Analysis of interatomic Contacts of Structural Units in PDB entry:
2D39


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 2D39 entry

There are 3 chains in PDB entry 2D39 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLU 113ALA 326
B
 PHE 114ALA 326
C
 PRO 115ALA 326
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 18 helices in PDB entry 2D39. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
117 124Right-handed alpha
Helix 2
2
A
149 153Right-handed 310
Helix 3
3
A
171 178Right-handed alpha
Helix 4
4
A
189 199Right-handed alpha
Helix 5
5
A
227 231Right-handed 310
Helix 6
6
A
269 274Right-handed alpha
Helix 7
7
B
117 124Right-handed alpha
Helix 8
8
B
149 153Right-handed 310
Helix 9
9
B
171 178Right-handed alpha
Helix 10
10
B
189 198Right-handed alpha
Helix 11
11
B
227 231Right-handed 310
Helix 12
12
B
269 274Right-handed alpha
Helix 13
13
C
117 124Right-handed alpha
Helix 14
14
C
149 153Right-handed 310
Helix 15
15
C
171 178Right-handed alpha
Helix 16
16
C
189 198Right-handed alpha
Helix 17
17
C
227 231Right-handed 310
Helix 18
18
C
269 274Right-handed alpha
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There are 11 sheets in PDB entry 2D39. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K,

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
130 135first strand
Strand 2
A
141 147anti-parallel
Strand 3
A
155 161anti-parallel
Strand 4
A
186 187anti-parallel
Strand 5
A
179 180anti-parallel
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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
130 135first strand
Strand 2
A
141 147anti-parallel
Strand 3
A
155 161anti-parallel
Strand 4
A
318 325anti-parallel
Strand 5
A
202 209anti-parallel
Strand 6
A
215 220anti-parallel
Strand 7
A
239 241anti-parallel
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There are 2 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
223 225first strand
Strand 2
A
234 236anti-parallel
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There are 2 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
304 305first strand
Strand 2
A
315 316anti-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
130 135first strand
Strand 2
B
141 147anti-parallel
Strand 3
B
155 161anti-parallel
Strand 4
B
186 187anti-parallel
Strand 5
B
179 180anti-parallel
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There are 7 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
130 135first strand
Strand 2
B
141 147anti-parallel
Strand 3
B
155 161anti-parallel
Strand 4
B
318 325anti-parallel
Strand 5
B
202 209anti-parallel
Strand 6
B
215 220anti-parallel
Strand 7
B
239 241anti-parallel
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There are 2 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
223 225first strand
Strand 2
B
234 236anti-parallel
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There are 2 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
304 305first strand
Strand 2
B
315 316anti-parallel
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There are 5 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
130 135first strand
Strand 2
C
141 147anti-parallel
Strand 3
C
155 161anti-parallel
Strand 4
C
186 187anti-parallel
Strand 5
C
179 180anti-parallel
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There are 7 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
130 135first strand
Strand 2
C
141 147anti-parallel
Strand 3
C
155 161anti-parallel
Strand 4
C
318 325anti-parallel
Strand 5
C
202 209anti-parallel
Strand 6
C
215 225anti-parallel
Strand 7
C
234 236anti-parallel
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There are 2 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
304 309first strand
Strand 2
C
312 316anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il