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


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 8YBP entry

There are 2 chains in PDB entry 8YBP (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLU 3LYS 239
B
 GLN 1SER 124
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 10 helices in PDB entry 8YBP. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
15 19Right-handed 310
Helix 2
AA2
A
23 28Right-handed alpha
Helix 3
AA3
A
72 81Right-handed alpha
Helix 4
AA4
A
159 175Right-handed alpha
Helix 5
AA5
A
211 217Right-handed alpha
Helix 6
AA6
A
218 222Right-handed 310
Helix 7
AA7
B
28 30Right-handed 310
Helix 8
AA8
B
84 88Right-handed 310
Helix 9
AA9
B
99 101Right-handed 310
Helix 10
AB1
B
107 111Right-handed 310
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There are 7 sheets in PDB entry 8YBP. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7,

There are 3 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
35 40first strand
Strand 2
A
84 88anti-parallel
Strand 3
A
120 122anti-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
44 46first strand
Strand 2
A
50 56anti-parallel
Strand 3
A
63 69anti-parallel
Strand 4
A
113 117parallel
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There are 5 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
143 154first strand
Strand 2
A
127 140anti-parallel
Strand 3
A
231 238parallel
Strand 4
A
184 193anti-parallel
Strand 5
A
196 201anti-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
156 158first strand
Strand 2
A
224 226anti-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
B
3 7first strand
Strand 2
B
18 25anti-parallel
Strand 3
B
75 80anti-parallel
Strand 4
B
65 70anti-parallel
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There are 6 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
11 13first strand
Strand 2
B
118 123parallel
Strand 3
B
89 97anti-parallel
Strand 4
B
32 39anti-parallel
Strand 5
B
46 50anti-parallel
Strand 6
B
56 57anti-parallel
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There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
11 13first strand
Strand 2
B
118 123parallel
Strand 3
B
89 97anti-parallel
Strand 4
B
113 114anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il