Analysis of interatomic Contacts of Structural Units in PDB entry:
1PDN


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 1PDN entry

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