Analysis of interatomic Contacts of Structural Units in PDB entry:
3GD9


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 3GD9 entry

There is 1 chain in PDB entry 3GD9 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 VAL 37ASP 401
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 8 helices in PDB entry 3GD9. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
196 207Right-handed alpha
Helix 2
2
A
211 214Right-handed 310
Helix 3
3
A
229 236Right-handed alpha
Helix 4
4
A
244 258Right-handed alpha
Helix 5
5
A
299 306Right-handed alpha
Helix 6
6
A
307 311Right-handed 310
Helix 7
7
A
317 331Right-handed alpha
Helix 8
8
A
355 365Right-handed alpha
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There are 6 sheets in PDB entry 3GD9. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 5 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
104 110first strand
Strand 2
A
40 47anti-parallel
Strand 3
A
392 397parallel
Strand 4
A
176 181anti-parallel
Strand 5
A
187 190anti-parallel
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There are 4 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
78 80first strand
Strand 2
A
69 72anti-parallel
Strand 3
A
55 63anti-parallel
Strand 4
A
96 97anti-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
78 80first strand
Strand 2
A
69 72anti-parallel
Strand 3
A
55 63anti-parallel
Strand 4
A
112 120anti-parallel
Strand 5
A
150 158anti-parallel
Strand 6
A
161 165anti-parallel
Strand 7
A
384 387anti-parallel
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There are 3 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
89 90first strand
Strand 2
A
127 129anti-parallel
Strand 3
A
132 134anti-parallel
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There are 3 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
171 172first strand
Strand 2
A
224 228anti-parallel
Strand 3
A
216 218anti-parallel
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There are 5 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
291 295first strand
Strand 2
A
281 285anti-parallel
Strand 3
A
273 278anti-parallel
Strand 4
A
260 262anti-parallel
Strand 5
A
339 340parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il