Analysis of interatomic Contacts of Structural Units in PDB entry:
2VAG


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 2VAG entry


Note, this PDB entry contains modified residue(s) PHOSPHOTHREONINE (TPO) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

There are 2 chains in PDB entry 2VAG (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 0VAL 340
A
 ARG 343LYS 481
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 15 helices in PDB entry 2VAG. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
0 151Right-handed 310
Helix 2
2
A
196 217Right-handed alpha
Helix 3
3
A
247 255Right-handed alpha
Helix 4
4
A
261 282Right-handed alpha
Helix 5
5
A
290 292Right-handed 310
Helix 6
6
A
347 352Right-handed alpha
Helix 7
7
A
358 375Right-handed alpha
Helix 8
8
A
383 396Right-handed alpha
Helix 9
9
A
399 406Right-handed alpha
Helix 10
10
A
408 410Right-handed 310
Helix 11
11
A
423 433Right-handed alpha
Helix 12
12
A
435 440Right-handed 310
Helix 13
13
A
444 458Right-handed alpha
Helix 14
14
A
467 472Right-handed alpha
Helix 15
15
A
473 481Right-handed 310
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There are 5 sheets in PDB entry 2VAG. Click on sheet of interest to get list of strands forming it: AA, AB, AC, AD, AE,

There are 6 strands in AA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
156 157first strand
Strand 2
A
161 170anti-parallel
Strand 3
A
173 180anti-parallel
Strand 4
A
187 193anti-parallel
Strand 5
A
236 242anti-parallel
Strand 6
A
227 233anti-parallel
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There are 2 strands in AB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
284 285first strand
Strand 2
A
330 331anti-parallel
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There are 2 strands in AC sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
294 296first strand
Strand 2
A
321 323anti-parallel
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There are 2 strands in AD sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
301 305first strand
Strand 2
A
312 316anti-parallel
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There are 2 strands in AE sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
412 413first strand
Strand 2
A
416 417anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il