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1.
Int J Mol Sci ; 24(7)2023 Mar 29.
Artículo en Inglés | MEDLINE | ID: mdl-37047378

RESUMEN

The rapid development of new microscopy techniques for cell biology has exposed the need for genetically encoded fluorescent tags with special properties. Fluorescent biomarkers of the same color and spectral range and different fluorescent lifetimes (FLs) became useful for fluorescent lifetime image microscopy (FLIM). One such tag, the green fluorescent protein BrUSLEE (Bright Ultimately Short Lifetime Enhanced Emitter), having an extremely short subnanosecond component of fluorescence lifetime (FL~0.66 ns) and exceptional fluorescence brightness, was designed for FLIM experiments. Here, we present the X-ray structure and discuss the structure-functional relations of BrUSLEE. Its development from the EGFP (enhanced green fluorescent proteins) precursor (FL~2.83 ns) resulted in a change of the chromophore microenvironment due to a significant alteration in the side chain conformations. To get further insight into molecular details explaining the observed differences in the photophysical properties of these proteins, we studied their structural, dynamic, and electric properties by all-atom molecular-dynamics simulations in an aqueous solution. It has been shown that compared to BrUSLEE, the mobility of the chromophore in the EGFP is noticeably limited by nonbonded interactions (mainly H-bonds) with the neighboring residues.


Asunto(s)
Colorantes , Fluorescencia , Proteínas Fluorescentes Verdes/metabolismo , Microscopía Fluorescente/métodos
2.
J Popul Ther Clin Pharmacol ; 29(1): e9-e25, 2022.
Artículo en Inglés | MEDLINE | ID: mdl-35686893

RESUMEN

It was shown that in the model of dry eye syndrome (DES) in rabbits, if drug No. 5 was instilled in both eyes of animals at a dose of 0.05 mL/kg in 1:15 dilution with sterile saline solution twice a day for 30 days, then it had a strong anti-inflammatory, wound-healing, and angioprotective effects. This positively affected the course of reparative process in the conjunctiva and cornea complicated by nonclosing of the eyelids. It was also found that drug No. 5 in the tested dose promoted the stimulation of reparative processes in the conjunctiva and cornea, clinically manifesting itself in accelerating the recovery of defects in the anterior epithelium and corneal stroma, and in reducing both frequency of formation of deep corneal defects and severity of inflammatory response and vascularization. There was a slowdown in the formation of corneal opacities, a decrease in the amount and appearance of a more liquid mucous discharge of the conjunctiva compared to the control. It was also demonstrated in the stated model of DES that drug No. 5 in the test dose had a pronounced pharmacological effect, contributing to a faster recovery of damage to the superficial epithelium and stroma of the cornea, anterior and posterior chambers of the eye, the vascular membrane and retina as well as goblet cells of the conjunctiva.


Asunto(s)
Córnea , Síndromes de Ojo Seco , Animales , Conjuntiva , Síndromes de Ojo Seco/tratamiento farmacológico , Humanos , Conejos , Cicatrización de Heridas
3.
J Popul Ther Clin Pharmacol ; 29(1): e26-e39, 2022.
Artículo en Inglés | MEDLINE | ID: mdl-35686894

RESUMEN

Studies have shown that 0.05 mL/kg of drug No. 1 as 1:15 dilution with sterile saline solution has anti-inflammatory, wound-healing, and angioprotective effects if instilled in both eyes of rabbits twice a day for 30 days after an alkaline burn. A stimulation of reparative processes in the cornea was observed with the test dose of drug No. 1. This was manifested by accelerating the recovery of defects in the anterior epithelium and stroma, reducing the frequency of formation of deep defects and the severity of inflammatory reaction and vascularization, and inhibiting the formation of turbidity of its lower intensity and area. A tendency to restore laminarity of the stroma was determined by the action of drug No. 1 throughout the observation period. This contributed to a decrease in the degree of vascularization and prevented ulceration and perforation of the cornea. By the end of experiment, a restoration of strong epithelial-stromal relationships in the experimental group, compared to the control group, was observed due to formation of normal architectonics of fibrous components of intercellular substance. A more pronounced proliferative activity, with an increase in the layering of limbal epithelial cells, was noted in the limbal zone of the cornea in the experimental group rabbits compared to the control group.


Asunto(s)
Quemaduras Químicas , Quemaduras Oculares , Animales , Quemaduras Químicas/tratamiento farmacológico , Quemaduras Químicas/etiología , Córnea , Quemaduras Oculares/inducido químicamente , Quemaduras Oculares/tratamiento farmacológico , Humanos , Conejos , Cicatrización de Heridas
4.
J Popul Ther Clin Pharmacol ; 29(1): e40-e49, 2022.
Artículo en Inglés | MEDLINE | ID: mdl-35686895

RESUMEN

Intramuscular administration of medicine No. 60 at a dose of 1.281 mg/kg (30 times the estimated highest daily dose for humans) when diluted with 1:5 saline solution to pregnant rats from Day 1 to Day 19 of pregnancy does not affect the indicators of pre- and postimplantation death of baby rats. The body weight of the rats exposed to the medicine No. 60 during the prenatal period of development did not differ from the indicators in the control group. The development of offspring in the experimental group during the entire observation period took place without deviation from the terms characteristic of the normal physiological development of animals of this species. As a result of the studies conducted, it was found that intramuscular administration of drug No. 60 at a dose of 1.281 mg/kg in a 1:10 dilution with saline solution, which was 30 times the estimated maximum daily therapeutic dose for humans, did not affect the sexual activity of animals, reproductive indicators (number of live fetuses, body weight of embryos, their craniocaudal size, number of yellow bodies, implantation sites, resorption), or the neonatal development of baby rats. Thus, there was no effect of medicine No. 60 in the test dose of 1.281 mg/kg on the reproductive function of healthy mature rats and does not exhibit embryotoxic and teratogenic activity.


Asunto(s)
Anomalías Inducidas por Medicamentos , Teratógenos , Anomalías Inducidas por Medicamentos/etiología , Animales , Peso Corporal , Femenino , Humanos , Embarazo , Ratas , Reproducción , Solución Salina/farmacología , Teratógenos/toxicidad
5.
Protein Sci ; 31(3): 688-700, 2022 03.
Artículo en Inglés | MEDLINE | ID: mdl-34936154

RESUMEN

We describe an engineered violet fluorescent protein from the lancelet Branchiostoma floridae (bfVFP). This is the first example of a GFP-like fluorescent protein with a stable fluorescent chromophore lacking an imidazolinone ring; instead, it consists of oxidized tyrosine 68 flanked by glycine 67 and alanine 69. bfVFP contains the simplest chromophore reported in fluorescent proteins and was generated from the yellow protein lanFP10A2 by two synergetic mutations, S148H and C166I. The chromophore structure was confirmed crystallographically and by high-resolution mass spectrometry. The photophysical characteristics of bfVFP (323/430 nm, quantum yield 0.33, and Ec 14,300 M-1  cm-1 ) make it potentially useful for multicolor experiments to expand the excitation range of available FP biomarkers and Förster resonance energy transfer with blue and cyan fluorescent protein acceptors.


Asunto(s)
Transferencia Resonante de Energía de Fluorescencia , Tirosina , Alanina , Proteínas Fluorescentes Verdes/química , Proteínas Luminiscentes/química , Proteínas Luminiscentes/genética , Mutación , Tirosina/química
6.
Comput Struct Biotechnol J ; 19: 2950-2959, 2021.
Artículo en Inglés | MEDLINE | ID: mdl-34136094

RESUMEN

For the whole GFP family, a few cases, when a single mutation in the chromophore environment strongly inhibits maturation, were described. Here we study EYFP-F165G - a variant of the enhanced yellow fluorescent protein - obtained by a single F165G replacement, and demonstrated multiple fluorescent states represented by the minor emission peaks in blue and yellow ranges (~470 and ~530 nm), and the major peak at ~330 nm. The latter has been assigned to tryptophan fluorescence, quenched due to excitation energy transfer to the mature chromophore in the parental EYFP protein. EYFP-F165G crystal structure revealed two general independent routes of post-translational chemistry, resulting in two main states of the polypeptide chain with the intact chromophore forming triad (~85%) and mature chromophore (~15%). Our experiments thus highlighted important stereochemical role of the 165th position strongly affecting spectral characteristics of the protein. On the basis of the determined EYFP-F165G three-dimensional structure, new variants with ~ 2-fold improved brightness were engineered.

7.
ACS Chem Biol ; 15(9): 2456-2465, 2020 09 18.
Artículo en Inglés | MEDLINE | ID: mdl-32809793

RESUMEN

Super-resolution fluorescent imaging in living cells remains technically challenging, largely due to the photodecomposition of fluorescent tags. The recently suggested protein-PAINT is the only super-resolution technique available for prolonged imaging of proteins in living cells. It is realized with complexes of fluorogen-activating proteins, expressed as fusions, and solvatochromic synthetic dyes. Once photobleached, the dye in the complex is replaced with a fresh fluorogen available in the sample. With suitable kinetics, this replacement creates fluorescence blinking required for attaining super-resolution and overcomes photobleaching associated with the loss of an irreplaceable fluorophore. Here we report on the rational design of two protein-PAINT tags based on the 1.58 Å crystal structure of the DiB1:M739 complex, an improved green-emitting DiB3/F74V:M739 and a new orange-emitting DiB3/F53L:M739. They outperform previously reported DiB-based tags to become best in class biomarkers for protein-PAINT. The new tags advance protein-PAINT from the proof-of-concept to a reliable tool suitable for prolonged super-resolution imaging of intracellular proteins in fixed and living cells and two-color PAINT-like nanoscopy with a single fluorogen.


Asunto(s)
Compuestos de Boro/metabolismo , Colorantes Fluorescentes/metabolismo , Queratinas/metabolismo , Lipocalinas/metabolismo , Vimentina/metabolismo , Secuencia de Aminoácidos , Compuestos de Boro/química , Fluorescencia , Colorantes Fluorescentes/química , Células HEK293 , Células HeLa , Humanos , Lipocalinas/genética , Microscopía Fluorescente/métodos , Mutación , Unión Proteica
8.
Int J Biol Macromol ; 155: 551-559, 2020 Jul 15.
Artículo en Inglés | MEDLINE | ID: mdl-32243936

RESUMEN

The crystal structure of monomeric red fluorescent protein FusionRed (λex/λem 580/608 mn) has been determined at 1.09 Å resolution and revealed two alternative routes of post-translational chemistry, resulting in distinctly different products. The refinement occupancies suggest the 60:40 ratio of the mature Met63-Tyr64-Gly65 chromophore and uncyclized chromophore-forming tripeptide with the protein backbone cleaved between Met63 and the preceding Phe62 and oxidized Cα-Cß bond of Tyr64. We analyzed the structures of FusionRed and several related red fluorescent proteins, identified structural elements causing hydrolysis of the peptide bond, and verified their impact by single point mutagenesis. These findings advance the understanding of the post-translational chemistry of GFP-like fluorescent proteins beyond the canonical cyclization-dehydration-oxidation mechanism. They also show that impaired cyclization does not prevent chromophore-forming tripeptide from further transformations enabled by the same set of catalytic residues. Our mutagenesis efforts resulted in inhibition of the peptide backbone cleavage, and a FusionRed variant with ~30% improved effective brightness.


Asunto(s)
Proteínas Luminiscentes/química , Proteínas Luminiscentes/metabolismo , Procesamiento Proteico-Postraduccional , Secuencia de Aminoácidos , Cristalografía por Rayos X , Proteínas Luminiscentes/genética , Modelos Moleculares , Mutagénesis Sitio-Dirigida , Mutación , Conformación Proteica , Homología de Secuencia , Proteína Fluorescente Roja
9.
J Mol Biol ; 431(7): 1397-1408, 2019 03 29.
Artículo en Inglés | MEDLINE | ID: mdl-30797856

RESUMEN

GFP-like proteins from lancelets (lanFPs) is a new and least studied group that already generated several outstanding biomarkers (mNeonGreen is the brightest FP to date) and has some unique features. Here, we report the study of four homologous lanFPs with GYG and GYA chromophores. Until recently, it was accepted that the third chromophore-forming residue in GFP-like proteins should be glycine, and efforts to replace it were in vain. Now, we have the first structure of a fluorescent protein with a successfully matured chromophore that has alanine as the third chromophore-forming residue. Consideration of the protein structures revealed two alternative routes of posttranslational transformation, resulting in either chromophore maturation or hydrolysis of GYG/GYA tripeptide. Both transformations are catalyzed by the same set of catalytic residues, Arg88 and Glu35-Wat-Glu211 cluster, whereas the residues in positions 62 and 102 shift the equilibrium between chromophore maturation and hydrolysis.


Asunto(s)
Alanina/química , Proteínas Fluorescentes Verdes/química , Anfioxos/metabolismo , Secuencia de Aminoácidos , Animales , Cristalografía por Rayos X , Glicina , Proteínas Fluorescentes Verdes/genética , Anfioxos/química , Modelos Moleculares , Mutagénesis , Mutación , Conformación Proteica , Análisis de Secuencia de Proteína
10.
Pest Manag Sci ; 74(12): 2761-2772, 2018 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-29737039

RESUMEN

BACKGROUND: The pesticidal properties of many Kunitz-type inhibitors have been reported previously; however, the mechanism of action is not well established. In this study, the activity of alocasin against Aedes aegypti is demonstrated and the structure-activity relationship of this Kunitz-type inhibitor is explained through X-ray structure analyses. RESULTS: Alocasin was purified from mature rhizomes of Alocasia as a single polypeptide chain of ∼ 20 kDa. The structure at 2.5 Å resolution revealed a Kunitz-type fold, but variation in the loop regions makes this structure unique; one loop with a single disulfide bridge is replaced by a long loop with two bridges. Alignment of homologous sequences revealed that this long loop contains a conserved Arg residue and modeling studies showed interaction with the catalytic Ser residue of trypsin-like enzymes. The anti-Aedes aegypti activity of alocasin is examined and discussed in detail. The in vitro activity of alocasin against midgut proteases of Aedes aegypti showed profound inhibition. Further, morphological changes in larvae upon treatment with alocasin revealed its activity against Ae. aegypti. Docking studies of alocasin with trypsin (5G1), a midgut protease involved in the development cycle and blood meal digestion, illustrated its insecticidal activity. CONCLUSION: The three-dimensional structure of alocasin was determined and its structure-function relationship established for its anti Ae. aegypti activity. © 2018 Society of Chemical Industry.


Asunto(s)
Aedes/efectos de los fármacos , Aedes/enzimología , Péptido Hidrolasas/metabolismo , Proteínas de Plantas/química , Proteínas de Plantas/farmacología , Inhibidores de Proteasas/química , Inhibidores de Proteasas/farmacología , Secuencia de Aminoácidos , Animales , Cristalografía por Rayos X , Cinética , Modelos Moleculares , Conformación Proteica , Proteolisis , Relación Estructura-Actividad , Termodinámica
11.
Chem Sci ; 8(6): 4546-4557, 2017 Jun 01.
Artículo en Inglés | MEDLINE | ID: mdl-28936332

RESUMEN

Brighter near-infrared (NIR) fluorescent proteins (FPs) are required for multicolor microscopy and deep-tissue imaging. Here, we present structural and biochemical analyses of three monomeric, spectrally distinct phytochrome-based NIR FPs, termed miRFPs. The miRFPs are closely related and differ by only a few amino acids, which define their molecular brightness, brightness in mammalian cells, and spectral properties. We have identified the residues responsible for the spectral red-shift, revealed a new chromophore bound simultaneously to two cysteine residues in the PAS and GAF domains in blue-shifted NIR FPs, and uncovered the importance of amino acid residues in the N-terminus of NIR FPs for their molecular and cellular brightness. The novel chromophore covalently links the N-terminus of NIR FPs with their C-terminal GAF domain, forming a topologically closed knot in the structure, and also contributes to the increased brightness. Based on our studies, we suggest a strategy to develop spectrally distinct NIR FPs with enhanced brightness.

12.
PLoS One ; 11(8): e0161525, 2016.
Artículo en Inglés | MEDLINE | ID: mdl-27560828

RESUMEN

Autosomal Dominant Polycystic Kidney Disease (ADPKD) is a common genetic disease that leads to progressive renal cyst growth and loss of renal function, and is caused by mutations in the genes encoding polycystin-1 (PC1) and polycystin-2 (PC2), respectively. The PC1/PC2 complex localizes to primary cilia and can act as a flow-dependent calcium channel in addition to numerous other signaling functions. The exact functions of the polycystins, their regulation and the purpose of the PC1/PC2 channel are still poorly understood. PC1 is an integral membrane protein with a large extracytoplasmic N-terminal domain and a short, ~200 amino acid C-terminal cytoplasmic tail. Most proteins that interact with PC1 have been found to bind via the cytoplasmic tail. Here we report that the PC1 tail has homology to the regulatory domain of myosin heavy chain including a conserved calmodulin-binding motif. This motif binds to CaM in a calcium-dependent manner. Disruption of the CaM-binding motif in PC1 does not affect PC2 binding, cilia targeting, or signaling via heterotrimeric G-proteins or STAT3. However, disruption of CaM binding inhibits the PC1/PC2 calcium channel activity and the flow-dependent calcium response in kidney epithelial cells. Furthermore, expression of CaM-binding mutant PC1 disrupts cellular energy metabolism. These results suggest that critical functions of PC1 are regulated by its ability to sense cytosolic calcium levels via binding to CaM.


Asunto(s)
Calmodulina/metabolismo , Riñón Poliquístico Autosómico Dominante/metabolismo , Canales Catiónicos TRPP/metabolismo , Secuencias de Aminoácidos , Animales , Sitios de Unión , Células CHO , Calcio/metabolismo , Cilios , Cricetulus , Citoplasma/metabolismo , Citosol/metabolismo , Perros , Células HEK293 , Humanos , Riñón/metabolismo , Células de Riñón Canino Madin Darby , Ratones , Mutación , Cadenas Pesadas de Miosina/química , Pectinidae , Dominios Proteicos , Factor de Transcripción STAT3/metabolismo , Transducción de Señal , Factor de Transcripción AP-1/metabolismo
13.
Acta Crystallogr D Struct Biol ; 72(Pt 8): 922-32, 2016 08.
Artículo en Inglés | MEDLINE | ID: mdl-27487823

RESUMEN

The fluorescent protein from Dendronephthya sp. (DendFP) is a member of the Kaede-like group of photoconvertible fluorescent proteins with a His62-Tyr63-Gly64 chromophore-forming sequence. Upon irradiation with UV and blue light, the fluorescence of DendFP irreversibly changes from green (506 nm) to red (578 nm). The photoconversion is accompanied by cleavage of the peptide backbone at the C(α)-N bond of His62 and the formation of a terminal carboxamide group at the preceding Leu61. The resulting double C(α)=C(ß) bond in His62 extends the conjugation of the chromophore π system to include imidazole, providing the red fluorescence. Here, the three-dimensional structures of native green and photoconverted red forms of DendFP determined at 1.81 and 2.14 Šresolution, respectively, are reported. This is the first structure of photoconverted red DendFP to be reported to date. The structure-based mutagenesis of DendFP revealed an important role of positions 142 and 193: replacement of the original Ser142 and His193 caused a moderate red shift in the fluorescence and a considerable increase in the photoconversion rate. It was demonstrated that hydrogen bonding of the chromophore to the Gln116 and Ser105 cluster is crucial for variation of the photoconversion rate. The single replacement Gln116Asn disrupts the hydrogen bonding of Gln116 to the chromophore, resulting in a 30-fold decrease in the photoconversion rate, which was partially restored by a further Ser105Asn replacement.


Asunto(s)
Antozoos/química , Proteínas Luminiscentes/química , Secuencia de Aminoácidos , Animales , Cristalografía por Rayos X , Fluorescencia , Luz , Modelos Moleculares , Conformación Proteica , Alineación de Secuencia , Rayos Ultravioleta
14.
PLoS One ; 10(12): e0145740, 2015.
Artículo en Inglés | MEDLINE | ID: mdl-26699366

RESUMEN

Phototoxic fluorescent proteins represent a sparse group of genetically encoded photosensitizers that could be used for precise light-induced inactivation of target proteins, DNA damage, and cell killing. Only two such GFP-based fluorescent proteins (FPs), KillerRed and its monomeric variant SuperNova, were described up to date. Here, we present a crystallographic study of their two orange successors, dimeric KillerOrange and monomeric mKillerOrange, at 1.81 and 1.57 Å resolution, respectively. They are the first orange-emitting protein photosensitizers with a tryptophan-based chromophore (Gln65-Trp66-Gly67). Same as their red progenitors, both orange photosensitizers have a water-filled channel connecting the chromophore to the ß-barrel exterior and enabling transport of ROS. In both proteins, Trp66 of the chromophore adopts an unusual trans-cis conformation stabilized by H-bond with the nearby Gln159. This trans-cis conformation along with the water channel was shown to be a key structural feature providing bright orange emission and phototoxicity of both examined orange photosensitizers.


Asunto(s)
Proteínas Luminiscentes/química , Fármacos Fotosensibilizantes/química , Triptófano/química , Secuencia de Aminoácidos , Sustitución de Aminoácidos , Cristalografía por Rayos X , Proteínas Luminiscentes/genética , Modelos Moleculares , Conformación Molecular , Datos de Secuencia Molecular , Mutagénesis , Mutación/genética , Procesos Fotoquímicos , Conformación Proteica , Homología de Secuencia de Aminoácido , Triptófano/genética
15.
Acta Crystallogr D Biol Crystallogr ; 71(Pt 8): 1699-707, 2015 Aug.
Artículo en Inglés | MEDLINE | ID: mdl-26249350

RESUMEN

A green-emitting fluorescent variant, NowGFP, with a tryptophan-based chromophore (Thr65-Trp66-Gly67) was recently developed from the cyan mCerulean by introducing 18 point mutations. NowGFP is characterized by bright green fluorescence at physiological and higher pH and by weak cyan fluorescence at low pH. Illumination with blue light induces irreversible photoconversion of NowGFP from a green-emitting to a cyan-emitting form. Here, the X-ray structures of intact NowGFP at pH 9.0 and pH 4.8 and of its photoconverted variant, NowGFP_conv, are reported at 1.35, 1.18 and 2.5 Šresolution, respectively. The structure of NowGFP at pH 9.0 suggests the anionic state of Trp66 of the chromophore to be the primary cause of its green fluorescence. At both examined pH values Trp66 predominantly adopted a cis conformation; only ∼ 20% of the trans conformation was observed at pH 4.8. It was shown that Lys61, which adopts two distinct pH-dependent conformations, is a key residue playing a central role in chromophore ionization. At high pH the side chain of Lys61 forms two hydrogen bonds, one to the indole N atom of Trp66 and the other to the carboxyl group of the catalytic Glu222, enabling an indirect noncovalent connection between them that in turn promotes Trp66 deprotonation. At low pH, the side chain of Lys61 is directed away from Trp66 and forms a hydrogen bond to Gln207. It has been shown that photoconversion of NowGFP is accompanied by decomposition of Lys61, with a predominant cleavage of its side chain at the C(γ)-C(δ) bond. Lys61, Glu222, Thr203 and Ser205 form a local hydrogen-bond network connected to the indole ring of the chromophore Trp66; mutation of any of these residues dramatically affects the spectral properties of NowGFP. On the other hand, an Ala150Val replacement in the vicinity of the chromophore indole ring resulted in a new advanced variant with a 2.5-fold improved photostability.


Asunto(s)
Colorantes Fluorescentes/química , Proteínas Fluorescentes Verdes/química , Triptófano/química , Aniones/química , Aniones/metabolismo , Clonación Molecular , Cristalografía por Rayos X , Escherichia coli/genética , Colorantes Fluorescentes/metabolismo , Proteínas Fluorescentes Verdes/genética , Concentración de Iones de Hidrógeno , Modelos Moleculares , Mutagénesis Sitio-Dirigida , Mutación Puntual , Conformación Proteica , Espectrometría de Fluorescencia , Triptófano/genética
16.
Acta Crystallogr D Biol Crystallogr ; 69(Pt 9): 1850-60, 2013 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-23999308

RESUMEN

A key property of proteins of the green fluorescent protein (GFP) family is their ability to form a chromophore group by post-translational modifications of internal amino acids, e.g. Ser65-Tyr66-Gly67 in GFP from the jellyfish Aequorea victoria (Cnidaria). Numerous structural studies have demonstrated that the green GFP-like chromophore represents the `core' structure, which can be extended in red-shifted proteins owing to modifications of the protein backbone at the first chromophore-forming position. Here, the three-dimensional structures of green laGFP (λex/λem = 502/511 nm) and red laRFP (λex/λem ≃ 521/592 nm), which are fluorescent proteins (FPs) from the lancelet Branchiostoma lanceolatum (Chordata), were determined together with the structure of a red variant laRFP-ΔS83 (deletion of Ser83) with improved folding. Lancelet FPs are evolutionarily distant and share only ∼20% sequence identity with cnidarian FPs, which have been extensively characterized and widely used as genetically encoded probes. The structure of red-emitting laRFP revealed three exceptional features that have not been observed in wild-type fluorescent proteins from Cnidaria reported to date: (i) an unusual chromophore-forming sequence Gly58-Tyr59-Gly60, (ii) the presence of Gln211 at the position of the conserved catalytic Glu (Glu222 in Aequorea GFP), which proved to be crucial for chromophore formation, and (iii) the absence of modifications typical of known red chromophores and the presence of an extremely unusual covalent bond between the Tyr59 C(ß) atom and the hydroxyl of the proximal Tyr62. The impact of this covalent bond on the red emission and the large Stokes shift (∼70 nm) of laRFP was verified by extensive structure-based site-directed mutagenesis.


Asunto(s)
Proteínas Luminiscentes/química , Tirosina/química , Animales , Cristalografía por Rayos X , Proteínas Fluorescentes Verdes/química , Anfioxos , Unión Proteica , Proteína Fluorescente Roja
17.
Acta Crystallogr D Biol Crystallogr ; 69(Pt 6): 1005-12, 2013 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-23695245

RESUMEN

The yellow fluorescent protein phiYFPv (λem(max) ≃ 537 nm) with improved folding has been developed from the spectrally identical wild-type phiYFP found in the marine jellyfish Phialidium. The latter fluorescent protein is one of only two known cases of naturally occurring proteins that exhibit emission spectra in the yellow-orange range (535-555 nm). Here, the crystal structure of phiYFPv has been determined at 2.05 Å resolution. The `yellow' chromophore formed from the sequence triad Thr65-Tyr66-Gly67 adopts the bicyclic structure typical of fluorophores emitting in the green spectral range. It was demonstrated that perfect antiparallel π-stacking of chromophore Tyr66 and the proximal Tyr203, as well as Val205, facing the chromophore phenolic ring are chiefly responsible for the observed yellow emission of phiYFPv at 537 nm. Structure-based site-directed mutagenesis has been used to identify the key functional residues in the chromophore environment. The obtained results have been utilized to improve the properties of phiYFPv and its homologous monomeric biomarker tagYFP.


Asunto(s)
Hidrozoos/química , Proteínas Luminiscentes/química , Secuencias de Aminoácidos , Animales , Hidrozoos/genética , Proteínas Luminiscentes/genética , Modelos Moleculares , Mutagénesis Sitio-Dirigida , Conformación Proteica , Pliegue de Proteína , Espectrometría de Fluorescencia , Relación Estructura-Actividad , Difracción de Rayos X
18.
Acta Crystallogr D Biol Crystallogr ; 68(Pt 9): 1088-97, 2012 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-22948909

RESUMEN

The crystal structures of the far-red fluorescent proteins (FPs) eqFP650 (λ(ex)(max)/λ(em)(max) 592/650 nm) and eqFP670 (λ(ex)(max)/λ(em)(max) 605/670 nm), the successors of the far-red FP Katushka (λ(ex)(max)/λ(em)(max) 588/635 nm), have been determined at 1.8 and 1.6 Å resolution, respectively. An examination of the structures demonstrated that there are two groups of changes responsible for the bathochromic shift of excitation/emission bands of these proteins relative to their predecessor. The first group of changes resulted in an increase of hydrophilicity at the acylimine site of the chromophore due to the presence of one and three water molecules in eqFP650 and eqFP670, respectively. These water molecules provide connection of the chromophore with the protein scaffold via hydrogen bonds causing an ~15 nm bathochromic shift of the eqFP650 and eqFP670 emission bands. The second group of changes observed in eqFP670 arises from substitution of both Ser143 and Ser158 by asparagines. Asn143 and Asn158 of eqFP670 are hydrogen bonded with each other, as well as with the protein scaffold and with the p-hydroxyphenyl group of the chromophore, resulting in an additional ~20 nm bathochromic shift of the eqFP670 emission band as compared to eqFP650. The role of the observed structural changes was verified by mutagenesis.


Asunto(s)
Proteínas Luminiscentes/química , Secuencia de Aminoácidos , Cristalografía por Rayos X , Fluorescencia , Modelos Moleculares , Datos de Secuencia Molecular , Estructura Terciaria de Proteína , Alineación de Secuencia , Homología de Secuencia de Aminoácido , Proteína Fluorescente Roja
19.
Protein Sci ; 20(7): 1265-74, 2011 Jul.
Artículo en Inglés | MEDLINE | ID: mdl-21563226

RESUMEN

The wild type red fluorescent protein eqFP578 (from sea anemone Entacmaea quadricolor, λ(ex) = 552 nm, λ(em) = 578 nm) and its bright far-red fluorescent variant Katushka (λ(ex) = 588 nm, λ(em) = 635 nm) are characterized by the pronounced pH dependence of their fluorescence. The crystal structures of eqFP578f (eqFP578 with two point mutations improving the protein folding) and Katushka have been determined at the resolution ranging from 1.15 to 1.85 Å at two pH values, corresponding to low and high level of fluorescence. The observed extinguishing of fluorescence upon reducing pH in eqFP578f and Katushka has been shown to be accompanied by the opposite trans-cis and cis-trans chromophore isomerization, respectively. Asn143, Ser158, His197 and Ser143, Leu174, and Arg197 have been shown to stabilize the respective trans and cis fluorescent states of the chromophores in eqFP578f and Katushka at higher pH. The cis state has been suggested as being primarily responsible for the observed far-red shift of the emission maximum of Katushka relative to that of eqFP578f.


Asunto(s)
Proteínas Luminiscentes/química , Anémonas de Mar/química , Secuencia de Aminoácidos , Animales , Cristalografía por Rayos X , Concentración de Iones de Hidrógeno , Isomerismo , Proteínas Luminiscentes/genética , Modelos Moleculares , Datos de Secuencia Molecular , Mutación Puntual , Multimerización de Proteína , Anémonas de Mar/genética , Alineación de Secuencia , Proteína Fluorescente Roja
20.
J Biol Chem ; 285(21): 15978-84, 2010 May 21.
Artículo en Inglés | MEDLINE | ID: mdl-20220148

RESUMEN

The acGFPL is the first-identified member of a novel, colorless and non-fluorescent group of green fluorescent protein (GFP)-like proteins. Its mutant aceGFP, with Gly replacing the invariant catalytic Glu-222, demonstrates a relatively fast maturation rate and bright green fluorescence (lambda(ex) = 480 nm, lambda(em) = 505 nm). The reverse G222E single mutation in aceGFP results in the immature, colorless variant aceGFP-G222E, which undergoes irreversible photoconversion to a green fluorescent state under UV light exposure. Here we present a high resolution crystallographic study of aceGFP and aceGFP-G222E in the immature and UV-photoconverted states. A unique and striking feature of the colorless aceGFP-G222E structure is the chromophore in the trapped intermediate state, where cyclization of the protein backbone has occurred, but Tyr-66 still stays in the native, non-oxidized form, with C(alpha) and C(beta) atoms in the sp(3) hybridization. This experimentally observed immature aceGFP-G222E structure, characterized by the non-coplanar arrangement of the imidazolone and phenolic rings, has been attributed to one of the intermediate states in the GFP chromophore biosynthesis. The UV irradiation (lambda = 250-300 nm) of aceGFP-G222E drives the chromophore maturation further to a green fluorescent state, characterized by the conventional coplanar bicyclic structure with the oxidized double Tyr-66 C(alpha)=C(beta) bond and the conjugated system of pi-electrons. Structure-based site-directed mutagenesis has revealed a critical role of the proximal Tyr-220 in the observed effects. In particular, an alternative reaction pathway via Tyr-220 rather than conventional wild type Glu-222 has been proposed for aceGFP maturation.


Asunto(s)
Proteínas Fluorescentes Verdes/química , Hidrozoos/química , Rayos Ultravioleta , Animales , Cristalografía por Rayos X , Proteínas Fluorescentes Verdes/genética , Hidrozoos/genética , Mutación Missense , Oxidación-Reducción/efectos de la radiación , Relación Estructura-Actividad
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