However, there are also important differences: 1) SAP116 Sand16, and SAP126 are type 2 membrane proteins, whereas integrins are type 1 membrane proteins, 2) SAPs do not contain any protein domains known to be present in animal integrins, and 3) the cytosolic domain of integrins is longer and contains several conserved binding motifs, for example, for filamin and talin (Anthis and Campbell 2011).
For example, in mESC ChIP-seq data for the TF Esrrb, we discover the binding motifs for eight cofactor TFs important in the maintenance of pluripotency.
For example, IBD-associated risk variant rs10797432, located within the IBD loci-associated lncRNA RP3-395 M20.8 (ENSG00000238164), alters the binding motifs for TFAP2A and CTCF.
KorA carried a binding motif for coenzyme A, and KorB carried binding motifs for Fe-S cluster and thiamine pyrophosphate.
Besides the HABMs and USP domain [27, 28], we identified binding motifs for TRAF2 and TRAF3 in USP17.
Sequence analysis of the promoter region reveals a GC-rich sequence without a TATA motif and with putative binding motifs for CREB, c-myb, and AP-1 factors.
This 357 bp segment contains a total of 43 CpG sites, and several transcription factor-binding motifs including, for example, four GGGCGG Sp1 sites.
A high-scoring example was a binding motif for interferon regulatory factor (IRF) family members.
For example, desulfoferredoxin (Dfx) possesses a binding motif for the Dx-type [FeCys4] center associated with another nonheme monoiron center with N/O ligands (see section 3.4.2.4).
For example, in addition to the cases described above (table 2), there were several cases where the motif identified by MEME was not the binding motif for the factor known to regulate these genes.
For example, Waki et al. performed computational motif analysis of the adipocyte-specific FAIRE peaks (open chromatin sites) and discovered an enrichment of a binding motif for nuclear family I (NFI) transcription factors [ 12].
