Mannan-binding lectin: structure, oligomerization, and flexibility studied by atomic force microscopy.

Abstract:

:Mannan-binding lectin (MBL) is the archetypical pathogen recognition molecule of the innate immune defense. Upon binding to microorganisms, reactions leading to the destruction of the offender ensue. MBL is an oligomer of structural subunits each composed of three identical polypeptides. We used atomic force microscopy to reveal tertiary and quaternary structures of MBL. The images in both air and buffer show a quaternary structure best described as "sertiform", that is, a hub from which the subunits fan out. The dimensions conform to those calculated from primary and secondary structures. The subunits associate with a preferred angle of 40 degrees between them. This angle is stable with respect to the degree of oligomerization for MBL of four subunits or more. Due to an interruption in the collagenous sequence, the arms of the subunits are expected to form a kink. We find that approximately 30% of the subunits are kinked and the kink angle distributed, quite broadly, around 145 degrees . The conformation and flexibility of the MBL molecule that we observe differ distinctly from the popular view of a "bouquet-like" configuration as that found for related members of the complement system such as C1q. This structural information will further the understanding of the specific functioning of the MBL pathway of complement activation.

journal_name

J Mol Biol

authors

Jensenius H,Klein DC,van Hecke M,Oosterkamp TH,Schmidt T,Jensenius JC

doi

10.1016/j.jmb.2009.05.083

subject

Has Abstract

pub_date

2009-08-07 00:00:00

pages

246-59

issue

1

eissn

0022-2836

issn

1089-8638

pii

S0022-2836(09)00677-9

journal_volume

391

pub_type

杂志文章
  • Proteolytic and conformational control of virus capsid maturation: the bacteriophage HK97 system.

    abstract::Bacteriophage capsid assembly pathways provide excellent model systems to study large-scale conformational changes and other mechanisms that regulate the formation of macromolecular complexes. These capsids are formed from proheads: relatively fragile precursor particles which mature by undergoing extensive remodeling...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1995.0538

    authors: Conway JF,Duda RL,Cheng N,Hendrix RW,Steven AC

    更新日期:1995-10-13 00:00:00

  • Specific interaction of the antiapoptotic protein Nr-13 with phospholipid monolayers is prevented by the BH3 domain of Bax.

    abstract::Members of the Bcl-2 protein family regulate apoptosis by controlling the release of apoptogenic proteins such as cytochrome c from the mitochondrial intermembrane space. Proapoptotic members induce release by increasing outer membrane permeability, while antiapoptotic members prevent this. The activity of Bcl-2 prote...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2003.10.028

    authors: Girard-Egrot A,Chauvet JP,Gillet G,Moradi-Améli M

    更新日期:2004-01-02 00:00:00

  • MPTherm-Pred: Analysis and Prediction of Thermal Stability Changes upon Mutations in Transmembrane Proteins.

    abstract::The stability of membrane proteins differs from globular proteins due to the presence of nonpolar membrane-spanning regions. Using a dataset of 929 membrane protein mutations whose effects on thermal stability (ΔTm) were experimentally determined, we found that the average ΔTm due to 190 stabilizing and 232 destabiliz...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章,评审

    doi:10.1016/j.jmb.2020.09.005

    authors: Kulandaisamy A,Zaucha J,Frishman D,Gromiha MM

    更新日期:2020-09-10 00:00:00

  • Structures of the TetR-like simocyclinone efflux pump repressor, SimR, and the mechanism of ligand-mediated derepression.

    abstract::Simocyclinone D8 (SD8), a potent DNA gyrase inhibitor made by Streptomyces antibioticus, is exported from the producing organism by the SimX efflux pump. The expression of simX is under the control of SimR, a member of the TetR family of transcriptional regulators. SimR represses simX transcription by binding to opera...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2011.02.035

    authors: Le TB,Stevenson CE,Fiedler HP,Maxwell A,Lawson DM,Buttner MJ

    更新日期:2011-04-22 00:00:00

  • Tandemization endows bovine pancreatic ribonuclease with cytotoxic activity.

    abstract::Due to their ability to degrade RNA, selected members of the bovine pancreatic ribonuclease A (RNase A) superfamily are potent cytotoxins. These cytotoxic ribonucleases enter the cytosol of target cells, where they degrade cellular RNA and cause cell death. The cytotoxic activity of most RNases, however, is abolished ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2006.03.007

    authors: Leich F,Köditz J,Ulbrich-Hofman R,Arnold U

    更新日期:2006-05-19 00:00:00

  • The RecB nuclease domain binds to RecA-DNA filaments: implications for filament loading.

    abstract::The E. coli RecBCD enzyme facilitates the loading of RecA onto single-stranded DNA produced by the combined helicase/nuclease activity of RecBCD. The nuclease domain of RecB protein, RecB(nuc), has been previously shown to bind RecA. Surprisingly, RecB(nuc) also binds to phage and eukaryotic homologs of RecA, leading ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2009.06.042

    authors: Lucarelli D,Wang YA,Galkin VE,Yu X,Wigley DB,Egelman EH

    更新日期:2009-08-14 00:00:00

  • Crystal structures of an intein from the split dnaE gene of Synechocystis sp. PCC6803 reveal the catalytic model without the penultimate histidine and the mechanism of zinc ion inhibition of protein splicing.

    abstract::The first naturally occurring split intein was found in the dnaE gene of Synechocystis sp. PCC6803 and belongs to a subclass of inteins without a penultimate histidine residue. We describe two high-resolution crystal structures, one derived from an excised Ssp DnaE intein and the second from a splicing-deficient precu...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.09.039

    authors: Sun P,Ye S,Ferrandon S,Evans TC,Xu MQ,Rao Z

    更新日期:2005-11-11 00:00:00

  • Dimerization of the erythropoietin receptor transmembrane domain in micelles.

    abstract::Erythropoietin receptor (EpoR) homodimerization is an initial regulatory step in erythrocyte formation. Receptor dimers form before ligand binding, suggesting that association between receptor proteins is dependent on the receptor itself. EpoR dimerization is an essential step in erythropoiesis, and misregulation of t...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2006.11.035

    authors: Ebie AZ,Fleming KG

    更新日期:2007-02-16 00:00:00

  • Transforming growth factor-beta (TGF-beta) binding to the extracellular domain of the type II TGF-beta receptor: receptor capture on a biosensor surface using a new coiled-coil capture system demonstrates that avidity contributes significantly to high aff

    abstract::Mature TGF-beta isoforms, which are covalent dimers, signal by binding to three types of cell surface receptors, the type I, II and III TGF-beta receptors. A complex composed of the TGF-beta ligand and the type I and II receptors is required for signaling. The type II receptor is responsible for recruiting TGF-beta in...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(03)00360-7

    authors: De Crescenzo G,Pham PL,Durocher Y,O'Connor-McCourt MD

    更新日期:2003-05-16 00:00:00

  • The denatured state under native conditions: a non-native-like collapsed state of N-PGK.

    abstract::The guanidinium-denatured state of the N-domain of phosphoglycerate kinase (PGK) has been characterized using solution NMR. Rather than behaving as a homogenous ensemble of random coils, chemical shift changes for the majority of backbone amide resonances indicate that the denatured ensemble undergoes two definable eq...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.12.080

    authors: Reed MA,Jelinska C,Syson K,Cliff MJ,Splevins A,Alizadeh T,Hounslow AM,Staniforth RA,Clarke AR,Craven CJ,Waltho JP

    更新日期:2006-03-24 00:00:00

  • Crystal structure of the tet repressor in complex with a novel tetracycline, 9-(N,N-dimethylglycylamido)- 6-demethyl-6-deoxy-tetracycline.

    abstract::The tetracycline analog 9-(N, N-dimethylglycylamido)-6-demethyl-6-deoxy-tetracycline (9glyTc) belongs to a new group of tetracyclines called glycylcyclines. They are strong antibiotics showing reduced sensitivity against the major tetracycline resistance mechanisms. We have determined the crystal structure of 9glyTc i...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1998.2290

    authors: Orth P,Schnappinger D,Sum PE,Ellestad GA,Hillen W,Saenger W,Hinrichs W

    更新日期:1999-01-15 00:00:00

  • Dramatic stabilization of an SH3 domain by a single substitution: roles of the folded and unfolded states.

    abstract::The N-terminal SH3 domain of the Drosophila drk protein (drkN SH3) exists in equilibrium between folded and unfolded states under non-denaturing buffer conditions. In order to examine the origins of this instability, we have made mutations in the domain and characterized the thermodynamics and kinetics of folding. Res...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2001.4521

    authors: Mok YK,Elisseeva EL,Davidson AR,Forman-Kay JD

    更新日期:2001-03-30 00:00:00

  • Conservation of orientation and sequence in protein domain--domain interactions.

    abstract::The repertoire of naturally occurring protein structures is usually characterised in structural terms at the domain level by their constituent folds. As structure is acknowledged to be an important stepping stone to the understanding of protein function, an appreciation of how individual domain interactions are built ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2004.11.011

    authors: Littler SJ,Hubbard SJ

    更新日期:2005-02-04 00:00:00

  • A novel class of unconventional myosins from Toxoplasma gondii.

    abstract::Here, we describe the complete deduced amino acid sequence of three unconventional myosins identified in the protozoan parasite Toxoplasma gondii. Phylogenetic analysis reveals that the three myosins represent a novel, highly-divergent class addition to the myosin superfamily. Toxoplasma gondii myosin-A (TgM-A) is a r...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1997.1167

    authors: Heintzelman MB,Schwartzman JD

    更新日期:1997-08-08 00:00:00

  • Amino/aromatic interactions in proteins: is the evidence stacked against hydrogen bonding?

    abstract::We investigate the suggestion that aromatic rings can act as hydrogen-bond acceptors in proteins, by an analysis of 55 non-homologous high-resolution protein chain structures. Approximately 10% of interactions between sp2 hybridized nitrogen atoms, from either side-chains or main-chains, and phenylalanine or tyrosine ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1994.1370

    authors: Mitchell JB,Nandi CL,McDonald IK,Thornton JM,Price SL

    更新日期:1994-06-03 00:00:00

  • Protruding domain of tomato bushy stunt virus coat protein is a hitherto unrecognized class of jellyroll conformation.

    abstract::The capsid protein of tomato bushy stunt virus (TBSV) has two antiparallel beta-sheet domains with the so-called jellyroll conformation. Contrary to previous analyses, we note that these domains are non-superimposable topologies. The TBSV shell (S) domain topology is common to many other proteins but the protruding (P...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(90)90298-Z

    authors: Gibson TJ,Argos P

    更新日期:1990-03-05 00:00:00

  • Crystal and molecular structure of barley alpha-amylase.

    abstract::The three-dimensional structure of barley malt alpha-amylase (isoform AMY2-2) was determined by multiple isomorphous replacement using three heavy-atom derivatives and solvent flattening. The model was refined using a combination of simulated annealing and conventional restrained least-squares crystallographic refinem...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1994.1354

    authors: Kadziola A,Abe J,Svensson B,Haser R

    更新日期:1994-05-27 00:00:00

  • The mechanism of transcriptional activation by the topologically DNA-linked sliding clamp of bacteriophage T4.

    abstract::Three viral proteins participate directly in transcription of bacteriophage T4 late genes: the sigma-family protein gp55 provides promoter recognition, gp33 is the co-activator, and gp45 is the activator of transcription; gp33 also represses transcription in the absence of gp45. Transcriptional activation by gp45, the...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(02)00732-5

    authors: Kolesky SE,Ouhammouch M,Geiduschek EP

    更新日期:2002-08-30 00:00:00

  • Structural Principles Governing Disease-Causing Germline Mutations.

    abstract::Advancements in sequencing in the past decades enabled not only the determination of the human proteome but also the identification of a large number of genetic variations in the human population. The phenotypic effects of these mutations range from neutral for polymorphisms to severe for some somatic mutations. Disea...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2018.10.005

    authors: Dobson L,Mészáros B,Tusnády GE

    更新日期:2018-12-07 00:00:00

  • Transfer of flexibility between ankyrin repeats in IkappaB* upon formation of the NF-kappaB complex.

    abstract::The mechanism of inhibition of the transcriptional activator nuclear factor kappaB (NF-kappaB) by the inhibitor IkappaB* is central to the understanding of the control of transcriptional activity via this widely employed pathway. Previous studies suggested that IkappaB* , a modular protein with an NF-kappaB binding do...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2008.05.048

    authors: Sue SC,Cervantes C,Komives EA,Dyson HJ

    更新日期:2008-07-25 00:00:00

  • An improved system for the generation and analysis of mutant proteins containing unnatural amino acids in Saccharomyces cerevisiae.

    abstract::We have previously described methodology that makes it possible to genetically encode a wide array of unnatural amino acids in both prokaryotic and eukaryotic organisms. Here, we report the systematic optimization of a Saccharomyces cerevisiae expression system for the production of mutant proteins containing unnatura...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2007.05.017

    authors: Chen S,Schultz PG,Brock A

    更新日期:2007-08-03 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

  • The crystal structure of ZapA and its modulation of FtsZ polymerisation.

    abstract::FtsZ is part of a mid-cell cytokinetic structure termed the Z-ring that recruits a hierarchy of fission related proteins early in the bacterial cell cycle. The widely conserved ZapA has been shown to interact with FtsZ, to drive its polymerisation and to promote FtsZ filament bundling thereby contributing to the spati...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2004.05.031

    authors: Low HH,Moncrieffe MC,Löwe J

    更新日期:2004-08-13 00:00:00

  • Enzymatic catalysis in crystals of Escherichia coli maltodextrin phosphorylase.

    abstract::The bacterial enzyme maltodextrin phosphorylase (MalP) catalyses the phosphorolysis of an alpha-1,4-glycosidic bond in maltodextrins, removing the non-reducing glucosyl residues of linear oligosaccharides as glucose-1-phosphate (Glc1P). In contrast to the well-studied muscle glycogen phosphorylase (GP), MalP exhibits ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(02)00771-4

    authors: Geremia S,Campagnolo M,Schinzel R,Johnson LN

    更新日期:2002-09-13 00:00:00

  • Thermodynamic and structural basis for transition-state stabilization in antibody-catalyzed hydrolysis.

    abstract::Catalytic antibodies 6D9 and 9C10, which were induced by immunization with a haptenic transition-state analog (TSA), catalyze the hydrolysis of a nonbioactive chloramphenicol monoester derivative to generate a bioactive chloramphenicol. These antibodies stabilize the transition state to catalyze the hydrolysis reactio...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2007.03.023

    authors: Oda M,Ito N,Tsumuraya T,Suzuki K,Sakakura M,Fujii I

    更新日期:2007-05-25 00:00:00

  • Nuclear transport of Ras-associated tumor suppressor proteins: different transport receptor binding specificities for arginine-rich nuclear targeting signals.

    abstract::Ras proteins regulate a wide range of biological processes by interacting with a variety of effector proteins. In addition to the known role in tumorigensis, the activated form of Ras exhibits growth-inhibitory effects by unknown mechanisms. Several Ras effector proteins identified as mediators of apoptosis and cell-c...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2007.01.026

    authors: Kumari G,Singhal PK,Rao MR,Mahalingam S

    更新日期:2007-04-13 00:00:00

  • Ro ribonucleoprotein assembly in vitro. Identification of RNA-protein and protein-protein interactions.

    abstract::The human Y RNAs, small RNAs with an unknown function, are complexed with at least three proteins: the 60,000 M(r) Ro protein (Ro60), the 52,000 M(r) Ro protein (Ro52) and the La protein (La). In this study we examined the intermolecular interactions between the components of these so-called Ro ribonucleoprotein (Ro R...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(92)90890-v

    authors: Slobbe RL,Pluk W,van Venrooij WJ,Pruijn GJ

    更新日期:1992-09-20 00:00:00

  • Mechanism of dissociative inhibition of HIV protease and its autoprocessing from a precursor.

    abstract::Dimerization is indispensible for release of the human immunodeficiency virus protease (PR) from its precursor (Gag-Pol) and ensuing mature-like catalytic activity that is crucial for virus maturation. We show that a single-chain Fv fragment (scFv) of a previously reported monoclonal antibody (mAb1696), which recogniz...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2012.05.024

    authors: Sayer JM,Aniana A,Louis JM

    更新日期:2012-09-14 00:00:00

  • Generation of mutated variants of the human form of the MHC class I-related receptor, FcRn, with increased affinity for mouse immunoglobulin G.

    abstract::Much data support the concept that the MHC class I-related receptor FcRn serves to regulate immunoglobulin G (IgG) concentrations in serum and other diverse body sites in both rodents and humans. Previous studies have indicated that the human ortholog of FcRn is endowed with unexpectedly high stringency in binding spe...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(03)00952-5

    authors: Zhou J,Johnson JE,Ghetie V,Ober RJ,Ward ES

    更新日期:2003-09-26 00:00:00

  • What drives proteins into the major or minor grooves of DNA?

    abstract::The energetic profiles of a significant number of protein-DNA systems at 20 degrees C reveal that, despite comparable Gibbs free energies, association with the major groove is primarily an enthalpy-driven process, whereas binding to the minor groove is characterized by an unfavorable enthalpy that is compensated by fa...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章,评审

    doi:10.1016/j.jmb.2006.09.059

    authors: Privalov PL,Dragan AI,Crane-Robinson C,Breslauer KJ,Remeta DP,Minetti CA

    更新日期:2007-01-05 00:00:00