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


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 5YVD entry

There are 2 chains in PDB entry 5YVD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLY 1ARG 341
B
 GLY 1ARG 341
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 19 helices in PDB entry 5YVD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
1 13Right-handed alpha
Helix 2
AA2
A
50 60Right-handed alpha
Helix 3
AA3
A
68 75Right-handed alpha
Helix 4
AA4
A
123 130Right-handed alpha
Helix 5
AA5
A
204 213Right-handed alpha
Helix 6
AA6
A
214 222Right-handed alpha
Helix 7
AA7
A
228 233Right-handed alpha
Helix 8
AA8
A
247 256Right-handed alpha
Helix 9
AA9
A
295 305Right-handed alpha
Helix 10
AB1
B
2 13Right-handed alpha
Helix 11
AB2
B
50 60Right-handed alpha
Helix 12
AB3
B
68 75Right-handed alpha
Helix 13
AB4
B
123 129Right-handed alpha
Helix 14
AB5
B
204 213Right-handed alpha
Helix 15
AB6
B
214 222Right-handed alpha
Helix 16
AB7
B
223 227Right-handed 310
Helix 17
AB8
B
228 233Right-handed alpha
Helix 18
AB9
B
247 256Right-handed alpha
Helix 19
AC1
B
295 305Right-handed alpha
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There are 12 sheets in PDB entry 5YVD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

There are 3 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
24 27first strand
Strand 2
A
30 35anti-parallel
Strand 3
A
38 44anti-parallel
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There are 5 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
79 80first strand
Strand 2
A
115 118parallel
Strand 3
A
134 138parallel
Strand 4
A
174 178anti-parallel
Strand 5
A
148 149anti-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
86 87first strand
Strand 2
A
92 93anti-parallel
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There are 2 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
153 156first strand
Strand 2
A
159 162anti-parallel
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There are 3 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
260 263first strand
Strand 2
A
273 279anti-parallel
Strand 3
A
285 291anti-parallel
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There are 3 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
312 319first strand
Strand 2
A
322 331anti-parallel
Strand 3
A
334 340anti-parallel
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There are 3 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
24 27first strand
Strand 2
B
30 35anti-parallel
Strand 3
B
38 44anti-parallel
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There are 5 strands in AA8 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
79 80first strand
Strand 2
B
115 118parallel
Strand 3
B
134 138parallel
Strand 4
B
174 178anti-parallel
Strand 5
B
148 149anti-parallel
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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
86 87first strand
Strand 2
B
92 93anti-parallel
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There are 2 strands in AB1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
153 156first strand
Strand 2
B
159 162anti-parallel
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There are 3 strands in AB2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
260 263first strand
Strand 2
B
272 279anti-parallel
Strand 3
B
285 292anti-parallel
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There are 3 strands in AB3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
312 319first strand
Strand 2
B
322 331anti-parallel
Strand 3
B
334 340anti-parallel
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