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Keywords: NMR
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Biochem J (2022) 479 (13): 1429–1439.
Published: 04 July 2022
... 2022 The Author(s) 2022 This is an open access article published by Portland Press Limited on behalf of the Biochemical Society and distributed under the Creative Commons Attribution License 4.0 (CC BY) . cancer cisplatin CORM DNA damage NMR ruthenium Organometallic complexes...
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Biochem J (2020) 477 (2): 491–508.
Published: 31 January 2020
... B. burgdorferi (referred as BoACP), and from R. prowazekii (RiACP) have very similar structure, dynamics and biophysics, whereas ACP from B. melitensis , referred henceforth as BrACP, has more distinct features. Moreover, NMR results elucidate the presence of ACP–protein interaction sites among...
Includes: Supplementary data
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Biochem J (2019) 476 (2): 421–431.
Published: 31 January 2019
... factors . In the present study, the solution structure of TbTFIIS2-2 PWWP domain was determined by NMR spectroscopy. TbTFIIS2-2 PWWP domain adopts a global fold containing a five-strand β-barrel and two C-terminal α-helices similar to other PWWP domains. Moreover, through systematic screening, we revealed...
Includes: Supplementary data
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Biochem J (2018) 475 (23): 3763–3778.
Published: 06 December 2018
... brucei , TbCentrin4 is mainly localized in basal bodies and bi-lobe structure, and is involved in the processes coordinating karyokinesis and cytokinesis. In the present study, we solved the solution structure of TbCentrin4 using NMR (nuclear magnetic resonance) spectroscopy. TbCentrin4 contains four EF...
Includes: Supplementary data
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Biochem J (2018) 475 (17): 2861–2875.
Published: 14 September 2018
... of five periplasmic triheme cytochromes, which are important to bridge the electron transfer from the cytoplasmic donors to the extracellular acceptors. Using NMR and visible spectroscopic techniques, a detailed thermodynamic characterization of PpcA was obtained, including the determination of the heme...
Includes: Supplementary data
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Biochem J (2017) 474 (2): 231–246.
Published: 06 January 2017
.... This functional mechanism requires control of both the redox state and the protonation state. In the present study, isotope-labeled PpcA was produced and the three-dimensional structure of PpcA in the oxidized form was determined by NMR. This is the first solution structure of a G. sulfurreducens cytochrome...
Includes: Supplementary data
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Biochem J (2016) 473 (19): 3321–3339.
Published: 27 September 2016
... in a sequence-specific binding mode) did not affect the binding affinity significantly. The NMR analyses and computational modeling of the homeodomain, however, revealed the tertiary structure and DNA-binding mode that are typical of homeodomains capable of sequence-specific binding. We believe that the lack...
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Biochem J (2015) 465 (2): 337–346.
Published: 06 January 2015
... differences in the molecular mechanism of ssDNA binding. We have determined the structure of the SsoSSB OB domain bound to ssDNA by NMR spectroscopy. We reveal that ssDNA recognition is modulated by base-stacking of three key aromatic residues, in contrast with the OB domains of human RPA and the recently...
Includes: Supplementary data
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Biochem J (2015) 465 (1): 63–78.
Published: 12 December 2014
... (ITC) NMR protein dynamics The proteins of the eukaryotic ADF (actin-depolymerizing factor)/cofilin family are essential and key regulators of actin filament dynamics [ 1 ]. The ADF/cofilin proteins regulate actin filament dynamics through G-actin (globular actin) binding, F-actin...
Includes: Supplementary data
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Biochem J (2014) 458 (3): 525–536.
Published: 28 February 2014
...Sourajit M. Mustafi; Matthew Brecher; Jing Zhang; Hongmin Li; David M. Lemaster; Griselda Hernández The extensive set of NMR doublings exhibited by the immunophilin FKBP12 (FK506-binding protein 12) arose from a slow transition to the cis -peptide configuration at Gly 89 near the tip of the 80′s...
Includes: Supplementary data
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Biochem J (2014) 457 (3): 379–390.
Published: 10 January 2014
... the specificity of Q3OS binding. Elucidation of the binding site by NMR combined with a computational model resulted in a more detailed understanding and shed light on the physiological function of Bet v 1. We postulate that the binding of Q3OS to Bet v 1 plays an important, but as yet unclear, role during...
Includes: Supplementary data
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Biochem J (2013) 453 (3): 371–380.
Published: 12 July 2013
...Sourajit M. Mustafi; Hui Chen; Hongmin Li; David M. LeMaster; Griselda Hernández The 1 H- 15 N 2D NMR correlation spectrum of the widely studied FK506-binding protein FKBP12 (FK506-binding protein of 12 kDa) contains previously unreported peak doublings for at least 31 residues that arise from...
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Biochem J (2013) 450 (1): 189–197.
Published: 24 January 2013
... and reversible manner enhances both the elongation rate and fibrillar stability, where specifically the ‘dock and lock’ phase mechanism is enhanced. Through NMR analysis we found that Ca 2+ affects the fibrillar architecture. In addition, and unexpectedly, we found that Ca 2+ does not bind the free Aβ monomer...
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Biochem J (2012) 444 (3): 405–415.
Published: 29 May 2012
... no vaccine or specific treatment is available. We used NMR, zeta potential measurements and atomic force microscopy to study the structural features of the interaction between dengue virus C (capsid) protein and LDs (lipid droplets), organelles crucial for infectious particle formation. C protein-binding...
Includes: Supplementary data
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Biochem J (2012) 441 (1): 179–187.
Published: 14 December 2011
... for ATP synthesis in the presence of extracellular electron acceptors. In the present study, 15 N-labelled PpcA was produced and NMR spectroscopy was used to determine its solution structure in the fully reduced state, its backbone dynamics and the pH-dependent conformational changes. The structure...
Includes: Supplementary data
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Biochem J (2011) 438 (2): 291–301.
Published: 12 August 2011
... identified in the protein, thus making it a potential new member of the BH3-only protein family. In the present study, we provide NMR, SPR (surface plasmon resonance) and crystallographic evidence that a peptide spanning residues 147–172 in SOUL interacts with the anti-apoptotic protein Bcl-xL. We have...
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Biochem J (2011) 437 (3): 413–422.
Published: 13 July 2011
... isomerase activity and are inhibited by drugs including rapamycin and tacrolimus. We determined the structure of the Mip homologue [BpML1 ( Burkholderia pseudomallei Mip-like protein 1)] from the human pathogen and biowarfare threat B. pseudomallei by NMR and X-ray crystallography. The crystal structure...
Includes: Supplementary data
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Biochem J (2011) 436 (1): 83–90.
Published: 27 April 2011
... NMR spectroscopy. The Taf14 YEATS domain adopts a global fold of an elongated β-sandwich, similar to the Yaf9 YEATS domain. However, the Taf14 YEATS domain differs significantly from the Yaf9 YEATS domain in some aspects, which might indicate different structural classes of the YEATS domain family...
Includes: Supplementary data
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Biochem J (2011) 435 (3): 783–789.
Published: 13 April 2011
... Aquifex aeolicus NusG, with a secondary structure that is highly similar to E. coli NusG shows direct interaction between its N- and C-terminal domains in a domain-swapped dimer. In the present study, we performed NMR paramagnetic relaxation enhancement measurements and identified interdomain interactions...
Includes: Supplementary data
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Biochem J (2010) 430 (3): 487–495.
Published: 27 August 2010
... in a Grx1-like protein [Ortenberg, Gon, Porat and Beckwith (2004) Proc. Natl. Acad. Sci. U.S.A. 101 , 7439–7944]. To uncover the structural basis of this change in activity, we have compared wild-type and mutant Grx3 using CD and NMR spectroscopy. Ligand-induced stability measurements demonstrate...
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Biochem J (2010) 427 (2): 197–203.
Published: 29 March 2010
... darunavir and tipranavir, known to prevent HIV-1 PR dimerization in cells, had no effect on foamy virus protease in vitro . 1 H- 15 N HSQC (heteronuclear single quantum coherence) NMR analysis of PRshort indicates that cholic acid binds in the proposed PRshort dimerization interface and appears to impair...
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Biochem J (2010) 427 (1): 49–55.
Published: 15 March 2010
... 60 . In the present study we map perturbation of the polypeptide backbone of Alba upon binding to DNA and RNA by NMR, and demonstrate the central role of Phe 60 in forming the dimer–dimer interface. Site-directed spin labelling and pulsed ESR are used to confirm that an end-to-end, dimer–dimer...
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Biochem J (2010) 425 (2): 413–424.
Published: 23 December 2009
... isothermal titration calorimetry experiments and validated on the basis of both protein-observed and ligand-observed NMR titration data. It emerges that a singly bound protein is relatively abundant at low ligand/protein molar ratios assessing the absence of strong co-operativity. Both the measured...
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Biochem J (2006) 399 (3): 435–444.
Published: 13 October 2006
... mild acidification to pH 5.5 selects in favour of the low occupancy, multiple imidazole binding mode. We have used NMR to resolve how Cu 2+ binds to the full-length prion protein under mildly acidic conditions where multiple histidine co-ordination is dominant. We show that at pH 5.5 the protein binds...
Includes: Supplementary data
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Biochem J (2006) 394 (1): 105–114.
Published: 27 January 2006
... by replacement of Phe 5 or Leu 11 with serine was accompanied by a reduction in antimicrobial activity. Analysis of the tertiary structures of the peptides in SDS micelles by NMR spectroscopy revealed that they have a well-defined α-helical structure. Among the analogues, anal-3 has the longest α-helix, from Val...
Includes: Supplementary data
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Biochem J (2006) 394 (1): 85–93.
Published: 27 January 2006
... 2005 21 11 2005 21 11 2005 The Biochemical Society, London 2006 cyclic protein cyclotide haemolytic activity kalata NMR protein engineering The cyclotides [ 1 ] are a fascinating family of plant proteins that are distinguished by a head-to-tail peptide backbone...
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Biochem J (2006) 393 (3): 725–732.
Published: 13 January 2006
... of antiviral drugs, the structure of (13-51)NCp8 (zinc finger domain of NCp8, encompassing residues 13–51) from SIVlhoest was determined by NMR to appraise the influence of major differences in the sequence, since Glu 21 , Gly 43 and Met 46 in NCp7 are replaced by Pro, Glu and Phe respectively...
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Biochem J (2006) 393 (3): 619–626.
Published: 13 January 2006
... in the Protein Data Bank (PDB ID code 2B38). 22 8 2005 21 9 2005 6 10 2005 6 10 2005 The Biochemical Society, London 2006 anti-HIV activity cyclic backbone cystine knot motif haemolytic kalata B8 NMR The cyclotides are an expanding family of small proteins...
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Biochem J (2005) 388 (3): 755–762.
Published: 07 June 2005
... that proteins of the Hha family are essential elements for H-NS-regulated gene expression. Hha has been shown to bind H-NS, although the details for this interaction are still unknown. In the present paper, we report fluorescence anisotropy and NMR studies of the interaction between Hha and H-NS 64...
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Biochem J (2005) 387 (2): 333–341.
Published: 05 April 2005
... is implicated in properties of the protein such as DNA interaction and apoptosis via interaction with the adenine nucleotide translocator. To understand the specific interactions of Vpr-(52–96), the ability of this peptide to dimerize via a leucine-zipper mechanism has been investigated, by NMR and fluorescence...
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Biochem J (2004) 381 (3): 847–852.
Published: 27 July 2004
...Máire E. NíBEILLIÚ; J. Paul G. MALTHOUSE 13 C-NMR has been used to follow the tryptophan synthase (EC 4.2.1.20) catalysed hydrogen–deuterium exchange of the pro-2R and pro-2S protons of [2- 13 C]glycine at pH 7.8. 1 H-NMR has also been used to follow the tryptophan-synthase-catalysed hydrogen...
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Biochem J (2004) 381 (1): 155–164.
Published: 22 June 2004
... attack or a processive mode of action. Based on methodologies involving specific degrading enzymes, NMR, electrospray ionisation mass spectrometry and capillary electrophoresis we show here that on average 10 residues are epimerised for each enzyme–substrate encounter. A subsite model for the enzyme...
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Biochem J (2004) 380 (3): 867–873.
Published: 15 June 2004
... to the enzyme, and the second phase with a slow event that occurs after the reaction has taken place. The HPPK–DHPPP and HPPK–DHPPP–AMP complexes were examined by NMR, and the binding site for DHPPP partially mapped from changes in chemical shifts identified from two dimensional 1 H/ 15 N heteronuclear single...
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Biochem J (2004) 380 (2): 347–352.
Published: 01 June 2004
... selectivity for neuronal versus muscle subtype [McIntosh, Dowell, Watkins, Garrett, Yoshikami, and Olivera (2002) J. Biol. Chem. 277 , 33610–33615]. We have now determined the three-dimensional solution structure of α-conotoxin GIC by NMR spectroscopy. The structure of α-conotoxin GIC is well defined...
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