Analysis of interatomic Contacts of Structural Units in PDB entry:
1Q84


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 1Q84 entry

There are 2 chains in PDB entry 1Q84 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLU 1SER 541
B
 GLU 4LEU 540
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 52 helices in PDB entry 1Q84. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
5 7Right-handed 310
Helix 2
2
A
42 46Right-handed 310
Helix 3
3
A
80 85Right-handed alpha
Helix 4
4
A
130 134Right-handed 310
Helix 5
5
A
135 143Right-handed alpha
Helix 6
6
A
153 159Right-handed alpha
Helix 7
7
A
170 187Right-handed alpha
Helix 8
8
A
188 190Right-handed 310
Helix 9
9
A
203 215Right-handed alpha
Helix 10
10
A
215 220Right-handed alpha
Helix 11
11
A
240 255Right-handed alpha
Helix 12
12
A
265 275Right-handed alpha
Helix 13
13
A
277 286Right-handed alpha
Helix 14
14
A
287 289Right-handed 310
Helix 15
15
A
311 319Right-handed alpha
Helix 16
16
A
336 342Right-handed 310
Helix 17
17
A
355 367Right-handed alpha
Helix 18
18
A
371 383Right-handed alpha
Helix 19
19
A
390 407Right-handed alpha
Helix 20
20
A
407 421Right-handed alpha
Helix 21
21
A
440 444Right-handed 310
Helix 22
22
A
450 455Right-handed alpha
Helix 23
23
A
456 464Right-handed 310
Helix 24
24
A
466 487Right-handed alpha
Helix 25
25
A
525 534Right-handed alpha
Helix 26
26
A
534 539Right-handed alpha
Helix 27
27
B
5 7Right-handed 310
Helix 28
28
B
42 46Right-handed 310
Helix 29
29
B
80 85Right-handed alpha
Helix 30
30
B
130 134Right-handed 310
Helix 31
31
B
135 143Right-handed alpha
Helix 32
32
B
153 159Right-handed alpha
Helix 33
33
B
170 187Right-handed alpha
Helix 34
34
B
188 190Right-handed 310
Helix 35
35
B
203 214Right-handed alpha
Helix 36
36
B
215 220Right-handed alpha
Helix 37
37
B
240 255Right-handed alpha
Helix 38
38
B
265 276Right-handed alpha
Helix 39
39
B
277 286Right-handed alpha
Helix 40
40
B
287 289Right-handed 310
Helix 41
41
B
311 319Right-handed alpha
Helix 42
42
B
336 342Right-handed 310
Helix 43
43
B
355 367Right-handed alpha
Helix 44
44
B
371 383Right-handed alpha
Helix 45
45
B
390 407Right-handed alpha
Helix 46
46
B
407 421Right-handed alpha
Helix 47
47
B
440 444Right-handed 310
Helix 48
48
B
450 455Right-handed alpha
Helix 49
49
B
456 464Right-handed 310
Helix 50
50
B
466 487Right-handed alpha
Helix 51
51
B
525 534Right-handed alpha
Helix 52
52
B
534 539Right-handed alpha
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There are 6 sheets in PDB entry 1Q84. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 3 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
9 12first strand
Strand 2
A
15 18anti-parallel
Strand 3
A
59 61parallel
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There are 11 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
20 24first strand
Strand 2
A
27 36anti-parallel
Strand 3
A
98 104anti-parallel
Strand 4
A
145 149anti-parallel
Strand 5
A
112 118parallel
Strand 6
A
192 202parallel
Strand 7
A
224 228parallel
Strand 8
A
325 331parallel
Strand 9
A
424 430parallel
Strand 10
A
509 513parallel
Strand 11
A
519 522anti-parallel
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There are 2 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
68 69first strand
Strand 2
A
92 93parallel
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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
9 12first strand
Strand 2
B
15 18anti-parallel
Strand 3
B
59 61parallel
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There are 11 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
20 24first strand
Strand 2
B
27 36anti-parallel
Strand 3
B
98 104anti-parallel
Strand 4
B
145 149anti-parallel
Strand 5
B
112 118parallel
Strand 6
B
192 202parallel
Strand 7
B
224 228parallel
Strand 8
B
325 331parallel
Strand 9
B
424 430parallel
Strand 10
B
509 513parallel
Strand 11
B
519 522anti-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
B
68 69first strand
Strand 2
B
92 93parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il