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


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 3DJD entry

There are 2 chains in PDB entry 3DJD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 VAL 3LYS 437
B
 VAL 3LEU 438
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 30 helices in PDB entry 3DJD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
15 28Right-handed alpha
Helix 2
2
A
68 84Right-handed alpha
Helix 3
3
A
87 89Right-handed 310
Helix 4
4
A
102 109Right-handed alpha
Helix 5
5
A
126 132Right-handed alpha
Helix 6
6
A
159 174Right-handed alpha
Helix 7
7
A
217 224Right-handed 310
Helix 8
8
A
244 252Right-handed 310
Helix 9
9
A
306 321Right-handed alpha
Helix 10
10
A
322 325Right-handed 310
Helix 11
11
A
366 370Right-handed 310
Helix 12
12
A
372 383Right-handed alpha
Helix 13
13
A
386 394Right-handed alpha
Helix 14
14
A
396 401Right-handed 310
Helix 15
15
A
422 424Right-handed 310
Helix 16
16
B
15 28Right-handed alpha
Helix 17
17
B
68 84Right-handed alpha
Helix 18
18
B
87 89Right-handed 310
Helix 19
19
B
102 108Right-handed alpha
Helix 20
20
B
126 132Right-handed alpha
Helix 21
21
B
159 174Right-handed alpha
Helix 22
22
B
217 224Right-handed 310
Helix 23
23
B
244 252Right-handed 310
Helix 24
24
B
306 321Right-handed alpha
Helix 25
25
B
322 325Right-handed 310
Helix 26
26
B
366 370Right-handed 310
Helix 27
27
B
372 383Right-handed alpha
Helix 28
28
B
386 394Right-handed alpha
Helix 29
29
B
396 401Right-handed alpha
Helix 30
30
B
422 424Right-handed 310
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There are 12 sheets in PDB entry 3DJD. 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
177 180first strand
Strand 2
A
33 37parallel
Strand 3
A
9 12parallel
Strand 4
A
212 215parallel
Strand 5
A
356 360parallel
Strand 6
A
346 349anti-parallel
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There are 3 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
53 56first strand
Strand 2
A
155 158anti-parallel
Strand 3
A
91 92anti-parallel
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There are 8 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
121 124first strand
Strand 2
A
147 151anti-parallel
Strand 3
A
96 100anti-parallel
Strand 4
A
256 259parallel
Strand 5
A
263 265anti-parallel
Strand 6
A
274 279anti-parallel
Strand 7
A
232 242anti-parallel
Strand 8
A
331 339anti-parallel
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There are 3 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
187 192first strand
Strand 2
A
197 202anti-parallel
Strand 3
A
206 209anti-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
A
284 285first strand
Strand 2
A
419 420parallel
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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
A
287 289first strand
Strand 2
A
295 297anti-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
B
177 180first strand
Strand 2
B
33 37parallel
Strand 3
B
9 12parallel
Strand 4
B
212 215parallel
Strand 5
B
356 360parallel
Strand 6
B
346 349anti-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
53 56first strand
Strand 2
B
155 158anti-parallel
Strand 3
B
91 92anti-parallel
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There are 8 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
121 124first strand
Strand 2
B
147 151anti-parallel
Strand 3
B
96 100anti-parallel
Strand 4
B
256 259parallel
Strand 5
B
263 265anti-parallel
Strand 6
B
274 279anti-parallel
Strand 7
B
232 242anti-parallel
Strand 8
B
331 339anti-parallel
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There are 3 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
187 193first strand
Strand 2
B
196 202anti-parallel
Strand 3
B
207 209anti-parallel
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There are 2 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
284 285first strand
Strand 2
B
419 420parallel
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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
B
287 289first strand
Strand 2
B
295 297anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il