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


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 1GKD entry

There are 2 chains in PDB entry 1GKD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 PHE 110TYR 443
B
 LEU 114TYR 443
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 1GKD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
133 150Right-handed alpha
Helix 2
2
A
395 407Right-handed alpha
Helix 3
3
A
432 443Right-handed alpha
Helix 4
4
B
133 151Right-handed alpha
Helix 5
5
B
395 407Right-handed alpha
Helix 6
6
B
432 443Right-handed alpha
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There are 4 sheets in PDB entry 1GKD. Click on sheet of interest to get list of strands forming it: AA, AB, BA, BB,

There are 5 strands in AA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
155 158first strand
Strand 2
A
120 125parallel
Strand 3
A
166 171parallel
Strand 4
A
202 205parallel
Strand 5
A
189 191anti-parallel
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There are 2 strands in AB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
210 211first strand
Strand 2
A
393 394parallel
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There are 5 strands in BA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
155 158first strand
Strand 2
B
120 125parallel
Strand 3
B
166 171parallel
Strand 4
B
202 205parallel
Strand 5
B
189 191anti-parallel
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There are 2 strands in BB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
210 211first strand
Strand 2
B
393 394parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il