当前位置： SCI文献检索 > JOURNAL OF MOLECULAR BIOLOGY期刊下所有文献 > Conformation of the coat protein of filamentous bacteriophage Pf1 determined by neutron diffraction from magnetically oriented gels of specifically deuterated virions.

Conformation of the coat protein of filamentous bacteriophage Pf1 determined by neutron diffraction from magnetically oriented gels of specifically deuterated virions.

Abstract：

:The structure of filamentous bacteriophage Pf1 has been studied using neutron diffraction from magnetically oriented gels of native and valine-deuterated phage. Neutron diffraction intensities were measured to approximately 8 A resolution along the equator and first six layer-lines, and differences due to the deuterated valine residues were apparent. Analysis of equatorial data indicate that one valine residue is located at a radius of about 13 A, three are in the hydrophobic center of the protein coat at an average of about 22 A radius, and one is near the outer surface of the virion at about 28 A radius. Analysis of the three-dimensional data was initiated using the rod model for the alpha-helices of the coat protein derived from earlier X-ray diffraction studies. This model was refined against the neutron diffraction intensities from native phage to obtain a phase set that was used to calculate a difference map between the valine-deuterated and native phage. The difference map exhibits peaks that correspond to the positions of the five valine residues in the coat protein. From the amino acid sequence and the alpha-helical conformation of the coat protein, the five valine residues can be unambiguously assigned to the difference peaks. This assignment indicates that the two alpha-helices of the coat protein are parallel to one another, connected by a short stretch of non-helical peptide. The valine positions also indicate that the helical surface lattice of the phage particle is right-handed.

journal_name

J Mol Biol

journal_title

Journal of molecular biology

authors

Stark W,Glucksman MJ,Makowski L

doi

10.1016/0022-2836(88)90387-7

subject

Has Abstract

pub_date

1988-01-05 00:00:00

pages

171-82

issue

1

eissn

0022-2836

issn

1089-8638

pii

0022-2836(88)90387-7

journal_volume

199

pub_type

杂志文章

相关文献

JOURNAL OF MOLECULAR BIOLOGY文献大全
  • Synergistic activation of transcription by multiple binding sites for NF-kappa B even in absence of co-operative factor binding to DNA.

    abstract：:Regulation of eukaryotic genes is largely governed by multiple cis-acting DNA sequences recognized by specific transcription factors. The transcription factor NF-kappa B has been implicated as an important regulator of cellular and viral genes, including those of immunoglobulin kappa light chain, interleukin-2, beta-i...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/0022-2836(90)90187-q

    authors： Pettersson M,Schaffner W

    更新日期：1990-07-20 00:00:00

  • Lagging strand synthesis in coordinated DNA synthesis by bacteriophage t7 replication proteins.

    abstract：:The proteins of bacteriophage T7 DNA replication mediate coordinated leading and lagging strand synthesis on a minicircle template. A distinguishing feature of the coordinated synthesis is the presence of a replication loop containing double and single-stranded DNA with a combined average length of 2600 nucleotides. L...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.2001.5325

    authors： Lee J,Chastain PD 2nd,Griffith JD,Richardson CC

    更新日期：2002-02-08 00:00:00

  • Crystal Structure and Directed Evolution of Specificity of NlaIV Restriction Endonuclease.

    abstract：:Specificity engineering is challenging and particularly difficult for enzymes that have the catalytic machinery and specificity determinants in close proximity. Restriction endonucleases have been used as a paradigm for protein engineering, but successful cases are rare. Here, we present the results of a directed evol...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2019.04.010

    authors： Czapinska H,Siwek W,Szczepanowski RH,Bujnicki JM,Bochtler M,Skowronek KJ

    更新日期：2019-05-17 00:00:00

  • The pH-dependent structural variation of complementarity-determining region H3 in the crystal structures of the Fv fragment from an anti-dansyl monoclonal antibody.

    abstract：:The Fv fragment from an anti-dansyl antibody was optimally crystallized into two crystal forms having slightly different lattice dimensions at pH 5.25 and 6.75. The two crystal structures were determined and refined at high resolution at 112 K (at 1.45 A for the crystal at pH 5.25 and at 1.55 A for that at pH 6.75). I...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1999.2931

    authors： Nakasako M,Takahashi H,Shimba N,Shimada I,Arata Y

    更新日期：1999-08-06 00:00:00

  • Single amino acid changes in the Bacillus thuringiensis var. israelensis delta-endotoxin affect the toxicity and expression of the protein.

    abstract：:Site-directed mutagenesis has been used to change individual amino acids of the larvicidal 27,000 Mr delta-endotoxin of Bacillus thuringiensis var. israelensis. Basic and acidic residues have been systematically replaced by alanine, and the resulting mutant polypeptides analysed for cytolytic and larvicidal activity, ...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/0022-2836(88)90283-5

    authors： Ward ES,Ellar DJ,Chilcott CN

    更新日期：1988-08-05 00:00:00

  • Enzyme catalysis via control of activation entropy: site-directed mutagenesis of 6,7-dimethyl-8-ribityllumazine synthase.

    abstract：:6,7-Dimethyl-8-ribityllumazine synthase (lumazine synthase) catalyses the penultimate step in the biosynthesis of riboflavin. In Bacillus subtilis, 60 lumazine synthase subunits form an icosahedral capsid enclosing a homotrimeric riboflavin synthase unit. The ribH gene specifying the lumazine synthase subunit can be e...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/s0022-2836(02)01473-0

    authors： Fischer M,Haase I,Kis K,Meining W,Ladenstein R,Cushman M,Schramek N,Huber R,Bacher A

    更新日期：2003-02-21 00:00:00

  • Conformational aspects of an uncharged phosphate analogon built in at the branch-point of a DNA four-way junction.

    abstract：:Electrostatic interactions appear to be important in the conformation and dynamics of DNA four-way junctions. Particularly, the Coulomb repulsion between two approaching phosphate groups at the site of strand exchange is commonly supposed to have a negative influence on the thermodynamic stability of the fully stacked...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1996.0518

    authors： Pikkemaat JA,Overmars FJ,Dreef-Tromp CM,van den Elst H,van Boom JH,Altona C

    更新日期：1996-09-27 00:00:00

  • Thermal expansion of hen egg-white lysozyme. Comparison of the 1.9 A resolution structures of the tetragonal form of the enzyme at 100 K and 298 K.

    abstract：:The average structural and dynamic properties of tetragonal hen egg-white lysozyme have been compared, in structures refined at 1.9 A resolution, using data collected at 100 K and 298 K. The molecule expands by 1.8% over this temperature range with the expansion occurring primarily in its small sub-atomic-sized spaces...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/s0022-2836(05)80034-8

    authors： Young AC,Tilton RF,Dewan JC

    更新日期：1994-01-07 00:00:00

  • A second higher vertebrate B-type lamin. cDNA sequence determination and in vitro processing of chicken lamin B2.

    abstract：:The chicken nuclear lamina is composed of at least three proteins called lamins A, B1 and B2. In addition, putative precursors are transiently expressed during in vivo synthesis of lamins A and B2. Here we report the complete sequence of lamin B2 as it is deduced from a cloned cDNA. Comparison of lamin B2 with lamins ...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/0022-2836(89)90505-6

    authors： Vorburger K,Lehner CF,Kitten GT,Eppenberger HM,Nigg EA

    更新日期：1989-08-05 00:00:00

  • A model of Cdc25 phosphatase catalytic domain and Cdk-interaction surface based on the presence of a rhodanese homology domain.

    abstract：:Mammalian Cdc25 phosphatase is responsible for the dephosphorylation of Cdc2 and other cyclin-dependent kinases at Thr14 and Tyr15, thus activating the kinase and allowing cell cycle progression. The catalytic domain of this dual-specificity phosphatase has recently been mapped to the 180 most C-terminal amino acids. ...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1998.1998

    authors： Hofmann K,Bucher P,Kajava AV

    更新日期：1998-09-11 00:00:00

  • Rules for coupled expression of regulator and effector genes in inducible circuits.

    abstract：:The induction of effector genes that encode enzymes is often controlled by the protein product of a regulator gene that is directly involved in the control of its own expression. This coupling of elementary gene circuits can lead to three patterns of regulator and effector gene expression. As effector gene expression ...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1996.0011

    authors： Hlavacek WS,Savageau MA

    更新日期：1996-01-12 00:00:00

  • alphaB-crystallin maintains skeletal muscle myosin enzymatic activity and prevents its aggregation under heat-shock stress.

    abstract：:Here, we provide functional and direct structural evidence that alphaB-crystallin, a member of the small heat-shock protein family, suppresses thermal unfolding and aggregation of the myosin II molecular motor. Chicken skeletal muscle myosin was thermally unfolded at heat-shock temperature (43 degrees C) in the absenc...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2006.02.043

    authors： Melkani GC,Cammarato A,Bernstein SI

    更新日期：2006-05-05 00:00:00

  • Crystal structure of a T cell receptor Valpha11 (AV11S5) domain: new canonical forms for the first and second complementarity determining regions.

    abstract：:We describe the X-ray crystallographic structure of a murine T cell receptor (TCR) Valpha domain ("Valpha85.33"; AV11S5-AJ17) to 1.85 A resolution. The Valpha85.33 domain is derived from a TCR that recognizes a type II collagen peptide associated with the murine major histocompatibility complex (MHC) class II molecule...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.2001.4794

    authors： Machius M,Cianga P,Deisenhofer J,Ward ES

    更新日期：2001-07-20 00:00:00

  • Comprehensive mutagenesis of the C-terminal domain of the M13 gene-3 minor coat protein: the requirements for assembly into the bacteriophage particle.

    abstract：:Filamentous bacteriophage assemble at the host membrane in a non-lytic process; the gene-3 minor coat protein (P3) is required for release from the membrane and subsequently, for recognition and infection of a new host. P3 contains at least three distinct domains: two N-terminal domains that mediate host recognition a...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/s0022-2836(03)00950-1

    authors： Weiss GA,Roth TA,Baldi PF,Sidhu SS

    更新日期：2003-09-26 00:00:00

  • Long-range electrostatic interactions influence the orientation of Fos-Jun binding at AP-1 sites.

    abstract：:Heterodimeric transcription regulatory proteins that bind palindromic DNA sequences can potentially bind their recognition sites in two opposite orientations. The orientation of transcription factor binding can control transcriptional activity by altering interactions with proteins that bind to adjacent regulatory ele...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.2000.4286

    authors： Ramirez-Carrozzi VR,Kerppola TK

    更新日期：2001-01-19 00:00:00

  • The refined crystal structure of toxic shock syndrome toxin-1 at 2.07 A resolution.

    abstract：:The pyrogenic toxin toxic shock syndrome toxin-1 from Staphylococcus aureus is a causative agent of the toxic shock syndrome disease. It belongs to a family of proteins known as superantigens that cross-link major histocompatibility class II molecules and T-cell receptors leading to the activation of a substantial num...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1996.0421

    authors： Papageorgiou AC,Brehm RD,Leonidas DD,Tranter HS,Acharya KR

    更新日期：1996-07-26 00:00:00

  • Interaction of the family-B DNA polymerase from the archaeon Pyrococcus furiosus with deaminated bases.

    abstract：:The interaction of archaeal family B DNA polymerases with deaminated bases has been examined. As determined previously by our group, the polymerase binds tightly to uracil (the deamination product of cytosine), in single-stranded DNA, and stalls replication on encountering this base. DNA polymerisation was also inhibi...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2007.07.015

    authors： Gill S,O'Neill R,Lewis RJ,Connolly BA

    更新日期：2007-09-28 00:00:00

  • Multimodal and Polymorphic Interactions between Anillin and Actin: Their Implications for Cytokinesis.

    abstract：:Cytokinesis of animal cells requires the assembly of a contractile ring, which promotes daughter cell splitting. Anillin is a conserved scaffold protein involved in organizing the structural components of the contractile ring including filamentous actin (F-actin), myosin, and septins and in forming the subsequent midb...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2017.01.020

    authors： Jananji S,Risi C,Lindamulage IKS,Picard LP,Van Sciver R,Laflamme G,Albaghjati A,Hickson GRX,Kwok BH,Galkin VE

    更新日期：2017-03-10 00:00:00

  • Foundations and Emerging Paradigms for Computing in Living Cells.

    abstract：:Genetic circuits, composed of complex networks of interacting molecular machines, enable living systems to sense their dynamic environments, perform computation on the inputs, and formulate appropriate outputs. By rewiring and expanding these circuits with novel parts and modules, synthetic biologists have adapted liv...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2016.02.018

    authors： Ma KC,Perli SD,Lu TK

    更新日期：2016-02-27 00:00:00

  • A structural model for the DEAD box helicase YxiN in solution: localization of the RNA binding domain.

    abstract：:DEAD box proteins consist of a common helicase core formed by two globular RecA domains that are separated by a cleft. The helicase core acts as a nucleotide-dependent switch that alternates between open and closed conformations during the catalytic cycle of duplex separation, thereby providing basic helicase activity...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2010.07.049

    authors： Karow AR,Klostermeier D

    更新日期：2010-10-01 00:00:00

  • RasIns: Genetically Encoded Intrabodies of Activated Ras Proteins.

    abstract：:K- and H-Ras are the most commonly mutated genes in human tumors and are critical for conferring and maintaining the oncogenic phenotype in tumors with poor prognoses. Here, we design genetically encoded antibody-like ligands (intrabodies) that recognize active, GTP-bound K- and H-Ras. These ligands, which use the 10t...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2016.11.008

    authors： Cetin M,Evenson WE,Gross GG,Jalali-Yazdi F,Krieger D,Arnold D,Takahashi TT,Roberts RW

    更新日期：2017-02-17 00:00:00

  • Core side-chain packing and backbone conformation in Lpp-56 coiled-coil mutants.

    abstract：:Native proteins exhibit precise geometric packing of atoms in their hydrophobic interiors. Nonetheless, controversy remains about the role of core side-chain packing in specifying and stabilizing the folded structures of proteins. Here we investigate the role of core packing in determining the conformation and stabili...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/S0022-2836(02)00138-9

    authors： Liu J,Cao W,Lu M

    更新日期：2002-05-03 00:00:00

  • Molecular insights into the interaction between alpha-synuclein and docosahexaenoic acid.

    abstract：:alpha-Synuclein (alpha-syn) is a 140-residue protein of unknown function, involved in several neurodegenerative disorders, such as Parkinson's disease. Recently, the possible interaction between alpha-syn and polyunsaturated fatty acids has attracted a strong interest. Indeed, lipids are able to trigger the multimeriz...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2009.09.008

    authors： De Franceschi G,Frare E,Bubacco L,Mammi S,Fontana A,de Laureto PP

    更新日期：2009-11-20 00:00:00

  • Reconstitution and analysis of the multienzyme Escherichia coli RNA degradosome.

    abstract：:The Escherichia coli RNA degradosome is a multienzyme assembly that functions in transcript turnover and maturation of structured RNA precursors. We have developed a procedure to reconstitute the RNA degradosome from recombinant components using modular coexpression vectors. The reconstituted assembly can be purified ...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2008.07.059

    authors： Worrall JA,Górna M,Crump NT,Phillips LG,Tuck AC,Price AJ,Bavro VN,Luisi BF

    更新日期：2008-10-17 00:00:00

  • Next-generation pathology--surveillance of tumor microecology.

    abstract：:A tumor is a heterogeneous population of cells that provides an environment in which every cell resides in a microenvironmental niche. Microscopic evaluation of tissue sections, based on histology and immunohistochemistry, has been a cornerstone in pathology for decades. However, the dawn of novel technologies to inve...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章,评审

    doi：10.1016/j.jmb.2015.02.017

    authors： Koos B,Kamali-Moghaddam M,David L,Sobrinho-Simões M,Dimberg A,Nilsson M,Wählby C,Söderberg O

    更新日期：2015-06-05 00:00:00

  • Characterization of the folding and unfolding reactions of a small beta-barrel protein of novel topology, the MTCP1 oncogene product P13.

    abstract：:The equilibrium and kinetic folding properties of a small oncogene product, P13(MTCP1), of novel topology have been investigated using perturbation by guanidine hydrochloride and observation by fluorescence, circular dichroism and two-dimensional heteronuclear NMR spectroscopy. The structure of P13(MTCP1) is comprised...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.2001.4928

    authors： Roumestand C,Boyer M,Guignard L,Barthe P,Royer CA

    更新日期：2001-09-07 00:00:00

  • Recognition of analogous and homologous protein folds: analysis of sequence and structure conservation.

    abstract：:An analysis was performed on 335 pairs of structurally aligned proteins derived from the structural classification of proteins (SCOP http://scop.mrc-lmb.cam.ac.uk/scop/) database. These similarities were divided into analogues, defined as proteins with similar three-dimensional structures (same SCOP fold classificatio...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1997.1019

    authors： Russell RB,Saqi MA,Sayle RA,Bates PA,Sternberg MJ

    更新日期：1997-06-13 00:00:00

  • Crystal structure of a human embryonic haemoglobin: the carbonmonoxy form of gower II (alpha2 epsilon2) haemoglobin at 2.9 A resolution.

    abstract：:The production of recombinant embryonic haemoglobins via a yeast expression system has enabled structural and functional studies to be conducted on these proteins. As part of a programme aimed at understanding the properties of the embryonic haemoglobins we have crystallized the human alpha2 epsilon2 (Gower II) embryo...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1998.1868

    authors： Sutherland-Smith AJ,Baker HM,Hofmann OM,Brittain T,Baker EN

    更新日期：1998-07-17 00:00:00

  • Undesigned selection for replication termination of bacterial chromosomes.

    abstract：:The oriC DNA replication origin in bacterial chromosomes, the location of which appears to be physically identified, is genetically regulated by relevant molecular machinery. In contrast, the location of the terminus remains obscure for many bacterial replicons, except for terC, the proposed and well-studied chromosom...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2014.06.005

    authors： Kono N,Arakawa K,Sato M,Yoshikawa H,Tomita M,Itaya M

    更新日期：2014-08-12 00:00:00

  • Specific mode of interaction between components of model pulmonary surfactants using computer simulations.

    abstract：:Atomistic molecular dynamics simulations and structural bioinformatics tools enable the identification of the exact mode of interaction between model pulmonary surfactant components. Two nanosecond long simulations of the N-terminal region of human surfactant protein-B (SP-B(1-25)) in dipalmitoylphosphatidylcholine (D...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/s0022-2836(02)00774-x

    authors： Kaznessis YN,Kim S,Larson RG

    更新日期：2002-09-20 00:00:00