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


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 1VMD entry

There are 2 chains in PDB entry 1VMD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 PRO 5GLU 160
B
 PRO 5GLU 160
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 18 helices in PDB entry 1VMD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
26 37Right-handed alpha
Helix 2
2
A
37 42Right-handed alpha
Helix 3
3
A
49 61Right-handed alpha
Helix 4
4
A
69 72Right-handed 310
Helix 5
5
A
73 84Right-handed alpha
Helix 6
6
A
105 116Right-handed alpha
Helix 7
7
A
123 133Right-handed alpha
Helix 8
8
A
134 138Right-handed 310
Helix 9
9
A
146 160Right-handed alpha
Helix 10
10
B
26 37Right-handed alpha
Helix 11
11
B
37 42Right-handed alpha
Helix 12
12
B
49 61Right-handed alpha
Helix 13
13
B
69 72Right-handed 310
Helix 14
14
B
73 84Right-handed alpha
Helix 15
15
B
105 116Right-handed alpha
Helix 16
16
B
123 133Right-handed alpha
Helix 17
17
B
134 137Right-handed 310
Helix 18
18
B
146 160Right-handed alpha
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There are 4 sheets in PDB entry 1VMD. Click on sheet of interest to get list of strands forming it: A, B, C, D,

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
7 12first strand
Strand 2
A
140 145anti-parallel
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There are 5 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
65 66first strand
Strand 2
A
45 48parallel
Strand 3
A
17 22parallel
Strand 4
A
89 93parallel
Strand 5
A
120 121parallel
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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
B
7 12first strand
Strand 2
B
140 145anti-parallel
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There are 5 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
65 66first strand
Strand 2
B
45 48parallel
Strand 3
B
17 22parallel
Strand 4
B
89 93parallel
Strand 5
B
120 121parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il