Three-dimensional crystals of the light-harvesting chlorophyll a/b protein complex from pea chloroplasts.

Abstract:

:Two forms of three-dimensional crystals of the light-harvesting chlorophyll a/b protein complex from pea have been obtained. Crystals of one form grew as hexagonal plates measuring up to 150 micron across and 2 to 3 micron in thickness. Electron diffraction patterns of thin hexagonal plates showed sharp reflections to a resolution of 3.7 A on a hexagonal reciprocal lattice. The unit cell in projection (a = 127.0 A) and the symmetry of the diffraction pattern (6 mm) suggested that the hexagonal plates were highly ordered stacks of two-dimensional crystals suitable for structure analysis by electron microscopy and image processing. Crystals of a second form grew as dark green octahedra measuring roughly 0.5 mm across. Low-resolution X-ray diffraction patterns suggested a large cubic unit cell (a = 390 A). SDS/polyacrylamide gel electrophoresis of single octahedral crystals showed the same polypeptide composition as the starting solution, one major band at 24,000 apparent molecular weight and two satellite bands of 23,000 and 23,500 apparent molecular weight.

journal_name

J Mol Biol

authors

Kühlbrandt W

doi

10.1016/0022-2836(87)90255-5

subject

Has Abstract

pub_date

1987-04-20 00:00:00

pages

757-62

issue

4

eissn

0022-2836

issn

1089-8638

pii

0022-2836(87)90255-5

journal_volume

194

pub_type

杂志文章
  • Structures of hepatitis B virus cores presenting a model epitope and their complexes with antibodies.

    abstract::The core shell of hepatitis B virus is a potent immune stimulator, giving a strong neutralizing immune response to foreign epitopes inserted at the immunodominant region, located at the tips of spikes on the exterior of the shell. Here, we analyze structures of core shells with a model epitope inserted at two alternat...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2012.06.032

    authors: Roseman AM,Borschukova O,Berriman JA,Wynne SA,Pumpens P,Crowther RA

    更新日期:2012-10-12 00:00:00

  • Crystal structure of tannase from Lactobacillus plantarum.

    abstract::Tannins are water-soluble polyphenolic compounds in plants. Hydrolyzable tannins are derivatives of gallic acid (3,4,5-trihydroxybenzoic acid) or its meta-depsidic forms that are esterified to polyol, catechin, or triterpenoid units. Tannases are a family of esterases that catalyze the hydrolysis of the galloyl ester ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2013.04.032

    authors: Ren B,Wu M,Wang Q,Peng X,Wen H,McKinstry WJ,Chen Q

    更新日期:2013-08-09 00:00:00

  • Early events in murine erythroleukemia cells induced to differentiate. Accumulation and gene expression of the transformation-associated cellular protein p53.

    abstract::Oncogenes may play a crucial role in the genetic program of cellular differentiation; even, probably, at a very early stage in this program, which can be described as pre-commitment. We have investigated the variation in, and the control level of, the accumulation of the transformation-associated cellular protein p53 ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(88)90333-6

    authors: Khochbin S,Principaud E,Chabanas A,Lawrence JJ

    更新日期:1988-03-05 00:00:00

  • Metal-dependent conformational changes in a recombinant vWF-A domain from human factor B: a solution study by circular dichroism, fourier transform infrared and (1)H NMR spectroscopy.

    abstract::Factor B is a key component of the alternative pathway of complement and is cleaved by factor D into the Ba and Bb fragments when complexed with the activated form of C3, namely C3b. The Bb fragment contains a von Willebrand factor type A (vWF-A) domain, which is composed of an open twisted almost-parallel beta-sheet ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2000.3632

    authors: Hinshelwood J,Perkins SJ

    更新日期:2000-04-21 00:00:00

  • Structure and substrate binding properties of cobB, a Sir2 homolog protein deacetylase from Escherichia coli.

    abstract::Sirtuins are NAD+-dependent protein deacetylase enzymes that are broadly conserved from bacteria to human, and have been implicated to play important roles in gene regulation, metabolism and longevity. cobB is a bacterial sirtuin that deacetylates acetyl-CoA synthetase (Acs) at an active site lysine to stimulate its e...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2004.01.060

    authors: Zhao K,Chai X,Marmorstein R

    更新日期:2004-03-26 00:00:00

  • Computer modeling from solution data of spinach chloroplast and of Xenopus laevis somatic and oocyte 5 S rRNAs.

    abstract::Detailed atomic models of a eubacterial 5 S rRNA (spinach chloroplast 5 S rRNA) and of a eukaryotic 5 S rRNA (somatic and oocyte 5 S rRNA from Xenopus laevis) were built using computer graphic. Both models integrate stereochemical constraints and experimental data on the accessibility of bases and phosphates towards s...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(89)90264-7

    authors: Westhof E,Romby P,Romaniuk PJ,Ebel JP,Ehresmann C,Ehresmann B

    更新日期:1989-05-20 00:00:00

  • The effect of a hydrophobic N-terminal probe on translational pausing of chloramphenicol acetyl transferase and rhodanese.

    abstract::The effect on translational pausing of a hydrophobic probe, coumarin, at the N terminus of nascent peptides was investigated. Two different proteins, bacterial chloramphenicol acetyltransferase and bovine rhodanese, were synthesized by coupled transcription/translation in a cell-free system derived from Escherichia co...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1998.2481

    authors: Tsalkova T,Kramer G,Hardesty B

    更新日期:1999-02-12 00:00:00

  • Direct Evidence for Packaging Signal-Mediated Assembly of Bacteriophage MS2.

    abstract::Using cross-linking coupled to matrix-assisted laser desorption/ionization mass spectrometry and CLIP-Seq sequencing, we determined the peptide and oligonucleotide sequences at the interfaces between the capsid proteins and the genomic RNA of bacteriophage MS2. The results suggest that the same coat protein (CP)-RNA a...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2015.11.014

    authors: Rolfsson Ó,Middleton S,Manfield IW,White SJ,Fan B,Vaughan R,Ranson NA,Dykeman E,Twarock R,Ford J,Kao CC,Stockley PG

    更新日期:2016-01-29 00:00:00

  • Structure of an archaeal RNA polymerase.

    abstract::Related multisubunit RNA polymerases (RNAPs) carry out gene transcription in all kingdoms of life. Since structural information is limited to bacterial and eukaryotic RNAPs, we determined the cryo-electron microscopic structure of the RNAP from the thermophilic archaeon Pyrococcus furiosus at 13 A resolution. Comparis...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2007.08.066

    authors: Kusser AG,Bertero MG,Naji S,Becker T,Thomm M,Beckmann R,Cramer P

    更新日期:2008-02-15 00:00:00

  • A kinetic analysis of the nucleotide-induced allosteric transitions in a single-ring mutant of GroEL.

    abstract::The function of GroE requires a complex system of allosteric communication driven by protein-nucleotide interactions. These rearrangements couple the binding and hydrolysis of ATP to an overall reaction cycle in which substrate proteins are bound, encapsulated and released. Positive cooperativity with respect to ATP b...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2004.03.010

    authors: Poso D,Clarke AR,Burston SG

    更新日期:2004-05-14 00:00:00

  • The EGF-like protein dlk1 inhibits notch signaling and potentiates adipogenesis of mesenchymal cells.

    abstract::The EGF-like homeotic gene Dlk1 appears to function as an inhibitor of adipogenesis. Overexpression of Dlk1 prevents adipogenesis of 3T3-L1 cells. Dlk1-deficient mice are obese; however, adipose tissue still develops in Fc-dlk1 transgenic mice, suggesting that Dlk1 is not a strict inhibitor of adipogenesis. To clarify...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2006.10.043

    authors: Nueda ML,Baladrón V,Sánchez-Solana B,Ballesteros MA,Laborda J

    更新日期:2007-04-13 00:00:00

  • Topology Prediction Improvement of α-helical Transmembrane Proteins Through Helix-tail Modeling and Multiscale Deep Learning Fusion.

    abstract::Transmembrane proteins (TMPs) play important roles in many biological processes, such as cell recognition and communication. Their structures are crucial for revealing complex functions but are hard to obtain. A variety of computational algorithms have been proposed to fill the gap by predicting structures from primar...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2019.12.007

    authors: Feng SH,Zhang WX,Yang J,Yang Y,Shen HB

    更新日期:2020-02-14 00:00:00

  • Predicting absolute ligand binding free energies to a simple model site.

    abstract::A central challenge in structure-based ligand design is the accurate prediction of binding free energies. Here we apply alchemical free energy calculations in explicit solvent to predict ligand binding in a model cavity in T4 lysozyme. Even in this simple site, there are challenges. We made systematic improvements, be...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2007.06.002

    authors: Mobley DL,Graves AP,Chodera JD,McReynolds AC,Shoichet BK,Dill KA

    更新日期:2007-08-24 00:00:00

  • Primate evolution of the alpha-globin gene cluster and its Alu-like repeats.

    abstract::The arrangement of alpha-globin genes in Old World and New World monkeys and a prosimian, galago, has been determined by restriction mapping. Recombinant DNAs containing galago and Old World monkey alpha-globin genes have been isolated and subjected to a partial sequence determination for comparison to alpha-globin ge...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(86)90022-7

    authors: Sawada I,Schmid CW

    更新日期:1986-12-20 00:00:00

  • A Distinct Motif in a Prokaryotic Small Ras-Like GTPase Highlights Unifying Features of Walker B Motifs in P-Loop NTPases.

    abstract::A hallmark of the catalytically essential Walker B motif of P-loop NTPases is the presence of an acidic residue (aspartate/glutamate) for efficient Mg2+ coordination. Although the Walker B motif has been identified in well-studied examples of P-loop NTPases, its identity is ambiguous in many families, for example, in ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2020.07.024

    authors: Kanade M,Chakraborty S,Shelke SS,Gayathri P

    更新日期:2020-09-18 00:00:00

  • Sequence-dependent upstream DNA-RNA polymerase interactions in the open complex with lambdaPR and lambdaPRM promoters and implications for the mechanism of promoter interference.

    abstract::Upstream interactions of Escherichia coli RNA polymerase (RNAP) in an open promoter complex (RPo) formed at the P(R) and P(RM) promoters of bacteriophage lambda have been studied by atomic force microscopy. We demonstrate that the previously described 30-nm DNA compaction observed upon RPo formation at P(R) [Rivetti, ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2008.11.019

    authors: Mangiarotti L,Cellai S,Ross W,Bustamante C,Rivetti C

    更新日期:2009-01-23 00:00:00

  • The Role of RNA in Biological Phase Separations.

    abstract::Phase transitions that alter the physical state of ribonucleoprotein particles contribute to the spacial and temporal organization of the densely packed intracellular environment. This allows cells to organize biologically coupled processes as well as respond to environmental stimuli. RNA plays a key role in phase sep...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章,评审

    doi:10.1016/j.jmb.2018.05.003

    authors: Fay MM,Anderson PJ

    更新日期:2018-11-02 00:00:00

  • Expression-system-dependent modulation of HIV-1 envelope glycoprotein antigenicity and immunogenicity.

    abstract::Recombinant expression systems differ in the type of glycosylation they impart on expressed antigens such as the human immunodeficiency virus type 1 (HIV-1) envelope glycoproteins, potentially affecting their biological properties. We performed head-to-head antigenic, immunogenic and molecular profiling of two distant...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2010.08.033

    authors: Kong L,Sheppard NC,Stewart-Jones GBE,Robson CL,Chen H,Xu X,Krashias G,Bonomelli C,Scanlan CN,Kwong PD,Jeffs SA,Jones IM,Sattentau QJ

    更新日期:2010-10-15 00:00:00

  • The type I restriction endonuclease R.EcoR124I: over-production and biochemical properties.

    abstract::In this paper we describe a two-plasmid system which allows over-production of the R.EcoR124I restriction endonuclease. The endonuclease has been purified to homogeneity in milligram amounts and has been shown to be fully active for both restriction and modification. Unexpectedly, the enzyme was found to require only ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1996.0217

    authors: Janscak P,Abadjieva A,Firman K

    更新日期:1996-04-19 00:00:00

  • Crystal structure of Leishmania mexicana glycosomal glyceraldehyde-3-phosphate dehydrogenase in a new crystal form confirms the putative physiological active site structure.

    abstract::The structure of glycosomal glyceraldehyde-3-phosphate dehydrogenase (GAPDH) from the trypanosomatid parasite Leishmania mexicana in a new crystal form has been determined by X-ray crystallography. The protein crystallizes in space group P21 with one 156 kDa tetramer per asymmetric unit. The model of the protein with ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1998.1661

    authors: Kim H,Hol WG

    更新日期:1998-04-24 00:00:00

  • How accurately and precisely can RNA structure be determined by NMR?

    abstract::The great diversity of RNA biological functions has led to widespread interest in RNA structure. Advances in synthetic and spectroscopic techniques have recently allowed the extension of NMR methods of structure determination to RNA structures of significant size and increased biological significance. However, it has ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1996.0855

    authors: Allain FH,Varani G

    更新日期:1997-03-28 00:00:00

  • RNA editing in Drosophila 4f-rnp gene nuclear transcripts by multiple A-to-G conversions.

    abstract::Pre-mRNA editing results in production of transcripts having nucleotide sequences differing from that of the DNA template. We describe the first example of RNA editing in the fruitfly Drosophila melanogaster. This editing occurs in an alternatively spliced adult head transcript arising from the single-copy nuclear 4f-...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1996.0365

    authors: Petschek JP,Mermer MJ,Scheckelhoff MR,Simone AA,Vaughn JC

    更新日期:1996-06-28 00:00:00

  • NMR studies of the interactions of SpoIIAA with its partner proteins that regulate sporulation in Bacillus subtilis.

    abstract::SpoIIAA is a key component in the network of interactions that regulate the first sporulation-specific transcription factor, sigma(F), in Bacillus subtilis. In its unphosphorylated form SpoIIAA is either phosphorylated by or forms a non-covalent complex with SpoIIAB, whereas in its phosphorylated form it is dephosphor...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2001.5142

    authors: Clarkson J,Campbell ID,Yudkin MD

    更新日期:2001-11-30 00:00:00

  • Structure of a foreign peptide displayed on the surface of bacteriophage M13.

    abstract::The use of filamentous bacteriophage M13 as a vehicle for display of foreign peptides and proteins provides a means for the construction of therapeutic, diagnostic and technological tools of broad utility. The usefulness of this technology is dependent on the ability of an inserted peptide to act as a ligand when fuse...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1994.1489

    authors: Kishchenko G,Batliwala H,Makowski L

    更新日期:1994-08-12 00:00:00

  • Antisense RNA regulation in prokaryotes: rapid RNA/RNA interaction facilitated by a general U-turn loop structure.

    abstract::Efficient gene control by antisense RNA requires rapid bi-molecular interaction with a cognate target RNA. A comparative analysis revealed that a YUNR motif (Y=pyrimidine, R=purine) is ubiquitous in RNA recognition loops in antisense RNA-regulated gene systems. The (Y)UNR sequence motif specifies two intraloop hydroge...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1999.3306

    authors: Franch T,Petersen M,Wagner EG,Jacobsen JP,Gerdes K

    更新日期:1999-12-17 00:00:00

  • Manipulating conformational equilibria in the lactose permease of Escherichia coli.

    abstract::A mechanism proposed for lactose/H(+) symport by the lactose permease of Escherichia coli indicates that lactose permease is protonated prior to ligand binding. Moreover, in the ground state, the symported H(+) is shared between His322 (helix X) and Glu269 (helix VIII), while Glu325 (helix X) is charge-paired with Arg...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2001.5289

    authors: Weinglass AB,Sondej M,Kaback HR

    更新日期:2002-01-25 00:00:00

  • The effect of monastrol on the processive motility of a dimeric kinesin-5 head/kinesin-1 stalk chimera.

    abstract::Controlled activity of several kinesin motors is required for the proper assembly of the mitotic spindle. Eg5, a homotetrameric bipolar kinesin-5 from Xenopus laevis, can cross-link and slide anti-parallel microtubules apart by a motility mechanism comprising diffusional and directional modes. How this mechanism is re...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2010.03.009

    authors: Lakämper S,Thiede C,Düselder A,Reiter S,Korneev MJ,Kapitein LC,Peterman EJ,Schmidt CF

    更新日期:2010-05-28 00:00:00

  • Crystal structure at 1.95 A resolution of the breast tumour-specific antibody SM3 complexed with its peptide epitope reveals novel hypervariable loop recognition.

    abstract::The anti-breast tumour antibody SM3 has a high selectivity in reacting specifically with carcinoma-associated mucin. SM3 recognises the core repeating motif (Pro-Asp-Thr-Arg-Pro) of aberrantly glycosylated epithelial mucin MUC1, and has potential as a therapeutic and diagnostic tool. Here we report the crystal structu...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1998.2209

    authors: Dokurno P,Bates PA,Band HA,Stewart LM,Lally JM,Burchell JM,Taylor-Papadimitriou J,Snary D,Sternberg MJ,Freemont PS

    更新日期:1998-12-04 00:00:00

  • Decreased thermodynamic stability as a crucial factor for familial amyloidotic polyneuropathy.

    abstract::A single mutation in the wild-type transthyretin (WT TTR) such as V30M causes a familial amyloidotic polyneuropathy disease. Comparison of the three-dimensional crystal structures of WT and V30M does not tell much about the reason. High-pressure NMR revealed that at neutral pH both WT and V30M exist as equilibrium bet...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/S0022-2836(02)00425-4

    authors: Niraula TN,Haraoka K,Ando Y,Li H,Yamada H,Akasaka K

    更新日期:2002-07-05 00:00:00

  • Differential melting of the transcription start site associated with changes in RNA polymerase-promoter contacts in initiating transcription complexes.

    abstract::Formaldehyde cross-linking was used in a kinetic analysis of RNA polymerase-lacUV5 promoter interactions in open complexes (RP(o)). RP(o) quenched from 37 degrees C to 14 degrees C isomerised to a closed, competitor resistant, complex (RP(LT)). We observed that contacts of the beta' and sigma subunits with the positio...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2000.4483

    authors: Brodolin K,Buckle M

    更新日期:2001-03-16 00:00:00