Linker Length Research Articles

Host-Guest Interactions of Zirconium-Based Metal-Organic Framework with Ionic Liquid.

A metal-organic framework (MOF) is a three-dimensional crystalline compound made from organic ligands and metals. The cross-linkage between organic ligands and metals creates a network of coordination polymers containing adjustable voids with a high total surface area. This special feature of MOF made it possible to form a host-guest interaction with small molecules, such as ionic liquid (IL), which can alter the phase behavior and improve the performance in battery applications. The molecular interactions of MOF and IL are, however, hard to understand due to the limited number of computational studies. In this study, the structural parameters of a zirconium-based metal-organic framework (UiO-66) and 1-ethyl-3-methylimidazolium bis(trifluoromethylsulfonyl)imide, [EMIM][TFSI] were investigated via a combined experimental and computational approach using the linker model approach. When IL was loaded, the bond length and bond angle of organic linkers were distorted due to the increased electron density surrounding the framework. The increase in molecular orbital energy after confining IL stabilized the structure of this hybrid system. The molecular interactions study revealed that the combination of UiO-66 and [EMIM][TFSI] could be a promising candidate as an electrolyte material in an energy storage system.

Enzymatic Spin-Labeling of Protein N- and C-Termini for Electron Paramagnetic Resonance Spectroscopy.

Electron paramagnetic resonance (EPR) spectroscopy is a powerful tool for investigating the structure and dynamics of proteins. The introduction of paramagnetic moieties at specific positions in a protein enables precise measurement of local structure and dynamics. This technique, termed site-directed spin-labeling, has traditionally been performed using cysteine-reactive radical-containing probes. However, large proteins are more likely to contain multiple cysteine residues and cysteine labeling at specific sites may be infeasible or impede function. To address this concern, we applied three peptide-ligating enzymes (sortase, asparaginyl endopeptidase, and inteins) for nitroxide labeling of N- and C-termini of select monomeric and dimeric proteins. Continuous wave and pulsed EPR (double electron electron resonance) experiments reveal specific attachment of nitroxide probes to ether N-termini (OaAEP1) or C-termini (sortase and intein) across three test proteins (CheY, CheA, and iLOV), thereby enabling a straightforward, highly specific, and general method for protein labeling. Importantly, the linker length (3, 5, and 9 residues for OaAEP1, intein, and sortase reactions, respectively) between the probe and the target protein has a large impact on the utility of distance measurements by pulsed EPR, with longer linkers leading to broader distributions. As these methods are only dependent on accessible N- and C-termini, we anticipate application to a wide range of protein targets for biomolecular EPR spectroscopy.

Synthesis and Evaluation of MGB Polyamide-Oligonucleotide Conjugates as Gene Expression Control Compounds.

MGB polyamide-oligonucleotide conjugates ON 1-4 with linked MGB polyamides at the 2-exocyclic amino group of a guanine base using aminoalkyl linkers were synthesized and evaluated in terms of binding affinity for complementary DNA containing the MGB polyamide binding sequence using T m and CD analyses. The MGB polyamides comprised pyrrole polyamides (Py4- and Py3-), which possess binding affinity for A-T base pairs, and imidazole (Im3-) and pyrrole-γ-imidazole (Py3-γ-Im3-) polyamide hairpin motifs, which possess binding affinity for C-G base pairs. It was found that the stability of modified dsDNA was greatly influenced by the linker length. Py4- and Py3-oligonucleotide conjugates (ON 1 (n = 4) and ON 2 (n = 4)) containing the 4-aminobutyl linker formed stable dsDNA with complementary DNA. Although Im3-oligonucleotide conjugate ON 3 (n = 4) containing the 4-aminobutyl linker formed stable dsDNA with complementary DNA, stabilization of dsDNA by the imidazole amide moiety of ON 3 (n = 4) was lower compared with the pyrrole amide moiety of ON 2 (n = 4). The Py3-γ-Im3-oligonucleotide conjugate ON 4 (n = 2), which possesses binding affinity for C-G base pairs via a pyrrole/imidazole combination and contains a 2-aminoethyl linker, showed high binding ability for complementary DNA. Furthermore, the DNA sequence recognition of MGB polyamide-oligonucleotide conjugates was investigated using single-base mismatch DNAs, which possess a mismatch base in the MGB polyamide binding sequence. The Py3-γ-Im3-oligonucleotide conjugate ON 4 (n = 2) showed high sequence recognition ability for complementary DNA.

Albumin-binding DARPins as scaffold improve the hypoglycemic and anti-obesity effects of exendin-4 in vivo

Type 2 diabetes mellitus (T2DM) and obesity have been considered epidemics and threats to public health worldwide. Exendin-4 (Ex), a GLP-1R agonist, has potential for treating T2DM and obesity. However, Ex has a half-life of only 2.4 h in humans and needs to be administered twice daily, which hampers its clinical application. In this study, we synthesized four new GLP-1R agonists by genetically fusing Ex to the N-terminus of HSA-binding ankyrin repeat proteins (DARPins) via linkers of different lengths, denoted as Ex-DARPin-GSx fusion proteins (x = 0, 1, 2, and 3). The Ex-DARPin fusion proteins were substantially stable, resulting in incomplete denaturation even at 80 °C. The in vitro bioactivity results demonstrated that Ex-DARPin fusion proteins could bind to HSA and activate GLP-1R. The Ex-DARPin fusion proteins had a comparable half-life (29–32 h), which is much longer than that of native Ex (0.5 h in rats). Subcutaneous injection of 25 nmol/kg Ex-DARPin fusion protein normalized blood glucose (BG) levels for at least 72 h in mice. The Ex-DARPin fusion proteins, injected at 25 nmol/kg every three days, significantly lowered BG, inhibited food consumption, and reduced body weight (BW) for 30 days in STZ-induced diabetic mice. Histological analysis of pancreatic tissues using H&E staining revealed that Ex-DARPin fusion proteins significantly improved the survival of pancreatic islets in diabetic mice. The differences in in vivo bioactivity of fusion proteins with different linker lengths were not significant. According to the findings in this study, long-acting Ex-DARPin fusion proteins designed by us hold promise for further development as antidiabetic and antiobesity therapeutic agents. Our findings also indicate that DARPins are a universal platform for generating long-acting therapeutic proteins via genetic fusion, thus broadening the application scope of DARPins.

Discovery of a Potent, Cooperative, and Selective SOS1 PROTAC ZZ151 with In Vivo Antitumor Efficacy in KRAS-Mutant Cancers.

The linker moiety of a proteolysis-targeting chimera (PROTAC) molecule plays a critical role in modulating the degradation activity, target selectivity, and physico-chemical properties. However, the basics and underlying mechanisms of chemical modifications of the linker structure causing dramatic changes in the PROTAC degradation activity warrant further investigation. Herein, we report the design and characterization of a highly potent and selective SOS1 PROTAC ZZ151. After systematically modifying the linker length and composition, we observed that subtle modification of just one atom of the linker moiety of ZZ151 resulted in remarkable changes in the formation of the ternary complex and thus dramatically affected the degradation activities. ZZ151 quickly, specifically, and effectively induced SOS1 degradation; displayed potent antiproliferation activities against a broad panel of KRAS mutant-driven cancer cells; and showed superior anticancer activities in the KRASG12D- and G12V-mutant xenografts in mice. ZZ151 is a promising lead for developing new chemotherapies targeting KRAS mutants.

Novel Xanomeline-Containing Bitopic Ligands of Muscarinic Acetylcholine Receptors: Design, Synthesis and FRET Investigation

In the last few years, fluorescence resonance energy transfer (FRET) receptor sensors have contributed to the understanding of GPCR ligand binding and functional activation. FRET sensors based on muscarinic acetylcholine receptors (mAChRs) have been employed to study dual-steric ligands, allowing for the detection of different kinetics and distinguishing between partial, full, and super agonism. Herein, we report the synthesis of the two series of bitopic ligands, 12-Cn and 13-Cn, and their pharmacological investigation at the M1, M2, M4, and M5 FRET-based receptor sensors. The hybrids were prepared by merging the pharmacophoric moieties of the M1/M4-preferring orthosteric agonist Xanomeline 10 and the M1-selective positive allosteric modulator 77-LH-28-1 (1-[3-(4-butyl-1-piperidinyl)propyl]-3,4-dihydro-2(1H)-quinolinone) 11. The two pharmacophores were connected through alkylene chains of different lengths (C3, C5, C7, and C9). Analyzing the FRET responses, the tertiary amine compounds 12-C5, 12-C7, and 12-C9 evidenced a selective activation of M1 mAChRs, while the methyl tetrahydropyridinium salts 13-C5, 13-C7, and 13-C9 showed a degree of selectivity for M1 and M4 mAChRs. Moreover, whereas hybrids 12-Cn showed an almost linear response at the M1 subtype, hybrids 13-Cn evidenced a bell-shaped activation response. This different activation pattern suggests that the positive charge anchoring the compound 13-Cn to the orthosteric site ensues a degree of receptor activation depending on the linker length, which induces a graded conformational interference with the binding pocket closure. These bitopic derivatives represent novel pharmacological tools for a better understanding of ligand-receptor interactions at a molecular level.

Alkyl-thiophene-alkyl linkers to construct double-cable conjugated polymers for single-component organic solar cells

In this work, semirigid linkers of the alkyl-thiophene-alkyl structure are developed to construct double-cable polymers. Three alkyl units, propyl (C3H6), hexyl (C6H12), and dodecyl (C12H24), are applied as semirigid linkers, yielding three double-cable polymers: PBC6-T, PBC12-T, and PBC24-T, respectively. PBC12-T which uses C6H12-thiophene-C6H12 linkers is found to exhibit the best device efficiency of 5.56%, while PBC6-T and PBC24-T with shorter or longer linkers yield device efficiencies of only 2.65% and 1.09% in single-component organic solar cells (SCOSCs). Further studies reveal that PBC12-T exhibits higher crystallinity and improved charge transport, resulting in better efficiencies. Our work provides an approach to construct double-cable conjugated polymers with long alkyl linkers, and it shows the importance of the linker length for the photovoltaic performance of SCOSCs.

Novel Approach for the Isolation and Immobilization of a Recombinant Transaminase: Applying an Advanced Nanocomposite System.

The increasing application of recombinant enzymes demands not only effective and sustainable fermentation, but also highly efficient downstream processing and further stabilization of the enzymes by immobilization. In this study, a novel approach for the isolation and immobilization of His-tagged transaminase from Chromobacterium violaceum (CvTA) has been developed. A recombinant of CvTA was simultaneously isolated and immobilized by binding on silica nanoparticles (SNPs) with metal affinity linkers and additionally within poly(lactic acid) (PLA) nanofibers. The linker length and the nature of the metal ion significantly affected the enzyme binding efficiency and biocatalytic activity of CvTA-SNPs. The formation of PLA nanofibers by electrospinning enabled rapid embedding of CvTA-SNPs biocatalysts and ensured enhanced stability and activity. The developed advanced immobilization method reduces the time required for enzyme isolation, purification and immobilization by more than fourfold compared to a classical stepwise technique.

Differential roles of CaMKII isoforms in phase separation with NMDA receptors and in synaptic plasticity

Calcium calmodulin-dependent kinase II (CaMKII) is critical for synaptic transmission and plasticity. Two major isoforms of CaMKII, CaMKIIα and CaMKIIβ, play distinct roles in synaptic transmission and long-term potentiation (LTP) with unknown mechanisms. Here, we show that the length of the unstructured linker between the kinase domain and the oligomerizing hub determines the ability of CaMKII to rescue the basal synaptic transmission and LTP defects caused by removal of both CaMKIIα and CaMKIIβ (double knockout [DKO]). Remarkably, although CaMKIIβ binds to GluN2B with a comparable affinity as CaMKIIα does, only CaMKIIα with the short linker forms robust dense clusters with GluN2B via phase separation. Lengthening the linker of CaMKIIα with unstructured "Gly-Gly-Ser" repeats impairs its phase separation with GluN2B, and the mutant enzyme cannot rescue the basal synaptic transmission and LTP defects of DKO mice. Our results suggest that the phase separation capacity of CaMKII with GluN2B is critical for its cellular functions in the brain.

Linker Length Drives Heterogeneity of Multivalent Complexes of Hub Protein LC8 and Transcription Factor ASCIZ.

LC8, a ubiquitous and highly conserved hub protein, binds over 100 proteins involved in numerous cellular functions, including cell death, signaling, tumor suppression, and viral infection. LC8 binds intrinsically disordered proteins (IDPs), and although several of these contain multiple LC8 binding motifs, the effects of multivalency on complex formation are unclear. Drosophila ASCIZ has seven motifs that vary in sequence and inter-motif linker lengths, especially within subdomain QT2-4 containing the second, third, and fourth LC8 motifs. Using isothermal-titration calorimetry, analytical-ultracentrifugation, and native mass-spectrometry of QT2-4 variants, with methodically deactivated motifs, we show that inter-motif spacing and specific motif sequences combine to control binding affinity and compositional heterogeneity of multivalent duplexes. A short linker separating strong and weak motifs results in stable duplexes but forms off-register structures at high LC8 concentrations. Contrastingly, long linkers engender lower cooperativity and heterogeneous complexation at low LC8 concentrations. Accordingly, two-mers, rather than the expected three-mers, dominate negative-stain electron-microscopy images of QT2-4. Comparing variants containing weak-strong and strong-strong motif combinations demonstrates sequence also regulates IDP/LC8 assembly. The observed trends persist for trivalent ASCIZ subdomains: QT2-4, with long and short linkers, forms heterogeneous complexes, whereas QT4-6, with similar mid-length linkers, forms homogeneous complexes. Implications of linker length variations for function are discussed.

Dipyrene-Terminated Oligosilanes Enable Ratiometric Fluorescence Response in Polymers toward Mechano- and Thermo-Stimuli

Developing fluorescent motifs capable of displaying mechano- and thermo-stimuli reversibly and ratiometrically is appealing for monitoring the deformation or temperature to which polymers are subjected. Here, a series of excimer-type chromophores Sin-Py (n = 1-3) consisting of two pyrenes linked with oligosilanes of one to three silicon atoms is developed as the fluorescent motif incorporated in a polymer. The fluorescence of Sin-Py is steered with the linker length where Si2-Py and Si3-Py with disilane and trisilane linkers display prominent excimer emission accompanied by pyrene monomer emission. Covalent incorporation of Si2-Py and Si3-Py in polyurethane gives fluorescent polymers PU-Si2-Py and PU-Si3-Py, respectively, where intramolecular pyrene excimers and corresponding combined emission of excimer and monomer are obtained. Polymer films of PU-Si2-Py and PU-Si3-Py display instant and reversible ratiometric fluorescence change during the uniaxial tensile test. The mechanochromic response arises from the reversible suppression of excimer formation during the mechanically induced separation of the pyrene moieties and relaxation. Furthermore, PU-Si2-Py and PU-Si3-Py show thermochromic response toward temperature, and the inflection point from the ratiometric emission as a function of temperature gives an indication of the glass transition temperature (Tg) of the polymers. The design of the excimer-based mechanophore with oligosilane provides a generally implementable way to develop mechano- and thermo-dual-responsive polymers.

VH-Based Mini Q-Body: A Novel Quench-Based Immunosensor.

Quenchbodies (Q-bodies), a type of biosensor, are antibodies labeled with a fluorescent dye near the antigen recognition site. In the absence of an antigen, the dye is quenched by tryptophans in the antibody sequence; however, in its presence, the dye is displaced and therefore de-quenched. Although scFv and Fab are mainly used to create Q-bodies, this is the first report where a single-domain heavy chain VH from a semi-synthetic human antibody library formed the basis. To create a proof of concept "mini Q-body", a human anti-lysozyme single-domain VH antibody C3 was used. Mini Q-bodies were successfully developed using seven dyes. Different responses were observed depending on the dye and linker length; it was concluded that the optimal linker length for the TAMRA dye was C5, and rhodamine 6G was identified as the dye with the largest de-quenching response. Three single-domain antibodies with sequences similar to that of the C3 antibody were chosen, and the results confirmed the applicability of this method in developing mini Q-bodies. In summary, mini Q-bodies are an easy-to-use and time-saving method for detecting proteins.

Atomistic simulation of soft porous coordination polymers.

Soft porous coordination polymers (SPCPs) are materials with exceptional potential because of their ability to incorporate the properties of nominally rigid porous materials like metal-organic frameworks (MOFs) and those of soft matter, such as polymers of intrinsic microporosity (PIMs). This combination could offer the gas adsorption properties of MOFs together with the mechanical stability and processability of PIMs, opening up a space of flexible, highly responsive adsorbing materials. In order to understand their structure and behavior, we present a process for the construction of amorphous SPCPs from secondary building blocks. We then use classical molecular dynamics simulations to characterize the resulting structures based on branch functionalities (f), pore size distributions (PSDs), and radial distribution functions and compare them to experimentally synthesized analogs. In the course of this comparison, we demonstrate that the pore structure of SPCPs is due to both pores intrinsic to the secondary building blocks, and intercolloid spacing between colloid particles. We also illustrate the differences in nanoscale structure based on linker length and flexibility, particularly in the PSDs, finding that stiff linkers tend to produce SPCPs with larger maximum pore sizes.

Gold Nanoparticles Immobilized in Porous Aromatic Frameworks with Abundant Metal Anchoring Sites as Heterogeneous Nanocatalysts.

Porous aromatic frameworks (PAFs) with rich metal coordination sites are highly effective support materials for gold nanoparticles (AuNPs), which would not only prevent AuNPs agglomeration but also facilitate mass transfer during the catalytic process. In this work, PAF-160, -161, and -162 bearing diphosphine units are synthesized via the Friedel-Crafts alkylation reaction to act as efficient platforms for AuNPs immobilization. These PAFs possess high surface areas (up to 655 m2 g-1) together with excellent stabilities, and the different linkage lengths between P centers allow more scattered and accessible sites for gold coordination. In the resultant Au-PAFs, AuNPs with uniform sizes are stabilized dispersedly. The catalytic performances of these Au-PAFs are monitored by the reduction of 4-nitrophenol (4-NP), and all materials exhibit excellent catalytic activities on the reduction of 4-NP, especially Au-PAF-162 with the apparent rate constant (kapp) up to 0.019 s-1. Additionally, the reductions of various nitroarenes with different functional groups are explored and all Au-PAFs can convert most nitroaromatic derivatives to the corresponding arylamines with high conversions of 99%, in which the reaction mechanism is also proposed. Furthermore, a continuous catalytic device with Au-PAF-160 catalyst is explored, and Au-PAF-160 can convert 1-chloro-4-nitrobenzene, 2,6-dichoronitrobenzene and 1-chloro-2,4-dinitrobenzene into the corresponding amines in sequence in the continuous flow catalytic experiments. This work has enriched the variety of porous materials for noble metal immobilization and promotes their applications in heterogeneous catalysis.

Peptidic Inhibitors and a Fluorescent Probe for the Selective Inhibition and Labelling of Factor XIIIa Transglutaminase.

Factor XIIIa (FXIIIa) is a transglutaminase of major therapeutic interest for the development of anticoagulants due to its essential role in the blood coagulation cascade. While numerous FXIIIa inhibitors have been reported, they failed to reach clinical evaluation due to their lack of metabolic stability and low selectivity over transglutaminase 2 (TG2). Furthermore, the chemical tools available for the study of FXIIIa activity and localization are extremely limited. To combat these shortcomings, we designed, synthesised, and evaluated a library of 21 novel FXIIIa inhibitors. Electrophilic warheads, linker lengths, and hydrophobic units were varied on small molecule and peptidic scaffolds to optimize isozyme selectivity and potency. A previously reported FXIIIa inhibitor was then adapted for the design of a probe bearing a rhodamine B moiety, producing the innovative KM93 as the first known fluorescent probe designed to selectively label active FXIIIa with high efficiency (kinact/KI = 127,300 M-1 min-1) and 6.5-fold selectivity over TG2. The probe KM93 facilitated fluorescent microscopy studies within bone marrow macrophages, labelling FXIIIa with high efficiency and selectivity in cell culture. The structure-activity trends with these novel inhibitors and probes will help in the future study of the activity, inhibition, and localization of FXIIIa.

A comparative study of the catalytic activity of Mn-porphyrins anchored onto magnetic nanoparticles: a clue to the effect of linker length

A comparative study of the catalytic activity of Mn-porphyrins anchored onto magnetic nanoparticles: a clue to the effect of linker length

Development of Human Carbonic Anhydrase II Heterobifunctional Degraders.

Human carbonic anhydrase II (hCAII) is a metalloenzyme essential to critical physiological processes in the body. hCA inhibitors are used clinically for the treatment of indications ranging from glaucoma to epilepsy. Targeted protein degraders have emerged as a promising means of inducing the degradation of disease-implicated proteins by using the endogenous quality control mechanisms of a cell. Here, a series of heterobifunctional degrader candidates targeting hCAII were developed from a simple aryl sulfonamide fragment. Degrader candidates were functionalized to produce either cereblon E3 ubiquitin ligase (CRBN) recruiting proteolysis targeting chimeras (PROTACs) or adamantyl-based hydrophobic tags (HyTs). Screens in HEK293 cells identified two PROTAC small-molecule degraders of hCA. Optimization of linker length and composition yielded a degrader with sub-nanomolar potency and sustained depletion of hCAII over prolonged treatments. Mechanistic studies suggest that this optimized degrader depletes hCAII through the same mechanism as previously reported CRBN-recruiting heterobifunctional degraders.

Extension and long-range contacts drive chromatin clutches and aggregates.

Chromatin organization plays a vital role in gene expression and DNA replication. Whether the local arrangement in vivo is a 10-nm array or 30-nm fiber remains controversial. Moreover, it remains unclear whether the structure and dynamics are closer to a liquid or solid on a larger scale. Multiple factors, such as DNA linker lengths, chromatin remodelers, histone modifications, and ionic environments, can affect the structure of chromatin. Using a near-atomistic coarse-grained model without additional assumptions, we studied the force-extension behavior of uniform canonical chromatin with 12 nucleosomes and 20-bp linkers. We found that forces below 3 pN result in a spring-like linear extension as nucleosomes undergo shear motions. However, forces beyond 3.5 pN break chromatin into trimer and tetramer clutches, thus enabling a dramatic non-uniform extension. Meanwhile, inter-chain contacts and interdigitation can facilitate chromatin unfolding. Under a crowding environment, chromatin unfolds and exposes more nucleosomal surfaces, allowing favorable inter-chain inter-nucleosomal interactions, such as stackings. These results reconcile observed ordered fibers in vitro and disordered arrays in vivo. The high nucleosome concentration and the tension provided by molecular motors can cause disordered chromatin arrays to prevail in vivo. These factors may be relevant to the irregularity of heterochromatin and mitotic chromosomes. Furthermore, the strong inter-chain contacts can lead to the formation of condensates. By applying such models under different nucleosome and salt concentrations, we will provide more insights into whether chromatin favors liquid- or solid-like states. We can also test whether long-range contacts can drive percolation transitions. Our simulations provide a detailed microscopic description of genome organization and characterize chromatin's local and bulk properties.

Design of concatenated ion channels using AlphaFold2: A new era?

P2X7 receptors (P2X7R) are trimeric, ligand-gated ion channels which are activated by extracellular ATP, a biomarker for cell damage. Normal activation leads to an influx of Na+ and Ca2+ and efflux of K+. Compared to other members of the P2X family, P2X7R forms a larger “pore” conformation after prolonged activation, leading to cell death. P2X7R channel and pore function are changed by alternative splicing (AS) of the receptor subunits. There has been multiple P2X7R AS variants of interest identified, some of which are implicated in diseases such as neuroblastoma and melanoma. Previous human clinical trials of P2X7R inhibitors have been unsuccessful. It is hypothesised that this failure has resulted from in vitro studies of inhibitors focusing on full-length, rather than AS variants. Efforts of designing concatemers composing of AS subunits combinations to date have led to non-functioning and suboptimal receptors. Furthermore, modelling of P2X7R AS variants using techniques such as homology modelling have been unsatisfactory due to structural differences between AS variants and experimental structures. Here, we utilise AlphaFold2 in a novel use case to model previous concatenation attempts of the P2X7R, and to improve on previous linker designs. Our models demonstrated two distinct arrangements for receptor assembly and linker placement, one of which is detrimental for cell surface trafficking and receptor activation. We show that assembly of the concatenated receptor is closely linked to linker length, and optimisation of the linker region resulted in models which were satisfactory in arrangement while ensuring terminus flexibility and channel function. Work is ongoing for receptor expression and further in vitro studies into AS variant assembly and expression that will pave the way for understanding these elusive AS variants and potentially driving development of novel therapies for diseases associated with the P2X7R variants.

The constructions of the fully flexible s-triazine-based covalent organic frameworks for adsorping iodine and fluorescence sensing p-nitrophenol and iodine

The effective capture of radioactive vapor waste during fission is of great significance to the safe utilization of nuclear energy. Covalent organic frameworks (COFs) are a kind of novel porous crystal polymers, with highly flexible channel structure and molecular designability. COFs containing nitrogen-rich structures and flexible units can provide effective binding sites for adsorption of iodine, and are potential adsorption materials. In this study, the fully flexible s-triazine-based COFs were prepared by one-pot condensation using fully flexible building blocks of 2,4,6-tris(4-formylphenoxy)- 1,3,5-triazine (TPT–3–CHO) as a knot and ether-based diamines as flexible linkers. The three fully flexible s-triazine-based COFs have large surface areas (1490, 1596, and 1657 m2 g−1), good crystallinity and outstanding adsorption capacitiy of volatile iodine (4.10, 4.13 and 3.40 g g−1) with excellent recyclability. As the linker lengths increase, the specific surface areas increase, but the adsorption amounts of iodine decrease. Moreover, the fully flexible s-triazine-based COFs also have high sensitivities for fluorescence detection against p-nitrophenol and iodine. Their quenching constants (KSV) for p-nitrophenol are 5.59 × 104, 4.05 × 104 and 2.35 × 104 L mol−1, respectively. The fully flexible s-triazine-based COFs have larger specific surface area, high iodine adsorption, and more sensitive fluorescence sensing performance than the COFs formed by the corresponding rigid linkers.