{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,14]],"date-time":"2026-05-14T07:57:40Z","timestamp":1778745460784,"version":"3.51.4"},"reference-count":43,"publisher":"Elsevier","isbn-type":[{"value":"9780323997805","type":"print"}],"license":[{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-017"},{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"},{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-012"},{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-004"}],"funder":[{"DOI":"10.13039\/100015655","name":"UK Sport","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100015655","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022]]},"DOI":"10.1016\/bs.apcsb.2022.07.002","type":"book-chapter","created":{"date-parts":[[2022,8,18]],"date-time":"2022-08-18T00:17:53Z","timestamp":1660781873000},"page":"89-109","source":"Crossref","is-referenced-by-count":4,"title":["Computational and structural investigation of Palmitoyl-Protein Thioesterase 1 (PPT1) protein causing Neuronal Ceroid Lipofuscinoses (NCL)"],"prefix":"10.1016","member":"78","reference":[{"key":"10.1016\/bs.apcsb.2022.07.002_bb0010","doi-asserted-by":"crossref","first-page":"19","DOI":"10.1016\/j.softx.2015.06.001","article-title":"GROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers","volume":"1\u20132","author":"Abraham","year":"2015","journal-title":"SoftwareX"},{"issue":"2","key":"10.1016\/bs.apcsb.2022.07.002_bb0015","doi-asserted-by":"crossref","first-page":"173","DOI":"10.1016\/j.molcel.2011.01.001","article-title":"FKBP12 binds to acylated H-ras and promotes depalmitoylation","volume":"41","author":"Ahearn","year":"2011","journal-title":"Molecular Cell"},{"issue":"W1","key":"10.1016\/bs.apcsb.2022.07.002_bb0020","doi-asserted-by":"crossref","first-page":"W344","DOI":"10.1093\/nar\/gkw408","article-title":"ConSurf 2016: An improved methodology to estimate and visualize evolutionary conservation in macromolecules","volume":"44","author":"Ashkenazy","year":"2016","journal-title":"Nucleic Acids Research"},{"issue":"2","key":"10.1016\/bs.apcsb.2022.07.002_bb0025","doi-asserted-by":"crossref","first-page":"543","DOI":"10.1021\/acschembio.9b01014","article-title":"Profiling cysteine reactivity and oxidation in the endoplasmic reticulum","volume":"15","author":"Bechtel","year":"2020","journal-title":"ACS Chemical Biology"},{"issue":"1","key":"10.1016\/bs.apcsb.2022.07.002_bb0030","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pcbi.1003440","article-title":"PredictSNP: Robust and accurate consensus classifier for prediction of disease-related mutations","volume":"10","author":"Bendl","year":"2014","journal-title":"PLoS Computational Biology"},{"issue":"11","key":"10.1016\/bs.apcsb.2022.07.002_bb0035","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0026741","article-title":"Exome-sequencing confirms DNAJC5 mutations as cause of adult neuronal ceroid-Lipofuscinosis","volume":"6","author":"Benitez","year":"2011","journal-title":"PLoS One"},{"issue":"8","key":"10.1016\/bs.apcsb.2022.07.002_bb0040","doi-asserted-by":"crossref","first-page":"3684","DOI":"10.1063\/1.448118","article-title":"Molecular dynamics with coupling to an external bath","volume":"81","author":"Berendsen","year":"1984","journal-title":"The Journal of Chemical Physics"},{"issue":"6","key":"10.1016\/bs.apcsb.2022.07.002_bb0045","doi-asserted-by":"crossref","first-page":"571","DOI":"10.1111\/cge.12020","article-title":"Recurrent mutations in DNAJC5 cause autosomal dominant Kufs disease","volume":"83","author":"Cadieux-Dion","year":"2013","journal-title":"Clinical Genetics"},{"issue":"Suppl 2","key":"10.1016\/bs.apcsb.2022.07.002_bb0050","first-page":"S5","article-title":"iStable: Off-the-shelf predictor integration for predicting protein stability changes","volume":"14","author":"Chen","year":"2013","journal-title":"BMC Bioinformatics"},{"issue":"4","key":"10.1016\/bs.apcsb.2022.07.002_bb0055","doi-asserted-by":"crossref","DOI":"10.3390\/proteomes6040048","article-title":"Mapping the proteome of the synaptic cleft through proximity labeling reveals new cleft proteins","volume":"6","author":"Cijsouw","year":"2018","journal-title":"Proteomes"},{"issue":"2","key":"10.1016\/bs.apcsb.2022.07.002_bb0060","doi-asserted-by":"crossref","first-page":"S28","DOI":"10.1016\/j.ymgme.2020.12.048","article-title":"Devising effective enzyme replacement therapy for infantile onset neuronal ceroid lipofuscinosis (CLN1 disease)","volume":"132","author":"Cooper","year":"2021","journal-title":"Molecular Genetics and Metabolism"},{"issue":"8","key":"10.1016\/bs.apcsb.2022.07.002_bb0065","doi-asserted-by":"crossref","first-page":"366","DOI":"10.1007\/s11910-013-0366-z","article-title":"Neuronal ceroid Lipofuscinosis: Impact of recent genetic advances and expansion of the clinicopathologic spectrum","volume":"13","author":"Cotman","year":"2013","journal-title":"Current Neurology and Neuroscience Reports"},{"issue":"10","key":"10.1016\/bs.apcsb.2022.07.002_bb0070","doi-asserted-by":"crossref","first-page":"791","DOI":"10.1038\/nrn940","article-title":"Protein palmitoylation: A regulator of neuronal development and function","volume":"3","author":"El-Husseini","year":"2002","journal-title":"Nature Reviews. Neuroscience"},{"issue":"3","key":"10.1016\/bs.apcsb.2022.07.002_bb0075","doi-asserted-by":"crossref","first-page":"161","DOI":"10.1038\/nrn2788","article-title":"Protein palmitoylation in neuronal development and synaptic plasticity","volume":"11","author":"Fukata","year":"2010","journal-title":"Nature Reviews Neuroscience"},{"issue":"3","key":"10.1016\/bs.apcsb.2022.07.002_bb0080","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pbio.3001590","article-title":"Identification of substrates of palmitoyl protein thioesterase 1 highlights roles of depalmitoylation in disulfide bond formation and synaptic function","volume":"20","author":"Gorenberg","year":"2022","journal-title":"PLoS Biology"},{"issue":"1","key":"10.1016\/bs.apcsb.2022.07.002_bb0085","doi-asserted-by":"crossref","first-page":"67","DOI":"10.1080\/09687680802620351","article-title":"The fat controller: Roles of palmitoylation in intracellular protein trafficking and targeting to membrane microdomains (review)","volume":"26","author":"Greaves","year":"2009","journal-title":"Molecular Membrane Biology"},{"issue":"43","key":"10.1016\/bs.apcsb.2022.07.002_bb0090","doi-asserted-by":"crossref","first-page":"15447","DOI":"10.1073\/pnas.0505425102","article-title":"Conservation and relative importance of residues across protein-protein interfaces","volume":"102","author":"Guharoy","year":"2005","journal-title":"Proceedings of the National Academy of Sciences of the United States of America"},{"issue":"11","key":"10.1016\/bs.apcsb.2022.07.002_bb0095","doi-asserted-by":"crossref","first-page":"1906","DOI":"10.1016\/j.bbadis.2013.05.026","article-title":"Pathogenesis and therapies for infantile neuronal ceroid lipofuscinosis (infantile CLN1 disease)","volume":"1832","author":"Hawkins-Salsbury","year":"2013","journal-title":"Biochimica et Biophysica Acta"},{"issue":"19","key":"10.1016\/bs.apcsb.2022.07.002_bb0100","doi-asserted-by":"crossref","first-page":"5240","DOI":"10.1002\/j.1460-2075.1996.tb00909.x","article-title":"Human palmitoyl protein thioesterase: Evidence for lysosomal targeting of the enzyme and disturbed cellular routing in infantile neuronal ceroid lipofuscinosis","volume":"15","author":"Hellsten","year":"1996","journal-title":"The EMBO Journal"},{"issue":"4","key":"10.1016\/bs.apcsb.2022.07.002_bb0105","doi-asserted-by":"crossref","first-page":"621","DOI":"10.1007\/s00401-015-1512-2","article-title":"Neuronal ceroid lipofuscinosis with DNAJC5\/CSP\u03b1 mutation has PPT1 pathology and exhibit aberrant protein palmitoylation","volume":"131","author":"Henderson","year":"2015","journal-title":"Acta Neuropathologica"},{"issue":"12","key":"10.1016\/bs.apcsb.2022.07.002_bb0110","doi-asserted-by":"crossref","first-page":"1463","DOI":"10.1002\/(SICI)1096-987X(199709)18:12<1463::AID-JCC4>3.0.CO;2-H","article-title":"LINCS: A linear constraint solver for molecular simulations","volume":"18","author":"Hess","year":"1997","journal-title":"Journal of Computational Chemistry"},{"issue":"9","key":"10.1016\/bs.apcsb.2022.07.002_bb0115","doi-asserted-by":"crossref","first-page":"3075","DOI":"10.1172\/JCI33482","article-title":"Palmitoyl protein thioesterase-1 deficiency impairs synaptic vesicle recycling at nerve terminals, contributing to neuropathology in humans and mice","volume":"118","author":"Kim","year":"2008","journal-title":"The Journal of Clinical Investigation"},{"issue":"1","key":"10.1016\/bs.apcsb.2022.07.002_bb0120","doi-asserted-by":"crossref","first-page":"69","DOI":"10.1093\/hmg\/10.1.69","article-title":"Palmitoyl protein thioesterase (PPT) localizes into synaptosomes and synaptic vesicles in neurons: Implications for infantile neuronal ceroid lipofuscinosis (INCL)","volume":"10","author":"Lehtovirta","year":"2001","journal-title":"Human Molecular Genetics"},{"issue":"2","key":"10.1016\/bs.apcsb.2022.07.002_bb0125","doi-asserted-by":"crossref","first-page":"217","DOI":"10.1042\/BST20140270","article-title":"The zDHHC family of S-acyltransferases","volume":"43","author":"Lemonidis","year":"2015","journal-title":"Biochemical Society Transactions"},{"issue":"4","key":"10.1016\/bs.apcsb.2022.07.002_bb0130","first-page":"701","article-title":"Radius of gyration is indicator of compactness of protein structure","volume":"42","author":"Lobanov","year":"2008","journal-title":"Molekuliarnaia Biologiia"},{"key":"10.1016\/bs.apcsb.2022.07.002_bb0135","series-title":"The neuronal ceroid-lipofuscinoses (batten disease)","first-page":"793","author":"Mole","year":"2015"},{"issue":"11","key":"10.1016\/bs.apcsb.2022.07.002_bb0140","doi-asserted-by":"crossref","first-page":"1882","DOI":"10.1016\/j.bbadis.2013.05.014","article-title":"NCL disease mechanisms","volume":"1832","author":"Palmer","year":"2013","journal-title":"Biochimica et Biophysica Acta"},{"issue":"12","key":"10.1016\/bs.apcsb.2022.07.002_bb0145","doi-asserted-by":"crossref","first-page":"7182","DOI":"10.1063\/1.328693","article-title":"Polymorphic transitions in single crystals: A new molecular dynamics method","volume":"52","author":"Parrinello","year":"1981","journal-title":"Journal of Applied Physics"},{"issue":"21","key":"10.1016\/bs.apcsb.2022.07.002_bb0150","doi-asserted-by":"crossref","first-page":"3454","DOI":"10.1093\/bioinformatics\/btx439","article-title":"On expert curation and scalability: UniProtKB\/Swiss-Prot as a case study","volume":"33","author":"Poux","year":"2017","journal-title":"Bioinformatics"},{"issue":"2","key":"10.1016\/bs.apcsb.2022.07.002_bb0155","doi-asserted-by":"crossref","first-page":"131","DOI":"10.1006\/mcne.2001.1010","article-title":"Neuronal trafficking of palmitoyl protein thioesterase provides an excellent model to study the effects of different mutations which cause infantile neuronal ceroid lipofuscinocis","volume":"18","author":"Salonen","year":"2001","journal-title":"Molecular and Cellular Neuroscience"},{"issue":"9","key":"10.1016\/bs.apcsb.2022.07.002_bb0160","doi-asserted-by":"crossref","first-page":"1151","DOI":"10.1177\/0883073813495960","article-title":"Considerations for the treatment of infantile neuronal ceroid lipofuscinosis (infantile batten disease)","volume":"28","author":"Sands","year":"2013","journal-title":"Journal of Child Neurology"},{"issue":"7","key":"10.1016\/bs.apcsb.2022.07.002_bb0165","doi-asserted-by":"crossref","first-page":"843","DOI":"10.1007\/s00249-011-0700-9","article-title":"Definition and testing of the GROMOS force-field versions 54A7 and 54B7","volume":"40","author":"Schmid","year":"2011","journal-title":"European Biophysics Journal"},{"issue":"1","key":"10.1016\/bs.apcsb.2022.07.002_bb204","doi-asserted-by":"crossref","first-page":"171","DOI":"10.1080\/07391102.2019.1708797","article-title":"Identification of potential inhibitors against pathogenic missense mutations of PMM2 using a structure-based virtual screening approach","volume":"39","author":"Thirumal Kumar","year":"2021","journal-title":"Journal of Biomolecular Structure and Dynamics"},{"key":"10.1016\/bs.apcsb.2022.07.002_bb203","doi-asserted-by":"crossref","first-page":"49","DOI":"10.1016\/bs.apcsb.2020.10.001","article-title":"Investigating mutations at the hotspot position of the ERBB2 and screening for the novel lead compound to treat breast cancer\u2014A computational approach","volume":"123","author":"Thirumal Kumar","year":"2021","journal-title":"Advances in Protein Chemistry and Structural Biology"},{"issue":"6","key":"10.1016\/bs.apcsb.2022.07.002_bb0170","doi-asserted-by":"crossref","first-page":"987","DOI":"10.1016\/S0896-6273(01)00427-5","article-title":"A trimeric protein complex functions as a synaptic chaperone machine","volume":"31","author":"Tobaben","year":"2001","journal-title":"Neuron"},{"issue":"4","key":"10.1016\/bs.apcsb.2022.07.002_bb202","doi-asserted-by":"crossref","first-page":"1571","DOI":"10.1080\/07391102.2020.1830177","article-title":"Mutational landscape of K-Ras substitutions at 12th position\u2014A systematic molecular dynamics approach","volume":"40","author":"Udhaya Kumar","year":"2022","journal-title":"Journal of Biomolecular Structure and Dynamics"},{"key":"10.1016\/bs.apcsb.2022.07.002_bb201","article-title":"An extensive computational approach to analyze and characterize the functional mutations in the galactose-1-phosphate uridyl transferase (GALT) protein responsible for classical galactosemia","volume":"117","author":"Udhaya Kumar","year":"2020","journal-title":"Computers in Biology and Medicine"},{"key":"10.1016\/bs.apcsb.2022.07.002_bb0175","doi-asserted-by":"crossref","first-page":"548","DOI":"10.1186\/1471-2105-11-548","article-title":"Protein structure analysis of mutations causing inheritable diseases. An e-Science approach with life scientist friendly interfaces","volume":"11","author":"Venselaar","year":"2010","journal-title":"BMC Bioinformatics"},{"issue":"26","key":"10.1016\/bs.apcsb.2022.07.002_bb0180","doi-asserted-by":"crossref","first-page":"15831","DOI":"10.1074\/jbc.271.26.15831","article-title":"Lysosomal targeting of palmitoyl-protein thioesterase","volume":"271","author":"Verkruyse","year":"1996","journal-title":"Journal of Biological Chemistry"},{"issue":"11","key":"10.1016\/bs.apcsb.2022.07.002_bb0185","doi-asserted-by":"crossref","first-page":"1827","DOI":"10.1016\/j.bbadis.2013.03.017","article-title":"Genetic basis and phenotypic correlations of the neuronal ceroid lipofusinoses","volume":"1832","author":"Warrier","year":"2013","journal-title":"Biochimica et Biophysica Acta"},{"issue":"2","key":"10.1016\/bs.apcsb.2022.07.002_bb0190","doi-asserted-by":"crossref","first-page":"336","DOI":"10.1038\/sj.emboj.7601930","article-title":"The two faces of protein misfolding: Gain- and loss-of-function in neurodegenerative diseases","volume":"27","author":"Winklhofer","year":"2008","journal-title":"The EMBO Journal"},{"issue":"1","key":"10.1016\/bs.apcsb.2022.07.002_bb0195","doi-asserted-by":"crossref","first-page":"136","DOI":"10.1016\/j.neuron.2012.01.029","article-title":"Identification of CSP\u03b1 clients reveals a role in dynamin 1 regulation","volume":"74","author":"Zhang","year":"2012","journal-title":"Neuron"},{"issue":"1\u20132","key":"10.1016\/bs.apcsb.2022.07.002_bb0200","doi-asserted-by":"crossref","first-page":"203","DOI":"10.1016\/S0378-1119(99)00050-5","article-title":"Palmitoyl-protein thioesterase gene expression in the developing mouse brain and retina: Implications for early loss of vision in infantile neuronal ceroid lipofuscinosis","volume":"231","author":"Zhang","year":"1999","journal-title":"Gene"}],"container-title":["Advances in Protein Chemistry and Structural Biology","Disorders of Protein Synthesis"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1876162322000669?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1876162322000669?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,11,7]],"date-time":"2025-11-07T23:56:06Z","timestamp":1762559766000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S1876162322000669"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022]]},"ISBN":["9780323997805"],"references-count":43,"URL":"https:\/\/doi.org\/10.1016\/bs.apcsb.2022.07.002","relation":{},"ISSN":["1876-1623"],"issn-type":[{"value":"1876-1623","type":"print"}],"subject":[],"published":{"date-parts":[[2022]]}}}