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


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 3DNK entry

There are 2 chains in PDB entry 3DNK (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLY 236SER 444
B
 GLY 1236PRO 1445
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 10 helices in PDB entry 3DNK. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
246 252Right-handed alpha
Helix 2
2
A
309 314Right-handed alpha
Helix 3
3
A
354 360Right-handed 310
Helix 4
4
A
414 420Right-handed alpha
Helix 5
5
A
432 436Right-handed 310
Helix 6
6
B
1246 1252Right-handed alpha
Helix 7
7
B
1309 1315Right-handed alpha
Helix 8
8
B
1354 1358Right-handed 310
Helix 9
9
B
1414 1419Right-handed alpha
Helix 10
10
B
1432 1434Right-handed 310
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There are 10 sheets in PDB entry 3DNK. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J,

There are 4 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
239 243first strand
Strand 2
A
258 266anti-parallel
Strand 3
A
300 307anti-parallel
Strand 4
A
288 290anti-parallel
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There are 4 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
282 284first strand
Strand 2
A
274 279anti-parallel
Strand 3
A
319 324anti-parallel
Strand 4
A
332 336anti-parallel
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There are 4 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
347 351first strand
Strand 2
A
362 372anti-parallel
Strand 3
A
404 413anti-parallel
Strand 4
A
391 393anti-parallel
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There are 4 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
347 351first strand
Strand 2
A
362 372anti-parallel
Strand 3
A
404 413anti-parallel
Strand 4
A
397 398anti-parallel
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There are 3 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
378 383first strand
Strand 2
A
422 428anti-parallel
Strand 3
A
437 442anti-parallel
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There are 4 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
1239 1243first strand
Strand 2
B
1258 1266anti-parallel
Strand 3
B
1300 1307anti-parallel
Strand 4
B
1289 1294anti-parallel
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There are 4 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
1282 1284first strand
Strand 2
B
1273 1279anti-parallel
Strand 3
B
1319 1325anti-parallel
Strand 4
B
1332 1336anti-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
1347 1351first strand
Strand 2
B
1362 1372anti-parallel
Strand 3
B
1404 1413anti-parallel
Strand 4
B
1391 1393anti-parallel
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There are 4 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
1347 1351first strand
Strand 2
B
1362 1372anti-parallel
Strand 3
B
1404 1413anti-parallel
Strand 4
B
1397 1398anti-parallel
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There are 3 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
1378 1382first strand
Strand 2
B
1423 1428anti-parallel
Strand 3
B
1436 1441anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il