Analysis of interatomic Contacts of Structural Units in PDB entry:
5D28


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 5D28 entry

There are 4 chains in PDB entry 5D28 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLN 21ARG 265
B
 GLN 14PRO 124
C
 GLN 5PRO 124
D
 GLN 21ARG 265
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 20 helices in PDB entry 5D28. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
24 32Right-handed alpha
Helix 2
AA2
A
117 121Right-handed 310
Helix 3
AA3
A
132 147Right-handed alpha
Helix 4
AA4
A
218 222Right-handed 310
Helix 5
AA5
B
15 28Right-handed alpha
Helix 6
AA6
B
32 37Right-handed alpha
Helix 7
AA7
B
54 66Right-handed alpha
Helix 8
AA8
B
67 71Right-handed 310
Helix 9
AA9
B
72 88Right-handed alpha
Helix 10
AB1
B
103 117Right-handed alpha
Helix 11
AB2
C
14 28Right-handed alpha
Helix 12
AB3
C
32 37Right-handed alpha
Helix 13
AB4
C
54 66Right-handed alpha
Helix 14
AB5
C
67 72Right-handed 310
Helix 15
AB6
C
73 88Right-handed alpha
Helix 16
AB7
C
103 117Right-handed alpha
Helix 17
AB8
D
24 32Right-handed alpha
Helix 18
AB9
D
117 121Right-handed 310
Helix 19
AC1
D
132 147Right-handed alpha
Helix 20
AC2
D
218 222Right-handed 310
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There are 4 sheets in PDB entry 5D28. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4,

There are 14 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
192 193first strand
Strand 2
A
228 235parallel
Strand 3
A
205 216anti-parallel
Strand 4
A
38 48anti-parallel
Strand 5
A
108 115anti-parallel
Strand 6
A
95 102anti-parallel
Strand 7
A
257 263anti-parallel
Strand 8
D
257 263anti-parallel
Strand 9
D
95 102anti-parallel
Strand 10
D
108 115anti-parallel
Strand 11
D
38 48anti-parallel
Strand 12
D
205 216anti-parallel
Strand 13
D
228 235anti-parallel
Strand 14
D
192 193parallel
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There are 10 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
195 200first strand
Strand 2
A
148 155parallel
Strand 3
A
81 92anti-parallel
Strand 4
A
70 78anti-parallel
Strand 5
A
59 64anti-parallel
Strand 6
D
59 64anti-parallel
Strand 7
D
70 78anti-parallel
Strand 8
D
81 92anti-parallel
Strand 9
D
148 155anti-parallel
Strand 10
D
195 200parallel
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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
B
39 43first strand
Strand 2
B
98 102anti-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
C
39 43first strand
Strand 2
C
98 102anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il