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


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 3DMD entry

There are 3 chains in PDB entry 3DMD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
B
 ALA -1GLY 318
A
 MET 1GLY 318
C
 MET 1GLY 318
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 42 helices in PDB entry 3DMD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
B
2 30Right-handed alpha
Helix 2
2
B
42 60Right-handed alpha
Helix 3
3
B
63 79Right-handed alpha
Helix 4
4
B
88 105Right-handed alpha
Helix 5
5
B
112 120Right-handed alpha
Helix 6
6
B
135 150Right-handed alpha
Helix 7
7
B
163 178Right-handed alpha
Helix 8
8
B
189 205Right-handed alpha
Helix 9
9
B
222 235Right-handed alpha
Helix 10
10
B
250 262Right-handed alpha
Helix 11
11
B
271 275Right-handed 310
Helix 12
12
B
278 289Right-handed alpha
Helix 13
13
B
300 302Right-handed 310
Helix 14
14
B
308 318Right-handed alpha
Helix 15
15
A
2 25Right-handed alpha
Helix 16
16
A
42 59Right-handed alpha
Helix 17
17
A
63 79Right-handed alpha
Helix 18
18
A
88 105Right-handed alpha
Helix 19
19
A
112 119Right-handed alpha
Helix 20
20
A
135 150Right-handed alpha
Helix 21
21
A
163 177Right-handed alpha
Helix 22
22
A
189 205Right-handed alpha
Helix 23
23
A
222 235Right-handed alpha
Helix 24
24
A
250 262Right-handed alpha
Helix 25
25
A
271 275Right-handed 310
Helix 26
26
A
278 289Right-handed alpha
Helix 27
27
A
300 302Right-handed 310
Helix 28
28
A
308 318Right-handed alpha
Helix 29
29
C
2 30Right-handed alpha
Helix 30
30
C
42 60Right-handed alpha
Helix 31
31
C
63 79Right-handed alpha
Helix 32
32
C
88 105Right-handed alpha
Helix 33
33
C
112 120Right-handed alpha
Helix 34
34
C
135 150Right-handed alpha
Helix 35
35
C
163 177Right-handed alpha
Helix 36
36
C
189 205Right-handed alpha
Helix 37
37
C
222 235Right-handed alpha
Helix 38
38
C
250 262Right-handed alpha
Helix 39
39
C
271 275Right-handed 310
Helix 40
40
C
278 289Right-handed alpha
Helix 41
41
C
300 302Right-handed 310
Helix 42
42
C
308 318Right-handed alpha
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There are 6 sheets in PDB entry 3DMD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

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
B
38 40first strand
Strand 2
B
82 84anti-parallel
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There are 8 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
180 182first strand
Strand 2
B
154 158parallel
Strand 3
B
208 212parallel
Strand 4
B
124 129parallel
Strand 5
B
238 244parallel
Strand 6
B
266 270parallel
Strand 7
B
292 296parallel
Strand 8
B
304 306anti-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
38 40first strand
Strand 2
A
82 84anti-parallel
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There are 8 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
180 182first strand
Strand 2
A
154 159parallel
Strand 3
A
208 213parallel
Strand 4
A
124 129parallel
Strand 5
A
238 244parallel
Strand 6
A
266 270parallel
Strand 7
A
292 296parallel
Strand 8
A
304 306anti-parallel
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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
C
38 40first strand
Strand 2
C
82 84anti-parallel
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There are 8 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
180 182first strand
Strand 2
C
154 159parallel
Strand 3
C
208 213parallel
Strand 4
C
124 129parallel
Strand 5
C
238 244parallel
Strand 6
C
266 270parallel
Strand 7
C
292 296parallel
Strand 8
C
304 306anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il