Primary Citation PubMed: 15297877
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N-termini of fungal CSL transcription factors are disordered, enriched in regulatory motifs and inhibit DNA binding in fission yeast.
(2011) PLoS One 6
PubMed: 21858190 | PubMedCentral: PMC3155561 | DOI: 10.1371/journal.pone.0023650
The prediction results were in good agreement with the published C. elegans LAG1 crystal structure  (Entrez Structure:1TTU), showing a high prevalence of β-strands and several α-he... ices in the portion of the protein covered by the crystallographic study (data not shown).
Publication Year: 2011
Hyaline fibromatosis syndrome inducing mutations in the ectodomain of anthrax toxin receptor 2 can be rescued by proteasome inhibitors.
(2011) EMBO Mol Med 3
PubMed: 21328543 | PubMedCentral: PMC3377065 | DOI: 10.1002/emmm.201100124
We then used CDD (Marchler-Bauer et al, 2009 ) to gather a representative set of structures containing an Ig-like fold domain (2cxk, 2as5, 1vkx, 1imh, 1ttu, 1cyg, 1clu, 7cgt, 1qhp, 1uad, 2uzx, 1gji, 2... 2t, 1a3q, 2yrp, 1kcl and 1nfk), which were structurally superposed using Swiss-PdbViewer (Guex & Peitsch, 1997 ).
Dissecting and circumventing the requirement for RAM in CSL-dependent Notch signaling.
(2012) PLoS One 7
PubMed: 22876274 | PubMedCentral: PMC3410904 | DOI: 10.1371/journal.pone.0039093
The NTD-loop rearrangement is presumably required to bind MAML (red) without steric clash, as modeled here by structural alignment of worm CSL:DNA, RAM:CSL:DNA, and RAMANK:CSL:MAML:DNA, PDB codes 1TTU... (apo, purple), 3BRD (holo, wheat), and 2FO1 (MAML, red), respectively.
Publication Year: 2012
Understanding the folding-function tradeoff in proteins.
(2013) PLoS One 8
PubMed: 23593437 | PubMedCentral: PMC3625163 | DOI: 10.1371/journal.pone.0061222
The pdb IDs of the proteins, the total number of residues and the number of calculated contacts (if a specific chain or a specific set of residues from the pdb file are used, then this information is ... ppended at the end) are: 2AFG (129∶374:chain-A), 6I1B (153∶430), 1T9F (178∶532), 1SR4 (154∶367:chain-C), 1DQG (134∶388), 1UPS (131∶380: chain-A:290–420), 1JLY (153∶457:chain-A:1–153), 1WBA (171∶499), 1DFQ (193∶528: 1123–1315), 1DFC (119∶347:chain-A:1141–1259), 1HCD (118∶324), 1TTU (161∶428: chain-A:381–541), 1WD4 (162∶481:338–499).
Publication Year: 2013
A combination of computational and experimental approaches identifies DNA sequence constraints associated with target site binding specificity of the transcription factor CSL.
(2014) Nucleic Acids Res 42
PubMed: 25114055 | PubMedCentral: PMC4176381 | DOI: 10.1093/nar/gku730
Secondly, the FOLDX calculation using the Lag-1 (the CSL homologue in Caenorhabditis elegans ) structure (PDB ID 1TTU) bound to the consensus DNA sequence TGTGGGAA ( 15 ) also yielded a preference for... cytosine in position 1 (Supplementary Table S5).
Publication Year: 2014
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