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UnknownXlink Analyzer: software for analysis and visualization of cross-linking data in the context of three-dimensional structures.
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S-EPMC4359615 | biostudies-literature
ProteomicsA decision tree searching strategy to boost the identification of cross-linked peptides
We describe an efficient decision tree searching strategy (DTSS) to boost the identification of cross-linked peptides. The DTSS approach allows the identification of a wealth of complementary information to facilitate the construction of more protein-protein interaction networks for human cell lysat...
ORGANISM(S): Escherichia coli 
2020-11-23 | PXD018291 | Pride
Xlink-ms Data-analysis 
ProteomicsCharacterization of GFP-Gdown1 interactors by IP and LC-MS/MS
Approximately half of purified mammalian RNA polymerase II (Pol II) is associated with a tightly interacting sub-stoichiometric subunit, Gdown1. Previous studies have established that Gdown1 inhibits transcription initiation through competitive interactions with general transcription factors and blo...
ORGANISM(S): Homo sapiens (Human) 
2022-02-14 | PXD029425 | Pride
Gfp Human Ip Gdown1 
ProteomicsCryo-EM structure of the full human PRC2 and regulation by AEBP2 and JARID2
Structural study of the PRC2 complex and its regulators AEPB2 and JARID2 combining cryo-EM, cross-linking, targeted MS and hydrogen/deuterium exchange MS.
ORGANISM(S): Homo sapiens (Human) 
2018-01-25 | PXD008605 | Pride
Chemical cross-linking Cryo-em Xl-ms Structural proteomics Prc2 Dss Integrative stuctural biology Chromatin 
ProteomicsStructural insights into the assembly and polyA signal recognition mechanism of the human CPSF complex
Structural study of the polyA signal recognition by the human CPSF using X-ray crystallography, cross-linking MS, pull-downs and fluorescence polarisation assays.
ORGANISM(S): Homo sapiens (Human) 
2017-12-18 | PXD008122 | Pride
Chemical cross-linking Structural proteomics Rna Dss Polya 
ProteomicsCASP XL-MS target T0975: Cross-linking for the 13th Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction (CASP13)
Chemical cross-linking coupled to mass spectrometry was used to provide distance restraints for different homo- and heterooligomeric complexes as part of the CASP13 experiment (https://www.predictioncenter.org/casp13/index.cgi).
ORGANISM(S): Homo sapiens (Human) 
2019-10-02 | PXD010385 | Pride
Chemical cross-linking  dss  pdh  dmtmm  structural proteomics  casp 
ProteomicsCASP XL-MS target T0981: Cross-linking for the 13th Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction (CASP13)
Chemical cross-linking coupled to mass spectrometry was used to provide distance restraints for different homo- and heterooligomeric complexes as part of the CASP13 experiment (https://www.predictioncenter.org/casp13/index.cgi).
ORGANISM(S): Staphylococcus virus K 
2019-10-02 | PXD010384 | Pride
Chemical cross-linking  dss  structural proteomics  casp 
ProteomicsCASP XL-MS target H0953 (ID 51): Cross-linking for the 13th Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction (CASP13)
Chemical cross-linking coupled to mass spectrometry was used to provide distance restraints for different homo- and heterooligomeric complexes as part of the CASP13 experiment (https://www.predictioncenter.org/casp13/index.cgi).
ORGANISM(S): Salmonella phage vB_SenMS16 
2019-10-02 | PXD010094 | Pride
Chemical cross-linking  dss  pdh  dmtmm  structural proteomics  casp 
ProteomicsCASP XL-MS target H0968 (ID32): Cross-linking for the 13th Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction (CASP13)
Chemical cross-linking coupled to mass spectrometry was used to provide distance restraints for different homo- and heterooligomeric complexes as part of the CASP13 experiment (https://www.predictioncenter.org/casp13/index.cgi).
ORGANISM(S): Klebsiella pneumoniae 342 
2019-10-02 | PXD010004 | Pride
Chemical cross-linking  dss  pdh  dmtmm  structural proteomics  casp 
ProteomicsCASP XL-MS target H0957 (ID31): Cross-linking for the 13th Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction (CASP13)
Chemical cross-linking coupled to mass spectrometry was used to provide distance restraints for different homo- and heterooligomeric complexes as part of the CASP13 experiment (https://www.predictioncenter.org/casp13/index.cgi).
ORGANISM(S): Escherichia coli 
2019-10-02 | PXD010003 | Pride
Chemical cross-linking  dss  pdh  dmtmm  structural proteomics  casp 
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