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


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 8YNJ entry

There is 1 chain in PDB entry 8YNJ (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 LEU 5ARG 447
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 19 helices in PDB entry 8YNJ. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
6 10Right-handed 310
Helix 2
AA2
A
12 16Right-handed 310
Helix 3
AA3
A
34 46Right-handed alpha
Helix 4
AA4
A
56 68Right-handed alpha
Helix 5
AA5
A
94 102Right-handed alpha
Helix 6
AA6
A
122 138Right-handed alpha
Helix 7
AA7
A
180 185Right-handed alpha
Helix 8
AA8
A
196 210Right-handed alpha
Helix 9
AA9
A
221 233Right-handed alpha
Helix 10
AB1
A
241 245Right-handed 310
Helix 11
AB2
A
279 288Right-handed alpha
Helix 12
AB3
A
314 325Right-handed alpha
Helix 13
AB4
A
337 344Right-handed 310
Helix 14
AB5
A
354 367Right-handed alpha
Helix 15
AB6
A
371 380Right-handed alpha
Helix 16
AB7
A
388 392Right-handed 310
Helix 17
AB8
A
395 399Right-handed 310
Helix 18
AB9
A
426 431Right-handed 310
Helix 19
AC1
A
432 444Right-handed alpha
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There are 5 sheets in PDB entry 8YNJ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5,

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
A
20 23first strand
Strand 2
A
142 146parallel
Strand 3
A
112 116parallel
Strand 4
A
50 54parallel
Strand 5
A
89 93parallel
Strand 6
A
72 74parallel
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There are 6 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
163 168first strand
Strand 2
A
297 302parallel
Strand 3
A
253 256parallel
Strand 4
A
190 193parallel
Strand 5
A
236 239parallel
Strand 6
A
214 217parallel
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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
A
259 260first strand
Strand 2
A
276 277anti-parallel
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There are 2 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
264 266first strand
Strand 2
A
269 271anti-parallel
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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
409 411first strand
Strand 2
A
417 419anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il