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


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 3KPD entry

There are 4 chains in PDB entry 3KPD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 THR 388GLY 506
B
 THR 388LYS 508
C
 THR 388GLY 506
D
 THR 388GLY 506
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 20 helices in PDB entry 3KPD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
389 393Right-handed 310
Helix 2
2
A
406 418Right-handed alpha
Helix 3
3
A
437 446Right-handed alpha
Helix 4
4
A
467 478Right-handed alpha
Helix 5
5
A
498 502Right-handed alpha
Helix 6
6
B
406 417Right-handed alpha
Helix 7
7
B
437 446Right-handed alpha
Helix 8
8
B
450 455Right-handed alpha
Helix 9
9
B
467 479Right-handed alpha
Helix 10
10
B
498 508Right-handed alpha
Helix 11
11
C
389 394Right-handed alpha
Helix 12
12
C
406 417Right-handed alpha
Helix 13
13
C
437 446Right-handed alpha
Helix 14
14
C
467 479Right-handed alpha
Helix 15
15
C
498 505Right-handed alpha
Helix 16
16
D
406 417Right-handed alpha
Helix 17
17
D
437 446Right-handed alpha
Helix 18
18
D
450 455Right-handed alpha
Helix 19
19
D
467 479Right-handed alpha
Helix 20
20
D
498 503Right-handed alpha
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There are 8 sheets in PDB entry 3KPD. 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
421 425first strand
Strand 2
A
431 436anti-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
462 463first strand
Strand 2
A
482 486parallel
Strand 3
A
492 497anti-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
B
421 425first strand
Strand 2
B
431 436anti-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
B
462 463first strand
Strand 2
B
482 486parallel
Strand 3
B
492 497anti-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
C
421 425first strand
Strand 2
C
431 436anti-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
C
482 486first strand
Strand 2
C
492 497anti-parallel
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There are 3 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
401 402first strand
Strand 2
D
421 425parallel
Strand 3
D
431 436anti-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
D
462 463first strand
Strand 2
D
482 486parallel
Strand 3
D
492 497anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il