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


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 1YDW entry

There are 2 chains in PDB entry 1YDW (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLN 6SER 360
B
 GLN 6SER 360
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 1YDW. 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 28Right-handed alpha
Helix 2
2
A
40 51Right-handed alpha
Helix 3
3
A
62 69Right-handed alpha
Helix 4
4
A
80 82Right-handed 310
Helix 5
5
A
83 93Right-handed alpha
Helix 6
6
A
107 120Right-handed alpha
Helix 7
7
A
130 138Right-handed 310
Helix 8
8
A
142 146Right-handed 310
Helix 9
9
A
165 172Right-handed alpha
Helix 10
10
A
173 176Right-handed 310
Helix 11
11
A
182 188Right-handed alpha
Helix 12
12
A
188 200Right-handed alpha
Helix 13
13
A
305 315Right-handed alpha
Helix 14
14
A
331 352Right-handed alpha
Helix 15
15
B
17 28Right-handed alpha
Helix 16
16
B
40 51Right-handed alpha
Helix 17
17
B
62 68Right-handed alpha
Helix 18
18
B
80 82Right-handed 310
Helix 19
19
B
83 93Right-handed alpha
Helix 20
20
B
107 121Right-handed alpha
Helix 21
21
B
130 133Right-handed 310
Helix 22
22
B
134 146Right-handed alpha
Helix 23
23
B
165 172Right-handed alpha
Helix 24
24
B
173 176Right-handed 310
Helix 25
25
B
183 188Right-handed alpha
Helix 26
26
B
188 200Right-handed alpha
Helix 27
27
B
305 315Right-handed alpha
Helix 28
28
B
330 352Right-handed alpha
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There are 6 sheets in PDB entry 1YDW. 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
58 60first strand
Strand 2
A
31 37parallel
Strand 3
A
7 12parallel
Strand 4
A
74 77parallel
Strand 5
A
97 100parallel
Strand 6
A
125 127parallel
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There are 8 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
215 216first strand
Strand 2
A
222 230anti-parallel
Strand 3
A
236 242anti-parallel
Strand 4
A
153 163parallel
Strand 5
A
244 255anti-parallel
Strand 6
A
258 262anti-parallel
Strand 7
A
273 280anti-parallel
Strand 8
A
296 301anti-parallel
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There are 4 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
215 216first strand
Strand 2
A
222 230anti-parallel
Strand 3
A
207 210anti-parallel
Strand 4
A
357 358anti-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
58 60first strand
Strand 2
B
31 37parallel
Strand 3
B
7 12parallel
Strand 4
B
74 77parallel
Strand 5
B
97 100parallel
Strand 6
B
125 127parallel
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There are 8 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
215 216first strand
Strand 2
B
222 230anti-parallel
Strand 3
B
236 242anti-parallel
Strand 4
B
153 163parallel
Strand 5
B
244 255anti-parallel
Strand 6
B
258 262anti-parallel
Strand 7
B
273 280anti-parallel
Strand 8
B
296 301anti-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
215 216first strand
Strand 2
B
222 230anti-parallel
Strand 3
B
207 210anti-parallel
Strand 4
B
357 358anti-parallel
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