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


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 8DKR entry

There are 2 chains in PDB entry 8DKR (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
B
GLY 206LYS 453
A
LYS 214ILE 451
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 26 helices in PDB entry 8DKR. Click on helix of interest for CSU analysis.
Helix
number
Helix
ID
Chain
ID
Initial
residue
Terminal
residue
Helix class
Helix 1
AA1
B
218 226Right-handed alpha
Helix 2
AA2
B
227 233Right-handed alpha
Helix 3
AA3
B
273 275Right-handed 310
Helix 4
AA4
B
276 292Right-handed alpha
Helix 5
AA5
B
300 304Right-handed 310
Helix 6
AA6
B
305 317Right-handed alpha
Helix 7
AA7
B
350 354Right-handed alpha
Helix 8
AA8
B
356 378Right-handed alpha
Helix 9
AA9
B
383 387Right-handed 310
Helix 10
AB1
B
392 395Right-handed 310
Helix 11
AB2
B
396 408Right-handed alpha
Helix 12
AB3
B
424 432Right-handed alpha
Helix 13
AB4
B
437 447Right-handed alpha
Helix 14
AB5
A
218 226Right-handed alpha
Helix 15
AB6
A
227 233Right-handed alpha
Helix 16
AB7
A
273 275Right-handed 310
Helix 17
AB8
A
276 292Right-handed alpha
Helix 18
AB9
A
300 304Right-handed 310
Helix 19
AC1
A
305 317Right-handed alpha
Helix 20
AC2
A
350 354Right-handed alpha
Helix 21
AC3
A
356 379Right-handed alpha
Helix 22
AC4
A
383 387Right-handed 310
Helix 23
AC5
A
392 395Right-handed 310
Helix 24
AC6
A
396 408Right-handed alpha
Helix 25
AC7
A
424 433Right-handed alpha
Helix 26
AC8
A
437 447Right-handed alpha
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There are 6 sheets in PDB entry 8DKR. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

There are 6 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
B
324 327first strand
Strand 2
B
294 298parallel
Strand 3
B
240 245parallel
Strand 4
B
254 260anti-parallel
Strand 5
B
263 270anti-parallel
Strand 6
B
389 390parallel
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There are 2 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
339 342first strand
Strand 2
B
347 349anti-parallel
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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
B
412 414first strand
Strand 2
B
420 422anti-parallel
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There are 6 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
A
324 327first strand
Strand 2
A
294 298parallel
Strand 3
A
240 245parallel
Strand 4
A
254 260anti-parallel
Strand 5
A
263 270anti-parallel
Strand 6
A
389 390parallel
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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
A
339 342first strand
Strand 2
A
347 349anti-parallel
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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
A
412 414first strand
Strand 2
A
420 422anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il