Cumulative Subject Index to Volumes 290-319

663 Pages·2000·8.556 MB·English

Preface
The need for a cumulative subject index was recognized by the founding
editors of Methods in Enzymology who prepared one for Volumes I through
VI by weeding and interpolating from the entries that had been indexed in
the individual volumes. As the series developed in number and complexity,
different individuals with different backgrounds served as volume indexers.
Subsequently, the series was fortunate in having Dr. Martha G. Dennis
and Dr. Edward A. Dennis accept the challenge of digitizing the data
available from these indexes, and this effort resulted in Volumes ,33 75,
and 95, which cover Volumes 1 through .08
Although each of these three books produced with the aid of digitization
provided an appropriate cumulative index, major problems were encoun-
tered. One was time, both expensive computer time and lag time before
such efforts resulted in publication. The most important difficulty was that
the compilers were hampered by the lack of uniformity in the indexing of
the individual volumes, resulting in the need for much hand editing to
achieve a reasonable collation. The products were very decent, if uneven,
indexes that also contributed to the methodology of computerized indexing,
albeit with much delay and great expense.
This cumulative index was produced by Keith Shostak. Following a set
of established guidelines, Dr. Shostak collected and compiled the entries
from the individual volume indexes to produce the cumulative index. Since
there is a tendency to identify specific topics and methods with particular
individuals, a contributor index is included as well as the complete table
of contents of each of the volumes indexed. In addition to Volume 320,
the cumulative indexes in this series include Volumes 33, 75, 95, 120, 140,
175, 199, 229, 265, and 285.
vii
Contents of Volumes 290-319
VOLUME 290
RALUCELOM SENOREPAHC
George H. Lorimer and Thomas O. Baldwin
.1 Protein Folding and Assembly in a Cell-Free Ex- YEXELA N, VORODEF DNA
pression System SAMOHT O. NIWDLAB l
2. Preparation and Application of Chaperone-Defi- ALESIG ,REMARK
cient Escherichia coli Cell-Free Translation GNOT ,GNAHZ
Systems WALSEIW ~IKCILDUK DNA
DYOB YTSEDRAH 8
.3 Protein Disulfide Isomerase H, F. TREBLIG 26
.4 Thermophilic Fungal Protein Disulfide Isomerase UMOTUST ,ONIJAK
EIHC ,IKAZAYIM
UMASO ,IMASA
ANASAM HIRAI,
OIKUY ,ADAMAY DNA
OZEGIHS AKADU 50
.5 Disulfide Bond Catalysts in Escherichia coli SAMOHT ,REDNAZ
LIHKIN D. ,EKDAHP DNA
SEMAJ C. A. LLEWDRAB 59
.6 Yeast Immunophilins: Purification and Assay of YROGERG THCERREDEIW DNA
Yeast FKBP12 NHOJ J, AKREIKEIS 74
.7 Peptidylprolyl cis-trans-Isomerases from Plant Or- AUTAR K. OOTTAM 84
ganelles
.8 Purification of GroEL with Low Fluorescence Back- A. YALC ,KRALC
ground NALUGAR ,NAHTANAMAR DNA
LRAC NEDEIRF 001
.9 Overexpression, Purification, and Properties of DRAWDE ,NIETSNESIE
GroES from Escherichia coli DASARP tEDDY, DNA
MARK T. REHSIF 911
.01 Criteria for Assessing the Purity and Quality of WEU'qaAM J. TODD DNA
GroEL EGROEG H. REM~ROL 531
.11 Construction of Single-Ring and Two-Ring Hybrid RUHTRA L. ,HCIWROH
Versions of Bacterial Chaperonin GroEL NEVETS G. ,NOTSRUB
SYAH S. ,EYR
NAHTANOJ .S ,NAMSSIEW DNA
ENYAW A. NOTNEF 141
ix
CONTENTS OF VOLUMES 290-319 x
.21 Chaperonin 4106 dna 701ninorepahC-oC from -orhC ESOJ A. TORRES-RuIz DNA
matium vinosum ECURB A. NEDDAFCM 741
.31 Chaperonins of the Purple Nonsulfur Bacterium W. ERODOEHT LEE,
Rhodobacter sedioreahps YROGERG .M F. ,NOSTAW DNA
F. TREBOR ATIBAT 451
.41 Chaperonins from Thermoanaerobacter Species TREBOR .K SEPOCS DNA
EYAK rC'OCSURT 161
.51 Chaperonin from Thermophile Thermus ther- IKEDIH IHCUGAT DNA
mophilus EKUSASAM ADIHSOY 961
.61 Insect Chaperonin :06 Symbionin EUZIM AKOIROM DNA
EM1JAH AWAKIHSI 181
.71 Purification of Yeast Mitochondrial Chaperonin 06 SEVY ,gtIUQABUD
and Co-Chaperonin 01 DEIRFTTOG ,ZTAHCS DNA
ENIBAS TREPSOR 391
.81 Purification of Mammalian Mitochondrial Chaper- LUAP V. ,NENATnV
onin 06 through ni Vitro Reconstitntion of Ac- EGROEG ,REMIROL
tive Oligomers GNAGFLOW ,REIEMGREB
ETSELEC ,SSIEW
NITRAM ,LESSEK DNA
ERREIP FFONIBUOLOG 302
.91 Purification of Recombinant Plant and Animal LUAP V. ,NENATIIV
GroES Homologs: Chloroplast and Mitochon- NERAK ,TOCAB
drial Chaperonin 01 ANOMAR ,NOSKCID DNA
MOT BBEW 812
.02 Mammalian Cytosolic Chaperonin SALOHCIN J. NAWOC 032
.12 Electron Microscopy of Chaperonins S. ,NEHC
A. .M ,NAMESOR DNA
H. R. LIBIAS 242
.22 Structural Analysis of GroE Chaperonin Com- MALASSUDBA ,MEZA
plexes Using Chemical Cross-Linking ETSELEC ,SSIEW DNA
ERREIP FFONIBUOLOG 352
.32 Molecular Chaperones and Their Interactions In- MIHCAOJ-SNAH DLEFNOHCS
vestigated by Analytical Ultracentrifugation and DNA MIHCAOJ EKLHEB 269
Other Methodologies
.42 Probing Conformations of GroEL-Bound Substrate LORAC V. ,NOSNIBOR
Proteins by Mass Spectrometry LEAHCIM ,SSORG DNA
ANEEHS E, DROFDAR 296
.52 Fluorescence Anisotropy Method for Investigation BoRIs M. STIVOROG AND
of GroEL-GroES Interaction LUAP M. ZTIWOROH 313
.62 Photoincorporation of Fluorescent Probe into YERFFEJ W. ,ELACS
GroEL: Defining Site of Interaction LLIB T, ,LIZARB DNA
LUAP M. ZTIWOROH 813
xi CONTENTS OF VOLUMES 290-319
27. Analysis of Chaperone Function Using Citrate Syn- SENNAHOJ ,RENHCUB
thase as Nonnative Substrate Protein REGLOH ,TRELLARG DNA
ALUSRU BOKAJ 323
28. Purification and Characterization of Small Heat SENNAHOJ ,RENHCIIB
Shock Proteins AKINOM ,REGREPSNRHE
SAIHrTAM ,LETSEAG DNA
NAFEr'S EKLAW 933
29. Expression, Purification, and Molecular Chaperone TTERRAG J, EEL DNA
Activity of Plant Recombinant Small Heat ttTEBAZI,IE GNILREIV 053
Shock Proteins
30. Lens a-Crystallin: Chaperone-Like Properties HPESOJ ,ZTIWROH
ONIL-ONIQ ,GNAUH
NILNIL DING, DNA
LEAHCIM P. AVOB 563
.13 Purification and Properties of DiP UEIHTAM ,REILAVEHC
ADNUAHSAL ,GNIK DNA
EIVLYS DNOLB 384
.23 Purification and Characterization of Prokaryotic SENNAHOJ ,RENHCUB
and Eukaryotic Hsp90 ARIHCUS ,ESOB
NAITSIRHC ,RYAM DNA
ALUSRU BOKAJ 904
33. Purification of Hsp90 Partner Proteins Hop/p60, SENNAHOJ ,RENH'(UB
p23, and FKBP52 ANIT ,LKIEW
SNAH ,LGOB
AKSIZNARF ,LKRIP DNA
ARIHCUS Bos~ 418
34, Purification and Properties of Hspl04 from Yeast ERIC .C REMRIHCS DNA
NASUS TSIUODNIL 430
.53 SecB: A Chaperone from Eseherichia coli ADNIL L. ,LLADNAR
ICART B. ,GNIPPOT
AINIGRIV F. ,HTIMS
HAROBED L, ,DNOMAID DNA
NOMIS .J .S YDRAH 444
VOLUME 291
DEGAC SDNUOPMOC
Gerard Marriott
.1 New Photoprotecting Groups: Desyl and p-Hy- DRAHCIR .S ,SNEVIG
droxyphenacyl Phosphate and Carboxylate J()RG F. W. ,REBEW
Esters SAERDNA H. ,GNUJ DNA
CHAN-Ho KRAP
CONTENTS OF VOLUMES 290-319 xii
2. Synthesis, Photochemistry, and Biological Charac- ELYK R. GEE,
terization of Photolabile Protecting Groups for YRRAB K. ,RETNEPRAC DNA
Carboxylic Acids and Neurotransmitters EGROEG P. SSEH 30
3. New Caged Groups: 7-Substituted Coumarinyl- KAIHSOT FURUTA DNA
methyl Phosphate Esters OK1HCIM ARUMAWI 50
4. Caged Fluorescent Probes T, J. ,NOSIHCTIM
K. E. ,NIWAS
J. A. ,TOIREHT
K. GEE, DNA
A. UPARAVALLAM 63
.5 Biologically Active Peptides Caged on Tyrosine R. ,RAMUKEERS
OUSTIM ~EBEKI
CIRDERF S. FAY, DNA
YREFFEJ W. REKLAW 78
6. Light-Directed Activation of Protein Activity from DRAREG ,TTOIRRAM
Caged Protein Conjugates SENNAHOJ ,LTTO
DERFNAM ~REKCED1EH DNA
ALE1NAD LEIRBAG 95
7. Caged Peptides and Proteins by Targeted Chemi- NAGAH ,YELYAB
cal Modification CHUNG-Yu ,GNAHC
W. TODD ,RELLIM
TTERB ,KCALBIN DNA
GNEP NAP 711
8. Photocleavable Affinity Tags for Isolation and De- YZREJ ,KINJELO
tection of Biomolecules ATYDE -AKS~AMYZRK
,KINJELO DNA
HTENNEK J. DLIHCSHTOR 531
9. Synthesis and Applications of Heterobifunctional DRAREG TTOIRRAM DNA
Photocleavable Cross-Linking Reagents SENNAHOJ OTTL 551
10. Use of Lasers for One- and Two-Photon Pho- SEMAJ A. McCRAY 571
tolysis of Caged Compounds
.11 Flash Lamp-Based Irradiation of Caged Com- GERT RAPe 202
pounds
12. Fourier Transform Infrared Photolysis Studies of NTNELAV ,SUPEC
Caged Compounds ALORAC ,HCIRBLU
HPOTS1RHC ,N1LLA
SENGA ,REILLUORT DNA
SUALK TREWREG 223
.31 Use of Caged Compounds in Studies of Bioelec- C. W. NOTRAHW DNA
tronic Imaging and Pattern Recognition R. .S KCOTTmC 542
.41 Use of Caged Nucleotides to Characterize Unstable AXEL ,GIDIEHCS
Intermediates by X-Ray Crystallography HPOTSIRHC ~RETSEMRUB DNA
ROGER S. YDOOG 152
xiii STNETNOC OF SEMULOV 290-319
.51 Photoregulation of Cholinesterase Activities with GNIL PENG DNA
Caged Cholinergic Ligands ECIRUAM RENDLEOG 562
.61 Caged Substrates for Measuring Enzymatic Activ- TREBOR R. YEZEWS DNA
ity in Vivo: Photoactivated Caged Glucose DIVAD EPEL 872
6-Phosphate
.71 Investigation of Charge Translocation by Ion Pumps K. ,RELDNEF
and Carriers Using Caged Substrates K. ,GNUTRAH
G. ,LEGAN DNA
E. GREBMAB 982
.81 Studies of Molecular Motors Using Caged Com- YDOJ A. ,GIZTNAD
pounds HIDEO ,IHCUGIH DNA
YALE E. NAMDLOG 703
.91 Application of Caged Fluorescein-Labeled Tubulin 1HSEKAT IHSOKANUF DNA
to Studies of Microtubule Dynamics and Trans- AKATUBON AWAKORIH 843
port of Tubulin Molecules in Axons
.02 Two-Photon Activation of Caged Calcium with Sub- DRAWDE B. NWORB DNA
micron, Submillisecond Resolution WA'rr .W BBEW 653
.12 Caged Inositol 1,4,5-Trisphosphate for Studying Re- KCIN SARAMALLAC DNA
lease of aC +2 from Intracellular Stores NAI REKRAP 083
.22 Characterization and Application of Photogenera- ELYK R. GEE DNA
tion of Calcium Mobilizers cADP-Ribose and NOH GNUEHC EEL 304
Nicotinic Acid Adenine Dinucleotide Phosphate
from Caged Analogs
.32 Applications of Caged Compounds of Hydrolysis- U. NIMAJNEB ,PPUAK
Resistant Analogs of cAMP and cGMP AIDUALC DZEJA,
NAHPETS ,SGNIRF
NEGROJ ,GIDNEB DNA
REKLOV NEGAH 514
.42 Caged Probes for Studying Cellular Physiology: Ap- SICNARF .M Rossl,
plication of o-Nitromandelyloxycarbonyl (Nmoc) LEAHCIM ,SILUGRAM
Caging Method to Glutamate and a Ca -+2 TREBOR E. ,HCSEOH
ATPase Inhibitor CHA-MIN TANG, DNA
HPESOJ .P .Y OAK 134
.52 Development and Application of Caged Ligands for EGROEG .P SSEH DNA
Neurotransmitter Receptors in Transient Kinetic FOTSIRHC REWERG 344
and Neuronal Circuit Mapping Studies
.62 Caged Plant Growth Regulators WERDNA C. ALLAN,
ENAJ L. WARD,
LEAHCIM H. BEALE, DNA
YNOHTNA J. SAVAWERT 474
.72 Use of Caged Compounds in Studies of the Kinetics R. A. ,MURDLEM
of DNA Repair R. S. ,KCOTTIHC DNA
C. W. NOTRAHW 384
CONTENTS OF VOLUMES 290-319 xiv
VOLUME 292
ABC TRANSPORTERS: BIOCHEMICAL, CELLULAR,
AND MOLECULAR ASPECTS
Suresh V. Ambudkar and Michael .M Gottesman
Section I. Prokaryotic ABC Transporters
.1 Overview of Bacterial ABC Transporters IHSORIH NIKAIDO DNA
NOSAJ A. HALL 3
.2 Preparation and Reconstitution of Membrane- NOSAJ A, HALL,
Associated Maltose Transporter Complex of YMA L, ,NOSDIVAD DNA
Escherichia coli IHSORIH ODIAKIN 20
.3 Maltose Transport in Escherichia coli: Mutations AIHTNYC H. SIDITOIOANAP DNA
That Uncouple ATP Hydrolysis from Transport DRAWOH A. NAMUHS 30
4. Binding Protein-Dependent ABC Transport Sys- DEIRFNIW Boos 40
tem for Glycerol 3-Phosphate of Escherichia coli
5. Structure-Function Analysis of Hemolysin B GNAF ,GNAHZ
NAHTANOJ A. ,SPEHS DNA
ROTCIV LING 15
6. Erwinia Metalloprotease Permease: Aspects of Se- EPPILIHP ERIALEPELED 67
cretion Pathway and Secretion Functions
7. Arsenical Pumps in Prokaryotes and Eukaryotes IKUYASAM ,ADORUK
YOMNARIH ,EEJRAHCAFTAHB
DNA BARRY P. NESOR 82
Section .II Eukaryotic ABC Transporters
8. Evolutionary Relationships among ABC Trans- JAMES M. tROOP 101
porters
9. Cloning of Novel ABC Transporter Genes ODNAR STEMKILLA DNA
LEAHCIM DEAN 611
.01 Saccharomyces cerevisiae ABC Proteins and Their DANIEL THCILGAT DNA
Relevance to Human Health and Disease NASUS SILEAHCIM 031
A. Nonmammalian ABC Transport Systems
.11 Arabidopsis MDR Genes: Molecular Cloning and ROBERT DUDLER DNA
Protein Chemical Aspects LEAHCXM RELDIS 162
12, Functional Analysis of pfmdrl Gene of Plasmo- SARAH NAMKLOV DNA
dium falciparum NNAYD HTRIW 471
VX CONTENTS OF VOLUMES 290-319
.31 Amplification of ABC Transporter GenepgpA and MARC ,ETTELLEUO
of Other Heavy Metal Resistance Genes in Leish- SSANA ,RUEMIAH
mania ealotnerat and Their Study by Gene Trans- ENIREHTAK ,NIDNORG
fection and Gene Disruption ELLEINAD ,~IRAG~tL DNA
ARABRAB UOLUOPODAPAP 281
.41 Functional Assay for Analysis of Yeast ste6 Mutants GABY L. KEORBJ1N DNA
NASUS SILEAHC1M 391
.51 ABC Transporters Involved in Transport of Eye GARY D. EWART DNA
Pigment Precursors in Drosophila retsagonalem YNOIrTNA J. SLLEWOH 312
B. Mammalian P-Glycoproteins
.61 Isolation of Altered-Function Mutants and Genetic ROGI B. ,NOSNINOR
Suppressor Elements of Multidrug Transporter DLANOD ZUHN,
P-Glycoprotein by Expression Selection from ADAM RUTH, DNA
Retroviral Libraries DAVID ED GRAAF 225
.71 Selection and Maintenance of Multidrug-Resis- LEAHCIM M. ,NAMSErTOG
tant Cells LORAC LLERADRAC L
HARAS ,GREBNEDLOG
SAMOHT LICHT, DNA
ARI NATSAP 248
.81 Monoclonal Antibodies to P-Glycoprotein: Prepa- OKIHIKIM NAITO DNA
ration and Applications to Basic and Clinical Re- TAKASttl OURIIST 258
search
.91 Topology of P-Glycoproteins MAILLIW R. HT(AKS 562
20. Use of Cell-Free Systems to Determine P-Glycopro- GNIT-NAIJ GNAHZ 279
tein Transmembrane Topology
21. Photoaffinity Labels for Characterizing Drug Inter- DAMHA R. AFAS 289
action Sites of P-Glycoprotein
22. Identification of Drug Interaction Sites in P-Glyco- EEL M. REGREBNEERG 307
protein
23. Photoaffinity Labeling of Human P-Glycoprotein: LABIAS DEY,
Effect of Modulator Interaction and ATP Hydro- ARAHDILARUM
lysis on Substrate Binding ,ARDNAHCAMAR
ARI ,NATSAP
.lEAHCIM M. ,NAMSETTOG DNA
HSERUS V. RAKDUBMA 318
24. Identification of Phosphorylation Sites in Human YHTOMIT C, SREBMAHC 328
MDR1 P-Glycoprotein
25. Identification of in Vivo Phosphorylation Sites for J. .S ,YVALG M. ,NOSFLOW
Basic-Directed Kinases in Murine mdrlb P-Gly- E. ,SEVEIN E.-K. HAN,
coprotein by Combination of Mass Spectrometry C.-P. H. ,GNAY
and Site-Directed Mutagenesis .S B. ,ZTIWROH DNA
G. A. ORR 342
CONTENTS OF VOLUMES 290--319 xvi
26. P-Glycoprotein and Swelling-Activated Chloride ARAMAT D. ,DNOB
Channels REHPOTSIRHC F. ,SNIGGIH DNA
LEUGIM A. EDREVLAV 359
27. Functional Expression of mdr and rndr-like cDNAs EITAN BIBI,
in Escherichia coli METOR EDGAR, DNA
ODED J,~IB k~ 370
28. Yeast Secretory Vesicle System for Expression and NAHPETS RUETZ 382
Functional Characterization of P-Glycoproteins
29. High-Level Expression of Mouse Mdr3 P-Glycopro- ELLICUL ,TEDUAEB
tein in Yeast Pichia pastoris and Characterization ANI L. ,HCSTABRU DNA
of ATPase Activity EPPILIHP GROS 397
30. Mutational Analysis of P-Glycoprotein in Yeast ELLICUL BEAUDET DNA
secymorahccaS eaisiverec EPPILIHP GROS 414
31. Baculovirus-Mediated Expression of Human Multi- ALUSRU A. GERMA~ 427
drug Resistance cDNA in Insect Ceils and Func-
tional Analysis of Recombinant P-Glycoprotein
32. Recombinant Vaccinia Virus Vectors for Functional ARAHDILARUM
Expression of P-Glycoprotein in Mammalian ,ARDNAHCAMAR
Cells LEAHCIM M. ,NAMSETTOG DNA
IRA NATSAP 144
33. Functional Expression of Human P-Glycoprotein ENITSIRHC A. ,ANYCYRH
from Plasmids Using Vaccinia Virus-Bac- ARAHDILARUM
teriophage T7 RNA Polymerase System ~ARDNAHCAMAR
IRA ,NATSAP DNA
LEAHCIM M. NAMSErTOG 456
34. pHaMDR-DHFR Bicistronic Expression System GNODUHS ~GNAHZ
for Mutation Analysis of P-Glycoprotein UZAKIHSOY ,OTOMIGUS
AROPIZT ,INAHSOHS
IRA ,NATSAP DNA
LEAHCIM M. NAMSETTOG 474
35. Mutational Analysis of Human P-Glycoprotein TiP W. Loo DNA
DAVID M. EKRALC 480
36. Purification and Reconstitution of Human P-Glyco- HSERUS V. ,RAKDUBMA
protein ELLEBASI H. ,GNOLEL
GNIPAIJ )GNAHZ DNA
LORAC ILLERADRAC 492
37. Drug-Stimulatable ATPase Activity in Crude Mem- HSERUS V. RAKDUBMA 504
branes of Human MDR1-Transfected Mamma-
lian Ceils
38. ATPase Activity of Chinese Hamster P-Olyco- ALAN E. ,ROINES
protein NAWRAM K. AL-SHAWI, DNA
ANI L. HCSTABRU 514
xvii CONTENTS OF VOLUMES 290-319
.93 Construction of MDR1 Vectors for Gene Therapy UZAKIHSOY ~OTOMIGUS
LEAHCIM M. ,NAMSETTOG
IRA ,NATSAP DNA
IHSAKAT OURUST 325
40. Construction of MDR1 Adeno-Associated Virus NOIRAM DRADUAB 538
Vectors for Gene Therapy
.14 Retroviral Transfer of Multidrug Transporter to SAMOHT ,THCIL
Murine Hematopoietic Stem Cells LEAHCIM M. ,NAMSE'TI'OG DNA
ARI NATSAP 546
42. Retroviral Transfer of Human MDR1 Gene into ENILORAC G. L. LEE,
Human T Lymphocytes ARI ,NATSAP DNA
LEAHCIM M. NAMSETr'OG 557
43. Construction and Analysis of Multidrug Resistance YROGERG L. SNAVE 572
Transgenic Mice
C. Multidrug Resistance Associated Protein
44, Cloning, Transfer, and Characterization of Multi- ENILORAC E. ,TNARG
drug Resistance Protein U3IAG ,JAWDRAHB
NASUS P. C. COLE, DNA
REGOR G. YELEED 594
45. Transport Function and Substrate Specificity of DIETRICH ,RELPPEK
Multidrug Resistance Protein ELEIRBAG ,YKHCST1LDEJ DNA
AKNI LEIER 607
D. Cystic Fibrosis Transmembrane Conductance Regulator
46. Heterologous Expression Systems for Study of X1u-BAo ,GNAHC
Cystic Fibrosis Transmembrane Conductance TREBRON ,RENTRAK
Regulator NAIBAF S. ,TREBIES
ANDREI A. ,VORDNASKELA
WERDNA W. ,RESOLK
NEHCTERG L. KISER, DNA
NHOJ R. NADROIR 616
47. Characterization of Polyclonal and Monoclonal An- TREBRON RENTRAK DNA
tibodies to Cystic Fibrosis Transmembrane Con- NHOJ R. NADROIR 629
ductance Regulator
48. Identification of Cystic Fibrosis Transmembrane ELLEBASI T. DROFWARC DNA
Conductance Regulator in Renal Endosomes RETEP C. YENOLAM 652
.94 Assays of Dynamics, Mechanisms, and Regulation ERIK M. ,TREBEIWHCS
of ATP Transport and Release: Implications for MARIE E. EGAN, DNA
Study of ABC Transporter Function MAILLIW B. ONIGGUG 664