Analysis of interatomic Contacts of Structural Units in PDB entry:
2VKD


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 2VKD entry

There are 3 chains in PDB entry 2VKD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1ALA 542
B
 LEU 3GLU 540
C
 MET 1GLY 541
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 79 helices in PDB entry 2VKD. 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 14Right-handed alpha
Helix 2
2
A
21 36Right-handed alpha
Helix 3
3
A
41 63Right-handed alpha
Helix 4
4
A
68 89Right-handed alpha
Helix 5
5
A
108 122Right-handed alpha
Helix 6
6
A
137 156Right-handed alpha
Helix 7
7
A
167 197Right-handed alpha
Helix 8
8
A
201 214Right-handed alpha
Helix 9
9
A
217 234Right-handed alpha
Helix 10
10
A
241 243Right-handed 310
Helix 11
11
A
248 261Right-handed alpha
Helix 12
12
A
264 281Right-handed alpha
Helix 13
13
A
294 299Right-handed 310
Helix 14
14
A
308 324Right-handed alpha
Helix 15
15
A
334 338Right-handed 310
Helix 16
16
A
339 350Right-handed alpha
Helix 17
17
A
355 359Right-handed 310
Helix 18
18
A
393 421Right-handed alpha
Helix 19
19
A
423 439Right-handed alpha
Helix 20
20
A
443 451Right-handed alpha
Helix 21
21
A
452 456Right-handed 310
Helix 22
22
A
463 469Right-handed alpha
Helix 23
23
A
470 484Right-handed alpha
Helix 24
24
A
494 499Right-handed alpha
Helix 25
25
A
504 508Right-handed 310
Helix 26
26
A
513 517Right-handed 310
Helix 27
27
A
523 537Right-handed alpha
Helix 28
28
B
5 13Right-handed alpha
Helix 29
29
B
21 35Right-handed alpha
Helix 30
30
B
41 63Right-handed alpha
Helix 31
31
B
68 90Right-handed alpha
Helix 32
32
B
108 122Right-handed alpha
Helix 33
33
B
137 157Right-handed alpha
Helix 34
34
B
167 197Right-handed alpha
Helix 35
35
B
201 213Right-handed alpha
Helix 36
36
B
217 234Right-handed alpha
Helix 37
37
B
241 243Right-handed 310
Helix 38
38
B
248 261Right-handed alpha
Helix 39
39
B
264 281Right-handed alpha
Helix 40
40
B
294 299Right-handed alpha
Helix 41
41
B
308 324Right-handed alpha
Helix 42
42
B
334 338Right-handed 310
Helix 43
43
B
339 350Right-handed alpha
Helix 44
44
B
355 359Right-handed 310
Helix 45
45
B
393 421Right-handed alpha
Helix 46
46
B
423 438Right-handed alpha
Helix 47
47
B
443 451Right-handed alpha
Helix 48
48
B
452 456Right-handed 310
Helix 49
49
B
470 484Right-handed alpha
Helix 50
50
B
494 499Right-handed alpha
Helix 51
51
B
504 508Right-handed 310
Helix 52
52
B
523 535Right-handed alpha
Helix 53
53
B
536 539Right-handed 310
Helix 54
54
C
5 13Right-handed alpha
Helix 55
55
C
21 35Right-handed alpha
Helix 56
56
C
41 63Right-handed alpha
Helix 57
57
C
68 89Right-handed alpha
Helix 58
58
C
108 122Right-handed alpha
Helix 59
59
C
137 155Right-handed alpha
Helix 60
60
C
156 161Right-handed 310
Helix 61
61
C
167 197Right-handed alpha
Helix 62
62
C
201 215Right-handed alpha
Helix 63
63
C
217 235Right-handed alpha
Helix 64
64
C
248 261Right-handed alpha
Helix 65
65
C
264 281Right-handed alpha
Helix 66
66
C
308 324Right-handed alpha
Helix 67
67
C
334 338Right-handed 310
Helix 68
68
C
339 350Right-handed alpha
Helix 69
69
C
355 359Right-handed 310
Helix 70
70
C
393 420Right-handed alpha
Helix 71
71
C
423 438Right-handed alpha
Helix 72
72
C
443 451Right-handed alpha
Helix 73
73
C
452 456Right-handed 310
Helix 74
74
C
463 467Right-handed 310
Helix 75
75
C
470 483Right-handed alpha
Helix 76
76
C
494 499Right-handed alpha
Helix 77
77
C
504 508Right-handed 310
Helix 78
78
C
526 536Right-handed alpha
Helix 79
79
C
537 539Right-handed 310
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There are 6 sheets in PDB entry 2VKD. Click on sheet of interest to get list of strands forming it: AA, AB, BA, BB, CA, CB,

There are 2 strands in AA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
92 93first strand
Strand 2
A
367 368anti-parallel
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There are 6 strands in AB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
237 239first strand
Strand 2
A
126 131parallel
Strand 3
A
97 101parallel
Strand 4
A
282 285parallel
Strand 5
A
382 389anti-parallel
Strand 6
A
374 377anti-parallel
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There are 2 strands in BA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
92 93first strand
Strand 2
B
367 368anti-parallel
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There are 6 strands in BB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
237 239first strand
Strand 2
B
126 131parallel
Strand 3
B
97 101parallel
Strand 4
B
282 285parallel
Strand 5
B
381 389anti-parallel
Strand 6
B
374 378anti-parallel
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There are 2 strands in CA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
92 93first strand
Strand 2
C
367 368anti-parallel
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There are 6 strands in CB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
238 239first strand
Strand 2
C
126 131parallel
Strand 3
C
97 101parallel
Strand 4
C
282 285parallel
Strand 5
C
381 389anti-parallel
Strand 6
C
374 378anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il