Analysis of interatomic Contacts of Structural Units in PDB entry:
8PDK


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 8PDK entry

There are 2 chains in PDB entry 8PDK (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLN 163GLN 301
B
 ASP 165GLN 301
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
Back to top of page

There are 18 helices in PDB entry 8PDK. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
167 175Right-handed alpha
Helix 2
AA2
A
179 194Right-handed alpha
Helix 3
AA3
A
196 204Right-handed alpha
Helix 4
AA4
A
207 219Right-handed alpha
Helix 5
AA5
A
233 238Right-handed alpha
Helix 6
AA6
A
241 249Right-handed alpha
Helix 7
AA7
A
266 268Right-handed 310
Helix 8
AA8
A
269 278Right-handed alpha
Helix 9
AA9
A
287 299Right-handed alpha
Helix 10
AB1
B
167 176Right-handed alpha
Helix 11
AB2
B
179 194Right-handed alpha
Helix 12
AB3
B
196 204Right-handed alpha
Helix 13
AB4
B
207 219Right-handed alpha
Helix 14
AB5
B
233 238Right-handed alpha
Helix 15
AB6
B
241 249Right-handed alpha
Helix 16
AB7
B
266 268Right-handed 310
Helix 17
AB8
B
269 278Right-handed alpha
Helix 18
AB9
B
287 299Right-handed alpha
Back to top of page

There are 2 sheets in PDB entry 8PDK. Click on sheet of interest to get list of strands forming it: AA1, AA2,

There are 4 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
222 224first strand
Strand 2
A
281 286parallel
Strand 3
A
259 264parallel
Strand 4
A
250 256anti-parallel
Back to list of sheets
Back to top of page

There are 4 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
222 223first strand
Strand 2
B
281 285parallel
Strand 3
B
259 264parallel
Strand 4
B
250 256anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il