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PDB ID Mentions in PubMed Central Article count: 1

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PDB ID Mentions in PubMed Central

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Structural and biochemical characterization of the Cop9 signalosome CSN5/CSN6 heterodimer.

(2014) PLoS One 9

PubMed: 25144743 | PubMedCentral: PMC4140821 | DOI: 10.1371/journal.pone.0105688

Two docking pairs of protein models were used for docking simulations: (i) the CSN5 ΔC (chain A, PDB code: 4F7O), with Ins-1 segment (residues 98–132) fitted to the corresponding ubiqu... tin-liganded AMSH-LP Ins-1 structure (AMSH-LP structure corresponds to the MPN domain: residues 264–436; PDB code 2ZNV) using MODELLER9 program, followed by manual fitting (to avoid steric clash with the C-terminal LRGG residues of ubiquitin from AMSH-LP distal ubiquitin), combined with the 38–191 CSN6 fragment (α4 deletion; referred to as CSN6 ΔC,Δα4 ); and (ii) the same CSN5 ΔC model with the N- and C-terminal appending segments removed (residues 2–31 and 232–257; referred to as CSN5 ΔC,Δ2–31,Δ232–257 ) combined with CSN6 ΔC,Δα4 (residues 38–207).

To the individual subunit models of the initial CSN model, were substituted updated models of the following subunits generated by Phyre [41] : CSN1 (modelled on a partial crystal structure of the Arabidopsis thaliana ( At ) protein; PDB code 4LCT; [42] ); CSN5 (modelled on the CSN5 ΔC crystal structure; PDB code 4F7O; [19] ); CSN6 (modelled on the CSN6 ΔC crystal structure; this work); CSN7 (modelled on a partial crystal structure of the At protein; PDB code 3CHM; [43] ); CSN8 (modelled on the crystal structure of eIF3k; PDB code 1RZ4; [44] ).

Publication Year: 2014