Analysis of interatomic Contacts of Structural Units in PDB entry:
3D9E


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 3D9E entry

There are 4 chains in PDB entry 3D9E (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 VAL 2SER 432
B
 VAL 2SER 432
C
 VAL 2SER 431
D
 VAL 2SER 432
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 85 helices in PDB entry 3D9E. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
7 24Right-handed alpha
Helix 2
2
A
25 27Right-handed 310
Helix 3
3
A
28 33Right-handed alpha
Helix 4
4
A
37 44Right-handed alpha
Helix 5
5
A
45 55Right-handed alpha
Helix 6
6
A
58 62Right-handed 310
Helix 7
7
A
63 67Right-handed 310
Helix 8
8
A
72 85Right-handed alpha
Helix 9
9
A
90 107Right-handed alpha
Helix 10
10
A
109 122Right-handed alpha
Helix 11
11
A
203 206Right-handed 310
Helix 12
12
A
214 220Right-handed alpha
Helix 13
13
A
222 224Right-handed 310
Helix 14
14
A
255 257Right-handed 310
Helix 15
15
A
262 302Right-handed alpha
Helix 16
16
A
309 312Right-handed 310
Helix 17
17
A
313 342Right-handed alpha
Helix 18
18
A
347 378Right-handed alpha
Helix 19
19
A
379 383Right-handed 310
Helix 20
20
A
387 396Right-handed alpha
Helix 21
21
A
408 419Right-handed alpha
Helix 22
22
A
425 430Right-handed alpha
Helix 23
23
B
7 24Right-handed alpha
Helix 24
24
B
27 33Right-handed alpha
Helix 25
25
B
37 45Right-handed alpha
Helix 26
26
B
45 55Right-handed alpha
Helix 27
27
B
58 62Right-handed 310
Helix 28
28
B
63 67Right-handed 310
Helix 29
29
B
72 85Right-handed alpha
Helix 30
30
B
90 107Right-handed alpha
Helix 31
31
B
109 118Right-handed alpha
Helix 32
32
B
203 206Right-handed 310
Helix 33
33
B
214 220Right-handed alpha
Helix 34
34
B
255 257Right-handed 310
Helix 35
35
B
262 300Right-handed alpha
Helix 36
36
B
309 312Right-handed 310
Helix 37
37
B
313 342Right-handed alpha
Helix 38
38
B
347 378Right-handed alpha
Helix 39
39
B
379 383Right-handed 310
Helix 40
40
B
387 396Right-handed alpha
Helix 41
41
B
408 419Right-handed alpha
Helix 42
42
B
425 430Right-handed alpha
Helix 43
43
C
7 24Right-handed alpha
Helix 44
44
C
27 33Right-handed alpha
Helix 45
45
C
37 44Right-handed alpha
Helix 46
46
C
45 55Right-handed alpha
Helix 47
47
C
58 62Right-handed 310
Helix 48
48
C
63 67Right-handed 310
Helix 49
49
C
72 85Right-handed alpha
Helix 50
50
C
87 107Right-handed alpha
Helix 51
51
C
109 117Right-handed alpha
Helix 52
52
C
117 122Right-handed alpha
Helix 53
53
C
203 206Right-handed 310
Helix 54
54
C
214 220Right-handed alpha
Helix 55
55
C
222 224Right-handed 310
Helix 56
56
C
255 257Right-handed 310
Helix 57
57
C
262 302Right-handed alpha
Helix 58
58
C
309 312Right-handed 310
Helix 59
59
C
313 342Right-handed alpha
Helix 60
60
C
347 378Right-handed alpha
Helix 61
61
C
379 383Right-handed 310
Helix 62
62
C
387 396Right-handed alpha
Helix 63
63
C
408 419Right-handed alpha
Helix 64
64
C
425 430Right-handed alpha
Helix 65
65
D
7 24Right-handed alpha
Helix 66
66
D
27 33Right-handed alpha
Helix 67
67
D
37 44Right-handed alpha
Helix 68
68
D
45 55Right-handed alpha
Helix 69
69
D
58 62Right-handed 310
Helix 70
70
D
63 67Right-handed 310
Helix 71
71
D
72 87Right-handed alpha
Helix 72
72
D
87 107Right-handed alpha
Helix 73
73
D
109 122Right-handed alpha
Helix 74
74
D
203 206Right-handed 310
Helix 75
75
D
214 220Right-handed alpha
Helix 76
76
D
222 224Right-handed 310
Helix 77
77
D
255 257Right-handed 310
Helix 78
78
D
262 300Right-handed alpha
Helix 79
79
D
309 312Right-handed 310
Helix 80
80
D
313 342Right-handed alpha
Helix 81
81
D
347 378Right-handed alpha
Helix 82
82
D
379 383Right-handed 310
Helix 83
83
D
387 396Right-handed alpha
Helix 84
84
D
408 419Right-handed alpha
Helix 85
85
D
425 430Right-handed alpha
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There are 8 sheets in PDB entry 3D9E. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

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
129 132first strand
Strand 2
A
183 190parallel
Strand 3
A
208 213anti-parallel
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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
129 132first strand
Strand 2
A
183 190parallel
Strand 3
A
153 157parallel
Strand 4
A
160 168anti-parallel
Strand 5
A
244 253anti-parallel
Strand 6
A
226 230anti-parallel
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There are 3 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
129 132first strand
Strand 2
B
183 190parallel
Strand 3
B
208 213anti-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
129 132first strand
Strand 2
B
183 190parallel
Strand 3
B
153 157parallel
Strand 4
B
160 167anti-parallel
Strand 5
B
244 253anti-parallel
Strand 6
B
226 230anti-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
C
129 132first strand
Strand 2
C
183 190parallel
Strand 3
C
208 213anti-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
129 132first strand
Strand 2
C
183 190parallel
Strand 3
C
153 157parallel
Strand 4
C
160 168anti-parallel
Strand 5
C
244 253anti-parallel
Strand 6
C
226 230anti-parallel
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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
D
129 132first strand
Strand 2
D
183 190parallel
Strand 3
D
208 213anti-parallel
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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
D
129 132first strand
Strand 2
D
183 190parallel
Strand 3
D
153 157parallel
Strand 4
D
160 168anti-parallel
Strand 5
D
244 253anti-parallel
Strand 6
D
226 230anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il