Analysis of interatomic Contacts of Structural Units in PDB entry:
5VKJ


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 5VKJ entry

There is 1 chain in PDB entry 5VKJ (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
GLU 17GLN 328
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 5 helices in PDB entry 5VKJ. Click on helix of interest for CSU analysis.
Helix
number
Helix
ID
Chain
ID
Initial
residue
Terminal
residue
Helix class
Helix 1
AA1
A
20 22Right-handed 310
Helix 2
AA2
A
81 85Right-handed 310
Helix 3
AA3
A
110 114Right-handed 310
Helix 4
AA4
A
209 213Right-handed 310
Helix 5
AA5
A
300 304Right-handed 310
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There are 8 sheets in PDB entry 5VKJ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 2 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
24 27first strand
Strand 2
A
45 48anti-parallel
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There are 5 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
A
31 35first strand
Strand 2
A
127 137parallel
Strand 3
A
115 122anti-parallel
Strand 4
A
55 65anti-parallel
Strand 5
A
70 78anti-parallel
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There are 3 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
A
40 42first strand
Strand 2
A
104 106anti-parallel
Strand 3
A
92 94anti-parallel
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There are 4 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
144 146first strand
Strand 2
A
157 163anti-parallel
Strand 3
A
198 206anti-parallel
Strand 4
A
187 193anti-parallel
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There are 4 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
181 182first strand
Strand 2
A
172 178anti-parallel
Strand 3
A
216 223anti-parallel
Strand 4
A
228 235anti-parallel
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There are 3 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
240 249first strand
Strand 2
A
261 271anti-parallel
Strand 3
A
293 296anti-parallel
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There are 5 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
A
254 255first strand
Strand 2
A
323 327parallel
Strand 3
A
305 312anti-parallel
Strand 4
A
276 281anti-parallel
Strand 5
A
284 286anti-parallel
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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
A
254 255first strand
Strand 2
A
323 327parallel
Strand 3
A
305 312anti-parallel
Strand 4
A
317 319anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il