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


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 1YCD entry

There are 2 chains in PDB entry 1YCD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 VAL 3GLN 239
B
 GLN 4ALA 241
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 1YCD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
17 25Right-handed alpha
Helix 2
2
A
25 35Right-handed alpha
Helix 3
3
A
49 53Right-handed 310
Helix 4
4
A
58 68Right-handed alpha
Helix 5
5
A
80 84Right-handed 310
Helix 6
6
A
86 101Right-handed alpha
Helix 7
7
A
110 127Right-handed alpha
Helix 8
8
A
159 162Right-handed 310
Helix 9
9
A
187 202Right-handed alpha
Helix 10
10
A
223 239Right-handed alpha
Helix 11
11
B
17 25Right-handed alpha
Helix 12
12
B
25 35Right-handed alpha
Helix 13
13
B
49 53Right-handed 310
Helix 14
14
B
58 68Right-handed alpha
Helix 15
15
B
80 84Right-handed 310
Helix 16
16
B
86 101Right-handed alpha
Helix 17
17
B
110 127Right-handed alpha
Helix 18
18
B
159 162Right-handed 310
Helix 19
19
B
187 202Right-handed alpha
Helix 20
20
B
223 239Right-handed alpha
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There are 6 sheets in PDB entry 1YCD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

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
38 42first strand
Strand 2
A
7 11parallel
Strand 3
A
105 109parallel
Strand 4
A
135 139parallel
Strand 5
A
174 180parallel
Strand 6
A
209 214parallel
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There are 2 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
46 47first strand
Strand 2
A
72 73anti-parallel
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There are 2 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
145 147first strand
Strand 2
A
155 157anti-parallel
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There are 6 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
38 42first strand
Strand 2
B
7 11parallel
Strand 3
B
105 109parallel
Strand 4
B
135 139parallel
Strand 5
B
174 180parallel
Strand 6
B
209 214parallel
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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
46 47first strand
Strand 2
B
72 73anti-parallel
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There are 2 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
145 147first strand
Strand 2
B
155 157anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il