Ligand binding amino. Medical search. Frequent questions

The substituted-cysteine accessibility method (SCAM) was applied to transmembrane span seven of the human A 1 adenosine receptor (hA 1 AR) to reveal a subset of amino acids that are exposed to the ligand-binding crevice. (aspetjournals.org)
These are identical through amino acid 727, but then diverge, with hGRα having an additional 50 amino acids and hGRβ having an additional, nonhomologous 15 amino acids. (medscape.com)
The NTD of the hGRα contains a major transactivation domain, termed activation function (AF)-1, which is located between amino acids 77 and 262 of the hGRα and is ligand-independent. (medscape.com)
The DNA-binding domain (DBD) of the hGRα corresponds to amino acids 420-480 and contains 2 zinc finger motifs through which the hGRα binds to specific DNA sequences, the glucocorticoid-response elements (GREs) in the promoter region(s) of target genes. (medscape.com)
Apparently, the last three amino acids of the nectin-3 C-terminus were sufficient to bind AFPDZ, in which the two hydrophobic residues are important. (rcsb.org)
2021 Macrocylases as synthetic tools for ligand synthesis: enzymatic synthesis of cyclic peptides containing metal-binding amino acids. (ed.ac.uk)
Here, we show that the solid-phase synthesis of peptides containing metal-binding amino acids, bipyridylalanine (1), phenyl pyridylalanine (2) and N,N-dimethylhistidine (3), can be combined with peptide macrocylization using peptide cyclase 1 (PCY1) to yield cyclic peptides under mild conditions. (ed.ac.uk)
This study shows that PCY1 can tolerate peptides containing amino acids with classic inorganic and organometallic ligands as side chains, opening the door to the streamlined and efficient development of cyclic peptides as metal ligands. (ed.ac.uk)
A second isoform, CD33m (237 amino acids) lacks the ligand-binding domain of CD33 and is produced by exon 2 skipping. (alzforum.org)
In the third isoform, CD33-3 (310 amino acids), the 56-amino-acid sequence encoded by exon 7 is replaced by two amino acids, valine and arginine. (alzforum.org)
CD33m (isoform-2) has 334-amino acids and is produced by alternative splicing, in which skipping of exon 6 causes a frameshift and an early stop codon. (alzforum.org)
Binding energies were calculated for each ligand and the amino acids involved in the interaction of these ligands with the rCAL homology model were identified. (omicsonline.org)
The name WW or WWP derives from the presence of two signature tryptophan residues that are spaced 20-23 amino acids apart and are present in most WW domains known to date, as well as that of a conserved Pro. (embl.de)
IL-6 exerts its action via a cell surface receptor which consists of two subunits, an 80 kDa ligand binding subunit (gp80) of 468 amino acids and a 130 kDa signal transducing protein (gp130) of 896 amino acid residues. (thermofisher.com)
Introduction of 2 positively charged amino acids, Arg84 and Lys85, dramatically improved binding affinity of one chimeric receptor (Kd from 105 nM to 1.6 nM). (unm.edu)
The chief functions of albumin are to transport a wide variety of ligands, to maintain plasma oncotic pressure, and to serve as a source for endogenous amino acids. (medscape.com)

The AF-1 plays an important role in the interaction of the receptor with molecules necessary for the initiation of transcription, such as coactivators, chromatin modulators, and basal transcription factors, including RNA polymerase II, TATA-binding protein (TBP), and a host of TBP-associated proteins (TAFIIs). (medscape.com)
Binding sites of other proteins which are similar to the binding site of the target protein can offer hints for possible side effects of a new drug prior to clinical studies. (uni-marburg.de)
Moreover, binding site comparisons are used as an idea generator for bioisosteric replacements of individual functional groups of the newly developed drug and to unravel the function of hitherto orphan proteins. (uni-marburg.de)
The structural comparison of binding sites is especially useful when applied on distantly related proteins as a comparison solely based on the amino acid sequence is not sufficient in such cases. (uni-marburg.de)
The Automatic Search for Ligand Binding Sites in Proteins of Known Three-dimensional Structure Using only Geometric Criteria. (uni-marburg.de)
Nature's design of proteins (Why was that metal or amino acid selected? (lu.se)
The CD64 proteins are high affinity receptors (~10 -8 ‑10 -9 M) capable of binding monomeric IgG, whereas the CD16 and CD32 proteins bind IgG with lower affinities (~10 -6 ‑10 -7 M) only recognizing IgG aggregates surrounding multivalent antigens (1, 4). (novusbio.com)
Using a proline-rich domain derived from formin (a product of the murine limb deformity locus), we have identified a family of murine formin binding proteins (FBP's), each of which contains one or more of a special class of tyrosine-rich WW domains. (embl.de)
Moreover, FBP21 interacts directly with the U1 snRNP protein U1C, the core snRNP proteins SmB and SmB', and the branchpoint binding protein SF1/mBBP. (embl.de)
FAK's ability to bind numerous structural and signaling proteins via a variety of interactions is important for FAK activation level, and for FAK interaction with a variety of substrates localized to sites of cell adhesion. (fishersci.com)
Increased ligand binding affinity was accompanied by a gain in calcium mobilization capability, suggesting functional coupling to G proteins. (unm.edu)
Activation may occur when these ligands, such as BMPs or a protein called activin A, attach (bind) to the receptor or to other proteins with which it forms a complex. (medlineplus.gov)
The specific binding of small molecules (ligands) to proteins is the basis for many biological functions, such as signalling and enzyme activity. (lu.se)

Our data reveal the binding-crevice accessibility of residues T270 (7.35), A273 (7.38), I274 (7.39), T277 (7.42), H278 (7.43), N284 (7.49), and Y288 (7.53) in the hA 1 AR. (aspetjournals.org)
Implementing REST to the entire ligand as opposed to solely the perturbed region, and also some important flexible protein residues (pREST region) in the ligand binding domain (LBD) has considerably improved the FEP+ results in most of the studied cases. (nature.com)
Specifically, our structures highlight: (i) amino acid residues involved in chemical steps, (ii) residues that deprotonate/reprotonate the coelenteramide to yield blue light (480 nm), and (iii) coordinated motions of enzyme loops carrying aromatic residues that are important for the bulky ligand binding-unbinding turnover. (europa.eu)
The binding of extracellular matrix ligands to integrins triggers autophosphorylation at Tyr-397, and activation of FAK through phosphorylation of Tyr residues (Tyr-576 and Tyr577) in the kinase domain activation loop. (fishersci.com)
In addition, phosphorylation of other Tyr residues (Tyr-925, and Tyr-861) creates binding sites for SH2 domains of intracellular signaling molecules such as Src, PI3 kinase, and Grb2. (fishersci.com)
To characterize fMLF binding domain, we adopted a "gain-of-function" approach by selective replacement of non-conserved residues in the FPR2 portion of the chimeric receptors with those from the FPR. (unm.edu)
This led to the identification of 3 clusters of residues required for high-affinity fMLF binding. (unm.edu)

At the cellular level, the actions of glucocorticoids are mediated by a 94-kd protein, the glucocorticoid receptor (GR). The human (h) GR belongs to the steroid/thyroid/retinoic acid superfamily of nuclear receptors and functions as a ligand-dependent transcription factor that regulates the expression of glucocorticoid-responsive genes positively or negatively. (medscape.com)
The human GR is a modular protein composed of distinct regions illustrated in panel B in the image below, as follows: (1) The amino-terminal A/B region, also called immunogenic or N-terminal domain (NTD) and (2) the C, D, and E regions, which correspond to the DNA-binding domain, the hinge region, and the ligand-binding domain, respectively. (medscape.com)
Fas ligand (FasL or CD95L or CD178) is a type-II transmembrane protein expressed on cytotoxic T lymphocytes and natural killer (NK) cells. (wikipedia.org)
Fas ligand or FasL is a homotrimeric type II transmembrane protein that belongs to the tumor necrosis factor (TNF) family. (wikipedia.org)
Accurate in silico predictions of ligand-protein binding affinities continues to be a primary objective of structure-based pharmaceutical design because of its putative value for drug discovery. (nature.com)
Free energy perturbation (FEP) calculations are attractive for predicting ligand-protein binding affinities via molecular simulations as well as for reducing the duration of the lead optimization phase of pharmaceutical development, which is as an individual stage the most expensive part of drug discovery 1 , 2 . (nature.com)
Detection of the most likely ligand binding mode, the presence of multiple stable binding conformations, insufficient equilibration, and determining an adequate sampling time (especially when significant protein side chain and backbone residue flexibility is possible) are the most critical aspects of FEP, and have been recently reviewed in detail 8 . (nature.com)
affect protein-ligand binding (e.g. (slideserve.com)
In the present work, accelerated methods for the comparison of protein binding sites as well as an extended procedure for the assessment of ligand poses in protein binding sites are presented. (uni-marburg.de)
Protein binding site comparisons are frequently used receptor-based techniques in early stages of the drug development process. (uni-marburg.de)
Methods for the assessment of ligand poses in protein binding sites are also used in the early phase of drug development within docking programs. (uni-marburg.de)
How to Measure the Similarity Between Protein Ligand-binding Sites. (uni-marburg.de)
Efficient Similarity Retrieval for Protein Binding Sites based on Histogram Comparison. (uni-marburg.de)
We detected a novel GII.4 variant with an amino acid insertion at the start of epitope A in viral protein 1 of noroviruses from the United States, Gabon, South Africa, and the United Kingdom collected during 2017-2022. (cdc.gov)
ED1 , encoding a ligand-ectodysplasinA-A1 (EDA-A1), EDAR , coding for ectodysplasinA-A1 receptor, EDARADD , programming the structure of EDAR-associated death domain protein and NEMO whose protein product, NFκB essential modulator (NEMO), is necessary for an indirect activation of nuclear factor κB (NFκB). (springer.com)
The human β2 adrenergic receptor bound to a G-protein ( 3sn6 ) is featured in a scene above, and additional structures are on the Adrenergic receptor page . (proteopedia.org)
In silico investigation was carried out by protein-ligand docking using AutoDock Vina software. (omicsonline.org)
Therefore, molecular docking was also used in the present study to simulate the binding of cordycepin with different antibacterial targets, such as β-ketoacyl-(acyl-carrier-protein) synthase III (FabH), DNA gyrase B and thymidylate kinase, in order to identify the most likely antimicrobial mechanism of cordycepin. (spandidos-publications.com)
5) shows the result of re-docking the active site ligand (biliverdin) of a bilin binding protein (1BBP) using GOLD. (iucr.org)
WW domain-mediated interactions reveal a spliceosome-associated protein that binds a third class of proline-rich motif: the proline glycine and methionine-rich motif. (embl.de)
In yeast, this bridging involves interactions between the WW domains in the splicing factor PRP40 and a proline-rich domain in the branchpoint binding protein, BBP. (embl.de)
They further reveal a novel mode of inhibitor binding and show how solutes release is coupled to protein conformational changes. (elifesciences.org)
This protein has no ligand binding domain of its own and therefore cannot bind growth factors. (origene.com)
However, it does bind tightly to other ligand-bound EGF receptor family members to form a heterodimer, stabilizing ligand binding and enhancing kinase-mediated activation of downstream signalling pathways, such as those involving mitogen-activated protein kinase and phosphatidylinositol-3 kinase. (origene.com)
The ACVR1 protein is normally turned on (activated) at appropriate times by molecules called ligands. (medlineplus.gov)
Another protein called FKBP12 can turn off (inhibit) ACVR1 by binding to the receptor and preventing inappropriate (leaky) activation in the absence of ligands. (medlineplus.gov)
The most common variant, which occurs in all individuals with the classic features of the condition, substitutes the protein building block (amino acid) histidine for the amino acid arginine at position 206 of the ACVR1 protein (written as Arg206His or R206H). (medlineplus.gov)
This shape change disrupts the binding of the inhibitor protein FKBP12. (medlineplus.gov)
Other ACVR1 gene variants result in a receptor protein that is turned on by ligands more easily than the normal version of the protein. (medlineplus.gov)
One series is performed with the ligand bound to the protein, and the other with the free ligand in water. (lu.se)
This is particularly troublesome if the two ligands bind in slightly different conformations, or if the protein itself adopts different conformations in the two cases, as illustrated in the figure below. (lu.se)
The basis of hapten- molecular mechanisms of the sensitization pro- protein binding work is the hypothesis that upon cess will result in novel opportunities for the skin absorption, only protein-reactive chemicals development of alternative methods for assessing (or those that can be metabolically or chemically skin sensitization hazard and relative potency of converted to protein-reactive species) are able to chemicals. (cdc.gov)
TCDD for every step of the mechanism described for 2,3,7,8-TCDD carcinogenesis in humans including receptor binding, gene expression, protein activity changes, cellular replication, oxidative stress, promotion in initiation-promotion studies and complete carcinogenesis in laboratory animals. (who.int)

This study was focused on identifying the minimum B. bovis AMA-1-derived regions governing specific and high-affinity binding to its target cells. (urosario.edu.co)
Improved FEP+ binding affinity predictions for regular flexible-loop motions and considerable structural changes can be obtained by extending the prior to REST (pre-REST) sampling time from 0.24 ns/λ to 5 ns/λ and 2 × 10 ns/λ , respectively. (nature.com)
Improvements to binding affinity and selectivity are critical to hit-to-lead optimization efforts. (nature.com)
DrugScore(CSD)-knowledge-based scoring function derived from small molecule crystal data with superior recognition rate of near-native ligand poses and better affinity prediction. (uni-marburg.de)
An in vitro binding kinetic analysis revealed that these phosphorylation-dependent events were attributable to a decrease in the affinity of phosphorylated Homer3 for its ligand. (jneurosci.org)
We showed that a non-oxidizable coelenterazine analogue binds to the ancHLD-RLuc enzyme with low nanomolar affinity. (europa.eu)
Binding affinity to recombinant human LXRbeta-LBD expressed in Escherichia coli BL21 (DE3) assessed as inhibitory constant incubated for 30 mins by f. (bindingdb.org)
On in vitro expression, only A3 T369S forms functional channels that display altered ion permeation, gating, ligand sensitivity, and low apparent affinity for extracellular Ca 2+ . (jneurosci.org)
The remainder of the extracellular domain however is essential for low affinity ligand binding, which consecutively triggers the association of the receptor and gp130 thus forming a high affinity binding site for IL-6. (thermofisher.com)
Replacement of N-formyl peptide receptor (FPR) domains with those from a homologous receptor, FPR2, resulted in chimeric receptors displaying low binding affinity to fMet-Leu-Phe (fMLF). (unm.edu)
Similarly, restoration of either Gly89/His90 or Phe102/Thr103 improved the binding affinity of another chimeric receptor from a Kd of 275 nM to a 2.3 Kd and 3.3 nM, respectively. (unm.edu)

FEP calculations are based on molecular dynamics (MD) simulations and therefore explicitly consider both enthalpy and entropy effects of the conformational flexibility of the ligand, as well as desolvation effects within the ligand binding domain (LBD) of certain receptors. (nature.com)
In vivo , the ligands and receptors display reciprocal expression (3). (rndsystems.com)
It has been found that nearly all the receptors and ligands are expressed in developing and adult neural tissue (3). (rndsystems.com)
Animal steroid hormones initiate signaling by passive diffusion into cells and binding to their nuclear receptors to regulate gene expression. (biologists.com)
Scavenger receptors are expressed by MYELOID CELLS and some ENDOTHELIAL CELLS, and were originally characterized based on their ability to bind acetylated LOW-DENSITY LIPOPROTEINS. (bvsalud.org)

These data are consistent with the high-resolution structure of bovine rhodopsin that features three α-helical turns in this region that are interrupted by an elongated, nonhelical structure from positions 7.43 to 7.48 in the primary amino acid sequence. (aspetjournals.org)
C) Enlargement of part of the DBD showing the amino acid sequence (single letter codes) of the 2 zinc fingers and the dimerization loop (in bold). (medscape.com)
Despite the identical nomenclature, the "m" versions of human and mouse CD33 represent very different isoforms, with the human version lacking the extracellular ligand-binding domain and the mouse isoform having a modified intracellular sequence. (alzforum.org)
ΔH as -43.65 kJ mol -1 and ΔS as -50.65 Jmol -1 K -1 at 25°C. The presence of four hemopexin-binding domains in the gene sequence indicated possible binding to hemin. (omicsonline.org)
This cellular localization is directed by a 125 amino acid sequence at the C-terminus called the "Focal Adhesion Targeting" sequence (FAT). (fishersci.com)

Soluble Fas ligand is generated by cleaving membrane-bound FasL at a conserved cleavage site by the external matrix metalloproteinase MMP-7. (wikipedia.org)
DcR3 is a soluble receptor that has no signal transduction capabilities (hence a "decoy") and functions to prevent FasR-FasL interactions by competitively binding to membrane-bound Fas ligand and rendering them inactive. (wikipedia.org)
Soluble FasL is less active than its membrane-bound counterpart and does not induce receptor trimerization and DISC formation. (wikipedia.org)
Soluble monomeric ligands bind the receptor but do not induce receptor autophosphorylation and activation (2). (rndsystems.com)
So far, the soluble IL-6 receptor is unique in acting as an agonist together with its ligand. (thermofisher.com)
Allergens, in a liquid format, are covalently bound to a soluble polymer/copolymer matrix, which in turn is labeled with a ligand - the same ligand used for coating the reaction wells. (cdc.gov)

The binding properties of twelve highly conserved 20-residue-long peptides were evaluated using a sensitive and specific binding assay based on radio-iodination. (urosario.edu.co)
Interestingly, B. bovis AMA-1-DI ( 100 YMQKFDIPRNHGSGIYVDLG 119 and 120 GYESVGSKSYRMPVGKCPVV 139 ) and DII ( 302 CPMHPVRDAIFGKWSGGSCV 321 )-derived peptides had high specificity interaction with erythrocytes and bound to a chymotrypsin and neuraminidase-treatment sensitive receptor. (urosario.edu.co)
Despite this, cyclic peptides remain underexplored as chiral ligands for catalysis due to synthetic complications upon macrocyclization. (ed.ac.uk)

Radioligand binding assays were used to compare cell membranes that were treated with hydrophilic, sulfhydryl-specific methanethiosulfonate derivatives with control cell membranes. (aspetjournals.org)
Quantitative binding assays with known and novel CIFs suggest that the homologous LRR-RKs GSO1/SGN3 and GSO2 have evolved unique peptide binding properties to control different developmental processes. (unige.ch)
Typically, ligand binding assays (LBA) have dominated this area. (xtalks.com)
For the LBA, we will discuss the different types of ligand binding assays, answers to common questions that can lead to performing LBA vs. hybrid LCMS and some advantages of LBA over LCMS methodologies. (xtalks.com)

These programs are utilized to screen entire libraries of molecules for a possible ligand of a binding site and to furthermore estimate in which conformation the ligand will most likely bind. (uni-marburg.de)
There must be 5 molecules of cobra toxin (red) to block the receptor (blue) as each molecule binds with an individual alpha chain on the acetylcholine receptor. (proteopedia.org)
These results indicate that the bound water molecules play a crucial role in the tight interaction between GN 3 M and HEWL. (frontiersin.org)
Other unusual features of the receptor include its ability to engage classes of molecules, rather than individual ligands, and its enhanced surface expression in environments rich in RAGE ligands. (jci.org)
One of the major intentions of this project was to determine atomic-level structures of the dual-function ancestral enzyme ancHLD-RLuc complexed with bound substrate molecules, with emphasis on coelenterazine-powered monooxygenation (luciferase) catalysis. (europa.eu)

S100A8, an endogenous ligand of Toll-like receptor 4 (TLR4), is known as a key molecule in the tumor microenvironment and premetastatic niche formation. (bvsalud.org)
We have discovered that primary tumors hijack Toll-like receptor 4 (TLR4) signaling to establish a premetastatic niche in the lung by utilizing the endogenous ligands. (bvsalud.org)
During this time, any endogenous IgE specific for the test allergen binds to it. (cdc.gov)

Although cellular and in vivo studies have provided considerable insight into the downstream consequences of Notch signalling, relatively little is known about the molecular basis of the receptor/ligand interaction and initial stages of activation. (nih.gov)
The detailed mechanism of AMA-1 molecular interaction with its receptor on bovine erythrocytes has not been completely defined in Babesia bovis. (urosario.edu.co)
B. bovis AMA-1 ectodomain structure was modelled and refined using molecular modelling software. (urosario.edu.co)
It involves two series of molecular dynamics (MD) simulations in which the ligand is artificially transformed to another ligand, for which the binding free energy is known. (lu.se)

Only membrane-bound or Fc‑clustered ligands are capable of activating the receptor in vitro . (rndsystems.com)
Multiple missense mutations are required to block CIF2 binding in vitro and GSO1/SGN3 function in vivo. (unige.ch)

Thus, unknown determinants in the amino-terminal sequences of substance P must strongly contribute to the carboxyl-terminal peptide selectivity and conformation. (aspetjournals.org)
The domain provides a binding platform for 21 amino acid CIF peptide ligands, which are tyrosine sulfated by the tyrosylprotein sulfotransferase TPST/SGN2. (unige.ch)
Identification of an N-formyl peptide receptor ligand binding domain by a gain-of-function approach. (unm.edu)

EphA5, also known as Ehk1, Bsk, Cek7, Hek7, and Rek7 (1), is a member of the Eph receptor family which binds members of the ephrin ligand family. (rndsystems.com)

These findings provide data (for the first-time) concerning B. bovis AMA-1 functional subunits which are important for establishing receptor-ligand interactions which could be used in synthetic vaccine development. (urosario.edu.co)
Both siblings carry two mutant CNGA3 alleles that give rise to channel subunits with different single-amino acid substitutions. (jneurosci.org)

In this study, in order to elucidate the driving forces responsible for the tight binding of GN 3 M (a transition-state analogue inhibitor) to HEWL, we conducted a detailed thermodynamic analysis using isothermal titration calorimetry. (frontiersin.org)
The valine analog was only approximately 5-fold less potent than the isoleucine and phenylalanine analogs as an inhibitor of 125I-labeled Bolton Hunter-conjugated substance P binding. (aspetjournals.org)
The contraction of guinea pig ileum induced by one of the conformationally constrained analogs is attenuated by pretreatment of the tissue with atropine (2 microM), while that induced by substance P methyl ester, a selective inhibitor of 125I-labeled Bolton Hunter-conjugated substance P binding, is not. (aspetjournals.org)
The ligand is a known inhibitor. (iucr.org)

Some of these involve the rotation of a single amino-acid side chain, whereas others have the character of partial unfolding of an α-helix or β-sheet. (lu.se)

We found an approximately 2.5 Å-wider ligand-binding groove, which allows the PDZ to accept bulky class II ligands. (rcsb.org)

A problem with FEP is that the sampling of the conformational space of the ligand and binding site may be limited by high energy barriers. (lu.se)

The extracellular domains of human and mouse EphB2 share 99% amino acid identity. (rndsystems.com)
The extracellular domains of rat EphA5 share 98.5% amino acid identity with the mouse homolog and 96.5% identity with the human homolog. (rndsystems.com)

This allows the adaptor molecule Fas-associated death domain (FADD) to bind the death domain of Fas through its own death domain. (wikipedia.org)

Modification with mC leads to more tightly bound base pairing below the melting transition and stabilizes the duplex relative to canonical DNA, but the free energy barrier to dehybridization at physiological temperature is nevertheless reduced slightly. (acs.org)

SB1495 occupies the Arm3 region near the Ω loop of the PPARγ ligand-binding domain, whereas its enantiomeric analogue SB1494 binds to the Arm2 region. (rcsb.org)

The B. bovis ama-1 gene had regions under functional constraint, having the highest negative selective pressure intensity in the Domain I encoding region. (urosario.edu.co)
FADD also contains a death effector domain (DED) near its amino terminus, which facilitates binding to the DED of FADD-like ICE (FLICE), more commonly referred to as caspase-8. (wikipedia.org)
The afadin PDZ domain (AFPDZ) is responsible for binding the cytoplasmic C-terminus of nectins. (rcsb.org)
Here we report the structure of the Arabidopsis thaliana BRI1 ligand-binding domain, determined by X-ray diffraction at 2.5 Å resolution. (nature.com)
A 70-amino-acid island domain between LRRs 21 and 22 folds back into the interior of the superhelix to create a surface pocket for binding the plant hormone brassinolide. (nature.com)
Finally, we describe how domain movements are associated with the displacement of bound lipids and significant membrane deformations, highlighting the potential regulatory role of the bilayer. (elifesciences.org)
Briefly, the transporters are homotrimers with each protomer consisting of a centrally located scaffold or trimerization domain and a peripheral transport domain that harbors the L-aspartate (L-asp) and three sodium (Na + ) ions binding sites. (elifesciences.org)
As the transport domain translocates into the IFS, HP2 replaces HP1 on the domains interface, while HP1 now lines an intracellular vestibule leading to the substrate-binding site ( Figure 1-figure supplement 1 ). (elifesciences.org)
Characterisation of the extracellular portion of the 80 kDa IL-6 receptor revealed the existence of a single immunoglobulin-like domain in the NH2-terminal of the extracellular region, which does not contribute to ligand binding. (thermofisher.com)

The AlaSTAT Microplate Allergen-Specific IgE system is an enzyme-labeled immunometric assay, based on liquid allergen complexes, monoclonal antibodies, and separation by ligand-coated wells. (cdc.gov)
Ligand-labeled allergen complexes and a patient sample are pipetted into ligand-coated wells and then incubated for 1 hour. (cdc.gov)
Addition of a multivalent anti-ligand creates a bridge between the allergen/IgE complexes and the ligand-coated wells during the second 1-hour incubation. (cdc.gov)

Wakankar MS, Patel KA, Krishnasastry MV, Gaikwad SM (2013) Solution and In silico Ligand Binding Studies of Cicer arietinum Lectin. (omicsonline.org)

In general, FEP+ shows considerable correlations between calculated and experimental binding free energies, and average errors in the range of only 1 kcal/mol 3 . (nature.com)
One of the most rigorous methods used to calculate binding free energies is free-energy perturbation (FEP). (lu.se)

DcR3: Decoy receptor 3 (DcR3) is a recently discovered decoy receptor of the tumor necrosis factor superfamily that binds to FasL, LIGHT, and TL1A. (wikipedia.org)

Humans and mice with deleterious mutations of Fas or Fas ligand develop an accumulation of aberrant T-cells, leading to lymphadenopathy, splenomegaly, and lupus erythematosus. (wikipedia.org)
Known loss- and gain-of-function mutations map closely to the hormone-binding site. (nature.com)

Recently, we proposed a common computational workflow which can retrieve accurate information about the ligand binding modes and the starting pose for FEP+ simulations 11 . (nature.com)

EphB2 has been shown to bind ephrin-B1, ephrin-B2, and ephrin-B3 (2, 3). (rndsystems.com)

The binding of an agonist to them causes a sympathetic response. (proteopedia.org)

We report Cryo-EM structures of Glt Ph reconstituted into nanodiscs, including those structurally constrained in the cytoplasm-facing state and either apo, bound to sodium ions only, substrate, or blockers. (elifesciences.org)

Activation of kinase activity occurs after ligand recognition and binding. (rndsystems.com)

The thermodynamic data obtained from our study would be useful to understand the substrate binding mechanism of HEWL and to design novel glycosidase inhibitors with moranoline moiety. (frontiersin.org)

Several methods exist for determining albumin levels, including dye-binding methods, electrophoresis, and immunochemical methods, as well as dipstick methods for urinary albumin. (medscape.com)

Fas ligand/receptor interactions play an important role in the regulation of the immune system and the progression of cancer. (wikipedia.org)

however, that report did not establish that H278 represents a contact point for ligands. (aspetjournals.org)
Quantitative biochemical comparisons reveal that GSO1/SGN3-CIF2 represents one of the strongest receptor-ligand pairs known in plants. (unige.ch)

are also important in the ligand recognition. (proteopedia.org)

The 364-amino acid isoform, referred to as full-length CD33 or CD33M, is considered the canonical version. (alzforum.org)
CD33M (isoform-1), the full-length, 403-amino acid isoform, is considered the canonical version. (alzforum.org)
Allelic variations at amino acid positions 654 and 655 of isoform a (positions 624 and 625 of isoform b) have been reported, with the most common allele, Ile654/Ile655, shown here. (origene.com)

The recombinant lectin from Cicer arietinum (rCAL) showed complex sugar specificity and could bind only the asialo triantennary glycan from Fetuin. (omicsonline.org)

It is initiated by one of the Wnt (wingless-type MMTV integration site) family of ligands (Rao and Kuhl 2010 ) probably WNT10A (Adaimy et al. (springer.com)
Conformationally constrained tachykinin analogs which are selective ligands for the eledoisin binding site. (aspetjournals.org)
These data indicate that a specific carboxyl-terminal conformation is recognized by the 125I-labeled Bolton Hunter-conjugated eledoisin binding site and that this conformation is different from the conformation recognized by the 125I-labeled Bolton Hunter-conjugated substance P binding site. (aspetjournals.org)
The steroid hormone binding site maps to the C-terminal inner surface of the superhelix. (nature.com)

We review the structural data available for receptor and ligands and identify the challenges ahead. (nih.gov)

The native ligand pose is shown coloured by element, the top ranked GOLD pose is shown in red. (iucr.org)

The LXR LiSA measures the ligand-dependent recruitment of a 25 amino acid fragment of the steroid receptor coactivator 1 (SRC1) to the ligand-binding. (bindingdb.org)
We propose that steroid binding to BRI1 generates a docking platform for a co-receptor that is required for receptor activation. (nature.com)

Recent advances in structure determination of the extracellular regions of human Notch-1 and one of its ligands Jagged-1 have given new insights into docking events occurring at the cell surface which may facilitate the development of new highly specific therapies. (nih.gov)
It provides unique identifiers, names and synonyms, list of complex members with their unique identifiers (UniProt, ChEBI, RNAcentral), function, binding and stoichiometry annotations, descriptions of their topology, assembly structure, ligands and associated diseases as well as cross-references to the same complex in other databases (e.g. (stanford.edu)

ASN-8 residue was found to be important in binding of hemin and spermine to rCAL. (omicsonline.org)

Membrane-anchored Fas ligand trimer on the surface of an adjacent cell causes trimerization of Fas receptor. (wikipedia.org)

Anatomy12

Organisms15

Chemicals and Drugs105

Analytical, Diagnostic and Therapeutic Techniques and Equipment46

Phenomena and Processes78

Disciplines and Occupations1

Information Science7

Health Care1

Acids16

Proteins13

Residues7

Protein33

Affinity11

Receptors5

Sequence5

Soluble6

Peptides3

Assays4

Molecules5

Endogenous3

Molecular4

Vitro2

Peptide3

Receptor family1

Subunits2

Inhibitor4

Single-amino acid1

Bulky1

Conformational1

Extracellular domains2

Molecule1

Tightly1

Analogue1

Domain9

Complexes3

Silico1

Energies2

Superfamily1

Mutations2

Computational1

Shown to bind1

Agonist1

Structures1

Kinase1

Substrate1

Methods1

Progression1

Represents2

Recognition1

Isoform3

Specificity1

Site4

Structural data1

Pose1

Steroid2

Structure2

Important1

Membrane1