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


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 3UPO entry

There are 2 chains in PDB entry 3UPO (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLU 47GLN 488
B
 SER 49GLN 488
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 3UPO. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
80 89Right-handed alpha
Helix 2
2
A
98 104Right-handed alpha
Helix 3
3
A
104 109Right-handed alpha
Helix 4
4
A
115 126Right-handed alpha
Helix 5
5
A
139 153Right-handed alpha
Helix 6
6
A
182 188Right-handed alpha
Helix 7
7
A
190 204Right-handed alpha
Helix 8
8
A
220 223Right-handed 310
Helix 9
9
A
224 235Right-handed alpha
Helix 10
10
A
261 264Right-handed 310
Helix 11
11
A
274 281Right-handed alpha
Helix 12
12
A
282 294Right-handed alpha
Helix 13
13
A
294 305Right-handed alpha
Helix 14
14
A
328 336Right-handed alpha
Helix 15
15
A
345 358Right-handed alpha
Helix 16
16
A
392 410Right-handed alpha
Helix 17
17
A
433 437Right-handed 310
Helix 18
18
A
462 466Right-handed 310
Helix 19
19
A
474 488Right-handed alpha
Helix 20
20
B
80 89Right-handed alpha
Helix 21
21
B
98 104Right-handed alpha
Helix 22
22
B
104 110Right-handed alpha
Helix 23
23
B
112 114Right-handed 310
Helix 24
24
B
115 123Right-handed alpha
Helix 25
25
B
139 153Right-handed alpha
Helix 26
26
B
182 188Right-handed alpha
Helix 27
27
B
190 204Right-handed alpha
Helix 28
28
B
220 223Right-handed 310
Helix 29
29
B
224 235Right-handed alpha
Helix 30
30
B
261 264Right-handed 310
Helix 31
31
B
274 281Right-handed alpha
Helix 32
32
B
282 294Right-handed alpha
Helix 33
33
B
294 305Right-handed alpha
Helix 34
34
B
328 336Right-handed alpha
Helix 35
35
B
345 358Right-handed alpha
Helix 36
36
B
392 411Right-handed alpha
Helix 37
37
B
433 437Right-handed 310
Helix 38
38
B
474 488Right-handed alpha
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There are 11 sheets in PDB entry 3UPO. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K,

There are 6 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
74 77first strand
Strand 2
A
60 67anti-parallel
Strand 3
A
55 57anti-parallel
Strand 4
A
133 136parallel
Strand 5
A
368 372anti-parallel
Strand 6
A
378 381anti-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
91 92first strand
Strand 2
A
96 97anti-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
A
172 178first strand
Strand 2
A
160 165anti-parallel
Strand 3
A
454 460anti-parallel
Strand 4
A
440 447anti-parallel
Strand 5
A
422 428anti-parallel
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There are 2 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
242 244first strand
Strand 2
A
271 273anti-parallel
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There are 2 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
248 250first strand
Strand 2
A
257 259anti-parallel
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There are 2 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
361 363first strand
Strand 2
A
386 389anti-parallel
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There are 6 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
74 77first strand
Strand 2
B
60 67anti-parallel
Strand 3
B
55 57anti-parallel
Strand 4
B
133 136parallel
Strand 5
B
368 372anti-parallel
Strand 6
B
378 381anti-parallel
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There are 5 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
172 178first strand
Strand 2
B
160 165anti-parallel
Strand 3
B
454 460anti-parallel
Strand 4
B
440 447anti-parallel
Strand 5
B
422 428anti-parallel
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There are 2 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
242 244first strand
Strand 2
B
271 273anti-parallel
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There are 2 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
248 250first strand
Strand 2
B
257 259anti-parallel
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There are 2 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
361 363first strand
Strand 2
B
386 389anti-parallel
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