Analysis of interatomic Contacts of Structural Units in PDB entry:
3DNF


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 3DNF entry

There are 2 chains in PDB entry 3DNF (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1ILE 281
B
 MET 1CYS 282
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 26 helices in PDB entry 3DNF. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
13 27Right-handed alpha
Helix 2
2
A
43 54Right-handed alpha
Helix 3
3
A
77 87Right-handed alpha
Helix 4
4
A
96 112Right-handed alpha
Helix 5
5
A
124 137Right-handed alpha
Helix 6
6
A
146 156Right-handed 310
Helix 7
7
A
168 183Right-handed alpha
Helix 8
8
A
194 207Right-handed alpha
Helix 9
9
A
208 210Right-handed 310
Helix 10
10
A
221 235Right-handed alpha
Helix 11
11
A
243 247Right-handed 310
Helix 12
12
A
248 253Right-handed 310
Helix 13
13
A
267 281Right-handed alpha
Helix 14
14
B
13 27Right-handed alpha
Helix 15
15
B
43 54Right-handed alpha
Helix 16
16
B
77 87Right-handed alpha
Helix 17
17
B
96 112Right-handed alpha
Helix 18
18
B
124 137Right-handed alpha
Helix 19
19
B
146 156Right-handed 310
Helix 20
20
B
168 183Right-handed alpha
Helix 21
21
B
194 207Right-handed alpha
Helix 22
22
B
208 210Right-handed 310
Helix 23
23
B
221 235Right-handed alpha
Helix 24
24
B
243 247Right-handed 310
Helix 25
25
B
248 253Right-handed 310
Helix 26
26
B
267 282Right-handed alpha
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There are 5 sheets in PDB entry 3DNF. Click on sheet of interest to get list of strands forming it: A, B, C, D, E,

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
3 6first strand
Strand 2
A
257 262parallel
Strand 3
A
212 216parallel
Strand 4
A
238 241parallel
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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
55 57first strand
Strand 2
A
34 36parallel
Strand 3
A
68 71parallel
Strand 4
A
90 93parallel
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There are 8 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
141 144first strand
Strand 2
A
115 119parallel
Strand 3
A
158 163parallel
Strand 4
A
185 189parallel
Strand 5
B
185 189anti-parallel
Strand 6
B
158 163parallel
Strand 7
B
115 119parallel
Strand 8
B
141 144parallel
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There are 4 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
3 6first strand
Strand 2
B
257 262parallel
Strand 3
B
212 216parallel
Strand 4
B
238 241parallel
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There are 4 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
55 57first strand
Strand 2
B
34 36parallel
Strand 3
B
68 71parallel
Strand 4
B
90 93parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il