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 1NPK entry
There is 1 chain in PDB entry 1NPK
(CSU analysis of residue contacts immediately below table)
| Chain ID |
Initial residue | Terminal residue |
|---|
A
|
VAL 6 | GLU 155 |
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There are 12
helices in PDB entry 1NPK. Click on helix of interest for
CSU analysis.
Helix
number
| Helix
ID | Chain
ID |
Initial
residue | Terminal
residue |
Helix class |
|---|
| Helix 1 |
A0 | A
| 17 |
21 | Right-handed alpha |
| Helix 2 |
A1 | A
| 25 |
35 | Right-handed alpha |
| Helix 3 |
AA | A
| 49 |
55 | Right-handed alpha |
| Helix 4 |
310 | A
| 57 |
59 | Right-handed 310 |
| Helix 5 |
A2 | A
| 65 |
73 | Right-handed alpha |
| Helix 6 |
A3 | A
| 87 |
95 | Right-handed alpha |
| Helix 7 |
310 | A
| 100 |
102 | Right-handed 310 |
| Helix 8 |
PP | A
| 103 |
105 | Polyproline |
| Helix 9 |
A'3 | A
| 108 |
112 | Right-handed alpha |
| Helix 10 |
A4 | A
| 127 |
137 | Right-handed alpha |
| Helix 11 |
310 | A
| 142 |
142 | Right-handed 310 |
| Helix 12 |
PP | A
| 146 |
150 | Polyproline |
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There is
1 sheet (BET) in PDB entry 1NPK.
There are 4
strands in BET sheet. Click on strand of interest
for CSU analysis.
Strand
number
| Chain
ID |
Initial
residue | Terminal
residue |
Strand sense |
|---|
| Strand 1 |
A
| 9 |
16 | first strand |
| Strand 2 |
A
| 38 |
45 | parallel |
| Strand 3 |
A
| 77 |
83 | parallel |
| Strand 4 |
A
| 121 |
124 | parallel |
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Please mail
questions/suggestions concerning this page
to
Vladimir.Sobolev@weizmann.
ac.il