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


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 4DPK entry

There are 4 chains in PDB entry 4DPK (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ARG 6LYS 359
B
 ARG 6LYS 359
C
 ARG 6LYS 359
D
 ARG 6ASP 232
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 61 helices in PDB entry 4DPK. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
19 28Right-handed alpha
Helix 2
2
A
47 52Right-handed alpha
Helix 3
3
A
61 66Right-handed alpha
Helix 4
4
A
73 77Right-handed 310
Helix 5
5
A
91 102Right-handed alpha
Helix 6
6
A
127 132Right-handed 310
Helix 7
7
A
133 142Right-handed alpha
Helix 8
8
A
152 169Right-handed alpha
Helix 9
9
A
182 186Right-handed 310
Helix 10
10
A
191 195Right-handed 310
Helix 11
11
A
203 220Right-handed alpha
Helix 12
12
A
229 233Right-handed 310
Helix 13
13
A
261 271Right-handed alpha
Helix 14
14
A
274 279Right-handed alpha
Helix 15
15
A
299 304Right-handed alpha
Helix 16
16
A
340 354Right-handed alpha
Helix 17
17
B
19 28Right-handed alpha
Helix 18
18
B
47 52Right-handed alpha
Helix 19
19
B
91 101Right-handed alpha
Helix 20
20
B
127 131Right-handed 310
Helix 21
21
B
132 142Right-handed alpha
Helix 22
22
B
152 169Right-handed alpha
Helix 23
23
B
182 186Right-handed 310
Helix 24
24
B
191 195Right-handed 310
Helix 25
25
B
203 220Right-handed alpha
Helix 26
26
B
229 233Right-handed 310
Helix 27
27
B
261 271Right-handed alpha
Helix 28
28
B
274 280Right-handed alpha
Helix 29
29
B
299 304Right-handed alpha
Helix 30
30
B
340 354Right-handed alpha
Helix 31
31
C
19 29Right-handed alpha
Helix 32
32
C
47 52Right-handed alpha
Helix 33
33
C
73 77Right-handed 310
Helix 34
34
C
91 102Right-handed alpha
Helix 35
35
C
127 132Right-handed 310
Helix 36
36
C
133 142Right-handed alpha
Helix 37
37
C
152 169Right-handed alpha
Helix 38
38
C
181 186Right-handed 310
Helix 39
39
C
191 195Right-handed 310
Helix 40
40
C
203 219Right-handed alpha
Helix 41
41
C
229 233Right-handed 310
Helix 42
42
C
261 272Right-handed alpha
Helix 43
43
C
274 279Right-handed alpha
Helix 44
44
C
299 304Right-handed alpha
Helix 45
45
C
340 354Right-handed alpha
Helix 46
46
D
19 29Right-handed alpha
Helix 47
47
D
47 52Right-handed alpha
Helix 48
48
D
61 66Right-handed alpha
Helix 49
49
D
73 77Right-handed 310
Helix 50
50
D
91 102Right-handed alpha
Helix 51
51
D
127 131Right-handed 310
Helix 52
52
D
132 142Right-handed alpha
Helix 53
53
D
152 169Right-handed alpha
Helix 54
54
D
182 186Right-handed 310
Helix 55
55
D
191 195Right-handed 310
Helix 56
56
D
203 220Right-handed alpha
Helix 57
57
D
229 233Right-handed 310
Helix 58
58
D
261 271Right-handed alpha
Helix 59
59
D
274 279Right-handed alpha
Helix 60
60
D
299 304Right-handed alpha
Helix 61
61
D
340 354Right-handed alpha
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There are 11 sheets in PDB entry 4DPK. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K,

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
70 71first strand
Strand 2
A
33 40parallel
Strand 3
A
8 12parallel
Strand 4
A
82 85parallel
Strand 5
A
105 108parallel
Strand 6
A
146 149parallel
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There are 7 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
200 201first strand
Strand 2
A
234 241anti-parallel
Strand 3
A
171 180parallel
Strand 4
A
248 256anti-parallel
Strand 5
A
326 333anti-parallel
Strand 6
A
314 323anti-parallel
Strand 7
A
289 291parallel
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There are 6 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
70 71first strand
Strand 2
B
33 40parallel
Strand 3
B
8 12parallel
Strand 4
B
82 85parallel
Strand 5
B
105 108parallel
Strand 6
B
146 149parallel
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There are 6 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
234 238first strand
Strand 2
B
171 179parallel
Strand 3
B
248 256anti-parallel
Strand 4
B
326 333anti-parallel
Strand 5
B
314 323anti-parallel
Strand 6
B
289 291parallel
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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
B
200 201first strand
Strand 2
B
240 241anti-parallel
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There are 6 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
70 71first strand
Strand 2
C
33 40parallel
Strand 3
C
8 12parallel
Strand 4
C
82 85parallel
Strand 5
C
105 108parallel
Strand 6
C
146 149parallel
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There are 6 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
234 238first strand
Strand 2
C
171 179parallel
Strand 3
C
248 256anti-parallel
Strand 4
C
326 333anti-parallel
Strand 5
C
314 323anti-parallel
Strand 6
C
289 291parallel
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There are 2 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
200 201first strand
Strand 2
C
240 241anti-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
D
70 71first strand
Strand 2
D
33 40parallel
Strand 3
D
8 12parallel
Strand 4
D
82 85parallel
Strand 5
D
105 108parallel
Strand 6
D
146 149parallel
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There are 6 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
234 238first strand
Strand 2
D
171 179parallel
Strand 3
D
248 256anti-parallel
Strand 4
D
326 333anti-parallel
Strand 5
D
314 323anti-parallel
Strand 6
D
289 291parallel
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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
D
200 201first strand
Strand 2
D
240 241anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il