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


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 3GFD entry

There are 2 chains in PDB entry 3GFD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 SER 66HIS 287
B
 SER 66HIS 286
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 20 helices in PDB entry 3GFD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
78 95Right-handed alpha
Helix 2
2
A
108 120Right-handed alpha
Helix 3
3
A
124 128Right-handed 310
Helix 4
4
A
138 159Right-handed alpha
Helix 5
5
A
162 170Right-handed alpha
Helix 6
6
A
171 173Right-handed 310
Helix 7
7
A
179 184Right-handed alpha
Helix 8
8
A
208 228Right-handed alpha
Helix 9
9
A
239 247Right-handed alpha
Helix 10
10
A
277 280Right-handed 310
Helix 11
11
B
78 95Right-handed alpha
Helix 12
12
B
108 120Right-handed alpha
Helix 13
13
B
124 128Right-handed 310
Helix 14
14
B
138 159Right-handed alpha
Helix 15
15
B
162 170Right-handed alpha
Helix 16
16
B
171 173Right-handed 310
Helix 17
17
B
179 184Right-handed alpha
Helix 18
18
B
208 228Right-handed alpha
Helix 19
19
B
239 247Right-handed alpha
Helix 20
20
B
277 281Right-handed alpha
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There are 6 sheets in PDB entry 3GFD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 2 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
69 71first strand
Strand 2
B
269 271anti-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
253 261first strand
Strand 2
A
186 193anti-parallel
Strand 3
A
131 136anti-parallel
Strand 4
B
282 285parallel
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There are 2 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
195 196first strand
Strand 2
A
204 205anti-parallel
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There are 2 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
269 271first strand
Strand 2
B
69 71anti-parallel
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There are 4 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
282 284first strand
Strand 2
B
131 136parallel
Strand 3
B
186 193anti-parallel
Strand 4
B
253 261anti-parallel
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There are 2 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
195 196first strand
Strand 2
B
204 205anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il