Principles of Nucleic Acid Structure: Springer Advanced Texts in Chemistry
Autor Wolfram Saengeren Limba Engleză Paperback – 2 oct 1988
Observăm că, deși manualele de biochimie generală sunt numeroase, literatura academică duce adesea lipsă de texte specializate care să detalieze fundamentele structurale la nivel de cercetare. Principles of Nucleic Acid Structure răspunde acestei nevoi, concentrându-se pe capitolul definitoriu al conformației nucleotidelor și acizilor nucleici. Ediția prezentă, a doua tipărire corectată a primei ediții, rafinează materialul bazat pe o recenzie fundamentală din 1976, oferind o rigoare matematică și fizică necesară înțelegerii geometriei moleculare.
Structura cărții este organizată progresiv: începe cu stabilirea unei nomenclaturi precise și a simbolurilor, trece prin analiza unghiurilor de torsiune și a ciclului de pseudorotație, culminând cu metodologii complexe de analiză structurală. Suntem de părere că includerea secțiunilor despre cristalografia macromoleculelor și determinarea structurii fibrelor oferă cititorului instrumentele analitice esențiale pentru interpretarea datelor experimentale. Această abordare sistematică completează perspectiva oferită de Nucleic Acid Structure de W. Guschlbauer, adăugând o profunzime teoretică superioară în ceea ce privește calculele de energie potențială și parametrii elicoidali.
Poziționată în contextul operei lui Wolfram Saenger, lucrarea se leagă organic de Hydrogen Bonding in Biological Structures. Dacă în acea lucrare autorul analiza forțele de coeziune ale materiei vii, aici aplică aceleași principii de legătură chimică pentru a explica stabilitatea și flexibilitatea ADN-ului și ARN-ului. Este o resursă care transformă datele brute în modele structurale coerente, fiind esențială pentru cercetătorii care navighează între chimia organică și biologia moleculară.
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Specificații
ISBN-13: 9780387907611
ISBN-10: 0387907610
Pagini: 556
Dimensiuni: 155 x 235 x 30 mm
Greutate: 0.8 kg
Ediția:1st ed. 1984. Corr. 2nd printing 1988
Editura: Springer
Colecția Springer
Seria Springer Advanced Texts in Chemistry
Locul publicării:New York, NY, United States
ISBN-10: 0387907610
Pagini: 556
Dimensiuni: 155 x 235 x 30 mm
Greutate: 0.8 kg
Ediția:1st ed. 1984. Corr. 2nd printing 1988
Editura: Springer
Colecția Springer
Seria Springer Advanced Texts in Chemistry
Locul publicării:New York, NY, United States
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Public țintă
ResearchDe ce să citești această carte
Recomandăm această monografie cercetătorilor și studenților la nivel masteral sau doctoral care doresc să înțeleagă nu doar forma acizilor nucleici, ci și legile fizico-chimice care o guvernează. Cititorul câștigă o bază solidă în cristalografie și stereochimie, elemente indispensabile pentru orice studiu avansat de biochimie structurală. Este un text de referință care clarifică unghiurile de torsiune și modurile de pliere, oferind rigoarea necesară în designul de medicamente și ingineria genetică.
Despre autor
Wolfram Saenger este un renumit biochimist și cristalograf, recunoscut pentru contribuțiile sale fundamentale în înțelegerea structurilor biologice la nivel atomic. Opera sa se concentrează pe interacțiunile slabe dar esențiale din sistemele biologice, fiind autorul unor lucrări de referință despre legăturile de hidrogen. Expertiza sa în cristalografia cu raze X și chimia acizilor nucleici a permis cristalizarea unor concepte complexe despre conformația polinucleotidelor, transformând Principles of Nucleic Acid Structure într-un reper academic publicat în prestigioasa serie Springer Advanced Texts in Chemistry.
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like
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ther
modynamics
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and
new
or
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editions
are
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up
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in
research.
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areas
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those
taught
at
the
grad
uate
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a
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of
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needs
occur
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in
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usually
have
to
be
written
by
scientists
actually
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in
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often
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to
persuade
such
individuals
to
set
time
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areas
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recent
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what
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covered
in
any
available
textbooks,
and
then
seek
out
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to
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to
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the
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biochemistry.
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CHARLES
R.
CANTOR
New
York
Preface
This
monograph
is
based
on
a
review
on
polynucleotide
structures
written
for
a
book
series
in
1976.
Cuprins
1
Why
Study
Nucleotide
and
Nucleic
Acid
Structure?.-
2
Defining
Terms
for
the
Nucleic
Acids.-
2.1
Bases,
Nucleosides,
Nucleotides,
and
Nucleic
Acids—Nomenclature
and
Symbols.-
2.2
Atomic
Numbering
Scheme.-
2.3
Torsion
Angles
and
Their
Ranges.-
2.4
Definitions
of
Torsion
Angles
in
Nucleotides.-
2.5
Sugar
Pucker
Modes:
The
Pseudorotation
Cycle.-
2.6
syn/anti
Orientation
About
the
Glycosyl
Bond.-
2.7
Orientation
About
the
C4?-C5?
Bond.-
2.8
Helical
Parameters:
Hydrogen
Bonding
Between
Bases.-
Summary.-
3
Methods:
X-Ray
Crystallography,
Potential
Energy
Calculations,
and
Spectroscopy.-
3.1
Crystal
Structure
Analysis
of
Small
Molecules.-
3.2
Potential
Energy
Calculations.-
3.3
Crystallography
of
Macromolecules.-
3.4
Fiber
Structure
Determination.-
3.5
Spectroscopic
Methods.-
Summary.-
4
Structures
and
Conformational
Properties
of
Bases,
Furanose
Sugars,
and
Phosphate
Groups.-
4.1
Geometry
of
Bases.-
4.2
Preferred
Sugar
Puckering
Modes.-
4.3
Factors
Affecting
Furanose
Puckering
Modes.-
4.4
Bond
Distances
and
Angles
in
Furanoses.-
4.5
syn/anti
Conformation.-
4.6
The
high
anti
(-sc)
Conformation.-
4.7
Factors
Affecting
the
syn/anti
Conformation:
The
Exceptional
Guanosine.-
4.8
The
Orientation
About
the
C4?-C5?
Bond.-
4.9
Factors
Influencing
the
Orientation
about
the
C4?-C5?
Bond.-
4.10
The
“Rigid
Nucleotide”.-
4.11
The
Phosphate
Mono-
and
Diester
Groups
and
the
Pyrophosphate
Link:
Bonding
Characteristics
and
Geometry.-
4.12
Orientation
About
the
C-O
and
P-O
Ester
Bonds.-
4.13
Correlated
Rotations
of
Torsion
Angles
in
Nucleotides
and
in
Nucleic
Acids.-
4.14
Helical
or
Not
Helical—and
if,
What
Sense?.-
Summary.-
5
Physical
Properties
of
Nucleotides:
Charge
Densities,
pK
Values,
Spectra,
and
Tautomerism.-
5.1
Charge
Densities.-
5.2
pK
Values
of
Base,
Sugar,
and
Phosphate
Groups:
Sites
for
Nucleophilic
Attack.-
5.3
Tautomerism
of
Bases.-
Summary.-
6
Forces
Stabilizing
Associations
Between
Bases:
Hydrogen
Bonding
and
Base
Stacking.-
6.1
Characterization
of
Hydrogen
Bonds.-
6.2
Patterns
of
Base-Base
Hydrogen
Bonding:
The
Symmetry
of
a
Polynucleotide
Complex.-
6.3
Detailed
Geometries
of
Watson-Crick
and
Hoogsteen
Base
Pairs.-
6.4
The
Stability
and
Formation
of
Base
Pairs
as
Determined
by
Thermodynamic,
Kinetic,
and
Quantum
Chemical
Methods:
Electronic
Complementarity.-
6.5
Patterns
of
Vertical
Base-Base
Interactions.-
6.6
Thermodynamic
Description
of
Stacking
Interactions.-
6.7
Forces
Stabilizing
Base
Stacking:
Hydrophobic
Bonding
and
London
Dispersion.-
6.8
Formation
and
Breakdown
of
Double-Helix
Structure
Show
Cooperative
Behavior.-
6.9
Base-Pair
Tautomerism
and
Wobbling:
Structural
Aspects
of
Spontaneous
Mutation
and
the
Genetic
Code.-
Summary.-
7
Modified
Nucleosides
and
Nucleotides;
Nucleoside
Di-
and
Triphosphates;
Coenzymes
and
Antibiotics.-
7.1
Covalent
Bonds
Bridging
Base
and
Sugar
in
Fixed
Conformations:
Calipers
for
Spectroscopic
Methods.-
7.2
Cyclic
Nucleotides.-
7.3
Nucleosides
with
Modified
Sugars:
Halogeno-,
Arabino-,
and
?-Nucleosides.-
7.4
Modified
Bases:
Alkylation
of
Amino
Groups
(Cytokinins)
and
of
Ring
Nitrogen,
Thioketo
Substitution,
Dihydrouridine,
Thymine
Dimers,
Azanucleosides.-
7.5
The
Chiral
Phosphorus
in
Nucleoside
Phosphorothioates.-
7.6
The
Pyrophosphate
Group
in
Nucleoside
Di-
and
Triphosphates
and
in
Nucleotide
Coenzymes.-
7.7
Nucleoside
Antibiotics:
Puromycin
as
Example.-
Summary.-
8
Metal
Ion
Binding
to
Nucleic
Acids.-
8.1
Importance
of
Metal
Ion
Binding
for
Biological
Properties
of
Nucleic
Acids.-
8.2
Modes
of
Metal
Ion
Binding
to
Nucleotides
and
Preferred
Coordination
Sites.-
8.3
Platinum
Coordination.-
8.4
Coordination
of
Metal
Ions
to
Nucleoside
Di-
and
Triphosphates:
Nomenclature
of
Bidentate
?/?
and
of
Tridentate
?/?/endo/exo
Chelate
Geometry.-
Summary.-
9
Polymorphism
of
DNA
versus
Structural
Conservatism
of
RNA:
Classification
of
A-,
B-,
and
Z-Type
Double
Helices.-
9.1
Polymorphism
of
Polynucleotide
Double
Helices.-
9.2
The
Variety
of
Polynucleotide
Helices
with
Right-Handed
Screw
Classified
into
Two
Generically
Different
Families:
A
and
B.-
Summary.-
10
RNA
Structure.-
10.1
A-RNA
and
A?-RNA
Double
Helices
Are
Similar.-
10.2
RNA
Triple
Helices
Simultaneously
Display
Watson-Crick
and
Hoogsteen
Base-Pairing.-
10.3
A
Double
Helix
with
Parallel
Chains
and
Hoogsteen
Base-Pairs
Formed
by
Poly(U)
and
2-Substituted
Poly(A).-
10.4
Mini-Double
Helices
Formed
by
ApU
and
GpC.-
10.5
Turns
and
Bends
in
UpAH+.-
Summary.-
11
DNA
Structure.-
11.1
A-DNA,
The
Only
Member
of
the
A
Family:
Three
Crystalline
A-Type
Oligonucleotides
d(CCGG),
d(GGTATACC),
and
d(GGCCGGCC).-
11.2
B-DNA
Structures
Exhibited
by
Polymeric
DNA
and
by
the
Dodecanucleotide
d(CGCGAATTCGCG):
Introduction
to
B-Family
Duplexes.-
11.3
“Alternating
B-DNA”
and
the
Tetranucleotide
d(pATAT);
d(TpA),
Dinucleoside
Phosphate
Mimicking
Double
Helical
Arrangement.-
11.4
The
Conformationally
Stiff
Unique
Poly(dA)?Poly(dT)
Double
Helix
and
Its
Transformation
into
Triple
Helix.-
11.5
C-DNA
Double
Helix
Formed
by
Natural
and
Synthetic
DNA.-
11.6
D-DNA
Is
Only
Formed
by
Synthetic
DNA
with
Alternating
A,
T-Sequence
and
by
Phage
T2
DNA.-
11.7
DNA-RNA
Hybrids
Restricted
to
RNA-Type
Double-Helices:
A
and
A´.
Polymers
and
r(GCG)
d(TATACGC).
The
B-DNA
Form
of
Poly(A)-Poly(dT)..-
Summary.-
12
Left-Handed,
Complementary
Double
Helices
—
A
Heresy?
The
Z-DNA
Family.-
12.1
Crystal
Structures
of
Oligo(dG-dC)
Display
Left-Handed
Double
Helix.-
12.2
Extrapolation
from
Oligo-
to
Polynucleotides.
The
Z-DNA
Family:
Z-,
ZI-,
ZII,
and
Z?-DNA.-
12.3
Left-Handed
Z-DNA
Visualized
in
Fibers
of
Three
Alternating
Polydeoxynucleotides.-
12.4
Factors
Stabilizing
Z-DNA.-
12.5
Does
Z-DNA
Have
a
Biological
Significance?.-
Summary.-
13
Synthetic,
Homopolymer
Nucleic
Acids
Structures.-
13.1
Right-Handed,
Base-Stacked
Single
Helix
Revealed
for
Poly(C)
and
the
O2?-Methylated
Analog.-
13.2
Bases
Turned
“in”
and
“out”
in
Nine-
and
Twofold
Single-Stranded
Helices
of
Poly(A).-
13.3
A
Double
Helix
with
Parallel
Strands
for
Poly(AH+)?Poly(AH+)
Forms
under
Acidic
Conditions.
Helix,
Loop,
and
Base-Pair
Stacks
in
ApAH+pAH+
Dimer.-
13.4
The
Deoxydinucleotide
d(pTpT)
Suggests
Single-Stranded
Poly(dT)
Helix
with
Nonstacked
Bases
Turned
“out”.-
13.5
The
Antiparallel,
A-RNA-Type
Double
Helices
of
Poly(U),
Poly(s2U)
and
poly(X).-
13.6
Sticky
Guanosine-Gel
Structure
of
Guanosine
and
Guanylic
Acid:
Quadruple
Helix
Formed
by
Poly(G)
and
Poly(I).-
Summary.-
14
Hypotheses
and
Speculations:
Side-by-Side
Model,
Kinky
DNA,
and
?Vertical?
Double
Helix.-
14.1
Side-by-Side
Model—An
Alternative?.-
14.2
Does
DNA
Fold
by
Kinking?.-
14.3
K-
and
?-Kinked
DNA:
Breathing
with
the
Speed
of
Sound.-
14.4
Bends
in
DNA
at
Junctions
of
A-
and
B-Type
Helices.-
14.5
“Vertical”
Double
Helix
for
Polynucleotides
in
high-anti
Conformation.-
Summary.-
15
tRNA—A
Treasury
of
Stereochemical
Information.-
15.1
Primary
and
Secondary
Structure
of
tRNA:
The
Cloverleaf.-
15.2
Folding
of
the
Cloverleaf
into
Tertiary
Structure:
The
L
Shape.-
15.3
Stabilization
of
tRNA
Secondary
and
Tertiary
Structure
by
Horizontal
and
Vertical
Base-Base
Interactions.-
15.4
Change
in
Sugar
Pucker,
?
Turn,
and
Loop
with
Phosphate-Base
Stacking:
Structural
Features
of
General
Importance.-
15.5
Some
Stereochemical
Correlations
Involving
Torsion
Angles
X,?
and
?,?.-
15.6
Metal
and
Polyamine
Cation
Binding
to
tRNA.-
15.7
Anticodon
Preformed
to
Allow
Rapid
Recognition
of
Codon
via
Minihelix.-
Summary.-
16
Intercalation.-
16.1
General
Phenomena
of
Intercalation
into
DNA
and
RNA
Double
Helices.-
16.2
Stereochemistry
of
Intercalation
into
DNA-
and
RNA-Type
Dinucleoside
Phosphates.-
16.3
Improving
the
Model:
The
Daunomycin-d(CpGpTpApCpG)
Complex.-
16.4
Model
Building
Studies
Extended
to
A-
and
B-DNA.-
16.5
DNA
Saturated
with
Platinum
Drug
Unwinds
into
a
Ladder
to
Produce
L-DNA.-
16.6
Actinomycin
D:
An
Intercalator
Specific
for
the
GpC
Sequence.-
Summary.-
17
Water
and
Nucleic
Acids.-
17.1
Experimental
Evidence
for
Primary
and
Secondary
Hydration
Shells
around
DNA
Double
Helices.-
17.2
Different
Hydration
States
Associated
with
A-,
B-,
and
C-DNA.-
17.3
Solvent
Accessibilities
in
A-
and
B-DNA.-
17.4
Theoretical
Considerations.-
17.5
Hydration
Schemes
in
Crystal
Structures
of
A-DNA
Tetramer
and
B-DNA
Dodecamer
Suggest
Rationale
for
A?
B
Transition.-
17.6
Water
Pentagons
in
Crystalline
Dinucleoside
Phosphate
Intercalation
Complex:
The
Generalized
Concept
of
Circular
Hydrogen
Bonds
and
of
Flip-Flop
Dynamics.-
Summary.-
18
Protein-Nucleic
Acid
Interaction.-
18.1
General
Considerations
about
Protein-Nucleic
Acid
Interactions.-
18.2
Model
Systems
Involving
Nucleic
Acid
and
Protein
Constituents.-
18.3
Model
Systems
Combining
Nucleic
Acids
and
Synthetic
Polypeptides
or
Protamines.-
18.4
Nucleotides
and
Single-Stranded
Nucleic
Acids
Adopt
Extended
Forms
When
Binding
to
Proteins.-
18.5
Nature
of
Protein-Nucleotide
and
Nucleic
Acid
Interaction
and
Recognition.-
18.6
Proteins
Binding
to
DNA
Double
Helix
and
Single
Strands.-
18.7
Prealbumin-DNA
Interaction:
A
Hypothetical
Model.-
Summary.-
19
Higher
Organization
of
DNA.-
19.1
DNA
Condensed
into
?-Form,
Supercoils,
Beads,
Rods
and
Toroids.-
19.2
Lamellar
Microcrystals
Formed
by
Fragmented
DNA.-
19.3
DNA
in
Cells
in
Organized
in
the
Form
of
Chromosomes.-
19.4
Structure
of
the
Nucleosome
Core.-
19.5
Organization
of
Nucleosomes
into
100
Å
and
300
Å
Fibers
The
Super-Superhelix
or
Solenoid.-
19.6
Organization
of
Chromatin
in
Chromosomes:
A
Glimpse
at
Transcription.-
19.7
Topological
Problems
in
Circularly
Closed,
Supercoiled
DNA.-
Summary.-
References.