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


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 8PFD entry

There are 2 chains in PDB entry 8PFD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLU 36GLU 133
B
 PRO 1THR 192
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 10 helices in PDB entry 8PFD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
51 58Right-handed 310
Helix 2
AA2
A
60 64Right-handed 310
Helix 3
AA3
A
112 117Right-handed alpha
Helix 4
AA4
B
13 18Right-handed 310
Helix 5
AA5
B
24 44Right-handed alpha
Helix 6
AA6
B
68 75Right-handed alpha
Helix 7
AA7
B
86 100Right-handed alpha
Helix 8
AA8
B
121 135Right-handed alpha
Helix 9
AA9
B
150 164Right-handed alpha
Helix 10
AB1
B
181 188Right-handed alpha
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There are 3 sheets in PDB entry 8PFD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3,

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
A
38 39first strand
Strand 2
A
42 49anti-parallel
Strand 3
A
125 131parallel
Strand 4
A
94 99anti-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
A
73 74first strand
Strand 2
A
85 86anti-parallel
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There are 6 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
60 66first strand
Strand 2
B
48 53anti-parallel
Strand 3
B
4 10parallel
Strand 4
B
107 114parallel
Strand 5
B
137 143parallel
Strand 6
B
170 173parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il