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


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 9PGD entry

There are 3 chains in PDB entry 9PGD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
C
 MET 1ILE 396
D
 ARG 16THR 153
U
 LYS 37TYR 54
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 23 helices in PDB entry 9PGD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
C
43 47Right-handed 310
Helix 2
AA2
C
67 80Right-handed alpha
Helix 3
AA3
C
87 89Right-handed 310
Helix 4
AA4
C
102 116Right-handed alpha
Helix 5
AA5
C
127 139Right-handed alpha
Helix 6
AA6
C
176 192Right-handed alpha
Helix 7
AA7
C
198 210Right-handed alpha
Helix 8
AA8
C
215 225Right-handed alpha
Helix 9
AA9
C
251 255Right-handed 310
Helix 10
AB1
C
272 277Right-handed alpha
Helix 11
AB2
C
278 283Right-handed alpha
Helix 12
AB3
C
284 287Right-handed 310
Helix 13
AB4
C
293 305Right-handed alpha
Helix 14
AB5
C
309 315Right-handed alpha
Helix 15
AB6
C
321 326Right-handed 310
Helix 16
AB7
C
328 341Right-handed alpha
Helix 17
AB8
C
357 369Right-handed alpha
Helix 18
AB9
C
371 376Right-handed alpha
Helix 19
AC1
C
379 394Right-handed alpha
Helix 20
AC2
D
20 35Right-handed alpha
Helix 21
AC3
D
83 92Right-handed alpha
Helix 22
AC4
D
137 148Right-handed alpha
Helix 23
AC5
U
44 54Right-handed alpha
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There are 6 sheets in PDB entry 9PGD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

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
C
23 26first strand
Strand 2
C
12 17anti-parallel
Strand 3
C
2 8anti-parallel
Strand 4
C
91 97parallel
Strand 5
C
121 126parallel
Strand 6
C
377 378anti-parallel
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There are 3 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
40 41first strand
Strand 2
C
29 31anti-parallel
Strand 3
C
55 57anti-parallel
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There are 2 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
60 61first strand
Strand 2
C
64 65anti-parallel
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There are 5 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
171 173first strand
Strand 2
C
155 161anti-parallel
Strand 3
C
144 150anti-parallel
Strand 4
C
317 320parallel
Strand 5
C
349 350parallel
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There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
248 249first strand
Strand 2
C
234 237anti-parallel
Strand 3
C
267 270anti-parallel
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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
126 127first strand
Strand 2
D
134 135anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il