Analysis of interatomic Contacts of Structural Units in PDB entry:
3D28


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 3D28 entry

There are 2 chains in PDB entry 3D28 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 SER 1HIS 562
B
 SER 1HIS 562
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 56 helices in PDB entry 3D28. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
33 35Right-handed 310
Helix 2
2
A
44 53Right-handed alpha
Helix 3
3
A
61 76Right-handed alpha
Helix 4
4
A
84 90Right-handed alpha
Helix 5
5
A
104 110Right-handed alpha
Helix 6
6
A
112 129Right-handed alpha
Helix 7
7
A
164 188Right-handed alpha
Helix 8
8
A
189 195Right-handed 310
Helix 9
9
A
196 211Right-handed alpha
Helix 10
10
A
223 228Right-handed alpha
Helix 11
11
A
229 241Right-handed alpha
Helix 12
12
A
246 260Right-handed alpha
Helix 13
13
A
286 306Right-handed alpha
Helix 14
14
A
328 346Right-handed alpha
Helix 15
15
A
359 363Right-handed 310
Helix 16
16
A
388 399Right-handed alpha
Helix 17
17
A
406 415Right-handed alpha
Helix 18
18
A
418 424Right-handed alpha
Helix 19
19
A
424 437Right-handed alpha
Helix 20
20
A
455 457Right-handed 310
Helix 21
21
A
458 468Right-handed alpha
Helix 22
22
A
469 473Right-handed 310
Helix 23
23
A
478 493Right-handed alpha
Helix 24
24
A
496 513Right-handed alpha
Helix 25
25
A
516 527Right-handed alpha
Helix 26
26
A
528 530Right-handed 310
Helix 27
27
A
539 543Right-handed 310
Helix 28
28
B
26 30Right-handed 310
Helix 29
29
B
33 35Right-handed 310
Helix 30
30
B
41 43Right-handed 310
Helix 31
31
B
44 53Right-handed alpha
Helix 32
32
B
61 76Right-handed alpha
Helix 33
33
B
84 91Right-handed alpha
Helix 34
34
B
104 111Right-handed alpha
Helix 35
35
B
112 129Right-handed alpha
Helix 36
36
B
164 188Right-handed alpha
Helix 37
37
B
189 195Right-handed 310
Helix 38
38
B
196 209Right-handed alpha
Helix 39
39
B
223 228Right-handed alpha
Helix 40
40
B
229 241Right-handed alpha
Helix 41
41
B
246 260Right-handed alpha
Helix 42
42
B
286 306Right-handed alpha
Helix 43
43
B
328 346Right-handed alpha
Helix 44
44
B
359 363Right-handed 310
Helix 45
45
B
388 401Right-handed alpha
Helix 46
46
B
407 415Right-handed alpha
Helix 47
47
B
418 424Right-handed alpha
Helix 48
48
B
424 437Right-handed alpha
Helix 49
49
B
455 457Right-handed 310
Helix 50
50
B
458 468Right-handed alpha
Helix 51
51
B
469 473Right-handed 310
Helix 52
52
B
478 493Right-handed alpha
Helix 53
53
B
496 513Right-handed alpha
Helix 54
54
B
515 526Right-handed alpha
Helix 55
55
B
527 530Right-handed 310
Helix 56
56
B
539 543Right-handed 310
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There are 10 sheets in PDB entry 3D28. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J,

There are 5 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
4 6first strand
Strand 2
A
273 277anti-parallel
Strand 3
A
264 267anti-parallel
Strand 4
A
136 140parallel
Strand 5
A
159 163anti-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
37 39first strand
Strand 2
A
144 146anti-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
A
214 219first strand
Strand 2
A
319 325anti-parallel
Strand 3
A
312 316anti-parallel
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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
369 374first strand
Strand 2
A
380 385anti-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
A
443 447first strand
Strand 2
A
450 454anti-parallel
Strand 3
A
561 562parallel
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There are 5 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
4 6first strand
Strand 2
B
273 277anti-parallel
Strand 3
B
264 267anti-parallel
Strand 4
B
136 140parallel
Strand 5
B
159 163anti-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
37 39first strand
Strand 2
B
144 146anti-parallel
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There are 3 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
214 219first strand
Strand 2
B
319 325anti-parallel
Strand 3
B
309 316anti-parallel
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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
B
369 374first strand
Strand 2
B
380 385anti-parallel
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There are 4 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
405 406first strand
Strand 2
B
443 447parallel
Strand 3
B
450 454anti-parallel
Strand 4
B
561 562parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il