Analysis of interatomic Contacts of Structural Units in PDB entry:
5VNA


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 5VNA entry

There are 4 chains in PDB entry 5VNA (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLY 14PRO 147
B
 ILE 21GLN 145
C
 THR 20ASP 146
D
 THR 20PHE 144
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 6 helices in PDB entry 5VNA. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
58 61Right-handed 310
Helix 2
AA2
A
123 129Right-handed alpha
Helix 3
AA3
B
123 129Right-handed alpha
Helix 4
AA4
C
58 61Right-handed 310
Helix 5
AA5
D
58 61Right-handed 310
Helix 6
AA6
D
123 130Right-handed alpha
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There are 8 sheets in PDB entry 5VNA. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 4 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
86 92first strand
Strand 2
A
45 53anti-parallel
Strand 3
A
20 33anti-parallel
Strand 4
A
134 145anti-parallel
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There are 4 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
78 81first strand
Strand 2
A
63 69anti-parallel
Strand 3
A
97 104anti-parallel
Strand 4
A
112 117anti-parallel
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There are 4 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
86 92first strand
Strand 2
B
45 53anti-parallel
Strand 3
B
22 33anti-parallel
Strand 4
B
134 143anti-parallel
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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
78 81first strand
Strand 2
B
63 69anti-parallel
Strand 3
B
97 104anti-parallel
Strand 4
B
112 117anti-parallel
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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
86 92first strand
Strand 2
C
45 53anti-parallel
Strand 3
C
21 33anti-parallel
Strand 4
C
134 144anti-parallel
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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
78 81first strand
Strand 2
C
63 69anti-parallel
Strand 3
C
97 104anti-parallel
Strand 4
C
112 117anti-parallel
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There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
86 92first strand
Strand 2
D
45 53anti-parallel
Strand 3
D
22 33anti-parallel
Strand 4
D
133 143anti-parallel
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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
78 81first strand
Strand 2
D
63 69anti-parallel
Strand 3
D
97 104anti-parallel
Strand 4
D
112 117anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il