Analysis of interatomic Contacts of Structural Units in PDB entry:
1YOJ


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 1YOJ entry

There are 2 chains in PDB entry 1YOJ (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLU 263LEU 535
B
 LEU 271LEU 535
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 26 helices in PDB entry 1YOJ. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
265 267Right-handed 310
Helix 2
2
A
347 354Right-handed alpha
Helix 3
3
A
356 360Right-handed 310
Helix 4
4
A
361 382Right-handed alpha
Helix 5
5
A
390 392Right-handed 310
Helix 6
6
A
398 400Right-handed 310
Helix 7
7
A
427 431Right-handed 310
Helix 8
8
A
432 439Right-handed alpha
Helix 9
9
A
442 459Right-handed alpha
Helix 10
10
A
469 479Right-handed alpha
Helix 11
11
A
490 501Right-handed alpha
Helix 12
12
A
504 508Right-handed 310
Helix 13
13
A
510 525Right-handed alpha
Helix 14
14
B
348 354Right-handed alpha
Helix 15
15
B
356 360Right-handed 310
Helix 16
16
B
361 382Right-handed alpha
Helix 17
17
B
390 392Right-handed 310
Helix 18
18
B
398 400Right-handed 310
Helix 19
19
B
427 431Right-handed 310
Helix 20
20
B
432 439Right-handed alpha
Helix 21
21
B
442 459Right-handed alpha
Helix 22
22
B
469 479Right-handed alpha
Helix 23
23
B
490 501Right-handed alpha
Helix 24
24
B
504 508Right-handed 310
Helix 25
25
B
510 520Right-handed alpha
Helix 26
26
B
520 525Right-handed alpha
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There are 4 sheets in PDB entry 1YOJ. 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
269 276first strand
Strand 2
A
283 288anti-parallel
Strand 3
A
292 298anti-parallel
Strand 4
A
337 341anti-parallel
Strand 5
A
327 331anti-parallel
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There are 2 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
394 396first strand
Strand 2
A
402 404anti-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
B
294 297first strand
Strand 2
B
338 341anti-parallel
Strand 3
B
327 330anti-parallel
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There are 3 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
346 347first strand
Strand 2
B
394 396anti-parallel
Strand 3
B
402 404anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il