Analysis of interatomic Contacts of Structural Units in PDB entry:
1VRD


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 1VRD entry

There are 2 chains in PDB entry 1VRD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1THR 457
B
 MET 1THR 457
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 28 helices in PDB entry 1VRD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
6 8Right-handed 310
Helix 2
2
A
20 24Right-handed 310
Helix 3
3
A
50 59Right-handed alpha
Helix 4
4
A
71 84Right-handed alpha
Helix 5
5
A
197 202Right-handed alpha
Helix 6
6
A
225 236Right-handed alpha
Helix 7
7
A
250 264Right-handed alpha
Helix 8
8
A
276 286Right-handed alpha
Helix 9
9
A
301 308Right-handed alpha
Helix 10
10
A
312 326Right-handed alpha
Helix 11
11
A
339 349Right-handed alpha
Helix 12
12
A
357 362Right-handed alpha
Helix 13
13
A
420 440Right-handed alpha
Helix 14
14
A
443 451Right-handed alpha
Helix 15
15
B
6 8Right-handed 310
Helix 16
16
B
20 24Right-handed 310
Helix 17
17
B
50 59Right-handed alpha
Helix 18
18
B
71 83Right-handed alpha
Helix 19
19
B
199 203Right-handed 310
Helix 20
20
B
225 236Right-handed alpha
Helix 21
21
B
250 264Right-handed alpha
Helix 22
22
B
276 286Right-handed alpha
Helix 23
23
B
301 308Right-handed alpha
Helix 24
24
B
312 325Right-handed alpha
Helix 25
25
B
339 349Right-handed alpha
Helix 26
26
B
357 362Right-handed alpha
Helix 27
27
B
420 440Right-handed alpha
Helix 28
28
B
443 451Right-handed alpha
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There are 8 sheets in PDB entry 1VRD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

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
10 12first strand
Strand 2
A
453 455anti-parallel
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There are 2 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
28 29first strand
Strand 2
A
35 36anti-parallel
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There are 9 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
40 42first strand
Strand 2
A
63 66parallel
Strand 3
A
217 220parallel
Strand 4
A
240 243parallel
Strand 5
A
269 274parallel
Strand 6
A
290 293parallel
Strand 7
A
331 334parallel
Strand 8
A
353 356parallel
Strand 9
A
40 42parallel
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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
369 373first strand
Strand 2
A
376 380anti-parallel
Strand 3
A
415 416anti-parallel
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There are 2 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
10 12first strand
Strand 2
B
453 455anti-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
28 29first strand
Strand 2
B
35 36anti-parallel
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There are 9 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
40 42first strand
Strand 2
B
63 66parallel
Strand 3
B
217 220parallel
Strand 4
B
240 244parallel
Strand 5
B
269 274parallel
Strand 6
B
290 293parallel
Strand 7
B
331 334parallel
Strand 8
B
353 356parallel
Strand 9
B
40 42parallel
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There are 3 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
369 373first strand
Strand 2
B
376 383anti-parallel
Strand 3
B
411 416anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il