464 Subject Index
major groove (contd)
agents (contd)
TATA-binding protein, TBP 395
electrostatic potential 254
protein binding
-helix orientation 394
structure DNA & RNA 26, 255
Temozolomide alkylation in 308
tRNA acceptor stem
class II synthetase binding 420
width 29, 384, 405
manipulative proteins
DNA helicases 413
DNA pumps 413–415
DNA topoisomerases 416
Markiewicz reagent
synthetic use 85
mass spectrometry 449–451
electrospray ionisation
ribosome analysis 451–452
electrospray ionisation, ESMS
large oligonucleotide
analysis 450–452
matrix-assisted laser desorption
time-of-flight, MALDI-TOF
small oligonucleotide mass
determination 450–451
maturase protein
group II intron product 282
McGhee von Hippel relationship
DNA ligand binding 372
melting temperature, Tm
deconvolution of complex curve 428
DNA denaturation 64, 65, 179
6-mercaptopurine
anti-cancer agent 126
Meselson, M.
restriction enzymes 8
metaphosphate
hypothetical phosphorylation
species 106
methotrexate
anti-cancer agent 127
2 -O-methylnucleosides
in rRNA 271
sequence-specific modification
of RNA 282
structure 98, 99
microarrays
detection of DNA sequences 184, 187
microcalorimetry 443–446
differential scanning, DSC
DNA phase transitions 444–446
isothermal titration, ITC
DNA-ligand binding 444–445
transition temperature, Tm 445
microRNA, miRNA
RNA interference &
processing 197, 263, 283
microsatellite
molecular markers 222
microscopy 446–449
atomic force microscopy
contact, tapping, non-contact
modes 447–448
electron microscopy
cryogenic EM, cryo EM 446
scanning EM 446
transmission EM 446
scanning probe microscopy, SPM
scanning force microscope, SFM 447
scanning tunneling microscope,
STM 447
Miescher, F.
nuclein 2
minisatellites
DNA fingerprinting 181
minor groove
cation binding 347
-helix binding expansion 394
ligand binding features 361
mitomycin binding 310
nucleosomal DNA
alignment 409
3-MeAde DNA glycosylase repair 328
rRNA packing 260
sequence-dependent width 362
structure 26, 255
tRNA acceptor stem
class I synthetase binding 420
width 29, 347, 384
minor groove agents
ligand binding 311–313
minor groove binding
distamycin A 361–364
electrostatic potential &
base composition 361
Hoechst 33258 366–370
isohelical ligands 361, 362
netropsin 361, 362, 364
polyamide dimers 366
pyrrole, furan, imidazole,
benzene rings 361
sequence-dependent drugs 362, 368
minor groove narrowing
tomaymycin 312
mitochondria
eukaryotic plastids 218
Mitsunobu reaction
nucleoside synthesis 91
modified base
lysidine 271, 272
O^6 -methylguanine 308
pseudouridine 271, 272
queuosine 272
RNA 271, 272
modified nucleoside
2 -O-methyl groups 271
5-methylcytidine 272
N^4 -hydroxy-2-deoxycytidine 298modified oligonucleotide
backbone modification 160
biotinylation 159
boranophosphates 162
dithioate linkages 161
2 -5linkage 162
linkers 159
locked nucleic acids, LNA 163
methylphosphonate linkages 161
2 -O-methyl ribose 162
peptide nucleic acids, PNA 163
phosphoramidates 162
phosphorothioates 160
Rp/Spphosphorothioate linkage 160
SELEX 202
streptavidine 159
synthesis with modified bases 158
terminal modifications 159
modified pyrimidine 2-deoxyribo-
nucleoside BVDU 134
idoxuridine 134
5-substituted 134
molecular marker
DNA mapping 222
restriction fragment length
polymorphisms, RFLPs 222
molecular modelling 451–454
mesoscopic modelling 454
molecular dynamics
DNA flexibility 454
DNA microcircles 453–454
molecular mechanics 453
mRNA
capping 263
‘cap’ structure 111, 115–116
eukaryotic pre-mRNA 264, 265
recoding 274, 288
RNA viral 220
RNA processing 263
RNA translation 273
trimethylG cap 263
mutagenesis
bisulfite deamination 298, 299
bypass mutagenesis 332
deamination bypass 333
formaldehyde 300
hydroxylamine 298, 299
nitrous acid deamination 300
photochemical deamination 317
random 191
site-specific in vitro 188
tautomer bypass 333
mutation
DNA damage 325
plus 1 frameshifting 288
point mutation 222neplanocin A
synthesis 89, 90
netropsin