Abstract：
:Plexins are transmembrane proteins that serve as guidance receptors during angiogenesis, lymphangiogenesis, neuronal development, and zebrafish fin regeneration, with a putative role in cancer metastasis. Receptor dimerization or clustering, induced by extracellular ligand binding but modulated in part by the plexin transmembrane (TM) and juxtamembrane (JM) domains, is thought to drive plexin activity. Previous studies indicate that isolated plexin TM domains interact through a conserved, small-x3-small packing motif, and the cytosolic JM region interacts through a hydrophobic heptad repeat; however, the roles and interplay of these regions in plexin signal transduction remain unclear. Using an integrated experimental and simulation approach, we find disruption of the small-x3-small motifs in the Danio rerio Plexin A3 TM domain enhances dimerization of the TM-JM domain by enhancing JM-mediated dimerization. Furthermore, mutations of the cytosolic JM heptad repeat that disrupt dimerization do so even in the presence of TM domain mutations. However, mutations to the small-x3-small TM interfaces also disrupt Plexin A3 signaling in a zebrafish axonal guidance assay, indicating the importance of this TM interface in signal transduction. Collectively, our experimental and simulation results demonstrate that multiple TM and JM interfaces exist in the Plexin A3 homodimer, and these interfaces independently regulate dimerization that is important in Plexin A3 signal transduction.
journal_name
Biochemistryjournal_title
Biochemistryauthors
Barton R,Khakbaz P,Bera I,Klauda JB,Iovine MK,Berger BWdoi
10.1021/acs.biochem.6b00517subject
Has Abstractpub_date
2016-09-06 00:00:00pages
4928-38issue
35eissn
0006-2960issn
1520-4995journal_volume
55pub_type
杂志文章相关文献
BIOCHEMISTRY文献大全abstract：:The binding properties of substrates and competitive inhibitors of Escherichia coli cytidine deaminase are compared with those of the fragments obtained by cutting these ligands at several positions including the glycosidic bond. In contrast with the normal substrate cytidine (kcat/Km = 2.6 x 10(6) M-1 s-1), cytosine ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi980959n
更新日期：1998-08-25 00:00:00
abstract：:A complex of photoreceptor phoborhodopsin (ppR; also called sensory rhodopsin II) and its cognate halobacterial transducer II (pHtrII) existing in the plasma membrane mediates the light signal to the cytoplasm in the earliest step of negative phototaxis in Natronomonas pharaonis. We have investigated the dynamics of t...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi602482s
更新日期：2007-05-08 00:00:00
abstract：:Amphiphiles respond both to polar and to nonpolar solvents. In this paper X-ray diffraction and osmotic stress have been used to examine the phase behavior, the structural dimensions, and the work of deforming the monolayer-lined aqueous cavities formed by mixtures of dioleoylphosphatidylethanolamine (DOPE) and dioleo...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00453a010
更新日期：1990-01-09 00:00:00
abstract：:The Fpg protein from Escherichia coli is a multifunctional protein that excises damaged purine bases from DNA to generate aldehydic abasic sites and then catalyzes the successive cleavage of the phosphodiester bonds first on the 3'-side and then on the 5'-side of the abasic site to generate 5'- and 3'-phosphate ends, ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi9522662
更新日期：1996-01-16 00:00:00
abstract：:The solution conformation of potato carboxypeptidase inhibitor (CPI) has been investigated by 1H NMR spectroscopy. The spectrum is assigned in a sequential manner by using two-dimensional NMR techniques to identify through-bond and through-space (less than 5 A) connectivities. A set of 309 approximate interproton dist...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00398a069
更新日期：1987-12-01 00:00:00
abstract：:The origin of the nuclear magnetic resonance (NMR)-measurable ATP in equilibrium Pi exchange and whether it can be used to determine net oxidative ATP synthesis rates in the intact myocardium were examined by detailed measurements of ATP in equilibrium Pi exchange rates in both directions as a function of the myocardi...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00397a045
更新日期：1987-11-17 00:00:00
abstract：:Molecular dynamics simulations of barnase have been conducted both in water and in 8 M urea solution for 500 ps at 25 degrees C and for 2000 ps at 85 degrees C. The final structure of the aqueous simulation at room temperature matches closely the structure obtained by NMR and the experimentally observed protections fr...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi970096i
更新日期：1997-06-17 00:00:00
abstract：:Rett syndrome causing missense mutations in the methyl-CpG-binding domain (MBD) of methyl CpG-binding protein 2 (MeCP2) were investigated both in silico and in vitro to reveal their effect on protein stability. It is demonstrated that the vast majority of frequently occurring mutations in the human population indeed a...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/acs.biochem.5b00790
更新日期：2015-10-20 00:00:00
abstract：:The inhibitory potency of 3'-azido-3'-deoxythymidine 5'-triphosphate (AZTTP) against HIV-1 reverse transcriptase (HIV-1 RT) has been further evaluated. The results indicate that the previously reported low Ki values for AZTTP against HIV-1 RT (2.35 nM) are due neither to the to the direct tight binding of AZTTP to HIV...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00120a013
更新日期：1992-02-11 00:00:00
abstract：:The proline catabolic enzyme Δ(1)-pyrroline-5-carboxylate dehydrogenase (ALDH4A1) catalyzes the NAD(+)-dependent oxidation of γ-glutamate semialdehyde to l-glutamate. In Saccharomyces cerevisiae, ALDH4A1 is encoded by the PUT2 gene and known as Put2p. Here we report the steady-state kinetic parameters of the purified ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi500048b
更新日期：2014-03-04 00:00:00
abstract：:Human melanin-concentrating hormone (hMCH) and many of its analogues are potent but nonspecific ligands for human melanin-concentrating hormone receptors 1 and 2 (hMCH-1R and hMCH-2R). To differentiate between the physiological functions of these receptors, selective antagonists are needed. In this study, analogues of...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi0200514
更新日期：2002-05-21 00:00:00
abstract：:Because of its ability to selectively glucosylate misfolded glycoproteins, UDP-glucose:glycoprotein glucosyltransferase (UGGT) functions as a folding sensor in the glycoprotein quality control system in the endoplasmic reticulum (ER). The unique property of UGGT derives from its ability to transfer a glucose residue t...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/acs.biochem.5b00785
更新日期：2015-08-11 00:00:00
abstract：:Dynemicin A (1), a member of the enediyne family of natural products, binds to double-stranded DNA (K(B) approximately 10(4) M(-1)) and in the presence of millimolar concentrations of a reducing cofactor such as NADPH or GSH reacts to cleave DNA. In this work, we show that the two flavin-based enzymes ferredoxin-NADP+...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi962976n
更新日期：1997-04-01 00:00:00
abstract：:A total of fifty single site surface phenylalanine substitution mutants have been made in the model protein staphylococcal nuclease. The fifty residues that were replaced with phenylalanine were chosen to give a broad sampling of solvent accessibility, secondary structure, and backbone conformations. The change in the...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi9725069
更新日期：1998-05-12 00:00:00
abstract：:Class I major histocompatibility complex (MHC) proteins present peptide antigens to T cells during the immune response against viruses. Peptides are loaded into newly synthesized class I heterodimers in the endoplasmic reticulum such that most or all cell surface class I molecules contain peptides derived from endogen...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00192a020
更新日期：1994-07-05 00:00:00
abstract：:In eukaryotes, a major route for ATP-dependent protein breakdown proceeds through covalent intermediates of target proteins destined for degradation and the highly conserved, 76 amino acid protein ubiquitin. In rabbit reticulocytes, it has been shown that hemin effectively inhibits this pathway by blocking the catabol...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00409a025
更新日期：1988-05-03 00:00:00
abstract：:The interaction between the calcium binding and inhibitory components of troponin is central to the regulation of muscle contraction. In this work, two-dimensional heteronuclear single-quantum coherence nuclear magnetic resonance (2D-¿1H,15N¿-HSQC NMR) spectroscopy was used to determine the stoichiometry, affinity, an...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi992579n
更新日期：2000-03-21 00:00:00
abstract：:Purine repressor (PurR) binding to specific DNA is enhanced by complexing with purines, whereas lactose repressor (LacI) binding is diminished by interaction with inducer sugars despite 30% identity in their protein sequences and highly homologous tertiary structures. Nonetheless, in switching from low- to high-affini...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi0028643
更新日期：2001-07-10 00:00:00
abstract：:Biotin synthase, the enzyme which catalyzes the last step of the biosynthesis of biotin, contains only (2Fe-2S)(2+) clusters when isolated under aerobic conditions. Previous results showed that reduction by dithionite or photoreduced deazaflavin converts the (2Fe-2S)(2+) to (4Fe-4S)(2+,+). However, until now, no detai...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi034426c
更新日期：2003-07-29 00:00:00
abstract：:Soybean lipoxygenase 1 was studied using limited proteolysis and active-site labeling to begin the structural characterization of the enzyme in solution. The serine proteases trypsin and chymotrypsin cleaved the large monomeric protein (95 kDa) into two large polypeptides, a C-terminal fragment of about 30 kDa and an ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00148a034
更新日期：1992-08-25 00:00:00
abstract：:Ammonia binds directly to the oxygen-evolving complex of photosystem II (PSII) upon formation of the S2 intermediate, as evidenced by electron paramagnetic resonance spectroscopy. We explore the binding mode by using quantum mechanics/molecular mechanics methods and simulations of extended X-ray absorption fine struct...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/acs.biochem.5b00974
更新日期：2015-09-29 00:00:00
abstract：:Deuterium nuclear magnetic resonance spectra of dimyristoylphosphatidylcholines specifically labeled in positions 2', 3', 4', 6', 8', 10', 12', and 14', of the 2 chain, of an N-deuteriomethylphosphatidylcholine, and of cholesterol-3alpha-d1, have been obtained by the Fourier transform method at 5.46 and 3.52 T on two ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00607a006
更新日期：1978-07-11 00:00:00
abstract：:We have developed a simple method for reconstituting pure, integral membrane proteins into phospholipid-protein vesicles. The method does not depend on use of detergents or sonication. It has been used successfully with three different types of integral membrane proteins: UDPglucuronosyltransferase (EC 2.4.1.17) from ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00336a040
更新日期：1985-07-16 00:00:00
abstract：:Deletion of two of the three homologous lipoyl domains that form the N-terminal half of each dihydrolipoamide acetyltransferase (E2p) polypeptide chain of the Escherichia coli pyruvate dehydrogenase complex can be achieved by in vitro deletion in the structural gene aceF. A site-directed mutagenesis of this shortened ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00401a044
更新日期：1988-01-12 00:00:00
abstract：:A general, combinatorial library method for the rapid identification of high-affinity peptide ligands of protein modular domains is reported. The validity of this method has been demonstrated by determining the sequence specificity of four Src homology 2 (SH2) domains derived from protein tyrosine phosphatase SHP-1 an...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi051408h
更新日期：2005-11-15 00:00:00
abstract：:Isothiouronium compounds [Hoving, S., Bar-Shimon, M., Tijmes, J. J., Goldshleger, R., Tal, D. M., and Karlish, S. J. (1995) J. Biol. Chem. 270, 29788-29793] act as high-affinity competitive antagonists for Na(+) and K(+) (Rb(+)) on the renal Na(+)/K(+)-ATPase where they favor the E1 conformation. We have now character...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi026071n
更新日期：2003-04-01 00:00:00
abstract：:2-[(R)-2-Hydroxypropylthio]ethanesulfonate (R-HPC) dehydrogenase (DH) catalyzes the reversible oxidation of R-HPC to 2-(2-ketopropylthio)ethanesulfonate (2-KPC) in a key reaction in the bacterial conversion of chiral epoxides to beta-keto acids. R-HPCDH is highly specific for the R-enantiomer of HPC, while a separate ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi049783h
更新日期：2004-06-01 00:00:00
abstract：:The stable tyrosine radical YD. (tyrosine 160 in the D2 polypeptide) in photosystem II (PSII) exhibits nonexponential electron spin-lattice relaxation transients at low temperature. As previously reported, the tetranuclear Mn complex in PSII significantly enhances the spin-lattice relaxation of YD.. However, in Mn-dep...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00117a033
更新日期：1992-01-21 00:00:00
abstract：:Apolipoprotein E (apoE)-knockout mice develop severe atherosclerosis associated with high levels of very low-density lipoprotein (VLDL) and intermediate-density lipoprotein (IDL) in plasma. To investigate the atherogenic role of VLDL and IDL, the lipoprotein fraction containing both VLDL and IDL (apoEko-VLDL/IDL) was ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi980762v
更新日期：1998-09-29 00:00:00
abstract：:The classical complement pathway, which plays a vital role in preventing infection, is initiated by the action of the serine proteases C1r and C1s. We have examined the hydrolysis of substrates representing cleavage sequences in the physiological substrates for C1s, C2 and C4. These studies showed that the P(1)'-P(4)'...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi035507b
更新日期：2003-12-23 00:00:00
