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


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 3MFD entry

There are 2 chains in PDB entry 3MFD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ALA 28ASN 353
B
 ALA 28GLU 352
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 3MFD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
58 61Right-handed 310
Helix 2
2
A
62 73Right-handed alpha
Helix 3
3
A
83 89Right-handed alpha
Helix 4
4
A
104 115Right-handed alpha
Helix 5
5
A
116 129Right-handed alpha
Helix 6
6
A
130 146Right-handed alpha
Helix 7
7
A
167 179Right-handed alpha
Helix 8
8
A
181 189Right-handed alpha
Helix 9
9
A
206 211Right-handed alpha
Helix 10
10
A
251 266Right-handed alpha
Helix 11
11
A
279 282Right-handed 310
Helix 12
12
A
302 306Right-handed alpha
Helix 13
13
A
319 324Right-handed alpha
Helix 14
14
A
325 328Right-handed 310
Helix 15
15
B
58 61Right-handed 310
Helix 16
16
B
62 73Right-handed alpha
Helix 17
17
B
83 88Right-handed alpha
Helix 18
18
B
104 115Right-handed alpha
Helix 19
19
B
116 129Right-handed alpha
Helix 20
20
B
130 146Right-handed alpha
Helix 21
21
B
167 179Right-handed alpha
Helix 22
22
B
181 189Right-handed alpha
Helix 23
23
B
206 211Right-handed alpha
Helix 24
24
B
251 266Right-handed alpha
Helix 25
25
B
278 282Right-handed 310
Helix 26
26
B
302 307Right-handed alpha
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There are 10 sheets in PDB entry 3MFD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J,

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
46 50first strand
Strand 2
A
35 40anti-parallel
Strand 3
A
240 247anti-parallel
Strand 4
A
228 237anti-parallel
Strand 5
A
216 224anti-parallel
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There are 2 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
79 81first strand
Strand 2
A
101 103anti-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
192 194first strand
Strand 2
A
201 203anti-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
267 273first strand
Strand 2
A
296 301anti-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
A
276 277first strand
Strand 2
A
290 292anti-parallel
Strand 3
A
342 351anti-parallel
Strand 4
A
331 339anti-parallel
Strand 5
A
308 314anti-parallel
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There are 5 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
46 50first strand
Strand 2
B
35 40anti-parallel
Strand 3
B
240 247anti-parallel
Strand 4
B
228 237anti-parallel
Strand 5
B
216 224anti-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
79 81first strand
Strand 2
B
101 103anti-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
192 194first strand
Strand 2
B
201 203anti-parallel
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There are 2 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
267 273first strand
Strand 2
B
296 301anti-parallel
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There are 4 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
290 291first strand
Strand 2
B
342 351anti-parallel
Strand 3
B
333 339anti-parallel
Strand 4
B
308 313anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il