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


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 3DER entry

There are 4 chains in PDB entry 3DER (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ARG 3LYS 343
B
 ARG 3LYS 343
C
 ARG 3LYS 343
D
 ARG 3LYS 343
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 60 helices in PDB entry 3DER. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
52 57Right-handed alpha
Helix 2
2
A
59 66Right-handed alpha
Helix 3
3
A
66 75Right-handed alpha
Helix 4
4
A
78 80Right-handed 310
Helix 5
5
A
81 90Right-handed alpha
Helix 6
6
A
95 115Right-handed alpha
Helix 7
7
A
117 122Right-handed alpha
Helix 8
8
A
139 153Right-handed alpha
Helix 9
9
A
165 179Right-handed alpha
Helix 10
10
A
194 208Right-handed alpha
Helix 11
11
A
223 234Right-handed alpha
Helix 12
12
A
246 257Right-handed alpha
Helix 13
13
A
265 283Right-handed alpha
Helix 14
14
A
296 311Right-handed alpha
Helix 15
15
A
319 324Right-handed alpha
Helix 16
16
B
52 57Right-handed alpha
Helix 17
17
B
59 66Right-handed alpha
Helix 18
18
B
66 75Right-handed alpha
Helix 19
19
B
78 80Right-handed 310
Helix 20
20
B
81 90Right-handed alpha
Helix 21
21
B
95 114Right-handed alpha
Helix 22
22
B
117 122Right-handed alpha
Helix 23
23
B
139 153Right-handed alpha
Helix 24
24
B
165 179Right-handed alpha
Helix 25
25
B
194 208Right-handed alpha
Helix 26
26
B
223 234Right-handed alpha
Helix 27
27
B
246 257Right-handed alpha
Helix 28
28
B
265 283Right-handed alpha
Helix 29
29
B
296 311Right-handed alpha
Helix 30
30
B
319 324Right-handed 310
Helix 31
31
C
52 57Right-handed alpha
Helix 32
32
C
59 66Right-handed alpha
Helix 33
33
C
66 75Right-handed alpha
Helix 34
34
C
78 80Right-handed 310
Helix 35
35
C
81 90Right-handed alpha
Helix 36
36
C
95 115Right-handed alpha
Helix 37
37
C
117 122Right-handed alpha
Helix 38
38
C
139 153Right-handed alpha
Helix 39
39
C
165 179Right-handed alpha
Helix 40
40
C
194 208Right-handed alpha
Helix 41
41
C
223 234Right-handed alpha
Helix 42
42
C
246 256Right-handed alpha
Helix 43
43
C
265 283Right-handed alpha
Helix 44
44
C
296 311Right-handed alpha
Helix 45
45
C
319 324Right-handed alpha
Helix 46
46
D
52 57Right-handed alpha
Helix 47
47
D
59 66Right-handed alpha
Helix 48
48
D
66 75Right-handed alpha
Helix 49
49
D
78 80Right-handed 310
Helix 50
50
D
81 90Right-handed alpha
Helix 51
51
D
95 115Right-handed alpha
Helix 52
52
D
117 122Right-handed alpha
Helix 53
53
D
139 153Right-handed alpha
Helix 54
54
D
165 179Right-handed alpha
Helix 55
55
D
194 208Right-handed alpha
Helix 56
56
D
223 234Right-handed alpha
Helix 57
57
D
246 257Right-handed alpha
Helix 58
58
D
265 283Right-handed alpha
Helix 59
59
D
296 311Right-handed alpha
Helix 60
60
D
319 324Right-handed alpha
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There are 12 sheets in PDB entry 3DER. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L,

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
4 22first strand
Strand 2
A
25 39anti-parallel
Strand 3
A
44 49anti-parallel
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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
128 130first strand
Strand 2
A
339 341anti-parallel
Strand 3
A
334 336anti-parallel
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There are 8 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
133 135first strand
Strand 2
A
157 161parallel
Strand 3
A
184 188parallel
Strand 4
A
212 216parallel
Strand 5
A
238 240parallel
Strand 6
A
261 264parallel
Strand 7
A
287 290parallel
Strand 8
A
315 316parallel
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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
4 22first strand
Strand 2
B
25 39anti-parallel
Strand 3
B
44 49anti-parallel
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There are 3 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
128 130first strand
Strand 2
B
339 341anti-parallel
Strand 3
B
334 336anti-parallel
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There are 8 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
133 135first strand
Strand 2
B
157 161parallel
Strand 3
B
184 188parallel
Strand 4
B
214 216parallel
Strand 5
B
238 240parallel
Strand 6
B
261 264parallel
Strand 7
B
287 290parallel
Strand 8
B
315 316parallel
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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
C
4 22first strand
Strand 2
C
25 39anti-parallel
Strand 3
C
44 49anti-parallel
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There are 3 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
128 130first strand
Strand 2
C
339 341anti-parallel
Strand 3
C
334 336anti-parallel
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There are 8 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
133 135first strand
Strand 2
C
157 161parallel
Strand 3
C
184 188parallel
Strand 4
C
214 216parallel
Strand 5
C
238 240parallel
Strand 6
C
261 264parallel
Strand 7
C
287 290parallel
Strand 8
C
315 316parallel
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There are 3 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
4 22first strand
Strand 2
D
25 39anti-parallel
Strand 3
D
44 49anti-parallel
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There are 3 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
128 130first strand
Strand 2
D
339 341anti-parallel
Strand 3
D
334 336anti-parallel
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There are 8 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
133 135first strand
Strand 2
D
157 161parallel
Strand 3
D
184 188parallel
Strand 4
D
212 216parallel
Strand 5
D
238 240parallel
Strand 6
D
261 264parallel
Strand 7
D
287 290parallel
Strand 8
D
315 316parallel
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