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Journal: Structure (London, England : 1993)
Article Title: The kinetoplastid kinetochore protein KKT23 acetyltransferase is a structural homolog of GCN5 that acetylates the histone H2A C-terminal tail.
doi: 10.1016/j.str.2024.10.031
Figure Lengend Snippet: Figure 3. NMR analysis of KKT23125–348 structure and dynamics (A) The TALOS-N secondary structure analysis of KKT23125348 shows a mixed a/b topology. The secondary structure elements for which the probability was lower than 0.5 are not shown in the figure. See also Data S2. (B) The secondary structure elements identified using TALOS-N (A) are highlighted in the crystal structure of KKT23125348 showing a good agreement between the two methods. The b-strands and a-helices are colored in red and blue, respectively. See also Figure S4 and Data S2. (C) The {1H}-15N heteronuclear NOE ratios were measured and plotted against the sequence of KKT23125348. Most of the residues display hetNOE ratios >0.7 indicating a rigid conformation of the protein backbone. The regions with higher flexibility (ratios < 0.7) include 126–128, 137–143, and 192–201. The regions between 126–128 and 137–143 are coils according to the crystal structure, whereas no electron density is visible for residues 192–200 suggesting that all three regions are part of flexible loops. The {1H}-15N hetNOE errors were estimated from 500 Monte Carlo simulations using baseline noise as a measure of peak height error.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER ASTRA Wyatt Technology https://store.wyatt.com/shop/ viscostar/viscostar-iii/astra-software/ BUCCANEER (Cowtan et al.)49 http://www.ccp4.ac.uk/ CCPNmr (Vranken et al.)50 https://www.ccpn.ac.uk COOT (Emsley et al.)51 http://www2.mrc-lmb.cam.ac.uk/ Personal/pemsley/coot/ CRANK2 (Skubak et al.)52 http://www.ccp4.ac.uk/ DALI server (Holm)19 http://ekhidna2.biocenter.helsinki.fi/dali/ Diffraction Anisotropy Server (Strong et al.)53 http://services.mbi.ucla.edu/anisoscale/ DisEMBL (Linding et al.)54 http://dis.embl.de Foldseek (van Kempen et al.)20 https://github.com/steineggerlab/foldseek HMMER web server (Potter et al.)55 https://www.ebi.ac.uk/Tools/hmmer/ ImageJ (Schneider et al.)56 https://imagej.net Jalview (Waterhouse et al.)57 http://www.jalview.org/ MAFFT (Katoh et al.)58 https://mafft.cbrc.jp/alignment/server/ MaxQuant (Cox and Mann)59 https://www.maxquant.org/ NMRPipe (Delaglio et al.)60 https://spin.niddk.nih.gov/NMRPipe/ PHASER (McCoy et al.)61 http://www.ccp4.ac.uk/ PHENIX (Liebschner et al.)62 http://www.phenix-online.org/ pLink2 (Chen et al.)63 https://www.cog-genomics.org/plink/2.0/ PRIDE database (Perez-Riverol et al.)64 http://www.proteomexchange.org PyMOL (DeLano et al.)14 http://www.pymol.org/ SEDFIT (Schuck et al.)65 https://sedfitsedphat.github.io/ SEDNTERP (Hayes)66 http://www.jphilo.mailway.com/index.htm
Techniques: Sequencing