Analysis of interatomic Contacts of Structural Units in PDB entry:
3NDH


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 3NDH entry

There are 4 chains in PDB entry 3NDH (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 HIS -4GLY 216
B
 ASP 9GLY 216
C
 DG 2 DG 11
D
 DC 2 DC 11
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 16 helices in PDB entry 3NDH. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
9 17Right-handed alpha
Helix 2
2
A
17 38Right-handed alpha
Helix 3
3
A
48 66Right-handed alpha
Helix 4
4
A
110 121Right-handed alpha
Helix 5
5
A
144 156Right-handed alpha
Helix 6
6
A
156 160Right-handed alpha
Helix 7
7
A
176 186Right-handed alpha
Helix 8
8
A
206 215Right-handed alpha
Helix 9
9
B
10 14Right-handed 310
Helix 10
10
B
17 38Right-handed alpha
Helix 11
11
B
48 66Right-handed alpha
Helix 12
12
B
110 121Right-handed alpha
Helix 13
13
B
144 156Right-handed alpha
Helix 14
14
B
156 160Right-handed alpha
Helix 15
15
B
176 186Right-handed alpha
Helix 16
16
B
206 216Right-handed alpha
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There are 6 sheets in PDB entry 3NDH. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 2 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
40 41first strand
Strand 2
A
44 45anti-parallel
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There are 6 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
70 71first strand
Strand 2
A
83 85anti-parallel
Strand 3
A
88 96anti-parallel
Strand 4
A
126 132parallel
Strand 5
A
137 143anti-parallel
Strand 6
A
190 195anti-parallel
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There are 3 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
104 106first strand
Strand 2
A
173 175anti-parallel
Strand 3
A
161 162anti-parallel
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There are 2 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
40 41first strand
Strand 2
B
44 45anti-parallel
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There are 6 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
70 71first strand
Strand 2
B
83 85anti-parallel
Strand 3
B
88 96anti-parallel
Strand 4
B
126 132parallel
Strand 5
B
137 143anti-parallel
Strand 6
B
190 195anti-parallel
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There are 3 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
104 106first strand
Strand 2
B
173 175anti-parallel
Strand 3
B
161 162anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il