Analysis of interatomic Contacts of Structural Units in PDB entry:
6GPD


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 6GPD entry

There are 2 chains in PDB entry 6GPD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ALA 1LEU 126
B
 ALA 1LEU 126
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 6GPD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
1 9Right-handed alpha
Helix 2
AA2
A
33 47Right-handed alpha
Helix 3
AA3
A
56 58Right-handed 310
Helix 4
AA4
A
59 66Right-handed alpha
Helix 5
AA5
A
79 84Right-handed alpha
Helix 6
AA6
A
112 126Right-handed alpha
Helix 7
AA7
B
2 9Right-handed alpha
Helix 8
AA8
B
33 47Right-handed alpha
Helix 9
AA9
B
56 58Right-handed 310
Helix 10
AB1
B
59 66Right-handed alpha
Helix 11
AB2
B
79 84Right-handed alpha
Helix 12
AB3
B
112 126Right-handed alpha
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There are 7 sheets in PDB entry 6GPD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7,

There are 5 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
49 54first strand
Strand 2
A
10 15parallel
Strand 3
A
71 72parallel
Strand 4
A
107 108anti-parallel
Strand 5
A
87 88anti-parallel
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There are 3 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
18 19first strand
Strand 2
A
23 25anti-parallel
Strand 3
A
31 32anti-parallel
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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
93 94first strand
Strand 2
A
103 104anti-parallel
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There are 3 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
49 54first strand
Strand 2
B
10 15parallel
Strand 3
B
71 72parallel
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There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
18 19first strand
Strand 2
B
23 25anti-parallel
Strand 3
B
31 32anti-parallel
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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
87 88first strand
Strand 2
B
107 108anti-parallel
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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
93 94first strand
Strand 2
B
103 104anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il