Analysis of interatomic Contacts of Structural Units in PDB entry:
3U88


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 3U88 entry

There are 6 chains in PDB entry 3U88 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLY 2SER 583
B
 GLY 2GLN 582
M
 ARG 6GLU 135
C
 MET 348VAL 429
N
 ARG 6GLY 134
D
 GLN 353GLY 430
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 65 helices in PDB entry 3U88. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
4 9Right-handed alpha
Helix 2
2
A
15 29Right-handed alpha
Helix 3
3
A
33 49Right-handed alpha
Helix 4
4
A
82 99Right-handed alpha
Helix 5
5
A
114 127Right-handed alpha
Helix 6
6
A
142 149Right-handed alpha
Helix 7
7
A
153 168Right-handed alpha
Helix 8
8
A
187 191Right-handed 310
Helix 9
9
A
211 218Right-handed alpha
Helix 10
10
A
222 226Right-handed 310
Helix 11
11
A
231 242Right-handed alpha
Helix 12
12
A
254 270Right-handed alpha
Helix 13
13
A
276 290Right-handed alpha
Helix 14
14
A
297 313Right-handed alpha
Helix 15
15
A
318 331Right-handed alpha
Helix 16
16
A
333 349Right-handed alpha
Helix 17
17
A
354 356Right-handed 310
Helix 18
18
A
357 370Right-handed alpha
Helix 19
19
A
370 385Right-handed alpha
Helix 20
20
A
402 405Right-handed 310
Helix 21
21
A
406 425Right-handed alpha
Helix 22
22
A
433 446Right-handed alpha
Helix 23
23
A
448 453Right-handed alpha
Helix 24
24
A
555 561Right-handed alpha
Helix 25
25
A
571 580Right-handed alpha
Helix 26
26
B
4 9Right-handed alpha
Helix 27
27
B
15 29Right-handed alpha
Helix 28
28
B
33 50Right-handed alpha
Helix 29
29
B
82 99Right-handed alpha
Helix 30
30
B
102 106Right-handed 310
Helix 31
31
B
114 127Right-handed alpha
Helix 32
32
B
142 149Right-handed alpha
Helix 33
33
B
153 168Right-handed alpha
Helix 34
34
B
187 191Right-handed 310
Helix 35
35
B
211 217Right-handed alpha
Helix 36
36
B
219 226Right-handed 310
Helix 37
37
B
231 242Right-handed alpha
Helix 38
38
B
254 270Right-handed alpha
Helix 39
39
B
276 290Right-handed alpha
Helix 40
40
B
297 313Right-handed alpha
Helix 41
41
B
318 331Right-handed alpha
Helix 42
42
B
333 349Right-handed alpha
Helix 43
43
B
354 356Right-handed 310
Helix 44
44
B
357 370Right-handed alpha
Helix 45
45
B
370 385Right-handed alpha
Helix 46
46
B
401 405Right-handed 310
Helix 47
47
B
406 425Right-handed alpha
Helix 48
48
B
433 445Right-handed alpha
Helix 49
49
B
448 453Right-handed alpha
Helix 50
50
B
555 560Right-handed alpha
Helix 51
51
B
571 579Right-handed alpha
Helix 52
52
M
23 29Right-handed alpha
Helix 53
53
M
113 134Right-handed alpha
Helix 54
54
C
349 363Right-handed alpha
Helix 55
55
C
369 381Right-handed alpha
Helix 56
56
C
386 392Right-handed alpha
Helix 57
57
C
393 404Right-handed alpha
Helix 58
58
C
409 428Right-handed alpha
Helix 59
59
N
23 28Right-handed alpha
Helix 60
60
N
113 133Right-handed alpha
Helix 61
61
D
354 362Right-handed alpha
Helix 62
62
D
371 382Right-handed alpha
Helix 63
63
D
386 391Right-handed alpha
Helix 64
64
D
393 404Right-handed alpha
Helix 65
65
D
411 430Right-handed alpha
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There are 10 sheets in PDB entry 3U88. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J,

There are 2 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
53 54first strand
Strand 2
M
107 108parallel
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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
63 67first strand
Strand 2
A
75 79anti-parallel
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There are 4 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
192 194first strand
Strand 2
A
182 186anti-parallel
Strand 3
A
174 177anti-parallel
Strand 4
A
228 229anti-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
251 253first strand
Strand 2
M
33 35parallel
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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
456 458first strand
Strand 2
A
550 552parallel
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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
B
53 54first strand
Strand 2
N
107 108parallel
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There are 2 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
63 66first strand
Strand 2
B
76 79anti-parallel
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There are 4 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
192 194first strand
Strand 2
B
182 186anti-parallel
Strand 3
B
174 177anti-parallel
Strand 4
B
228 229anti-parallel
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There are 3 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
246 248first strand
Strand 2
B
251 253anti-parallel
Strand 3
N
33 35parallel
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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
456 458first strand
Strand 2
B
550 552parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il