Growth of sea cucumber collagen fibrils occurs at the tips and centers in a coordinated manner.

Abstract:

:Collagen fibrils are the principle source of mechanical strength in the mutable dermis of the sea cucumber Cucumaria frondosa. To obtain information about the mechanism by which collagen molecules self-assemble into fibrils, we have isolated single intact fibrils with lengths in the range 14-444 microm. These fibrils have been studied by scanning transmission electron microscopy, yielding data that show how cross-sectional mass, and hence the number of molecules in the cross-section, depend on axial location. In an individual fibril, the two ends always display similar mass distributions. The two tips of each fibril must therefore maintain identity in shape and size throughout growth. The linear relationship between cross-sectional mass and distance from the adjacent end shows that a growing tip is (like the tip of a vertebrate collagen fibril) paraboloidal in shape. Comparison of data from many different fibrils, over a wide range of lengths, however, revealed that the paraboloidal tip becomes blunter as the fibril grows in length. In contrast to vertebrate fibrils, those from C. frondosa do not have a central shaft region of constant cross-sectional mass. Rather, the cross-sectional mass increases to a maximum in the center of each fibril. The maximum cross-sectional mass of the fibrils increases exponentially with increasing fibril length. The centrosymmetry, the paraboloidal shape of the tips, and the hyperbolic increase in maximum cross-sectional mass with fibril length, is evidence for a co-ordinated regulation of length and diameter, which differs from the kind of regulation that gives rise to collagen fibrils in vertebrates (chickens and mice).

journal_name

J Mol Biol

authors

Trotter JA,Chapman JA,Kadler KE,Holmes DF

doi

10.1006/jmbi.1998.2230

subject

Has Abstract

pub_date

1998-12-18 00:00:00

pages

1417-24

issue

5

eissn

0022-2836

issn

1089-8638

pii

S0022-2836(98)92230-6

journal_volume

284

pub_type

杂志文章
  • Crystal structures of Urtica dioica agglutinin and its complex with tri-N-acetylchitotriose.

    abstract::Urtica dioica agglutinin is a small plant lectin that binds chitin. We purified the isolectin VI (UDA-VI) and crystal structures of the isolectin and its complex with tri-N-acetylchitotriose (NAG3) were determined by X-ray analysis. The UDA-VI consists of two domains analogous to hevein and the backbone folding of eac...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2000.3594

    authors: Harata K,Muraki M

    更新日期:2000-03-31 00:00:00

  • Domain structure, stability and domain-domain interactions in recombinant factor XIII.

    abstract::The process of heat denaturation of recombinant factor XIII (rFXIII), as well as its C-terminal 24 kDA and 12 kDa elastase-produced fragments starting at Ser514 and Thr628, respectively, was investigated in a wide range of conditions by fluorescence, CD and differential scanning calorimetry (DSC). It was found that th...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(95)80060-3

    authors: Kurochkin IV,Procyk R,Bishop PD,Yee VC,Teller DC,Ingham KC,Medved LV

    更新日期:1995-04-28 00:00:00

  • Crystal structure of abrin-a at 2.14 A.

    abstract::The crystal structure of abrin-a, a type II ribosome-inactivating protein from the seeds of Abrus precatorius, has been determined from a novel crystalline form by the molecular replacement method using the coordinates of ricin. The structure has been refined at 2.14 A to a R-factor of 18.9%. The root-mean-square devi...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1995.0382

    authors: Tahirov TH,Lu TH,Liaw YC,Chen YL,Lin JY

    更新日期:1995-07-14 00:00:00

  • Nascent β Structure in the Elongated Hydrophobic Region of a Gerstmann-Sträussler-Scheinker PrP Allele.

    abstract::Prion diseases are neurodegenerative disorders caused by the misfolding of the cellular prion protein (PrPC). Gerstmann-Sträussler-Scheinker syndrome is an inherited prion disease with one early-onset allele (HRdup) containing an eight-amino-acid insertion; this LGGLGGYV insert is positioned after valine 129 (human Pr...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2019.04.027

    authors: Fu ZL,Holmes PC,Westaway D,Sykes BD

    更新日期:2019-06-28 00:00:00

  • On the mechanism of leftward frameshifting at several hungry codons.

    abstract::We have used lacZ reporter genes to assess leftward ribosome frameshifting on sequences containing the quadruplet U UUC followed by several different triplets coding for lysine, isoleucine, or leucine. Limitation for lysine-tRNA provokes leftward frameshifting when the slippery quadruplet is followed by either lysine ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1996.0117

    authors: Barak Z,Lindsley D,Gallant J

    更新日期:1996-03-08 00:00:00

  • Intermicrobial Interactions as a Driver for Community Composition and Stratification of Oral Biofilms.

    abstract::The oral cavity is accessible to microorganisms, and biofilms are present throughout on hard and soft tissues. The shedding of epithelial cell layers is usually effective for controlling biofilm development on soft tissues. Innate immune mechanisms are not so effective against biofilms on tooth surfaces, and oral hygi...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章,评审

    doi:10.1016/j.jmb.2015.09.022

    authors: Jakubovics NS

    更新日期:2015-11-20 00:00:00

  • A Theoretical Framework for Evolutionary Cell Biology.

    abstract::One of the last uncharted territories in evolutionary biology concerns the link with cell biology. Because all phenotypes ultimately derive from events at the cellular level, this connection is essential to building a mechanism-based theory of evolution. Given the impressive developments in cell biological methodologi...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章,评审

    doi:10.1016/j.jmb.2020.02.006

    authors: Lynch M,Trickovic B

    更新日期:2020-03-27 00:00:00

  • Identification of 5-hydroxycytidine at position 2501 concludes characterization of modified nucleotides in E. coli 23S rRNA.

    abstract::Complete characterization of a biomolecule's chemical structure is crucial in the full understanding of the relations between their structure and function. The dominating components in ribosomes are ribosomal RNAs (rRNAs), and the entire rRNA-but a single modified nucleoside at position 2501 in 23S rRNA-has previously...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2011.06.036

    authors: Havelund JF,Giessing AM,Hansen T,Rasmussen A,Scott LG,Kirpekar F

    更新日期:2011-08-19 00:00:00

  • Interstrand duplexes in Friend erythroleukemia nuclear RNA. The interaction of non-polyadenylated nuclear RNA with polyadenylated nuclear RNA and with small nuclear RNAs.

    abstract::Intermolecular duplexes among large nuclear RNAs, and between small nuclear RNA and heterogeneous nuclear RNA, were studied after isolation by a procedure that yielded protein-free RNA without the use of phenol or high salt. The bulk of the pulse-labeled RNA had a sedimentation coefficient greater than 45 S. After hea...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(84)90461-3

    authors: Miller KS,Zbrzezna V,Pogo AO

    更新日期:1984-08-05 00:00:00

  • Solution structure of a phage-derived peptide antagonist in complex with vascular endothelial growth factor.

    abstract::Vascular endothelial growth factor (VEGF) is a potent endothelial cell-specific mediator of angiogenesis and vasculogenesis. VEGF is involved pathologically in cancer, proliferative retinopathy and rheumatoid arthritis, and as such represents an important therapeutic target. Three classes of disulfide-constrained pept...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2001.5370

    authors: Pan B,Li B,Russell SJ,Tom JY,Cochran AG,Fairbrother WJ

    更新日期:2002-02-22 00:00:00

  • Serpin acceleration of amyloid fibril formation: a role for accessory proteins.

    abstract::Protein aggregation underlies an increasing number of human diseases. Recent experiments have shown that the aggregation reaction is exquisitely specific involving particular interactions between non-native proteins. However, aggregation of certain proteins, for example beta-amyloid, in vivo leads to the recruitment o...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2006.11.062

    authors: Powers GA,Pham CL,Pearce MC,Howlett GJ,Bottomley SP

    更新日期:2007-02-16 00:00:00

  • Domain structure and quaternary organization of the bacteriophage P22 Erf protein.

    abstract::The structure and activities of the recombination-promoting P22 Erf protein were examined in vitro. Treatment of the protein with elastase produces a stable amino-terminal fragment, consisting of amino acid residues 1 to (approximately) 136. We have purified this fragment, designated fragment B, to apparent homogeneit...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(83)90037-2

    authors: Poteete AR,Sauer RT,Hendrix RW

    更新日期:1983-12-25 00:00:00

  • Interior and surface of monomeric proteins.

    abstract::The solvent-accessible surface area (As) of 46 monomeric proteins is calculated using atomic co-ordinates from high-resolution and well-refined crystal structures. The As of these proteins can be determined to within 1 to 2% and that of their individual residues to within 10 to 20%. The As values of proteins are corre...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(87)90038-6

    authors: Miller S,Janin J,Lesk AM,Chothia C

    更新日期:1987-08-05 00:00:00

  • Superhelical DNA with local substructures. A generalization of the topological constraint in terms of the intersection number and the ladder-like correspondence surface.

    abstract::The presence of certain local structural elements in superhelical DNA, such as cruciforms and denatured loops, complicates the topological and geometric analysis of these molecules. In particular, the duplex axis is often difficult to define. In consequence, the usual conservation condition, Lk = Tw + Wr, is often ina...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(87)90337-8

    authors: White JH,Bauer WR

    更新日期:1987-05-05 00:00:00

  • The structure of the cytochrome p450cam-putidaredoxin complex determined by paramagnetic NMR spectroscopy and crystallography.

    abstract::Cytochrome P450cam catalyzes the hydroxylation of camphor in a complex process involving two electron transfers (ETs) from the iron-sulfur protein putidaredoxin. The enzymatic control of the successive steps of catalysis is critical for a highly efficient reaction. The injection of the successive electrons is part of ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2013.07.006

    authors: Hiruma Y,Hass MA,Kikui Y,Liu WM,Ölmez B,Skinner SP,Blok A,Kloosterman A,Koteishi H,Löhr F,Schwalbe H,Nojiri M,Ubbink M

    更新日期:2013-11-15 00:00:00

  • Ligand-induced conformational changes in ras p21: a normal mode and energy minimization analysis.

    abstract::A normal mode and energy minimization of ras p21 is used to determine the flexibility of the protein and the origin of the conformational differences between GTP and GDP-bound forms. To preserve the integrity of the structures, a hydration shell of water molecules was included as part of the system. Certain low-freque...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1997.1313

    authors: Ma J,Karplus M

    更新日期:1997-11-21 00:00:00

  • Rapid creation of a novel protein function by in vitro coevolution.

    abstract::We have developed a simple and efficient method for creation of novel protein functions in an existing protein scaffold. The in vitro coevolution method involves design of a hypothetical pathway for the target function followed by stepwise directed evolution of the corresponding protein along the pathway. As a test ca...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.02.070

    authors: Chen Z,Zhao H

    更新日期:2005-05-20 00:00:00

  • Alternative native flap conformation revealed by 2.3 A resolution structure of SIV proteinase.

    abstract::A large conformational change is observed between HIV-1 proteinase in the ligand-free state and in complexes with transition-state inhibitors. Crystal structures of this enzyme have either the flaps open for the native or ligand-free enzyme or the flaps closed for peptidomimetic ligand-bound enzyme. We describe the st...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1994.1353

    authors: Wilderspin AF,Sugrue RJ

    更新日期:1994-05-27 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

  • Invertebrate myosin filament: subfilament arrangement in the wall of tubular filaments of insect flight muscles.

    abstract::Transverse sections (100 to 140 nm thick) of the flight muscles of the fleshfly Phormia terrae-novae and the housefly Musca domestica were studied. The images of 56 tubular myosin filaments of the fleshfly and 62 filaments of the housefly were digitized and computer processed by rotational averaging. The rotational po...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(88)90637-7

    authors: Beinbrech G,Ashton FT,Pepe FA

    更新日期:1988-06-05 00:00:00

  • A single mutation in the regulatory chain of Escherichia coli aspartate transcarbamoylase results in an extreme T-state structure.

    abstract::Kinetic analysis of a mutant version of Escherichia coli aspartate transcarbamoylase in which Thr82 in the regulatory chain (Thr82r) was replaced by Ala results in a shift in the T <==> R equilibrium towards the T-state. In order to understand the structural determinants of this T-state stabilization, the X-ray struct...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1998.1923

    authors: Williams MK,Stec B,Kantrowitz ER

    更新日期:1998-08-07 00:00:00

  • The Changing Face of Aging: Highly Sulfated Glycosaminoglycans Induce Amyloid Formation in a Lattice Corneal Dystrophy Model Protein.

    abstract::Glycosaminoglycans (GAGs) are related to multiple biological functions and diseases. There is growing evidence that GAG concentration and sulfate content increase with age. The destabilizing mutation A546T in the corneal protein TGFBIp leads to lattice-type corneal dystrophy, but symptoms only appear in the fourth dec...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2017.07.014

    authors: Malmos KG,Stenvang M,Sahin C,Christiansen G,Otzen DE

    更新日期:2017-09-01 00:00:00

  • Unexpected binding mode of tick anticoagulant peptide complexed to bovine factor Xa.

    abstract::The structure of recombinant tick anticoagulant peptide (rTAP) complexed to bovine factor Xa at 3.0 A resolution reveals the structural basis for the specificity and the high affinity of rTAP. Three N-terminal residues, Tyr501, Asn502 and Arg503, play a critical role in the complex formation as suggested by earlier mu...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1998.2069

    authors: Wei A,Alexander RS,Duke J,Ross H,Rosenfeld SA,Chang CH

    更新日期:1998-01-01 00:00:00

  • Quaternary structure changes in aspartate transcarbamylase studied by X-ray solution scattering. Signal transmission following effector binding.

    abstract::The result of binding the effectors ATP and CTP to aspartate transcarbamylase was studied by X-ray solution scattering. Binding of substrate analogues produces a substantial change in the solution scattering curve, allowing us to monitor the proportion of the different quaternary structure states present in solution. ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(85)90190-1

    authors: Hervé G,Moody MF,Tauc P,Vachette P,Jones PT

    更新日期:1985-09-05 00:00:00

  • Monitoring sequence space as a test for the target of selection in viruses.

    abstract::An essential feature of viral quasispecies, predicted from quasispecies theory, is that the target of selection is the mutant distribution as a whole. To test molecularly the mutant composition selected from a viral quasispecies we reconstructed a mutant distribution using 19 antigenic variants of foot-and-mouth disea...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2004.10.066

    authors: Perales C,Martín V,Ruiz-Jarabo CM,Domingo E

    更新日期:2005-01-21 00:00:00

  • Translational activation in coliphage Qbeta: on a polycistronic messenger RNA, repression of one gene can activate translation of another.

    abstract::We present evidence for translational activation of the Qbeta coliphage maturation cistron, mediated by the presence of Qbeta replicase. This activation does not require RNA replication, translation of a second gene, or any direct protein-RNA binding at the maturation gene initiation site. Our data support a model in ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1997.1194

    authors: Priano C,Arora R,Jayant L,Mills DR

    更新日期:1997-08-22 00:00:00

  • Structure of the Vibrio cholerae Type IVb Pilus and stability comparison with the Neisseria gonorrhoeae type IVa pilus.

    abstract::Type IV pili are multifunctional filaments displayed on many bacterial pathogens. Members of the Type IVa pilus subclass are found on a diverse group of human pathogens, whereas Type IVb pili are found almost exclusively on enteric bacteria. The Type IVa and IVb subclasses are distinguished by differences in the pilin...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2012.02.017

    authors: Li J,Egelman EH,Craig L

    更新日期:2012-04-20 00:00:00

  • Electrostatic mechanism of chromatin folding.

    abstract::We describe a theoretical analysis of cation binding in the nucleosome, and in chromatin as it folds, using Manning's polyelectrolyte theory. The theory accounts remarkably well, even quantitatively, both for the interaction of histone charges with DNA in chromatin, and for the essential features of the folding proces...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(90)90081-V

    authors: Clark DJ,Kimura T

    更新日期:1990-02-20 00:00:00

  • The crystal structure of the trigonal decamer C-G-A-T-C-G-6meA-T-C-G: a B-DNA helix with 10.6 base-pairs per turn.

    abstract::The B-DNA decanucleotide C-G-A-T-C-G-6meA-T-C-G has been crystallized under the same conditions used earlier for C-G-A-T-C-G-A-T-C-G, but is found to adopt a new trigonal P3(2)21 packing mode instead of the expected orthorhombic P2(1)2(1)2(1) form. Unit cell dimensions a = b = 33.38 A, c = 98.30 A, gamma = 120 degrees...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1993.1325

    authors: Baikalov I,Grzeskowiak K,Yanagi K,Quintana J,Dickerson RE

    更新日期:1993-06-05 00:00:00

  • Identification of an epitope in the C terminus of normal prion protein whose expression is modulated by binding events in the N terminus.

    abstract::We have characterized the epitopes of a panel of 12 monoclonal antibodies (Mabs) directed to normal human cellular prion protein (PrP(C)) using ELISA and Western blotting of recombinant PrP or synthetic peptide fragments of PrP. The first group of antibodies, which is represented by Mabs 5B2 and 8B4, reacts with PrP(2...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2000.3986

    authors: Li R,Liu T,Wong BS,Pan T,Morillas M,Swietnicki W,O'Rourke K,Gambetti P,Surewicz WK,Sy MS

    更新日期:2000-08-18 00:00:00