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


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 5APM entry

There are 3 chains in PDB entry 5APM (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLN 24ALA 221
B
 THR 20GLN 256
C
 LEU 20GLU 282
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 9 helices in PDB entry 5APM. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
69 74Right-handed alpha
Helix 2
2
A
142 146Right-handed 310
Helix 3
3
B
127 133Right-handed alpha
Helix 4
4
B
172 177Right-handed alpha
Helix 5
5
C
20 36Right-handed alpha
Helix 6
6
C
61 65Right-handed 310
Helix 7
7
C
142 147Right-handed alpha
Helix 8
8
C
154 160Right-handed alpha
Helix 9
9
C
200 205Right-handed alpha
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There are 9 sheets in PDB entry 5APM. Click on sheet of interest to get list of strands forming it: AA, AB, BA, BB, BC, CA, CB, CC, CD,

There are 3 strands in AA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
82 83first strand
Strand 2
A
193 199anti-parallel
Strand 3
A
116 121anti-parallel
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There are 3 strands in AB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
151 152first strand
Strand 2
A
128 132anti-parallel
Strand 3
A
182 184anti-parallel
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There are 3 strands in BA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
83 84first strand
Strand 2
B
232 239anti-parallel
Strand 3
B
142 149anti-parallel
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There are 2 strands in BB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
138 139first strand
Strand 2
B
244 245anti-parallel
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There are 3 strands in BC sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
181 184first strand
Strand 2
B
156 163anti-parallel
Strand 3
B
212 217anti-parallel
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There are 2 strands in CA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
73 74first strand
Strand 2
C
77 78anti-parallel
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There are 4 strands in CB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
119 120first strand
Strand 2
C
264 268anti-parallel
Strand 3
C
167 172anti-parallel
Strand 4
C
219 224anti-parallel
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There are 4 strands in CC sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
135 139first strand
Strand 2
C
241 248anti-parallel
Strand 3
C
182 189anti-parallel
Strand 4
C
210 213anti-parallel
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There are 3 strands in CD sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
233 234first strand
Strand 2
C
162 164anti-parallel
Strand 3
C
273 275anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il