Analysis of interatomic Contacts of Structural Units in PDB entry:
5DYJ


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 5DYJ entry


Note, this PDB entry contains modified residue(s) PHOSPHOTHREONINE (TPO) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

There are 4 chains in PDB entry 5DYJ (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ILE 552GLY 611
A
 THR 613LEU 809
B
 ILE 552GLY 611
B
 THR 613LEU 809
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 13 helices in PDB entry 5DYJ. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
619 623Right-handed 310
Helix 2
AA2
A
631 636Right-handed alpha
Helix 3
AA3
A
651 655Right-handed 310
Helix 4
AA4
A
656 680Right-handed alpha
Helix 5
AA5
A
734 748Right-handed alpha
Helix 6
AA6
A
782 793Right-handed alpha
Helix 7
AA7
A
797 803Right-handed alpha
Helix 8
AA8
B
619 623Right-handed 310
Helix 9
AA9
B
631 636Right-handed alpha
Helix 10
AB1
B
656 680Right-handed alpha
Helix 11
AB2
B
734 748Right-handed alpha
Helix 12
AB3
B
782 793Right-handed alpha
Helix 13
AB4
B
797 803Right-handed alpha
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There are 6 sheets in PDB entry 5DYJ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

There are 8 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
587 588first strand
Strand 2
A
592 603anti-parallel
Strand 3
A
641 647anti-parallel
Strand 4
A
709 714anti-parallel
Strand 5
A
692 695anti-parallel
Strand 6
A
558 566anti-parallel
Strand 7
A
571 581anti-parallel
Strand 8
A
592 603anti-parallel
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There are 4 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
687 688first strand
Strand 2
A
763 765parallel
Strand 3
A
758 760anti-parallel
Strand 4
A
721 722anti-parallel
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There are 2 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
753 755first strand
Strand 2
A
768 770anti-parallel
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There are 8 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
587 588first strand
Strand 2
B
592 603anti-parallel
Strand 3
B
641 647anti-parallel
Strand 4
B
708 714anti-parallel
Strand 5
B
692 696anti-parallel
Strand 6
B
558 566anti-parallel
Strand 7
B
571 581anti-parallel
Strand 8
B
592 603anti-parallel
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There are 4 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
687 688first strand
Strand 2
B
763 765parallel
Strand 3
B
758 760anti-parallel
Strand 4
B
721 722anti-parallel
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There are 2 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
753 755first strand
Strand 2
B
768 770anti-parallel
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