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


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 5NDE entry

There are 2 chains in PDB entry 5NDE (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ASP 34ARG 316
B
 SER 32LEU 317
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 5NDE. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
82 98Right-handed alpha
Helix 2
AA2
A
110 115Right-handed alpha
Helix 3
AA3
A
116 123Right-handed alpha
Helix 4
AA4
A
131 141Right-handed alpha
Helix 5
AA5
A
144 150Right-handed alpha
Helix 6
AA6
A
154 163Right-handed alpha
Helix 7
AA7
A
174 178Right-handed 310
Helix 8
AA8
A
222 224Right-handed 310
Helix 9
AA9
A
242 249Right-handed alpha
Helix 10
AB1
A
298 315Right-handed alpha
Helix 11
AB2
B
82 98Right-handed alpha
Helix 12
AB3
B
110 115Right-handed alpha
Helix 13
AB4
B
116 123Right-handed alpha
Helix 14
AB5
B
131 141Right-handed alpha
Helix 15
AB6
B
144 150Right-handed alpha
Helix 16
AB7
B
154 164Right-handed alpha
Helix 17
AB8
B
222 224Right-handed 310
Helix 18
AB9
B
242 249Right-handed alpha
Helix 19
AC1
B
250 253Right-handed 310
Helix 20
AC2
B
298 316Right-handed alpha
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There are 4 sheets in PDB entry 5NDE. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4,

There are 8 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
36 38first strand
Strand 2
A
42 48anti-parallel
Strand 3
A
51 56anti-parallel
Strand 4
A
63 68anti-parallel
Strand 5
A
73 77anti-parallel
Strand 6
A
101 105parallel
Strand 7
A
126 130parallel
Strand 8
A
171 173parallel
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There are 5 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
179 183first strand
Strand 2
A
186 191anti-parallel
Strand 3
A
203 206anti-parallel
Strand 4
A
217 221anti-parallel
Strand 5
A
259 262parallel
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There are 8 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
36 38first strand
Strand 2
B
42 48anti-parallel
Strand 3
B
51 56anti-parallel
Strand 4
B
63 68anti-parallel
Strand 5
B
73 77anti-parallel
Strand 6
B
101 105parallel
Strand 7
B
126 130parallel
Strand 8
B
171 173parallel
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There are 5 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
179 183first strand
Strand 2
B
186 191anti-parallel
Strand 3
B
203 206anti-parallel
Strand 4
B
217 221anti-parallel
Strand 5
B
259 262parallel
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