5 | C
| 369 |
373 | Right-handed alpha |
| Helix 6 |
6 | C
| 375 |
385 | Right-handed alpha |
| Helix 7 |
7 | C
| 392 |
398 | Right-handed alpha |
| Helix 8 |
8 | D
| 181 |
194 | Right-handed alpha |
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There are
4 sheets in PDB entry 2VPG. Click on sheet of
interest to get list of strands forming it:
AA,
AB,
CA,
CB,
There are 2
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
| 356 |
358 | first strand |
| Strand 2 |
A
| 366 |
368 | anti-parallel |
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There are 2
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
| 388 |
390 | first strand |
| Strand 2 |
B
| 178 |
180 | parallel |
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There are 2
strands in CA sheet. Click on strand of interest
for CSU analysis.
Strand
number
| Chain
ID |
Initial
residue | Terminal
residue |
Strand sense |
|---|
| Strand 1 |
C
| 356 |
358 | first strand |
| Strand 2 |
C
| 366 |
368 | anti-parallel |
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There are 2
strands in CB sheet. Click on strand of interest
for CSU analysis.
Strand
number
| Chain
ID |
Initial
residue | Terminal
residue |
Strand sense |
|---|
| Strand 1 |
C
| 388 |
390 | first strand |
| Strand 2 |
D
| 178 |
180 | parallel |
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Please mail
questions/suggestions concerning this page
to
Vladimir.Sobolev@weizmann.
ac.il