Authors: Goyal, Lakshay, Kaur, Mehardeep, Mandal, Meghna, Panda, Debasmita, Karmakar, Subhasis, Molla, Kutubuddin Ali, Bhatia, Dharminder^{Aff1, IDs13205023038579_cor7}

Superior Title: 3 Biotech. 14(1)

Authors: Tissot, Gilles, Mémin, Étienne, Jamet, Quentin

Contributors: Océan Dynamique Observations Analyse (ODYSSEY), Université de Rennes (UR)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Brest (UBO)-Inria Rennes – Bretagne Atlantique, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-IMT Atlantique (IMT Atlantique), Institut Mines-Télécom Paris (IMT)-Institut Mines-Télécom Paris (IMT), Institut de Recherche Mathématique de Rennes (IRMAR), Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-École normale supérieure - Rennes (ENS Rennes)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut Agro Rennes Angers, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Laboratoire d'Océanographie Physique et Spatiale (LOPS), Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)

Superior Title: Stochastic Transport in Upper Ocean Dynamics II ; https://inria.hal.science/hal-04356221 ; Stochastic Transport in Upper Ocean Dynamics II, 11, Springer Nature Switzerland, pp.293-319, 2024, Mathematics of Planet Earth, ⟨10.1007/978-3-031-40094-0_14⟩

Subject Terms: Doubled haploid, Food security, Haploid inducer stock, Orthologs, Transmembrane helices, [PHYS.MPHY]Physics [physics]/Mathematical Physics [math-ph], [SDU.OCEAN]Sciences of the Universe [physics]/Ocean, Atmosphere

Relation: info:eu-repo/semantics/altIdentifier/pmid/38419919; hal-04356221; https://inria.hal.science/hal-04356221; https://inria.hal.science/hal-04356221/document; https://inria.hal.science/hal-04356221/file/978-3-031-40094-0_14.pdf; PUBMED: 38419919

Availability: https://doi.org/10.1007/978-3-031-40094-0_14
https://inria.hal.science/hal-04356221
https://inria.hal.science/hal-04356221/document
https://inria.hal.science/hal-04356221/file/978-3-031-40094-0_14.pdf

Contributors: Zimmermann, Richard, Lang, Sven

Subject Terms: chaperones, contact sites, endoplasmic reticulum, ER-SURF, membrane extraction, mitochondria, protein targeting, bimolecular luminescence complementation, competition, split luciferase, membrane proteins, protein–protein interactions, Sec61 complex, Sec63, synthetic peptide complementation, TRAP complex, ER protein translocase, signal peptide, protein translocation, nascent peptide chain, membrane insertion, molecular modelling, molecular dynamics simulations, molecular docking, signal peptidase, ER translocon, signal recognition particle dependent protein targeting, Sec61 dependent translocation, co-translational translocation, inhibitor, high throughput screening, Sec61, Sec62, folding, insertion, membrane protein, translocon, ribosome, transmembrane segment, lipid droplets, peroxisomes, PEX3, membrane protein insertion, label-free quantitative mass spectrometry, differential protein abundance analysis, Zellweger syndrome, GET, protein transport, SND, SRP, EMC, positive-inside rule, hydrophobicity, transmembrane helix, signal recognition particle, nascent polypeptide-associated complex, fidelity, cyclotriazadisulfonamide, ER quality control, DNAJC3, preprotein, Sec61 translocon, ribosome stalling, signal sequence, Sec61 translocase, NAC, bic Book Industry Communication:G Reference, information & interdisciplinary subjects:GP Research & information: general, bic Book Industry Communication:P Mathematics & science:PS Biology, life sciences

File Description: application/octet-stream

Access URL: https://directory.doabooks.org/handle/20.500.12854/84433

Authors: Paillat, Maëlle, Lunar Silva, Ignacio, Cascales, Eric, Doan, Thierry

Contributors: Laboratoire d'ingénierie des systèmes macromoléculaires (LISM), Aix Marseille Université (AMU)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), ANR-15-CE11-0019,TOOTHPASTE,Bases moléculaires de la virulence de Porphyromonas gingivalis, un pathogène bucco-dentaire(2015), ANR-20-CE11-0011,T9-Mechanism,Elucider le mécanisme d'action du système de sécrétion de type IX (T9SS)(2020)

Superior Title: ISSN: 1350-0872.

Subject Terms: anionic lipopolysaccharide CTD, C-terminal domain OM, outer membrane PMF, proton motive force TMH, transmembrane helix T9SS, type IX secretion system, protein transport, secretion signal, effectors, toxins, type IX secretion, gliding motility. Abbreviations: A-LPS, anionic lipopolysaccharide, CTD, C-terminal domain, OM, outer membrane, PMF, proton motive force, TMH, transmembrane helix, T9SS, [SDV]Life Sciences [q-bio]

Relation: hal-04234754; https://amu.hal.science/hal-04234754; https://amu.hal.science/hal-04234754/document; https://amu.hal.science/hal-04234754/file/108-2023-Microbiology-Paillat.pdf

Availability: https://doi.org/10.1099/mic.0.001320
https://amu.hal.science/hal-04234754
https://amu.hal.science/hal-04234754/document
https://amu.hal.science/hal-04234754/file/108-2023-Microbiology-Paillat.pdf

Authors: Vidović, Marija, Galović, Vladislava

Contributors: Morić, Ivana, Đorđević, Valentina

Superior Title: 4th Belgrade Bioinformatics Conference

Subject Terms: cytochrome c oxidase subunit 1, Heterogynidae, Heterogynis sp, Lepidoptera, conserved protein motif, protein sequence, secondary and tertiary protein structure, transmembrane helices

Relation: info:eu-repo/grantAgreement/MESTD/inst-2020/200042/RS//; info:eu-repo/grantAgreement/MESTD/inst-2020/200197/RS//; https://belbi.bg.ac.rs/; https://imagine.imgge.bg.ac.rs/handle/123456789/2054; https://imagine.imgge.bg.ac.rs/bitstream/id/321331/BELBI-Abstracts-final-07072023_1-15,125,129.pdf; https://hdl.handle.net/21.15107/rcub_imagine_2054

Availability: https://imagine.imgge.bg.ac.rs/handle/123456789/2054
https://belbi.bg.ac.rs/
https://imagine.imgge.bg.ac.rs/bitstream/id/321331/BELBI-Abstracts-final-07072023_1-15,125,129.pdf
https://hdl.handle.net/21.15107/rcub_imagine_2054

Authors: Jingru Zhou, Qiangqiang Ge, Dandan Wang, Qiong Guo, Yuyong Tao

Superior Title: Cell Reports, Vol 42, Iss 4, Pp 112385- (2023)

Subject Terms: synthetic receptors, cell engineering, transcriptional programs, double-transmembrane helices, positive loop, Biology (General), QH301-705.5

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2211124723003960; https://doaj.org/toc/2211-1247

Access URL: https://doaj.org/article/cc9521fd53214c2196714f1cc0364e56

Authors: Xuyang Wang, Jieru Chen, Jiujiu Huang, Mei Hong

Superior Title: Pharmaceutics ; Volume 15 ; Issue 9 ; Pages: 2279

Subject Terms: OATP1B1, double-leucine motifs, intracellular loops, transmembrane helices, transport function

File Description: application/pdf

Relation: Drug Targeting and Design; https://dx.doi.org/10.3390/pharmaceutics15092279

Availability: https://doi.org/10.3390/pharmaceutics15092279

Authors: Jee Eun Kang, Ji Hae Jun, Jung Hyun Kwon, Ju-Hyun Lee, Kidong Hwang, Sungjong Kim, Namhee Jeong

Superior Title: Genes; Volume 14; Issue 7; Pages: 1476

Subject Terms: liquid–liquid phase separation, protein oligomerization, GO, domain–domain interaction, domain linker, intrinsically disordered regions, domain–peptide interaction, beta sheet, transmembrane helices, post-translational modification

Subject Geographic: agris

File Description: application/pdf

Relation: Bioinformatics; https://dx.doi.org/10.3390/genes14071476

Availability: https://doi.org/10.3390/genes14071476

Authors: Hadiar Rahman, Mark J. Ware, Andaleeb Sajid, Sabrina Lusvarghi, Stewart R. Durell, Suresh V. Ambudkar

Superior Title: Cancers; Volume 15; Issue 13; Pages: 3459

Subject Terms: ABC transporter, chemoresistance, drug transport, multidrug resistance, mutational analysis, molecular dynamics simulations, P-glycoprotein, transmembrane helices, structure and function

File Description: application/pdf

Relation: https://dx.doi.org/10.3390/cancers15133459

Availability: https://doi.org/10.3390/cancers15133459

Authors: Xiaopan Chen, Linjie Chen, Yang Wang, Chongyi Shu, Yier Zhou, Ruifang Wu, Bihui Jin, Leixiang Yang, Junhui Sun, Ming Qi, Jing Shu

Superior Title: Frontiers in Endocrinology, Vol 13 (2023)

Subject Terms: primary ovarian insufficiency, resistant ovary syndrome, follicle-stimulating hormone receptor, compound heterozygous variant, transmembrane helix, Diseases of the endocrine glands. Clinical endocrinology, RC648-665

Relation: https://www.frontiersin.org/articles/10.3389/fendo.2022.1013894/full; https://doaj.org/toc/1664-2392; https://doaj.org/article/81c61fdc71404757aeaa238ca489e38d

Availability: https://doi.org/10.3389/fendo.2022.1013894
https://doaj.org/article/81c61fdc71404757aeaa238ca489e38d

Authors: Nadja Hellmann, Dirk Schneider

Superior Title: Frontiers in Chemistry, Vol 10 (2022)

Subject Terms: TOXCAT, GpA, dimerization, biological assay, hydrophobic mismatch, transmembrane helix, Chemistry, QD1-999

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fchem.2022.1049310/full; https://doaj.org/toc/2296-2646

Access URL: https://doaj.org/article/91da12ce71a044e28bb231fe59a189e9

Authors: Hui Zhou, Zhuoran Hu, Yunxin Luo, Cuizhu Feng, Yu Long

Superior Title: Frontiers in Plant Science, Vol 13 (2022)

Subject Terms: ALMT7, malate flux, transmembrane helices, homomer, channel activity, Plant culture, SB1-1110

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fpls.2022.1012578/full; https://doaj.org/toc/1664-462X

Access URL: https://doaj.org/article/3657d18fa2da425583010862ba8a23f3

Authors: Stopp, Marius^{j_hsz-2021-0254_aff_001}, Steinmetz, Philipp A.^{j_hsz-2021-0254_aff_001}, Unden, Gottfried^{j_hsz-2021-0254_aff_001}

Superior Title: Biological Chemistry. 402(10):1239-1246

Availability: https://www.degruyter.com/document/doi/10.1515/hsz-2021-0254/html

Authors: Anna K. Wright (1322592), Joana Paulino (12014816), Timothy A. Cross (1316430)

Subject Terms: Biophysics, Biochemistry, Genetics, Molecular Biology, Biotechnology, Hematology, Infectious Diseases, Physical Sciences not elsewhere classified, well recognized today, trp41 functional sites, small membrane proteins, membrane proteins needs, channel main axis, m2 membrane protein, m2 wt structure, s31n m2 protein, single transmembrane helix, oriented sample solid, high molar ratio, emulated membrane environment, protein data bank, influenza s31n m2, native protein structure, s31n m2, protein ratio, protein include, single conformation, amphipathic helix, symmetric structure, native structure

Relation: https://figshare.com/articles/journal_contribution/Emulating_Membrane_Protein_Environments_How_Much_Lipid_Is_Required_for_a_Native_Structure_Influenza_S31N_M2/19087790

Availability: https://doi.org/10.1021/jacs.1c10174.s001

Authors: Rieko Suenaga (12042438), Mizuki Takemoto (761672), Asuka Inoue (52011), Ryuichiro Ishitani (467564), Osamu Nureki (467566)

Subject Terms: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Biotechnology, Developmental Biology, Infectious Diseases, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, +1%22">xlink "> 1, various physiological phenomena, play important roles, performed molecular dynamics, long timescale dynamics, including cellular survival, evoke various responses, 4 -&# 956, markov state model, lateral access mechanism, md simulation suggested, div >< p, ligand binding process, gap structure enables, lpa receptor probed, transition state, lateral entrance, binding pocket, gap structure, crystal structure, transmembrane helices

Relation: https://figshare.com/articles/journal_contribution/Analysis_of_the_MSM_construction_by_the_bootstrap_method_/19117941

Availability: https://doi.org/10.1371/journal.pone.0263296.s001

Authors: Rieko Suenaga (12042438), Mizuki Takemoto (761672), Asuka Inoue (52011), Ryuichiro Ishitani (467564), Osamu Nureki (467566)

Subject Terms: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Biotechnology, Developmental Biology, Infectious Diseases, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, +1%22">xlink "> 1, various physiological phenomena, play important roles, performed molecular dynamics, long timescale dynamics, including cellular survival, evoke various responses, 4 -&# 956, markov state model, lateral access mechanism, md simulation suggested, div >< p, ligand binding process, gap structure enables, lpa receptor probed, transition state, lateral entrance, binding pocket, gap structure, crystal structure, transmembrane helices

Relation: https://figshare.com/articles/journal_contribution/S1_File_-/19117950

Availability: https://doi.org/10.1371/journal.pone.0263296.s004

Authors: Tirincsi, Andrea, Sicking, Mark, Hadzibeganovic, Drazena, Haßdenteufel, Sarah, Lang, Sven

Subject Terms: ddc:610, endoplasmic reticulum, GET, protein targeting, SND, SRP, Sec61 complex, EMC, positive-inside rule, hydrophobicity, signal peptide, transmembrane helix

Relation: International Journal of Molecular Sciences 23 (1): 143 (2022); http://nbn-resolving.org/urn:nbn:de:bsz:291--ds-352240; hdl:20.500.11880/32203; http://dx.doi.org/10.22028/D291-35224

Availability: https://doi.org/10.22028/D291-3522410.3390/ijms23010143
http://nbn-resolving.org/urn:nbn:de:bsz:291--ds-352240

Authors: Jaewan Jang (11530594), Soo-Kyung Kim (1632286), Brian Guthrie (11530597), William A. Goddard (1235154)

Subject Terms: Biophysics, Biochemistry, Medicine, Molecular Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, transmembrane helices 3, identifies new combinations, free energy compared, partial synergic combinations, full synergic combinations, )/ acesulfame k, acesulfame k, synergic effects, synergic effect, treating diseases, therapeutic target, sweet taste, sugar level, study provides, show significantly, predicted structures, pair known, negative changes, metabolic dysfunctions, ligand cases, ligand case, coupled receptor, caloric content, attractive taste

Relation: https://figshare.com/articles/journal_contribution/Synergic_Effects_in_the_Activation_of_the_Sweet_Receptor_GPCR_Heterodimer_for_Various_Sweeteners_Predicted_Using_Molecular_Metadynamics_Simulations/16755223

Availability: https://doi.org/10.1021/acs.jafc.1c03779.s001

Authors: Yue Chen (73753), Oliver Fleetwood (8415849), Sergio Pérez-Conesa (4577794), Lucie Delemotte (525893)

Subject Terms: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Pharmacology, Cancer, Science Policy, Computational Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Physical Sciences not elsewhere classified, specific subtle differences, results provide insights, involving mainly tm1, dynamic network analysis, conformational changes induced, based drug discovery, intracellular loop 2, biased partial agonist, extracellular loop 2, specific active states, intracellular binding partners, intracellular binding partner, fully active state, transmembrane helix 6, gpcr activation mechanism, intracellular end, fully active, active state, full agonist

Relation: https://figshare.com/articles/journal_contribution/Allosteric_Effect_of_Nanobody_Binding_on_Ligand-Specific_Active_States_of_the_2_Adrenergic_Receptor/17014751

Availability: https://doi.org/10.1021/acs.jcim.1c00826.s001

Authors: Jon Kapla (1296636), Ismael Rodriguez Espigares (10798603), Flavio Ballante (1312488), Jana Selent (147923), Jens Carlsson (584038)

Subject Terms: Biophysics, Biochemistry, Molecular Biology, Biotechnology, Infectious Diseases, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, screening performance, extracellular loop region, crystal structure conformation, D 3 R, transmembrane helix region, GPCR structure prediction, D 3 dopamine receptor, G protein-coupled receptor, MD simulations, accuracy, MD refinement, ligand binding mode, D 3 R crystal structure, model

Relation: https://figshare.com/articles/journal_contribution/Supporting_information_for_MD_simulations_and_molecular_docking_calculations_/14593057

Availability: https://doi.org/10.1371/journal.pcbi.1008936.s001