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


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 1QDM entry

There are 3 chains in PDB entry 1QDM (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 VAL 6ALA 338
B
 VAL 6ALA 338
C
 VAL 6ALA 338
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 56 helices in PDB entry 1QDM. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
16 25Right-handed alpha
Helix 2
2
A
7 11Right-handed 310
Helix 3
3
A
12 16Right-handed 310
Helix 4
4
A
52 58Right-handed 310
Helix 5
5
A
62 66Right-handed 310
Helix 6
6
A
115 120Right-handed alpha
Helix 7
7
A
130 134Right-handed 310
Helix 8
8
A
134 138Right-handed 310
Helix 9
9
A
140 146Right-handed alpha
Helix 10
10
A
232 244Right-handed alpha
Helix 11
11
A
3 13Right-handed alpha
Helix 12
12
A
13 23Right-handed alpha
Helix 13
13
A
26 34Right-handed alpha
Helix 14
14
A
65 85Right-handed alpha
Helix 15
15
A
88 100Right-handed alpha
Helix 16
16
A
256 261Right-handed 310
Helix 17
17
A
278 282Right-handed alpha
Helix 18
18
A
288 292Right-handed 310
Helix 19
19
A
314 319Right-handed alpha
Helix 20
20
B
16 24Right-handed alpha
Helix 21
21
B
7 11Right-handed 310
Helix 22
22
B
52 58Right-handed 310
Helix 23
23
B
114 120Right-handed alpha
Helix 24
24
B
130 134Right-handed 310
Helix 25
25
B
134 138Right-handed 310
Helix 26
26
B
140 149Right-handed alpha
Helix 27
27
B
232 244Right-handed alpha
Helix 28
28
B
3 12Right-handed alpha
Helix 29
29
B
13 23Right-handed alpha
Helix 30
30
B
26 35Right-handed alpha
Helix 31
31
B
65 86Right-handed alpha
Helix 32
32
B
88 99Right-handed alpha
Helix 33
33
B
100 102Right-handed 310
Helix 34
34
B
104 251Right-handed 310
Helix 35
35
B
259 263Right-handed 310
Helix 36
36
B
278 282Right-handed alpha
Helix 37
37
B
288 292Right-handed 310
Helix 38
38
B
314 319Right-handed alpha
Helix 39
39
C
21 26Right-handed 310
Helix 40
40
C
6 11Right-handed 310
Helix 41
41
C
12 16Right-handed 310
Helix 42
42
C
53 58Right-handed alpha
Helix 43
43
C
62 66Right-handed 310
Helix 44
44
C
114 119Right-handed alpha
Helix 45
45
C
130 134Right-handed 310
Helix 46
46
C
134 138Right-handed 310
Helix 47
47
C
140 148Right-handed alpha
Helix 48
48
C
178 180Right-handed 310
Helix 49
49
C
232 244Right-handed alpha
Helix 50
50
C
3 12Right-handed alpha
Helix 51
51
C
12 24Right-handed alpha
Helix 52
52
C
26 35Right-handed alpha
Helix 53
53
C
65 84Right-handed alpha
Helix 54
54
C
88 100Right-handed alpha
Helix 55
55
C
259 263Right-handed 310
Helix 56
56
C
278 283Right-handed alpha
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There are 12 sheets in PDB entry 1QDM. Click on sheet of interest to get list of strands forming it: B, C, D, E, G, H, I, J, L, M, N, O,

There are 3 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
198 201first strand
Strand 2
A
218 222anti-parallel
Strand 3
A
310 313parallel
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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
209 210first strand
Strand 2
A
204 206anti-parallel
Strand 3
A
266 270anti-parallel
Strand 4
A
273 277anti-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
229 231first strand
Strand 2
A
298 300parallel
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There are 3 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
254 255first strand
Strand 2
A
294 296anti-parallel
Strand 3
A
283 285anti-parallel
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There are 3 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
198 201first strand
Strand 2
B
218 222anti-parallel
Strand 3
B
310 313parallel
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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
209 210first strand
Strand 2
B
205 206anti-parallel
Strand 3
B
266 270anti-parallel
Strand 4
B
273 277anti-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
229 231first strand
Strand 2
B
298 300parallel
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There are 3 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
254 255first strand
Strand 2
B
293 296anti-parallel
Strand 3
B
283 286anti-parallel
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There are 3 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
198 201first strand
Strand 2
C
218 222anti-parallel
Strand 3
C
310 313parallel
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There are 4 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
209 210first strand
Strand 2
C
204 206anti-parallel
Strand 3
C
266 270anti-parallel
Strand 4
C
273 277anti-parallel
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There are 2 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
229 231first strand
Strand 2
C
298 300parallel
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There are 3 strands in O sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
254 255first strand
Strand 2
C
293 295anti-parallel
Strand 3
C
284 286anti-parallel
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