Analysis of interatomic Contacts of Structural Units in PDB entry:
1YDX


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 1YDX entry

There is 1 chain in PDB entry 1YDX (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MSE 1THR 374
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 12 helices in PDB entry 1YDX. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
18 21Right-handed alpha
Helix 2
2
A
31 35Right-handed 310
Helix 3
3
A
100 110Right-handed alpha
Helix 4
4
A
111 117Right-handed alpha
Helix 5
5
A
128 135Right-handed alpha
Helix 6
6
A
142 183Right-handed alpha
Helix 7
7
A
185 192Right-handed alpha
Helix 8
8
A
195 201Right-handed alpha
Helix 9
9
A
219 223Right-handed 310
Helix 10
10
A
288 311Right-handed alpha
Helix 11
11
A
316 322Right-handed alpha
Helix 12
12
A
330 370Right-handed alpha
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There are 6 sheets in PDB entry 1YDX. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 2 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
14 17first strand
Strand 2
A
136 139anti-parallel
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There are 4 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
22 26first strand
Strand 2
A
88 93anti-parallel
Strand 3
A
64 67anti-parallel
Strand 4
A
75 77anti-parallel
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There are 3 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
53 54first strand
Strand 2
A
41 44anti-parallel
Strand 3
A
83 84parallel
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There are 2 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
202 205first strand
Strand 2
A
324 327anti-parallel
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There are 4 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
210 214first strand
Strand 2
A
277 282anti-parallel
Strand 3
A
251 255anti-parallel
Strand 4
A
264 267anti-parallel
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There are 3 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
241 242first strand
Strand 2
A
229 232anti-parallel
Strand 3
A
272 273parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il