Analysis of interatomic Contacts of Structural Units in PDB entry:
3DOD


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 3DOD entry

There are 2 chains in PDB entry 3DOD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 HIS 3ASP 448
B
 ASP 4ASP 448
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 35 helices in PDB entry 3DOD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
3 13Right-handed alpha
Helix 2
2
A
19 26Right-handed alpha
Helix 3
3
A
50 55Right-handed alpha
Helix 4
4
A
62 74Right-handed alpha
Helix 5
5
A
87 100Right-handed alpha
Helix 6
6
A
112 131Right-handed alpha
Helix 7
7
A
188 208Right-handed alpha
Helix 8
8
A
232 244Right-handed alpha
Helix 9
9
A
264 270Right-handed 310
Helix 10
10
A
279 284Right-handed 310
Helix 11
11
A
296 301Right-handed alpha
Helix 12
12
A
305 309Right-handed 310
Helix 13
13
A
321 338Right-handed alpha
Helix 14
14
A
339 359Right-handed alpha
Helix 15
15
A
389 392Right-handed 310
Helix 16
16
A
393 405Right-handed alpha
Helix 17
17
A
425 445Right-handed alpha
Helix 18
18
B
4 13Right-handed alpha
Helix 19
19
B
19 26Right-handed alpha
Helix 20
20
B
50 55Right-handed alpha
Helix 21
21
B
62 74Right-handed alpha
Helix 22
22
B
87 100Right-handed alpha
Helix 23
23
B
112 131Right-handed alpha
Helix 24
24
B
180 184Right-handed 310
Helix 25
25
B
188 208Right-handed alpha
Helix 26
26
B
232 244Right-handed alpha
Helix 27
27
B
264 270Right-handed 310
Helix 28
28
B
279 284Right-handed 310
Helix 29
29
B
296 301Right-handed alpha
Helix 30
30
B
305 309Right-handed 310
Helix 31
31
B
321 338Right-handed alpha
Helix 32
32
B
339 360Right-handed alpha
Helix 33
33
B
389 392Right-handed 310
Helix 34
34
B
393 405Right-handed alpha
Helix 35
35
B
425 445Right-handed alpha
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There are 8 sheets in PDB entry 3DOD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

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
407 408first strand
Strand 2
A
45 48parallel
Strand 3
A
37 40anti-parallel
Strand 4
A
29 34anti-parallel
Strand 5
B
85 86parallel
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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
85 86first strand
Strand 2
B
29 34parallel
Strand 3
B
37 40anti-parallel
Strand 4
B
45 48anti-parallel
Strand 5
B
407 408parallel
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There are 7 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
104 110first strand
Strand 2
A
290 295anti-parallel
Strand 3
A
275 278anti-parallel
Strand 4
A
247 251parallel
Strand 5
A
211 217parallel
Strand 6
A
138 143parallel
Strand 7
A
174 177parallel
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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
220 221first strand
Strand 2
A
227 228anti-parallel
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There are 4 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
364 370first strand
Strand 2
A
373 378anti-parallel
Strand 3
A
415 418anti-parallel
Strand 4
A
411 412anti-parallel
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There are 7 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
104 110first strand
Strand 2
B
290 295anti-parallel
Strand 3
B
275 278anti-parallel
Strand 4
B
247 251parallel
Strand 5
B
211 217parallel
Strand 6
B
138 143parallel
Strand 7
B
174 177parallel
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There are 2 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
220 221first strand
Strand 2
B
227 228anti-parallel
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There are 4 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
364 370first strand
Strand 2
B
373 378anti-parallel
Strand 3
B
415 418anti-parallel
Strand 4
B
411 412anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il