Analysis of interatomic Contacts of Structural Units in PDB entry:
5VYM


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 5VYM entry

There are 2 chains in PDB entry 5VYM (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ALA 0SER 225
B
 ALA 0ALA 224
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 13 helices in PDB entry 5VYM. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
9 17Right-handed alpha
Helix 2
AA2
A
27 42Right-handed alpha
Helix 3
AA3
A
70 83Right-handed alpha
Helix 4
AA4
A
109 112Right-handed 310
Helix 5
AA5
A
113 120Right-handed alpha
Helix 6
AA6
A
178 184Right-handed alpha
Helix 7
AA7
A
210 222Right-handed alpha
Helix 8
AA8
B
9 18Right-handed alpha
Helix 9
AA9
B
27 42Right-handed alpha
Helix 10
AB1
B
70 83Right-handed alpha
Helix 11
AB2
B
113 120Right-handed alpha
Helix 12
AB3
B
178 184Right-handed alpha
Helix 13
AB4
B
210 222Right-handed alpha
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There are 6 sheets in PDB entry 5VYM. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

There are 9 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
47 50first strand
Strand 2
A
4 8parallel
Strand 3
A
60 63parallel
Strand 4
A
86 90parallel
Strand 5
B
200 205parallel
Strand 6
B
190 197anti-parallel
Strand 7
B
171 177anti-parallel
Strand 8
B
140 144anti-parallel
Strand 9
B
155 156anti-parallel
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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
121 122first strand
Strand 2
B
164 165anti-parallel
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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
128 129first strand
Strand 2
B
159 160anti-parallel
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There are 9 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
155 156first strand
Strand 2
A
140 144anti-parallel
Strand 3
A
171 177anti-parallel
Strand 4
A
190 197anti-parallel
Strand 5
A
200 205anti-parallel
Strand 6
B
86 90parallel
Strand 7
B
60 63parallel
Strand 8
B
4 8parallel
Strand 9
B
47 50parallel
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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
159 160first strand
Strand 2
B
128 129anti-parallel
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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
164 165first strand
Strand 2
B
121 122anti-parallel
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