Analysis of interatomic Contacts of Structural Units in PDB entry:
4YMJ


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 4YMJ 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 4 chains in PDB entry 4YMJ (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLY -3TYR 705
A
 THR 707THR 831
B
 GLY -3TYR 705
B
 THR 707TYR 834
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 29 helices in PDB entry 4YMJ. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
534 536Right-handed 310
Helix 2
AA2
A
578 595Right-handed alpha
Helix 3
AA3
A
624 632Right-handed alpha
Helix 4
AA4
A
652 673Right-handed alpha
Helix 5
AA5
A
681 683Right-handed 310
Helix 6
AA6
A
689 691Right-handed 310
Helix 7
AA7
A
705 709Right-handed 310
Helix 8
AA8
A
733 737Right-handed 310
Helix 9
AA9
A
738 745Right-handed alpha
Helix 10
AB1
A
748 765Right-handed alpha
Helix 11
AB2
A
775 785Right-handed alpha
Helix 12
AB3
A
796 807Right-handed alpha
Helix 13
AB4
A
810 814Right-handed 310
Helix 14
AB5
A
816 831Right-handed alpha
Helix 15
AB6
B
534 536Right-handed 310
Helix 16
AB7
B
578 595Right-handed alpha
Helix 17
AB8
B
624 631Right-handed alpha
Helix 18
AB9
B
652 673Right-handed alpha
Helix 19
AC1
B
681 683Right-handed 310
Helix 20
AC2
B
689 691Right-handed 310
Helix 21
AC3
B
700 705Right-handed alpha
Helix 22
AC4
B
706 709Right-handed 310
Helix 23
AC5
B
733 737Right-handed 310
Helix 24
AC6
B
738 745Right-handed alpha
Helix 25
AC7
B
748 765Right-handed alpha
Helix 26
AC8
B
775 785Right-handed alpha
Helix 27
AC9
B
796 807Right-handed alpha
Helix 28
AD1
B
810 814Right-handed 310
Helix 29
AD2
B
816 831Right-handed alpha
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There are 4 sheets in PDB entry 4YMJ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4,

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
532 533first strand
Strand 2
A
603 607parallel
Strand 3
A
614 618anti-parallel
Strand 4
A
566 574anti-parallel
Strand 5
A
550 558anti-parallel
Strand 6
A
538 546anti-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
685 687first strand
Strand 2
A
693 695anti-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
532 533first strand
Strand 2
B
603 607parallel
Strand 3
B
614 618anti-parallel
Strand 4
B
566 574anti-parallel
Strand 5
B
550 558anti-parallel
Strand 6
B
538 546anti-parallel
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There are 2 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
685 687first strand
Strand 2
B
693 695anti-parallel
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