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


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 8DMB entry

There are 4 chains in PDB entry 8DMB (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
P
 THR 6ALA 347
W
 C 3 C 282
X
 A 2 G 29
Y
 T 1 T 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
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There are 9 helices in PDB entry 8DMB. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
P
22 32Right-handed alpha
Helix 2
AA2
P
92 112Right-handed alpha
Helix 3
AA3
P
130 151Right-handed alpha
Helix 4
AA4
P
164 168Right-handed 310
Helix 5
AA5
P
171 179Right-handed alpha
Helix 6
AA6
P
180 192Right-handed alpha
Helix 7
AA7
P
198 210Right-handed alpha
Helix 8
AA8
P
226 239Right-handed alpha
Helix 9
AA9
P
267 271Right-handed 310
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There are 3 sheets in PDB entry 8DMB. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3,

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
P
10 11first strand
Strand 2
P
45 49parallel
Strand 3
P
35 39anti-parallel
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There are 7 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
P
193 197first strand
Strand 2
P
155 159parallel
Strand 3
P
60 65parallel
Strand 4
P
70 77anti-parallel
Strand 5
P
81 88anti-parallel
Strand 6
P
248 253parallel
Strand 7
P
341 346anti-parallel
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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
P
323 327first strand
Strand 2
P
314 317anti-parallel
Strand 3
P
297 305anti-parallel
Strand 4
P
289 294anti-parallel
Strand 5
P
332 336anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il