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


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 5VPK entry

There are 3 chains in PDB entry 5VPK (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 THR 1MET 223
B
 THR 1MET 223
C
 THR 1MET 223
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 25 helices in PDB entry 5VPK. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
17 21Right-handed alpha
Helix 2
AA2
A
34 53Right-handed alpha
Helix 3
AA3
A
59 67Right-handed alpha
Helix 4
AA4
A
76 88Right-handed alpha
Helix 5
AA5
A
91 95Right-handed 310
Helix 6
AA6
A
124 136Right-handed alpha
Helix 7
AA7
A
147 153Right-handed alpha
Helix 8
AA8
A
210 214Right-handed 310
Helix 9
AA9
B
17 21Right-handed alpha
Helix 10
AB1
B
34 53Right-handed alpha
Helix 11
AB2
B
59 67Right-handed alpha
Helix 12
AB3
B
70 74Right-handed 310
Helix 13
AB4
B
76 88Right-handed alpha
Helix 14
AB5
B
91 95Right-handed 310
Helix 15
AB6
B
124 136Right-handed alpha
Helix 16
AB7
B
147 153Right-handed alpha
Helix 17
AB8
B
210 214Right-handed 310
Helix 18
AB9
C
17 21Right-handed alpha
Helix 19
AC1
C
34 53Right-handed alpha
Helix 20
AC2
C
59 67Right-handed alpha
Helix 21
AC3
C
76 88Right-handed alpha
Helix 22
AC4
C
91 95Right-handed 310
Helix 23
AC5
C
124 136Right-handed alpha
Helix 24
AC6
C
147 153Right-handed alpha
Helix 25
AC7
C
210 214Right-handed 310
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There are 9 sheets in PDB entry 5VPK. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9,

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
15 16first strand
Strand 2
A
169 181anti-parallel
Strand 3
A
139 145anti-parallel
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There are 4 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
15 16first strand
Strand 2
A
169 181anti-parallel
Strand 3
A
184 190anti-parallel
Strand 4
A
202 206anti-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
116 119first strand
Strand 2
A
219 222anti-parallel
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There are 3 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
15 16first strand
Strand 2
B
169 181anti-parallel
Strand 3
B
139 145anti-parallel
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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
15 16first strand
Strand 2
B
169 181anti-parallel
Strand 3
B
184 190anti-parallel
Strand 4
B
202 206anti-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
B
116 119first strand
Strand 2
B
219 222anti-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
C
15 16first strand
Strand 2
C
169 181anti-parallel
Strand 3
C
139 145anti-parallel
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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
15 16first strand
Strand 2
C
169 181anti-parallel
Strand 3
C
184 190anti-parallel
Strand 4
C
202 206anti-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
C
116 119first strand
Strand 2
C
219 222anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il