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


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 5GVD entry

There are 2 chains in PDB entry 5GVD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLY -3TRP 161
B
 GLY -3TRP 161
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
Back to top of page

There are 8 helices in PDB entry 5GVD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
-3 12Right-handed alpha
Helix 2
AA2
A
17 25Right-handed alpha
Helix 3
AA3
A
32 42Right-handed alpha
Helix 4
AA4
A
44 49Right-handed alpha
Helix 5
AA5
B
-2 12Right-handed alpha
Helix 6
AA6
B
17 25Right-handed alpha
Helix 7
AA7
B
32 42Right-handed alpha
Helix 8
AA8
B
44 49Right-handed alpha
Back to top of page

There are 2 sheets in PDB entry 5GVD. Click on sheet of interest to get list of strands forming it: AA1, AA2,

There are 8 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
64 66first strand
Strand 2
A
132 136anti-parallel
Strand 3
A
139 143anti-parallel
Strand 4
A
105 112parallel
Strand 5
A
93 100anti-parallel
Strand 6
A
69 77anti-parallel
Strand 7
A
126 129anti-parallel
Strand 8
A
147 151anti-parallel
Back to list of sheets
Back to top of page

There are 8 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
64 66first strand
Strand 2
B
132 136anti-parallel
Strand 3
B
139 142anti-parallel
Strand 4
B
105 110parallel
Strand 5
B
95 100anti-parallel
Strand 6
B
69 78anti-parallel
Strand 7
B
126 129anti-parallel
Strand 8
B
147 151anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il