Analysis of interatomic Contacts of Structural Units in PDB entry:
5Y1D


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 5Y1D entry

There are 2 chains in PDB entry 5Y1D (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1GLU 308
B
 MET 1GLU 308
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 28 helices in PDB entry 5Y1D. 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 24Right-handed alpha
Helix 2
AA2
A
50 62Right-handed alpha
Helix 3
AA3
A
73 80Right-handed alpha
Helix 4
AA4
A
80 103Right-handed alpha
Helix 5
AA5
A
113 115Right-handed 310
Helix 6
AA6
A
134 155Right-handed alpha
Helix 7
AA7
A
176 178Right-handed 310
Helix 8
AA8
A
179 192Right-handed alpha
Helix 9
AA9
A
209 222Right-handed alpha
Helix 10
AB1
A
223 227Right-handed 310
Helix 11
AB2
A
242 251Right-handed alpha
Helix 12
AB3
A
263 269Right-handed alpha
Helix 13
AB4
A
277 285Right-handed alpha
Helix 14
AB5
A
291 307Right-handed alpha
Helix 15
AB6
B
9 24Right-handed alpha
Helix 16
AB7
B
50 62Right-handed alpha
Helix 17
AB8
B
73 80Right-handed alpha
Helix 18
AB9
B
80 103Right-handed alpha
Helix 19
AC1
B
113 115Right-handed 310
Helix 20
AC2
B
134 155Right-handed alpha
Helix 21
AC3
B
176 178Right-handed 310
Helix 22
AC4
B
179 192Right-handed alpha
Helix 23
AC5
B
209 222Right-handed alpha
Helix 24
AC6
B
223 227Right-handed 310
Helix 25
AC7
B
242 251Right-handed alpha
Helix 26
AC8
B
263 269Right-handed alpha
Helix 27
AC9
B
277 285Right-handed alpha
Helix 28
AD1
B
291 307Right-handed alpha
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There are 8 sheets in PDB entry 5Y1D. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 6 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
42 43first strand
Strand 2
A
28 30parallel
Strand 3
A
2 5parallel
Strand 4
A
65 68parallel
Strand 5
A
105 107parallel
Strand 6
A
158 159parallel
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There are 3 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
110 111first strand
Strand 2
A
161 163parallel
Strand 3
A
233 234parallel
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There are 3 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
165 167first strand
Strand 2
A
203 208parallel
Strand 3
A
238 241anti-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
193 196first strand
Strand 2
A
256 259parallel
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There are 6 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
42 43first strand
Strand 2
B
28 30parallel
Strand 3
B
2 5parallel
Strand 4
B
65 68parallel
Strand 5
B
105 107parallel
Strand 6
B
158 159parallel
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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
B
110 111first strand
Strand 2
B
161 163parallel
Strand 3
B
233 234parallel
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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
165 167first strand
Strand 2
B
203 208parallel
Strand 3
B
238 241anti-parallel
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There are 2 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
193 196first strand
Strand 2
B
256 259parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il