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


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 1YPS entry

There are 2 chains in PDB entry 1YPS (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLU 1ARG 322
B
 ARG 323ARG 331
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 7 helices in PDB entry 1YPS. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
47 49Right-handed 310
Helix 2
2
A
128 131Right-handed alpha
Helix 3
3
A
161 163Right-handed 310
Helix 4
4
A
225 235Right-handed alpha
Helix 5
5
A
271 274Right-handed alpha
Helix 6
6
A
290 292Right-handed 310
Helix 7
7
A
299 302Right-handed alpha
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There are 8 sheets in PDB entry 1YPS. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

There are 6 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
2 4first strand
Strand 2
A
152 156anti-parallel
Strand 3
A
139 144anti-parallel
Strand 4
A
305 310anti-parallel
Strand 5
A
315 320anti-parallel
Strand 6
A
169 172anti-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
5 8first strand
Strand 2
A
11 18anti-parallel
Strand 3
A
23 30anti-parallel
Strand 4
A
102 105parallel
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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
59 63first strand
Strand 2
A
69 77anti-parallel
Strand 3
A
89 94anti-parallel
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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
79 81first strand
Strand 2
A
84 86anti-parallel
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There are 3 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
187 190first strand
Strand 2
A
210 214anti-parallel
Strand 3
A
295 297parallel
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There are 4 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
203 207first strand
Strand 2
A
192 196anti-parallel
Strand 3
A
258 262anti-parallel
Strand 4
A
265 269anti-parallel
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There are 2 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
221 223first strand
Strand 2
A
286 288parallel
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There are 2 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
247 249first strand
Strand 2
A
281 283anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il