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


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 4DPL entry

There are 4 chains in PDB entry 4DPL (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ARG 6LYS 359
B
 ARG 6LYS 359
C
 THR 7LYS 359
D
 ARG 6SER 234
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 64 helices in PDB entry 4DPL. 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 29Right-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 131Right-handed 310
Helix 7
7
A
132 142Right-handed alpha
Helix 8
8
A
152 169Right-handed alpha
Helix 9
9
A
181 186Right-handed 310
Helix 10
10
A
191 196Right-handed alpha
Helix 11
11
A
203 219Right-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
73 77Right-handed 310
Helix 20
20
B
91 102Right-handed alpha
Helix 21
21
B
127 131Right-handed 310
Helix 22
22
B
132 142Right-handed alpha
Helix 23
23
B
152 169Right-handed alpha
Helix 24
24
B
181 186Right-handed 310
Helix 25
25
B
191 195Right-handed 310
Helix 26
26
B
203 220Right-handed alpha
Helix 27
27
B
229 233Right-handed 310
Helix 28
28
B
261 271Right-handed alpha
Helix 29
29
B
274 279Right-handed alpha
Helix 30
30
B
299 304Right-handed alpha
Helix 31
31
B
340 354Right-handed alpha
Helix 32
32
C
17 29Right-handed alpha
Helix 33
33
C
47 52Right-handed alpha
Helix 34
34
C
61 66Right-handed alpha
Helix 35
35
C
73 77Right-handed 310
Helix 36
36
C
91 102Right-handed alpha
Helix 37
37
C
127 132Right-handed 310
Helix 38
38
C
133 141Right-handed alpha
Helix 39
39
C
152 169Right-handed alpha
Helix 40
40
C
181 186Right-handed 310
Helix 41
41
C
191 195Right-handed 310
Helix 42
42
C
203 220Right-handed alpha
Helix 43
43
C
229 233Right-handed 310
Helix 44
44
C
261 272Right-handed alpha
Helix 45
45
C
274 279Right-handed alpha
Helix 46
46
C
299 304Right-handed alpha
Helix 47
47
C
340 354Right-handed alpha
Helix 48
48
D
19 29Right-handed alpha
Helix 49
49
D
47 52Right-handed alpha
Helix 50
50
D
61 66Right-handed alpha
Helix 51
51
D
73 77Right-handed 310
Helix 52
52
D
91 102Right-handed alpha
Helix 53
53
D
110 114Right-handed 310
Helix 54
54
D
127 131Right-handed 310
Helix 55
55
D
132 142Right-handed alpha
Helix 56
56
D
152 169Right-handed alpha
Helix 57
57
D
181 186Right-handed 310
Helix 58
58
D
191 196Right-handed alpha
Helix 59
59
D
203 220Right-handed alpha
Helix 60
60
D
229 233Right-handed 310
Helix 61
61
D
261 271Right-handed alpha
Helix 62
62
D
274 279Right-handed alpha
Helix 63
63
D
299 304Right-handed alpha
Helix 64
64
D
340 354Right-handed alpha
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There are 12 sheets in PDB entry 4DPL. 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 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 6 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
234 238first strand
Strand 2
A
171 179parallel
Strand 3
A
248 256anti-parallel
Strand 4
A
326 333anti-parallel
Strand 5
A
314 323anti-parallel
Strand 6
A
289 292parallel
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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
200 201first strand
Strand 2
A
240 241anti-parallel
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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
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 E 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 292parallel
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There are 2 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
200 201first strand
Strand 2
B
240 241anti-parallel
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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
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 H 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 I 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 J 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 K 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 292parallel
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There are 2 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
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