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


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 3TNF entry

There are 2 chains in PDB entry 3TNF (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
ASP 6LYS 175
B
LEU 202LYS 580
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 22 helices in PDB entry 3TNF. Click on helix of interest for CSU analysis.
Helix
number
Helix
ID
Chain
ID
Initial
residue
Terminal
residue
Helix class
Helix 1
1
A
20 31Right-handed alpha
Helix 2
2
A
67 71Right-handed 310
Helix 3
3
A
73 78Right-handed 310
Helix 4
4
A
92 98Right-handed alpha
Helix 5
5
A
98 110Right-handed alpha
Helix 6
6
A
125 129Right-handed 310
Helix 7
7
A
132 144Right-handed alpha
Helix 8
8
A
157 175Right-handed alpha
Helix 9
9
B
203 214Right-handed alpha
Helix 10
10
B
220 226Right-handed alpha
Helix 11
11
B
227 249Right-handed alpha
Helix 12
12
B
250 255Right-handed alpha
Helix 13
13
B
261 284Right-handed alpha
Helix 14
14
B
289 318Right-handed alpha
Helix 15
15
B
333 337Right-handed 310
Helix 16
16
B
368 415Right-handed alpha
Helix 17
17
B
417 449Right-handed alpha
Helix 18
18
B
464 468Right-handed 310
Helix 19
19
B
509 514Right-handed alpha
Helix 20
20
B
516 531Right-handed alpha
Helix 21
21
B
537 570Right-handed alpha
Helix 22
22
B
570 579Right-handed alpha
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There are 6 sheets in PDB entry 3TNF. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 6 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
44 52first strand
Strand 2
A
55 63anti-parallel
Strand 3
A
7 14parallel
Strand 4
A
83 89parallel
Strand 5
A
115 121parallel
Strand 6
A
146 149parallel
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There are 3 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
B
330 331first strand
Strand 2
B
322 324anti-parallel
Strand 3
B
339 341anti-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
B
345 348first strand
Strand 2
B
355 358anti-parallel
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There are 3 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
461 462first strand
Strand 2
B
452 455anti-parallel
Strand 3
B
470 473anti-parallel
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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
476 480first strand
Strand 2
B
485 489anti-parallel
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There are 2 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
492 497first strand
Strand 2
B
500 505anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il