Analysis of interatomic Contacts of Structural Units in PDB entry:
3LYD


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 3LYD entry

There are 2 chains in PDB entry 3LYD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MSE 1GLY 158
B
 ASN -1GLY 158
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 4 helices in PDB entry 3LYD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
60 74Right-handed alpha
Helix 2
2
A
137 151Right-handed alpha
Helix 3
3
B
60 74Right-handed alpha
Helix 4
4
B
137 151Right-handed alpha
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There are 4 sheets in PDB entry 3LYD. Click on sheet of interest to get list of strands forming it: A, B, C, D,

There are 3 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
3 6first strand
Strand 2
B
16 20anti-parallel
Strand 3
B
153 155anti-parallel
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There are 3 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
153 155first strand
Strand 2
A
16 20anti-parallel
Strand 3
B
3 6anti-parallel
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There are 7 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
25 27first strand
Strand 2
A
35 39anti-parallel
Strand 3
A
49 57anti-parallel
Strand 4
A
124 134anti-parallel
Strand 5
A
107 119anti-parallel
Strand 6
A
92 103anti-parallel
Strand 7
A
80 89anti-parallel
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There are 7 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
25 27first strand
Strand 2
B
35 39anti-parallel
Strand 3
B
49 57anti-parallel
Strand 4
B
124 134anti-parallel
Strand 5
B
107 119anti-parallel
Strand 6
B
92 103anti-parallel
Strand 7
B
80 89anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il