Analysis of interatomic Contacts of Structural Units in PDB entry:
4DNA


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 4DNA entry

There are 2 chains in PDB entry 4DNA (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ALA 3GLY 463
B
 ALA 3GLY 463
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 33 helices in PDB entry 4DNA. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
14 26Right-handed alpha
Helix 2
2
A
40 47Right-handed alpha
Helix 3
3
A
47 67Right-handed alpha
Helix 4
4
A
68 70Right-handed 310
Helix 5
5
A
80 107Right-handed alpha
Helix 6
6
A
153 157Right-handed 310
Helix 7
7
A
159 164Right-handed alpha
Helix 8
8
A
179 192Right-handed alpha
Helix 9
9
A
210 224Right-handed alpha
Helix 10
10
A
275 279Right-handed 310
Helix 11
11
A
305 309Right-handed 310
Helix 12
12
A
313 330Right-handed alpha
Helix 13
13
A
357 365Right-handed alpha
Helix 14
14
A
379 384Right-handed alpha
Helix 15
15
A
411 425Right-handed alpha
Helix 16
16
A
428 434Right-handed alpha
Helix 17
17
A
442 447Right-handed 310
Helix 18
18
B
14 27Right-handed alpha
Helix 19
19
B
40 47Right-handed alpha
Helix 20
20
B
47 69Right-handed alpha
Helix 21
21
B
80 106Right-handed alpha
Helix 22
22
B
153 157Right-handed 310
Helix 23
23
B
159 164Right-handed alpha
Helix 24
24
B
179 192Right-handed alpha
Helix 25
25
B
210 224Right-handed alpha
Helix 26
26
B
274 279Right-handed alpha
Helix 27
27
B
305 309Right-handed 310
Helix 28
28
B
313 329Right-handed alpha
Helix 29
29
B
357 365Right-handed alpha
Helix 30
30
B
379 384Right-handed alpha
Helix 31
31
B
411 425Right-handed alpha
Helix 32
32
B
428 435Right-handed alpha
Helix 33
33
B
442 446Right-handed 310
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There are 14 sheets in PDB entry 4DNA. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N,

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
109 112first strand
Strand 2
A
31 35parallel
Strand 3
A
6 11parallel
Strand 4
A
130 139parallel
Strand 5
A
122 125anti-parallel
Strand 6
A
115 117anti-parallel
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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
109 112first strand
Strand 2
A
31 35parallel
Strand 3
A
6 11parallel
Strand 4
A
130 139parallel
Strand 5
A
301 303parallel
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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
72 74first strand
Strand 2
B
77 79anti-parallel
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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
78 79first strand
Strand 2
B
72 73anti-parallel
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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
143 145first strand
Strand 2
A
266 268anti-parallel
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There are 4 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
227 229first strand
Strand 2
A
195 199parallel
Strand 3
A
172 176parallel
Strand 4
A
259 262parallel
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There are 3 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
234 239first strand
Strand 2
A
245 249anti-parallel
Strand 3
A
254 257anti-parallel
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There are 7 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
343 345first strand
Strand 2
A
351 355anti-parallel
Strand 3
A
402 408anti-parallel
Strand 4
A
389 396anti-parallel
Strand 5
A
367 375anti-parallel
Strand 6
A
454 457anti-parallel
Strand 7
A
460 461anti-parallel
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There are 6 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
109 112first strand
Strand 2
B
31 35parallel
Strand 3
B
6 11parallel
Strand 4
B
131 139parallel
Strand 5
B
122 125anti-parallel
Strand 6
B
115 117anti-parallel
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There are 5 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
109 112first strand
Strand 2
B
31 35parallel
Strand 3
B
6 11parallel
Strand 4
B
131 139parallel
Strand 5
B
301 303parallel
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There are 2 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
143 145first strand
Strand 2
B
266 268anti-parallel
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There are 4 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
227 229first strand
Strand 2
B
195 199parallel
Strand 3
B
172 176parallel
Strand 4
B
259 262parallel
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There are 3 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
234 239first strand
Strand 2
B
245 249anti-parallel
Strand 3
B
254 257anti-parallel
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There are 7 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
343 345first strand
Strand 2
B
351 355anti-parallel
Strand 3
B
401 408anti-parallel
Strand 4
B
389 396anti-parallel
Strand 5
B
367 375anti-parallel
Strand 6
B
454 457anti-parallel
Strand 7
B
460 461anti-parallel
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