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


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 3VRD entry

There are 4 chains in PDB entry 3VRD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLU 1GLN 174
B
 GLY 2ARG 160
B
 PRO 162THR 336
B
 TYR 338GLY 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 24 helices in PDB entry 3VRD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
3 9Right-handed alpha
Helix 2
2
A
11 16Right-handed alpha
Helix 3
3
A
17 20Right-handed 310
Helix 4
4
A
33 47Right-handed alpha
Helix 5
5
A
53 59Right-handed alpha
Helix 6
6
A
62 76Right-handed alpha
Helix 7
7
A
86 88Right-handed 310
Helix 8
8
A
89 101Right-handed alpha
Helix 9
9
A
105 110Right-handed 310
Helix 10
10
A
125 138Right-handed alpha
Helix 11
11
A
144 173Right-handed alpha
Helix 12
12
B
11 25Right-handed alpha
Helix 13
13
B
44 51Right-handed alpha
Helix 14
14
B
54 57Right-handed 310
Helix 15
15
B
62 68Right-handed alpha
Helix 16
16
B
110 113Right-handed 310
Helix 17
17
B
118 123Right-handed 310
Helix 18
18
B
131 144Right-handed alpha
Helix 19
19
B
163 180Right-handed alpha
Helix 20
20
B
196 208Right-handed alpha
Helix 21
21
B
259 265Right-handed alpha
Helix 22
22
B
293 296Right-handed 310
Helix 23
23
B
304 325Right-handed alpha
Helix 24
24
B
377 401Right-handed alpha
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There are 8 sheets in PDB entry 3VRD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

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
B
71 73first strand
Strand 2
B
29 33parallel
Strand 3
B
4 8parallel
Strand 4
B
99 102parallel
Strand 5
B
289 291parallel
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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
B
39 40first strand
Strand 2
B
59 60anti-parallel
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There are 3 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
77 81first strand
Strand 2
B
86 89anti-parallel
Strand 3
B
94 96anti-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
B
106 108first strand
Strand 2
B
256 258anti-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
B
217 220first strand
Strand 2
B
184 188parallel
Strand 3
B
149 153parallel
Strand 4
B
249 252parallel
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There are 3 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
227 231first strand
Strand 2
B
236 239anti-parallel
Strand 3
B
244 246anti-parallel
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There are 3 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
333 342first strand
Strand 2
B
345 355anti-parallel
Strand 3
B
362 364anti-parallel
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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
333 342first strand
Strand 2
B
345 355anti-parallel
Strand 3
B
370 371anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il