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Five Ca2+-binding sites, none of which adopt an EF-hand motif, were identified in the structure of a Ca2+-bound inactive mutant with and without bound substrate.
In both the silk gland and BmE cells, 21 types of zinc finger domain TF-binding motif, 20 types of homeobox TF- binding motif, 16 types of the basic helix-loop-helix domain TF-binding motif, 9 types of basic leucine zipper domain TF-binding motif, and 3 types of FOX TF-binding motif were identified.
Sites matching a known E2F1 motif were identified as the most enriched in predicted E2F1 targets and the second most enriched in JUND targets.
Interestingly, only half of the genes that have the cc_3 motif were identified as part of the hypoxia-induced FixK regulon by Crosson et al., suggesting that FixK might activate different sets of genes in response to different environmental stimuli or that additional regulatory pathways or factors are involved in these responses.
Common motifs such as CACGTG (G-box/ABRE), ACGTG (ABRELATERD1) and CACG (NAC core motif), were identified in the promoter regions (2 kb 5'-upstream from the ATG) of the genes with similar diurnal pattern peaks in the day time (from phase 8 to phase 18).
A total of 521 contigs containing an SSR motif were identified from the 3,195 L. perenne contigs.
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The REST motif was identified as enriched in RMER21A TEs, and ChIP-seq data indicated REST was binding to RMER21A (Supplementary Figure 2c).
Consistently, a significant motif was identified with score 131.
A cyclic motif was identified, and the corresponding peptide (designated collagelin) was synthesized.
A statistically significant two-block SoxS motif was identified through analysis of the SoxS-regulated genes.
From the SoxS dependent network the first statistically significant SoxS-related motif was identified.
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