Table 3.
Features of non-interacting regions with substantial conformational change upon protein-protein interaction
|
Protein |
B-factor |
PDB SITE record/Crystal atlas |
Crystal packing |
|
| Bound |
Unbound |
|||
|
Proteins with almost no structural change at the interface | ||||
| PIP3 kinase (O) |
Poor resolution and many missing residues |
NI |
- |
|
| HISF protein (O) |
H |
H |
Catalytic site residues not present in NIR_PBc/IR |
- |
|
UCH-L3 (O) |
Nh |
Nh |
Out of 4 active site residues, one in IR |
NIR_PBc is near IR and are rigid in unbound form, one of the symmetry-related molecules is situated ~6Å towards this region. |
| Son of Sevenless (O) |
H |
Nh |
NI |
- |
| TGF-beta (O) |
Missing residues near this region |
NI |
- |
|
| HPr kinase C-ter domain (E) |
Resolution of PDBs is 2.8 Å |
NI |
- |
|
| Cystatin (E) |
H |
H |
NI |
- |
| DH/PH domain of TRIO (O) |
Temperature factors for region under consideration abnormally high! |
NI |
- |
|
|
Actin (O) |
H |
Not so high |
4/12 important residues are present in NIR_PBc |
Region involved in dimerization in unbound form |
|
Alpha-1-antitrypsin (E) |
H |
H |
Important residues present in IR |
- |
|
TGFbeta receptor (O) |
Nh |
Nh |
3/5 of active site residues are present in NIR_PBc |
- |
|
Vitamin D binding protein (O) |
Nh |
Nh |
NI |
NIR_PBc values are close to the ones observed are IR and rigid in unbound form, one of the 4 symmetry-related molecules comes ~7Å towards this region. Another NIR_PBc value is far away from IR and is slightly mobile - the same symmetry-related molecule comes <5Å close to this region! |
|
TolB (O) |
Nh |
H |
NI |
- |
| Ran GTPase (O) |
Nh (nearby IR), H |
H, Nh |
NI |
- |
| Sporulation response factor B (O) |
Missing residues near this region |
NI |
- |
|
| Ran GTPase (O) |
H |
Nh |
One important residue present in IR |
- |
|
HEW lysozyme (A) |
Nh |
Nh |
Catalytic site residues not present in NIR_PBc/IR |
- |
| Transferrin receptor ectodoma in (O) |
Poor resolution. |
Important residues not present in IR/NIR_PBc |
- |
|
| Anthrax toxin receptor (O) |
Missing residues near this region |
NI |
- |
|
| Xylanase inhibitor (E) |
H |
H |
Catalytic site residues not present in NIR_PBc/IR |
- |
| Fab (A) |
H |
Very high |
NI |
- |
|
Complement C3 (O) |
Nh |
Nh |
Important residues are not present in NIR_PBc/IR |
- |
|
Proteins with substantial structural change at interface | ||||
|
Arf1 GTPase (O) |
Nh |
Nh |
- |
- |
| Ran GTPase (O) | Nh | Nh | Important residues are present in NIR_PBC/IR | - |