Sequence logos (weblogo.berkeley.edu) showing amino-acid residue conservation in eukaryotic annexins (upper logo), and bacterial annexins (lower logo).Praveen, Kumar KodavaliMałgorzata, DudkiewiczSławomir, PikułaKrzysztof, Pawłowski
An example for amino acid recognition in AlaRSs is given in Fig. 4B. The structure of bacterial Escherichia coli AlaRS forms the whole array of observed interactions. Sequence logos of the remaining aaRSs are given in SI Appendix Figs. S4–S24. Based on the interactions between binding site...
Seq2Logois a web-based sequence logo generator. Sequence logos are a graphical representation of the information content stored in a multiple sequence alignment (MSA) and provide a compact and highly intuitive representation of the position-specific amino acid composition of binding motifs, active sit...
Genome sequence of the oleaginous yeast Rhodotorula glutinis ATCC 204091. Genome Announc. 2014;2:1–2. Pollegioni L, Molla G, Campaner S, Martegani E, Pilone MS. Cloning, sequencing and expression in E. coli of a d-amino acid oxidase cDNA from Rhodotorula gracilis active on cephalosporin C...
Empirical distribution mixture models assume that evolution occurs along a species tree according to a mixture of amino acid substitution models. The transition rate matrices of the different components share one set of exchangeabilities but differ in their stationary distributions. EDCluster is a Python...
Protein post-translational modification (PTM) regulates nearly every aspect of cellular processes in eukaryotes. However, the identification of new protein PTMs is very challenging. Here, using genetically encoded unnatural amino acids as chemical probes
Plot stacked logos for single or multiple DNA, RNA and amino acid sequenceJianhong OuLihua Julie Zhu
A new method has been developed to compute the probability that each amino acid in a protein sequence is in a particular secondary structural element. Each... CM Stultz,JV White,TF Smith - 《Protein Science》 被引量: 128发表: 1993年 Integrated droplet analysis system with electrospray ionizatio...
aFive AEP motifs of PP-N190 close homologues. In addition to previous motif classifications19,37, the steric gate tyrosine is included as motif 0, and motifs 1 and 2 are extended. Numbers on top of the sequence blocks indicate their amino acid range according to S-2L PrimPol. Residues cons...
we hypothesize that the amino acid substitutions across the HLA-DRB1 profiles might alter the epitope binding repertoires of the different HLA alleles. To explore this hypothesis, we visualized the binding cores of strong-binding epitopes, using consensus sequence logos to identify binding motifs within...