Isotope labeling of biomolecules - labeling methods:
Gespeichert in:
| Format: | Buch |
|---|---|
| Sprache: | English |
| Veröffentlicht: |
Amsterdam [u.a.]
Elsevier, Acad. Press
2015
|
| Ausgabe: | 1. ed. |
| Schriftenreihe: | Methods in enzymology
565 |
| Schlagworte: | |
| Online-Zugang: | Inhaltsverzeichnis |
| Beschreibung: | XX, 614 S., [13] Bl. Ill., graph. Darst. |
| ISBN: | 9780128030486 |
Internformat
MARC
| LEADER | 00000nam a2200000 cb4500 | ||
|---|---|---|---|
| 001 | BV043048701 | ||
| 003 | DE-604 | ||
| 005 | 20160120 | ||
| 007 | t | ||
| 008 | 151124s2015 ad|| |||| 00||| eng d | ||
| 020 | |a 9780128030486 |9 978-0-12-803048-6 | ||
| 035 | |a (OCoLC)932299588 | ||
| 035 | |a (DE-599)BVBBV043048701 | ||
| 040 | |a DE-604 |b ger |e rakwb | ||
| 041 | 0 | |a eng | |
| 049 | |a DE-19 |a DE-355 | ||
| 084 | |a VK 8700 |0 (DE-625)147548:253 |2 rvk | ||
| 084 | |a WC 4355 |0 (DE-625)148096: |2 rvk | ||
| 245 | 1 | 0 | |a Isotope labeling of biomolecules - labeling methods |c ed. by Zvi Kelman |
| 250 | |a 1. ed. | ||
| 264 | 1 | |a Amsterdam [u.a.] |b Elsevier, Acad. Press |c 2015 | |
| 300 | |a XX, 614 S., [13] Bl. |b Ill., graph. Darst. | ||
| 336 | |b txt |2 rdacontent | ||
| 337 | |b n |2 rdamedia | ||
| 338 | |b nc |2 rdacarrier | ||
| 490 | 1 | |a Methods in enzymology |v 565 | |
| 650 | 0 | 7 | |a Methode |0 (DE-588)4038971-6 |2 gnd |9 rswk-swf |
| 650 | 0 | 7 | |a Biomolekül |0 (DE-588)4135124-1 |2 gnd |9 rswk-swf |
| 650 | 0 | 7 | |a Isotopenmarkierung |0 (DE-588)4176811-5 |2 gnd |9 rswk-swf |
| 655 | 7 | |0 (DE-588)4143413-4 |a Aufsatzsammlung |2 gnd-content | |
| 689 | 0 | 0 | |a Biomolekül |0 (DE-588)4135124-1 |D s |
| 689 | 0 | 1 | |a Isotopenmarkierung |0 (DE-588)4176811-5 |D s |
| 689 | 0 | 2 | |a Methode |0 (DE-588)4038971-6 |D s |
| 689 | 0 | |C b |5 DE-604 | |
| 700 | 1 | |a Kelman, Zvi |e Sonstige |0 (DE-588)1079424458 |4 oth | |
| 830 | 0 | |a Methods in enzymology |v 565 |w (DE-604)BV000000938 |9 565 | |
| 856 | 4 | 2 | |m Digitalisierung UB Regensburg - ADAM Catalogue Enrichment |q application/pdf |u http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=028473130&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |3 Inhaltsverzeichnis |
| 999 | |a oai:aleph.bib-bvb.de:BVB01-028473130 | ||
Datensatz im Suchindex
| _version_ | 1804175416911462400 |
|---|---|
| adam_text | CONTENTS
Contributors xiii
Preface xix
Section I
Labeling in Prokarya
1. Robust High-Yield Methodologies for 2H and 2H/15N/13C
Labeling of Proteins for Structural Investigations Using
Neutron Scattering and NMR 3
Anthony P. Duff, Karyn L Wilde, Agata Rekas, Vanessa Lake, and
Peter J. Holden
1. Introduction 4
2. Media Preparation 7
3. Uniabeled Protein Production 9
4. Deuterated Protein Production 14
5. Multiple Labeling of Proteins for NMR 17
6. Comments on the Method 18
7. Typical Deuteration Levels 22
Acknowledgments 23
References 23
2. Protein Labeling in Escherichia coli with 2H, 13C, and 1SN 27
J. Todd Hoopes, Margaret A. Elberson, Renae J. Preston, Prasad T. Reddy,
and Zvi Kelman
1. Introduction 28
2. Selection of Induction Method 29
3. Special Considerations When Labeling with Deuterium 30
4. Plasmid and £ coli Strain Selection 30
5. Determination of Isotope Incorporation 32
6. Acclimation of £ coli to Growth in D20 35
7. Media Preparation 36
8. Protein Expression 40
Acknowledgments 43
References 43
V
vi
Contents
3. Escherichia coli Auxotroph Host Strains for Amino Acid-Selective
Isotope Labeling of Recombinant Proteins 45
Myat T. Lin, Risako Fukazawa, Yoshiharu Miyajima-Nakano,
Shinichi Matsushita, Sylvia K. Choi, Toshio Iwasaki, and
Robert B. Gennis
1. Introduction 46
2. £ coil Auxotrophs for Amino Acid-Selective isotope Labeling 47
3. Methods 53
4. Conclusions 64
Acknowledgments 65
References 65
4.19F-Modified Proteins and 19F-Containing Ligands as Tools in
Solution NMR Studies of Protein Interactions 67
Naima G. Sharaf and Angela M. Gronenborn
1. Introduction 68
2. Protocol 1: Biosynthetic Amino Acid Type-Specific Incorporation of
19F-Modified Aromatic Amino Acids 73
3. Protocol 2: Site-Specific Incorporation of Fluorinated Amino Acids Using a
Recombinantly Expressed Orthogonal Amber tRNA/tRNA Synthetase
Pair in £ coli 79
4. General Considerations for 19F֊Observe NMR Experiments 84
5. 19F֊Modified Protein-Observe NMR Experiments 86
6. NMR Experiments with 19F-Containing Ligands 89
Acknowledgments 91
References 92
5. Biopolymer Deutération for Neutron Scattering and Other
Isotope-Sensitive Techniques 97
Robert A. Russell, Christopher J. Garvey, Tamim A. Darwish,
L. John R. Foster, and Peter J. Holden
1. Introduction 98
2. Deuterated Biopolyesters 100
3. Deuterated Chitosan 106
4. Deuterated Cellulose 111
Acknowledgments 117
References 118
Contents
vii
6. Production of Bacterial Cellulose with Controlled Deuterium-
Hydrogen Substitution for Neutron Scattering Studies 123
Hugh O Neill, Riddhi Shah, Barbara R. Evans, Junhong He, Sai Venkatesh
Pingali, Shishir P. S. Chundawat, A. Daniel Jones, Paul Langan,
Brian H. Davison, and Volker Urban
1. Introduction 124
2. The Occurrence and Properties of Cellulose 127
3. Deuteration of Bacterial Cellulose 129
4. Characterization of Deuterated Cellulose 133
Acknowled g ments 142
References 142
7. Isotopic Labeling of Proteins in Halobacterium salinarum 147
Thomas E. Cleveland IV and Zvi Kelman
1. Introduction 148
2. Growth and Maintenance of Halobacterium salinarum 149
3. Purification of Proteins from Halobacterium salinarum 153
4. Summary 163
Acknowledgments 164
References 164
8. Amino Acid Selective Unlabeling in Protein NMR Spectroscopy 167
Chinmayi Prasanna, Abhinav Dubey, and Hanudatta S. Atreya
1. Introduction 168
2. Method Description 171
3. Applications of Selective Unlabeling 182
4. Conclusions 186
Acknowledgments 187
References 187
Section II
Labeling in Eukarya
9. Isotope Labeling of Eukaryotic Membrane Proteins in Yeast
for Solid-State NMR 193
Ying Fan, Sanaz Emami, Rachel Munro, Vladimir Ladizhansky, and
Leonid S. Brown
1. Introduction 194
2. Expression and Isotope Labeling in P. pastoris: Background 196
viii
Contents
3. Isotope Labeling of Membrane Proteins in P. pastoris 197
4. Outlook 207
Acknowledgments 207
References 207
10. Development of Approaches for Deuterium Incorporation
in Plants 213
Barbara R. Evans and Riddhi Shah
1. Introduction 214
2. Challenges of Plant Cultivation in D20 215
3. Analysis of Deuterium-Labeled Plant Biomass 220
4. Deuterium Labeling of Plants for Metabolic Studies 223
5. Production of Deuterated Plants for Structural Studies 225
Acknowledgments 239
References 239
П. Isotope Labeling of Proteins in Insect Cells 245
Lukasz Skora, Binesh Shrestha, and Alvar D. Gossert
1. Insect Cells as Expression System 246
2. General Considerations for Isotope Labeling in Insect Cells 250
3. Amino Acid Type-Specific Isotope Labeling in Insect Cells 252
4. Uniform Isotope Labeling in Insect Cells 256
5. Applications 268
6. Protocols 274
References 284
12. Effective isotope Labeling of Proteins in a Mammalian
Expression System 289
Mailika Sastry, Carole A. Bewley, and Peter D. Kwong
1. Introduction 290
2. Overview of Mammalian Expression 291
3. Protein Expression 299
4. NMR Characterization of Expressed Protein 300
5. Conclusions 302
6. Materials 303
Acknowledgments 303
References 303
Contents
/X
Section lit
In Vitro Labeling
13. Escherichia coli Cell-Free Protein Synthesis and Isotope Labeling of
Mammalian Proteins 311
Takaho Terada and Shigeyuki Yokoyama
1. Introduction 312
2. The £ coli Cell-Free Protein Synthesis Method 316
3. Stable Isotope Labeling of Proteins 323
Acknowledgments 339
References 340
14. Rapid Biosynthesis of Stable Isotope-Labeled Peptides from a
Reconstituted In Vitro Translation System for Targeted Proteomics 347
Feng Xian, Shuwei Li, and Siqi Liu
1. Introduction 348
2. Equipment, Materials, and Buffers 350
3. Section 1: DNA Template Preparation 351
4. Section 2: Peptide Synthesis with PURE System 355
5. Section 3: Enrichment and Digestion of Synthesized Peptide 358
6. Section 4: Quantification of PURE-Synthesized Peptide 360
7s An Example 363
8. Summary and Discussion 365
Acknowledgment 365
References 365
15. Labeling of Membrane Proteins by Cell-Free Expression 367
Aisha LaGuerre, Frank Lohr, Frank Bernhard, and Volker Dotsch
1. Introduction 368
2. Core Considerations for the Cell-Free Generation of MP Samples 369
3. Specific Challenges of NMR Studies with MPs 372
4. An Emerging Perspective: NMR with NDs 374
5. Labeling of Cell-Free Synthesized MPs with Stable Isotopes 375
6. Reducing Scrambling Problems 376
7. Perdeuteration of Cell-Free Synthesized MPs 380
8. Conclusion 382
Acknowledgments 382
References 382
X
Contents
16. Selective Amino Acid Segmental Labeling of Multi-Domain
Proteins 389
Erich Michel and Frédéric H.֊T. Allain
1. Introduction 390
2. Methods 396
3. Conclusion 417
Acknowledgments 419
References 419
17. Labeling Monosaccharides With Stable Isotopes 423
Wenhui Zhang, Shikai Zhao, and Anthony S. Serianni
1. introduction 424
2. Terminology to Describe Different Monosaccharide Isotopomers 425
3. introducing 13C into Monosaccharides 427
4. Multiple Labeling of Aldoses Via Chain Inversion 438
5. Labeling at the Internal Carbons of Aldoses 439
6. Extension to Biologically Important Aldoses 442
7. Relative Carbonyl Reactivities in Osones—Synthesis of Labeled 2-Ketoses 444
8. Manipulation of Three-Carbon Building Blocks in Enzyme-Mediated Aldo)
Condensation 445
9. Manipulation of Isotopically Labeled o-Fructose 17 and L-Sorbose 25 452
10. Concluding Remarks 452
References 455
Section IV
RNA Labeling
18. Stable Isotope-Labeled RNA Phosphoramidites to Facilitate
Dynamics by NMR 461
Christoph H. Wunderlich, Michael A. Juen, Regan M. LeBlanc,
Andrew P. Longhini, T. Kwaku Dayie, and Christoph Kreutz
1. Theory 462
2. Equipment 463
3. Materials 464
4. Protocol 467
5. Step 1: Synthesis of 6-13C4Jridine TOM Phosphoramidite 468
6. Step 2: Synthesis of 6-13C֊Cytidine TOM Phosphoramidite 473
7. Step 3: Chemical RNA Synthesis 477
8. Step 4: Applications 484
9. Conclusions 490
Acknowledgments 491
References 492
Contents
xi
19. in Vivo, Large-Scale Preparation of Uniformly 1SN- and
Site-Specifically 13C-Labeled Homogeneous, Recombinant
RNA for NMR Studies 495
My T. Le, Rachel E. Brown, Anne E. Simon, and T. Kwaku Dayie
1. Theory 497
2. Equipment 499
3. Materials 502
4. Protocol 510
5. Step 1: Pilot of the Expression of the Recombinant tRNA-Scaffold
Plasmid in Wild-Type K12 E. coli 512
6. Step 2: Double Selection of High-Expressing £ coli Clones 514
7. Step 3: Large-Scale Expression in Labeled SPG Minimal Media 517
8. Step 4: Total Cellular RNA Extraction 518
9. Step 5a: Purification of the Recombinant tRNA-Scaffold Using Anion-
Exchange Chromatography 520
10. Step 5b: Purification of the Recombinant tRNA-Scaffold Using Affinity
Chromatography 523
11. Step 6: Excision and Purification of the RNA of Interest 524
12. Step 7: NMR Applications 527
13. Conclusion 530
Acknowledgments 532
References 532
20. Cut and Paste RNA for Nuclear Magnetic Resonance, Paramagnetic
Resonance Enhancement, and Electron Paramagnetic Resonance
Structural Studies 537
Olivier Duss, Nana Diarra dit Konté, and Frédéric H.-T. Allain
1. Introduction 538
2. Cut and Paste RNA Approach 540
3. Production of Small ( 10 nts) Isotopically Labeled RNAs 546
4. Protocol A: Production of Small Spin-Labeled RNA Fragments 552
5. Protocol B: Production of Unlabeled and Isotopically Labeled
RNA Fragments 554
6. Protocol C: Ligation 557
7. Summary and Outlook 559
Acknowledgments 560
References 561
Author Index 563
Subject Index 595
|
| any_adam_object | 1 |
| author_GND | (DE-588)1079424458 |
| building | Verbundindex |
| bvnumber | BV043048701 |
| classification_rvk | VK 8700 WC 4355 |
| ctrlnum | (OCoLC)932299588 (DE-599)BVBBV043048701 |
| discipline | Chemie / Pharmazie Biologie |
| edition | 1. ed. |
| format | Book |
| fullrecord | <?xml version="1.0" encoding="UTF-8"?><collection xmlns="http://www.loc.gov/MARC21/slim"><record><leader>01731nam a2200421 cb4500</leader><controlfield tag="001">BV043048701</controlfield><controlfield tag="003">DE-604</controlfield><controlfield tag="005">20160120 </controlfield><controlfield tag="007">t</controlfield><controlfield tag="008">151124s2015 ad|| |||| 00||| eng d</controlfield><datafield tag="020" ind1=" " ind2=" "><subfield code="a">9780128030486</subfield><subfield code="9">978-0-12-803048-6</subfield></datafield><datafield tag="035" ind1=" " ind2=" "><subfield code="a">(OCoLC)932299588</subfield></datafield><datafield tag="035" ind1=" " ind2=" "><subfield code="a">(DE-599)BVBBV043048701</subfield></datafield><datafield tag="040" ind1=" " ind2=" "><subfield code="a">DE-604</subfield><subfield code="b">ger</subfield><subfield code="e">rakwb</subfield></datafield><datafield tag="041" ind1="0" ind2=" "><subfield code="a">eng</subfield></datafield><datafield tag="049" ind1=" " ind2=" "><subfield code="a">DE-19</subfield><subfield code="a">DE-355</subfield></datafield><datafield tag="084" ind1=" " ind2=" "><subfield code="a">VK 8700</subfield><subfield code="0">(DE-625)147548:253</subfield><subfield code="2">rvk</subfield></datafield><datafield tag="084" ind1=" " ind2=" "><subfield code="a">WC 4355</subfield><subfield code="0">(DE-625)148096:</subfield><subfield code="2">rvk</subfield></datafield><datafield tag="245" ind1="1" ind2="0"><subfield code="a">Isotope labeling of biomolecules - labeling methods</subfield><subfield code="c">ed. by Zvi Kelman</subfield></datafield><datafield tag="250" ind1=" " ind2=" "><subfield code="a">1. ed.</subfield></datafield><datafield tag="264" ind1=" " ind2="1"><subfield code="a">Amsterdam [u.a.]</subfield><subfield code="b">Elsevier, Acad. Press</subfield><subfield code="c">2015</subfield></datafield><datafield tag="300" ind1=" " ind2=" "><subfield code="a">XX, 614 S., [13] Bl.</subfield><subfield code="b">Ill., graph. Darst.</subfield></datafield><datafield tag="336" ind1=" " ind2=" "><subfield code="b">txt</subfield><subfield code="2">rdacontent</subfield></datafield><datafield tag="337" ind1=" " ind2=" "><subfield code="b">n</subfield><subfield code="2">rdamedia</subfield></datafield><datafield tag="338" ind1=" " ind2=" "><subfield code="b">nc</subfield><subfield code="2">rdacarrier</subfield></datafield><datafield tag="490" ind1="1" ind2=" "><subfield code="a">Methods in enzymology</subfield><subfield code="v">565</subfield></datafield><datafield tag="650" ind1="0" ind2="7"><subfield code="a">Methode</subfield><subfield code="0">(DE-588)4038971-6</subfield><subfield code="2">gnd</subfield><subfield code="9">rswk-swf</subfield></datafield><datafield tag="650" ind1="0" ind2="7"><subfield code="a">Biomolekül</subfield><subfield code="0">(DE-588)4135124-1</subfield><subfield code="2">gnd</subfield><subfield code="9">rswk-swf</subfield></datafield><datafield tag="650" ind1="0" ind2="7"><subfield code="a">Isotopenmarkierung</subfield><subfield code="0">(DE-588)4176811-5</subfield><subfield code="2">gnd</subfield><subfield code="9">rswk-swf</subfield></datafield><datafield tag="655" ind1=" " ind2="7"><subfield code="0">(DE-588)4143413-4</subfield><subfield code="a">Aufsatzsammlung</subfield><subfield code="2">gnd-content</subfield></datafield><datafield tag="689" ind1="0" ind2="0"><subfield code="a">Biomolekül</subfield><subfield code="0">(DE-588)4135124-1</subfield><subfield code="D">s</subfield></datafield><datafield tag="689" ind1="0" ind2="1"><subfield code="a">Isotopenmarkierung</subfield><subfield code="0">(DE-588)4176811-5</subfield><subfield code="D">s</subfield></datafield><datafield tag="689" ind1="0" ind2="2"><subfield code="a">Methode</subfield><subfield code="0">(DE-588)4038971-6</subfield><subfield code="D">s</subfield></datafield><datafield tag="689" ind1="0" ind2=" "><subfield code="C">b</subfield><subfield code="5">DE-604</subfield></datafield><datafield tag="700" ind1="1" ind2=" "><subfield code="a">Kelman, Zvi</subfield><subfield code="e">Sonstige</subfield><subfield code="0">(DE-588)1079424458</subfield><subfield code="4">oth</subfield></datafield><datafield tag="830" ind1=" " ind2="0"><subfield code="a">Methods in enzymology</subfield><subfield code="v">565</subfield><subfield code="w">(DE-604)BV000000938</subfield><subfield code="9">565</subfield></datafield><datafield tag="856" ind1="4" ind2="2"><subfield code="m">Digitalisierung UB Regensburg - ADAM Catalogue Enrichment</subfield><subfield code="q">application/pdf</subfield><subfield code="u">http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=028473130&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA</subfield><subfield code="3">Inhaltsverzeichnis</subfield></datafield><datafield tag="999" ind1=" " ind2=" "><subfield code="a">oai:aleph.bib-bvb.de:BVB01-028473130</subfield></datafield></record></collection> |
| genre | (DE-588)4143413-4 Aufsatzsammlung gnd-content |
| genre_facet | Aufsatzsammlung |
| id | DE-604.BV043048701 |
| illustrated | Illustrated |
| indexdate | 2024-07-10T07:15:57Z |
| institution | BVB |
| isbn | 9780128030486 |
| language | English |
| oai_aleph_id | oai:aleph.bib-bvb.de:BVB01-028473130 |
| oclc_num | 932299588 |
| open_access_boolean | |
| owner | DE-19 DE-BY-UBM DE-355 DE-BY-UBR |
| owner_facet | DE-19 DE-BY-UBM DE-355 DE-BY-UBR |
| physical | XX, 614 S., [13] Bl. Ill., graph. Darst. |
| publishDate | 2015 |
| publishDateSearch | 2015 |
| publishDateSort | 2015 |
| publisher | Elsevier, Acad. Press |
| record_format | marc |
| series | Methods in enzymology |
| series2 | Methods in enzymology |
| spelling | Isotope labeling of biomolecules - labeling methods ed. by Zvi Kelman 1. ed. Amsterdam [u.a.] Elsevier, Acad. Press 2015 XX, 614 S., [13] Bl. Ill., graph. Darst. txt rdacontent n rdamedia nc rdacarrier Methods in enzymology 565 Methode (DE-588)4038971-6 gnd rswk-swf Biomolekül (DE-588)4135124-1 gnd rswk-swf Isotopenmarkierung (DE-588)4176811-5 gnd rswk-swf (DE-588)4143413-4 Aufsatzsammlung gnd-content Biomolekül (DE-588)4135124-1 s Isotopenmarkierung (DE-588)4176811-5 s Methode (DE-588)4038971-6 s b DE-604 Kelman, Zvi Sonstige (DE-588)1079424458 oth Methods in enzymology 565 (DE-604)BV000000938 565 Digitalisierung UB Regensburg - ADAM Catalogue Enrichment application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=028473130&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
| spellingShingle | Isotope labeling of biomolecules - labeling methods Methods in enzymology Methode (DE-588)4038971-6 gnd Biomolekül (DE-588)4135124-1 gnd Isotopenmarkierung (DE-588)4176811-5 gnd |
| subject_GND | (DE-588)4038971-6 (DE-588)4135124-1 (DE-588)4176811-5 (DE-588)4143413-4 |
| title | Isotope labeling of biomolecules - labeling methods |
| title_auth | Isotope labeling of biomolecules - labeling methods |
| title_exact_search | Isotope labeling of biomolecules - labeling methods |
| title_full | Isotope labeling of biomolecules - labeling methods ed. by Zvi Kelman |
| title_fullStr | Isotope labeling of biomolecules - labeling methods ed. by Zvi Kelman |
| title_full_unstemmed | Isotope labeling of biomolecules - labeling methods ed. by Zvi Kelman |
| title_short | Isotope labeling of biomolecules - labeling methods |
| title_sort | isotope labeling of biomolecules labeling methods |
| topic | Methode (DE-588)4038971-6 gnd Biomolekül (DE-588)4135124-1 gnd Isotopenmarkierung (DE-588)4176811-5 gnd |
| topic_facet | Methode Biomolekül Isotopenmarkierung Aufsatzsammlung |
| url | http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=028473130&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |
| volume_link | (DE-604)BV000000938 |
| work_keys_str_mv | AT kelmanzvi isotopelabelingofbiomoleculeslabelingmethods |