OmpA (E. coli) transmembrane domain (tOmpA) (cont.)
quenching of tryptophan fluorescence
by FAPol NBD , 298
SAPol-assisted folding, 348
SEC analysis of tOmpA/A8-35 complexes, 447
in the presence and absence of detergent, 418, 419
in the presence and absence of free A8-35, 418, 419
Stokes radius of tOmpA/A8-35 complexes, 279
thermostability of tOmpA/SAPol complexes, 475, 476
2D NMR spectra in A8-35 vs. di-C 6 -PC, 465
2D NMR spectra of tOmpA/A8-35 complexes, 465
2D NMR spectra of tOmpA/SAPol complexes, 465
OmpA (E. coli, full length)
APol-assisted folding, 340, 347–348
APol-assisted folding, thermodynamic analysis,
349–350
CD spectra before and after folding in A8-35 vs.
LDAO, 391
mechanism of stabilization by A8-35, 294
transfer from A8-35 to black lipid films, 308, 309
OmpA (K. pneumoniae) transmembrane domain
(Kp-tOmpA)
contacts with A8-35 mapped by NMR, 276, 472
2D NMR spectra of Kp-tOmpA/A8-35 complexes, 465
OmpF/A8-75 complexes
separation from free A8-75 particles by SGSV
fractionation, 413, 414
SGSV analysis, 413
OmpII*, see OmpA (E. coli)
OmpT (E. coli)
APol-assisted folding, 340, 348, 349
comparative ESI-MS analyses of various OmpT/APol
complexes, 639
comparison of DDM- and A8-35-covered surfaces by
fast photochemical oxidation coupled to MS, 283
ESI-MS analyses of OmpT/A8-35 complexes, 637
FPOP in A8-35 vs. DDM, 641, 642
protease activity following trapping with various
APols, 289
OmpX, 274
comparison of NMR spectra in NAPol vs. A8-35, 478
dynamics in NDs, 114
dynamics in various environments using principal
component analysis, 304
dynamics of the β-barrel in A8-35 vs. di-C 6 -PC, 483
fluctuations of the protein backbone in a membrane, a
detergent, or an APol environment, 303
MD simulation of OmpX/A8-35 complexes, 303
NMR studies in NDs vs. detergents, 117
NMR studies of OmpX/NAPol complexes, 477, 478
2D NMR spectra in A8-35 vs. di-C 6 -PC, 465
2D NMR spectra in NAPols, 465, 477
OmpX/A8-35 complexes
accessibility of OmpX surface to a paramagnetic agent,
283, 471, 472
accessibility of TM surface probed by
1
H/
2
H exchange
kinetics, 283
comparison of surface accessibility from NMR and
MD data, 286
composition, 273
contacts between A8-35 and aromatic residues, 472
determination of rotational correlation time by solution
NMR, 422–423
dynamics of the β-barrel in A8-35 vs. di-C 6 -PC, 483
dynamics of the β-barrel studied by NMR, 483–485
1
H/
2
H exchange studied by NMR, 483–485
intermolecular contacts mapped by heteronuclear
dipole-to-dipole cross-relaxation, 470
intermolecular contacts mapped by NMR, 472
intermolecular contacts probed by MD, 277
MD simulations, 283, 284, 303
rotational correlation time, 467
solvent accessibility, 286
2D NMR spectra, 465
in A8-35 vs. di-C 6 -PC, 465, 466
in A8-35 vs. NAPol, 478
OmpX/A8-35 vs. OmpX/di-C 6 -PC complexes
MD simulations, 284
2D NMR spectra, 466
Opella, S.J., 103
Opioid GPCR, μengineering a water-soluble version, 88
ND-trapped, 116
OprM
as a target for αRep selection using BAPol, 605
as a target for αRep selection using BNAPol, 605
Outer bacterial membrane, 4
Outer membrane phospholipase A (OmpLA)
refolding in F 6 OM, 132
stabilization by DIBMA, 164
Outer membrane protein F (OmpF), 258
aggregation of OmpF/A8-35 complexes upon free
APol depletion, 257
dissociation rates of various surfactants from
immobilized OmpF, 258
NS EM study of OmpF/A8-35 complexes in trimeric
and aggregated states, 557, 559, 560
organization of bound detergent, 68, 69
3D structure, 19, 20
trapping with A8-35, effect of mass ratio and order
of addition, 255
Overduin, M., 260
Overproducing MPs
for NMR studies, 455
Oxygen-evolving photosynthesis, 10
P
PA, see Phosphatidic acid (PA)
PAA, see Poly(acrylic acid)
PagP, see Lipid A palmitoyl transferase (PagP)
Palczewski, K., 86
Passive diffusion, 8
Paulsen, C.E, 583
pb5, 289
PBP2/PBP2a penicillin-binding complex, 260
PC, see Phosphatidylcholine (PC)
PC-APols, see Phosphorylcholine-based APols
(PC-APols)
702
Index
quenching of tryptophan fluorescence
by FAPol NBD , 298
SAPol-assisted folding, 348
SEC analysis of tOmpA/A8-35 complexes, 447
in the presence and absence of detergent, 418, 419
in the presence and absence of free A8-35, 418, 419
Stokes radius of tOmpA/A8-35 complexes, 279
thermostability of tOmpA/SAPol complexes, 475, 476
2D NMR spectra in A8-35 vs. di-C 6 -PC, 465
2D NMR spectra of tOmpA/A8-35 complexes, 465
2D NMR spectra of tOmpA/SAPol complexes, 465
OmpA (E. coli, full length)
APol-assisted folding, 340, 347–348
APol-assisted folding, thermodynamic analysis,
349–350
CD spectra before and after folding in A8-35 vs.
LDAO, 391
mechanism of stabilization by A8-35, 294
transfer from A8-35 to black lipid films, 308, 309
OmpA (K. pneumoniae) transmembrane domain
(Kp-tOmpA)
contacts with A8-35 mapped by NMR, 276, 472
2D NMR spectra of Kp-tOmpA/A8-35 complexes, 465
OmpF/A8-75 complexes
separation from free A8-75 particles by SGSV
fractionation, 413, 414
SGSV analysis, 413
OmpII*, see OmpA (E. coli)
OmpT (E. coli)
APol-assisted folding, 340, 348, 349
comparative ESI-MS analyses of various OmpT/APol
complexes, 639
comparison of DDM- and A8-35-covered surfaces by
fast photochemical oxidation coupled to MS, 283
ESI-MS analyses of OmpT/A8-35 complexes, 637
FPOP in A8-35 vs. DDM, 641, 642
protease activity following trapping with various
APols, 289
OmpX, 274
comparison of NMR spectra in NAPol vs. A8-35, 478
dynamics in NDs, 114
dynamics in various environments using principal
component analysis, 304
dynamics of the β-barrel in A8-35 vs. di-C 6 -PC, 483
fluctuations of the protein backbone in a membrane, a
detergent, or an APol environment, 303
MD simulation of OmpX/A8-35 complexes, 303
NMR studies in NDs vs. detergents, 117
NMR studies of OmpX/NAPol complexes, 477, 478
2D NMR spectra in A8-35 vs. di-C 6 -PC, 465
2D NMR spectra in NAPols, 465, 477
OmpX/A8-35 complexes
accessibility of OmpX surface to a paramagnetic agent,
283, 471, 472
accessibility of TM surface probed by
1
H/
2
H exchange
kinetics, 283
comparison of surface accessibility from NMR and
MD data, 286
composition, 273
contacts between A8-35 and aromatic residues, 472
determination of rotational correlation time by solution
NMR, 422–423
dynamics of the β-barrel in A8-35 vs. di-C 6 -PC, 483
dynamics of the β-barrel studied by NMR, 483–485
1
H/
2
H exchange studied by NMR, 483–485
intermolecular contacts mapped by heteronuclear
dipole-to-dipole cross-relaxation, 470
intermolecular contacts mapped by NMR, 472
intermolecular contacts probed by MD, 277
MD simulations, 283, 284, 303
rotational correlation time, 467
solvent accessibility, 286
2D NMR spectra, 465
in A8-35 vs. di-C 6 -PC, 465, 466
in A8-35 vs. NAPol, 478
OmpX/A8-35 vs. OmpX/di-C 6 -PC complexes
MD simulations, 284
2D NMR spectra, 466
Opella, S.J., 103
Opioid GPCR, μengineering a water-soluble version, 88
ND-trapped, 116
OprM
as a target for αRep selection using BAPol, 605
as a target for αRep selection using BNAPol, 605
Outer bacterial membrane, 4
Outer membrane phospholipase A (OmpLA)
refolding in F 6 OM, 132
stabilization by DIBMA, 164
Outer membrane protein F (OmpF), 258
aggregation of OmpF/A8-35 complexes upon free
APol depletion, 257
dissociation rates of various surfactants from
immobilized OmpF, 258
NS EM study of OmpF/A8-35 complexes in trimeric
and aggregated states, 557, 559, 560
organization of bound detergent, 68, 69
3D structure, 19, 20
trapping with A8-35, effect of mass ratio and order
of addition, 255
Overduin, M., 260
Overproducing MPs
for NMR studies, 455
Oxygen-evolving photosynthesis, 10
P
PA, see Phosphatidic acid (PA)
PAA, see Poly(acrylic acid)
PagP, see Lipid A palmitoyl transferase (PagP)
Palczewski, K., 86
Passive diffusion, 8
Paulsen, C.E, 583
pb5, 289
PBP2/PBP2a penicillin-binding complex, 260
PC, see Phosphatidylcholine (PC)
PC-APols, see Phosphorylcholine-based APols
(PC-APols)
702
Index