6,448 research outputs found
HHpred searches carried out for 1st submission
No full textAll HHpred results downloaded as text files (suffix .hhr
Profiles and other searches
No full textFIles from HHpred PSIBLAST HHblits CLANs and other sequence-sequence, profile-sequence profile-profile tool
Background files - MEME Phyml tree sequences PDB.
No full textBackground files - MEME Phyml tree sequences PDB
ColabFold Predictions of RBG proteins
No full textColabFold Predictions of RBG proteins of various domains: RBG and accessor
RBG structural bioinformatics general files
No full textMany different files for the project including:
PDB files with CONSURF with Conservation Scores in the tempFactor field (low numbers = high conservation)
• protein sequences (2 folders, all formatted for DNA Strider 1.5a12)
DALI results for domains predicted by ColabFold
• trees - phylogeny work in iTOL and Phyml (not included in paper
Pairwise comparisons of RBG domains by HHpred
No full textPairwise searches between one RBG domain and another, typically RBG2 or the penultimate domain of VPS13A or VPS13
HHpred searches with RBG domains
No full textHHblits outputs and HHpred searches with RBG domains of VPS13, ATG2, SHIP164, Hobbit and Tweek excluding pairwise searches between RBG domains o
sj-docx-2-ctc-10.1177_25152564221134328 - Supplemental material for Sequence Analysis and Structural Predictions of Lipid Transfer Bridges in the Repeating Beta Groove (RBG) Superfamily Reveal Past and Present Domain Variations Affecting Form, Function and Interactions of VPS13, ATG2, SHIP164, Hobbit and Tweek
No full textSupplemental material, sj-docx-2-ctc-10.1177_25152564221134328 for Sequence Analysis and Structural Predictions of Lipid Transfer Bridges in the Repeating Beta Groove (RBG) Superfamily Reveal Past and Present Domain Variations Affecting Form, Function and Interactions of VPS13, ATG2, SHIP164, Hobbit and Tweek by Tim P Levine in Contact</p
sj-docx-1-ctc-10.1177_25152564221134328 - Supplemental material for Sequence Analysis and Structural Predictions of Lipid Transfer Bridges in the Repeating Beta Groove (RBG) Superfamily Reveal Past and Present Domain Variations Affecting Form, Function and Interactions of VPS13, ATG2, SHIP164, Hobbit and Tweek
No full textSupplemental material, sj-docx-1-ctc-10.1177_25152564221134328 for Sequence Analysis and Structural Predictions of Lipid Transfer Bridges in the Repeating Beta Groove (RBG) Superfamily Reveal Past and Present Domain Variations Affecting Form, Function and Interactions of VPS13, ATG2, SHIP164, Hobbit and Tweek by Tim P Levine in Contact</p
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