Analysis of interatomic Contacts of Structural Units in PDB entry:
9DMD


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 9DMD entry

There are 2 chains in PDB entry 9DMD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 94GLN 439
B
 THR 93GLN 439
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 30 helices in PDB entry 9DMD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
100 104Right-handed 310
Helix 2
AA2
A
138 142Right-handed 310
Helix 3
AA3
A
150 157Right-handed alpha
Helix 4
AA4
A
174 186Right-handed alpha
Helix 5
AA5
A
199 209Right-handed alpha
Helix 6
AA6
A
212 217Right-handed alpha
Helix 7
AA7
A
229 250Right-handed alpha
Helix 8
AA8
A
260 275Right-handed alpha
Helix 9
AA9
A
285 297Right-handed alpha
Helix 10
AB1
A
322 332Right-handed alpha
Helix 11
AB2
A
339 345Right-handed alpha
Helix 12
AB3
A
360 365Right-handed alpha
Helix 13
AB4
A
366 389Right-handed alpha
Helix 14
AB5
A
402 418Right-handed alpha
Helix 15
AB6
A
426 439Right-handed alpha
Helix 16
AB7
B
100 104Right-handed 310
Helix 17
AB8
B
138 142Right-handed 310
Helix 18
AB9
B
150 157Right-handed alpha
Helix 19
AC1
B
174 186Right-handed alpha
Helix 20
AC2
B
199 210Right-handed alpha
Helix 21
AC3
B
211 218Right-handed alpha
Helix 22
AC4
B
229 250Right-handed alpha
Helix 23
AC5
B
260 275Right-handed alpha
Helix 24
AC6
B
285 297Right-handed alpha
Helix 25
AC7
B
322 332Right-handed alpha
Helix 26
AC8
B
339 345Right-handed alpha
Helix 27
AC9
B
360 364Right-handed 310
Helix 28
AD1
B
366 392Right-handed alpha
Helix 29
AD2
B
400 418Right-handed alpha
Helix 30
AD3
B
426 439Right-handed alpha
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There are 8 sheets in PDB entry 9DMD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 2 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
96 99first strand
Strand 2
A
125 128anti-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
107 109first strand
Strand 2
A
219 224parallel
Strand 3
A
190 196parallel
Strand 4
A
254 259parallel
Strand 5
A
305 314parallel
Strand 6
A
300 302anti-parallel
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There are 8 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
107 109first strand
Strand 2
A
219 224parallel
Strand 3
A
190 196parallel
Strand 4
A
254 259parallel
Strand 5
A
305 314parallel
Strand 6
A
164 169parallel
Strand 7
A
334 338parallel
Strand 8
A
351 358anti-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
A
145 146first strand
Strand 2
A
159 160anti-parallel
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There are 2 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
96 99first strand
Strand 2
B
125 128anti-parallel
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There are 6 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
106 109first strand
Strand 2
B
219 224parallel
Strand 3
B
190 196parallel
Strand 4
B
254 259parallel
Strand 5
B
305 314parallel
Strand 6
B
300 302anti-parallel
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There are 8 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
106 109first strand
Strand 2
B
219 224parallel
Strand 3
B
190 196parallel
Strand 4
B
254 259parallel
Strand 5
B
305 314parallel
Strand 6
B
164 169parallel
Strand 7
B
334 338parallel
Strand 8
B
351 358anti-parallel
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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
145 146first strand
Strand 2
B
159 160anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il