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 9R4D entry
There are 6 chains in PDB entry 9R4D
(CSU analysis of residue contacts immediately below table)
| Chain ID |
Initial residue | Terminal residue |
|---|
A
|
VAL 304 | GLN 308 |
A
|
HIS 310 | ILE 312 |
A
|
LYS 314 | ARG 319 |
A
|
LYS 321 | LEU 322 |
B
|
GLY 202 | GLU 296 |
C
|
LEU 33 | ARG 120 |
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There are 12
helices in PDB entry 9R4D. Click on helix of interest for
CSU analysis.
Helix
number
| Helix
ID | Chain
ID |
Initial
residue | Terminal
residue |
Helix class |
|---|
| Helix 1 |
AA1 | A
| 308 |
322 | Right-handed alpha |
| Helix 2 |
AA2 | B
| 207 |
211 | Right-handed 310 |
| Helix 3 |
AA3 | B
| 213 |
225 | Right-handed alpha |
| Helix 4 |
AA4 | B
| 232 |
261 | Right-handed alpha |
| Helix 5 |
AA5 | B
| 267 |
278 | Right-handed alpha |
| Helix 6 |
AA6 | B
| 280 |
282 | Right-handed 310 |
| Helix 7 |
AA7 | B
| 283 |
294 | Right-handed alpha |
| Helix 8 |
AA8 | C
| 39 |
43 | Right-handed 310 |
| Helix 9 |
AA9 | C
| 44 |
54 | Right-handed alpha |
| Helix 10 |
AB1 | C
| 63 |
91 | Right-handed alpha |
| Helix 11 |
AB2 | C
| 97 |
107 | Right-handed alpha |
| Helix 12 |
AB3 | C
| 108 |
115 | Right-handed 310 |
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There are
2 sheets in PDB entry 9R4D. Click on sheet of
interest to get list of strands forming it:
AA1,
AA2,
There are 2
strands in AA1 sheet. Click on strand of interest
for CSU analysis.
Strand
number
| Chain
ID |
Initial
residue | Terminal
residue |
Strand sense |
|---|
| Strand 1 |
B
| 230 |
231 | first strand |
| Strand 2 |
C
| 95 |
96 | parallel |
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There are 2
strands in AA2 sheet. Click on strand of interest
for CSU analysis.
Strand
number
| Chain
ID |
Initial
residue | Terminal
residue |
Strand sense |
|---|
| Strand 1 |
B
| 265 |
266 | first strand |
| Strand 2 |
C
| 60 |
61 | parallel |
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Please mail
questions/suggestions concerning this page
to
Vladimir.Sobolev@weizmann.
ac.il