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


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 1YBD entry

There are 3 chains in PDB entry 1YBD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLN 6CYS 241
B
 GLN 6CYS 241
C
 GLN 6CYS 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 28 helices in PDB entry 1YBD. 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 23Right-handed 310
Helix 2
2
A
30 47Right-handed alpha
Helix 3
3
A
57 69Right-handed alpha
Helix 4
4
A
72 98Right-handed alpha
Helix 5
5
A
118 128Right-handed alpha
Helix 6
6
A
144 156Right-handed alpha
Helix 7
7
A
174 178Right-handed 310
Helix 8
8
A
189 195Right-handed alpha
Helix 9
9
A
201 211Right-handed alpha
Helix 10
10
A
224 232Right-handed alpha
Helix 11
11
B
17 22Right-handed 310
Helix 12
12
B
30 46Right-handed alpha
Helix 13
13
B
57 69Right-handed alpha
Helix 14
14
B
72 98Right-handed alpha
Helix 15
15
B
118 128Right-handed alpha
Helix 16
16
B
144 156Right-handed alpha
Helix 17
17
B
189 195Right-handed alpha
Helix 18
18
B
201 212Right-handed alpha
Helix 19
19
B
224 232Right-handed alpha
Helix 20
20
C
17 22Right-handed 310
Helix 21
21
C
30 47Right-handed alpha
Helix 22
22
C
57 69Right-handed alpha
Helix 23
23
C
72 98Right-handed alpha
Helix 24
24
C
118 128Right-handed alpha
Helix 25
25
C
144 156Right-handed alpha
Helix 26
26
C
189 195Right-handed alpha
Helix 27
27
C
201 212Right-handed alpha
Helix 28
28
C
224 232Right-handed alpha
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There are 3 sheets in PDB entry 1YBD. Click on sheet of interest to get list of strands forming it: A, B, C,

There are 9 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
115 116first strand
Strand 2
A
102 106parallel
Strand 3
A
131 135parallel
Strand 4
A
50 55parallel
Strand 5
A
11 16parallel
Strand 6
A
160 164parallel
Strand 7
A
215 218parallel
Strand 8
A
237 240anti-parallel
Strand 9
A
186 188parallel
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There are 9 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
115 116first strand
Strand 2
B
102 106parallel
Strand 3
B
131 135parallel
Strand 4
B
50 55parallel
Strand 5
B
11 16parallel
Strand 6
B
160 165parallel
Strand 7
B
215 219parallel
Strand 8
B
237 240anti-parallel
Strand 9
B
186 188parallel
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There are 9 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
115 116first strand
Strand 2
C
102 106parallel
Strand 3
C
131 135parallel
Strand 4
C
50 55parallel
Strand 5
C
11 16parallel
Strand 6
C
160 165parallel
Strand 7
C
215 219parallel
Strand 8
C
237 240anti-parallel
Strand 9
C
186 188parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il