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


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 1YDF entry

There is 1 chain in PDB entry 1YDF (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 SER 2ASP 256
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 11 helices in PDB entry 1YDF. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
22 35Right-handed alpha
Helix 2
2
A
49 61Right-handed alpha
Helix 3
3
A
66 68Right-handed 310
Helix 4
4
A
73 85Right-handed alpha
Helix 5
5
A
95 105Right-handed alpha
Helix 6
6
A
126 139Right-handed alpha
Helix 7
8
A
184 196Right-handed alpha
Helix 8
9
A
198 200Right-handed 310
Helix 9
10
A
211 218Right-handed alpha
Helix 10
11
A
232 236Right-handed 310
Helix 11
12
A
249 253Right-handed 310
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There are 4 sheets in PDB entry 1YDF. Click on sheet of interest to get list of strands forming it: A, B, C, D,

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
70 72first strand
Strand 2
A
39 43parallel
Strand 3
A
6 9parallel
Strand 4
A
202 206parallel
Strand 5
A
223 226parallel
Strand 6
A
245 247parallel
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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
16 17first strand
Strand 2
A
20 21anti-parallel
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There are 5 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
108 109first strand
Strand 2
A
89 93parallel
Strand 3
A
116 119parallel
Strand 4
A
142 145parallel
Strand 5
A
178 179parallel
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There are 2 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
151 154first strand
Strand 2
A
157 160anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il