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 1PDN entry
There are 3 chains in PDB entry 1PDN
(CSU analysis of residue contacts immediately below table)
| Chain ID |
Initial residue | Terminal residue |
|---|
A
|
A 1 | C 15 |
B
|
T 16 | G 30 |
C
|
GLN 2 | VAL 124 |
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There are 6
helices in PDB entry 1PDN. Click on helix of interest for
CSU analysis.
Helix
number
| Helix
ID | Chain
ID |
Initial
residue | Terminal
residue |
Helix class |
|---|
| Helix 1 |
1 | C
| 20 |
32 | Right-handed alpha |
| Helix 2 |
2 | C
| 36 |
43 | Right-handed alpha |
| Helix 3 |
3 | C
| 47 |
60 | Right-handed alpha |
| Helix 4 |
4 | C
| 80 |
86 | Right-handed alpha |
| Helix 5 |
5 | C
| 96 |
105 | Right-handed alpha |
| Helix 6 |
6 | C
| 117 |
123 | Right-handed alpha |
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There is
1 sheet ( A) in PDB entry 1PDN.
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 |
C
| 3 |
5 | first strand |
| Strand 2 |
C
| 11 |
13 | anti-parallel |
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Please mail
questions/suggestions concerning this page
to
Vladimir.Sobolev@weizmann.
ac.il