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


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 5YPO entry


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

There are 6 chains in PDB entry 5YPO (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
B
 VAL 531GLY 713
A
 TYR 533GLY 713
C
 ALA -3GLU 0
C
 TYR 2LEU 10
D
 ALA -3GLU 0
D
 TYR 2LEU 10
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
Back to top of page

There are 18 helices in PDB entry 5YPO. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
B
543 555Right-handed alpha
Helix 2
AA2
B
585 595Right-handed alpha
Helix 3
AA3
B
613 622Right-handed alpha
Helix 4
AA4
B
632 641Right-handed alpha
Helix 5
AA5
B
654 662Right-handed alpha
Helix 6
AA6
B
666 685Right-handed alpha
Helix 7
AA7
B
686 688Right-handed 310
Helix 8
AA8
B
696 713Right-handed alpha
Helix 9
AA9
A
543 555Right-handed alpha
Helix 10
AB1
A
585 595Right-handed alpha
Helix 11
AB2
A
613 622Right-handed alpha
Helix 12
AB3
A
631 641Right-handed alpha
Helix 13
AB4
A
654 662Right-handed alpha
Helix 14
AB5
A
666 684Right-handed alpha
Helix 15
AB6
A
685 688Right-handed 310
Helix 16
AB7
A
696 713Right-handed alpha
Helix 17
AB8
C
-1 7Right-handed alpha
Helix 18
AB9
D
-1 7Right-handed alpha
Back to top of page

There are 4 sheets in PDB entry 5YPO. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4,

There are 5 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
559 560first strand
Strand 2
B
625 628parallel
Strand 3
B
537 540parallel
Strand 4
B
646 650parallel
Strand 5
B
690 692parallel
Back to list of sheets
Back to top of page

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
B
581 582first strand
Strand 2
B
565 566parallel
Strand 3
B
607 612anti-parallel
Strand 4
B
598 604anti-parallel
Back to list of sheets
Back to top of page

There are 5 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
559 560first strand
Strand 2
A
625 628parallel
Strand 3
A
537 540parallel
Strand 4
A
646 650parallel
Strand 5
A
690 692parallel
Back to list of sheets
Back to top of page

There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
581 582first strand
Strand 2
A
565 566parallel
Strand 3
A
607 612anti-parallel
Strand 4
A
598 604anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il