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


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 1YDY entry

There are 2 chains in PDB entry 1YDY (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ASN 29ASN 356
B
 ASN 29ASN 356
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 32 helices in PDB entry 1YDY. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
47 57Right-handed alpha
Helix 2
2
A
87 92Right-handed alpha
Helix 3
3
A
103 107Right-handed 310
Helix 4
4
A
108 115Right-handed alpha
Helix 5
5
A
147 163Right-handed alpha
Helix 6
6
A
174 181Right-handed alpha
Helix 7
7
A
184 196Right-handed alpha
Helix 8
8
A
211 221Right-handed alpha
Helix 9
9
A
221 227Right-handed alpha
Helix 10
10
A
238 242Right-handed 310
Helix 11
11
A
258 263Right-handed 310
Helix 12
12
A
265 271Right-handed alpha
Helix 13
13
A
281 284Right-handed 310
Helix 14
14
A
298 306Right-handed alpha
Helix 15
15
A
326 336Right-handed alpha
Helix 16
16
A
347 356Right-handed alpha
Helix 17
17
B
47 57Right-handed alpha
Helix 18
18
B
87 92Right-handed alpha
Helix 19
19
B
103 107Right-handed 310
Helix 20
20
B
108 114Right-handed alpha
Helix 21
21
B
147 163Right-handed alpha
Helix 22
22
B
174 181Right-handed alpha
Helix 23
23
B
184 196Right-handed alpha
Helix 24
24
B
211 221Right-handed alpha
Helix 25
25
B
221 227Right-handed alpha
Helix 26
26
B
238 242Right-handed 310
Helix 27
27
B
258 263Right-handed 310
Helix 28
28
B
265 272Right-handed alpha
Helix 29
29
B
281 284Right-handed 310
Helix 30
30
B
298 306Right-handed alpha
Helix 31
31
B
326 336Right-handed alpha
Helix 32
32
B
347 356Right-handed alpha
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There are 10 sheets in PDB entry 1YDY. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J,

There are 3 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
74 76first strand
Strand 2
A
61 68anti-parallel
Strand 3
A
167 172parallel
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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
74 76first strand
Strand 2
A
61 68anti-parallel
Strand 3
A
32 35parallel
Strand 4
A
342 345parallel
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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
121 124first strand
Strand 2
A
127 130anti-parallel
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There are 4 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
206 209first strand
Strand 2
A
231 236parallel
Strand 3
A
276 279parallel
Strand 4
A
309 310parallel
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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
A
245 247first strand
Strand 2
A
253 255anti-parallel
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There are 3 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
74 76first strand
Strand 2
B
61 68anti-parallel
Strand 3
B
167 172parallel
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There are 4 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
74 76first strand
Strand 2
B
61 68anti-parallel
Strand 3
B
32 35parallel
Strand 4
B
342 345parallel
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There are 2 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
121 123first strand
Strand 2
B
128 130anti-parallel
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There are 4 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
206 209first strand
Strand 2
B
231 236parallel
Strand 3
B
276 279parallel
Strand 4
B
309 310parallel
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There are 2 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
245 247first strand
Strand 2
B
253 255anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il