Analysis of interatomic Contacts of Structural Units in PDB entry:
3D4J


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 3D4J entry

There are 2 chains in PDB entry 3D4J (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ALA 8PRO 396
B
 ALA 9PRO 396
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 25 helices in PDB entry 3D4J. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
76 89Right-handed alpha
Helix 2
2
A
125 140Right-handed alpha
Helix 3
3
A
148 156Right-handed alpha
Helix 4
4
A
157 164Right-handed 310
Helix 5
5
A
188 192Right-handed 310
Helix 6
6
A
210 222Right-handed alpha
Helix 7
7
A
222 232Right-handed alpha
Helix 8
8
A
232 246Right-handed alpha
Helix 9
9
A
248 269Right-handed alpha
Helix 10
10
A
278 296Right-handed alpha
Helix 11
11
A
318 330Right-handed alpha
Helix 12
12
A
351 359Right-handed alpha
Helix 13
13
A
384 388Right-handed 310
Helix 14
14
B
76 90Right-handed alpha
Helix 15
15
B
125 142Right-handed alpha
Helix 16
16
B
148 154Right-handed alpha
Helix 17
17
B
156 163Right-handed 310
Helix 18
18
B
210 222Right-handed alpha
Helix 19
19
B
222 232Right-handed alpha
Helix 20
20
B
232 246Right-handed alpha
Helix 21
21
B
248 269Right-handed alpha
Helix 22
22
B
278 296Right-handed alpha
Helix 23
23
B
318 330Right-handed alpha
Helix 24
24
B
333 337Right-handed 310
Helix 25
25
B
351 359Right-handed alpha
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There are 8 sheets in PDB entry 3D4J. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

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
64 67first strand
Strand 2
A
110 116parallel
Strand 3
A
50 56anti-parallel
Strand 4
A
10 14anti-parallel
Strand 5
A
380 381anti-parallel
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There are 4 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
17 21first strand
Strand 2
A
38 42anti-parallel
Strand 3
A
167 170anti-parallel
Strand 4
A
183 187anti-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
26 28first strand
Strand 2
A
33 34anti-parallel
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There are 5 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
300 303first strand
Strand 2
A
310 315anti-parallel
Strand 3
A
195 202anti-parallel
Strand 4
A
367 374anti-parallel
Strand 5
A
340 342parallel
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There are 6 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
70 72first strand
Strand 2
B
64 67anti-parallel
Strand 3
B
110 116parallel
Strand 4
B
50 56anti-parallel
Strand 5
B
10 14anti-parallel
Strand 6
B
380 381anti-parallel
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There are 4 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
17 21first strand
Strand 2
B
38 42anti-parallel
Strand 3
B
167 170anti-parallel
Strand 4
B
183 187anti-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
26 28first strand
Strand 2
B
33 34anti-parallel
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There are 5 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
300 304first strand
Strand 2
B
310 315anti-parallel
Strand 3
B
195 202anti-parallel
Strand 4
B
367 374anti-parallel
Strand 5
B
340 342parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il