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


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 3NDD entry

There are 2 chains in PDB entry 3NDD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ASN 24ARG 358
B
 SER 359GLN 393
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 11 helices in PDB entry 3NDD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
26 45Right-handed alpha
Helix 2
2
A
53 66Right-handed alpha
Helix 3
3
A
69 80Right-handed alpha
Helix 4
4
A
88 104Right-handed alpha
Helix 5
5
A
127 139Right-handed alpha
Helix 6
6
A
149 165Right-handed alpha
Helix 7
7
A
199 203Right-handed 310
Helix 8
8
A
259 267Right-handed alpha
Helix 9
9
A
268 278Right-handed alpha
Helix 10
10
A
299 306Right-handed alpha
Helix 11
11
A
309 313Right-handed 310
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There are 3 sheets in PDB entry 3NDD. Click on sheet of interest to get list of strands forming it: A, B, C,

There are 7 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
50 52first strand
Strand 2
B
382 388anti-parallel
Strand 3
B
370 376anti-parallel
Strand 4
A
248 255anti-parallel
Strand 5
A
237 243anti-parallel
Strand 6
A
214 232anti-parallel
Strand 7
A
204 211anti-parallel
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There are 8 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
50 52first strand
Strand 2
B
382 388anti-parallel
Strand 3
B
370 376anti-parallel
Strand 4
A
248 255anti-parallel
Strand 5
A
237 243anti-parallel
Strand 6
A
214 232anti-parallel
Strand 7
A
282 289anti-parallel
Strand 8
B
363 365parallel
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There are 6 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
140 145first strand
Strand 2
A
111 121parallel
Strand 3
A
182 193anti-parallel
Strand 4
A
344 357anti-parallel
Strand 5
A
327 340anti-parallel
Strand 6
A
291 298anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il