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


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 8YDK entry

There are 3 chains in PDB entry 8YDK (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLN 26GLY 268
B
 GLN 26GLY 268
C
 GLN 26GLY 268
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 33 helices in PDB entry 8YDK. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
27 30Right-handed 310
Helix 2
AA2
A
42 49Right-handed alpha
Helix 3
AA3
A
73 99Right-handed alpha
Helix 4
AA4
A
109 121Right-handed alpha
Helix 5
AA5
A
123 132Right-handed alpha
Helix 6
AA6
A
156 164Right-handed alpha
Helix 7
AA7
A
164 169Right-handed alpha
Helix 8
AA8
A
177 201Right-handed alpha
Helix 9
AA9
A
214 224Right-handed alpha
Helix 10
AB1
A
228 238Right-handed alpha
Helix 11
AB2
A
238 245Right-handed alpha
Helix 12
AB3
B
28 30Right-handed 310
Helix 13
AB4
B
42 49Right-handed alpha
Helix 14
AB5
B
73 97Right-handed alpha
Helix 15
AB6
B
109 121Right-handed alpha
Helix 16
AB7
B
123 132Right-handed alpha
Helix 17
AB8
B
156 163Right-handed alpha
Helix 18
AB9
B
164 169Right-handed alpha
Helix 19
AC1
B
177 201Right-handed alpha
Helix 20
AC2
B
214 224Right-handed alpha
Helix 21
AC3
B
228 238Right-handed alpha
Helix 22
AC4
B
238 245Right-handed alpha
Helix 23
AC5
C
28 30Right-handed 310
Helix 24
AC6
C
42 49Right-handed alpha
Helix 25
AC7
C
73 99Right-handed alpha
Helix 26
AC8
C
109 120Right-handed alpha
Helix 27
AC9
C
123 132Right-handed alpha
Helix 28
AD1
C
156 163Right-handed alpha
Helix 29
AD2
C
164 169Right-handed alpha
Helix 30
AD3
C
177 201Right-handed alpha
Helix 31
AD4
C
214 224Right-handed alpha
Helix 32
AD5
C
228 238Right-handed alpha
Helix 33
AD6
C
238 245Right-handed alpha
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There are 6 sheets in PDB entry 8YDK. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

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
32 34first strand
Strand 2
A
39 41anti-parallel
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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
137 141first strand
Strand 2
A
147 155anti-parallel
Strand 3
A
51 60parallel
Strand 4
A
257 266anti-parallel
Strand 5
A
247 254anti-parallel
Strand 6
A
204 205anti-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
32 34first strand
Strand 2
B
39 41anti-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
B
137 141first strand
Strand 2
B
147 155anti-parallel
Strand 3
B
51 60parallel
Strand 4
B
257 266anti-parallel
Strand 5
B
247 254anti-parallel
Strand 6
B
204 205anti-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
C
32 33first strand
Strand 2
C
40 41anti-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
C
137 141first strand
Strand 2
C
147 155anti-parallel
Strand 3
C
51 60parallel
Strand 4
C
257 266anti-parallel
Strand 5
C
247 254anti-parallel
Strand 6
C
204 205anti-parallel
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