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 5NND entry
Note, this PDB entry contains
modified residue(s) PHOSPHOSERINE (SEP) . This residue is
treated as heterogroup (ligand) both in the
PDB entry and in LPC/CSU analysis.
There are 8 chains in PDB entry 5NND
(CSU analysis of residue contacts immediately below table)
| Chain ID |
Initial residue | Terminal residue |
|---|
A
|
SER 42 | PRO 165 |
B
|
SER 42 | PRO 165 |
D
|
ALA 7 | ARG 8 |
D
|
THR 11 | GLY 13 |
D
|
ALA 15 | PRO 16 |
E
|
ALA 7 | ARG 8 |
E
|
THR 11 | GLY 13 |
E
|
ALA 15 | ALA 15 |
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There are 16
helices in PDB entry 5NND. Click on helix of interest for
CSU analysis.
Helix
number
| Helix
ID | Chain
ID |
Initial
residue | Terminal
residue |
Helix class |
|---|
| Helix 1 |
AA1 | A
| 60 |
69 | Right-handed alpha |
| Helix 2 |
AA2 | A
| 69 |
76 | Right-handed alpha |
| Helix 3 |
AA3 | A
| 80 |
84 | Right-handed 310 |
| Helix 4 |
AA4 | A
| 88 |
93 | Right-handed alpha |
| Helix 5 |
AA5 | A
| 96 |
101 | Right-handed alpha |
| Helix 6 |
AA6 | A
| 106 |
116 | Right-handed alpha |
| Helix 7 |
AA7 | A
| 121 |
140 | Right-handed alpha |
| Helix 8 |
AA8 | A
| 144 |
162 | Right-handed alpha |
| Helix 9 |
AA9 | B
| 60 |
69 | Right-handed alpha |
| Helix 10 |
AB1 | B
| 69 |
76 | Right-handed alpha |
| Helix 11 |
AB2 | B
| 80 |
84 | Right-handed 310 |
| Helix 12 |
AB3 | B
| 96 |
101 | Right-handed alpha |
| Helix 13 |
AB4 | B
| 106 |
116 | Right-handed alpha |
| Helix 14 |
AB5 | B
| 121 |
140 | Right-handed alpha |
| Helix 15 |
AB6 | B
| 144 |
162 | Right-handed alpha |
| Helix 16 |
AB7 | D
| 8 |
12 | Right-handed 310 |
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There are no sheets in PDB entry
5NND
Please mail
questions/suggestions concerning this page
to
Vladimir.Sobolev@weizmann.
ac.il