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


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 2DER entry

There are 4 chains in PDB entry 2DER (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
C
 G 1 C 74
D
 C 3 G 73
A
 ALA 5VAL 368
B
 THR 4VAL 368
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
Back to top of page

There are 22 helices in PDB entry 2DER. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
18 27Right-handed alpha
Helix 2
2
A
44 66Right-handed alpha
Helix 3
3
A
74 82Right-handed alpha
Helix 4
4
A
82 92Right-handed alpha
Helix 5
5
A
97 106Right-handed alpha
Helix 6
6
A
109 118Right-handed alpha
Helix 7
7
A
151 156Right-handed 310
Helix 8
8
A
159 165Right-handed alpha
Helix 9
9
A
169 173Right-handed 310
Helix 10
10
A
174 185Right-handed alpha
Helix 11
11
A
205 212Right-handed alpha
Helix 12
12
B
16 27Right-handed alpha
Helix 13
13
B
51 65Right-handed alpha
Helix 14
14
B
76 92Right-handed alpha
Helix 15
15
B
97 106Right-handed alpha
Helix 16
16
B
109 118Right-handed alpha
Helix 17
17
B
146 150Right-handed 310
Helix 18
18
B
151 156Right-handed 310
Helix 19
19
B
159 165Right-handed alpha
Helix 20
20
B
169 173Right-handed 310
Helix 21
21
B
174 184Right-handed alpha
Helix 22
22
B
197 213Right-handed alpha
Back to top of page

There are 7 sheets in PDB entry 2DER. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G,

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
69 73first strand
Strand 2
A
31 38parallel
Strand 3
A
7 11parallel
Strand 4
A
123 125parallel
Strand 5
A
166 167parallel
Back to list of sheets
Back to top of page

There are 9 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
131 135first strand
Strand 2
A
138 142anti-parallel
Strand 3
A
353 365anti-parallel
Strand 4
A
345 350anti-parallel
Strand 5
A
303 309anti-parallel
Strand 6
A
317 322anti-parallel
Strand 7
A
329 337anti-parallel
Strand 8
A
284 294anti-parallel
Strand 9
A
353 365anti-parallel
Back to list of sheets
Back to top of page

There are 4 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
228 231first strand
Strand 2
A
220 223anti-parallel
Strand 3
A
270 275parallel
Strand 4
A
259 265anti-parallel
Back to list of sheets
Back to top of page

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
69 73first strand
Strand 2
B
31 38parallel
Strand 3
B
7 11parallel
Strand 4
B
123 125parallel
Strand 5
B
166 167parallel
Back to list of sheets
Back to top of page

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
131 135first strand
Strand 2
B
138 142anti-parallel
Back to list of sheets
Back to top of page

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
228 231first strand
Strand 2
B
220 223anti-parallel
Strand 3
B
270 275parallel
Strand 4
B
259 265anti-parallel
Back to list of sheets
Back to top of page

There are 7 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
284 294first strand
Strand 2
B
329 337anti-parallel
Strand 3
B
317 322anti-parallel
Strand 4
B
303 309anti-parallel
Strand 5
B
345 350anti-parallel
Strand 6
B
353 365anti-parallel
Strand 7
B
284 294anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il