Analysis of interatomic Contacts of Structural Units in PDB entry:
1DM3


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 1DM3 entry

There are 8 chains in PDB entry 1DM3 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 SER 4LEU 88
A
 GLY 90LEU 392
B
 SER 4LEU 88
B
 GLY 90LEU 392
C
 SER 4LEU 88
C
 GLY 90LEU 392
D
 SER 4LEU 88
D
 GLY 90LEU 392
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 68 helices in PDB entry 1DM3. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
2
A
45 49Right-handed 310
Helix 2
3
A
65 74Right-handed alpha
Helix 3
4
A
90 105Right-handed alpha
Helix 4
5
A
142 148Right-handed alpha
Helix 5
6
A
156 169Right-handed alpha
Helix 6
7
A
171 192Right-handed alpha
Helix 7
8
A
224 230Right-handed alpha
Helix 8
9
A
261 268Right-handed alpha
Helix 9
10
A
284 288Right-handed 310
Helix 10
11
A
287 290Right-handed 310
Helix 11
12
A
291 304Right-handed alpha
Helix 12
13
A
306 310Right-handed 310
Helix 13
14
A
319 331Right-handed alpha
Helix 14
15
A
333 336Right-handed 310
Helix 15
16
A
342 347Right-handed alpha
Helix 16
17
A
352 369Right-handed alpha
Helix 17
18
B
26 43Right-handed alpha
Helix 18
19
B
45 49Right-handed 310
Helix 19
20
B
65 74Right-handed alpha
Helix 20
21
B
90 105Right-handed alpha
Helix 21
22
B
142 148Right-handed alpha
Helix 22
23
B
156 169Right-handed alpha
Helix 23
24
B
171 192Right-handed alpha
Helix 24
25
B
224 230Right-handed alpha
Helix 25
26
B
261 268Right-handed alpha
Helix 26
27
B
284 288Right-handed 310
Helix 27
28
B
287 290Right-handed 310
Helix 28
29
B
291 304Right-handed alpha
Helix 29
30
B
306 310Right-handed 310
Helix 30
31
B
319 331Right-handed alpha
Helix 31
32
B
333 336Right-handed 310
Helix 32
33
B
342 347Right-handed alpha
Helix 33
34
B
352 369Right-handed alpha
Helix 34
35
C
26 41Right-handed alpha
Helix 35
36
C
45 49Right-handed 310
Helix 36
37
C
65 75Right-handed alpha
Helix 37
38
C
90 105Right-handed alpha
Helix 38
39
C
142 148Right-handed alpha
Helix 39
40
C
156 169Right-handed alpha
Helix 40
41
C
171 192Right-handed alpha
Helix 41
42
C
224 231Right-handed alpha
Helix 42
43
C
261 268Right-handed alpha
Helix 43
44
C
284 288Right-handed 310
Helix 44
45
C
287 290Right-handed 310
Helix 45
46
C
291 304Right-handed alpha
Helix 46
47
C
306 310Right-handed 310
Helix 47
48
C
319 331Right-handed alpha
Helix 48
49
C
333 336Right-handed 310
Helix 49
50
C
342 347Right-handed alpha
Helix 50
51
C
349 351Right-handed 310
Helix 51
52
C
352 369Right-handed alpha
Helix 52
53
D
26 43Right-handed alpha
Helix 53
54
D
45 49Right-handed 310
Helix 54
55
D
65 74Right-handed alpha
Helix 55
56
D
90 105Right-handed alpha
Helix 56
57
D
142 148Right-handed alpha
Helix 57
58
D
156 169Right-handed alpha
Helix 58
59
D
171 192Right-handed alpha
Helix 59
60
D
224 230Right-handed alpha
Helix 60
61
D
261 267Right-handed alpha
Helix 61
62
D
284 288Right-handed 310
Helix 62
63
D
287 290Right-handed 310
Helix 63
64
D
291 304Right-handed alpha
Helix 64
65
D
306 310Right-handed 310
Helix 65
66
D
319 331Right-handed alpha
Helix 66
67
D
333 336Right-handed 310
Helix 67
68
D
342 347Right-handed alpha
Helix 68
69
D
349 369Right-handed alpha
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There are 7 sheets in PDB entry 1DM3. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G,

There are 22 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
312 315first strand
Strand 2
A
372 379parallel
Strand 3
A
383 390anti-parallel
Strand 4
A
273 282anti-parallel
Strand 5
A
5 12anti-parallel
Strand 6
A
250 260anti-parallel
Strand 7
A
16 17anti-parallel
Strand 8
A
250 260anti-parallel
Strand 9
A
111 118anti-parallel
Strand 10
A
51 55parallel
Strand 11
A
81 86parallel
Strand 12
B
81 86anti-parallel
Strand 13
B
51 55parallel
Strand 14
B
111 118parallel
Strand 15
B
250 260anti-parallel
Strand 16
B
16 17anti-parallel
Strand 17
B
250 260anti-parallel
Strand 18
B
5 12anti-parallel
Strand 19
B
273 282anti-parallel
Strand 20
B
383 390anti-parallel
Strand 21
B
372 379anti-parallel
Strand 22
B
312 315parallel
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There are 9 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
124 126first strand
Strand 2
A
137 141anti-parallel
Strand 3
D
137 141anti-parallel
Strand 4
D
124 126anti-parallel
Strand 5
C
124 126anti-parallel
Strand 6
C
137 141anti-parallel
Strand 7
B
137 141anti-parallel
Strand 8
B
124 126anti-parallel
Strand 9
A
124 126anti-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
202 204first strand
Strand 2
A
211 213anti-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
B
202 204first strand
Strand 2
B
211 213anti-parallel
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There are 22 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
312 315first strand
Strand 2
C
372 379parallel
Strand 3
C
383 390anti-parallel
Strand 4
C
273 282anti-parallel
Strand 5
C
5 12anti-parallel
Strand 6
C
250 260anti-parallel
Strand 7
C
16 17anti-parallel
Strand 8
C
250 260anti-parallel
Strand 9
C
110 117anti-parallel
Strand 10
C
51 55parallel
Strand 11
C
81 86parallel
Strand 12
D
81 86anti-parallel
Strand 13
D
51 55parallel
Strand 14
D
110 118parallel
Strand 15
D
250 260anti-parallel
Strand 16
D
16 17anti-parallel
Strand 17
D
250 260anti-parallel
Strand 18
D
5 12anti-parallel
Strand 19
D
273 282anti-parallel
Strand 20
D
383 390anti-parallel
Strand 21
D
372 379anti-parallel
Strand 22
D
312 315parallel
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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
C
202 204first strand
Strand 2
C
211 213anti-parallel
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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
D
202 204first strand
Strand 2
D
211 213anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il