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


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 5DMS 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 6 chains in PDB entry 5DMS (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLU 368SER 593
B
 LYS 173SER 175
B
 ILE 177ILE 177
C
 CYS 372SER 593
D
 PHE 169SER 175
D
 ILE 177ILE 177
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 15 helices in PDB entry 5DMS. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
368 387Right-handed alpha
Helix 2
AA2
A
396 401Right-handed 310
Helix 3
AA3
A
402 406Right-handed 310
Helix 4
AA4
A
469 471Right-handed 310
Helix 5
AA5
A
472 490Right-handed alpha
Helix 6
AA6
A
564 571Right-handed alpha
Helix 7
AA7
A
573 593Right-handed alpha
Helix 8
AA8
C
373 387Right-handed alpha
Helix 9
AA9
C
396 401Right-handed 310
Helix 10
AB1
C
402 406Right-handed 310
Helix 11
AB2
C
469 471Right-handed 310
Helix 12
AB3
C
472 488Right-handed alpha
Helix 13
AB4
C
564 571Right-handed alpha
Helix 14
AB5
C
573 592Right-handed alpha
Helix 15
AB6
D
170 174Right-handed 310
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There are 4 sheets in PDB entry 5DMS. 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
411 416first strand
Strand 2
A
422 427anti-parallel
Strand 3
A
432 436anti-parallel
Strand 4
A
441 444anti-parallel
Strand 5
A
450 454anti-parallel
Strand 6
A
460 464anti-parallel
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There are 6 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
511 516first strand
Strand 2
A
520 525anti-parallel
Strand 3
A
530 534anti-parallel
Strand 4
A
540 544anti-parallel
Strand 5
A
549 553anti-parallel
Strand 6
A
559 563anti-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
C
411 416first strand
Strand 2
C
422 427anti-parallel
Strand 3
C
432 436anti-parallel
Strand 4
C
441 444anti-parallel
Strand 5
C
450 454anti-parallel
Strand 6
C
461 464anti-parallel
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There are 6 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
511 516first strand
Strand 2
C
520 525anti-parallel
Strand 3
C
530 534anti-parallel
Strand 4
C
540 544anti-parallel
Strand 5
C
549 553anti-parallel
Strand 6
C
559 563anti-parallel
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