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


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 5NDD entry

There is 1 chain in PDB entry 5NDD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
ALA 1000LEU 359
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 30 helices in PDB entry 5NDD. Click on helix of interest for CSU analysis.
Helix
number
Helix
ID
Chain
ID
Initial
residue
Terminal
residue
Helix class
Helix 1
AA1
A
1002 1012Right-handed alpha
Helix 2
AA2
A
1038 1051Right-handed alpha
Helix 3
AA3
A
1059 1081Right-handed alpha
Helix 4
AA4
A
1084 1091Right-handed alpha
Helix 5
AA5
A
1092 1113Right-handed alpha
Helix 6
AA6
A
1114 1123Right-handed alpha
Helix 7
AA7
A
1125 1135Right-handed alpha
Helix 8
AA8
A
1136 1142Right-handed alpha
Helix 9
AA9
A
1142 1156Right-handed alpha
Helix 10
AB1
A
1158 1163Right-handed alpha
Helix 11
AB2
A
62 69Right-handed alpha
Helix 12
AB3
A
71 76Right-handed alpha
Helix 13
AB4
A
76 103Right-handed alpha
Helix 14
AB5
A
108 126Right-handed alpha
Helix 15
AB6
A
127 137Right-handed alpha
Helix 16
AB7
A
144 179Right-handed alpha
Helix 17
AB8
A
185 206Right-handed alpha
Helix 18
AB9
A
206 211Right-handed alpha
Helix 19
AC1
A
232 234Right-handed 310
Helix 20
AC2
A
235 250Right-handed alpha
Helix 21
AC3
A
251 2017Right-handed alpha
Helix 22
AC4
A
2021 2042Right-handed alpha
Helix 23
AC5
A
2054 2080Right-handed alpha
Helix 24
AC6
A
2082 2101Right-handed alpha
Helix 25
AC7
A
2101 276Right-handed alpha
Helix 26
AC8
A
278 299Right-handed alpha
Helix 27
AC9
A
300 317Right-handed alpha
Helix 28
AD1
A
322 333Right-handed alpha
Helix 29
AD2
A
335 348Right-handed alpha
Helix 30
AD3
A
348 359Right-handed alpha
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There are 2 sheets in PDB entry 5NDD. Click on sheet of interest to get list of strands forming it: AA1, AA2,

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
1014 1019first strand
Strand 2
A
1025 1028anti-parallel
Strand 3
A
1031 1034anti-parallel
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There are 2 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
215 218first strand
Strand 2
A
223 226anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il