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


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 3GDK entry

There are 4 chains in PDB entry 3GDK (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 LYS 3ARG 262
B
 LYS 3ARG 262
C
 LYS 3GLN 266
D
 LYS 3GLN 266
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 59 helices in PDB entry 3GDK. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
5 13Right-handed alpha
Helix 2
2
A
15 29Right-handed alpha
Helix 3
3
A
40 52Right-handed alpha
Helix 4
4
A
53 55Right-handed 310
Helix 5
5
A
61 65Right-handed 310
Helix 6
6
A
73 85Right-handed alpha
Helix 7
7
A
97 107Right-handed alpha
Helix 8
8
A
111 115Right-handed 310
Helix 9
9
A
127 141Right-handed alpha
Helix 10
10
A
161 174Right-handed alpha
Helix 11
11
A
213 217Right-handed 310
Helix 12
12
A
220 226Right-handed alpha
Helix 13
13
A
234 238Right-handed 310
Helix 14
14
A
243 262Right-handed alpha
Helix 15
15
B
5 13Right-handed alpha
Helix 16
16
B
15 29Right-handed alpha
Helix 17
17
B
40 52Right-handed alpha
Helix 18
18
B
53 55Right-handed 310
Helix 19
19
B
61 65Right-handed 310
Helix 20
20
B
73 85Right-handed alpha
Helix 21
21
B
97 107Right-handed alpha
Helix 22
22
B
111 115Right-handed 310
Helix 23
23
B
127 141Right-handed alpha
Helix 24
24
B
161 174Right-handed alpha
Helix 25
25
B
190 194Right-handed 310
Helix 26
26
B
213 217Right-handed 310
Helix 27
27
B
220 226Right-handed alpha
Helix 28
28
B
234 238Right-handed 310
Helix 29
29
B
243 262Right-handed alpha
Helix 30
30
C
5 13Right-handed alpha
Helix 31
31
C
15 29Right-handed alpha
Helix 32
32
C
40 52Right-handed alpha
Helix 33
33
C
53 55Right-handed 310
Helix 34
34
C
61 65Right-handed 310
Helix 35
35
C
73 85Right-handed alpha
Helix 36
36
C
97 107Right-handed alpha
Helix 37
37
C
111 115Right-handed 310
Helix 38
38
C
123 126Right-handed 310
Helix 39
39
C
127 141Right-handed alpha
Helix 40
40
C
162 174Right-handed alpha
Helix 41
41
C
190 194Right-handed 310
Helix 42
42
C
219 227Right-handed alpha
Helix 43
43
C
234 239Right-handed alpha
Helix 44
44
C
243 262Right-handed alpha
Helix 45
45
D
5 13Right-handed alpha
Helix 46
46
D
15 29Right-handed alpha
Helix 47
47
D
40 52Right-handed alpha
Helix 48
48
D
53 55Right-handed 310
Helix 49
49
D
61 65Right-handed 310
Helix 50
50
D
73 85Right-handed alpha
Helix 51
51
D
97 107Right-handed alpha
Helix 52
52
D
111 115Right-handed 310
Helix 53
53
D
123 126Right-handed 310
Helix 54
54
D
127 141Right-handed alpha
Helix 55
55
D
161 173Right-handed alpha
Helix 56
56
D
190 194Right-handed 310
Helix 57
57
D
219 226Right-handed alpha
Helix 58
58
D
234 239Right-handed alpha
Helix 59
59
D
243 262Right-handed alpha
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There are 6 sheets in PDB entry 3GDK. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 9 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
57 60parallel
Strand 3
A
87 94parallel
Strand 4
A
118 121parallel
Strand 5
A
146 150parallel
Strand 6
A
179 183parallel
Strand 7
A
198 201parallel
Strand 8
A
230 233parallel
Strand 9
A
32 35parallel
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There are 2 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
204 205first strand
Strand 2
A
218 219parallel
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There are 9 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
57 60parallel
Strand 3
B
87 94parallel
Strand 4
B
118 121parallel
Strand 5
B
146 150parallel
Strand 6
B
179 183parallel
Strand 7
B
198 201parallel
Strand 8
B
230 233parallel
Strand 9
B
32 35parallel
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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
B
204 205first strand
Strand 2
B
218 219parallel
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There are 9 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
32 35first strand
Strand 2
C
57 60parallel
Strand 3
C
87 94parallel
Strand 4
C
118 121parallel
Strand 5
C
146 150parallel
Strand 6
C
179 183parallel
Strand 7
C
198 201parallel
Strand 8
C
230 233parallel
Strand 9
C
32 35parallel
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There are 9 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
32 35first strand
Strand 2
D
57 60parallel
Strand 3
D
87 94parallel
Strand 4
D
118 121parallel
Strand 5
D
146 150parallel
Strand 6
D
179 183parallel
Strand 7
D
198 201parallel
Strand 8
D
230 233parallel
Strand 9
D
32 35parallel
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