GPS-LIPID protocols

View GPS-LIPID computational protocol

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GPS-LIPID specifications

Information


Unique identifier OMICS_21553
Name GPS-LIPID
Software type Application/Script
Interface Web user interface
Restrictions to use None
Input data One primary sequence or multiple proteins sequences.
Input format FASTA
Computer skills Basic
Stability Stable
Maintained Yes

Maintainers


  • person_outline Yu Xue <>
  • person_outline Jian Ren <>

Additional information


http://lipid.biocuckoo.org/userguide.php

Information


Unique identifier OMICS_21553
Name GPS-LIPID
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Medium
Version 1.0
Stability Stable
Maintained Yes

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Maintainers


  • person_outline Yu Xue <>
  • person_outline Jian Ren <>

Additional information


http://lipid.biocuckoo.org/userguide.php

Publication for GPS-LIPID

GPS-LIPID in pipelines

 (2)
2017
PMCID: 5522101
PMID: 28473666
DOI: 10.18632/oncotarget.17449

[…] mature vpac1 with 31-457 aa (without signal peptide) were submitted to the prediction of the potential modification on cysteines using the online service software, including lipid modification using gps-lipid (http://lipid.biocuckoo.org/webserver.php), s-nitrosylation using gps-sno (http://sno.biocuckoo.org/online.php), plamitoylation using css-palm (http://nbapalm.biocuckoo.org/), sumoylation […]

2017
PMCID: 5623054
PMID: 29018364
DOI: 10.3389/fphys.2017.00744

[…] and the intracellular phosphorylation sites were predicted using netphos 3.1 server (http://www.cbs.dtu.dk/services/netphos/). palmitoylation of cysteine residues were predicted by gps.lipid. an integrated resource for lipid modifications predictor (http://lipid.biocuckoo.org/webserver.php)., the open reading frames (orf) of both rhoproctβ2-r and rhoprtyr1-r were amplified […]


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GPS-LIPID in publications

 (8)
PMCID: 5869587
PMID: 29588502
DOI: 10.1038/s41598-018-23575-0

[…] sites were predicted using the expasy myristoylator tool (http://web.expasy.org/myristoylator/; ref.), nmt - the myr predictor (http://mendel.imp.ac.at/myristate/suplpredictor.htm; ref.), and gps-lipid (http://lipid.biocuckoo.org/webserver.php; ref.). only glycine residues at the second position of the full-length protein sequence (immediately downstream of the initial methionine) […]

PMCID: 5742235
PMID: 29312393
DOI: 10.3389/fpls.2017.02138

[…] structures were represented by pymol, using the same color code as heliquest., predictions of lipid modifications and glycosylphosphatidylinositol (gpi) anchor were performed using predgpi () and gps lipid ()., arabidopsis protoplasts were transfected with each viral mutant between 6 and 10 times in two independent experiments using various batches of in vitro transcripts. transfected […]

PMCID: 5623054
PMID: 29018364
DOI: 10.3389/fphys.2017.00744

[…] and the intracellular phosphorylation sites were predicted using netphos 3.1 server (http://www.cbs.dtu.dk/services/netphos/). palmitoylation of cysteine residues were predicted by gps.lipid. an integrated resource for lipid modifications predictor (http://lipid.biocuckoo.org/webserver.php)., the open reading frames (orf) of both rhoproctβ2-r and rhoprtyr1-r were amplified […]

PMCID: 5575073
PMID: 28852157
DOI: 10.1038/s41598-017-10497-6

[…] and myristoylation, , may also contribute to protein pm localization through membrane rafts. no putative gpi anchor, cleavage sites or myristoylation sites were found using predgpi and gps-lipid. however, one putative palmitoylation site, cys180, in scmv p3n-pipo was predicted with a score of 4.517. further investigation of potyvirus members showed that most of their p3n-pipos […]

PMCID: 5573539
PMID: 28878794
DOI: 10.3389/fpls.2017.01457

[…] contain membrane targeting or spanning domains, and share a similarity with other gsts (). in order to explore the possibility of the post-translational modification of the lipidation type, the gps-lipid 1.0 prediction of lipid modification sites web tool was used (). the main lipid modifications (s-palmitoylation, n-myristoylation, s-farnesylation, and s-geranylgeranylation) were included […]


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GPS-LIPID institution(s)
State Key Laboratory of Biocontrol, School of Life Sciences, Sun Yat-sen University, Guangzhou, China; Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangzhou, China; Collaborative Innovation Center of High Performance Computing, National University of Defense Technology, Changsha, China; Department of Biomedical Engineering, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, China
GPS-LIPID funding source(s)
Supported by grants from the National Basic Research Program (973 project) [2013CB933900 and 2012CB911201]; National Natural Science Foundation of China [31471252]; Guangdong Natural Science Foundation [S20120011335, 2014TQ01R387 and 2014A030313181]; Program for New Century Excellent Talents in University [NCET-13-0610]; Program of International S&T Cooperation [2014DFB30020].

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