Analysis of interatomic Contacts of Structural Units in PDB entry:
8EKD


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 8EKD entry

There are 3 chains in PDB entry 8EKD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
E
 GLU 1SER 130
F
 ILE 2LYS 112
G
 THR 333GLU 516
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 5 helices in PDB entry 8EKD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
E
64 67Right-handed 310
Helix 2
AA2
G
337 343Right-handed alpha
Helix 3
AA3
G
365 371Right-handed alpha
Helix 4
AA4
G
405 407Right-handed 310
Helix 5
AA5
G
416 421Right-handed alpha
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There are 7 sheets in PDB entry 8EKD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7,

There are 4 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
3 7first strand
Strand 2
E
17 25anti-parallel
Strand 3
E
80 86anti-parallel
Strand 4
E
70 74anti-parallel
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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
11 12first strand
Strand 2
E
128 129parallel
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There are 4 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
60 62first strand
Strand 2
E
45 51anti-parallel
Strand 3
E
35 39anti-parallel
Strand 4
E
96 99anti-parallel
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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
F
4 7first strand
Strand 2
F
19 25anti-parallel
Strand 3
F
76 81anti-parallel
Strand 4
F
68 73anti-parallel
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There are 6 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
F
10 12first strand
Strand 2
F
107 110parallel
Strand 3
F
91 96anti-parallel
Strand 4
F
39 44anti-parallel
Strand 5
F
50 55anti-parallel
Strand 6
F
59 60anti-parallel
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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
G
354 356first strand
Strand 2
G
395 403anti-parallel
Strand 3
G
507 515anti-parallel
Strand 4
G
431 432anti-parallel
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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
G
452 454first strand
Strand 2
G
492 494anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il