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


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 3NEK entry

There are 2 chains in PDB entry 3NEK (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ARG 321LYS 540
B
 ASN 319TYR 539
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 3NEK. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
324 334Right-handed alpha
Helix 2
2
A
358 372Right-handed alpha
Helix 3
3
A
396 406Right-handed alpha
Helix 4
4
A
439 444Right-handed alpha
Helix 5
5
A
445 448Right-handed 310
Helix 6
6
A
465 477Right-handed alpha
Helix 7
7
A
509 518Right-handed alpha
Helix 8
8
A
534 536Right-handed 310
Helix 9
9
B
324 336Right-handed alpha
Helix 10
10
B
358 372Right-handed alpha
Helix 11
11
B
395 405Right-handed alpha
Helix 12
12
B
439 445Right-handed alpha
Helix 13
13
B
446 448Right-handed 310
Helix 14
14
B
465 477Right-handed alpha
Helix 15
15
B
509 518Right-handed alpha
Helix 16
16
B
534 536Right-handed 310
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There are 4 sheets in PDB entry 3NEK. Click on sheet of interest to get list of strands forming it: A, B, C, D,

There are 5 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
523 532first strand
Strand 2
A
346 355anti-parallel
Strand 3
A
388 394anti-parallel
Strand 4
A
379 384anti-parallel
Strand 5
A
537 538anti-parallel
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There are 5 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
425 432first strand
Strand 2
A
410 420anti-parallel
Strand 3
A
453 462anti-parallel
Strand 4
A
500 506anti-parallel
Strand 5
A
481 484anti-parallel
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There are 5 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
523 532first strand
Strand 2
B
346 355anti-parallel
Strand 3
B
388 394anti-parallel
Strand 4
B
379 384anti-parallel
Strand 5
B
537 538anti-parallel
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There are 5 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
425 432first strand
Strand 2
B
410 420anti-parallel
Strand 3
B
453 462anti-parallel
Strand 4
B
500 506anti-parallel
Strand 5
B
481 484anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il