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


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 1KDP entry

There are 2 chains in PDB entry 1KDP (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ALA 3ALA 225
B
 ALA 3ALA 225
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 19 helices in PDB entry 1KDP. 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 30Right-handed alpha
Helix 2
2
A
36 50Right-handed alpha
Helix 3
3
A
56 66Right-handed alpha
Helix 4
4
A
89 92Right-handed 310
Helix 5
5
A
93 105Right-handed alpha
Helix 6
6
A
106 119Right-handed alpha
Helix 7
7
A
150 165Right-handed alpha
Helix 8
8
A
170 188Right-handed alpha
Helix 9
9
A
208 225Right-handed alpha
Helix 10
10
B
17 30Right-handed alpha
Helix 11
11
B
36 51Right-handed alpha
Helix 12
12
B
56 66Right-handed alpha
Helix 13
13
B
89 92Right-handed 310
Helix 14
14
B
93 104Right-handed alpha
Helix 15
15
B
106 112Right-handed alpha
Helix 16
16
B
113 119Right-handed alpha
Helix 17
17
B
150 165Right-handed alpha
Helix 18
18
B
170 187Right-handed alpha
Helix 19
19
B
208 224Right-handed alpha
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There are 4 sheets in PDB entry 1KDP. Click on sheet of interest to get list of strands forming it: A, B, C, D,

There are 5 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
32 35first strand
Strand 2
A
126 130parallel
Strand 3
A
7 11parallel
Strand 4
A
143 148parallel
Strand 5
A
200 203parallel
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There are 3 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
71 72first strand
Strand 2
A
79 82anti-parallel
Strand 3
A
85 86anti-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
B
32 35first strand
Strand 2
B
126 130parallel
Strand 3
B
7 11parallel
Strand 4
B
143 148parallel
Strand 5
B
200 203parallel
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There are 3 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
69 72first strand
Strand 2
B
79 82anti-parallel
Strand 3
B
85 86anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il