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At least 487 records · Page 27

127 Xe quantification method development and intercomparison exercise

Monitoring of the atmosphere for fission products ( 131m Xe, 133m Xe, 133 Xe, and 135 Xe) is performed by various laboratories to detect nuclear explosions. Quantification of 127 Xe is not routinely performed by laboratories measuring atmospheric radioxenon because it is not a fission product. 127 Xe was recently detected by a ground-based beta-gamma air monitoring system. When measured using beta-gamma coincidence detector systems, such as those in use on the International Monitoring System (IMS) of the Comprehensive Nuclear-Test-Ban Treaty (CTBT), 127 Xe can interfere with the quantification of fission product radioxenon due to overlap of the 127 Xe beta-gamma coincidence signatures with those of fission product radioxenon. Here, this work demonstrates quantification of 127 Xe at different laboratories with different measurement techniques. Production and purification of 127 Xe was performed by neutron activation of enriched 126 Xe. The purified 127 Xe was then split between laboratories, and detection and quantification methods were developed. At Idaho National Laboratory, a quantification method involving high purity germanium detectors was devised that included self-attenuation correction. At AWE, a beta-gamma coincidence counting method, as used in support of the IMS, was modified to enable the measurement and analysis of the 127 Xe samples. Corrections were made for self-attenuation, which showed a strong xenon volume dependency, for some coincidence signatures. The gas sample activity concentration was used as the comparison metric and it showed excellent agreement between the methods.

98 NUCLEAR DISARMAMENT, SAFEGUARDS, AND PHYSICAL P↗

Increased inflammation as well as decreased endoplasmic reticulum stress and translation differentiate pancreatic islets from donors with pre-symptomatic stage 1 type 1 diabetes and non-diabetic donors

Aims/hypothesis Progression to type 1 diabetes is associated with genetic factors, the presence of autoantibodies and a decline in beta cell insulin secretion in response to glucose. Very little is known regarding the molecular changes that occur in human insulin-secreting beta cells prior to the onset of type 1 diabetes. Herein, we applied an unbiased proteomics approach to identify changes in proteins and potential mechanisms of islet dysfunction in islet-autoantibody-positive organ donors with pre-symptomatic stage 1 type 1 diabetes (HbA1c ≤42 mmol/mol [6.0%]). We aimed to identify pathways in islets that are indicative of beta cell dysfunction. Methods Multiple islet sections were collected through laser microdissection of frozen pancreatic tissues from organ donors positive for single or multiple islet autoantibodies (AAb + , n=5), and age (±2 years)- and sex-matched non-diabetic (ND) control donors (n=5) obtained from the Network for Pancreatic Organ donors with Diabetes (nPOD). Islet sections were subjected to MS-based proteomics and analysed with label-free quantification followed by pathway and functional annotations. Results Analyses resulted in ~4500 proteins identified with low false discovery rate (<1%), with 2165 proteins reliably quantified in every islet sample. We observed large inter-donor variations that presented a challenge for statistical analysis of proteome changes between donor groups. We therefore focused on only the donors with stage 1 type 1 diabetes who were positive for multiple autoantibodies (mAAb + , n=3) and genetic risk compared with their matched ND controls (n=3) for the final statistical analysis. Approximately 10% of the proteins (n=202) were significantly different (unadjusted p<0.025, q<0.15) for mAAb + vs ND donor islets. The significant alterations clustered around major functions for upregulation in the immune response and glycolysis, and downregulation in endoplasmic reticulum (ER) stress response as well as protein translation and synthesis. The observed proteome changes were further supported by several independent published datasets, including a proteomics dataset from in vitro proinflammatory cytokine-treated human islets and single-cell RNA-seq datasets from AAb + individuals. Conclusions/interpretation In situ human islet proteome alterations in stage 1 type 1 diabetes centred around several major functional categories, including an expected increase in immune response genes (elevated antigen presentation/HLA), with decreases in protein synthesis and ER stress response, as well as compensatory metabolic response. The dataset serves as a proteomics resource for future studies on beta cell changes during type 1 diabetes progression and pathogenesis. Data availability The LC-MS raw datasets that support the findings of this study have been deposited in the online repository: MassIVE (https://massive.ucsd.edu/ProteoSAFe/static/massive.jsp) with accession no. MSV000090212.

Autoantibody-positive↗

Lepidopteran mevalonate pathway optimization in Escherichia coli efficiently produces isoprenol analogs for next-generation biofuels

Terpenes constitute the largest class of natural products with over 55,000 compounds with versatile applications including drugs and biofuels. Introducing structural modifications to terpenes through metabolic engineering is an efficient and sustainable way to improve their properties. Here, in this study, we report the optimization of the lepidopteran mevalonate (LMVA) pathway towards the efficient production of isopentenyl pyrophosphate (IPP) analogs as terpene precursors. First, we linked the LMVA pathway to NudB, a promiscuous phosphatase, resulting in the production of the six-carbon analog of 3-methyl-3-buten-1-ol (isoprenol), 3-ethyl-3-buten-1-ol (C6-isoprenol). Using C6-isoprenol as the final product, we then engineered the LMVA pathway by redirecting its upstream portion from a thiolase-dependent pathway to a beta-oxidation pathway. The beta-oxidation LMVA pathway transforms valeric acid, a platform chemical that can be produced from biomass, into C6-isoprenol at a titer of 110.3 mg/L, improved from 5.5 mg/L by the thiolase LMVA pathway, which used propionic acid as a feedstock. Knockout of the E. coli endogenous thiolase genes further improved the C6-isoprenol titer to 390 mg/L, implying efficient production of homo isopentenyl pyrophosphate (HIPP). The beta-oxidation LMVA-NudB pathway also converts butanoic acid and hexanoic acid into isoprenol and isoprenol’s seven-carbon analog, 3-propyl-3-buten-1-ol (C7-isoprenol), respectively, suggesting the beta-oxidation LMVA pathway produces IPP and C7-IPP from the corresponding fatty acids. Fuel property tests revealed the longer chain isoprenol analogs have lower water solubilities, similar or higher energy densities, and comparable research octane number (RON) boosting effects to isopentenols. This work not only optimizes the LMVA pathway, setting the basis for homoterpene biosynthesis to expand terpene chemical space, but provides an efficient pathway to produce isoprenol analogs as next-generation biofuels from sustainable feedstocks.

59 BASIC BIOLOGICAL SCIENCES↗

Gallium Oxide Heterojunction Diodes for 400 °C High‐Temperature Applications

β ‐Ga 2 O 3 ‐based semiconductor devices are expected to have significantly improved high‐power and high‐temperature performance due to its ultrawide bandgap of close to 5 eV. However, the high‐temperature operation of these ultrawide‐bandgap devices is usually limited by the relatively low 1–2 eV built‐in potential at the Schottky barrier with most high‐work‐function metals. Herein, heterojunction p ‐NiO/n‐ β ‐Ga 2 O 3 diodes fabrication and optimization for high‐temperature device applications are reported, demonstrating a current rectification ratio ( I ON / I OFF ) of more than 10 6 at 410 °C. The NiO heterojunction diode can achieve higher turn‐on ( V ON ) voltage and lower reverse leakage current compared to the Ni‐based Schottky diode fabricated on the same single‐crystal β ‐Ga 2 O 3 substrate, despite charge transport dominated by interfacial recombination. Electrical characterization and device modeling show that these advantages are due to a higher built‐in potential and additional band offset. These results suggest that heterojunction p–n diodes based on β ‐Ga 2 O 3 can significantly improve high‐temperature electronic device and sensor performance.

Sohel, Shahadat H.↗

Alpha/beta-gated gamma–gamma spectroscopy of mixed fission products for trace analysis

This experiment demonstrated that some hard-to-detect fission products can be quantified directly from mixed fission product samples using advanced radio-emission spectroscopy techniques. A gamma/gamma coincidence detector was combined with a custom liquid scintillation counter to evaluate the benefits of alpha and beta coincident and anti-coincident analysis of mixed fission product samples. Reduction factors in the minimum detectable activity (MDA) relative to traditional gamma counting were quantified for a set of radionuclides. For isotopes like 91Y, 144Ce, 147Nd, and 153Sm MDA reductions of factors of 1-2 were observed using optimized beta thresholds. Using beta anti-coincidence counting reductions of factors 3-5 were observed for isotopes like 89Sr, 95mNb, 115Cd, and 137Cs and factors of 5-7 for isotopes like 235U using alpha coincidence counting. The selectivity of gamma/gamma coincidence and reduction in backgrounds using beta gating were also demonstrated with 136Cs and 153Sm. The improvements observed in the detection sensitivity of fission products and actinides achieved by combining time-correlated radiation signatures is significant and of value to applications such as nuclear fission physics, environmental monitoring for nuclear waste, reactor accidental releases, and nuclear forensics.

38 RADIATION CHEMISTRY, RADIOCHEMISTRY, AND NUCLEA↗

Deterministic chaos in the self-assembly of β sheet nanotubes from an amphipathic oligopeptide

The self-assembly of designed peptides into filaments and other higher-order structures has been the focus of intense interest because of the potential for creating new biomaterials and biomedical devices. These peptide assemblies have also been used as models for understanding biological processes, such as the pathological formation of amyloid. Here we investigate the assembly of an octapeptide sequence, Ac-FKFEFKFE-NH2, motivated by prior studies that demonstrated that this amphipathic beta strand peptide self-assembled into fibrils and biocompatible hydrogels. Using high-resolution cryoelectron microscopy (cryo-EM), we are able to determine the atomic structure for two different coexisting forms of the fibrils, containing four and five beta sandwich protofilaments, respectively. Surprisingly, the inner walls in both forms are parallel beta sheets, while the outer walls are antiparallel beta sheets. Our results demonstrate the chaotic nature of peptide self-assembly and illustrate the importance of cryo-EM structural analysis to understand the complex phase behavior of these materials at near-atomic resolution.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Development of 17 N as a time-tagged neutron source for calibration of large antineutrino detectors

Large antineutrino detectors hold the potential for remote nuclear reactor monitoring and discovery, which is of great interest for nonproliferation and treaty verification applications. Correlated-particle calibration sources are especially useful for large-volume designs based on detection of inverse beta-decay events, as the timing information of the coincident particles improves background rejection and event reconstruction. 17 N is a promising calibration source since it emits beta-correlated delayed neutrons and can be produced relatively easily using high-energy neutrons. In this work, we examine the feasibility of 17 N as a time-tagged calibration source for large antineutrino detectors. 17 N was produced using a DT neutron generator from a water sample enriched in 17 O, and the observed production rates were found to be consistent with previous measurements of the 17 O(n,p) 17 N reaction cross-section. As a result, time-tagging of 17 N delayed neutrons is demonstrated via beta-neutron coincidence measurements conducted using a specialized beta detector.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Electromagnetic turbulence in increased β plasmas in the Large Plasma Device

The variation of pressure-gradient-driven turbulence with plasma $\beta$ (up to $\beta \approx 15\,\%$ ) is investigated in linear, magnetized plasma. The magnitude of magnetic fluctuations is observed to increase substantially with increasing $\beta$ . More importantly, parallel magnetic fluctuations are observed to dominate at higher $\beta$ values, with $\delta B_\parallel / \delta B_\perp \approx 2$ and $\delta B / B_0 \approx 1\,\%$ . Parallel magnetic fluctuations are strongly correlated with density fluctuations and the two are observed to be out of phase. The relative magnitude of and cross-phase between density and parallel magnetic field fluctuations are consistent with the dynamic pressure balance ( $P+{B_{0}^2}/{2\mu _0} = \textrm {constant}$ ). A local slab model theory for electromagnetic, modified drift Alfvén waves, including parallel magnetic fluctuations, shows partial agreement with experimental observations.

Physics↗

Kinetic stability of Chapman–Enskog plasmas

In this paper, we investigate the kinetic stability of classical, collisional plasma – that is, plasma in which the mean-free-path $\lambda$ of constituent particles is short compared with the length scale $L$ over which fields and bulk motions in the plasma vary macroscopically, and the collision time is short compared with the evolution time. Fluid equations are typically used to describe such plasmas, since their distribution functions are close to being Maxwellian. The small deviations from the Maxwellian distribution are calculated via the Chapman–Enskog (CE) expansion in $\lambda /L \ll 1$ , and determine macroscopic momentum and heat fluxes in the plasma. Such a calculation is only valid if the underlying CE distribution function is stable at collisionless length scales and/or time scales. We find that at sufficiently high plasma $\beta$ , the CE distribution function can be subject to numerous microinstabilities across a wide range of scales. For a particular form of the CE distribution function arising in strongly magnetised plasma ( viz. plasma in which the Larmor periods of particles are much smaller than collision times), we provide a detailed analytic characterisation of all significant microinstabilities, including peak growth rates and their associated wavenumbers. Of specific note is the discovery of several new microinstabilities, including one at sub-electron-Larmor scales (the ‘whisper instability’) whose growth rate in certain parameter regimes is large compared with other instabilities. Our approach enables us to construct the kinetic stability maps of classical, two-species collisional plasma in terms of $\lambda$ , the electron inertial scale $d_e$ and the plasma $\beta$ . This work is of general consequence in emphasising the fact that high- $\beta$ collisional plasmas can be kinetically unstable; for strongly magnetised CE plasmas, the condition for instability is $\beta \gtrsim L/\lambda$ . In this situation, the determination of transport coefficients via the standard CE approach is not valid.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Integration of Metabolic and Bioprocess Engineering for the Production of B-Ketoadipic Acid from Glucose and Xylose by Pseudomonas Putida

..beta..-Ketoadipic acid is a common intermediate in aerobic microbial aromatic catabolism that can be used as a monomer in performance-advantaged biopolymers. Here, we engineered Pseudomonas putida KT2440 to produce ..beta..-ketoadipate from glucose and xylose, the most prevalent carbohydrates derived from lignocellulosic polysaccharides. With the top-performing strain, P. putida GR038, we conducted bioprocess development using glucose and xylose as substrates in a 2 : 1 molar ratio to mimic lignocellulosic hydrolysate. Fed-batch cultivations achieved a titer of 65.8 g L-1 and a rate of 0.69 g L-1 h-1, with a C-mol yield of 0.52. Application of adsorptive in situ product recovery further improved the effective titer to 92.0 g L-1 and the rate to 0.83 g L-1 h-1, while also improving the downstream purity of ..beta..-ketoadipate from 88.3 wt% to 99.0 wt%. These results show promise towards industrial production of ..beta..-ketoadipate from lignocellulosic sugars.

09 BIOMASS FUELS↗

Optimization of quasi-axisymmetric stellarators with varied elongation

An optimization study of Quasi-Axisymmetric (QA) stellarators with varied elongation has been carried out using the optimization code STELLOPT. The starting point of our optimization is a previously obtained QA stellarator with 3 field periods and aspect ratio of 6. Here, a series of QA stellarators are obtained at zero plasma beta with varied elongation value ranging from 2.5 to 3.7. Good quasi-symmetry is kept when the elongation value is reduced from the original value of 3.7. The rotational transform profile and aspect ratio are kept fixed. The plasma volume is ether kept fixed or varied linearly with elongation. Furthermore, finite beta QA stellarators are considered. The corresponding bootstrap currents are calculated using the kinetic code SFINCS. A series of kink-stable QA stellarators are obtained via optimization with varied plasma beta up to 5% and self-consistent bootstrap current. This work demonstrates that good QA stellarators with finite beta and varied elongation exist that are stable to external kink modes.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Transferrin receptor targeting by de novo sheet extension

The de novo design of polar protein–protein interactions is challenging because of the thermodynamic cost of stripping water away from the polar groups. Here, we describe a general approach for designing proteins which complement exposed polar backbone groups at the edge of beta sheets with geometrically matched beta strands. We used this approach to computationally design small proteins that bind to an exposed beta sheet on the human transferrin receptor (hTfR), which shuttles interacting proteins across the blood–brain barrier (BBB), opening up avenues for drug delivery into the brain. We describe a design which binds hTfR with a 20 nM K d , is hyperstable, and crosses an in vitro microfluidic organ-on-a-chip model of the human BBB. Our design approach provides a general strategy for creating binders to protein targets with exposed surface beta edge strands.

59 BASIC BIOLOGICAL SCIENCES↗

On hybrid scenarios in KSTAR

We report the status of hybrid scenario experiments in Korea Superconducting Tokamak Advanced Research (KSTAR). The hybrid scenario is defined as stationary discharges with ${\beta _{\rm{N}}}$ $ \geqslant $ 2.4 and ${H_{89}}$ $ \geqslant $ 2.0 at ${q_{95}}$ < 6.5 without or with very mild sawtooth activities in KSTAR. It is being developed towards reactor-relevant conditions. High performance of ${\beta _{\rm{N}}} \lesssim 3.0$, ${H_{89}} \lesssim 2.4$ and G-factor ($ \equiv {\beta _{\rm{N}}}{H_{89}}/q_{95}^2$) $ \lesssim 0.4$6 has been achieved and sustained for $ \gtrsim 40{{\tau }_{\text{E}}}$ at ne/nGW ~ 0.7 with heating power of $ \lesssim $5 MW. Some KSTAR hybrid discharges exhibit a unique feature of a slow transition from conventional H-mode to hybrid mode after the third neutral beam injection. The reason for the confinement enhancement is extensively studied in this transition period of a representative discharge exhibiting a common feature of KSTAR hybrid scenarios. 0D performance analysis with magnetohydrodynamic activities, 1D kinetic profile dynamics, power balance analysis, linear gyro-kinetic analysis and edge pedestal stability analysis were conducted. The enhancement is thought to be from both the core and the pedestal. The improvement in the core region of the ion energy channel is observed from the linear gyro-kinetic analysis considering the electromagnetic, the fast ion, the Shafranov shift, ${\it{\omega }_{E \times B}}$, and the magnetic shear effect. The electromagnetic finite $\beta $ stabilisation plays a role in the inner core region at ${\rho _{\rm{tor}}}\sim0.35$ together with the fast ion effect. The alpha stabilisation effect is also found at ${\rho _{\rm{tor}}}\sim0.5$. ${\omega _{E \times B}}$, which could reduce the linear growth of the ion temperature gradient mode in the outer core region at ${\rho _{\rm{tor}}}\sim0.5 - 0.7$ with the highest contribution from the toroidal rotation. Furthermore, regarding the improvement in the pedestal, Shafranov shift broadens the stability boundary of the pedestal in support of the diamagnetic effect. The pedestal height and width could be reproduced by the EPED model, while a realistic current profile is used to calculate the internal inductance for Shafranov shift. Based on these findings, a comprehensive confinement enhancement mechanism has been proposed by considering the core-edge interplay.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

"BAAE" instabilities observed without fast ion drive

The instability that was previously identified as a fast-ion driven beta-induced Alfv´en-acoustic eigenmode (BAAE) in DIII-D was misidentified. In a dedicated experiment, low frequency modes (LFM) with characteristic “Christmas light” patterns of brief instability linked to the safety factor evolution occur in plasmas with electron temperature T e ≳ 2.1 keV but modest beta. To isolate the importance of different driving gradients on these modes, the electron cyclotron heating power and 80 keV, sub-Alfv´enic neutral beams are altered for 50-100 ms durations in reproducible discharges. Although beta-induced Alfv´en eigenmodes and reversed-shear Alfv´en eigenmodes stabilize when beam injection ceases (as expected for a fast-ion driven instability), the low frequency modes that were called BAAEs persist. Data mining reveals that characteristic LFM instabilities can occur in discharges with no beam heating but strong electron cyclotron heating. A large database of over 1000 discharges shows that LFMs are only unstable in plasmas with hot electrons but modest overall beta. The experimental LFMs have low frequencies (comparable to diamagnetic drift frequencies) in the plasma frame, occur near the minimum of the safety factor q min , and appear when q min is close to rational values. In conclusion, theoretical analysis suggests that the LFMs are a low frequency reactive instability of predominately Alfv´enic polarization.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Investigation of pedestal parameters and divertor heat fluxes in small ELM regimes in DIII-D

Abstract Divertor heat flux and its correlation with pedestal parameters within various small edge localized mode (ELM) regimes, including high beta poloidal, type-II and ELMs with negative triangularity H-modes were investigated in DIII-D. The parallel energy fluences of type-II and high beta poloidal small ELM regimes fall below the linear scaling with pedestal electron pressure for type-I ELMs put forward in Eich et al 2017 ( Nucl. Mater. Energy 12 84–90). The negative triangularity of H-mode ELMs follow the Eich scaling for type-I ELMs. The parallel heat flux and total heat loads to the divertor were determined using high-time resolution infrared thermography, while pedestal parameters were obtained through self-consistent kinetic equilibrium reconstructions. Linear regressions for the type-II and high beta poloidal regimes demonstrate that an equivalent 7.5 MA small ELM scenario in ITER would fall below the ~5 MJ m − 2 leading edge melting limit for tungsten (Gunn et al 2017 Nucl. Fusion 57 046025). Utilizing fast thermography, the scrape-off layer power fall-off length for both inter-ELM and intra-ELM was determined and compared to the Eich scaling with poloidal magnetic field in Eich et al (ASDEX Upgrade Team and JET EFDA Contributors 2013 Nucl. Fusion 53 093031). Except for the high beta poloidal scenario, all the small ELM regimes during both inter- and intra-ELM periods had power fall-off lengths ( λ q ) larger then would be expected from the B pol , MP − 1 scaling associated with type-I ELMs, signifying their potential in managing heat loads and offering a solution for core–edge integration.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Using strong lensing to detect subhaloes with steep inner density profiles

ABSTRACT The inner region of a subhalo’s density distribution is particularly sensitive to dark matter microphysics, with alternative dark matter models leading to both cored and steeply-rising inner density profiles. This work investigates how the lensing signature and detectability of dark matter subhaloes in mock HST-, Euclid-, and JWST-like strong lensing observations depend on the subhalo’s radial density profile, especially with regards to the inner power-law slope, $\beta$. We demonstrate that the minimum subhalo mass detectable along the Einstein ring of a system is strongly dependent on $\beta$. In particular, we show that subhaloes with $\beta = 2.2$ can be detected down to masses over an order-of-magnitude lower than their Navarro–Frenk–White (NFW) counterparts with $\beta = 1$. Importantly, we find that the detectability of subhaloes with steep inner profiles is minimally affected by increasing the complexity of the main lens galaxy’s mass model. This is a notable characteristic of these subhaloes, as those with NFW or shallower profiles become essentially undetectable when multipole perturbations are added to the lens model. The results of this work highlight how the underlying dark matter physics can significantly impact the expected number of subhalo detections from strong gravitational lensing observations. This is important for testing Cold Dark Matter against alternative models, such as Self-Interacting Dark Matter, that predict a diverse range of subhalo inner density profiles.

dark matter↗

Evidence of Quadrupole and Octupole Deformations in Zr 96 + Zr 96 and Ru 96 + Ru 96 Collisions at Ultrarelativistic Energies

In the hydrodynamic model description of heavy-ion collisions, the elliptic flow v 2 and triangular flow v 3 are sensitive to the quadrupole deformation β 2 and octupole deformation β 3 of the colliding nuclei. The relations between v n and β n have recently been clarified and were found to follow a simple parametric form. The STAR Collaboration has just published precision v n data from isobaric Ru 96 + Ru 96 and Zr 96 + Zr 96 collisions, where they observe large differences in central collisions v 2 , Ru > v 2 , Zr and v 3 , Ru < v 3 , Zr . Using a transport model simulation, we show that these orderings are a natural consequence of $\beta_{2,Ru} \gg \beta_{2,Zr}$ and $\beta_{3,Ru} \ll \beta_{3,Zr}$ We reproduce the centrality dependence of the v 2 ratio qualitatively and v 3 ratio quantitatively and extract values of β 2 and β 3 that are consistent with those measured at low-energy nuclear structure experiments. STAR data provide the first direct evidence of strong octupole correlations in the ground state of Zr 96 in heavy-ion collisions. Our analysis demonstrates that flow measurements in high-energy, heavy-ion collisions, especially using isobaric systems, are a new precision tool to study nuclear structure physics.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Sequence, structure prediction, and epitope analysis of the polymorphic membrane protein family in Chlamydia trachomatis

The polymorphic membrane proteins (Pmps) are a family of autotransporters that play an important role in infection, adhesion and immunity in Chlamydia trachomatis. Here we show that the characteristic GGA(I,L,V) and FxxN tetrapeptide repeats fit into a larger repeat sequence, which correspond to the coils of a large beta-helical domain in high quality structure predictions. Analysis of the protein using structure prediction algorithms provided novel insight to the chlamydial Pmp family of proteins. While the tetrapeptide motifs themselves are predicted to play a structural role in folding and close stacking of the beta-helical backbone of the passenger domain, we found many of the interesting features of Pmps are localized to the side loops jutting out from the beta helix including protease cleavage, host cell adhesion, and B-cell epitopes; while T-cell epitopes are predominantly found in the beta-helix itself. This analysis more accurately defines the Pmp family of Chlamydia and may better inform rational vaccine design and functional studies.

59 BASIC BIOLOGICAL SCIENCES↗