Analysis of interatomic Contacts of Structural Units in PDB entry:
2KDO


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 2KDO entry

There is 1 chain in PDB entry 2KDO (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLY 1GLU 252
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 10 helices in PDB entry 2KDO. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
37 43Right-handed 310
Helix 2
2
A
69 77Right-handed alpha
Helix 3
3
A
81 92Right-handed alpha
Helix 4
4
A
108 119Right-handed alpha
Helix 5
5
A
131 143Right-handed alpha
Helix 6
6
A
151 167Right-handed alpha
Helix 7
7
A
181 189Right-handed alpha
Helix 8
8
A
191 196Right-handed alpha
Helix 9
9
A
215 217Right-handed 310
Helix 10
10
A
218 230Right-handed alpha
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There are 4 sheets in PDB entry 2KDO. Click on sheet of interest to get list of strands forming it: A, B, C, D,

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
28 34first strand
Strand 2
A
17 23anti-parallel
Strand 3
A
94 95anti-parallel
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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
58 61first strand
Strand 2
A
66 68anti-parallel
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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 122first strand
Strand 2
A
170 172anti-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
198 202first strand
Strand 2
A
210 212anti-parallel
Strand 3
A
176 179anti-parallel
Strand 4
A
235 238anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il