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


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 5YBS entry

There are 2 chains in PDB entry 5YBS (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 LEU -2ILE 295
B
 GLY -3ILE 295
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 25 helices in PDB entry 5YBS. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
17 29Right-handed alpha
Helix 2
AA2
A
38 55Right-handed alpha
Helix 3
AA3
A
75 80Right-handed alpha
Helix 4
AA4
A
80 86Right-handed alpha
Helix 5
AA5
A
87 89Right-handed 310
Helix 6
AA6
A
90 102Right-handed alpha
Helix 7
AA7
A
133 136Right-handed 310
Helix 8
AA8
A
138 146Right-handed 310
Helix 9
AA9
A
172 176Right-handed 310
Helix 10
AB1
A
243 248Right-handed alpha
Helix 11
AB2
A
249 254Right-handed alpha
Helix 12
AB3
A
257 264Right-handed alpha
Helix 13
AB4
A
287 293Right-handed alpha
Helix 14
AB5
B
17 29Right-handed alpha
Helix 15
AB6
B
38 55Right-handed alpha
Helix 16
AB7
B
75 80Right-handed alpha
Helix 17
AB8
B
80 86Right-handed alpha
Helix 18
AB9
B
87 89Right-handed 310
Helix 19
AC1
B
90 102Right-handed alpha
Helix 20
AC2
B
131 136Right-handed 310
Helix 21
AC3
B
138 146Right-handed 310
Helix 22
AC4
B
243 248Right-handed alpha
Helix 23
AC5
B
249 256Right-handed alpha
Helix 24
AC6
B
257 264Right-handed alpha
Helix 25
AC7
B
287 292Right-handed alpha
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There are 5 sheets in PDB entry 5YBS. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5,

There are 7 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
11 13first strand
Strand 2
A
30 34parallel
Strand 3
A
205 209anti-parallel
Strand 4
A
150 156anti-parallel
Strand 5
A
226 235anti-parallel
Strand 6
A
110 120anti-parallel
Strand 7
A
70 73anti-parallel
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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
A
130 131first strand
Strand 2
A
213 215anti-parallel
Strand 3
A
168 169anti-parallel
Strand 4
A
196 197anti-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
A
269 272first strand
Strand 2
A
277 280anti-parallel
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There are 7 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
11 12first strand
Strand 2
B
32 33parallel
Strand 3
B
205 209anti-parallel
Strand 4
B
150 156anti-parallel
Strand 5
B
226 235anti-parallel
Strand 6
B
110 120anti-parallel
Strand 7
B
70 73anti-parallel
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There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
196 197first strand
Strand 2
B
167 169anti-parallel
Strand 3
B
214 216anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il