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


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 1VPM entry

There are 3 chains in PDB entry 1VPM (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ILE 2LEU 156
B
 GLN 3ARG 153
C
 HIS 0ARG 153
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 12 helices in PDB entry 1VPM. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
8 10Right-handed 310
Helix 2
2
A
19 23Right-handed 310
Helix 3
3
A
30 51Right-handed alpha
Helix 4
4
A
133 155Right-handed alpha
Helix 5
5
B
7 11Right-handed alpha
Helix 6
6
B
19 23Right-handed 310
Helix 7
7
B
30 51Right-handed alpha
Helix 8
8
B
133 153Right-handed alpha
Helix 9
9
C
8 10Right-handed 310
Helix 10
10
C
19 23Right-handed 310
Helix 11
11
C
30 51Right-handed alpha
Helix 12
12
C
133 153Right-handed alpha
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There are 6 sheets in PDB entry 1VPM. 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
A
4 6first strand
Strand 2
A
128 130parallel
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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
12 17first strand
Strand 2
A
72 83anti-parallel
Strand 3
A
87 98anti-parallel
Strand 4
A
104 117anti-parallel
Strand 5
A
53 59anti-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
B
4 6first strand
Strand 2
B
128 130parallel
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There are 6 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
12 17first strand
Strand 2
B
73 83anti-parallel
Strand 3
B
87 97anti-parallel
Strand 4
B
104 117anti-parallel
Strand 5
B
53 59anti-parallel
Strand 6
C
62 63anti-parallel
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There are 6 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
62 63first strand
Strand 2
C
53 59anti-parallel
Strand 3
C
104 117anti-parallel
Strand 4
C
87 97anti-parallel
Strand 5
C
73 83anti-parallel
Strand 6
C
12 17anti-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
C
5 6first strand
Strand 2
C
129 130parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il