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


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 5UPD entry

There is 1 chain in PDB entry 5UPD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 LYS 1069GLY 1285
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 5 helices in PDB entry 5UPD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
1091 1095Right-handed 310
Helix 2
AA2
A
1114 1119Right-handed alpha
Helix 3
AA3
A
1137 1142Right-handed alpha
Helix 4
AA4
A
1180 1194Right-handed alpha
Helix 5
AA5
A
1217 1222Right-handed 310
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There are 5 sheets in PDB entry 5UPD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5,

There are 2 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
1074 1075first strand
Strand 2
A
1215 1216parallel
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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
1080 1081first strand
Strand 2
A
1177 1179parallel
Strand 3
A
1208 1211anti-parallel
Strand 4
A
1201 1205anti-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
1147 1151first strand
Strand 2
A
1157 1161anti-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
A
1170 1174first strand
Strand 2
A
1240 1247anti-parallel
Strand 3
A
1230 1237anti-parallel
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There are 2 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
1223 1224first strand
Strand 2
A
1258 1259parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il