Analysis of interatomic
Contacts of Structural
Units in PDB entry:
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).
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 4BMD entry
There is 1 chain in PDB entry 4BMD
(CSU analysis of residue contacts immediately below table)
| Chain ID |
Initial residue | Terminal residue |
|---|
A
|
LYS 301 | ASP 488 |
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There are 10
helices in PDB entry 4BMD. Click on helix of interest for
CSU analysis.
Helix
number
| Helix
ID | Chain
ID |
Initial
residue | Terminal
residue |
Helix class |
|---|
| Helix 1 |
1 | A
| 314 |
327 | Right-handed alpha |
| Helix 2 |
2 | A
| 350 |
354 | Right-handed 310 |
| Helix 3 |
3 | A
| 364 |
373 | Right-handed alpha |
| Helix 4 |
4 | A
| 382 |
386 | Right-handed 310 |
| Helix 5 |
5 | A
| 390 |
392 | Right-handed 310 |
| Helix 6 |
6 | A
| 393 |
398 | Right-handed alpha |
| Helix 7 |
7 | A
| 408 |
422 | Right-handed alpha |
| Helix 8 |
8 | A
| 446 |
459 | Right-handed alpha |
| Helix 9 |
9 | A
| 466 |
476 | Right-handed alpha |
| Helix 10 |
10 | A
| 482 |
485 | Right-handed 310 |
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There are
2 sheets in PDB entry 4BMD. Click on sheet of
interest to get list of strands forming it:
AA,
AB,
There are 4
strands in AA sheet. Click on strand of interest
for CSU analysis.
Strand
number
| Chain
ID |
Initial
residue | Terminal
residue |
Strand sense |
|---|
| Strand 1 |
A
| 331 |
332 | first strand |
| Strand 2 |
A
| 307 |
310 | parallel |
| Strand 3 |
A
| 342 |
345 | parallel |
| Strand 4 |
A
| 361 |
363 | parallel |
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There are 4
strands in AB sheet. Click on strand of interest
for CSU analysis.
Strand
number
| Chain
ID |
Initial
residue | Terminal
residue |
Strand sense |
|---|
| Strand 1 |
A
| 425 |
427 | first strand |
| Strand 2 |
A
| 401 |
405 | parallel |
| Strand 3 |
A
| 436 |
439 | parallel |
| Strand 4 |
A
| 462 |
465 | parallel |
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Please mail
questions/suggestions concerning this page
to
Vladimir.Sobolev@weizmann.
ac.il