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


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 8PDE entry

There are 10 chains in PDB entry 8PDE (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLY 2GLY 92
B
 GLY 2PHE 93
C
 GLY 169ASN 181
D
 GLY 2PHE 93
E
 GLY 2GLY 92
F
 A 2 A 15
G
 T 2 T 15
X
 GLY 167ASN 181
K
 A 2 A 15
L
 T 2 T 15
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 14 helices in PDB entry 8PDE. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
13 39Right-handed alpha
Helix 2
AA2
A
61 70Right-handed alpha
Helix 3
AA3
A
81 90Right-handed alpha
Helix 4
AA4
B
13 39Right-handed alpha
Helix 5
AA5
B
61 72Right-handed alpha
Helix 6
AA6
B
81 92Right-handed alpha
Helix 7
AA7
C
170 180Right-handed alpha
Helix 8
AA8
D
13 39Right-handed alpha
Helix 9
AA9
D
61 72Right-handed alpha
Helix 10
AB1
D
81 92Right-handed alpha
Helix 11
AB2
E
13 39Right-handed alpha
Helix 12
AB3
E
61 72Right-handed alpha
Helix 13
AB4
E
81 92Right-handed alpha
Helix 14
AB5
X
168 181Right-handed alpha
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There are 2 sheets in PDB entry 8PDE. Click on sheet of interest to get list of strands forming it: AA1, AA2,

There are 6 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
77 80first strand
Strand 2
B
54 58parallel
Strand 3
B
42 48anti-parallel
Strand 4
A
42 48anti-parallel
Strand 5
A
54 58anti-parallel
Strand 6
B
77 80parallel
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There are 6 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
77 80first strand
Strand 2
E
54 58parallel
Strand 3
E
42 48anti-parallel
Strand 4
D
42 48anti-parallel
Strand 5
D
54 58anti-parallel
Strand 6
E
77 80parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il