Homologues of archaeal rhodopsins in plants, animals and fungi: structural and functional predications for a putative fungal chaperone protein

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

Thompson, J. D., Higgins, D. G., & Gibson, T. J. (1994) · Nucleic Acids Research · doi:10.1093/nar/22.22.4673 · Cited by 64,617 · see citing works

The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools

Thompson, J. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.24.4876 · Cited by 38,685 · see citing works

A simple method for displaying the hydropathic character of a protein

Kyte, J., & Doolittle, R. F. (1982) · Journal of Molecular Biology · doi:10.1016/0022-2836(82)90515-0 · Cited by 22,694 · see citing works

PHYLIP-Phylogeny inference package (Version 3.2)

Felsenstein, J. (1989) · Cladistics · Cited by 17,682 · see citing works

A comprehensive set of sequence analysis programs for the VAX

Devereux, J., Haeberli, P. E., & Smithies, O. (1984) · Nucleic Acids Research · doi:10.1093/nar/12.1part1.387 · Cited by 14,222 · see citing works

Bacterial Rhodopsin: Evidence for a New Type of Phototrophy in the Sea

Béjà, O., Aravind, L., Koonin, E. V., Suzuki, M. T., Hadd, A. G., Nguyen, L. P., Jovanovich, S. B., Gates, C. M., Feldman, R. A., Spudich, J. L., et al. (2000) · Science · doi:10.1126/science.289.5486.1902 · Cited by 1,532 · see citing works

Structure of bacteriorhodopsin at 1.55 Å resolution

Luecke, H., Schobert, B., Richter, H.-T., Cartailler, J., & Lanyi, J. Κ. (1999) · Journal of Molecular Biology · doi:10.1006/jmbi.1999.3027 · Cited by 1,452 · see citing works

Electron-crystallographic Refinement of the Structure of Bacteriorhodopsin

Grigorieff, N., Ceska, T. A., Downing, K. H., Baldwin, J. M., & Henderson, R. A. (1996) · Journal of Molecular Biology · doi:10.1006/jmbi.1996.0328 · Cited by 956 · see citing works

A Functional-Phylogenetic Classification System for Transmembrane Solute Transporters

Saier, M. H. (2000) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.64.2.354-411.2000 · Cited by 827 · see citing works

A novel gene encoding an integral membrane protein is mutated in nephropathic cystinosis

Town, M. M., Jean, G., Cherqui, S., Attard, M., Forestier, L., Whitmore, S. A., Callen, D. F., Gribouval, O., Broyer, M., Bates, G. P., et al. (1998) · Nature Genetics · doi:10.1038/ng0498-319 · Cited by 622 · see citing works

The RND permease superfamily: an ancient, ubiquitous and diverse family that includes human disease and development proteins.

Tseng, T., Gratwick, K. S., Kollman, J. M., Park, D., Nies, D. H., Goffeau, A., & Saier, M. H. (1999) · PubMed · Cited by 598 · see citing works

Proton Transfer Pathways in Bacteriorhodopsin at 2.3 Angstrom Resolution

Luecke, H., Richter, H.-T., & Lanyi, J. Κ. (1998) · Science · doi:10.1126/science.280.5371.1934 · Cited by 585 · see citing works

CLOSING IN ON BACTERIORHODOPSIN: Progress in Understanding the Molecule

Haupts, U. M., Tittor, J., & Oesterhelt, D. (1999) · Annual Review of Biophysics and Biomolecular Structure · doi:10.1146/annurev.biophys.28.1.367 · Cited by 581 · see citing works

Structure of the Light-Driven Chloride Pump Halorhodopsin at 1.8 Å Resolution

Kolbe, M., Besir, H., Essen, L., & Oesterhelt, D. (2000) · Science · doi:10.1126/science.288.5470.1390 · Cited by 540 · see citing works

Structural Changes in Bacteriorhodopsin During Ion Transport at 2 Angstrom Resolution

Luecke, H., Schobert, B., Richter, H.-T., Cartailler, J., & Lanyi, J. Κ. (1999) · Science · doi:10.1126/science.286.5438.255 · Cited by 509 · see citing works

Protein, lipid and water organization in bacteriorhodopsin crystals: a molecular view of the purple membrane at 1.9 Å resolution

Belrhali, H., Nollert, P., Royant, A., Menzel, C., Rosenbusch, J. P., Landau, E. M., & Pebay‐Peyroula, E. (1999) · Structure · doi:10.1016/s0969-2126(99)80118-x · Cited by 436 · see citing works

The heat shock and ethanol stress responses of yeast exhibit extensive similarity and functional overlap

Piper, P. W. (1995) · FEMS Microbiology Letters · doi:10.1111/j.1574-6968.1995.tb07925.x · Cited by 389 · see citing works

[23] Progressive alignment and phylogenetic tree construction of protein sequences

Feng, D.-F., & Doolittle, R. F. (1990) · Methods in enzymology on CD-ROM/Methods in enzymology · doi:10.1016/0076-6879(90)83025-5 · Cited by 348 · see citing works

The structure and mechanism of the family of retinal proteins from halophilic archaea

Oesterhelt, D. (1998) · Current Opinion in Structural Biology · doi:10.1016/s0959-440x(98)80128-0 · Cited by 277 · see citing works

The structure of bacteriorhodopsin at 3.0 Å resolution based on electron crystallography: implication of the charge distribution 1 1Edited by R. Huber

Mitsuoka, K., Hirai, T., Murata, K., Miyazawa, A., Kidera, A., Kimura, Y., & Fujiyoshi, Y. (1999) · Journal of Molecular Biology · doi:10.1006/jmbi.1998.2529 · Cited by 262 · see citing works

Computer-aided analyses of transport protein sequences: gleaning evidence concerning function, structure, biogenesis, and evolution

Saier, M. H. (1994) · Microbiological Reviews · doi:10.1128/mr.58.1.71-93.1994 · Cited by 261 · see citing works

Conversion of Bacteriorhodopsin into a Chloride Ion Pump

Sasaki, J., Brown, L. S., Chon, Y.-S., Kandori, H., Maeda, A., Needleman, R. B., & Lanyi, J. Κ. (1995) · Science · doi:10.1126/science.7604281 · Cited by 238 · see citing works

The nop-1 gene of Neurospora crassa encodes a seven transmembrane helix retinal-binding protein homologous to archaeal rhodopsins

Bieszke, J. A., Braun, E. L., Bean, L. E., Kang, S., Natvig, D. O., & Borkovich, K. A. (1999) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.96.14.8034 · Cited by 202 · see citing works

Hsp30, the integral plasma membrane heat shock protein of Saccharmyces cerevisiae, is a stress-inducible regulator of plasma membrane H+-ATPase

Piper, P. W., Ortiz-Calderon, C., Holyoak, C. D., Coote, P. J., & Cole, M. (1997) · Cell Stress and Chaperones · doi:10.1379/1466-1268(1997)002 · Cited by 192 · see citing works

Insertion of proteins into bacterial membranes: mechanism, characteristics, and comparisons with the eucaryotic process

Saier, M. H., Werner, P. K., & Müller, M. P. (1989) · Microbiological Reviews · doi:10.1128/mr.53.3.333-366.1989 · Cited by 183 · see citing works

Mechanism of Ion Transport across Membranes

Lanyi, J. Κ. (1997) · Journal of Biological Chemistry · doi:10.1074/jbc.272.50.31209 · Cited by 180 · see citing works

Evolution of the archaeal rhodopsins: evolution rate changes by gene duplication and functional differentiation

Ihara, K., Umemura, T., Katagiri, I., Kitajima‐Ihara, T., Sugiyama, Y., Kimura, Y., & Mukohata, Y. (1999) · Journal of Molecular Biology · doi:10.1006/jmbi.1998.2286 · Cited by 172 · see citing works

A Eukaryotic Protein, NOP-1, Binds Retinal To Form an Archaeal Rhodopsin-like Photochemically Reactive Pigment

Bieszke, J. A., Spudich, E. N., Scott, K. L., Borkovich, K. A., & Spudich, J. L. (1999) · Biochemistry · doi:10.1021/bi9916170 · Cited by 163 · see citing works

Homologous sugar transport proteins in Escherichia coli and their relatives in both prokaryotes and eukaryotes

Henderson, P. J. F., & Maiden, M. C. J. (1990) · Philosophical transactions of the Royal Society of London. Series B, Biological sciences · doi:10.1098/rstb.1990.0020 · Cited by 159 · see citing works

The amino acid/auxin:proton symport permease family1The accompanying review paper ‘Phylogenetic characterization of novel transport protein families revealed by genome analysis’ by M.H. Saier Jr. et al. will be published in Biochim. Biophys. Acta, Vol. 1422/1, February 1999 issue.1

Young, G., Jack, D. L., Smith, D., & Saier, M. H. (1999) · Biochimica et Biophysica Acta (BBA) - Biomembranes · doi:10.1016/s0005-2736(98)00196-5 · Cited by 150 · see citing works

Molecular Phylogeny as a Basis for the Classification of Transport Proteins from Bacteria, Archaea and Eukarya

Saier, M. H. (1998) · Advances in microbial physiology/Advances in Microbial Physiology · doi:10.1016/s0065-2911(08)60130-7 · Cited by 144 · see citing works

Variations on a molecular switch: transport and sensory signalling by archaeal rhodopsins

Spudich, J. L. (1998) · Molecular Microbiology · doi:10.1046/j.1365-2958.1998.00859.x · Cited by 135 · see citing works

Ocular Nonnephropathic Cystinosis: Clinical, Biochemical, and Molecular Correlations

Anikster, Y., Lucero-Obusan, C. A., Guo, J., Huizing, M., Shotelersuk, V., Bernardini, I. M., McDowell, G. A., Iwata, F., Kaiser‐Kupfer, M. I., Jaffe, R., et al. (2000) · Pediatric Research · doi:10.1203/00006450-200001000-00007 · Cited by 127 · see citing works

Transducin Activation by Rhodopsin Without a Covalent Bond to the 11- Cis -Retinal Chromophore

Zhukovsky, E. A., Robinson, P. R., & Oprian, D. D. (1991) · Science · doi:10.1126/science.1990431 · Cited by 114 · see citing works

CHR, a Novel Family of Prokaryotic Proton Motive Force-Driven Transporters Probably Containing Chromate/Sulfate Antiporters

Nies, D. H., Koch, S., Wachi, S., Peitzsch, N., & Saier, M. H. (1998) · Journal of Bacteriology · doi:10.1128/jb.180.21.5799-5802.1998 · Cited by 107 · see citing works

Halobacterial Rhodopsins

Mukohata, Y., Ihara, K., Tamura, T., & Sugiyama, Y. (1999) · The Journal of Biochemistry · doi:10.1093/oxfordjournals.jbchem.a022332 · Cited by 107 · see citing works

The plasma membrane of yeast acquires a novel heat‐shock protein (hsp30) and displays a decline in proton‐pumping ATPase levels in response to both heat shock and the entry to stationary phase

Panaretou, B., & Piper, P. W. (1992) · European Journal of Biochemistry · doi:10.1111/j.1432-1033.1992.tb16968.x · Cited by 102 · see citing works

Molecular Characterization of CTNS Deletions in Nephropathic Cystinosis: Development of a PCR-Based Detection Assay

Forestier, L., Jean, G., Attard, M., Cherqui, S., Lewis, C. M., Hoff, W. V., Broyer, M., Town, M. M., & Antignac, C. (1999) · The American Journal of Human Genetics · doi:10.1086/302509 · Cited by 95 · see citing works

Mutations of CTNS Causing Intermediate Cystinosis

Thoene, J. G., Lemons, R. M., Anikster, Y., Mullet, J., Paelicke, K. M., Lucero-Obusan, C. A., Gahl, W. A., Schneider, J. A., Shu, S., & Campbell, H. T. (1999) · Molecular Genetics and Metabolism · doi:10.1006/mgme.1999.2876 · Cited by 77 · see citing works

The primary structures of the Archaeon Halobacterium salinarium blue light receptor sensory rhodopsin II and its transducer, a methyl-accepting protein.

Zhang, W., Brooun, A., Mueller, M. M., & Alam, M. (1996) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.93.16.8230 · Cited by 75 · see citing works

Stress induction of HSP30, the plasma membrane heat shock protein gene of Saccharomyces cerevisiae, appears not to use known stress-regulated transcription factors

Seymour, I. J., & Piper, P. W. (1999) · Microbiology · doi:10.1099/13500872-145-1-231 · Cited by 73 · see citing works

The specificity of interaction of archaeal transducers with their cognate sensory rhodopsins is determined by their transmembrane helices

Zhang, X.-N., Zhu, J., & Spudich, J. L. (1999) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.96.3.857 · Cited by 64 · see citing works

Expression Cloning of a Novel Suppressor of the Lec15 and Lec35 Glycosylation Mutations of Chinese Hamster Ovary Cells

Ware, F. E., & Lehrman, M. A. (1996) · Journal of Biological Chemistry · doi:10.1074/jbc.271.24.13935 · Cited by 59 · see citing works

Sequence homology between bacteriorhodopsin and G‐protein coupled receptors: exon shuffling or evolution by duplication?

Taylor, E. W., & Agarwal, A. K. (1993) · FEBS Letters · doi:10.1016/0014-5793(93)81065-8 · Cited by 54 · see citing works

Lysosomal cystine transport. Effect of intralysosomal pH and membrane potential.

Smith, M. L., Greene, A. A., Potashnik, R., Mendoza, S. A., & Schneider, J. A. (1987) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(19)75778-0 · Cited by 48 · see citing works

Bacteriorhodopsin can function without a covalent linkage between retinal and protein

Schweiger, U., Tittor, J., & Oesterhelt, D. (1994) · Biochemistry · doi:10.1021/bi00168a019 · Cited by 35 · see citing works

Prediction of the positioning of the seven transmembrane α-helices of bacteriorhodopsin

Tufféry, P., Etchebest, C., Popot, J., & Lavery, R. (1994) · Journal of Molecular Biology · doi:10.1016/0022-2836(94)90015-9 · Cited by 34 · see citing works

Isolation and sequence of HSP30, a yeast heat-shock gene coding for a hydrophobic membrane protein

Régnacq, M., & Boucherie, H. (1993) · Current Genetics · doi:10.1007/bf00312631 · Cited by 33 · see citing works

Insertion of the mannitol permease into the membrane of Escherichia coli. Possible involvement of an N-terminal amphiphilic sequence.

Yamada, Y., Chang, Y., Daniels, G. A., Wu, L., Tomich, J. M., Yamada, M. C., & Saier, M. H. (1991) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)55208-x · Cited by 26 · see citing works

High-resolution mapping of the gene for cystinosis, using combined biochemical and linkage analysis.

Jean, G., Fuchshuber, A., Town, M. M., Gribouval, O., Schneider, J. A., Broyer, M., Hoff, W. V., Niaudet, P., & Antignac, C. (1996) · PubMed Central · Cited by 23 · see citing works

Isolation of mRNAs induced by a hazardous chemical in white‐rot fungus, Coriolus versicolor, by differential display

Iimura, Y., & Tatsumi, K. (1997) · FEBS Letters · doi:10.1016/s0014-5793(97)00807-7 · Cited by 23 · see citing works

Flexible programs for the prediction of average amphipathicity of multiply aligned homologous proteins: application to integral membrane transport proteins

Le, T.-T. T. T. (1999) · Molecular Membrane Biology · doi:10.1080/096876899294634 · Cited by 23 · see citing works

Clinical and molecular aspects of nephropathic cystinosis

McDowell, G. A., Town, M. M., Hoff, W. V., & Gahl, W. A. (1998) · Journal of Molecular Medicine · doi:10.1007/s001090050220 · Cited by 22 · see citing works

The leader peptides from bacteriorhodopsin and halorhodopsin are potential membrane‐spanning amphipathic helices

von HEIJNE, G., & Segrest, J. P. (1987) · FEBS Letters · doi:10.1016/0014-5793(87)81497-7 · Cited by 21 · see citing works

Evolutionary Relationships Among Proteins Probed by an Iterative Neighborhood Cluster Analysis (INCA). Alignment of Bacteriorhodopsins with the Yeast Sequence YRO2

Graul, R. C., & Sadée, W. (1997) · Pharmaceutical Research · doi:10.1023/a:1012166015402 · Cited by 21 · see citing works

ERS1 a seven transmembrane domain protein fromSaccharomyces cerevisiae

Hardwick, K., & Pelham, H. R. B. (1990) · Nucleic Acids Research · doi:10.1093/nar/18.8.2177 · Cited by 17 · see citing works

Proton Pump Caught in the Act

Gennis, R. B., & Ebrey, T. G. (1999) · Science · doi:10.1126/science.286.5438.252 · Cited by 16 · see citing works

A Covalent Link between the Chromophore and the Protein Backbone of Bacteriorhodopsin Is Not Required for Forming a Photochemically Active Pigment Analogous to the Wild Type

Friedman, N., Druckmann, S., Lanyi, J. Κ., Needleman, R. B., Lewis, A., Ottolenghi, M., & Sheves, M. (1994) · Biochemistry · doi:10.1021/bi00174a001 · Cited by 16 · see citing works

Phylogenetic relationships among bacteriorhodopsins

Kuan, G. M., & Saier, M. H. (1994) · Research in Microbiology · doi:10.1016/0923-2508(94)90183-x · Cited by 14 · see citing works

Three-dimensional model of sensory rhodopsin I reveals important restraints between the protein and the chromophore

Lin, S.-J., & Yan, B. (1997) · Protein Engineering Design and Selection · doi:10.1093/protein/10.3.197 · Cited by 13 · see citing works

The Transporter Classification Database (TCDB): recent advances

Saier, M. H., Reddy, V. S., Tsu, B. V., Ahmed, M. S., Li, C., & Moreno‐Hagelsieb, G. (2015) · Nucleic Acids Research · doi:10.1093/nar/gkv1103 · Cited by 989 · see citing works

Shared Molecular Mechanisms of Membrane Transporters

Drew, D., & Boudker, O. (2016) · Annual Review of Biochemistry · doi:10.1146/annurev-biochem-060815-014520 · Cited by 506 · see citing works

Chemistry of the Retinoid (Visual) Cycle

Kiser, P. D., Golczak, M., & Palczewski, K. (2014) · Chemical Reviews · doi:10.1021/cr400107q · Cited by 353 · see citing works

Cystinosin, the protein defective in cystinosis, is a H+‐driven lysosomal cystine transporter

Kalatzis, V., Cherqui, S., Antignac, C., & Gasnier, B. (2001) · The EMBO Journal · doi:10.1093/emboj/20.21.5940 · Cited by 331 · see citing works

Demonstration of a sensory rhodopsin in eubacteria

Jung, K., Trivedi, V. D., & Spudich, J. L. (2003) · Molecular Microbiology · doi:10.1046/j.1365-2958.2003.03395.x · Cited by 246 · see citing works

Microbial rhodopsins: functional versatility and genetic mobility

Sharma, A. K., Spudich, J. L., & Doolittle, W. F. (2006) · Trends in Microbiology · doi:10.1016/j.tim.2006.09.006 · Cited by 216 · see citing works

Role of amino acid transporters in amino acid sensing

Taylor, P. M. (2013) · American Journal of Clinical Nutrition · doi:10.3945/ajcn.113.070086 · Cited by 215 · see citing works

LAAT-1 Is the Lysosomal Lysine/Arginine Transporter That Maintains Amino Acid Homeostasis

Liu, B., Du, H., Rutkowski, R., Gartner, A., & Wang, X. (2012) · Science · doi:10.1126/science.1220281 · Cited by 195 · see citing works

Microbial Rhodopsins: The Last Two Decades

Rozenberg, A., Inoue, K., Kandori, H., & Béjà, O. (2021) · Annual Review of Microbiology · doi:10.1146/annurev-micro-031721-020452 · Cited by 187 · see citing works

Heptahelical protein PQLC2 is a lysosomal cationic amino acid exporter underlying the action of cysteamine in cystinosis therapy

Jézégou, A., Llinares, E., Anne, C., Kieffer‐Jaquinod, S., O’Regan, S., Aupetit, J., Chabli, A., Sagné, C., Debacker, C., Chadefaux, B., et al. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1211198109 · Cited by 179 · see citing works

Phylogeny as a guide to structure and function of membrane transport proteins (Review)

Chang, A. B., Lin, R. R., STUDLEY, W. K., Tran, C. V., & Saier, M. H. (2004) · Molecular Membrane Biology · doi:10.1080/09687680410001720830 · Cited by 180 · see citing works

Structures of bacterial homologues of SWEET transporters in two distinct conformations

Xu, Y., Tao, Y., Cheung, L. S., Fan, C., Chen, L., Xu, S., Perry, K., Frommer, W. B., & Feng, L. (2014) · Nature · doi:10.1038/nature13670 · Cited by 171 · see citing works

Tracing pathways of transport protein evolution

Saier, M. H. (2003) · Molecular Microbiology · doi:10.1046/j.1365-2958.2003.03499.x · Cited by 154 · see citing works

Control Systems of Membrane Transport at the Interface between the Endoplasmic Reticulum and the Golgi

Cancino, J., Capalbo, A., Campli, A. D., Giannotta, M., Rizzo, R., Jung, J. E., Martino, R. D., Persico, M., Henklein, P., Sallese, M., et al. (2014) · Developmental Cell · doi:10.1016/j.devcel.2014.06.018 · Cited by 136 · see citing works

Signaling Receptome: A Genomic and Evolutionary Perspective of Plasma Membrane Receptors Involved in Signal Transduction

Ben‐Shlomo, I., Hsu, S. Y., Rauch, R., Kowalski, H. W., & Hsueh, A. J. W. (2003) · Science s STKE · doi:10.1126/stke.2003.187.re9 · Cited by 135 · see citing works

Novel Protein Domains and Repeats in Drosophila melanogaster : Insights into Structure, Function, and EvolutionPreprint

Ponting, C. P., Mott, R., Peer Bork, B., & Copley, R. R. (2001) · Genome Research · doi:10.1101/gr.198701 · Cited by 126 · see citing works

Microbial Rhodopsins: Scaffolds for Ion Pumps, Channels, and Sensors

Klare, J. P., Chizhov, I. V., & Engelhard, M. (2007) · Springer eBooks · doi:10.1007/400_2007_041 · Cited by 102 · see citing works

Fungal rhodopsins and opsin-related proteins: eukaryotic homologues of bacteriorhodopsin with unknown functions

Brown, L. S. (2004) · Photochemical & Photobiological Sciences · doi:10.1039/b315527g · Cited by 96 · see citing works

Structural basis for the facilitative diffusion mechanism by SemiSWEET transporter

Lee, Y., Nishizawa, T., Yamashita, K., Ishitani, R., & Nureki, O. (2015) · Nature Communications · doi:10.1038/ncomms7112 · Cited by 87 · see citing works

Retinal is formed from apo-carotenoids in Nostoc sp. PCC7120: in vitro characterization of an apo-carotenoid oxygenase

Scherzinger, D., Ruch, S., Kloer, D. P., Wilde, A., & Al‐Babili, S. (2006) · Biochemical Journal · doi:10.1042/bj20060592 · Cited by 72 · see citing works

A gene of the opsin family in the carotenoid gene cluster of Fusarium fujikuroi

Prado, M., Prado‐Cabrero, A., Fernández-Martín, R., & Ávalos, J. (2004) · Current Genetics · doi:10.1007/s00294-004-0508-6 · Cited by 71 · see citing works

New Insights into the Evolutionary History of Type 1 Rhodopsins

Ruiz‐González, M. X., & Marı́n, I. (2004) · Journal of Molecular Evolution · doi:10.1007/s00239-003-2557-8 · Cited by 68 · see citing works

New aspects of the pathogenesis of cystinosis

Kalatzis, V., & Antignac, C. (2003) · Pediatric Nephrology · doi:10.1007/s00467-003-1077-5 · Cited by 67 · see citing works

PQLC2 recruits the C9orf72 complex to lysosomes in response to cationic amino acid starvation

Amick, J., Tharkeshwar, A. K., Talaia, G., & Ferguson, S. (2019) · Journal of Cell Biology · doi:10.1083/jcb.201906076 · Cited by 61 · see citing works

Identification and biochemical characterization of a novel carotenoid oxygenase: elucidation of the cleavage step in the Fusarium carotenoid pathway

Prado‐Cabrero, A., Estrada, A. F., Al‐Babili, S., & Ávalos, J. (2007) · Molecular Microbiology · doi:10.1111/j.1365-2958.2007.05665.x · Cited by 59 · see citing works

Regulation and Targeted Mutation of opsA, Coding for the NOP-1 Opsin Orthologue in Fusarium fujikuroi

Estrada, A. F., & Ávalos, J. (2009) · Journal of Molecular Biology · doi:10.1016/j.jmb.2009.01.057 · Cited by 58 · see citing works

Cystinosin, MPDU1, SWEETs and KDELR Belong to a Well-Defined Protein Family with Putative Function of Cargo Receptors Involved in Vesicle Trafficking

Saudek, V. (2012) · PLoS ONE · doi:10.1371/journal.pone.0030876 · Cited by 51 · see citing works

The transporter–opsin– G protein‐coupled receptor ( TOG ) superfamily

Yee, D. C., Shlykov, M. A., Västermark, Å., Reddy, V. S., Arora, S., Sun, E. I., & Saier, M. H. (2013) · FEBS Journal · doi:10.1111/febs.12499 · Cited by 51 · see citing works

Eukaryotic G protein-coupled receptors as descendants of prokaryotic sodium-translocating rhodopsins

Shalaeva, D. N., Galperin, M. Y., & Mulkidjanian, A. Y. (2015) · Biology Direct · doi:10.1186/s13062-015-0091-4 · Cited by 46 · see citing works

Mechanism of proton/substrate coupling in the heptahelical lysosomal transporter cystinosin

Ruivo, R., Bellenchi, G. C., Chen, X., Zifarelli, G., Sagné, C., Debacker, C., Pusch, M., Supplisson, S., & Gasnier, B. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1115581109 · Cited by 50 · see citing works

Signaling at the Golgi: sensing and controlling the membrane fluxes

Luini, A., & Parashuraman, S. (2016) · Current Opinion in Cell Biology · doi:10.1016/j.ceb.2016.01.014 · Cited by 48 · see citing works

Molecular modeling of the bacterial outer membrane receptor energizer, ExbBD/TonB, based on homology with the flagellar motor, MotAB

Zhai, Y. F., Heijne, W. H. M., & Saier, M. H. (2003) · Biochimica et Biophysica Acta (BBA) - Biomembranes · doi:10.1016/s0005-2736(03)00176-7 · Cited by 48 · see citing works

Extra domains in secondary transport carriers and channel proteins

Barabote, R. D., Tamang, D. G., Abeywardena, S. N., Fallah, N. S., Fu, J. Y. C., Lio, J. K., Mirhosseini, P., Pezeshk, R. A., Podell, S. B., Salampessy, M. L., et al. (2006) · Biochimica et Biophysica Acta (BBA) - Biomembranes · doi:10.1016/j.bbamem.2006.06.018 · Cited by 47 · see citing works

Internal Gene Duplication in the Evolution of Prokaryotic Transmembrane Proteins

Shimizu, T., Mitsuke, H., Noto, K., & Arai, M. (2004) · Journal of Molecular Biology · doi:10.1016/j.jmb.2004.03.048 · Cited by 44 · see citing works

A Golgi-based KDELR-dependent signalling pathway controls extracellular matrix degradation

Ruggiero, C., Fragassi, G., Grossi, M., Picciani, B., Martino, R. D., Capitani, M., Buccione, R., Luini, A., & Sallese, M. (2014) · Oncotarget · doi:10.18632/oncotarget.3270 · Cited by 42 · see citing works

Analysis of the CTNS gene in patients of German and Swiss origin with nephropathic cystinosis

Kiehntopf, M., Schickel, J., von der Gönne, B., Koch, H. G., Superti‐Furga, A., Steinmann, B. U., Deufel, T., & Harms, E. (2002) · Human Mutation · doi:10.1002/humu.9063 · Cited by 41 · see citing works

Convergent evolution of animal and microbial rhodopsins

Kojima, K., & Sudo, Y. (2023) · RSC Advances · doi:10.1039/d2ra07073a · Cited by 40 · see citing works

Microcompartments and Protein Machines in Prokaryotes

Saier, M. H. (2013) · Microbial Physiology · doi:10.1159/000351625 · Cited by 33 · see citing works

Comparative molecular biological analysis of membrane transport genes in organisms

Nagata, T., Iizumi, S., Satoh, K., & Kikuchi, S. (2008) · Plant Molecular Biology · doi:10.1007/s11103-007-9287-z · Cited by 32 · see citing works

Type II Opsins: Evolutionary Origin by Internal Domain Duplication?

Larusso, N. D., Ruttenberg, B. E., Singh, A. K., & Oakley, T. H. (2008) · Journal of Molecular Evolution · doi:10.1007/s00239-008-9076-6 · Cited by 31 · see citing works

Signaling Receptome: A Genomic and Evolutionary Perspective of Plasma Membrane Receptors Involved in Signal Transduction

Ben‐Shlomo, I., Hsu, S. Y., Rauch, R., Kowalski, H. W., & Hsueh, A. J. W. (2003) · Science Signaling · doi:10.1126/scisignal.1872003re9 · Cited by 32 · see citing works

Thr-90 Plays a Vital Role in the Structure and Function of Bacteriorhodopsin

Perálvarez‐Marín, A., Márquez, M., Bourdelande, J. L., Querol, E., & Padrós, E. (2004) · Journal of Biological Chemistry · doi:10.1074/jbc.m313988200 · Cited by 31 · see citing works

Pathways of transport protein evolution: recent advances

Lam, V. H., Lee, J., Silverio, A. L. F., Chan, H., Gomolplitinant, K. M., Povolotsky, T. L., Orlova, E., Sun, E. I., Welliver, C. H., & Saier, M. H. (2011) · Biological Chemistry · doi:10.1515/bc.2011.018 · Cited by 25 · see citing works

The Iron/Lead Transporter Superfamily of Fe3+/Pb2+ Uptake Systems

Debut, A. J., Dumay, Q. C., Barabote, R. D., & Saier, M. H. (2006) · Microbial Physiology · doi:10.1159/000092814 · Cited by 25 · see citing works

Photochemical characterization of a novel fungal rhodopsin from Phaeosphaeria nodorum

Fan, Y., Solomon, P. S., Oliver, R. P., & Brown, L. S. (2011) · Biochimica et Biophysica Acta (BBA) - Bioenergetics · doi:10.1016/j.bbabio.2011.07.005 · Cited by 24 · see citing works

Bioinformatic characterization of the 4-Toluene Sulfonate Uptake Permease (TSUP) family of transmembrane proteins

Shlykov, M. A., Zheng, W. H., Chen, J. S., & Saier, M. H. (2011) · Biochimica et Biophysica Acta (BBA) - Biomembranes · doi:10.1016/j.bbamem.2011.12.005 · Cited by 22 · see citing works

Web-Based Programs for the Display and Analysis of Transmembrane α-Helices in Aligned Protein Sequences

Zhou, X., Yang, N. M., Tran, C. V., Hvorup, R. N., & Saier, M. H. (2003) · Microbial Physiology · doi:10.1159/000068718 · Cited by 22 · see citing works

Structural and Functional Studies of a Newly Grouped Haloquadratum walsbyi Bacteriorhodopsin Reveal the Acid-resistant Light-driven Proton Pumping Activity

Hsu, M., Fu, H., Cai, C.-J., Yi, H.-P., Yang, C., & Wang, A. H. ‐. (2015) · Journal of Biological Chemistry · doi:10.1074/jbc.m115.685065 · Cited by 19 · see citing works

Expansion of the Transporter-Opsin-G protein-coupled receptor superfamily with five new protein families

Medrano-Soto, A., Ghazi, F., Hendargo, K. J., Moreno‐Hagelsieb, G., Myers, S., & Saier, M. H. (2020) · PLoS ONE · doi:10.1371/journal.pone.0231085 · Cited by 18 · see citing works

Control systems and coordination protocols of the secretory pathway

Luini, A., Mavelli, G., Jung, J. E., & Cancino, J. (2014) · F1000Prime Reports · doi:10.12703/p6-88 · Cited by 17 · see citing works

Light Stress in Yeasts: Signaling and Responses in Creatures of the Night

Camponeschi, I., Montanari, A., Mazzoni, C., & Bianchi, M. M. (2023) · International Journal of Molecular Sciences · doi:10.3390/ijms24086929 · Cited by 16 · see citing works

Bioinformatic Characterization of the Trimeric Intracellular Cation-Specific Channel Protein Family

Silverio, A. L. F., & Saier, M. H. (2011) · The Journal of Membrane Biology · doi:10.1007/s00232-011-9364-8 · Cited by 15 · see citing works

Prohibitin: A Novel Molecular Player in KDEL Receptor Signalling

Giannotta, M., Fragassi, G., Tamburro, A., Capone, V., Luini, A., & Sallese, M. (2015) · BioMed Research International · doi:10.1155/2015/319454 · Cited by 14 · see citing works

Similarities and Differences in Photochemistry of Type I and Type II Rhodopsins

Оstrovsky, М. А., Smitienko, O. A., Bochenkova, A. V., & Feldman, T. B. (2023) · Biochemistry (Moscow) · doi:10.1134/s0006297923100097 · Cited by 9 · see citing works

In Vitro and In Vivo Models to Study Nephropathic Cystinosis

Cheung, P. Y., Harrison, P. T., Davidson, A. J., & Hollywood, J. A. (2021) · Cells · doi:10.3390/cells11010006 · Cited by 9 · see citing works

Microbial Rhodopsins

Jung, K., & Spudich, J. L. (2003) · CRC Press eBooks · doi:10.1201/9780203495902.ch124 · Cited by 9 · see citing works

Cystinose

Cherqui, S. (2023) · médecine/sciences · doi:10.1051/medsci/2023025 · Cited by 7 · see citing works

Engineered Functional Recovery of Microbial Rhodopsin Without Retinal‐Binding Lysine

Yamauchi, Y., Konno, M., Yamada, D., Yura, K., Inoue, K., Béjà, O., & Kandori, H. (2019) · Photochemistry and Photobiology · doi:10.1111/php.13114 · Cited by 6 · see citing works

Therapeutic strategies in cystinosis: A focus on cysteamine and beyond

Santoro, A., Ferrara, Y. V., & Angelis, A. D. (2025) · Experimental and Molecular Pathology · doi:10.1016/j.yexmp.2025.104995 · Cited by 5 · see citing works

Pigments of Halophilic Microorganisms

(2003) · Cellular origin and life in extreme habitats · doi:10.1007/0-306-48053-0_6 · Cited by 4 · see citing works

Allosteric Sites and Allosteric Regulators of G Protein-Coupled Receptors: Gray Cardinals of Signal Transduction

Shpakov, A. O. (2023) · Journal of Evolutionary Biochemistry and Physiology · doi:10.1134/s0022093023070013 · Cited by 3 · see citing works

Expression analysis of microbial rhodopsin-like genes in Guillardia theta

Konno, M., Yamauchi, Y., Inoue, K., & Kandori, H. (2020) · PLoS ONE · doi:10.1371/journal.pone.0243387 · Cited by 3 · see citing works

Hereditary Cystinosis

Kalatzis, V., & Antignac, C. (2009) · Elsevier eBooks · doi:10.1016/b978-0-12-449851-8.00039-5 · Cited by 2 · see citing works

ALLOSTERIC SITES AND ALLOSTERIC REGULATORS OF G-PROTEIN-COUPLED RECEPTORS: GRAY CARDINALS OF SIGNAL TRANSDUCTION

Shpakov, A. O. (2023) · Журнал эволюционной биохимии и физиологии · doi:10.31857/s0044452923070021 · Cited by 2 · see citing works

Microbial Rhodopsins

Spudich, J. L., & Jung, K. (2008) · Protein Science Encyclopedia · doi:10.1002/9783527610754.mp16 · Cited by 2 · see citing works

Role of Amino Acid Transporters in Protein Metabolism

Taylor, P. M. (2016) · Elsevier eBooks · doi:10.1016/b978-0-12-802167-5.00005-0 · Cited by 1 · see citing works

Similarity and difference in the photochemistry of type I and II rhodopsins

Оstrovsky, М. А., Smitienko, O. A., Bochenkova, A. V., & Feldman, T. B. (2023) · Biochemistry (Moscow) · doi:10.31857/s0320972523100093 · Cited by 1 · see citing works

The Use of Chloroform.

Stewart, J. (1926) · PubMed Central · Cited by 1 · see citing works

Regulation of the Secretory Pathway

Capalbo, A., Cancino, J., & Luini, A. (2015) · Elsevier eBooks · doi:10.1016/b978-0-12-394447-4.20036-9

The evolution of the repertoire and structure of G protein-coupled receptors

Schöneberg, T., Schröck, K., Stäubert, C., & Russ, A. (2010) · Cambridge University Press eBooks · doi:10.1017/cbo9780511760334.002

Dynamic factors of bacteriorhodopsin

Perálvarez‐Marín, A., Padrós, E., & Querol, E. (2006)

Potentiating Immune Cells Function During Inflammation and Virus Infection by Modulating Metabolism

Almutairi, S. M. (2020) · uO Research (University of Ottawa) · doi:10.20381/ruor-24391

References

(2007) · Elsevier eBooks · doi:10.1016/b978-012088794-1/50015-x

Studies with Human-Induced Pluripotent Stem Cells Reveal That CTNS Mutations Can Alter Renal Proximal Tubule Differentiation

Thiyagarajan, R., & Taub, M. L. (2023) · International Journal of Molecular Sciences · doi:10.3390/ijms242317004

Structure-function relationship of archaeal rhodopsin proteins analyzed by continuum electrostatics

Kloppmann, E. (2009) · EPub Bayreuth (University of Bayreuth)

Structure-based insights into evolution of rhodopsins

Zabelskii, D. V., Dmitrieva, N., Volkov, O., Shevchenko, V., Kovalev, K., Balandin, T. G., Soloviov, D., Astashkin, R., Zinovev, E. V., Alekseev, A. A., et al. (2021) · Communications Biology · doi:10.1038/s42003-021-02326-4 · Cited by 31 · see citing works

Microbial Rhodopsins

Gushchin, I., & Gordeliy, V. (2018) · Sub-cellular biochemistry/Subcellular biochemistry · doi:10.1007/978-981-10-7757-9_2 · Cited by 45 · see citing works

Bioinformatic characterization of the 4-Toluene Sulfonate Uptake Permease (TSUP) family of transmembrane proteins : identification of the microbial rhodopsin superfamily and evidence for an ancestral transmembrane hairpin structure

Shlykov, M. A. (2011) · eScholarship (California Digital Library)

Structural divergence and functional versatility of the rhodopsin superfamily

Kouyama, T., & Murakami, M. (2010) · Photochemical & Photobiological Sciences · doi:10.1039/c0pp00236d · Cited by 41 · see citing works

An Empirical Test of Evolution in Rhodopsins by Examination of Novel Folds

Mackin, K. A. (2014) · Brandeis Institutional Repository