Analysis of interatomic Contacts of Structural Units in PDB entry:
2YPQ


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 2YPQ entry

There are 2 chains in PDB entry 2YPQ (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1ASP 462
B
 MET 1ASP 462
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 38 helices in PDB entry 2YPQ. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
19 31Right-handed alpha
Helix 2
2
A
41 53Right-handed alpha
Helix 3
3
A
60 76Right-handed alpha
Helix 4
4
A
90 94Right-handed 310
Helix 5
5
A
95 117Right-handed alpha
Helix 6
6
A
158 163Right-handed alpha
Helix 7
7
A
167 189Right-handed alpha
Helix 8
8
A
190 192Right-handed 310
Helix 9
9
A
193 208Right-handed alpha
Helix 10
10
A
210 232Right-handed alpha
Helix 11
11
A
235 239Right-handed 310
Helix 12
12
A
251 258Right-handed alpha
Helix 13
13
A
290 299Right-handed alpha
Helix 14
14
A
312 324Right-handed alpha
Helix 15
15
A
339 356Right-handed alpha
Helix 16
16
A
368 370Right-handed 310
Helix 17
17
A
383 402Right-handed alpha
Helix 18
18
A
430 434Right-handed 310
Helix 19
19
A
445 461Right-handed alpha
Helix 20
20
B
19 32Right-handed alpha
Helix 21
21
B
41 53Right-handed alpha
Helix 22
22
B
60 76Right-handed alpha
Helix 23
23
B
90 94Right-handed 310
Helix 24
24
B
95 118Right-handed alpha
Helix 25
25
B
158 163Right-handed alpha
Helix 26
26
B
166 189Right-handed alpha
Helix 27
27
B
190 192Right-handed 310
Helix 28
28
B
193 208Right-handed alpha
Helix 29
29
B
210 231Right-handed alpha
Helix 30
30
B
235 240Right-handed 310
Helix 31
31
B
251 258Right-handed alpha
Helix 32
32
B
290 297Right-handed alpha
Helix 33
33
B
312 324Right-handed alpha
Helix 34
34
B
339 358Right-handed alpha
Helix 35
35
B
366 371Right-handed alpha
Helix 36
36
B
383 402Right-handed alpha
Helix 37
37
B
430 434Right-handed 310
Helix 38
38
B
445 462Right-handed alpha
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There are 7 sheets in PDB entry 2YPQ. Click on sheet of interest to get list of strands forming it: AA, AB, AC, AD, BA, BB, BC,

There are 2 strands in AA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
4 8first strand
Strand 2
B
2 6anti-parallel
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There are 9 strands in AB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
80 85first strand
Strand 2
A
121 126parallel
Strand 3
A
243 248parallel
Strand 4
A
278 281parallel
Strand 5
A
303 307parallel
Strand 6
A
332 336parallel
Strand 7
A
362 365parallel
Strand 8
A
407 411parallel
Strand 9
A
80 85parallel
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There are 2 strands in AC sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
259 261first strand
Strand 2
A
271 273anti-parallel
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There are 2 strands in AD sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
372 374first strand
Strand 2
A
380 382anti-parallel
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There are 9 strands in BA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
80 85first strand
Strand 2
B
121 126parallel
Strand 3
B
243 248parallel
Strand 4
B
278 281parallel
Strand 5
B
303 307parallel
Strand 6
B
332 336parallel
Strand 7
B
362 365parallel
Strand 8
B
405 411parallel
Strand 9
B
80 85parallel
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There are 2 strands in BB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
259 263first strand
Strand 2
B
269 273anti-parallel
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There are 2 strands in BC sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
373 374first strand
Strand 2
B
380 381anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il