Analysis of interatomic Contacts of Structural Units in PDB entry:
2NQD


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 2NQD entry

There are 2 chains in PDB entry 2NQD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 SER 2ASN 110
B
 GLU 1VAL 220
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 12 helices in PDB entry 2NQD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
6 10Right-handed 310
Helix 2
2
A
29 33Right-handed 310
Helix 3
3
B
8 11Right-handed 310
Helix 4
4
B
24 43Right-handed alpha
Helix 5
5
B
49 57Right-handed alpha
Helix 6
6
B
58 61Right-handed 310
Helix 7
7
B
63 67Right-handed 310
Helix 8
8
B
69 81Right-handed alpha
Helix 9
9
B
101 103Right-handed 310
Helix 10
10
B
118 130Right-handed alpha
Helix 11
11
B
140 145Right-handed alpha
Helix 12
12
B
207 211Right-handed 310
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There are 6 sheets in PDB entry 2NQD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 4 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
4 5first strand
Strand 2
A
21 28parallel
Strand 3
A
69 77anti-parallel
Strand 4
A
51 58anti-parallel
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There are 4 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
13 15first strand
Strand 2
A
102 109parallel
Strand 3
A
81 90anti-parallel
Strand 4
A
35 37anti-parallel
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There are 3 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
5 6first strand
Strand 2
B
163 172anti-parallel
Strand 3
B
132 136anti-parallel
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There are 5 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
5 6first strand
Strand 2
B
163 172anti-parallel
Strand 3
B
181 186anti-parallel
Strand 4
B
198 202anti-parallel
Strand 5
B
150 151parallel
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There are 2 strands in E 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
105 107anti-parallel
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There are 2 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
112 114first strand
Strand 2
B
216 218anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il