Analysis of interatomic Contacts of Structural Units in PDB entry:
9PFD


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 9PFD entry

There are 3 chains in PDB entry 9PFD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ALA 483LYS 625
B
 GLY 11PRO 147
C
 HIS 3SER 14
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 12 helices in PDB entry 9PFD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
493 500Right-handed alpha
Helix 2
AA2
A
523 527Right-handed 310
Helix 3
AA3
A
546 555Right-handed alpha
Helix 4
AA4
A
557 565Right-handed alpha
Helix 5
AA5
A
567 588Right-handed alpha
Helix 6
AA6
A
612 623Right-handed alpha
Helix 7
AA7
B
11 15Right-handed 310
Helix 8
AA8
B
26 33Right-handed alpha
Helix 9
AA9
B
46 49Right-handed 310
Helix 10
AB1
B
86 89Right-handed 310
Helix 11
AB2
B
129 145Right-handed alpha
Helix 12
AB3
C
9 14Right-handed 310
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There are 3 sheets in PDB entry 9PFD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3,

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
506 517first strand
Strand 2
A
531 535anti-parallel
Strand 3
A
540 545anti-parallel
Strand 4
A
602 609parallel
Strand 5
A
589 597anti-parallel
Strand 6
A
506 517anti-parallel
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There are 7 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
23 24first strand
Strand 2
B
58 68parallel
Strand 3
B
101 110anti-parallel
Strand 4
B
116 124anti-parallel
Strand 5
B
79 84parallel
Strand 6
B
71 76anti-parallel
Strand 7
B
58 68anti-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
B
34 35first strand
Strand 2
B
42 45anti-parallel
Strand 3
B
50 54anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il