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


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 3GDI entry

There are 2 chains in PDB entry 3GDI (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLY 168PRO 473
B
 ILE 179PRO 473
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 17 helices in PDB entry 3GDI. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
224 229Right-handed 310
Helix 2
2
A
233 241Right-handed alpha
Helix 3
3
A
325 328Right-handed 310
Helix 4
4
A
347 353Right-handed alpha
Helix 5
5
A
355 360Right-handed alpha
Helix 6
6
A
363 368Right-handed alpha
Helix 7
7
A
372 386Right-handed alpha
Helix 8
8
A
454 468Right-handed alpha
Helix 9
9
B
224 228Right-handed 310
Helix 10
10
B
230 232Right-handed 310
Helix 11
11
B
233 241Right-handed alpha
Helix 12
12
B
325 328Right-handed 310
Helix 13
13
B
347 353Right-handed alpha
Helix 14
14
B
355 360Right-handed alpha
Helix 15
15
B
364 368Right-handed 310
Helix 16
16
B
374 387Right-handed alpha
Helix 17
17
B
455 468Right-handed alpha
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There are 4 sheets in PDB entry 3GDI. Click on sheet of interest to get list of strands forming it: A, B, C, D,

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
202 205first strand
Strand 2
A
190 195anti-parallel
Strand 3
A
307 314anti-parallel
Strand 4
A
285 294anti-parallel
Strand 5
A
268 272anti-parallel
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There are 5 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
341 344first strand
Strand 2
A
330 335anti-parallel
Strand 3
A
423 434anti-parallel
Strand 4
A
405 416anti-parallel
Strand 5
A
391 399anti-parallel
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There are 5 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
201 204first strand
Strand 2
B
192 196anti-parallel
Strand 3
B
307 311anti-parallel
Strand 4
B
284 294anti-parallel
Strand 5
B
268 273anti-parallel
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There are 5 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
341 344first strand
Strand 2
B
330 335anti-parallel
Strand 3
B
423 434anti-parallel
Strand 4
B
405 416anti-parallel
Strand 5
B
391 399anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il