Analysis of interatomic Contacts of Structural Units in PDB entry:
8D04


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 8D04 entry

There are 6 chains in PDB entry 8D04 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
B
 GLY 3VAL 65
A
 GLY 3GLU 68
E
 GLY 3VAL 67
F
 GLY 3VAL 67
C
 GLY 3GLU 66
D
 GLY 3VAL 65
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 6 helices in PDB entry 8D04. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
B
32 53Right-handed alpha
Helix 2
AA2
A
32 52Right-handed alpha
Helix 3
AA3
E
32 51Right-handed alpha
Helix 4
AA4
F
32 53Right-handed alpha
Helix 5
AA5
C
32 53Right-handed alpha
Helix 6
AA6
D
32 52Right-handed alpha
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There are 4 sheets in PDB entry 8D04. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4,

There are 3 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
5 13first strand
Strand 2
B
19 27anti-parallel
Strand 3
B
56 64parallel
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There are 9 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
57 65first strand
Strand 2
A
17 28parallel
Strand 3
A
4 14anti-parallel
Strand 4
F
56 64anti-parallel
Strand 5
F
19 27parallel
Strand 6
F
5 13anti-parallel
Strand 7
E
56 64anti-parallel
Strand 8
E
19 28parallel
Strand 9
E
4 13anti-parallel
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There are 3 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
5 13first strand
Strand 2
C
19 27anti-parallel
Strand 3
C
56 64parallel
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There are 3 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
5 12first strand
Strand 2
D
19 27anti-parallel
Strand 3
D
56 64parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il