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


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 1DNA entry

There are 2 chains in PDB entry 1DNA (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 LYS 2ILE 264
B
 LYS 2ILE 264
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 22 helices in PDB entry 1DNA. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
2 14Right-handed alpha
Helix 2
2
A
38 40Right-handed 310
Helix 3
3
A
52 64Right-handed alpha
Helix 4
4
A
69 75Right-handed 310
Helix 5
5
A
81 83Right-handed 310
Helix 6
6
A
94 100Right-handed alpha
Helix 7
7
A
111 121Right-handed alpha
Helix 8
8
A
135 140Right-handed 310
Helix 9
9
A
173 191Right-handed alpha
Helix 10
10
A
210 221Right-handed 310
Helix 11
11
A
239 241Right-handed 310
Helix 12
12
A
244 246Right-handed 310
Helix 13
13
B
2 14Right-handed alpha
Helix 14
14
B
52 63Right-handed alpha
Helix 15
15
B
70 75Right-handed alpha
Helix 16
16
B
94 100Right-handed alpha
Helix 17
17
B
111 121Right-handed alpha
Helix 18
18
B
135 140Right-handed 310
Helix 19
19
B
173 191Right-handed alpha
Helix 20
20
B
210 221Right-handed 310
Helix 21
21
B
239 241Right-handed 310
Helix 22
22
B
244 246Right-handed 310
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There are 6 sheets in PDB entry 1DNA. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 4 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
16 18first strand
Strand 2
A
26 30anti-parallel
Strand 3
A
205 209anti-parallel
Strand 4
A
167 169parallel
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There are 5 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
32 37first strand
Strand 2
A
198 203anti-parallel
Strand 3
A
158 165parallel
Strand 4
A
147 155anti-parallel
Strand 5
A
129 131anti-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
229 232first strand
Strand 2
A
247 250anti-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
B
16 18first strand
Strand 2
B
26 30anti-parallel
Strand 3
B
205 209anti-parallel
Strand 4
B
167 169parallel
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There are 5 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
32 37first strand
Strand 2
B
198 203anti-parallel
Strand 3
B
158 165parallel
Strand 4
B
147 155anti-parallel
Strand 5
B
129 131anti-parallel
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There are 2 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
229 232first strand
Strand 2
B
247 250anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il