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


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 3VYF entry

There are 2 chains in PDB entry 3VYF (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 LEU 1ARG 340
B
 LEU 1ARG 340
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 3VYF. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
55 60Right-handed alpha
Helix 2
2
A
65 69Right-handed 310
Helix 3
3
A
115 120Right-handed alpha
Helix 4
4
A
132 140Right-handed 310
Helix 5
5
A
142 149Right-handed alpha
Helix 6
6
A
182 184Right-handed 310
Helix 7
7
A
235 247Right-handed alpha
Helix 8
8
A
260 265Right-handed 310
Helix 9
9
A
280 285Right-handed alpha
Helix 10
10
A
316 321Right-handed alpha
Helix 11
11
B
55 61Right-handed alpha
Helix 12
12
B
65 69Right-handed 310
Helix 13
13
B
115 120Right-handed alpha
Helix 14
14
B
132 140Right-handed 310
Helix 15
15
B
142 150Right-handed alpha
Helix 16
16
B
182 184Right-handed 310
Helix 17
17
B
235 247Right-handed alpha
Helix 18
18
B
260 265Right-handed 310
Helix 19
19
B
280 285Right-handed alpha
Helix 20
20
B
316 321Right-handed alpha
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There are 12 sheets in PDB entry 3VYF. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L,

There are 9 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
78 83first strand
Strand 2
A
86 99anti-parallel
Strand 3
A
19 26anti-parallel
Strand 4
A
8 15anti-parallel
Strand 5
A
174 178anti-parallel
Strand 6
A
157 162anti-parallel
Strand 7
A
323 328anti-parallel
Strand 8
A
333 339anti-parallel
Strand 9
A
186 194anti-parallel
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There are 13 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
78 83first strand
Strand 2
A
86 99anti-parallel
Strand 3
A
102 113anti-parallel
Strand 4
A
44 47parallel
Strand 5
A
126 129anti-parallel
Strand 6
A
31 38parallel
Strand 7
A
19 26anti-parallel
Strand 8
A
8 15anti-parallel
Strand 9
A
174 178anti-parallel
Strand 10
A
157 162anti-parallel
Strand 11
A
323 328anti-parallel
Strand 12
A
333 339anti-parallel
Strand 13
A
186 194anti-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
A
202 205first strand
Strand 2
A
221 225anti-parallel
Strand 3
A
313 315parallel
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There are 4 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
214 216first strand
Strand 2
A
207 210anti-parallel
Strand 3
A
268 271anti-parallel
Strand 4
A
276 279anti-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
A
232 234first strand
Strand 2
A
300 302parallel
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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
A
249 250first strand
Strand 2
A
255 258anti-parallel
Strand 3
A
295 297anti-parallel
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There are 6 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
8 11first strand
Strand 2
B
174 178anti-parallel
Strand 3
B
157 162anti-parallel
Strand 4
B
323 328anti-parallel
Strand 5
B
333 339anti-parallel
Strand 6
B
186 194anti-parallel
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There are 8 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
13 15first strand
Strand 2
B
19 26anti-parallel
Strand 3
B
31 38anti-parallel
Strand 4
B
126 129parallel
Strand 5
B
44 47anti-parallel
Strand 6
B
102 113parallel
Strand 7
B
86 99anti-parallel
Strand 8
B
73 83anti-parallel
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There are 4 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
13 15first strand
Strand 2
B
19 26anti-parallel
Strand 3
B
86 99anti-parallel
Strand 4
B
73 83anti-parallel
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There are 5 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
202 205first strand
Strand 2
B
221 225anti-parallel
Strand 3
B
313 315parallel
Strand 4
B
232 234anti-parallel
Strand 5
B
300 302parallel
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There are 4 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
213 216first strand
Strand 2
B
208 210anti-parallel
Strand 3
B
268 272anti-parallel
Strand 4
B
275 279anti-parallel
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There are 3 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
249 250first strand
Strand 2
B
255 258anti-parallel
Strand 3
B
295 297anti-parallel
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