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


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 3VYP entry

There are 2 chains in PDB entry 3VYP (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 LEU 141ALA 408
B
 THR 142ASN 405
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 12 helices in PDB entry 3VYP. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
180 187Right-handed alpha
Helix 2
2
A
306 309Right-handed 310
Helix 3
3
A
339 342Right-handed 310
Helix 4
4
A
358 369Right-handed alpha
Helix 5
5
A
392 396Right-handed 310
Helix 6
6
A
397 404Right-handed alpha
Helix 7
7
B
180 187Right-handed alpha
Helix 8
8
B
306 309Right-handed 310
Helix 9
9
B
339 342Right-handed 310
Helix 10
10
B
358 369Right-handed alpha
Helix 11
11
B
392 396Right-handed 310
Helix 12
12
B
397 404Right-handed alpha
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There are 9 sheets in PDB entry 3VYP. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I,

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
151 152first strand
Strand 2
A
238 239parallel
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There are 4 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
154 157first strand
Strand 2
A
170 174anti-parallel
Strand 3
A
207 212anti-parallel
Strand 4
A
198 202anti-parallel
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There are 4 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
163 164first strand
Strand 2
A
243 249parallel
Strand 3
A
221 226anti-parallel
Strand 4
A
188 193anti-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
A
271 277first strand
Strand 2
A
263 268anti-parallel
Strand 3
A
253 258anti-parallel
Strand 4
A
374 378parallel
Strand 5
A
290 293anti-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
A
297 304first strand
Strand 2
A
319 327anti-parallel
Strand 3
A
334 337anti-parallel
Strand 4
A
355 357parallel
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There are 4 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
154 157first strand
Strand 2
B
170 174anti-parallel
Strand 3
B
207 212anti-parallel
Strand 4
B
198 202anti-parallel
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There are 4 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
163 164first strand
Strand 2
B
243 249parallel
Strand 3
B
221 226anti-parallel
Strand 4
B
188 193anti-parallel
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There are 5 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
271 277first strand
Strand 2
B
263 268anti-parallel
Strand 3
B
253 258anti-parallel
Strand 4
B
374 378parallel
Strand 5
B
290 293anti-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
297 304first strand
Strand 2
B
319 327anti-parallel
Strand 3
B
334 337anti-parallel
Strand 4
B
355 357parallel
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