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


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 2NYD entry

There are 2 chains in PDB entry 2NYD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ASP -1ILE 366
B
 ALA -3ILE 366
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 25 helices in PDB entry 2NYD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
2 14Right-handed alpha
Helix 2
2
A
15 19Right-handed 310
Helix 3
3
A
46 57Right-handed alpha
Helix 4
4
A
79 90Right-handed alpha
Helix 5
5
A
98 103Right-handed alpha
Helix 6
6
A
107 116Right-handed alpha
Helix 7
7
A
205 215Right-handed alpha
Helix 8
8
A
250 261Right-handed alpha
Helix 9
9
A
289 296Right-handed alpha
Helix 10
10
A
307 317Right-handed alpha
Helix 11
11
A
325 330Right-handed 310
Helix 12
12
A
331 347Right-handed alpha
Helix 13
13
B
2 14Right-handed alpha
Helix 14
14
B
15 19Right-handed 310
Helix 15
15
B
46 57Right-handed alpha
Helix 16
16
B
78 90Right-handed alpha
Helix 17
17
B
98 103Right-handed alpha
Helix 18
18
B
107 116Right-handed alpha
Helix 19
19
B
142 154Right-handed alpha
Helix 20
20
B
206 218Right-handed alpha
Helix 21
21
B
250 261Right-handed alpha
Helix 22
22
B
289 296Right-handed alpha
Helix 23
23
B
307 317Right-handed alpha
Helix 24
24
B
325 330Right-handed 310
Helix 25
25
B
331 347Right-handed alpha
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There are 6 sheets in PDB entry 2NYD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 5 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
26 29first strand
Strand 2
A
93 96anti-parallel
Strand 3
A
60 63parallel
Strand 4
A
39 42parallel
Strand 5
A
353 355parallel
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There are 7 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
119 123first strand
Strand 2
A
240 249anti-parallel
Strand 3
A
275 281anti-parallel
Strand 4
A
300 303parallel
Strand 5
A
321 323parallel
Strand 6
A
267 269anti-parallel
Strand 7
B
363 365anti-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
A
200 202first strand
Strand 2
A
126 135anti-parallel
Strand 3
A
226 237anti-parallel
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There are 7 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
364 366first strand
Strand 2
B
266 269anti-parallel
Strand 3
B
321 323anti-parallel
Strand 4
B
300 303parallel
Strand 5
B
275 281parallel
Strand 6
B
240 249anti-parallel
Strand 7
B
119 123anti-parallel
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There are 5 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
26 29first strand
Strand 2
B
93 96anti-parallel
Strand 3
B
60 63parallel
Strand 4
B
39 42parallel
Strand 5
B
353 355parallel
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There are 4 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
161 167first strand
Strand 2
B
193 203anti-parallel
Strand 3
B
126 138anti-parallel
Strand 4
B
225 237anti-parallel
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