当前位置： SCI文献检索 > PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA期刊下所有文献 > The selection of acceptable protein mutations.

The selection of acceptable protein mutations.

Abstract：

:We have determined the general constraints that govern sequence divergence in proteins that retain entirely, or very largely, the same structure and function. To do this we collected data from three different groups of orthologous sequences: those found in humans and mice, in humans and chickens, and in Escherichia coli and Salmonella enterica. In total, these organisms have 21,738 suitable pairs of orthologs, and these contain nearly 2 million mutations. The three groups differ greatly in the taxa from which they come and/or in the time that separates them from their last common ancestor. Nevertheless, the results we obtain from the three different groups are strikingly similar. For each group, the orthologous sequence pairs were assigned to six different divergence categories on the basis of their sequence identities. For categories with the same divergence, common accepted mutations have similar frequencies and rank orders in the three groups. With divergence, the width of the range of common mutations grows in the same manner in each group. We examined the distribution of mutations in protein structures. With increasing divergence, mutations increase at different rates in the buried, intermediate, and exposed regions of protein structures in a manner that explains the exponential relationship between the divergence of structure and sequence. This work implies that commonly allowed mutations are selected by a set of general constraints that are well defined and whose nature varies with divergence.

journal_name

Proc Natl Acad Sci U S A

journal_title

Proceedings of the National Academy of Sciences of the United States of America

authors

Sasidharan R,Chothia C

doi

10.1073/pnas.0703737104

subject

Has Abstract

pub_date

2007-06-12 00:00:00

pages

10080-5

issue

24

eissn

0027-8424

issn

1091-6490

pii

0703737104

journal_volume

104

pub_type

杂志文章

相关文献

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA文献大全
  • Squeezing and stick-slip friction behaviors of lubricants in boundary lubrication.

    abstract：:The fundamental questions of how lubricant molecules organize into a layered structure under nanometers confinement and what is the interplay between layering and friction are still not well answered in the field of nanotribology. While the phase transition of lubricants during a squeeze-out process under compression ...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.1805569115

    authors： Xu RG,Leng Y

    更新日期：2018-06-26 00:00:00

  • Six mRNAs with different 5' ends are encoded by a single gamma-glutamyltransferase gene in mouse.

    abstract：:The 5' region of the mouse gamma-glutamyltransferase (gamma GT; EC 2.3.2.2) gene has been cloned and analyzed. This analysis, combined with sequence information obtained from gamma GT cDNA clones, indicates that in mouse a single gamma GT gene codes for six different mRNAs that differ in their 5' sequences. Analysis o...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.90.13.6179

    authors： Rajagopalan S,Wan DF,Habib GM,Sepulveda AR,McLeod MR,Lebovitz RM,Lieberman MW

    更新日期：1993-07-01 00:00:00

  • The A gamma-globin 3' element provides no unique function(s) for human beta-globin locus gene regulation.

    abstract：:The human beta-globin locus is activated transcriptionally by a complex series of events that culminate in appropriate temporal and tissue-specific control over five separate genes during embryonic and early postnatal development. One cis-regulatory element in the locus, originally identified as an enhancer 3' to the ...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.95.17.9944

    authors： Liu Q,Tanimoto K,Bungert J,Engel JD

    更新日期：1998-08-18 00:00:00

  • The 90-kDa component of reticulocyte heme-regulated eIF-2 alpha (initiation factor 2 alpha-subunit) kinase is derived from the beta subunit of spectrin.

    abstract：:Antibodies from three different lines of monoclonal hybridomas crossreact with both the beta subunit of spectrin and the 90-kDa peptide present in highly purified preparations of the heme-controlled eIF-2 alpha (initiation factor 2 alpha-subunit) kinase from rabbit reticulocytes. Antibodies from two of the three lines...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.82.16.5332

    authors： Kudlicki W,Fullilove S,Kramer G,Hardesty B

    更新日期：1985-08-01 00:00:00

  • Acetyl-CoA carboxylase from Escherichia coli: gene organization and nucleotide sequence of the biotin carboxylase subunit.

    abstract：:Biotin carboxylase [biotin-carboxyl-carrier-protein:carbon-dioxide ligase (ADP-forming), EC 6.3.4.14] is the enzyme mediating the first step of the acetyl-CoA carboxylase [acetyl-CoA:carbon-dioxide ligase (ADP-forming), EC 6.4.1.2] reaction. We screened an Escherichia coli DNA library and a DNA fragment carrying the b...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.88.21.9730

    authors： Kondo H,Shiratsuchi K,Yoshimoto T,Masuda T,Kitazono A,Tsuru D,Anai M,Sekiguchi M,Tanabe T

    更新日期：1991-11-01 00:00:00

  • DEMETER and REPRESSOR OF SILENCING 1 encode 5-methylcytosine DNA glycosylases.

    abstract：:Cytosine methylation is an epigenetic mark that promotes gene silencing and plays important roles in development and genome defense against transposons. Methylation patterns are established and maintained by DNA methyltransferases that catalyze transfer of a methyl group from S-adenosyl-L-methionine to cytosine bases ...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.0601109103

    authors： Morales-Ruiz T,Ortega-Galisteo AP,Ponferrada-Marín MI,Martínez-Macías MI,Ariza RR,Roldán-Arjona T

    更新日期：2006-05-02 00:00:00

  • TRPC3 channels confer cellular memory of recent neuromuscular activity.

    abstract：:Skeletal muscle adapts to different patterns of motor nerve activity by alterations in gene expression that match specialized properties of contraction, metabolism, and muscle mass to changing work demands (muscle plasticity). Calcineurin, a calcium/calmodulin-dependent, serine-threonine protein phosphatase, has been ...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.0308179101

    authors： Rosenberg P,Hawkins A,Stiber J,Shelton JM,Hutcheson K,Bassel-Duby R,Shin DM,Yan Z,Williams RS

    更新日期：2004-06-22 00:00:00

  • Brain serotonin dysfunction accounts for aggression in male mice lacking neuronal nitric oxide synthase.

    abstract：:Genetically engineered mice with targeted disruption of the neuronal nitric oxide synthase (nNOS) gene established the inhibitory role of nitric oxide (NO) in male impulsive aggressive behavior. This was later confirmed by using selective nNOS inhibitors in male wild-type mice. The molecular mechanisms accounting for ...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.031487198

    authors： Chiavegatto S,Dawson VL,Mamounas LA,Koliatsos VE,Dawson TM,Nelson RJ

    更新日期：2001-01-30 00:00:00

  • Chicken neutrophils: oxidative metabolism in phagocytic cells devoid of myeloperoxidase.

    abstract：:Polymorphonuclear leukocytes isolated from chicken peritoneal exudates have been found to catalyze cyanide-insensitive stimulation of respiration and the hexose monophosphate shunt upon exposure to heat-inactivated Staphylococcus aureus. However, there was no demonstrable formate oxidation concomitant with phagocytosi...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.72.12.5012

    authors： Penniall R,Spitznagel JK

    更新日期：1975-12-01 00:00:00

  • A transduction pathway associated with receptors coupled to the inhibitory guanine nucleotide binding protein Gi that amplifies ATP-mediated arachidonic acid release.

    abstract：:ATP is copackaged and coreleased with adrenergic, serotonergic, and cholinergic neurotransmitters, suggesting a possible interaction between the signaling pathways for ATP and these coreleased neurotransmitters. Muscarinic m2 and m4, alpha 2-adrenergic, and D2-dopaminergic neurotransmitter receptors, which have in com...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.88.15.6477

    authors： Felder CC,Williams HL,Axelrod J

    更新日期：1991-08-01 00:00:00

  • Structural gene for beta-nerve growth factor not defective in familial dysautonomia.

    abstract：:The developmental loss of neurons in sympathetic, sensory, and some parasympathetic ganglia in familial dysautonomia suggests an inherited defect in the action of beta-nerve growth factor (beta-NGF). The role of this growth factor in dysautonomia has been difficult to resolve as there is no known source of authentic h...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.81.13.4213

    authors： Breakefield XO,Orloff G,Castiglione C,Coussens L,Axelrod FB,Ullrich A

    更新日期：1984-07-01 00:00:00

  • Mapping the sigma70 subunit contact sites on Escherichia coli RNA polymerase with a sigma70-conjugated chemical protease.

    abstract：:The core enzyme of Escherichia coli RNA polymerase acquires essential promoter recognition and transcription initiation activities by binding one of several sigma subunits. To characterize the proximity between sigma70, the major sigma for transcription of the growth-related genes, and the core enzyme subunits (alpha2...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.95.11.6021

    authors： Owens JT,Miyake R,Murakami K,Chmura AJ,Fujita N,Ishihama A,Meares CF

    更新日期：1998-05-26 00:00:00

  • Nmnat restores neuronal integrity by neutralizing mutant Huntingtin aggregate-induced progressive toxicity.

    abstract：:Accumulative aggregation of mutant Huntingtin (Htt) is a primary neuropathological hallmark of Huntington's disease (HD). Currently, mechanistic understanding of the cytotoxicity of mutant Htt aggregates remains limited, and neuroprotective strategies combating mutant Htt-induced neurodegeneration are lacking. Here, w...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.1904563116

    authors： Zhu Y,Li C,Tao X,Brazill JM,Park J,Diaz-Perez Z,Zhai RG

    更新日期：2019-09-17 00:00:00

  • Identification of the endonuclease domain encoded by R2 and other site-specific, non-long terminal repeat retrotransposable elements.

    abstract：:The non-long terminal repeat (LTR) retrotransposon, R2, encodes a sequence-specific endonuclease responsible for its insertion at a unique site in the 28S rRNA genes of arthropods. Although most non-LTR retrotransposons encode an apurinic-like endonuclease upstream of a common reverse transcriptase domain, R2 and many...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.96.14.7847

    authors： Yang J,Malik HS,Eickbush TH

    更新日期：1999-07-06 00:00:00

  • Genome-wide transcriptional analysis of flagellar regeneration in Chlamydomonas reinhardtii identifies orthologs of ciliary disease genes.

    abstract：:The important role that cilia and flagella play in human disease creates an urgent need to identify genes involved in ciliary assembly and function. The strong and specific induction of flagellar-coding genes during flagellar regeneration in Chlamydomonas reinhardtii suggests that transcriptional profiling of such cel...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.0408358102

    authors： Stolc V,Samanta MP,Tongprasit W,Marshall WF

    更新日期：2005-03-08 00:00:00

  • The biomass distribution on Earth.

    abstract：:A census of the biomass on Earth is key for understanding the structure and dynamics of the biosphere. However, a global, quantitative view of how the biomass of different taxa compare with one another is still lacking. Here, we assemble the overall biomass composition of the biosphere, establishing a census of the ≈5...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.1711842115

    authors： Bar-On YM,Phillips R,Milo R

    更新日期：2018-06-19 00:00:00

  • A new invariant of 4-manifolds.

    abstract：:We define an integer invariant [Formula: see text] of a smooth, compact, closed 4-manifold X by minimizing a certain complexity of a trisection of X over all trisections. The good feature of [Formula: see text] is that when [Formula: see text] and X is a homology 4-sphere, then X is diffeomorphic to the 4-sphere. Natu...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.1718953115

    authors： Kirby R,Thompson A

    更新日期：2018-10-23 00:00:00

  • Introduction by molecular cloning of artifactual inverted sequences at the 5' terminus of the sense strand of bovine parathyroid hormone cDNA.

    abstract：:To study the structure and function of the gene for parathyroid hormone, we obtained recombinant plasmids containing bovine parathyroid hormone cDNA. The nucleotide sequence at the 5' terminus (relative to the sense strand) of the cDNA insert in a recombinant plasmid, pPTHi4, was different from that previously reporte...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.78.7.4073

    authors： Weaver CA,Gordon DF,Kemper B

    更新日期：1981-07-01 00:00:00

  • Stereochemistry of a curare alkaloid: O,O',N-trimethyl-d-tubocurarine.

    abstract：:The three-dimensional structure of O,O',N-trimethyl-d-tubocurarine, a neuromuscular blocking agent, has been determined by x-ray crystallography. This may help to provide insight into its pharmacologic action. ...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.69.8.2212

    authors： Sobell HM,Sakore TD,Tavale SS,Canepa FG,Pauling P,Petcher TJ

    更新日期：1972-08-01 00:00:00

  • Growth, geometry, and mechanics of a blooming lily.

    abstract：:Despite the common use of the blooming metaphor, its floral inspiration remains poorly understood. Here we study the physical process of blooming in the asiatic lily Lilium casablanca. Our observations show that the edges of the petals wrinkle as the flower opens, suggesting that differential growth drives the deploym...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.1007808108

    authors： Liang H,Mahadevan L

    更新日期：2011-04-05 00:00:00

  • Antibody-induced linkages of plasma membrane proteins to intracellular actomyosin-containing filaments in cultured fibroblasts.

    abstract：:The surface distributions of three different membrane integral proteins, beta2-microglobulin (part of the histocompatibility antigen complex), aminopeptidase (alpha-aminoacyl-peptide hydrolase; EC 3.4.11.2), and the Na+,K+-ATPase (ATP phosphohydrolase; EC 3.6.1.3) on human fibroblasts grown in monolayer culture have b...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.74.12.5584

    authors： Ash JF,Louvard D,Singer SJ

    更新日期：1977-12-01 00:00:00

  • Probing the active site tightness of DNA polymerase in subangstrom increments.

    abstract：:We describe the use of a series of gradually expanded thymine nucleobase analogs in probing steric effects in DNA polymerase efficiency and fidelity. In these nonpolar compounds, the base size was increased incrementally over a 1.0-A range by use of variably sized atoms (H, F, Cl, Br, and I) to replace the oxygen mole...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.0505113102

    authors： Kim TW,Delaney JC,Essigmann JM,Kool ET

    更新日期：2005-11-01 00:00:00

  • Bird song syntax: learned intraspecific variation is meaningful.

    abstract：:Song syntax, defined as orderly temporal arrangements of acoustic units within a bird song, is a conspicuous feature of the songs of many species of passerine birds. While syntactical features play a role in interspecific song recognition by males of many bird species, syntax variation within species and female respon...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.85.10.3657

    authors： Balaban E

    更新日期：1988-05-01 00:00:00

  • Nonconscious activation of placebo and nocebo pain responses.

    abstract：:The dominant theories of human placebo effects rely on a notion that consciously perceptible cues, such as verbal information or distinct stimuli in classical conditioning, provide signals that activate placebo effects. However, growing evidence suggest that behavior can be triggered by stimuli presented outside of co...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章,随机对照试验

    doi：10.1073/pnas.1202056109

    authors： Jensen KB,Kaptchuk TJ,Kirsch I,Raicek J,Lindstrom KM,Berna C,Gollub RL,Ingvar M,Kong J

    更新日期：2012-09-25 00:00:00

  • Akt1 deficiency affects neuronal morphology and predisposes to abnormalities in prefrontal cortex functioning.

    abstract：:There is accumulating evidence that AKT signaling plays a role in the pathogenesis of schizophrenia. We asked whether Akt1 deficiency in mice results in structural and functional abnormalities in prefrontal cortex (PFC). Exploratory transcriptional profiling revealed concerted alterations in the expression of PFC gene...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.0604994103

    authors： Lai WS,Xu B,Westphal KG,Paterlini M,Olivier B,Pavlidis P,Karayiorgou M,Gogos JA

    更新日期：2006-11-07 00:00:00

  • Magnetic field tomography of coherent thalamocortical 40-Hz oscillations in humans.

    abstract：:This paper introduces the use of magnetic field tomography (MFT), a noninvasive technique based on distributed source analysis of magnetoencephalography data, which makes possible the three-dimensional reconstruction of dynamic brain activity in humans. MFT has a temporal resolution better than 1 msec and a spatial ac...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.88.24.11037

    authors： Ribary U,Ioannides AA,Singh KD,Hasson R,Bolton JP,Lado F,Mogilner A,Llinás R

    更新日期：1991-12-15 00:00:00

  • Phosphorylation in vivo and in vitro of human histocompatibility antigens (HLA-A and HLA-B) in the carboxy-terminal intracellular domain.

    abstract：:HLA-A and -B antigens are phosphorylated in transformed lymphoblastoid cells and peripheral blood lymphocytes, both incubated with 32Pi. The phosphate group is attached to HLA-A and -B heavy chain (p44) as identified by immunoprecipitation with anti-beta2-microglobulin IgG, sodium dodecyl sulfate/polyacrylamide gel el...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.75.12.6002

    authors： Pober JS,Guild BC,Strominger JL

    更新日期：1978-12-01 00:00:00

  • Neural-inspired sensors enable sparse, efficient classification of spatiotemporal data.

    abstract：:Sparse sensor placement is a central challenge in the efficient characterization of complex systems when the cost of acquiring and processing data is high. Leading sparse sensing methods typically exploit either spatial or temporal correlations, but rarely both. This work introduces a sparse sensor optimization that i...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.1808909115

    authors： Mohren TL,Daniel TL,Brunton SL,Brunton BW

    更新日期：2018-10-16 00:00:00

  • Uptake of the anticancer drug cisplatin mediated by the copper transporter Ctr1 in yeast and mammals.

    abstract：:Cisplatin is a chemotherapeutic drug used to treat a variety of cancers. Both intrinsic and acquired resistance to cisplatin, as well as toxicity, limit its effectiveness. Molecular mechanisms that underlie cisplatin resistance are poorly understood. Here we demonstrate that deletion of the yeast CTR1 gene, which enco...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.162491399

    authors： Ishida S,Lee J,Thiele DJ,Herskowitz I

    更新日期：2002-10-29 00:00:00

  • Transcription of oxygen-regulated photosynthetic genes requires DNA gyrase in Rhodobacter capsulatus.

    abstract：:The regulation of the photosynthetic genes by DNA supercoiling in Rhodobacter capsulatus has been studied by using gyrase inhibitors in vivo and by measurement of mRNA levels of more than a dozen genes. The results demonstrate that the levels of mRNA for light-harvesting (I, II) and reaction center (L, M, H) proteins,...

    journal_title：Proceedings of the National Academy of Sciences of the United States of America

    pub_type： 杂志文章

    doi：10.1073/pnas.85.12.4209

    authors： Zhu YS,Hearst JE

    更新日期：1988-06-01 00:00:00