Analysis of interatomic Contacts of Structural Units in PDB entry:
1VDK


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 1VDK entry

There are 2 chains in PDB entry 1VDK (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ARG 4HIS 463
B
 ARG 4HIS 463
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 42 helices in PDB entry 1VDK. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
22 32Right-handed alpha
Helix 2
2
A
42 63Right-handed alpha
Helix 3
3
A
67 83Right-handed alpha
Helix 4
4
A
86 90Right-handed 310
Helix 5
5
A
100 119Right-handed alpha
Helix 6
6
A
139 159Right-handed alpha
Helix 7
7
A
159 178Right-handed alpha
Helix 8
8
A
197 220Right-handed alpha
Helix 9
9
A
241 255Right-handed alpha
Helix 10
10
A
265 270Right-handed alpha
Helix 11
11
A
271 299Right-handed alpha
Helix 12
12
A
327 352Right-handed alpha
Helix 13
13
A
361 387Right-handed alpha
Helix 14
14
A
388 391Right-handed 310
Helix 15
15
A
394 403Right-handed alpha
Helix 16
16
A
404 408Right-handed 310
Helix 17
17
A
409 417Right-handed alpha
Helix 18
18
A
418 423Right-handed alpha
Helix 19
19
A
434 442Right-handed alpha
Helix 20
20
A
446 454Right-handed alpha
Helix 21
21
A
455 461Right-handed alpha
Helix 22
22
B
22 32Right-handed alpha
Helix 23
23
B
42 63Right-handed alpha
Helix 24
24
B
67 83Right-handed alpha
Helix 25
25
B
86 90Right-handed 310
Helix 26
26
B
100 119Right-handed alpha
Helix 27
27
B
139 159Right-handed alpha
Helix 28
28
B
159 178Right-handed alpha
Helix 29
29
B
197 220Right-handed alpha
Helix 30
30
B
241 255Right-handed alpha
Helix 31
31
B
265 270Right-handed alpha
Helix 32
32
B
271 300Right-handed alpha
Helix 33
33
B
327 352Right-handed alpha
Helix 34
34
B
361 387Right-handed alpha
Helix 35
35
B
388 391Right-handed 310
Helix 36
36
B
394 404Right-handed alpha
Helix 37
37
B
405 408Right-handed 310
Helix 38
38
B
409 417Right-handed alpha
Helix 39
39
B
417 431Right-handed alpha
Helix 40
40
B
434 442Right-handed alpha
Helix 41
41
B
448 454Right-handed alpha
Helix 42
42
B
455 461Right-handed alpha
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There are 8 sheets in PDB entry 1VDK. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

There are 2 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
5 8first strand
Strand 2
A
11 14anti-parallel
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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
182 187first strand
Strand 2
A
190 196anti-parallel
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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
224 225first strand
Strand 2
A
259 260parallel
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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
A
309 310first strand
Strand 2
A
392 393anti-parallel
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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
5 8first strand
Strand 2
B
11 14anti-parallel
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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
182 187first strand
Strand 2
B
190 196anti-parallel
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There are 2 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
224 225first strand
Strand 2
B
259 260parallel
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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
B
309 310first strand
Strand 2
B
392 393anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il