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


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 4NDM entry

There are 2 chains in PDB entry 4NDM (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 THR 9ASP 246
B
 ALA 1GLU 212
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 5 helices in PDB entry 4NDM. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
87 91Right-handed 310
Helix 2
2
A
118 122Right-handed 310
Helix 3
3
A
133 140Right-handed alpha
Helix 4
4
A
200 204Right-handed alpha
Helix 5
5
B
82 86Right-handed 310
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There are 8 sheets in PDB entry 4NDM. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

There are 6 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
10 15first strand
Strand 2
A
105 116parallel
Strand 3
A
92 99anti-parallel
Strand 4
A
33 39anti-parallel
Strand 5
A
46 52anti-parallel
Strand 6
A
57 60anti-parallel
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There are 3 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
20 24first strand
Strand 2
A
79 83anti-parallel
Strand 3
A
69 72anti-parallel
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There are 8 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
172 174first strand
Strand 2
A
190 199anti-parallel
Strand 3
A
142 152anti-parallel
Strand 4
A
126 131anti-parallel
Strand 5
B
128 134anti-parallel
Strand 6
B
142 146anti-parallel
Strand 7
B
177 186anti-parallel
Strand 8
B
162 164anti-parallel
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There are 8 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
179 180first strand
Strand 2
A
190 199anti-parallel
Strand 3
A
142 152anti-parallel
Strand 4
A
126 131anti-parallel
Strand 5
B
128 134anti-parallel
Strand 6
B
142 146anti-parallel
Strand 7
B
177 186anti-parallel
Strand 8
B
168 172anti-parallel
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There are 4 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
166 167first strand
Strand 2
A
157 163anti-parallel
Strand 3
A
209 216anti-parallel
Strand 4
A
235 242anti-parallel
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There are 5 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
3 5first strand
Strand 2
B
19 26anti-parallel
Strand 3
B
73 78anti-parallel
Strand 4
B
63 68anti-parallel
Strand 5
B
59 60anti-parallel
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There are 5 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
11 14first strand
Strand 2
B
114 119parallel
Strand 3
B
87 95anti-parallel
Strand 4
B
33 39anti-parallel
Strand 5
B
45 52anti-parallel
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There are 4 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
11 14first strand
Strand 2
B
114 119parallel
Strand 3
B
87 95anti-parallel
Strand 4
B
107 110anti-parallel
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