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


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 5YDM entry

There is 1 chain in PDB entry 5YDM (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ASN -5HIS 402
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 5YDM. 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 30Right-handed alpha
Helix 2
AA2
A
35 46Right-handed alpha
Helix 3
AA3
A
60 71Right-handed alpha
Helix 4
AA4
A
100 107Right-handed alpha
Helix 5
AA5
A
107 126Right-handed alpha
Helix 6
AA6
A
128 135Right-handed alpha
Helix 7
AA7
A
141 162Right-handed alpha
Helix 8
AA8
A
174 183Right-handed alpha
Helix 9
AA9
A
187 204Right-handed alpha
Helix 10
AB1
A
215 220Right-handed alpha
Helix 11
AB2
A
221 223Right-handed 310
Helix 12
AB3
A
243 257Right-handed alpha
Helix 13
AB4
A
272 277Right-handed 310
Helix 14
AB5
A
278 287Right-handed alpha
Helix 15
AB6
A
308 313Right-handed alpha
Helix 16
AB7
A
314 324Right-handed alpha
Helix 17
AB8
A
327 340Right-handed alpha
Helix 18
AB9
A
350 360Right-handed alpha
Helix 19
AC1
A
379 394Right-handed alpha
Helix 20
AC2
A
396 400Right-handed 310
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There are 3 sheets in PDB entry 5YDM. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3,

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
5 11first strand
Strand 2
A
52 58anti-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
305 306first strand
Strand 2
A
298 300anti-parallel
Strand 3
A
168 171parallel
Strand 4
A
85 89parallel
Strand 5
A
342 345parallel
Strand 6
A
367 368parallel
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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
227 234first strand
Strand 2
A
237 242anti-parallel
Strand 3
A
208 212anti-parallel
Strand 4
A
261 263anti-parallel
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