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


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 5YDU entry

There are 2 chains in PDB entry 5YDU (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLY 11GLN 256
B
 GLY 11GLN 256
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 20 helices in PDB entry 5YDU. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
11 27Right-handed alpha
Helix 2
AA2
A
28 31Right-handed 310
Helix 3
AA3
A
66 70Right-handed 310
Helix 4
AA4
A
80 89Right-handed alpha
Helix 5
AA5
A
103 110Right-handed alpha
Helix 6
AA6
A
130 135Right-handed 310
Helix 7
AA7
A
172 186Right-handed alpha
Helix 8
AA8
A
208 224Right-handed alpha
Helix 9
AA9
A
225 229Right-handed 310
Helix 10
AB1
B
12 25Right-handed alpha
Helix 11
AB2
B
27 31Right-handed 310
Helix 12
AB3
B
66 70Right-handed 310
Helix 13
AB4
B
79 88Right-handed alpha
Helix 14
AB5
B
103 110Right-handed alpha
Helix 15
AB6
B
111 116Right-handed 310
Helix 16
AB7
B
117 122Right-handed alpha
Helix 17
AB8
B
131 134Right-handed 310
Helix 18
AB9
B
135 140Right-handed alpha
Helix 19
AC1
B
172 186Right-handed alpha
Helix 20
AC2
B
208 224Right-handed alpha
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There are 6 sheets in PDB entry 5YDU. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

There are 4 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
196 203first strand
Strand 2
A
35 42anti-parallel
Strand 3
A
239 245anti-parallel
Strand 4
A
252 255anti-parallel
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There are 2 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
55 57first strand
Strand 2
A
187 189anti-parallel
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There are 4 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
99 102first strand
Strand 2
A
72 76parallel
Strand 3
A
124 128parallel
Strand 4
A
152 154parallel
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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
B
196 203first strand
Strand 2
B
35 42anti-parallel
Strand 3
B
239 245anti-parallel
Strand 4
B
252 255anti-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
B
55 57first strand
Strand 2
B
187 189anti-parallel
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There are 4 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
97 102first strand
Strand 2
B
72 76parallel
Strand 3
B
124 128parallel
Strand 4
B
152 154parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il