Analysis of interatomic Contacts of Structural Units in PDB entry:
8PD4


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 8PD4 entry

There are 2 chains in PDB entry 8PD4 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 SER 258THR 461
B
 SER 258THR 461
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 8PD4. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
258 268Right-handed alpha
Helix 2
AA2
A
269 274Right-handed 310
Helix 3
AA3
A
281 287Right-handed alpha
Helix 4
AA4
A
288 290Right-handed 310
Helix 5
AA5
A
296 300Right-handed 310
Helix 6
AA6
A
376 379Right-handed 310
Helix 7
AA7
B
259 268Right-handed alpha
Helix 8
AA8
B
269 274Right-handed 310
Helix 9
AA9
B
281 287Right-handed alpha
Helix 10
AB1
B
288 290Right-handed 310
Helix 11
AB2
B
296 300Right-handed 310
Helix 12
AB3
B
376 379Right-handed 310
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There are 6 sheets in PDB entry 8PD4. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

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
A
304 306first strand
Strand 2
A
312 315anti-parallel
Strand 3
A
456 457anti-parallel
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There are 5 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
334 336first strand
Strand 2
A
444 450anti-parallel
Strand 3
A
358 364anti-parallel
Strand 4
A
381 387anti-parallel
Strand 5
A
391 393anti-parallel
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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
A
345 351first strand
Strand 2
A
410 416anti-parallel
Strand 3
A
421 426anti-parallel
Strand 4
A
432 437anti-parallel
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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
B
304 306first strand
Strand 2
B
312 315anti-parallel
Strand 3
B
456 457anti-parallel
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There are 5 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
334 336first strand
Strand 2
B
444 450anti-parallel
Strand 3
B
358 364anti-parallel
Strand 4
B
381 387anti-parallel
Strand 5
B
391 393anti-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
B
345 351first strand
Strand 2
B
410 416anti-parallel
Strand 3
B
421 426anti-parallel
Strand 4
B
432 437anti-parallel
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