Analysis of interatomic Contacts of Structural Units in PDB entry:
3J9D


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 3J9D entry

There is 1 chain in PDB entry 3J9D (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1VAL 961
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 33 helices in PDB entry 3J9D. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
40 43Right-handed 310
Helix 2
2
A
55 59Right-handed 310
Helix 3
3
A
74 85Right-handed alpha
Helix 4
4
A
103 110Right-handed alpha
Helix 5
5
A
144 148Right-handed 310
Helix 6
6
A
157 161Right-handed 310
Helix 7
7
A
163 165Right-handed 310
Helix 8
8
A
166 176Right-handed alpha
Helix 9
9
A
412 416Right-handed 310
Helix 10
10
A
461 476Right-handed alpha
Helix 11
11
A
484 488Right-handed 310
Helix 12
12
A
523 527Right-handed 310
Helix 13
13
A
557 562Right-handed alpha
Helix 14
14
A
589 596Right-handed alpha
Helix 15
15
A
599 607Right-handed alpha
Helix 16
16
A
617 638Right-handed alpha
Helix 17
17
A
639 641Right-handed 310
Helix 18
18
A
669 682Right-handed alpha
Helix 19
19
A
690 704Right-handed alpha
Helix 20
20
A
705 713Right-handed alpha
Helix 21
21
A
717 725Right-handed alpha
Helix 22
22
A
732 737Right-handed alpha
Helix 23
23
A
738 741Right-handed 310
Helix 24
24
A
742 747Right-handed alpha
Helix 25
25
A
786 791Right-handed alpha
Helix 26
26
A
792 795Right-handed 310
Helix 27
27
A
798 804Right-handed alpha
Helix 28
28
A
808 822Right-handed alpha
Helix 29
29
A
832 837Right-handed alpha
Helix 30
30
A
839 851Right-handed alpha
Helix 31
31
A
882 892Right-handed alpha
Helix 32
32
A
897 899Right-handed 310
Helix 33
33
A
953 960Right-handed alpha
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There are 8 sheets in PDB entry 3J9D. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

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
130 133first strand
Strand 2
A
136 140anti-parallel
Strand 3
A
23 26anti-parallel
Strand 4
A
3 9parallel
Strand 5
A
937 943anti-parallel
Strand 6
A
924 930anti-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
33 34first strand
Strand 2
A
37 38anti-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
70 71first strand
Strand 2
A
116 117anti-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
87 90first strand
Strand 2
A
96 99anti-parallel
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There are 4 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
149 150first strand
Strand 2
A
857 864anti-parallel
Strand 3
A
870 878anti-parallel
Strand 4
A
901 909parallel
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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
180 184first strand
Strand 2
A
570 574anti-parallel
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There are 4 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
409 410first strand
Strand 2
A
186 188anti-parallel
Strand 3
A
423 428anti-parallel
Strand 4
A
531 536anti-parallel
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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
A
760 765first strand
Strand 2
A
771 776anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il