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


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 1YBF entry

There are 3 chains in PDB entry 1YBF (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 THR 5LYS 250
B
 THR 5SER 252
C
 LYS 4LYS 250
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 1YBF. 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 18Right-handed alpha
Helix 2
2
A
34 46Right-handed alpha
Helix 3
3
A
72 83Right-handed alpha
Helix 4
4
A
121 125Right-handed 310
Helix 5
5
A
135 148Right-handed alpha
Helix 6
6
A
169 179Right-handed alpha
Helix 7
7
A
187 198Right-handed alpha
Helix 8
8
A
231 249Right-handed alpha
Helix 9
9
B
5 19Right-handed alpha
Helix 10
10
B
21 25Right-handed 310
Helix 11
11
B
34 45Right-handed alpha
Helix 12
12
B
72 83Right-handed alpha
Helix 13
13
B
84 86Right-handed 310
Helix 14
14
B
120 125Right-handed 310
Helix 15
15
B
135 148Right-handed alpha
Helix 16
16
B
169 179Right-handed alpha
Helix 17
17
B
187 198Right-handed alpha
Helix 18
18
B
231 252Right-handed alpha
Helix 19
19
C
5 19Right-handed alpha
Helix 20
20
C
21 25Right-handed 310
Helix 21
21
C
34 46Right-handed alpha
Helix 22
22
C
72 83Right-handed alpha
Helix 23
23
C
84 86Right-handed 310
Helix 24
24
C
120 125Right-handed 310
Helix 25
25
C
135 148Right-handed alpha
Helix 26
26
C
169 178Right-handed alpha
Helix 27
27
C
187 198Right-handed alpha
Helix 28
28
C
231 250Right-handed alpha
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There are 3 sheets in PDB entry 1YBF. Click on sheet of interest to get list of strands forming it: A, B, C,

There are 7 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
64 68first strand
Strand 2
A
28 32parallel
Strand 3
A
90 97parallel
Strand 4
A
202 208parallel
Strand 5
A
109 117anti-parallel
Strand 6
A
154 160parallel
Strand 7
A
183 185parallel
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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
58 61first strand
Strand 2
B
64 68anti-parallel
Strand 3
B
28 32parallel
Strand 4
B
90 99parallel
Strand 5
B
202 209parallel
Strand 6
B
109 118anti-parallel
Strand 7
B
153 161parallel
Strand 8
B
183 185parallel
Strand 9
B
90 99anti-parallel
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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
58 61first strand
Strand 2
C
64 68anti-parallel
Strand 3
C
28 32parallel
Strand 4
C
90 99parallel
Strand 5
C
202 209parallel
Strand 6
C
109 117anti-parallel
Strand 7
C
153 160parallel
Strand 8
C
183 185parallel
Strand 9
C
90 99anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il