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


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 1YBY entry

There are 2 chains in PDB entry 1YBY (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MSE 1VAL 185
B
 MSE 1VAL 185
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 4 helices in PDB entry 1YBY. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
5 7Right-handed 310
Helix 2
2
A
95 99Right-handed alpha
Helix 3
3
B
5 7Right-handed 310
Helix 4
4
B
95 99Right-handed alpha
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There are 8 sheets in PDB entry 1YBY. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

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
2 3first strand
Strand 2
A
59 60anti-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
12 15first strand
Strand 2
A
18 28anti-parallel
Strand 3
A
36 43anti-parallel
Strand 4
A
49 54anti-parallel
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There are 5 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
90 94first strand
Strand 2
A
79 83anti-parallel
Strand 3
A
66 76anti-parallel
Strand 4
A
110 116anti-parallel
Strand 5
A
119 124anti-parallel
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There are 5 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
159 163first strand
Strand 2
A
149 154anti-parallel
Strand 3
A
128 135anti-parallel
Strand 4
A
171 175anti-parallel
Strand 5
A
180 184anti-parallel
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There are 2 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
2 3first strand
Strand 2
B
59 60anti-parallel
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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
B
12 14first strand
Strand 2
B
19 28anti-parallel
Strand 3
B
36 43anti-parallel
Strand 4
B
49 54anti-parallel
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There are 5 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
90 94first strand
Strand 2
B
79 83anti-parallel
Strand 3
B
66 76anti-parallel
Strand 4
B
110 115anti-parallel
Strand 5
B
120 124anti-parallel
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There are 5 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
159 163first strand
Strand 2
B
149 154anti-parallel
Strand 3
B
128 136anti-parallel
Strand 4
B
171 175anti-parallel
Strand 5
B
180 184anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il