Analysis of interatomic Contacts of Structural Units in PDB entry:
4UPD


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 4UPD entry

There are 2 chains in PDB entry 4UPD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 PHE 12ILE 549
B
 THR 13ILE 549
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 49 helices in PDB entry 4UPD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
45 49Right-handed 310
Helix 2
2
A
83 94Right-handed alpha
Helix 3
3
A
95 102Right-handed alpha
Helix 4
4
A
140 144Right-handed 310
Helix 5
5
A
146 156Right-handed alpha
Helix 6
6
A
169 173Right-handed 310
Helix 7
7
A
177 184Right-handed alpha
Helix 8
8
A
187 204Right-handed alpha
Helix 9
9
A
205 207Right-handed 310
Helix 10
10
A
220 236Right-handed alpha
Helix 11
11
A
263 277Right-handed alpha
Helix 12
12
A
284 292Right-handed alpha
Helix 13
13
A
293 302Right-handed alpha
Helix 14
14
A
329 336Right-handed alpha
Helix 15
15
A
354 358Right-handed 310
Helix 16
16
A
365 377Right-handed alpha
Helix 17
17
A
382 391Right-handed alpha
Helix 18
18
A
396 400Right-handed 310
Helix 19
19
A
414 427Right-handed alpha
Helix 20
20
A
427 442Right-handed alpha
Helix 21
21
A
466 472Right-handed alpha
Helix 22
22
A
479 496Right-handed alpha
Helix 23
23
A
510 515Right-handed alpha
Helix 24
24
A
533 543Right-handed alpha
Helix 25
25
A
544 548Right-handed 310
Helix 26
26
B
45 49Right-handed 310
Helix 27
27
B
83 94Right-handed alpha
Helix 28
28
B
95 102Right-handed alpha
Helix 29
29
B
146 156Right-handed alpha
Helix 30
30
B
169 175Right-handed alpha
Helix 31
31
B
177 183Right-handed alpha
Helix 32
32
B
187 204Right-handed alpha
Helix 33
33
B
205 207Right-handed 310
Helix 34
34
B
220 236Right-handed alpha
Helix 35
35
B
263 278Right-handed alpha
Helix 36
36
B
284 290Right-handed alpha
Helix 37
37
B
293 302Right-handed alpha
Helix 38
38
B
329 336Right-handed alpha
Helix 39
39
B
353 358Right-handed alpha
Helix 40
40
B
365 377Right-handed alpha
Helix 41
41
B
382 392Right-handed alpha
Helix 42
42
B
396 400Right-handed 310
Helix 43
43
B
414 427Right-handed alpha
Helix 44
44
B
427 442Right-handed alpha
Helix 45
45
B
466 472Right-handed alpha
Helix 46
46
B
479 496Right-handed alpha
Helix 47
47
B
510 515Right-handed alpha
Helix 48
48
B
533 543Right-handed alpha
Helix 49
49
B
544 548Right-handed 310
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There are 8 sheets in PDB entry 4UPD. Click on sheet of interest to get list of strands forming it: AA, AB, AC, AD, AE, 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
13 19first strand
Strand 2
A
22 29anti-parallel
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There are 2 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
62 64first strand
Strand 2
A
22 29parallel
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There are 12 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
525 529first strand
Strand 2
A
516 520anti-parallel
Strand 3
A
447 452parallel
Strand 4
A
344 349parallel
Strand 5
A
247 251parallel
Strand 6
A
209 219parallel
Strand 7
A
125 131parallel
Strand 8
A
161 165parallel
Strand 9
A
110 116anti-parallel
Strand 10
A
32 39anti-parallel
Strand 11
A
22 29anti-parallel
Strand 12
A
62 64parallel
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There are 12 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
525 529first strand
Strand 2
A
516 520anti-parallel
Strand 3
A
447 452parallel
Strand 4
A
344 349parallel
Strand 5
A
247 251parallel
Strand 6
A
209 219parallel
Strand 7
A
125 131parallel
Strand 8
A
161 165parallel
Strand 9
A
110 116anti-parallel
Strand 10
A
32 39anti-parallel
Strand 11
A
22 29anti-parallel
Strand 12
A
13 19anti-parallel
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There are 2 strands in AE sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
238 239first strand
Strand 2
A
242 243anti-parallel
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There are 2 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
22 25first strand
Strand 2
B
61 64parallel
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There are 11 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
27 29first strand
Strand 2
B
32 39anti-parallel
Strand 3
B
110 115anti-parallel
Strand 4
B
161 165anti-parallel
Strand 5
B
125 131parallel
Strand 6
B
209 219parallel
Strand 7
B
247 251parallel
Strand 8
B
344 349parallel
Strand 9
B
447 452parallel
Strand 10
B
516 520parallel
Strand 11
B
525 529anti-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
238 239first strand
Strand 2
B
242 243anti-parallel
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